genome.fa.s8166.2.7.7.80.10.50.1000.7.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: VEPZ01008166.1 Hibiscus syriacus cultivar Beakdansim tig00110747_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2544747

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

This is table  7  of  10  ( 1195 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)
1263080--1263113	16	2.1	16	100	0	68	32	5	32	29	1.81
1269605--1269629	2	12.5	2	100	0	50	52	0	0	48	1.00
1269675--1269751	26	3.0	27	79	7	72	51	3	2	41	1.34
1269711--1269753	12	3.0	15	87	12	56	53	0	2	44	1.13
1275168--1275385	103	2.1	103	97	0	409	25	12	24	37	1.91
1275402--1275458	23	2.5	23	85	0	78	15	26	28	29	1.96
1282007--1282224	103	2.1	103	95	0	391	25	11	24	38	1.90
1282248--1282308	23	2.7	23	84	0	77	18	24	26	31	1.97
1295253--1295282	15	2.0	15	93	0	51	36	20	3	40	1.69
1296662--1296705	18	2.4	18	88	0	61	18	4	36	40	1.71
1301516--1301555	21	1.9	21	100	0	80	40	25	0	35	1.56
1324866--1325277	54	7.7	54	86	2	519	34	19	16	28	1.94
1331776--1332140	54	6.8	54	85	2	493	31	18	19	30	1.96
1334809--1334854	20	2.2	21	84	7	58	41	4	10	43	1.59
1335194--1335222	13	2.2	13	100	0	58	51	0	6	41	1.28
1342367--1342411	9	5.2	9	78	10	58	13	2	0	84	0.72
1342372--1342409	16	2.4	16	91	8	60	13	2	0	84	0.73
1342365--1342411	21	2.3	20	85	10	60	14	2	0	82	0.75
1345073--1345253	65	2.8	64	77	9	199	27	18	23	30	1.98
1349623--1349723	36	2.8	36	82	5	107	23	17	15	42	1.88
1349959--1350138	20	8.9	20	73	6	121	34	17	18	29	1.94
1349949--1350184	121	2.0	121	88	0	355	33	18	19	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1350127--1350226	42	2.4	42	86	1	130	36	19	20	25	1.95
1357824--1357925	21	4.8	22	81	12	115	25	31	25	17	1.97
1357823--1357925	43	2.4	43	80	7	113	26	31	25	17	1.97
1357887--1357924	20	2.0	20	89	5	60	26	36	26	10	1.89
1363474--1363498	11	2.3	11	100	0	50	16	16	0	68	1.22
1368240--1368290	23	2.3	23	86	6	79	19	21	41	17	1.91
1378952--1379460	201	2.5	201	83	3	632	32	18	22	26	1.97
1381000--1381052	27	2.0	27	82	14	65	13	5	1	79	0.99
1381000--1381047	17	2.8	17	78	15	53	14	4	2	79	0.98
1380999--1381047	9	5.5	8	81	18	53	14	4	2	79	0.97
1381017--1381061	22	2.0	22	82	0	54	20	4	0	75	0.97
1381029--1381192	50	3.4	46	76	11	168	17	7	9	66	1.42
1381127--1381166	21	1.9	21	84	0	53	20	10	2	67	1.31
1381027--1381191	49	3.3	47	74	18	140	16	7	9	66	1.41
1385207--1385293	32	2.6	32	80	10	86	47	6	0	45	1.29
1385301--1385538	68	3.4	70	78	11	247	46	6	3	43	1.45
1385294--1385540	104	2.3	105	82	7	286	45	6	3	44	1.47
1386217--1386975	80	9.2	80	81	6	827	25	20	23	30	1.98
1386152--1386995	249	3.4	247	89	3	1141	25	20	23	30	1.98
1386229--1387017	333	2.4	331	88	2	1154	24	20	24	30	1.99
1393653--1393929	37	7.7	36	77	11	266	45	6	3	44	1.46
1393577--1393776	97	2.1	96	79	9	219	47	5	2	46	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1393659--1393929	141	1.9	142	88	7	417	46	6	3	44	1.45
1395728--1395810	37	2.2	37	93	0	139	53	15	15	15	1.74
1396262--1396337	29	2.6	29	87	4	100	18	35	31	14	1.91
1396404--1396493	45	2.0	45	100	0	180	20	17	37	24	1.93
1396973--1397016	21	2.1	21	91	0	70	29	0	15	54	1.42
1396993--1397045	27	1.9	28	92	3	90	30	0	13	56	1.37
1397015--1397121	46	2.5	41	83	11	126	42	0	8	48	1.39
1397030--1397121	41	2.1	45	86	9	129	42	1	8	47	1.41
1397531--1397588	16	3.4	16	71	17	53	37	0	12	50	1.40
1397548--1397594	21	2.3	21	85	3	60	38	0	8	53	1.32
1400725--1401013	11	23.9	11	70	20	86	43	2	8	45	1.48
1400789--1400953	25	6.7	25	77	10	144	44	3	9	42	1.52
1400731--1400997	122	2.2	122	89	4	407	43	2	9	44	1.48
1400943--1401029	38	2.4	37	81	9	99	41	2	4	51	1.35
1400966--1401039	38	1.9	38	83	5	96	45	4	5	44	1.45
1401130--1401162	17	1.9	17	93	0	57	36	6	12	45	1.66
1402066--1402113	23	2.1	23	84	0	60	60	2	2	35	1.20
1403312--1403358	16	3.0	16	84	9	53	59	10	0	29	1.31
1403399--1403462	34	1.9	33	84	9	85	50	12	0	37	1.41
1403513--1403612	45	2.1	48	83	8	136	49	12	0	39	1.40
1403813--1403852	21	2.0	21	95	5	73	0	40	0	60	0.97
1403862--1403907	23	2.0	23	100	0	92	8	34	4	52	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1404018--1404070	27	2.0	27	100	0	106	26	20	22	30	1.98
1404145--1404253	29	3.8	29	91	2	157	22	32	30	14	1.94
1404252--1404394	70	2.0	70	100	0	286	11	33	20	34	1.88
1404354--1404418	11	6.1	11	69	25	50	13	24	26	35	1.93
1404333--1404416	42	2.0	42	100	0	168	11	28	26	33	1.92
1410088--1410134	18	2.5	19	75	6	51	31	23	14	29	1.95
1415665--1415712	20	2.4	20	82	6	62	29	12	25	33	1.92
1421197--1421318	59	2.1	59	85	0	163	29	23	18	28	1.97
1421502--1421756	122	2.1	122	96	0	465	36	17	11	34	1.85
1422132--1422195	29	2.2	29	85	2	83	32	23	6	37	1.80
1423450--1423927	81	5.9	81	84	3	570	28	23	11	37	1.89
1423877--1424064	68	2.8	68	87	1	270	30	24	14	30	1.94
1424835--1424886	19	2.7	19	96	3	95	26	25	17	30	1.97
1428993--1429635	81	7.9	81	86	0	813	28	24	11	35	1.90
1429582--1429909	68	4.8	68	88	0	458	28	24	15	30	1.96
1430741--1430787	21	2.4	19	83	16	69	31	21	19	27	1.97
1430749--1430790	21	2.0	21	100	0	84	33	23	14	28	1.94
1433707--1433751	19	2.4	19	100	0	90	31	13	26	28	1.94
1434834--1434884	25	2.0	25	85	7	68	35	5	15	43	1.71
1435021--1435161	70	2.0	70	84	0	183	26	12	22	37	1.91
1446266--1446386	59	2.1	59	82	0	143	30	19	17	32	1.95
1451479--1451623	20	7.5	20	70	17	101	33	15	22	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1452019--1452422	59	6.9	59	89	0	605	33	14	20	31	1.93
1457072--1457150	37	2.1	37	97	0	149	34	20	21	24	1.97
1458701--1458732	16	1.9	17	93	6	57	12	6	25	56	1.59
1480612--1480650	21	1.9	20	84	5	51	28	17	17	35	1.94
1487556--1487615	23	2.6	24	79	12	72	60	5	0	35	1.19
1488753--1488787	18	1.9	18	88	0	52	22	2	2	71	1.13
1488832--1488893	5	11.4	5	77	16	52	19	6	1	72	1.15
1488832--1488893	22	2.8	22	82	2	79	19	6	1	72	1.15
1488930--1488988	32	1.9	30	83	13	75	10	13	1	74	1.14
1490696--1490738	22	2.0	22	81	9	52	60	2	9	27	1.40
1496797--1496827	2	15.0	2	93	6	53	48	0	3	48	1.17
1504001--1504222	117	1.9	117	83	3	286	49	4	13	31	1.63
1508434--1508466	16	1.9	17	88	11	50	36	0	3	60	1.12
1516146--1516170	3	8.3	3	100	0	50	64	0	0	36	0.94
1517754--1518612	84	10.2	84	81	2	981	25	19	21	33	1.97
1517754--1518612	250	3.4	251	83	2	1049	25	19	21	33	1.97
1519796--1520189	153	2.6	152	81	4	445	36	28	12	21	1.91
1520770--1521197	153	2.8	154	82	3	504	35	29	14	21	1.92
1523435--1523478	23	1.9	23	95	0	79	31	20	25	22	1.98
1523470--1523523	14	3.9	14	85	4	65	20	25	31	22	1.98
1531939--1531988	22	2.3	22	85	0	64	38	18	20	24	1.93
1538163--1538209	22	2.1	22	92	0	76	36	6	17	40	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1554899--1554928	14	2.2	13	94	5	51	36	0	20	43	1.52
1562141--1562178	17	2.2	17	90	0	58	42	5	18	34	1.73
1562166--1562200	18	1.9	18	94	0	61	48	2	11	37	1.54
1563901--1563950	18	2.6	19	87	6	75	28	28	16	28	1.97
1565974--1566178	112	1.8	112	89	2	322	26	18	12	42	1.85
1569081--1569123	22	1.9	23	85	4	61	34	25	0	39	1.56
1585392--1585444	17	3.1	17	83	0	79	41	16	5	35	1.73
1588180--1588232	17	3.1	17	79	17	56	35	16	7	39	1.78
1588189--1588244	17	3.2	17	80	7	51	42	12	7	37	1.70
1588948--1588989	22	1.9	22	90	0	66	45	16	7	30	1.74

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