genome.fa.s4507.2.7.7.80.10.50.1000.7.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: VEPZ01004507.1 Hibiscus syriacus cultivar Beakdansim tig00009942_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1776135

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 904 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)
1370259--1370306	24	2.0	23	84	11	62	64	0	0	35	0.94
1379995--1380026	2	16.0	2	100	0	64	50	0	0	50	1.00
1386512--1386657	21	7.1	21	67	4	100	19	16	24	39	1.92
1386516--1386657	41	3.5	41	92	0	239	20	16	23	38	1.93
1386530--1386704	82	2.1	82	83	4	210	24	16	22	37	1.93
1389128--1389171	2	22.0	2	100	0	88	50	0	0	50	1.00
1393654--1393728	10	7.5	10	70	18	50	32	1	1	65	1.09
1393656--1393704	25	1.9	25	83	4	62	30	0	2	67	1.02
1393659--1393721	16	3.9	16	71	20	51	31	0	1	66	1.01
1393657--1393719	33	2.0	31	84	12	83	31	0	1	66	1.01
1399504--1399545	16	2.6	16	80	0	57	54	2	2	40	1.26
1407050--1407088	21	1.9	21	84	5	53	53	20	20	5	1.64
1412779--1412812	2	17.0	2	100	0	68	50	0	0	50	1.00
1413292--1413327	10	3.8	10	92	7	58	16	5	0	77	0.94
1419870--1420089	114	1.9	114	90	1	352	33	15	21	29	1.95
1422130--1422285	54	2.9	54	96	0	276	35	16	25	21	1.94
1423210--1423577	182	2.0	184	92	1	614	32	14	14	39	1.85
1423518--1423932	76	5.5	75	93	2	704	23	20	21	34	1.96
1423518--1423932	151	2.7	151	95	0	731	23	20	21	34	1.96
1424064--1424114	3	16.3	3	80	8	57	41	0	0	58	0.98
1424056--1424106	25	2.0	25	88	7	77	45	0	0	54	0.99
1424053--1424139	28	3.0	28	80	14	88	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1425795--1425830	2	18.0	2	100	0	72	50	0	0	50	1.00
1427760--1427793	18	1.9	17	88	5	50	47	5	2	44	1.42
1434117--1434256	36	3.9	36	90	1	210	20	25	23	31	1.98
1437288--1437325	20	1.9	20	89	10	60	55	0	2	42	1.14
1442157--1442185	14	2.1	14	93	6	51	37	0	0	62	0.96
1451534--1451574	20	2.0	20	86	9	57	56	0	2	41	1.13
1453863--1453890	2	14.0	2	100	0	56	50	0	0	50	1.00
1460435--1460498	25	2.6	25	85	5	85	64	1	3	31	1.19
1460435--1460493	24	2.4	24	88	2	82	64	0	3	32	1.10
1466651--1466694	2	22.0	2	100	0	88	50	0	0	50	1.00
1469218--1469289	21	3.3	21	66	21	58	44	25	4	26	1.72
1469581--1469620	21	1.9	21	89	0	62	35	15	27	22	1.94
1471982--1472095	39	2.9	38	85	3	138	28	42	8	20	1.81
1483983--1484124	58	2.4	59	79	10	148	40	4	20	35	1.72
1493686--1493715	15	2.0	15	93	0	51	63	0	0	36	0.95
1494437--1494781	171	2.0	172	99	0	683	32	23	4	38	1.76
1495497--1495687	96	2.0	95	98	1	373	30	19	20	28	1.98
1496491--1496525	16	2.3	15	95	5	61	80	5	8	5	1.03
1498238--1498354	58	2.0	57	95	4	209	32	20	25	21	1.97
1504598--1504666	34	2.0	34	94	0	120	43	10	13	33	1.77
1504786--1504833	25	1.9	25	82	0	60	56	2	0	41	1.11
1505578--1505619	22	1.9	22	85	9	59	69	0	2	28	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1505687--1505712	2	13.0	2	100	0	52	50	0	0	50	1.00
1506922--1506962	18	2.3	18	91	8	66	73	2	0	24	0.96
1506930--1506969	18	2.3	17	86	4	53	72	5	2	20	1.15
1506967--1507024	2	29.0	2	86	13	84	48	1	1	48	1.22
1506967--1507024	27	2.1	27	90	6	91	48	1	1	48	1.22
1507102--1507479	38	9.6	36	77	14	281	43	7	3	45	1.49
1507101--1507334	76	3.0	77	91	2	362	42	6	3	47	1.45
1507102--1507496	76	5.1	75	80	12	354	43	7	3	45	1.50
1507338--1507479	36	3.8	36	81	7	124	45	8	4	41	1.54
1507529--1507559	15	2.0	16	93	6	55	74	6	0	19	1.03
1507705--1507764	31	1.9	31	89	3	93	30	6	13	50	1.67
1509569--1509617	19	2.5	20	86	3	64	48	6	14	30	1.67
1511556--1511593	20	1.9	20	100	0	76	47	34	5	13	1.65
1512693--1512889	40	4.9	40	87	3	263	23	22	17	36	1.94
1512631--1512900	20	13.3	20	82	6	235	27	21	18	32	1.96
1513763--1513816	24	2.2	24	93	0	90	20	18	20	40	1.91
1516281--1516353	20	3.6	20	72	17	78	34	24	17	23	1.96
1516347--1516445	19	5.8	18	68	23	70	44	18	23	14	1.86
1516347--1516438	33	2.8	33	93	0	148	45	18	22	13	1.84
1516450--1516529	33	2.4	33	91	0	124	10	20	22	47	1.79
1516469--1516529	19	3.5	19	70	21	60	11	21	21	45	1.82
1516636--1516672	14	2.6	14	91	0	65	45	21	0	32	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1518417--1518480	19	3.4	18	75	8	65	12	18	25	43	1.85
1518428--1518495	19	3.5	19	87	2	91	8	22	22	47	1.78
1518565--1518621	19	2.9	20	84	5	80	8	17	24	49	1.75
1518566--1518647	39	2.1	39	84	4	103	9	19	19	51	1.74
1518566--1518647	20	4.2	19	85	4	101	9	19	19	51	1.74
1518736--1519111	94	4.1	94	94	2	629	47	18	12	21	1.81
1520784--1520952	14	9.8	19	69	22	108	46	19	22	11	1.81
1520784--1520921	33	4.0	33	85	6	168	46	19	22	11	1.82
1520862--1520954	47	2.0	47	97	0	177	47	19	22	10	1.80
1520953--1521045	33	2.8	33	86	1	114	12	21	22	43	1.87
1521587--1521829	20	11.6	20	72	9	130	27	19	18	34	1.95
1521587--1521680	41	2.3	40	81	5	109	21	19	18	41	1.90
1521691--1521745	28	2.0	28	85	3	76	38	21	20	20	1.94
1521668--1521762	48	2.0	47	91	2	154	37	20	20	22	1.94
1521718--1521871	21	7.6	20	77	5	85	30	18	22	28	1.97
1521751--1521829	41	2.0	40	89	2	122	22	20	18	37	1.94
1521739--1521844	41	2.6	41	83	4	117	27	19	19	33	1.96
1529928--1530021	47	2.0	47	100	0	188	40	6	27	25	1.80
1531549--1531619	21	3.3	21	68	14	63	19	28	21	30	1.97
1531525--1531645	44	2.7	44	92	3	190	22	26	20	30	1.98
1531570--1531649	23	3.6	23	67	13	67	23	28	21	26	1.99
1532065--1532101	2	18.5	2	100	0	74	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1534335--1534494	65	2.5	63	85	6	214	30	23	19	26	1.98
1535842--1536459	84	7.4	83	82	1	556	23	17	23	34	1.96
1535931--1536459	252	2.1	250	83	2	639	23	18	24	34	1.96
1536756--1536916	66	2.5	66	83	4	193	31	23	16	27	1.96
1537158--1537201	11	4.4	10	81	18	56	59	9	22	9	1.56
1537151--1537198	19	2.6	19	96	3	89	58	10	20	10	1.60
1544603--1545155	84	6.6	84	81	2	621	22	19	24	33	1.97
1544603--1545155	168	3.3	167	86	2	718	22	19	24	33	1.97
1545661--1545695	18	1.9	18	88	0	52	74	0	8	17	1.06
1545664--1545953	14	20.4	14	70	15	89	71	3	8	15	1.24
1545735--1545951	10	20.9	10	66	22	58	73	3	6	16	1.20
1545853--1545952	23	4.8	21	73	25	77	78	5	1	16	0.99
1545860--1545952	26	3.6	25	72	20	82	78	4	1	16	0.96
1545818--1545951	53	2.5	51	80	12	128	75	5	3	15	1.13
1545873--1545947	13	5.6	13	89	7	107	78	5	0	16	0.92
1546012--1546067	23	2.6	21	82	5	67	75	0	10	14	1.06
1545995--1546100	38	2.7	38	79	13	101	73	1	9	15	1.17
1546053--1546105	25	2.1	26	82	3	63	75	1	7	15	1.11
1546033--1546111	15	5.2	15	67	18	56	74	1	7	16	1.11
1550506--1550693	64	3.0	64	84	4	238	30	19	19	30	1.96
1556493--1556552	21	2.7	23	78	14	72	26	21	21	30	1.99
1556493--1556556	23	2.9	22	80	13	78	26	23	21	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1559206--1559393	64	3.0	64	85	4	256	30	19	18	30	1.96
1565135--1565202	27	2.6	27	95	4	122	30	11	16	41	1.84
1577444--1577847	130	3.0	132	93	5	665	30	17	16	35	1.92
1578184--1578224	3	13.7	3	100	0	82	65	0	0	34	0.93
1579564--1579598	2	17.5	2	100	0	70	48	0	0	51	1.00
1581084--1581125	2	21.0	2	100	0	84	50	0	0	50	1.00
1586641--1586700	30	2.0	30	96	0	111	31	3	23	41	1.71
1587132--1587157	2	13.0	2	100	0	52	50	0	0	50	1.00
1589042--1589082	16	2.6	16	88	3	57	31	21	9	36	1.86
1589741--1589883	30	4.8	29	72	11	103	57	1	2	38	1.22

Tables:   1   2   3   4   5   6   7   8