genome.fa.s8003.2.7.7.80.10.50.1000.7.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: VEPZ01008003.1 Hibiscus syriacus cultivar Beakdansim tig00110462_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3297763

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  7  of  14  ( 1618 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)
1285102--1285194	42	2.2	42	86	3	134	21	15	41	21	1.89
1285133--1285190	21	2.8	21	71	10	64	22	13	39	24	1.90
1285532--1285569	20	1.9	20	94	0	67	36	28	13	21	1.91
1285537--1285630	20	4.8	20	78	5	84	40	22	20	17	1.91
1285596--1285654	19	3.4	19	77	22	83	47	18	20	13	1.82
1285611--1285668	14	3.8	14	77	20	62	50	20	18	10	1.76
1285596--1285692	19	5.7	18	75	22	75	45	21	19	13	1.84
1285596--1285675	33	2.4	33	97	0	151	47	20	20	12	1.81
1285682--1285811	19	7.6	19	69	23	110	11	19	22	46	1.81
1285687--1285811	33	3.8	33	95	0	232	11	18	22	48	1.79
1285737--1285795	14	3.9	14	76	20	64	10	16	23	49	1.77
1285796--1285850	20	2.8	19	83	8	65	16	23	23	36	1.94
1286376--1286417	18	2.4	18	92	4	68	16	11	42	28	1.84
1287736--1287794	20	3.0	20	87	0	73	44	22	18	15	1.87
1288057--1288100	22	2.0	22	95	0	79	18	15	45	20	1.85
1288267--1288361	20	4.7	20	72	11	77	22	17	23	36	1.95
1288267--1288363	41	2.4	41	94	0	167	21	17	22	38	1.93
1288370--1288443	21	3.5	21	90	5	114	37	16	24	21	1.93
1288370--1288472	42	2.5	41	81	13	122	37	15	23	23	1.93
1289521--1289559	20	2.0	20	84	0	51	79	7	10	2	1.02
1292332--1292378	14	3.4	14	79	5	51	40	0	21	38	1.53
1292554--1292640	22	4.0	22	76	11	90	25	21	24	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1292558--1292642	44	1.9	42	86	11	116	24	23	23	28	2.00
1294556--1294609	12	4.4	12	77	11	56	1	40	12	44	1.54
1294561--1294602	6	7.0	6	88	0	66	0	45	16	38	1.48
1294561--1294608	18	2.6	18	83	3	69	2	43	14	39	1.57
1295237--1295273	3	12.3	3	94	0	65	32	0	64	2	1.07
1296279--1296329	20	2.5	20	100	0	102	50	11	17	19	1.76
1297083--1297158	2	41.0	2	80	15	83	52	0	0	47	1.00
1297081--1297160	9	8.2	10	77	17	55	52	0	0	47	1.00
1302787--1302853	12	5.6	12	72	13	57	17	10	14	56	1.66
1302785--1302853	24	2.9	24	77	0	93	20	10	14	55	1.68
1315058--1315103	20	2.2	20	85	11	58	69	4	0	26	1.07
1318472--1318554	29	2.7	31	78	9	91	54	4	2	38	1.35
1325329--1325357	2	14.5	2	100	0	58	51	0	0	48	1.00
1333039--1333174	4	34.0	4	100	0	272	50	25	0	25	1.50
1340758--1340844	35	2.5	34	80	12	97	55	10	8	26	1.61
1341059--1341103	9	5.0	9	77	0	54	13	35	20	31	1.91
1341063--1341112	15	3.3	15	82	0	64	12	34	20	34	1.89
1343014--1343226	111	1.9	110	94	0	372	44	10	7	37	1.67
1348065--1348344	127	2.2	127	94	0	479	21	24	23	30	1.99
1356401--1356474	23	3.2	23	77	17	64	16	1	27	55	1.49
1357909--1358141	127	1.8	127	92	1	396	24	22	18	35	1.95
1358427--1358456	14	2.1	14	93	0	51	30	0	10	60	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1358571--1358665	28	3.0	33	71	17	101	41	4	3	51	1.37
1359189--1359237	21	2.3	20	83	10	62	18	26	34	20	1.95
1359230--1359314	42	2.0	42	83	0	107	22	18	35	23	1.96
1361910--1361995	35	2.5	35	84	0	100	40	20	1	37	1.61
1361964--1362006	21	2.0	21	100	0	86	46	13	0	39	1.44
1362129--1362162	16	2.0	18	88	11	54	26	2	5	64	1.30
1362628--1362874	130	1.9	129	91	0	404	37	12	14	35	1.85
1363477--1363544	29	2.3	30	85	10	86	27	8	27	35	1.87
1364054--1364128	2	37.5	2	100	0	150	50	0	0	49	1.00
1368414--1368473	2	30.5	2	96	3	113	51	0	0	48	1.00
1377230--1377278	14	3.2	15	76	23	57	40	14	0	44	1.45
1377890--1377956	33	2.1	34	83	8	86	49	0	5	44	1.27
1379392--1379470	22	3.7	22	76	8	83	30	25	11	32	1.91
1379392--1379471	42	1.9	42	84	0	106	30	25	11	33	1.90
1379434--1380268	413	2.0	405	93	2	1402	26	23	26	23	2.00
1380769--1380795	11	2.5	11	100	0	54	85	0	14	0	0.61
1391389--1391437	20	2.5	20	90	3	73	48	20	10	20	1.78
1391585--1391638	22	2.5	22	87	0	72	27	40	12	18	1.87
1391599--1391642	22	2.0	22	95	0	79	25	45	11	18	1.82
1393694--1393793	42	2.4	41	75	8	103	18	14	38	30	1.89
1394151--1394269	42	2.8	42	84	2	132	23	33	19	23	1.97
1394151--1394269	21	5.7	20	79	7	105	23	33	19	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1395612--1395769	64	2.5	64	93	3	264	29	1	15	52	1.54
1398393--1398446	24	2.2	24	83	6	65	42	22	16	18	1.89
1399380--1399462	20	4.2	20	82	1	96	37	12	21	28	1.89
1399473--1399517	20	2.2	20	92	0	72	24	20	22	33	1.97
1401133--1401170	19	2.0	19	94	0	67	42	2	13	42	1.57
1405070--1405142	30	2.4	30	95	0	128	30	24	20	24	1.99
1405116--1405209	31	3.1	30	72	4	80	30	22	18	28	1.97
1405979--1406023	21	2.1	21	87	0	63	31	28	24	15	1.96
1407703--1407928	103	2.2	103	92	1	391	26	13	23	36	1.92
1407937--1407994	23	2.5	23	91	0	89	18	25	29	25	1.98
1416401--1416459	20	2.7	22	75	17	61	20	6	3	69	1.26
1416408--1416448	20	2.0	20	90	0	64	21	7	4	65	1.37
1416426--1416483	29	2.0	29	83	6	73	25	5	3	65	1.29
1416751--1416792	22	2.0	22	85	4	59	54	9	19	16	1.69
1428236--1428600	183	2.0	183	90	2	581	40	2	9	46	1.51
1438381--1438423	15	2.8	15	82	3	50	53	2	4	39	1.34
1438411--1438473	23	2.7	23	73	7	65	52	0	4	42	1.22
1443027--1443075	14	3.4	14	80	5	53	30	6	24	38	1.80
1443043--1443075	15	2.3	15	89	5	50	33	6	27	33	1.81
1443183--1443260	21	3.6	21	86	10	104	24	20	25	29	1.99
1443183--1443274	21	4.2	20	82	9	67	26	18	25	30	1.98
1443182--1443274	44	2.1	44	79	15	104	25	18	24	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1451813--1451880	34	2.0	34	85	0	91	30	19	5	44	1.74
1456219--1456243	2	12.5	2	100	0	50	48	0	0	52	1.00
1461978--1462045	33	2.1	33	100	0	136	29	11	26	32	1.92
1474894--1474933	21	2.0	20	95	5	71	40	10	12	37	1.77
1477931--1477969	2	19.5	2	94	0	69	51	2	0	46	1.14
1478081--1478105	12	2.1	12	100	0	50	16	28	24	32	1.96
1479005--1479085	24	3.5	24	93	6	134	24	22	19	33	1.97
1481690--1481746	27	2.1	27	100	0	114	43	3	17	35	1.66
1481879--1481920	21	2.0	21	95	0	75	23	21	28	26	1.99
1481949--1481988	20	1.9	21	85	10	55	37	37	10	15	1.80
1483572--1483646	19	3.7	20	73	16	64	24	24	21	30	1.99
1483608--1483645	19	2.0	19	94	0	67	21	26	23	28	1.99
1485626--1485703	7	11.4	7	91	4	124	55	0	32	12	1.38
1495236--1495275	16	2.4	16	87	8	53	40	0	0	60	0.97
1496007--1496034	2	14.0	2	100	0	56	50	0	0	50	1.00
1499493--1499526	17	1.9	18	88	5	52	29	29	26	14	1.95
1499536--1499565	10	3.1	10	90	9	53	60	20	20	0	1.37
1499536--1499565	9	3.2	9	95	4	51	60	20	20	0	1.37
1500224--1500264	22	1.9	21	90	5	64	24	0	4	70	1.06
1501719--1501748	15	2.0	15	93	0	51	56	30	0	13	1.37
1502383--1502425	15	2.9	15	89	3	70	18	20	20	39	1.93
1505106--1505187	29	2.8	29	88	1	119	35	13	12	39	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1507318--1507672	174	2.0	176	96	2	651	21	14	14	50	1.77
1508011--1508083	37	2.0	37	94	0	128	42	10	2	43	1.54
1509957--1509996	21	1.9	21	85	10	55	45	5	15	35	1.68
1510191--1510237	13	3.4	14	82	11	53	38	4	27	29	1.76
1520679--1520724	21	2.1	22	84	4	58	32	28	23	15	1.95
1522406--1522486	22	3.6	22	93	1	135	18	25	29	25	1.98
1525636--1525681	21	2.1	22	84	4	58	32	28	23	15	1.95
1527359--1527421	13	5.5	13	65	27	52	19	26	26	26	1.99
1527355--1527435	22	3.6	22	96	1	144	18	27	29	24	1.98
1550666--1550750	37	2.3	38	87	4	120	42	17	2	37	1.62

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14