genome.fa.s8693.2.7.7.80.10.50.1000.7.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: VEPZ01008693.1 Hibiscus syriacus cultivar Beakdansim tig00111721_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2243253

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

This is table  7  of  10  ( 1102 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)
1323805--1323836	10	3.2	10	95	0	55	18	6	12	62	1.50
1326683--1326711	14	2.0	15	93	6	51	68	0	6	24	1.13
1333110--1333175	2	33.0	2	100	0	132	50	0	0	50	1.00
1334480--1334658	42	4.1	42	81	11	180	40	11	6	41	1.67
1337473--1337517	22	2.0	22	95	0	81	35	24	17	22	1.95
1346414--1346458	18	2.5	20	75	20	53	28	8	2	60	1.39
1346651--1346866	112	1.9	110	82	3	263	31	11	14	43	1.80
1346885--1346918	14	2.4	14	90	0	50	20	8	5	64	1.43
1349457--1349495	16	2.4	16	78	0	51	28	15	12	43	1.83
1349631--1349676	19	2.5	19	85	3	58	32	8	0	58	1.28
1350266--1350320	23	2.4	23	90	0	83	36	27	12	23	1.91
1350422--1350493	20	3.6	20	84	0	99	56	18	11	13	1.66
1354746--1354820	31	2.4	32	77	6	82	10	25	32	32	1.90
1356414--1356454	18	2.3	18	86	0	55	9	7	39	43	1.65
1356429--1356541	6	18.8	6	76	3	93	3	7	44	44	1.50
1356402--1356538	24	5.7	24	76	6	98	5	8	41	43	1.60
1356426--1356541	18	6.1	18	76	15	117	3	8	43	44	1.51
1356972--1357009	15	2.6	15	80	19	53	47	0	7	44	1.32
1357031--1357073	22	1.9	23	90	4	70	39	4	6	48	1.51
1357088--1357250	2	77.5	2	67	20	75	43	4	6	46	1.48
1357094--1357160	35	1.9	34	88	8	100	43	4	5	46	1.48
1357083--1357197	41	2.8	40	78	13	126	44	5	6	44	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1359755--1359851	24	4.3	23	69	23	71	42	7	8	42	1.62
1359776--1359866	42	2.2	42	93	0	155	40	6	8	43	1.62
1359779--1359848	20	3.4	20	75	14	79	38	7	10	44	1.65
1361937--1362097	64	2.5	64	80	5	193	28	15	26	29	1.96
1368663--1368715	21	2.6	21	82	11	65	35	9	1	52	1.45
1370619--1370831	64	3.3	64	78	7	229	28	17	25	28	1.97
1370619--1370851	128	1.8	129	83	6	312	27	17	25	29	1.98
1371885--1371948	2	32.0	2	100	0	128	50	0	0	50	1.00
1374766--1374825	26	2.3	26	79	2	66	56	3	3	36	1.32
1384239--1384278	10	4.0	10	86	0	53	40	0	32	27	1.57
1387116--1387195	23	3.5	23	92	0	124	27	27	23	21	1.99
1392208--1392266	2	29.5	2	100	0	118	50	0	0	49	1.00
1392554--1392606	23	2.3	23	90	0	88	26	26	28	18	1.98
1395520--1395700	91	2.0	91	95	0	326	34	12	16	37	1.85
1396968--1397006	18	2.2	18	100	0	78	23	23	15	38	1.92
1398719--1398768	18	2.8	18	76	11	57	20	22	34	24	1.97
1401227--1401265	15	2.6	15	100	0	78	56	7	12	23	1.62
1410886--1411205	167	1.9	167	85	0	442	20	16	27	34	1.95
1415664--1415714	21	2.4	22	80	6	61	13	5	5	74	1.19
1415664--1415714	22	2.3	23	80	13	61	13	5	5	74	1.19
1418756--1419753	504	2.0	505	91	1	1606	33	14	22	28	1.94
1422810--1422871	3	20.7	3	79	12	65	37	0	4	58	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1422810--1422869	18	3.3	19	80	17	74	36	0	5	58	1.20
1422806--1422873	24	3.0	23	87	12	97	38	0	4	57	1.19
1422822--1422891	33	2.2	33	81	2	79	41	1	2	54	1.24
1436036--1436137	10	10.0	10	72	17	59	73	0	16	8	1.13
1436048--1436072	7	3.6	7	100	0	50	76	0	12	12	1.04
1436045--1436113	14	5.2	13	70	13	52	76	0	15	7	0.99
1436030--1436123	24	4.0	22	76	16	91	75	0	17	7	1.02
1436069--1436134	32	2.1	32	83	11	82	74	1	18	6	1.10
1437168--1437519	55	6.4	55	91	1	539	31	12	25	30	1.93
1437497--1437754	54	4.7	54	81	4	241	30	18	25	25	1.98
1437944--1438001	3	19.7	3	84	10	75	36	0	3	60	1.14
1437959--1438021	26	2.4	26	84	5	74	41	1	1	55	1.19
1444498--1444555	27	2.1	27	87	6	82	81	0	17	1	0.78
1444395--1444537	76	1.9	76	82	5	182	60	9	20	9	1.55
1444498--1444559	7	9.4	7	83	13	62	80	0	17	1	0.79
1444499--1444559	6	9.5	6	80	16	61	80	0	18	1	0.80
1446215--1446261	2	24.5	2	82	8	62	46	2	0	51	1.13
1447514--1447576	21	3.2	21	76	17	71	17	9	1	71	1.20
1447505--1447618	38	2.9	38	81	12	117	17	7	3	71	1.22
1447725--1447749	11	2.3	11	100	0	50	24	0	0	76	0.80
1454545--1454627	40	2.1	40	95	0	148	34	26	14	24	1.94
1455330--1455394	29	2.2	30	77	2	69	40	21	6	32	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1456636--1456679	20	2.2	20	84	8	54	27	15	18	38	1.91
1468531--1468608	39	2.0	39	82	5	95	30	25	25	17	1.97
1475270--1475358	46	1.9	46	97	0	169	41	14	26	16	1.87
1475350--1475376	11	2.5	11	100	0	54	92	0	7	0	0.38
1475307--1475437	64	2.0	66	88	5	196	54	11	22	11	1.67
1475414--1475463	19	2.5	20	81	15	68	78	0	20	2	0.86
1476204--1476868	105	6.4	106	94	2	1104	33	25	17	23	1.96
1484412--1484474	31	2.0	31	100	0	126	6	44	12	36	1.68
1485908--1485941	7	5.0	7	85	7	52	14	2	41	41	1.61
1490298--1490630	86	3.9	86	77	5	282	37	16	14	31	1.89
1494433--1494734	45	7.5	38	69	23	153	30	26	10	31	1.91
1494472--1494689	34	5.8	34	71	22	159	31	26	10	32	1.89
1494433--1494743	79	3.9	78	90	2	455	30	25	10	32	1.90
1494432--1494743	158	2.0	158	91	2	502	30	25	10	32	1.90
1495092--1495129	2	19.0	2	100	0	76	50	0	0	50	1.00
1495215--1495442	95	2.4	96	81	6	250	27	20	17	35	1.95
1501358--1501467	45	2.4	45	89	3	159	30	27	10	31	1.89
1501432--1501501	31	2.4	28	76	15	79	30	27	8	34	1.87
1501473--1501622	45	3.6	45	75	18	187	28	26	13	31	1.94
1501392--1501631	79	3.1	78	91	2	376	29	25	11	33	1.91
1506164--1506220	28	2.0	28	100	0	114	31	7	22	38	1.81
1506638--1506720	30	2.7	30	83	3	94	39	2	14	43	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1511444--1511506	18	3.3	19	84	10	85	42	1	0	55	1.09
1511444--1511506	21	3.2	20	82	13	85	42	1	0	55	1.09
1511444--1511494	3	17.0	3	79	0	57	41	1	0	56	1.10
1512874--1512929	20	3.2	16	71	28	51	26	3	1	67	1.16
1513752--1513793	22	1.9	22	90	9	68	26	2	0	71	0.98
1519031--1519076	22	2.0	23	87	4	67	71	13	10	4	1.27
1519111--1519201	8	11.4	8	81	6	87	83	0	16	0	0.65
1519120--1519194	7	10.9	7	86	11	93	85	0	14	0	0.60
1519112--1519195	15	5.9	14	79	10	91	84	0	15	0	0.62
1519112--1519193	22	3.9	22	84	10	118	84	0	15	0	0.63
1519141--1519196	1	56.0	1	81	0	58	89	0	10	0	0.49
1521460--1521685	114	2.0	114	90	1	355	32	15	21	30	1.94
1523771--1523979	54	3.9	54	88	1	287	37	15	24	22	1.93
1524347--1524423	22	3.5	22	87	0	109	35	11	11	41	1.78
1525287--1526218	46	20.0	46	93	2	1535	25	21	19	33	1.97
1525287--1526218	93	10.0	92	94	1	1535	25	21	19	33	1.97
1526434--1526496	18	3.3	19	84	10	85	42	1	0	55	1.09
1526434--1526496	21	3.2	20	82	13	85	42	1	0	55	1.09
1526434--1526484	3	17.0	3	79	0	57	41	1	0	56	1.10
1528190--1528235	14	3.4	14	76	8	51	50	0	0	50	1.00
1530384--1530413	14	2.1	14	93	0	51	10	33	10	46	1.71
1536474--1536509	18	2.0	18	100	0	72	38	5	22	33	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1540628--1540787	39	4.1	39	99	0	311	30	20	7	42	1.79
1551050--1551117	24	2.9	24	80	2	75	32	25	17	25	1.97
1552166--1552215	20	2.5	21	77	9	59	32	14	30	24	1.94
1552999--1553423	54	7.9	54	87	2	525	33	20	16	29	1.94
1556302--1556693	54	7.2	55	85	3	490	28	18	20	33	1.96
1556302--1556693	109	3.6	110	86	3	483	28	18	20	33	1.96
1557755--1557779	8	3.1	8	100	0	50	0	52	0	48	1.00
1559822--1559861	21	1.9	21	85	10	55	62	0	15	22	1.32
1560953--1561043	42	2.2	42	95	0	164	18	24	15	41	1.89
1564454--1564493	21	1.9	21	85	10	55	62	0	17	20	1.33

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