genome.fa.s913.2.7.7.80.10.50.1000.5.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01000913.1 Hibiscus syriacus cultivar Beakdansim tig00001818_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1610646

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 813 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
912875--912932	17	3.4	17	76	4	55	41	3	1	53	1.28
913927--913986	17	3.2	19	74	11	61	55	0	0	45	0.99
916408--916460	20	2.5	22	76	11	58	28	24	15	32	1.95
923689--923728	12	3.3	12	85	0	62	45	2	0	52	1.14
926233--926291	14	4.2	14	95	0	100	37	11	37	13	1.82
929763--930194	83	5.2	82	81	7	403	34	16	19	29	1.94
929818--930195	166	2.3	166	84	1	481	35	16	19	28	1.94
931073--931124	26	2.0	27	92	3	88	57	19	1	21	1.50
931172--931246	32	2.3	32	95	0	132	54	21	6	17	1.65
934060--934090	14	2.2	14	100	0	62	58	0	0	41	0.98
934268--934332	8	8.2	8	73	10	53	67	4	0	27	1.10
934268--934311	15	2.9	15	86	3	61	72	4	0	22	1.02
934348--934372	12	2.1	12	100	0	50	60	8	0	32	1.26
940095--940135	22	1.9	22	85	5	57	51	7	4	36	1.51
941549--941598	19	2.7	18	84	9	64	24	22	28	26	1.99
948476--948521	6	7.7	6	97	0	65	0	41	0	58	0.98
948911--948957	14	3.3	14	82	11	51	68	0	4	27	1.08
949344--949444	47	2.1	47	80	8	116	55	7	1	34	1.40
950994--951025	16	2.0	16	93	0	55	53	12	0	34	1.39
952712--952750	14	3.0	13	88	7	53	28	7	10	53	1.62
953202--953351	58	2.6	57	74	10	144	38	6	8	46	1.61
954981--955140	80	2.0	80	100	0	320	41	7	18	32	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
968511--970092	789	2.0	790	94	0	2781	26	17	21	34	1.95
971803--971928	62	2.0	63	96	1	236	23	16	23	36	1.94
975573--975635	15	4.3	15	75	15	60	17	3	14	65	1.40
975589--975627	15	2.4	16	91	8	62	12	5	12	69	1.35
976524--976582	31	1.9	31	89	0	91	62	11	6	18	1.50
979568--979966	201	2.0	197	96	2	737	35	12	20	30	1.90
980484--980512	2	14.5	2	100	0	58	48	0	0	51	1.00
981687--981745	30	2.0	29	83	9	75	37	5	10	47	1.59
982894--982940	23	2.0	23	95	0	85	61	0	14	23	1.33
983450--983481	15	2.1	15	94	0	55	46	6	9	37	1.61
986877--986976	18	5.2	20	65	25	72	64	13	8	15	1.50
986883--986993	35	3.0	38	86	13	153	63	14	7	14	1.49
988545--988598	22	2.4	23	85	11	69	31	9	11	48	1.70
995110--995168	27	2.2	26	82	8	66	55	6	25	11	1.60
998682--998723	22	1.9	22	100	0	84	21	38	4	35	1.75
1001917--1001997	22	3.8	21	75	14	67	16	23	35	24	1.94
1001962--1001999	20	1.9	20	88	0	58	13	26	36	23	1.91
1011359--1011420	30	2.1	30	84	6	81	20	8	22	48	1.76
1018631--1018705	2	37.5	2	100	0	150	50	0	0	49	1.00
1019199--1019244	20	2.3	19	81	7	56	26	23	17	32	1.97
1021743--1022001	127	2.0	127	100	0	518	38	19	13	28	1.89
1026877--1026930	4	13.5	4	88	7	83	27	0	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1026878--1026971	17	4.8	19	73	19	61	27	1	2	69	1.07
1028884--1028946	30	2.1	30	100	0	126	38	12	6	42	1.68
1031457--1031558	37	2.8	37	92	3	161	33	22	17	26	1.96
1031943--1031977	2	17.5	2	100	0	70	48	0	0	51	1.00
1034953--1035013	23	2.6	24	86	2	88	37	18	1	42	1.60
1036347--1036385	18	2.2	18	100	0	78	17	51	20	10	1.74
1037711--1037746	18	2.0	18	88	0	54	52	0	16	30	1.44
1038874--1038980	24	4.5	24	72	0	88	22	12	16	48	1.79
1039139--1039164	2	13.0	2	100	0	52	50	0	0	50	1.00
1041113--1041151	18	2.2	18	100	0	78	17	51	20	10	1.74
1042478--1042513	18	2.0	18	88	0	54	52	0	16	30	1.44
1043639--1043745	24	4.5	24	72	0	88	22	12	16	48	1.79
1043906--1043932	2	13.5	2	100	0	54	48	0	0	51	1.00
1047892--1047925	16	2.1	16	94	0	59	38	20	2	38	1.68
1055758--1055782	2	12.5	2	100	0	50	48	0	0	52	1.00
1056196--1056221	2	13.0	2	100	0	52	50	0	0	50	1.00
1064371--1064410	21	1.9	21	84	0	53	12	20	7	60	1.56
1065602--1065638	19	1.9	19	94	0	65	32	18	18	29	1.96
1065851--1065912	31	2.0	31	81	6	72	48	0	16	35	1.46
1067785--1067829	2	22.5	2	100	0	90	51	0	0	48	1.00
1068874--1068971	35	2.6	36	82	7	108	45	3	2	48	1.29
1068889--1069054	87	1.9	85	86	4	235	45	6	3	45	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1068993--1069140	35	4.1	36	79	12	99	43	6	3	46	1.46
1069016--1069140	35	3.4	35	80	9	133	42	5	3	48	1.42
1069104--1069153	26	2.1	23	82	14	57	44	6	2	48	1.39
1070347--1070407	9	7.1	8	78	15	52	68	1	3	26	1.14
1070382--1070411	3	10.0	3	100	0	60	66	0	0	33	0.92
1071784--1072316	84	6.4	84	86	2	687	22	20	23	33	1.97
1076060--1076096	18	2.0	20	89	10	60	78	2	10	8	1.06
1077335--1077383	25	2.0	25	92	4	82	67	0	8	24	1.18
1077422--1077454	3	11.0	3	100	0	66	66	0	0	33	0.92
1080727--1080856	61	2.1	61	97	0	242	31	23	16	29	1.96
1084286--1084319	17	2.1	16	88	5	50	38	0	2	58	1.13
1086075--1086130	27	2.1	27	90	6	87	17	42	17	21	1.89
1089136--1089172	2	18.5	2	100	0	74	51	0	0	48	1.00
1090023--1090074	19	2.7	19	90	0	77	25	25	25	25	2.00
1092988--1093012	2	12.5	2	100	0	50	52	0	0	48	1.00
1093759--1093828	2	35.0	2	100	0	140	50	0	0	50	1.00
1093868--1093908	15	2.9	14	89	7	64	26	14	7	51	1.69
1095481--1095614	58	2.3	59	83	8	168	32	19	14	33	1.92
1097182--1097239	28	2.0	29	83	9	75	62	0	1	36	1.06
1101040--1101076	20	1.9	19	89	10	58	45	10	24	18	1.81
1104082--1104125	2	22.0	2	95	0	79	50	0	2	47	1.13
1107345--1107402	11	5.0	11	79	8	62	81	3	3	12	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1107345--1107401	24	2.5	22	81	16	62	80	3	3	12	0.96
1107376--1107402	13	2.1	13	100	0	54	77	7	0	14	0.97
1107376--1107421	21	2.1	22	84	11	60	71	10	2	15	1.23
1107829--1107895	18	3.8	17	73	13	55	67	0	8	23	1.19
1107847--1107896	21	2.3	21	79	6	55	68	0	8	24	1.16
1107936--1107981	25	1.9	23	91	8	74	58	2	0	39	1.10
1109485--1110253	106	7.3	105	94	0	1277	22	18	25	33	1.96
1109485--1110253	211	3.6	212	94	0	1301	22	18	25	33	1.96
1109485--1110253	316	2.4	317	94	0	1324	22	18	25	33	1.96
1111027--1111124	50	1.9	52	87	4	146	14	24	14	46	1.81
1121505--1121575	21	3.5	20	77	11	63	76	4	2	16	1.07
1121544--1121570	13	2.1	13	100	0	54	77	7	0	14	0.97
1121544--1121589	21	2.1	22	84	11	60	71	10	2	15	1.23
1122035--1122084	18	2.8	18	78	0	55	68	0	8	24	1.16
1122105--1122168	26	2.3	26	82	15	76	59	4	1	34	1.28
1122114--1122167	16	3.6	14	79	18	56	57	5	0	37	1.22
1132033--1132070	19	2.1	19	90	5	60	31	23	21	23	1.98
1132836--1132904	23	3.0	23	89	0	102	20	24	26	28	1.99
1147249--1147289	18	2.3	18	100	0	82	4	41	14	39	1.67
1150174--1150314	70	2.0	70	100	0	282	24	12	17	46	1.82
1153550--1153593	20	2.2	20	91	0	70	40	9	13	36	1.76
1155693--1155829	45	3.0	45	87	7	206	42	7	18	31	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1160400--1160452	18	2.9	18	94	0	88	52	0	33	13	1.40
1160400--1160453	15	3.8	15	71	14	51	53	0	33	12	1.39
1160403--1160453	21	2.4	21	100	0	102	54	0	33	11	1.37
1161992--1162121	67	1.9	67	85	3	181	26	13	17	42	1.87
1162070--1162130	32	2.0	29	84	9	77	24	14	21	39	1.91
1162014--1162145	67	2.0	67	81	0	156	25	15	17	41	1.89
1164413--1164463	25	2.0	25	81	7	59	58	11	3	25	1.50
1165677--1165703	13	2.1	13	100	0	54	37	14	25	22	1.93
1166165--1166205	20	2.0	20	100	0	82	36	34	4	24	1.77
1167836--1167998	59	2.8	58	81	4	193	33	20	5	41	1.75

Tables:   1   2   3   4   5   6   7