genome.fa.s4693.2.7.7.80.10.50.1000.7.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: VEPZ01004693.1 Hibiscus syriacus cultivar Beakdansim tig00010533_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2620943

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

This is table  7  of  12  ( 1372 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)
1332682--1332716	18	1.9	18	88	0	52	51	0	0	48	1.00
1337079--1337124	13	3.5	13	82	5	56	47	6	0	45	1.28
1337103--1337172	32	2.2	33	80	10	81	55	2	2	38	1.29
1341339--1341424	43	2.0	43	97	0	163	24	34	18	22	1.96
1344746--1344772	2	13.5	2	100	0	54	48	0	0	51	1.00
1347417--1347446	9	3.2	9	90	9	51	70	0	0	30	0.88
1347417--1347458	19	2.2	19	87	8	59	71	2	0	26	0.98
1347448--1347488	15	2.7	15	76	0	55	73	0	0	26	0.84
1348275--1348331	15	3.7	15	77	9	60	22	31	26	19	1.98
1348289--1348343	17	3.4	17	75	10	60	23	32	25	18	1.97
1348275--1348343	32	2.2	32	91	0	111	23	30	26	20	1.98
1356496--1356553	26	2.2	26	81	6	73	32	10	1	55	1.44
1356947--1356987	21	1.9	22	85	5	57	58	0	2	39	1.11
1356946--1356992	21	2.2	21	77	7	51	57	0	2	40	1.11
1364609--1364675	29	2.3	29	92	2	116	56	8	10	23	1.61
1364982--1365050	16	4.6	16	71	21	53	66	1	0	31	1.00
1364992--1365035	19	2.2	21	80	15	58	65	0	0	34	0.93
1365013--1365061	26	2.0	24	88	8	71	65	2	0	32	1.04
1368718--1368767	2	25.0	2	100	0	100	50	0	0	50	1.00
1370017--1370059	18	2.4	18	88	0	59	72	0	4	23	1.04
1373256--1373285	15	2.0	15	93	0	51	53	3	6	36	1.44
1375201--1375241	6	6.8	6	100	0	82	34	48	17	0	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1375589--1375671	41	2.0	42	88	2	123	42	21	18	18	1.90
1375589--1375651	19	3.0	22	72	13	69	38	22	19	20	1.94
1375643--1375694	20	2.6	20	90	0	86	48	23	19	9	1.78
1400014--1400054	21	1.9	22	85	5	57	41	9	2	46	1.50
1407422--1407493	2	36.0	2	100	0	144	50	0	0	50	1.00
1411133--1411300	42	4.1	42	96	3	308	14	31	11	42	1.82
1411535--1411612	40	2.0	40	89	5	122	41	12	7	38	1.72
1412954--1413109	63	2.7	54	77	16	195	17	18	35	28	1.94
1412991--1413152	63	2.5	64	88	3	227	17	19	37	25	1.94
1414211--1414331	34	3.6	34	91	2	174	31	38	21	8	1.83
1416220--1416263	17	2.6	17	77	0	52	59	0	0	40	0.98
1417935--1418035	18	5.6	18	81	0	112	46	28	22	1	1.63
1417986--1418041	18	3.1	18	82	5	60	51	25	23	0	1.48
1418052--1418099	24	2.0	24	92	8	80	16	54	18	10	1.70
1419498--1419531	2	17.0	2	100	0	68	50	0	0	50	1.00
1420312--1420409	41	2.4	41	81	10	112	36	24	18	20	1.94
1420411--1420455	19	2.3	20	84	7	65	28	15	28	26	1.96
1428900--1428962	32	2.0	32	93	0	108	47	20	3	28	1.65
1433480--1433613	6	22.7	6	94	3	236	35	14	0	50	1.44
1435544--1435594	16	3.2	16	91	0	75	27	5	25	41	1.78
1435552--1435599	4	12.0	4	95	0	78	25	4	25	45	1.71
1437638--1437672	11	3.1	11	87	4	52	42	2	0	54	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1439137--1439171	18	1.9	18	88	0	52	60	17	14	8	1.58
1443338--1443409	35	2.0	37	89	5	112	19	30	29	20	1.97
1443975--1444069	31	3.1	31	96	0	181	20	17	23	38	1.93
1444980--1445066	23	3.8	23	92	0	138	26	25	28	19	1.99
1445082--1445299	103	2.1	103	95	0	391	36	23	13	25	1.92
1446069--1446225	64	2.5	64	76	11	160	25	19	21	33	1.97
1447392--1447448	25	2.3	25	100	0	114	40	21	7	31	1.80
1450711--1450775	23	2.8	23	90	0	103	24	24	29	21	1.99
1450790--1451006	103	2.1	102	93	0	362	38	23	12	25	1.90
1452708--1452777	31	2.3	31	85	5	88	21	17	24	37	1.94
1454532--1454592	18	3.4	18	95	4	115	52	22	4	19	1.65
1456577--1456645	35	1.9	36	97	2	131	18	31	26	23	1.97
1457211--1457332	62	2.0	62	91	0	199	21	16	22	39	1.92
1457211--1457335	31	4.0	31	90	2	180	20	16	23	39	1.92
1460537--1460566	2	15.0	2	100	0	60	50	0	0	50	1.00
1463442--1463473	8	3.9	8	95	4	55	75	0	0	25	0.81
1465546--1465643	3	32.7	3	95	0	178	33	2	0	64	1.05
1465639--1465670	11	2.8	11	95	4	55	56	0	0	43	0.99
1466074--1466111	19	1.9	19	89	5	58	63	10	26	0	1.27
1478357--1478424	9	8.2	8	83	16	86	83	0	14	1	0.71
1478357--1478422	17	3.9	17	86	4	89	83	0	15	1	0.72
1478357--1478424	33	2.1	33	86	10	95	83	0	14	1	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1479568--1480305	82	9.0	82	97	0	1343	28	13	22	35	1.93
1481113--1481662	113	4.9	113	95	0	933	37	13	18	29	1.89
1481982--1482097	3	38.7	3	98	0	223	33	0	0	65	0.99
1482093--1482124	11	2.8	11	95	4	55	56	0	0	43	0.99
1482545--1482582	19	1.9	19	89	5	58	63	10	26	0	1.27
1483547--1483587	17	2.3	18	91	4	66	46	2	2	48	1.28
1487248--1487434	94	2.0	92	93	2	320	24	20	22	32	1.98
1489103--1489170	33	2.1	33	97	0	127	25	20	17	36	1.94
1491126--1491190	2	32.5	2	100	0	130	49	0	0	50	1.00
1491422--1491446	2	12.5	2	100	0	50	52	0	0	48	1.00
1492586--1492617	2	16.0	2	93	0	55	50	0	3	46	1.17
1498976--1499096	60	2.0	60	90	3	190	32	9	18	40	1.82
1499799--1499843	21	2.1	21	87	0	63	31	28	24	15	1.96
1501140--1501325	31	6.1	31	96	1	317	21	22	25	30	1.99
1501152--1501336	60	3.0	61	88	7	245	20	23	25	30	1.98
1502985--1503023	7	5.6	7	85	11	53	46	28	0	25	1.53
1502985--1503023	14	2.8	14	88	0	60	46	28	0	25	1.53
1504585--1504660	12	6.6	12	76	7	68	34	18	21	26	1.96
1504606--1504661	23	2.4	23	87	0	85	35	21	19	23	1.96
1508821--1508860	20	2.0	20	95	0	71	42	10	32	15	1.79
1511120--1511163	2	22.0	2	95	0	79	47	2	0	50	1.13
1515501--1515547	10	4.6	10	75	15	51	55	4	2	38	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1515597--1515668	29	2.4	31	86	6	94	41	2	4	51	1.35
1515598--1515705	32	3.5	32	80	8	84	40	2	6	50	1.43
1516494--1516604	22	5.2	22	75	13	90	20	16	24	38	1.92
1516516--1516635	63	1.9	63	91	0	195	21	15	21	40	1.90
1516734--1516848	41	2.8	42	82	10	114	39	23	17	20	1.92
1516789--1516852	21	3.1	21	75	4	76	37	26	17	18	1.93
1517077--1517122	22	2.0	22	87	8	65	19	19	13	47	1.81
1526556--1526590	17	2.0	17	88	5	52	22	2	2	71	1.13
1538832--1538952	43	2.8	44	74	2	127	32	28	16	22	1.96
1538736--1539301	186	3.0	185	93	1	965	32	27	16	24	1.96
1539643--1539681	18	2.2	18	95	0	69	28	43	17	10	1.82
1540554--1540588	17	2.0	17	88	5	52	22	2	2	71	1.13
1546318--1546354	10	3.6	10	85	7	56	43	0	8	48	1.32
1546313--1546362	21	2.4	21	96	0	91	42	2	10	46	1.49
1552009--1552091	30	2.8	30	81	3	98	31	21	14	32	1.93
1556150--1556924	139	5.6	138	86	1	1023	25	19	22	33	1.97
1556176--1556925	277	2.7	275	87	1	1070	25	19	22	33	1.97
1557934--1558024	21	4.3	21	88	5	121	25	23	30	20	1.98
1559832--1559907	31	2.4	31	84	6	89	59	0	0	40	0.98
1564660--1564706	22	2.1	23	88	4	69	23	12	25	38	1.90
1569086--1569120	18	1.9	18	88	0	52	37	0	5	57	1.23
1573460--1573524	31	2.1	32	91	2	105	38	4	15	41	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1573715--1573759	20	2.3	19	81	11	54	64	4	4	26	1.32
1576619--1576645	6	4.5	6	100	0	54	29	0	0	70	0.88
1581193--1581272	2	40.0	2	100	0	160	50	0	0	50	1.00
1589972--1590020	20	2.6	19	81	15	57	22	2	16	59	1.47
1595933--1595980	23	2.1	23	100	0	96	47	8	12	31	1.71
1604110--1604167	26	2.2	26	87	3	80	24	13	25	36	1.92
1608644--1608687	20	2.2	20	95	0	79	43	11	15	29	1.82
1612372--1612554	83	2.4	77	81	11	205	30	20	17	31	1.96
1613315--1613357	17	2.5	17	75	10	52	30	6	2	60	1.35
1614985--1615018	2	17.0	2	100	0	68	50	0	0	50	1.00

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