genome.fa.s8091.2.7.7.80.10.50.1000.6.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: VEPZ01008091.1 Hibiscus syriacus cultivar Beakdansim tig00110602_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2471235

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

This is table  6  of  11  ( 1255 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)
1297023--1297260	21	11.2	21	68	15	123	19	17	24	38	1.93
1297034--1297264	42	5.5	42	92	2	390	19	17	24	38	1.93
1298139--1298319	42	4.3	42	91	2	292	36	22	18	23	1.95
1298136--1298344	21	10.0	21	71	14	137	35	22	19	23	1.96
1298139--1298344	84	2.4	83	87	4	281	35	22	18	22	1.95
1299464--1299537	35	2.1	35	89	0	112	39	24	1	35	1.64
1299901--1299941	22	1.9	22	85	5	57	36	7	0	56	1.27
1299934--1300181	130	1.9	130	91	0	406	36	15	12	35	1.86
1300108--1300154	23	2.1	21	84	7	58	36	14	14	34	1.88
1299948--1300212	130	2.0	129	80	4	291	39	13	13	33	1.83
1300507--1300569	28	2.3	27	81	8	72	44	1	3	50	1.27
1300649--1300682	16	2.0	18	88	11	54	64	5	2	26	1.30
1310835--1310920	20	4.3	19	80	10	82	26	30	26	16	1.97
1316463--1316542	40	2.0	40	100	0	160	35	25	5	35	1.78
1316673--1316728	21	2.6	21	83	8	69	30	25	19	25	1.98
1322039--1322086	22	2.2	22	96	0	87	27	35	20	16	1.94
1322816--1322873	21	2.7	21	84	7	73	25	27	18	27	1.98
1324218--1324251	17	2.0	17	88	0	50	58	0	38	2	1.13
1333366--1333390	6	4.2	6	100	0	50	0	68	16	16	1.22
1347371--1347395	2	12.5	2	100	0	50	52	0	0	48	1.00
1349455--1349573	57	2.1	57	100	0	238	33	13	21	31	1.92
1352936--1352997	25	2.6	24	85	10	83	48	0	6	45	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1356936--1356974	2	19.5	2	100	0	78	48	0	51	0	1.00
1359932--1359990	21	2.8	21	97	0	109	28	27	20	23	1.99
1361175--1361306	30	4.4	30	94	0	212	21	21	25	31	1.98
1366959--1366986	7	4.0	7	100	0	56	28	57	0	14	1.38
1375537--1375659	61	2.0	61	100	0	246	43	24	14	17	1.87
1381317--1381346	12	2.4	13	94	5	53	46	6	0	46	1.29
1384415--1384463	25	2.0	25	91	0	80	32	20	26	20	1.97
1389017--1389041	13	1.9	13	100	0	50	0	12	0	88	0.53
1389763--1389794	2	16.0	2	93	0	55	53	0	0	46	1.00
1392579--1392606	3	9.3	3	100	0	56	0	0	32	67	0.91
1395089--1395142	27	2.0	27	96	0	99	33	27	3	35	1.75
1395435--1395486	2	26.5	2	96	3	97	50	0	0	50	1.00
1395868--1395895	12	2.3	12	100	0	56	50	0	0	50	1.00
1396101--1396294	51	3.8	50	79	5	210	25	11	14	47	1.79
1396111--1396296	101	1.8	101	84	0	255	24	10	15	48	1.77
1396560--1396606	14	3.4	14	73	2	51	29	0	2	68	1.02
1396553--1396605	27	2.0	27	88	7	81	32	0	1	66	1.03
1397548--1397605	28	2.1	28	83	0	71	37	13	8	39	1.76
1397756--1397816	30	2.0	30	90	6	97	42	3	16	37	1.64
1397862--1397899	20	1.9	20	89	10	60	28	5	18	47	1.70
1411214--1411288	24	3.2	24	64	17	66	28	33	21	17	1.96
1413253--1413327	22	3.6	20	75	20	66	57	1	1	40	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1413253--1413285	17	1.9	17	88	11	50	54	0	0	45	0.99
1432400--1432516	58	2.0	60	83	6	150	35	8	24	30	1.86
1447567--1448169	319	1.9	315	88	1	918	48	6	2	41	1.43
1452882--1452934	26	2.0	26	89	7	81	43	3	30	22	1.71
1456240--1456289	23	2.2	23	88	0	73	32	12	6	50	1.64
1457581--1457662	6	13.8	6	92	2	121	54	0	45	0	0.99
1459279--1459329	17	3.1	16	77	13	50	43	0	0	56	0.99
1460756--1460806	23	2.3	23	80	10	61	60	1	1	35	1.19
1460773--1460842	23	3.2	21	76	15	63	51	1	0	47	1.09
1460799--1460849	25	2.0	26	88	3	77	49	0	0	50	1.00
1460827--1460874	19	2.5	19	82	3	60	39	2	0	58	1.10
1460827--1460869	19	2.2	20	87	4	61	39	2	0	58	1.11
1460963--1461007	23	2.0	23	90	0	72	57	2	0	40	1.11
1460975--1461019	23	2.0	23	81	0	54	51	6	4	37	1.49
1461030--1461111	21	3.7	25	73	20	67	53	2	0	43	1.13
1461071--1461110	19	2.0	20	86	13	57	55	0	0	45	0.99
1461892--1461919	7	4.0	7	100	0	56	28	14	28	28	1.95
1462120--1462159	19	2.1	19	86	9	55	30	7	10	52	1.62
1463843--1463882	19	2.1	19	86	9	55	30	7	7	55	1.56
1465571--1465610	19	2.1	19	86	9	55	30	7	10	52	1.62
1465829--1465854	13	2.0	13	100	0	52	23	7	38	30	1.83
1467303--1467342	19	2.1	19	86	9	55	30	7	10	52	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1483246--1483372	20	6.4	20	91	1	211	38	23	18	19	1.93
1483618--1483652	16	2.1	18	89	10	56	17	0	5	77	0.96
1483852--1483902	20	2.5	20	77	0	57	15	13	19	50	1.77
1484276--1484388	22	4.8	23	75	18	83	49	0	0	48	1.13
1484287--1484364	30	2.5	32	80	18	92	47	1	0	51	1.09
1484287--1484364	32	2.5	31	82	16	90	47	1	0	51	1.09
1484298--1484444	52	2.7	53	78	15	142	47	1	1	49	1.18
1484610--1484679	20	3.5	20	96	0	131	35	14	10	40	1.79
1484610--1484688	40	2.0	40	89	0	122	35	15	8	40	1.78
1484662--1484728	15	4.5	15	81	3	82	34	17	7	40	1.78
1484662--1484733	30	2.4	29	93	2	126	31	18	6	43	1.76
1484662--1484746	29	2.9	30	84	3	84	34	17	8	40	1.80
1486795--1486893	42	2.4	42	84	0	126	23	33	20	23	1.97
1486795--1486893	21	4.7	21	77	5	101	23	33	20	23	1.97
1488314--1488343	14	2.1	14	93	0	51	36	0	16	46	1.47
1488264--1488402	66	2.2	63	83	7	167	33	0	17	48	1.53
1488685--1488771	39	2.2	39	95	0	156	17	14	21	45	1.84
1489081--1489117	18	2.1	18	89	0	56	51	10	8	29	1.65
1489602--1489651	20	2.5	20	93	0	82	14	22	22	42	1.88
1492213--1492266	24	2.2	24	83	0	63	38	22	16	22	1.93
1492232--1492280	24	2.0	24	84	0	62	36	20	18	24	1.94
1493416--1493571	64	2.4	65	79	11	178	35	19	18	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1493949--1494058	29	3.8	29	95	2	195	45	16	20	17	1.85
1494143--1494176	15	2.3	15	89	0	50	17	20	29	32	1.96
1495184--1495221	16	2.5	15	84	12	51	65	0	5	28	1.14
1495360--1495429	19	3.7	19	90	0	95	24	8	24	42	1.82
1495398--1495504	20	5.4	20	81	8	105	21	14	24	40	1.90
1495398--1495511	60	1.9	59	84	10	151	22	13	24	39	1.90
1495495--1495544	20	2.5	20	83	0	64	24	12	36	28	1.91
1500046--1500083	20	1.9	20	88	0	58	21	26	10	42	1.85
1500437--1500872	221	2.0	218	89	5	671	24	11	27	37	1.89
1500835--1500896	28	2.2	28	97	2	117	12	9	33	43	1.76
1501465--1501524	18	3.3	18	88	4	77	28	26	5	40	1.77
1501445--1501524	36	2.3	34	82	8	90	28	27	5	38	1.78
1501799--1501840	21	1.9	23	85	9	61	45	14	9	30	1.77
1501977--1502007	15	2.1	15	93	0	53	51	6	3	38	1.44
1502322--1502390	27	2.6	27	97	0	129	39	4	4	52	1.41
1502918--1502970	25	2.1	25	100	0	106	56	11	13	18	1.66
1519926--1519955	2	15.0	2	100	0	60	50	0	0	50	1.00
1531649--1531685	19	2.1	18	85	14	51	35	2	0	62	1.10
1533036--1533107	37	2.0	36	81	8	83	45	2	1	50	1.25
1533797--1533915	24	4.8	23	69	23	80	55	0	1	42	1.15
1533797--1533917	16	7.3	16	67	21	63	54	0	1	42	1.16
1533799--1533932	53	2.5	55	82	10	152	54	0	1	43	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1533796--1533930	25	5.3	26	73	15	113	53	0	1	44	1.15
1534385--1534438	23	2.4	23	78	3	56	9	14	16	59	1.60
1534399--1534444	23	2.0	22	87	4	65	8	10	19	60	1.55
1548209--1548243	2	18.0	2	94	5	63	51	0	0	48	1.00
1548733--1548774	2	21.0	2	100	0	84	50	0	0	50	1.00
1551741--1551852	38	2.9	38	91	0	170	23	18	27	30	1.98
1554394--1554419	2	13.0	2	100	0	52	50	0	0	50	1.00
1554945--1555031	39	2.2	39	93	0	147	48	18	13	19	1.81
1555205--1555244	20	2.0	20	90	0	62	40	25	20	15	1.90
1555350--1555492	66	2.2	65	84	7	195	51	16	1	30	1.53

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