genome.fa.s9614.2.7.7.80.10.50.1000.6.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: VEPZ01009614.1 Hibiscus syriacus cultivar Beakdansim tig00117000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2129691

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  6  of  10  ( 1149 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)
1031334--1031367	14	2.6	13	86	13	52	14	0	5	79	0.91
1031334--1031404	29	2.4	29	77	9	72	16	2	4	76	1.07
1033497--1033559	11	5.9	11	73	14	60	57	1	1	39	1.18
1033666--1033716	7	7.3	7	77	0	57	45	33	0	21	1.52
1033666--1033719	14	3.9	14	82	0	72	42	35	0	22	1.54
1035663--1035704	22	1.9	22	85	0	57	26	26	26	21	1.99
1035751--1035833	31	2.7	31	100	0	166	20	15	21	42	1.89
1036344--1036420	21	3.7	21	75	3	93	22	16	25	35	1.95
1036409--1036480	21	3.5	21	71	17	69	16	19	27	36	1.93
1039024--1039061	20	1.9	20	88	0	58	36	18	18	26	1.94
1039930--1040022	32	2.9	32	82	1	116	33	16	20	30	1.94
1043534--1043558	12	2.1	12	100	0	50	60	24	0	16	1.36
1045502--1045533	12	2.7	12	100	0	64	40	6	15	37	1.73
1047325--1047380	23	2.5	22	85	8	76	28	21	28	21	1.99
1047315--1047387	23	3.4	22	77	17	73	26	24	24	24	2.00
1051471--1051520	21	2.2	24	86	10	70	56	2	4	38	1.30
1051547--1051579	15	2.1	17	88	11	52	48	6	12	33	1.65
1051615--1051653	9	4.1	9	86	6	51	15	0	5	79	0.90
1051615--1051651	10	3.8	10	89	3	58	13	0	5	81	0.86
1058164--1058415	126	2.0	126	99	0	495	25	13	33	27	1.93
1060242--1060268	2	13.5	2	100	0	54	48	0	0	51	1.00
1062666--1062707	7	6.0	7	81	8	50	14	16	14	54	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1062666--1062707	15	3.0	14	83	10	50	14	16	14	54	1.71
1062766--1062824	26	2.3	26	79	5	66	22	11	8	57	1.61
1067378--1067406	14	2.1	14	100	0	58	34	13	13	37	1.85
1069546--1069663	22	5.5	22	87	4	170	34	12	12	39	1.82
1070394--1071142	113	6.6	113	91	3	1129	38	14	19	28	1.90
1070394--1071142	225	3.3	224	91	3	1177	38	14	19	28	1.90
1070394--1071142	338	2.2	338	90	3	1152	38	14	19	28	1.90
1074825--1074900	39	2.0	38	82	5	91	47	2	2	47	1.30
1077876--1077942	21	3.2	21	78	16	68	56	1	1	40	1.17
1077889--1077942	22	2.5	20	80	19	56	55	0	1	42	1.10
1081391--1081604	116	1.9	114	82	3	268	26	19	10	43	1.83
1091046--1091081	2	18.0	2	100	0	72	50	0	0	50	1.00
1095316--1095389	26	2.9	25	86	4	103	35	4	1	59	1.25
1096688--1096728	18	2.3	18	91	4	66	29	24	7	39	1.82
1096850--1096879	6	5.0	6	100	0	60	33	66	0	0	0.92
1097134--1097185	26	2.0	27	85	11	72	55	0	0	44	0.99
1101976--1102033	29	2.0	29	93	0	98	41	10	13	34	1.79
1106126--1106182	23	2.5	23	94	0	96	26	12	14	47	1.79
1118693--1118731	2	19.5	2	100	0	78	48	0	0	51	1.00
1119609--1119647	17	2.2	18	86	4	53	35	0	2	61	1.10
1134095--1134164	29	2.4	29	88	4	88	31	14	10	44	1.78
1134108--1134166	29	2.0	29	96	0	109	25	13	11	49	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1138570--1138628	29	2.0	29	100	0	118	23	13	13	49	1.78
1140282--1140456	36	4.9	35	91	3	262	31	24	25	18	1.98
1146282--1146333	22	2.3	24	72	27	60	44	1	0	53	1.11
1150708--1150884	88	2.0	88	100	0	354	37	5	11	45	1.64
1151033--1151094	27	2.4	27	81	10	67	62	3	0	33	1.11
1151019--1151097	34	2.4	32	76	14	79	64	2	0	32	1.07
1152479--1152557	16	5.4	14	79	13	63	39	1	1	58	1.14
1152441--1152533	27	3.2	28	75	14	75	29	5	1	64	1.22
1152507--1152562	2	29.0	2	87	7	80	44	1	1	51	1.22
1152479--1152562	20	4.2	20	80	11	86	39	1	2	57	1.20
1152487--1152562	30	2.6	30	83	8	86	40	1	2	55	1.22
1152484--1152557	14	5.1	15	85	6	82	40	1	1	56	1.16
1152590--1152708	37	3.5	35	76	13	108	25	4	1	68	1.16
1155803--1155855	13	4.0	13	81	11	63	77	1	16	3	1.01
1158320--1158586	110	2.5	108	83	8	341	32	24	19	23	1.97
1159909--1160001	25	3.6	25	71	21	66	30	6	0	63	1.19
1160049--1160137	38	2.4	36	80	14	99	28	4	2	65	1.24
1160047--1160139	41	2.4	40	83	7	111	29	4	2	64	1.24
1160127--1160197	22	3.3	21	69	13	56	25	5	1	67	1.20
1160356--1160430	12	6.2	11	71	17	51	18	5	2	73	1.15
1167518--1167555	20	2.0	19	85	10	51	50	5	21	23	1.69
1172620--1172659	21	1.9	21	89	0	62	10	25	40	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1172640--1172702	20	2.9	21	79	9	65	15	25	34	23	1.95
1176510--1176549	21	1.9	21	85	10	55	35	10	2	52	1.48
1186578--1186638	20	2.9	20	85	7	59	24	32	26	16	1.96
1204501--1204540	2	20.0	2	100	0	80	50	0	0	50	1.00
1217660--1217743	29	2.9	29	92	0	141	35	10	11	41	1.77
1220507--1220540	16	2.1	16	89	10	52	67	0	8	23	1.18
1223467--1223519	21	2.5	21	93	0	88	35	13	13	37	1.83
1225762--1225810	26	2.0	26	84	11	68	61	10	6	22	1.50
1225753--1225820	20	3.1	20	73	19	55	64	8	4	22	1.40
1226380--1226419	21	1.9	21	89	0	62	32	30	17	20	1.95
1227850--1227956	56	1.9	56	94	0	187	29	20	12	37	1.89
1230944--1230968	13	1.9	13	100	0	50	24	44	0	32	1.54
1230947--1231061	36	3.2	36	93	1	196	30	37	3	28	1.74
1230960--1231044	11	7.2	11	72	22	66	31	36	3	28	1.74
1235380--1235464	11	7.2	11	72	22	66	31	35	3	29	1.75
1235378--1235479	36	2.9	36	94	1	170	30	35	3	30	1.76
1239164--1239220	30	1.9	30	85	7	80	45	5	1	47	1.35
1239164--1239251	31	2.9	30	83	5	97	48	4	2	44	1.35
1239207--1239244	20	1.9	20	84	10	51	57	0	2	39	1.12
1239414--1239452	19	2.1	19	100	0	78	41	5	15	38	1.69
1240311--1240344	16	2.1	16	88	0	50	0	38	14	47	1.45
1247167--1247649	240	2.0	241	99	0	959	29	21	16	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1270142--1270179	3	13.0	3	83	5	51	31	2	2	63	1.22
1274092--1274143	24	2.3	23	87	12	74	63	0	7	28	1.22
1286749--1286810	20	2.9	21	78	9	63	17	25	33	22	1.96
1297207--1297236	2	15.0	2	92	0	51	46	0	3	50	1.18
1301024--1301067	17	2.6	17	92	0	70	36	0	2	61	1.09
1305502--1305576	18	4.1	17	69	17	51	36	8	9	46	1.65
1311228--1311261	5	7.0	5	93	6	61	20	0	0	79	0.73
1311229--1311259	9	3.3	9	95	4	53	19	0	0	80	0.71
1311228--1311261	14	2.3	15	95	5	61	20	0	0	79	0.73
1316033--1316113	34	2.3	35	87	4	119	29	6	30	33	1.82
1318183--1318229	23	2.0	23	100	0	94	38	4	17	40	1.69
1327080--1327126	17	2.7	18	81	18	55	42	0	10	46	1.38
1327182--1327211	15	2.0	15	93	0	51	50	0	0	50	1.00
1327998--1328120	61	2.0	61	100	0	246	27	24	19	28	1.99
1335105--1335131	3	9.0	3	100	0	54	66	0	33	0	0.92
1338145--1338190	18	2.6	18	96	0	83	15	26	32	26	1.95
1340080--1340130	2	25.5	2	100	0	102	50	0	0	49	1.00
1340284--1340311	3	9.3	3	100	0	56	0	67	0	32	0.91
1340366--1340416	18	2.9	18	83	11	61	50	29	0	19	1.48
1342262--1342460	91	2.2	91	92	2	330	42	5	12	40	1.64
1365426--1365503	31	2.5	31	89	0	111	44	20	15	19	1.86
1367301--1367425	46	2.7	46	82	3	135	28	12	28	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1375902--1375976	35	2.1	36	85	14	102	53	8	9	29	1.61
1375902--1375988	35	2.5	35	80	12	92	55	6	8	29	1.55
1379470--1379494	6	4.2	6	100	0	50	16	0	36	48	1.46
1382993--1383042	24	2.1	24	100	0	100	18	20	12	50	1.78
1385441--1385465	12	2.1	12	100	0	50	20	16	24	40	1.91
1388205--1388244	20	2.0	21	85	14	57	42	5	7	45	1.54
1388461--1388621	65	2.5	65	86	3	218	30	26	16	26	1.97
1388412--1388641	64	3.6	64	81	6	225	29	26	18	26	1.98
1394382--1394437	22	2.7	21	83	10	62	30	23	17	28	1.97
1395685--1395724	20	2.0	21	85	14	57	42	5	7	45	1.54

Tables:   1   2   3   4   5   6   7   8   9   10