genome.fa.s1991.2.7.7.80.10.50.1000.8.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: VEPZ01001991.1 Hibiscus syriacus cultivar Beakdansim tig00004072_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2373627

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

This is table  8  of  13  ( 1445 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)
1332654--1332719	9	7.3	9	76	19	57	45	1	51	1	1.19
1332660--1332697	12	3.2	12	88	0	58	47	0	52	0	1.00
1332648--1332701	6	9.5	6	76	11	51	48	0	51	0	1.00
1332646--1332718	30	2.4	31	84	6	105	45	1	50	2	1.24
1337795--1338066	43	6.3	43	90	2	386	17	25	23	33	1.96
1337813--1338099	86	3.3	85	84	4	344	18	24	22	33	1.97
1343808--1343912	49	2.2	48	81	3	129	55	10	9	24	1.64
1348364--1348414	21	2.4	21	100	0	102	11	9	19	58	1.60
1358146--1358196	21	2.5	21	81	9	61	31	19	17	31	1.95
1359313--1359573	136	1.9	137	86	5	377	45	3	19	31	1.68
1363562--1363769	22	9.5	22	91	0	317	49	9	0	40	1.39
1366678--1366703	12	2.2	12	100	0	52	50	19	30	0	1.48
1370179--1370234	29	1.9	29	85	0	76	53	10	1	33	1.46
1380338--1380396	22	2.7	22	84	5	75	30	22	22	25	1.99
1381207--1381235	13	2.1	14	93	6	51	51	0	13	34	1.42
1386975--1387007	11	3.0	11	90	0	57	78	0	9	12	0.95
1390276--1390386	23	4.8	23	81	4	107	34	23	23	18	1.96
1390527--1390653	63	2.0	63	100	0	254	37	15	14	33	1.88
1392106--1392184	20	3.8	20	76	17	70	21	18	35	24	1.96
1393553--1393600	19	2.5	20	82	3	62	29	12	6	52	1.63
1394886--1394940	20	2.8	20	97	0	101	23	20	38	18	1.93
1399003--1399052	25	2.0	25	84	0	64	46	22	6	26	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1399108--1399192	31	2.7	32	81	1	100	27	29	28	15	1.96
1400081--1400263	29	6.5	29	80	7	173	48	14	2	34	1.56
1400081--1400246	28	6.0	26	76	14	102	47	13	2	36	1.57
1401834--1401864	6	5.2	6	96	0	53	3	16	45	35	1.63
1402640--1402678	6	6.5	6	87	0	60	2	17	43	35	1.63
1402873--1402921	24	2.0	24	100	0	98	46	8	16	28	1.75
1407708--1407741	15	2.3	15	94	0	59	8	41	35	14	1.77
1407739--1407763	6	4.2	6	100	0	50	0	16	48	36	1.46
1409557--1409615	28	2.1	28	84	6	75	67	1	0	30	1.00
1409717--1409759	21	2.1	20	83	12	52	20	13	30	34	1.92
1412562--1412588	2	13.5	2	100	0	54	51	0	0	48	1.00
1412912--1412966	28	1.9	29	85	3	76	61	1	3	32	1.24
1413346--1413399	20	2.7	19	75	8	63	33	31	18	16	1.93
1413386--1413503	20	5.8	20	74	14	89	38	19	20	22	1.94
1413446--1413683	20	11.8	20	77	10	155	39	23	18	18	1.92
1413448--1413680	40	5.8	40	77	7	195	39	24	18	18	1.92
1413529--1413680	60	2.5	60	86	3	198	39	24	17	18	1.92
1414221--1414292	20	3.6	19	83	5	81	51	18	16	13	1.77
1414236--1414299	21	3.1	21	84	6	87	51	17	20	10	1.75
1414276--1414356	33	2.5	33	87	0	117	48	20	19	11	1.79
1414352--1414469	19	6.1	19	83	3	137	13	19	18	48	1.81
1416157--1416536	94	4.1	94	92	2	622	21	12	18	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1416624--1416717	33	2.8	33	93	0	161	43	20	23	12	1.86
1416584--1416722	19	7.7	19	67	18	91	44	20	20	13	1.86
1418081--1418141	21	3.0	20	73	7	59	22	36	19	21	1.95
1418331--1418402	36	2.0	36	100	0	144	27	19	30	22	1.98
1419527--1419562	14	2.6	14	95	0	63	33	0	22	44	1.53
1419669--1419734	19	3.7	19	73	22	63	45	22	21	10	1.82
1419701--1419744	19	2.3	19	96	0	79	43	27	15	13	1.85
1419744--1419837	33	2.8	33	95	0	161	12	22	19	45	1.83
1419742--1419862	33	3.5	34	86	8	147	13	23	19	43	1.86
1419779--1419890	53	2.1	52	90	1	170	14	20	19	45	1.85
1419849--1419876	14	2.0	14	100	0	56	14	21	21	42	1.88
1419897--1419970	20	3.7	20	69	16	62	24	17	25	32	1.97
1422408--1422461	24	2.2	24	90	0	81	42	20	16	20	1.89
1423322--1423478	20	7.8	20	86	2	163	20	17	21	40	1.92
1423320--1423509	40	4.7	40	82	2	220	19	17	23	39	1.92
1423320--1423509	60	3.2	59	80	8	213	19	17	23	39	1.92
1423319--1423509	20	9.5	20	78	9	133	19	17	23	39	1.92
1423342--1423531	60	3.1	61	84	3	190	19	17	23	38	1.93
1423317--1423532	80	2.7	79	82	6	229	19	18	23	38	1.93
1423518--1423570	20	2.7	20	82	5	63	16	18	20	43	1.88
1423317--1423570	80	3.2	81	81	5	214	19	18	22	39	1.92
1423558--1423673	21	5.6	21	68	9	60	23	18	24	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1423619--1423673	20	2.8	20	77	5	67	18	16	30	34	1.93
1431693--1431728	12	3.1	12	88	8	56	75	2	22	0	0.94
1431686--1431755	19	3.5	20	76	20	58	75	2	18	2	1.05
1431688--1431751	30	2.1	29	83	11	76	76	3	18	1	1.00
1432903--1433069	84	2.0	84	100	0	334	35	16	21	26	1.95
1433956--1434032	36	2.1	36	82	0	100	27	18	10	44	1.82
1434087--1434139	18	3.1	17	71	17	56	24	24	11	39	1.88
1434081--1434129	15	3.1	15	72	16	53	24	26	14	34	1.94
1434049--1434194	69	2.1	73	87	5	210	24	20	15	39	1.91
1434049--1434194	36	4.1	36	85	6	199	24	20	15	39	1.91
1434170--1434261	46	2.0	45	85	6	121	32	15	10	41	1.82
1434334--1434423	36	2.5	36	85	0	117	27	15	16	40	1.89
1434371--1434490	63	1.9	64	86	5	172	32	16	10	40	1.82
1434981--1435330	86	4.0	90	83	7	429	36	15	22	24	1.94
1434981--1435330	91	4.0	86	82	7	381	36	15	22	24	1.94
1435705--1435809	52	2.0	54	94	5	189	44	18	21	15	1.86
1436746--1436790	22	2.0	24	87	12	69	26	0	11	62	1.29
1438095--1438187	20	4.7	20	93	0	159	39	21	18	20	1.92
1438174--1438280	20	5.3	20	94	0	178	29	26	19	24	1.98
1439113--1439166	24	2.2	24	83	0	63	24	14	18	42	1.88
1441613--1441665	14	3.5	14	76	18	61	43	20	24	11	1.85
1441613--1441686	32	2.3	33	97	2	141	43	20	24	12	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1441700--1441794	34	2.8	33	80	12	113	13	24	18	43	1.87
1441708--1441775	34	2.0	35	97	2	129	11	23	17	47	1.81
1441893--1441929	14	2.6	14	86	0	56	48	21	0	29	1.50
1443116--1443208	42	2.2	42	80	3	107	22	17	39	20	1.92
1443678--1443723	20	2.3	20	80	0	56	34	21	21	21	1.97
1443767--1443857	20	4.5	20	92	1	146	20	18	21	38	1.93
1444234--1444263	6	5.0	6	100	0	60	16	0	66	16	1.25
1445726--1445797	20	3.6	20	81	10	76	52	22	13	11	1.72
1446132--1446197	22	3.0	22	90	0	105	21	15	39	24	1.91
1446394--1446486	20	4.7	20	95	0	168	20	20	21	37	1.94
1446376--1446486	40	2.8	40	91	5	172	20	20	22	36	1.96
1446483--1446527	21	2.2	21	88	4	65	35	17	28	17	1.93
1455369--1455470	41	2.6	38	76	8	105	38	15	7	38	1.77
1455775--1455799	2	12.5	2	100	0	50	48	0	0	52	1.00
1469314--1469430	2	61.0	2	87	8	172	45	0	54	0	0.99
1469428--1469485	5	11.0	5	85	12	55	15	0	84	0	0.62
1469315--1469528	6	36.8	6	83	10	144	36	0	63	0	0.95
1469479--1469529	2	26.0	2	84	4	68	43	0	56	0	0.99
1486011--1486048	18	2.1	18	85	9	51	42	7	15	34	1.76
1486896--1487045	4	35.8	4	73	12	106	22	1	7	69	1.21
1486895--1486985	18	5.0	18	77	17	82	21	1	8	68	1.24
1486896--1487080	23	8.1	21	71	18	115	22	2	7	68	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1486915--1487077	58	2.7	57	81	7	159	22	1	6	68	1.23
1486919--1487080	31	5.4	31	76	11	149	22	1	6	69	1.22
1490509--1490551	2	22.0	2	95	4	79	51	0	0	48	1.00
1494178--1495282	467	2.4	467	89	1	1678	39	13	11	35	1.80
1495273--1495577	162	1.9	163	96	1	569	40	13	9	36	1.76
1495416--1497407	471	4.2	473	90	3	3026	36	14	11	37	1.82
1501059--1501116	29	2.0	29	83	12	75	46	0	1	51	1.11
1501218--1501250	8	4.2	8	92	7	59	36	0	0	63	0.95
1501220--1501249	15	2.0	15	100	0	60	33	0	0	66	0.92
1501245--1501294	16	3.2	16	83	11	68	52	0	0	48	1.00

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