Alignment of J4_70449.12 sequences from 3D to the JAR3D model

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The correspondence between sequences from 3D structures and the motif group is shown in blue and the JAR3D alignment of the sequences to the motif group is shown in black. Occasionally the two disagree, in which case the JAR3D alignment is shown in red.

Column number: Node in JAR3D model: Insertion positions indicated by I: Position in motif group:	2 2 1	3 2 I	4 3 2	6 7 3	8 8	10 7 4	12 12 5	14 13 6	16 14	18 13 7	20 12 8	22 16 9	24 18 10	25 19 I	26 20 11	28 21	30 20 12	32 2 13	In acceptance region	Cutoff score	Full edit distance	Interior edit distance	Alignment score deficit
J4_70449.12_Instance_1 J4_70449.12,J4_3WQY_001,G1607_C1666	G	U	A	G		C	G	C		G	A	G	G	CC	G		C	C
J4_70449.12_Sequence_1 J4_70449.123WQY_G_1607_C_1666	G	U	A	G	*	C	G	C	*	G	A	G	G	CC	G	*	C	C	true	100	0	0	0.00
J4_70449.12_Instance_2 J4_70449.12,J4_6UGG_002,G6_C66	G	U	A	G		U	A	C		G	G	G	G	UC	G		U	C
J4_70449.12_Sequence_2 J4_70449.126UGG_G6_C66	G	U	A	G	*	U	A	C	*	G	G	G	G	UC	G	*	U	C	true	84	0	0	2.85
J4_70449.12_Instance_3 J4_70449.12,J4_6JXM_001,G7_C87	G	U	A	G		C	A	C		G	G	G	G	UC	G		U	C
J4_70449.12_Sequence_3 J4_70449.126JXM_G7_C87	G	U	A	G	*	C	A	C	*	G	G	G	G	UC	G	*	U	C	true	96	0	0	0.77
J4_70449.12_Instance_4 J4_70449.12,J4_6UFM_001,A7_U67	A	U	A	G		C	G	C		G	A	G	G	UC	G		C	U
J4_70449.12_Sequence_4 J4_70449.126UFM_A7_U67	A	U	A	G	*	C	G	C	*	G	A	G	G	UC	G	*	C	U	true	98	0	0	0.43
J4_70449.12_Instance_5 J4_70449.12,J4_5AXM_001,U7_A66	U	U	A	G		C	G	C		G	A	G	G	UC	C		G	A
J4_70449.12_Sequence_5 J4_70449.125AXM_U7_A66	U	U	A	G	*	C	G	C	*	G	A	G	G	UC	C	*	G	A	true	96	0	0	0.68
J4_70449.12_Instance_6 J4_70449.12,J4_7MRL_001,A7_U69	A	U	A	G		C	A	U		A	G	G	G	UC	C		G	U
J4_70449.12_Sequence_6 J4_70449.127MRL_A7_U69	A	U	A	G	*	C	A	U	*	A	G	G	G	UC	C	*	G	U	true	95	0	0	0.84
J4_70449.12_Instance_7 J4_70449.12,J4_1GAX_004,C907_G965	C	U	A	G		C	G	C		G	A	G	G	UC	G		C	G
J4_70449.12_Sequence_7 J4_70449.121GAX_C907_G965	C	U	A	G	*	C	G	C	*	G	A	G	G	UC	G	*	C	G	true	96	0	0	0.79
J4_70449.12_Instance_8 J4_70449.12,J4_1YFG_001,G7_C66	G	U	G	G		C	G	C		G	A	U	G	UC	C		G	C
J4_70449.12_Sequence_8 J4_70449.121YFG_G7_C66	G	U	G	G	*	C	G	C	*	G	A	U	G	UC	C	*	G	C	true	83	0	0	3.10
J4_70449.12_Instance_9 J4_70449.12,J4_3TUP_001,G7_C66	G	U	A	G		C	A	U		A	G	U	G	UC	G		U	C
J4_70449.12_Sequence_9 J4_70449.123TUP_G7_C66	G	U	A	G	*	C	A	U	*	A	G	U	G	UC	G	*	U	C	true	84	0	0	2.97
J4_70449.12_Instance_10 J4_70449.12,J4_4V9Q_031,G7_C66	G	U	G	G		C	G	U		A	A	G	G	UC	G		C	C
J4_70449.12_Sequence_10 J4_70449.124V9Q_G7_C66	G	U	G	G	*	C	G	U	*	A	A	G	G	UC	G	*	C	C	true	94	0	0	1.08
J4_70449.12_Instance_11 J4_70449.12,J4_7K98_001,G7_C67	G	U	A	G		C	G	U		A	A	G	G	UC	G		C	C
J4_70449.12_Sequence_11 J4_70449.127K98_G7_C67	G	U	A	G	*	C	G	U	*	A	A	G	G	UC	G	*	C	C	true	99	0	0	0.21
J4_70449.12_Instance_12 J4_70449.12,J4_5E81_027,G7_C67	G	U	G	G		C	G	U		A	A	G	G	UC	G		C	C
J4_70449.12_Sequence_12 J4_70449.125E81_G7_C67	G	U	G	G	*	C	G	U	*	A	A	G	G	UC	G	*	C	C	true	94	0	0	1.08
J4_70449.12_Instance_13 J4_70449.12,J4_4WJ4_001,A7_U66	A	U	A	G		C	A	A		U	G	G	G	UC	C		G	U
J4_70449.12_Sequence_13 J4_70449.124WJ4_A7_U66	A	U	A	G	*	C	A	A	*	U	G	G	G	UC	C	*	G	U	true	93	0	0	1.32
J4_70449.12_Instance_14 J4_70449.12,J4_2AZX_002,G507_C566	G	U	G	G		C	G	U		A	A	G	G	UU	G		U	C
J4_70449.12_Sequence_14 J4_70449.122AZX_G507_C566	G	U	G	G	*	C	G	U	*	A	A	G	G	UU	G	*	U	C	true	90	0	0	1.75
J4_70449.12_Instance_15 J4_70449.12,J4_6CFJ_015,G7_C66	G	U	G	G		C	G	U		A	A	G	G	UC	G		C	C
J4_70449.12_Sequence_15 J4_70449.126CFJ_G7_C66	G	U	G	G	*	C	G	U	*	A	A	G	G	UC	G	*	C	C	true	94	0	0	1.08
J4_70449.12_Instance_16 J4_70449.12,J4_1QU2_001,G7_C66	G	U	A	G		C	G	C		G	A	G	G	UC	G		U	C
J4_70449.12_Sequence_16 J4_70449.121QU2_G7_C66	G	U	A	G	*	C	G	C	*	G	A	G	G	UC	G	*	U	C	true	96	0	0	0.67
J4_70449.12_Instance_17 J4_70449.12,J4_1FIR_001,A7_U66	A	U	A	G		C	A	U		A	G	G	G	UC	C		G	U
J4_70449.12_Sequence_17 J4_70449.121FIR_A7_U66	A	U	A	G	*	C	A	U	*	A	G	G	G	UC	C	*	G	U	true	95	0	0	0.84
J4_70449.12_Instance_18 J4_70449.12,J4_6GSL_033,G7_C67	G	U	A	G		U	A	C		G	C	G	G	UC	G		C	C
J4_70449.12_Sequence_18 J4_70449.126GSL_G7_C67	G	U	A	G	*	U	A	C	*	G	C	G	G	UC	G	*	C	C	true	73	0	0	4.95
J4_70449.12_Instance_19 J4_70449.12,J4_4RDX_003,G7_C66	G	U	A	G		C	A	C		G	G	G	G	UC	G		U	C
J4_70449.12_Sequence_19 J4_70449.124RDX_G7_C66	G	U	A	G	*	C	A	C	*	G	G	G	G	UC	G	*	U	C	true	96	0	0	0.77
J4_70449.12_Instance_20 J4_70449.12,J4_4WT8_034,G7_C67	G	U	G	G		C	G	U		A	A	G	G	UC	G		C	C
J4_70449.12_Sequence_20 J4_70449.124WT8_G7_C67	G	U	G	G	*	C	G	U	*	A	A	G	G	UC	G	*	C	C	true	94	0	0	1.08
J4_70449.12_Instance_21 J4_70449.12,J4_1H4S_001,G7_C66	G	U	A	G		C	A	C		G	G	G	G	GC	G		U	C
J4_70449.12_Sequence_21 J4_70449.121H4S_G7_C66	G	U	A	G	*	C	A	C	*	G	G	G	G	GC	G	*	U	C	true	78	0	0	4.02
J4_70449.12_Instance_22 J4_70449.12,J4_2ZUE_001,G907_C966	G	U	A	G		C	G	G		C	A	G	G	UC	C		G	C
J4_70449.12_Sequence_22 J4_70449.122ZUE_G907_C966	G	U	A	G	*	C	G	G	*	C	A	G	G	UC	C	*	G	C	true	96	0	0	0.65
J4_70449.12_Instance_23 J4_70449.12,J4_2DER_002,U7_A66	U	U	C	G		C	A	C		G	U	A	A	C	A		U	A
J4_70449.12_Sequence_23 J4_70449.122DER_U7_A66	U	U	C	G	*	C	A	C	*	G	U	A	A	C	A	*	U	A	true	50	0	0	9.12
J4_70449.12_Instance_24 J4_70449.12,J4_3KFU_002,G7_C66	G	U	A	G		C	A	G		U	A	G	G	UC	G		C	C
J4_70449.12_Sequence_24 J4_70449.123KFU_G7_C66	G	U	A	G	*	C	A	G	*	U	A	G	G	UC	G	*	C	C	true	79	0	0	3.79
J4_70449.12_Instance_25 J4_70449.12,J4_4V9K_004,G7_C66	G	U	A	G		C	A	C		G	G	G	G	UC	A		U	C
J4_70449.12_Sequence_25 J4_70449.124V9K_G7_C66	G	U	A	G	*	C	A	C	*	G	G	G	G	UC	A	*	U	C	true	97	0	0	0.61
J4_70449.12_Instance_26 J4_70449.12,J4_3AMU_002,G7_C66	G	U	A	G		C	G	C		G	C	G	G	UC	G		C	C
J4_70449.12_Sequence_26 J4_70449.123AMU_G7_C66	G	U	A	G	*	C	G	C	*	G	C	G	G	UC	G	*	C	C	true	88	0	0	2.16
J4_70449.12_Instance_27 J4_70449.12,J4_1J1U_001,G507_C567	G	U	A	G		C	G	G		C	A	U	G	UC	G		C	C
J4_70449.12_Sequence_27 J4_70449.121J1U_G507_C567	G	U	A	G	*	C	G	G	*	C	A	U	G	UC	G	*	C	C	true	86	0	0	2.55
J4_70449.12_Instance_28 J4_70449.12,J4_5L4O_001,G7_C66	G	U	G	G		C	G	U		A	A	G	A	UC	G		C	C
J4_70449.12_Sequence_28 J4_70449.125L4O_G7_C66	G	U	G	G	*	C	G	U	*	A	A	G	A	UC	G	*	C	C	true	86	0	0	2.64
J4_70449.12_Instance_29 J4_70449.12,J4_6NWY_004,U7_A66	U	U	G	G		C	A	C		G	G	G	G	UC	G		U	A
J4_70449.12_Sequence_29 J4_70449.126NWY_U7_A66	U	U	G	G	*	C	A	C	*	G	G	G	G	UC	G	*	U	A	true	88	0	0	2.14
J4_70449.12_Instance_30 J4_70449.12,J4_5E81_030,U7_A66	U	U	A	G		C	A	G		U	U	G	G	UC	G		C	A
J4_70449.12_Sequence_30 J4_70449.125E81_U7_A66	U	U	A	G	*	C	A	G	*	U	U	G	G	UC	G	*	C	A	true	81	0	0	3.46
J4_70449.12_Instance_31 J4_70449.12,J4_4TUE_004,G6_C66	G	U	G	G		C	G	U		A	A	G	G	UC	G		C	C
J4_70449.12_Sequence_31 J4_70449.124TUE_G6_C66	G	U	G	G	*	C	G	U	*	A	A	G	G	UC	G	*	C	C	true	94	0	0	1.08
J4_70449.12_Instance_32 J4_70449.12,J4_7LYF_001,A7_U129	A	U	A	G		C	A	G		C	G	G	G	UC	C		G	U
J4_70449.12_Sequence_32 J4_70449.127LYF_A7_U129	A	U	A	G	*	C	A	G	*	C	G	G	G	UC	C	*	G	U	true	94	0	0	1.15
J4_70449.12_Instance_33 J4_70449.12,J4_1IL2_001,A907_U966	A	U	A	G		U	G	G		C	A	G	A	U	C		G	U
J4_70449.12_Sequence_33 J4_70449.121IL2_A907_U966	A	U	A	G	*	U	G	G	*	C	A	G	A	U	C	*	G	U	true	67	0	0	5.97
J4_70449.12_Instance_34 J4_70449.12,J4_4MGN_001,G7_C65	G	U	A	G		C	A	C		G	G	G	G	UC	G		U	C
J4_70449.12_Sequence_34 J4_70449.124MGN_G7_C65	G	U	A	G	*	C	A	C	*	G	G	G	G	UC	G	*	U	C	true	96	0	0	0.77
J4_70449.12_Instance_35 J4_70449.12,J4_1F7U_001,G907_C966	G	U	G	G		C	G	U		A	A	G	A	UU	C		G	C
J4_70449.12_Sequence_35 J4_70449.121F7U_G907_C966	G	U	G	G	*	C	G	U	*	A	A	G	A	UU	C	*	G	C	true	85	0	0	2.83
J4_70449.12_Instance_36 J4_70449.12,J4_3EPH_001,A7_U66	A	U	G	G		C	A	G		U	U	G	G	UC	C		G	U
J4_70449.12_Sequence_36 J4_70449.123EPH_A7_U66	A	U	G	G	*	C	A	G	*	U	U	G	G	UC	C	*	G	U	true	76	0	0	4.36
J4_70449.12_Instance_37 J4_70449.12,J4_1N78_001,A507_U566	A	U	C	G		C	G	C		G	A	A	A	C	G		C	U
J4_70449.12_Sequence_37 J4_70449.121N78_A507_U566	A	U	C	G	*	C	G	C	*	G	A	A	A	C	G	*	C	U	true	61	0	0	7.08
J4_70449.12_Instance_38 J4_70449.12,J4_5HR6_001,U6_A65	U	U	C	G		C	A	C		G	U	A	A	C	A		U	A
J4_70449.12_Sequence_38 J4_70449.125HR6_U6_A65	U	U	C	G	*	C	A	C	*	G	U	A	A	C	A	*	U	A	true	50	0	0	9.12
J4_70449.12_Instance_39 J4_70449.12,J4_5HR7_002,U7_A65	U	U	C	G		C	A	C		G	U	A	A	C	A		U	A
J4_70449.12_Sequence_39 J4_70449.125HR7_U7_A65	U	U	C	G	*	C	A	C	*	G	U	A	A	C	A	*	U	A	true	50	0	0	9.12
J4_70449.12_Instance_40 J4_70449.12,J4_3FOZ_002,A7_U66	A	U	A	G		C	A	G		C	G	U	G	UC	C		G	U
J4_70449.12_Sequence_40 J4_70449.123FOZ_A7_U66	A	U	A	G	*	C	A	G	*	C	G	U	G	UC	C	*	G	U	true	83	0	0	3.18
J4_70449.12_Instance_41 J4_70449.12,J4_5EL4_030,U7_A66	U	U	A	G		C	A	G		U	U	G	G	UC	G		C	A
J4_70449.12_Sequence_41 J4_70449.125EL4_U7_A66	U	U	A	G	*	C	A	G	*	U	U	G	G	UC	G	*	C	A	true	81	0	0	3.46
J4_70449.12_Instance_42 J4_70449.12,J4_5CCB_001,A7_U66	A	U	A	G		C	A	U		A	G	G	G	UC	C		G	U
J4_70449.12_Sequence_42 J4_70449.125CCB_A7_U66	A	U	A	G	*	C	A	U	*	A	G	G	G	UC	C	*	G	U	true	95	0	0	0.84

Conserved interactions between motif group positions in J4_70449.12:

JAR3D SCFG/MRF model for J4_70449.12:

Character Definition | A,C,G,U,* // Identity and order of characters in matrices
InitialNode  | Left Length Distribution [0.999900000,0.000100000] | Left Letter Distribution [0.000000000,0.000000000,0.000000000,0.000000000,0.000000000] | Right Length Distribution [0.999900000,0.000100000] | Right Letter Distribution [0.000000000,0.000000000,0.000000000,0.000000000,0.000000000] | Left Index [1] | Right Index [13] // Initial node
BasepairNode | Deletion Probability [0.0000001235915314] | Pair Probability [[0.006827617,0.014478104,0.007619140,0.214869299,0.000000000],[0.012999795,0.006899430,0.150740932,0.008782353,0.000000000],[0.007569733,0.315162803,0.001487137,0.023247602,0.000000000],[0.192315359,0.009014632,0.020403769,0.007582297,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.001187578,0.997565465,0.001187578,0.000059379] | Left Letter Distribution [0.011363636,0.011363636,0.011363636,0.965909091,0.000000000] | Right Length Distribution [0.997990020,0.001999980,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [13] // Basepair G1607 - C1666 cWW 
FixedNode    | Deletion Probability [0.0050000000000000] | Letter Distribution [0.625000000,0.102272727,0.261363636,0.011363636,0.000000000] | Position [1] | Left Index [2] | Right Index [12] // Fixed node on left for 3WQY|1|C|U|1608
InitialNode  | Left Length Distribution [0.997990020,0.001999980,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [12] // New Initial node after Fixed node
JunctionNode | Branches [2]  | Left Index [3] | Right Index [12] // Junction node G1610 - C1665 ID J5688
InitialNode  | Left Length Distribution [1.000000000] | Left Letter Distribution [0.000000000,0.000000000,0.000000000,0.000000000,0.000000000] | Right Length Distribution [0.997990020,0.001999980,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [4] // Initial node
BasepairNode | Deletion Probability [0.0000224863733088] | Pair Probability [[0.007188231,0.024194877,0.008055457,0.140178343,0.000000000],[0.012133456,0.006952898,0.139658006,0.009557994,0.000000000],[0.007960833,0.418507679,0.001537475,0.052424084,0.000000000],[0.136744207,0.009947668,0.016494390,0.008464403,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.990049834,0.009900498,0.000049502,0.000000165] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.990049834,0.009900498,0.000049502,0.000000165] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [4] // Basepair G1610 - C1625 cWW 
HairpinNode  | Num Bases [1] | Left Index [4] | Right Index [4] | Norm Constant [1.000000000000000] // Hairpin node type *
Interaction  | Interacting Bases [1,1] | Pair Probability [[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,1.000000000]] // Hairpin for truncation
InitialNode  | Left Length Distribution [1.000000000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [5] | Right Index [12] // Initial node 3WQY|1|C|G|1626 - 3WQY|1|C|C|1665 from node 
JunctionNode | Branches [2]  | Left Index [5] | Right Index [12] // Junction node G1626 - C1665 ID J4693
InitialNode  | Left Length Distribution [1.000000000] | Left Letter Distribution [0.000000000,0.000000000,0.000000000,0.000000000,0.000000000] | Right Length Distribution [0.997990020,0.001999980,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [5] | Right Index [8] // Initial node
BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.034282312,0.020247356,0.307141175,0.078126964,0.000000000],[0.010701050,0.007030198,0.033970117,0.027055609,0.000000000],[0.341904666,0.041352501,0.002425493,0.015209145,0.000000000],[0.033160521,0.026911338,0.012124322,0.008357232,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.997990020,0.001999980,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.997990020,0.001999980,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [5] | Right Index [8] // Basepair G1626 - A1644 cWW 
BasepairNode | Deletion Probability [0.0000224863733088] | Pair Probability [[0.007055951,0.028000357,0.007779032,0.142314765,0.000000000],[0.014108647,0.007098346,0.270079298,0.009202953,0.000000000],[0.007797254,0.169797708,0.001542864,0.063952490,0.000000000],[0.229914342,0.009024441,0.023366175,0.008965377,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.990049834,0.009900498,0.000049502,0.000000165] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.990049834,0.009900498,0.000049502,0.000000165] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [6] | Right Index [7] // Basepair C1627 - G1643 cWW 
HairpinNode  | Num Bases [1] | Left Index [7] | Right Index [7] | Norm Constant [1.000000000000000] // Hairpin node type *
Interaction  | Interacting Bases [1,1] | Pair Probability [[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,1.000000000]] // Hairpin for truncation
InitialNode  | Left Length Distribution [1.000000000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [9] | Right Index [12] // Initial node 3WQY|1|C|G|1645 - 3WQY|1|C|C|1665 from node 
FixedNode    | Deletion Probability [0.0050000000000000] | Letter Distribution [0.102272727,0.011363636,0.784090909,0.102272727,0.000000000] | Position [1] | Left Index [9] | Right Index [12] // Fixed node on left for 3WQY|1|C|A|1644
InitialNode  | Left Length Distribution [0.997990020,0.001999980,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [10] | Right Index [12] // New Initial node after Fixed node
FixedNode    | Deletion Probability [0.0050000000000000] | Letter Distribution [0.170454545,0.011363636,0.806818182,0.011363636,0.000000000] | Position [1] | Left Index [10] | Right Index [12] // Fixed node on left for 3WQY|1|C|G|1645
InitialNode  | Left Length Distribution [0.000141378,0.119803993,0.878949050,0.001053269,0.000052310] | Left Letter Distribution [0.006172840,0.500000000,0.018518519,0.475308642,0.000000000] | Right Length Distribution [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [11] | Right Index [12] // New Initial node after Fixed node
BasepairNode | Deletion Probability [0.0000224863733088] | Pair Probability [[0.007765833,0.055400972,0.008254935,0.153586664,0.000000000],[0.012215004,0.007301198,0.209733666,0.009476804,0.000000000],[0.008189173,0.241282288,0.001654456,0.130209495,0.000000000],[0.117242970,0.009801197,0.015844161,0.012041184,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.990049834,0.009900498,0.000049502,0.000000165] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.990049834,0.009900498,0.000049502,0.000000165] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [11] | Right Index [12] // Basepair G1649 - C1665 cWW 
HairpinNode  | Num Bases [1] | Left Index [12] | Right Index [12] | Norm Constant [1.000000000000000] // Hairpin node type *
Interaction  | Interacting Bases [1,1] | Pair Probability [[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,1.000000000]] // Hairpin for truncation

Sequences of instances from J4_70449.12:> J4_70449.12 3WQY G 1607 C 1666 GUAG*CGC*GAGGCCG*CC > J4_70449.12 6UGG G 6 C 66 GUAG*UAC*GGGGUCG*UC > J4_70449.12 6JXM G 7 C 87 GUAG*CAC*GGGGUCG*UC > J4_70449.12 6UFM A 7 U 67 AUAG*CGC*GAGGUCG*CU > J4_70449.12 5AXM U 7 A 66 UUAG*CGC*GAGGUCC*GA > J4_70449.12 7MRL A 7 U 69 AUAG*CAU*AGGGUCC*GU > J4_70449.12 1GAX C 907 G 965 CUAG*CGC*GAGGUCG*CG > J4_70449.12 1YFG G 7 C 66 GUGG*CGC*GAUGUCC*GC > J4_70449.12 3TUP G 7 C 66 GUAG*CAU*AGUGUCG*UC > J4_70449.12 4V9Q G 7 C 66 GUGG*CGU*AAGGUCG*CC > J4_70449.12 7K98 G 7 C 67 GUAG*CGU*AAGGUCG*CC > J4_70449.12 5E81 G 7 C 67 GUGG*CGU*AAGGUCG*CC > J4_70449.12 4WJ4 A 7 U 66 AUAG*CAA*UGGGUCC*GU > J4_70449.12 2AZX G 507 C 566 GUGG*CGU*AAGGUUG*UC > J4_70449.12 6CFJ G 7 C 66 GUGG*CGU*AAGGUCG*CC > J4_70449.12 1QU2 G 7 C 66 GUAG*CGC*GAGGUCG*UC > J4_70449.12 1FIR A 7 U 66 AUAG*CAU*AGGGUCC*GU > J4_70449.12 6GSL G 7 C 67 GUAG*UAC*GCGGUCG*CC > J4_70449.12 4RDX G 7 C 66 GUAG*CAC*GGGGUCG*UC > J4_70449.12 4WT8 G 7 C 67 GUGG*CGU*AAGGUCG*CC > J4_70449.12 1H4S G 7 C 66 GUAG*CAC*GGGGGCG*UC > J4_70449.12 2ZUE G 907 C 966 GUAG*CGG*CAGGUCC*GC > J4_70449.12 2DER U 7 A 66 UUCG*CAC*GUAACA*UA > J4_70449.12 3KFU G 7 C 66 GUAG*CAG*UAGGUCG*CC > J4_70449.12 4V9K G 7 C 66 GUAG*CAC*GGGGUCA*UC > J4_70449.12 3AMU G 7 C 66 GUAG*CGC*GCGGUCG*CC > J4_70449.12 1J1U G 507 C 567 GUAG*CGG*CAUGUCG*CC > J4_70449.12 5L4O G 7 C 66 GUGG*CGU*AAGAUCG*CC > J4_70449.12 6NWY U 7 A 66 UUGG*CAC*GGGGUCG*UA > J4_70449.12 5E81 U 7 A 66 UUAG*CAG*UUGGUCG*CA > J4_70449.12 4TUE G 6 C 66 GUGG*CGU*AAGGUCG*CC > J4_70449.12 7LYF A 7 U 129 AUAG*CAG*CGGGUCC*GU > J4_70449.12 1IL2 A 907 U 966 AUAG*UGG*CAGAUC*GU > J4_70449.12 4MGN G 7 C 65 GUAG*CAC*GGGGUCG*UC > J4_70449.12 1F7U G 907 C 966 GUGG*CGU*AAGAUUC*GC > J4_70449.12 3EPH A 7 U 66 AUGG*CAG*UUGGUCC*GU > J4_70449.12 1N78 A 507 U 566 AUCG*CGC*GAAACG*CU > J4_70449.12 5HR6 U 6 A 65 UUCG*CAC*GUAACA*UA > J4_70449.12 5HR7 U 7 A 65 UUCG*CAC*GUAACA*UA > J4_70449.12 3FOZ A 7 U 66 AUAG*CAG*CGUGUCC*GU > J4_70449.12 5EL4 U 7 A 66 UUAG*CAG*UUGGUCG*CA > J4_70449.12 5CCB A 7 U 66 AUAG*CAU*AGGGUCC*GU