genome.fa.s7960.2.7.7.80.10.50.1000.8.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   

This is table  8  of  39  ( 4646 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)
1411808--1411848	20	2.0	20	90	9	66	51	2	4	41	1.36
1412236--1412282	21	2.2	21	88	0	67	27	27	8	36	1.86
1423948--1423998	22	2.3	22	93	0	84	15	49	19	15	1.80
1424345--1424382	18	2.1	19	85	14	53	2	18	2	76	1.02
1425273--1425308	18	2.0	18	88	0	54	61	0	11	27	1.30
1438160--1438203	21	2.1	21	86	0	61	9	36	15	38	1.80
1438789--1438859	31	2.3	31	87	0	97	32	2	36	28	1.72
1438808--1438868	31	2.0	31	100	0	122	26	3	32	37	1.73
1446148--1446185	20	1.9	20	94	0	67	36	18	23	21	1.95
1446841--1446911	21	3.3	20	70	22	54	23	18	26	30	1.97
1446849--1446920	21	3.3	22	77	22	89	26	16	25	31	1.96
1449240--1449278	19	2.1	19	100	0	78	43	0	20	35	1.52
1449304--1449398	44	2.1	45	86	9	133	48	0	6	45	1.28
1450087--1450122	18	2.0	18	94	0	63	27	11	19	41	1.85
1456324--1456774	226	2.0	226	89	2	701	25	18	20	35	1.95
1463188--1463221	11	3.1	11	100	0	68	35	8	29	26	1.87
1466663--1466723	23	2.7	22	80	7	77	34	4	31	29	1.79
1470308--1470495	39	4.8	39	81	7	222	17	26	22	34	1.96
1470316--1470516	39	5.2	40	82	5	200	16	24	23	34	1.95
1476009--1476040	14	2.4	14	94	5	57	50	0	0	50	1.00
1481331--1481394	31	2.1	30	82	5	76	43	7	17	31	1.77
1482358--1482405	2	24.0	2	100	0	96	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1486977--1487068	29	3.1	28	77	10	94	48	5	14	31	1.66
1490620--1490672	2	26.5	2	92	0	88	50	3	0	45	1.19
1491661--1491706	24	1.9	24	82	8	58	23	8	15	52	1.70
1495762--1495903	24	5.9	24	89	3	189	39	19	14	26	1.90
1495819--1495878	12	5.0	12	73	15	52	38	20	15	26	1.91
1498203--1498239	17	2.2	17	95	0	65	29	32	21	16	1.95
1500417--1500531	24	4.8	24	86	10	146	40	18	16	24	1.90
1500448--1500550	48	2.1	48	85	7	138	42	19	15	22	1.88
1509856--1509894	20	2.0	20	89	0	60	20	2	0	76	0.90
1509872--1509913	11	3.8	11	84	9	50	26	0	0	73	0.83
1509872--1509913	22	1.9	22	85	9	59	26	0	0	73	0.83
1509897--1509943	21	2.2	22	77	7	53	25	4	8	61	1.43
1511387--1511429	11	3.5	11	77	22	50	9	67	16	6	1.40
1511398--1511444	15	3.1	15	87	0	67	12	65	12	8	1.46
1513176--1513228	11	4.5	11	75	13	52	45	5	0	49	1.26
1513179--1513226	25	1.9	25	95	0	87	43	6	0	50	1.27
1513247--1513272	13	2.0	13	100	0	52	69	0	0	30	0.89
1514860--1514902	22	2.0	22	95	0	77	48	13	4	32	1.63
1517231--1517320	7	12.9	7	100	0	180	13	28	0	57	1.36
1522885--1522947	21	3.0	21	88	0	90	31	28	15	23	1.96
1523009--1523054	2	23.0	2	100	0	92	50	0	0	50	1.00
1523412--1523446	18	2.0	18	94	5	63	17	25	11	45	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1523780--1523829	20	2.5	20	100	0	100	34	20	16	30	1.94
1525120--1525149	14	2.1	15	93	6	53	43	0	6	50	1.28
1525274--1525323	25	2.0	25	88	0	73	78	2	10	10	1.06
1525683--1525711	10	2.7	11	94	5	51	72	10	0	17	1.11
1530307--1530383	38	2.0	38	82	5	93	14	10	41	33	1.80
1545561--1545646	24	3.6	24	85	3	129	27	15	19	37	1.92
1547794--1547829	18	2.0	18	100	0	72	16	44	27	11	1.82
1550264--1550349	24	3.6	24	88	3	120	26	12	20	39	1.89
1550431--1550503	35	2.1	35	92	0	119	9	26	30	34	1.88
1550569--1550597	2	14.5	2	100	0	58	48	0	0	51	1.00
1551851--1551913	27	2.3	27	94	0	108	25	14	26	33	1.94
1564216--1564257	22	2.0	22	90	4	68	69	2	11	16	1.29
1570740--1570772	16	2.1	16	100	0	66	24	0	24	51	1.48
1592629--1592664	18	2.0	18	94	0	63	58	0	16	25	1.38
1592630--1592670	18	2.2	18	86	4	55	63	0	12	24	1.28
1595670--1595739	12	5.8	12	76	6	70	51	17	14	17	1.77
1595670--1595739	24	2.9	24	78	0	86	51	17	14	17	1.77
1602122--1602154	16	2.1	16	100	0	66	57	24	12	6	1.57
1602221--1602265	16	2.8	16	100	0	90	55	24	13	6	1.62
1603360--1603406	14	3.3	14	82	5	67	53	25	12	8	1.67
1604867--1604912	19	2.4	19	100	0	92	28	26	28	17	1.98
1605684--1605734	19	2.7	19	87	3	68	33	15	15	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1607130--1607236	51	2.1	51	84	6	137	15	33	33	16	1.91
1607485--1607519	17	2.0	18	88	5	54	31	0	5	62	1.18
1613452--1613507	29	1.9	29	82	7	69	17	1	35	44	1.60
1613626--1613702	40	1.9	40	81	5	93	22	35	27	15	1.94
1615512--1615572	2	30.5	2	100	0	122	49	0	0	50	1.00
1615473--1615520	24	2.0	24	84	4	62	25	2	4	68	1.18
1615588--1615697	34	3.3	35	75	9	88	29	2	0	68	1.04
1615593--1615720	40	3.1	39	79	15	116	26	2	0	71	0.98
1615673--1615805	4	32.8	4	74	17	71	23	5	0	70	1.12
1615599--1615736	44	3.3	42	76	16	119	26	2	0	70	1.01
1615744--1615789	21	2.2	21	84	7	58	21	6	0	71	1.08
1618823--1618883	7	8.3	7	75	15	52	77	1	14	6	1.05
1618824--1618883	20	2.8	21	82	12	68	76	1	15	6	1.06
1618815--1618883	15	4.5	15	76	7	50	78	1	14	5	1.01
1618818--1618885	27	2.5	27	79	9	75	76	1	16	5	1.05
1618925--1619059	69	2.0	69	92	2	227	37	21	14	27	1.92
1619989--1620101	32	3.5	32	79	3	111	30	13	18	38	1.89
1620679--1621012	106	3.2	106	84	0	416	35	22	19	23	1.96
1621223--1621380	65	2.4	65	80	5	176	28	19	10	41	1.84
1621290--1621474	103	1.8	102	83	5	248	25	17	14	42	1.87
1621393--1621539	65	2.3	65	84	4	181	27	19	13	39	1.89
1621144--1621662	167	3.1	167	92	0	833	28	18	12	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1621442--1621824	102	3.8	101	81	3	389	29	18	12	39	1.88
1621443--1621822	204	1.9	203	80	6	455	29	18	12	39	1.88
1621892--1621960	36	1.9	36	93	0	120	21	20	14	43	1.87
1621978--1622060	34	2.5	34	96	2	150	38	19	9	32	1.84
1623230--1623256	2	13.5	2	100	0	54	48	0	0	51	1.00
1623303--1623425	13	10.2	12	72	11	74	21	3	0	74	1.00
1639993--1640029	19	1.9	19	94	0	65	32	27	5	35	1.79
1643857--1644559	389	1.8	389	97	0	1334	41	18	15	25	1.89
1646594--1646675	2	41.0	2	100	0	164	50	0	0	50	1.00
1646864--1646891	14	2.0	14	100	0	56	35	42	0	21	1.53
1647920--1648143	96	2.3	95	87	1	313	27	11	18	41	1.85
1650931--1650976	14	3.3	14	82	11	58	19	30	17	32	1.95
1651787--1651822	17	2.1	18	94	5	65	36	0	30	33	1.58
1652869--1653162	96	3.1	96	87	0	426	26	11	18	43	1.84
1656043--1656076	17	2.0	17	100	0	68	23	23	11	41	1.87
1663468--1663503	11	3.3	11	92	0	54	63	2	11	22	1.39
1663995--1664043	23	2.1	23	85	7	64	59	10	2	28	1.41
1667327--1667369	20	2.2	20	86	0	59	65	0	16	18	1.28
1674862--1674910	23	2.1	23	85	7	64	57	12	2	28	1.46
1675825--1675858	13	2.6	13	95	0	59	20	11	14	52	1.73
1676354--1676415	19	3.3	19	95	0	106	45	3	32	19	1.66
1679463--1679542	37	2.2	37	88	0	115	42	13	21	22	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1679605--1680251	109	5.9	109	79	5	567	31	17	20	30	1.95
1679547--1680251	55	12.9	54	79	7	525	32	16	20	30	1.95
1679610--1680251	164	3.9	164	77	6	602	31	17	20	30	1.95
1683605--1683630	13	2.0	13	100	0	52	30	30	23	15	1.95
1689899--1689956	20	2.7	20	84	10	62	22	20	22	34	1.97
1694803--1694962	80	2.0	80	98	0	311	36	5	29	28	1.78
1699121--1699158	20	1.9	20	88	0	58	36	18	21	23	1.95
1699130--1699168	20	2.0	20	89	0	60	33	15	23	28	1.95
1701938--1702102	64	2.5	66	80	7	169	25	19	20	34	1.96
1712074--1712214	39	3.6	39	80	3	124	26	39	2	30	1.71

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39