genome.fa.s8167.2.7.7.80.10.50.1000.4.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: VEPZ01008167.1 Hibiscus syriacus cultivar Beakdansim tig00110748_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1661898

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 589 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)
1122979--1123022	6	7.2	6	82	12	54	79	2	18	0	0.83
1124378--1124410	16	2.1	16	100	0	66	42	6	18	33	1.75
1127913--1127945	16	2.1	16	94	0	57	45	6	18	30	1.73
1128286--1128334	16	2.9	16	84	6	53	16	22	0	61	1.34
1132554--1132592	13	3.0	12	85	14	51	84	0	12	2	0.72
1132556--1132594	20	1.9	21	89	5	62	82	0	15	2	0.79
1134421--1134480	30	2.0	31	86	3	86	26	6	10	56	1.57
1135390--1135438	18	2.6	19	78	15	57	34	16	6	42	1.73
1136149--1136210	14	4.3	14	83	8	72	77	1	19	1	0.94
1136154--1136215	6	10.2	6	76	20	58	77	1	19	1	0.94
1136149--1136209	25	2.3	26	83	11	79	77	1	19	1	0.95
1136154--1136215	11	5.6	11	78	16	67	77	1	19	1	0.94
1136148--1136210	16	3.6	17	75	24	60	77	1	19	1	0.93
1139370--1139420	20	2.6	20	87	3	68	35	15	7	41	1.76
1156103--1156182	35	2.2	37	88	4	119	31	37	2	28	1.71
1158931--1158984	24	2.2	24	96	0	99	31	22	7	38	1.82
1162787--1162823	13	2.8	14	80	12	51	78	5	16	0	0.93
1162862--1162916	28	1.9	29	85	3	76	67	3	20	9	1.34
1163032--1163080	16	2.9	16	84	6	53	16	22	0	61	1.34
1167426--1167465	19	2.1	19	85	4	53	20	12	0	67	1.22
1171994--1172033	19	2.1	19	85	4	53	20	12	0	67	1.22
1179235--1179294	30	2.0	31	83	3	77	28	10	8	53	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1187267--1187326	27	2.2	29	79	11	72	11	16	11	60	1.60
1190729--1190770	20	2.2	19	83	12	50	23	11	0	64	1.27
1191115--1191213	13	8.3	12	72	21	66	34	2	35	28	1.69
1191097--1191212	35	3.3	35	91	1	178	33	2	35	28	1.71
1191556--1191604	19	2.5	20	86	3	64	46	6	14	32	1.69
1198792--1198842	19	2.6	20	87	3	68	45	5	13	35	1.68
1201836--1201873	18	2.1	18	85	9	51	2	18	2	76	1.02
1201899--1201932	11	3.0	11	91	4	50	0	17	0	82	0.67
1201902--1201935	16	2.1	16	89	10	52	0	17	0	82	0.67
1201901--1201945	23	2.1	20	84	12	54	0	15	4	80	0.87
1202722--1202772	19	2.6	20	84	3	68	47	5	11	35	1.65
1205102--1205151	22	2.3	22	75	6	57	64	12	16	8	1.49
1209285--1209317	17	1.9	17	93	0	57	3	9	0	87	0.63
1209285--1209318	11	3.1	11	86	0	50	2	8	0	88	0.62
1211464--1211923	229	2.0	229	95	2	827	28	21	15	34	1.94
1212653--1212702	17	3.1	16	81	13	59	4	18	4	74	1.14
1213033--1213076	22	2.0	21	86	4	61	25	2	34	38	1.68
1216216--1216282	34	2.0	34	96	0	125	28	13	20	37	1.91
1220447--1220476	15	1.9	16	93	6	53	3	10	0	86	0.67
1224248--1224329	40	2.0	40	97	0	155	23	15	26	34	1.95
1224433--1224542	47	2.4	47	86	4	145	38	9	20	32	1.84
1231662--1231745	46	1.9	43	81	11	100	42	9	14	33	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1240870--1240916	23	2.0	23	87	0	67	40	6	19	34	1.77
1253435--1253467	16	2.1	16	100	0	66	42	6	18	33	1.75
1262345--1262389	20	2.2	21	81	18	60	42	8	20	28	1.82
1262663--1262692	14	2.1	15	93	6	53	50	3	20	26	1.64
1273507--1273549	23	1.9	21	81	13	50	32	18	13	34	1.90
1278144--1278195	24	2.3	23	90	6	79	63	9	17	9	1.50
1278152--1278203	23	2.3	22	83	9	68	65	7	19	7	1.43
1278185--1278224	14	3.0	14	85	7	57	77	0	22	0	0.77
1280125--1280177	6	9.0	6	78	12	56	79	3	16	0	0.88
1284952--1284984	16	2.1	16	94	0	57	39	9	0	51	1.34
1296355--1296413	23	2.5	24	83	2	75	10	13	10	66	1.46
1299551--1299607	27	2.1	27	83	6	71	59	12	15	12	1.61
1321971--1322010	19	2.0	20	86	13	57	67	0	10	22	1.20
1322421--1322471	19	2.6	20	90	3	77	43	5	13	37	1.69
1325261--1325320	30	2.0	31	86	3	86	55	8	8	28	1.59
1326711--1326753	22	2.0	23	86	9	63	13	16	11	58	1.64
1326711--1326750	19	2.0	21	85	14	57	15	15	12	57	1.66
1327280--1327318	20	2.0	20	90	10	62	61	5	7	25	1.44
1328790--1328847	23	2.5	23	100	0	116	56	15	15	12	1.67
1332745--1332796	24	2.2	24	90	6	81	59	13	17	9	1.60
1332785--1332824	14	3.1	13	85	7	55	80	0	17	2	0.83
1336612--1336657	19	2.3	20	85	3	58	34	15	6	43	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1337177--1337231	25	2.1	26	80	12	60	14	25	0	60	1.35
1339692--1339751	30	2.0	31	86	3	86	31	8	8	51	1.62
1345584--1345628	23	2.0	23	82	8	56	24	11	22	42	1.86
1347871--1348078	100	2.1	100	88	2	301	39	10	14	34	1.81
1350579--1350607	15	2.0	15	93	6	51	0	20	3	75	0.94
1350600--1350661	27	2.2	28	78	13	74	11	16	11	61	1.57
1353796--1353849	20	2.7	20	85	0	72	42	11	5	40	1.64
1355398--1355472	26	3.0	26	75	16	77	17	18	0	64	1.30
1355670--1355738	19	3.7	18	81	9	75	72	7	14	5	1.25
1355695--1355733	18	2.2	17	83	16	53	71	7	10	10	1.30
1363066--1363095	13	2.4	13	94	5	53	26	30	0	43	1.55
1374600--1374633	17	1.9	18	88	5	52	26	38	2	32	1.71
1376373--1376416	23	2.0	23	90	4	72	56	15	15	11	1.66
1382044--1382086	23	1.9	23	85	4	61	53	16	16	13	1.73
1383538--1383649	35	3.2	35	90	1	170	28	35	3	32	1.74
1384096--1384122	11	2.5	11	100	0	54	81	0	18	0	0.69
1384255--1384303	16	2.9	16	84	6	53	16	22	0	61	1.34
1387620--1387732	35	3.2	35	85	1	145	28	35	3	32	1.74
1389638--1389732	36	2.7	35	88	1	127	28	36	3	31	1.73
1389639--1389750	35	3.2	35	87	1	143	26	35	4	33	1.77
1389900--1389940	10	3.9	11	81	9	50	12	19	0	68	1.21
1391654--1391765	35	3.2	35	88	1	161	28	34	3	33	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1395249--1395291	23	1.9	21	81	13	50	32	18	13	34	1.90
1398842--1398908	27	2.4	27	78	9	64	65	13	8	11	1.47
1400793--1400819	10	2.7	10	100	0	54	22	22	25	29	1.99
1405945--1405984	13	3.0	13	81	3	53	0	15	5	80	0.88
1406412--1406436	13	1.9	13	100	0	50	40	0	36	24	1.55
1407295--1407335	19	2.1	20	86	13	59	65	0	9	24	1.22
1407746--1407788	20	2.2	20	87	4	61	46	4	11	37	1.61
1411405--1411444	19	2.0	20	86	13	57	67	0	10	22	1.20
1411856--1411905	19	2.5	20	90	3	75	44	6	16	34	1.72
1412319--1414568	759	3.0	758	89	3	3270	35	15	18	30	1.92
1415416--1415453	12	3.1	12	85	14	51	5	15	0	78	0.91
1417701--1417727	10	2.7	10	100	0	54	22	40	11	25	1.87
1417701--1417740	20	2.0	20	85	5	53	20	37	10	32	1.85
1423021--1423046	5	5.2	5	100	0	52	0	19	0	80	0.71
1425601--1425626	5	5.2	5	100	0	52	0	19	0	80	0.71
1433986--1434031	19	2.3	20	88	3	67	39	13	6	41	1.70
1433986--1434034	20	2.5	19	90	3	71	36	12	6	44	1.67
1436993--1437054	7	8.4	7	77	19	56	82	11	6	0	0.84
1436991--1437043	19	2.8	19	88	11	90	81	11	7	0	0.88
1437002--1437070	28	2.4	29	81	11	81	76	14	8	0	1.00
1437013--1437050	16	2.4	17	82	13	53	84	10	5	0	0.77
1441340--1441378	15	2.5	15	87	4	51	17	10	2	69	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1442999--1443058	30	2.0	31	86	3	86	28	8	10	53	1.63
1443945--1443995	20	2.6	20	90	3	77	35	15	5	43	1.71
1454683--1454723	19	2.2	19	90	0	64	39	14	4	41	1.67
1454691--1454732	19	2.2	19	91	0	66	40	11	2	45	1.54
1458529--1458633	36	2.9	36	87	1	149	31	32	4	31	1.79
1459065--1459111	14	3.1	15	75	12	51	72	6	19	2	1.17
1462970--1463831	432	2.0	432	96	0	1573	34	19	16	30	1.94
1464532--1464617	13	7.2	12	72	22	58	29	3	37	30	1.74
1464514--1464618	36	2.9	36	95	1	185	28	4	36	30	1.78
1469006--1469110	36	2.9	36	94	1	176	29	4	35	30	1.78

Tables:   1   2   3   4   5