genome.fa.s8356.2.7.7.80.10.50.1000.9.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   

This is table  9  of  56  ( 6656 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)
1524429--1524474	23	2.0	24	83	12	60	45	0	34	19	1.51
1525058--1525121	33	2.0	32	84	3	83	12	6	35	45	1.67
1526468--1526519	23	2.2	24	93	3	88	46	3	7	42	1.51
1529205--1530875	847	2.0	837	97	1	3144	36	11	11	40	1.78
1531110--1531167	31	1.9	29	83	13	73	44	1	0	53	1.10
1531073--1531167	37	2.5	38	76	10	95	43	1	1	54	1.14
1531264--1531304	15	2.8	15	88	3	57	39	0	0	60	0.96
1531301--1531401	42	2.6	37	76	15	103	47	2	1	47	1.28
1531496--1531545	23	2.3	23	83	16	70	40	2	4	54	1.31
1533138--1533212	35	2.1	35	90	0	114	34	0	21	44	1.53
1537940--1537989	21	2.4	21	80	6	57	32	18	30	20	1.96
1540318--1540358	21	2.0	21	100	0	82	68	0	0	31	0.90
1541066--1541199	70	1.9	70	100	0	268	47	5	8	38	1.58
1543815--1544122	72	4.2	72	77	6	228	35	16	8	39	1.79
1543888--1544122	73	3.2	73	78	5	179	34	17	8	40	1.79
1543815--1544123	37	8.5	37	74	8	184	35	16	8	39	1.80
1544002--1544138	37	3.7	37	75	9	109	35	18	5	40	1.74
1550658--1550713	22	2.5	22	72	11	60	41	16	14	28	1.87
1553874--1553925	21	2.5	20	82	11	61	55	5	9	28	1.55
1554449--1554494	24	1.9	24	86	0	65	28	19	10	41	1.85
1557110--1557318	4	52.2	4	68	18	55	74	0	5	19	1.06
1557118--1557231	26	4.5	26	70	17	71	74	0	7	17	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1557142--1557242	32	3.3	30	73	17	82	76	0	7	14	1.06
1557195--1557316	9	12.9	9	71	16	68	77	0	3	18	0.96
1557199--1557316	47	2.5	47	83	8	159	77	0	3	18	0.96
1557196--1557289	38	2.4	38	76	11	102	79	1	4	14	0.93
1558381--1558538	84	1.9	85	89	1	246	26	20	23	29	1.99
1558549--1558635	38	2.4	36	84	7	104	29	9	21	39	1.85
1558621--1558854	36	6.6	36	76	15	229	39	14	19	26	1.90
1558655--1558841	102	1.8	102	87	4	279	39	13	19	27	1.89
1558919--1559107	37	5.4	37	69	16	132	39	12	19	29	1.87
1558899--1559131	102	2.3	102	92	0	376	36	11	19	32	1.88
1559040--1559218	87	2.1	87	91	2	288	35	12	18	32	1.89
1558940--1559323	189	2.0	189	84	3	504	38	11	19	30	1.87
1559496--1559688	106	1.8	106	86	0	278	23	16	24	35	1.94
1560270--1560351	33	2.5	33	84	4	94	36	20	13	29	1.91
1561267--1561404	69	2.0	69	88	0	204	26	14	21	37	1.92
1561477--1561525	13	3.8	13	84	15	66	2	18	4	75	1.06
1561476--1561527	27	2.0	25	92	7	86	3	17	3	75	1.11
1564684--1564817	27	5.2	26	76	13	91	72	0	3	23	1.06
1564620--1564792	49	3.3	52	78	11	144	72	1	6	19	1.15
1564672--1564792	9	13.2	9	71	20	58	74	0	3	21	1.01
1564733--1564812	36	2.2	36	82	8	101	68	0	2	28	1.02
1564794--1564892	2	50.0	2	87	9	141	52	1	1	45	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1567437--1567548	59	1.9	59	83	5	145	31	23	14	31	1.94
1568711--1568758	22	2.2	22	85	7	62	66	0	8	25	1.19
1577305--1577355	23	2.3	23	86	6	79	17	41	21	19	1.91
1577337--1577376	21	2.0	21	85	5	55	27	37	25	10	1.88
1578592--1578631	19	2.1	19	100	0	80	40	0	17	42	1.49
1586063--1586413	140	2.5	141	79	7	367	29	11	12	46	1.77
1589168--1589198	16	1.9	16	93	0	53	25	29	9	35	1.88
1589162--1589205	16	2.8	16	82	0	52	25	29	13	31	1.94
1589408--1589461	21	2.6	21	75	11	58	51	3	1	42	1.30
1589543--1589592	24	2.1	24	82	10	59	52	6	0	42	1.26
1589959--1590026	23	3.0	23	93	0	118	41	26	8	23	1.83
1590014--1590073	18	3.3	18	68	21	52	35	20	8	36	1.82
1590000--1590085	37	2.3	37	97	0	163	37	23	8	31	1.84
1590854--1590906	22	2.4	22	84	9	63	77	0	7	15	0.98
1590866--1590902	19	1.9	19	94	0	65	78	0	8	13	0.96
1593741--1593783	7	6.0	7	82	12	52	41	25	2	30	1.68
1593810--1593862	2	26.5	2	92	7	90	49	1	0	49	1.12
1594637--1594857	111	2.0	111	95	0	397	31	16	12	40	1.85
1595351--1595403	2	26.5	2	100	0	106	0	0	49	50	1.00
1602920--1603076	65	2.4	64	81	7	167	27	15	24	31	1.96
1605590--1605670	23	3.6	23	75	12	96	25	23	27	23	2.00
1608302--1608413	46	2.4	46	86	5	172	19	17	28	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1609233--1609390	64	2.5	65	82	6	171	34	20	22	22	1.97
1609377--1609434	20	2.6	22	89	10	84	29	22	22	25	1.99
1609911--1609941	14	2.3	14	94	5	55	35	0	25	38	1.56
1613744--1613786	21	2.0	22	86	13	63	34	6	4	53	1.49
1620129--1620244	24	4.8	24	96	0	205	34	19	9	36	1.85
1620982--1621184	110	1.8	111	84	3	282	42	12	5	39	1.65
1620987--1621187	58	3.5	58	75	12	193	42	12	4	39	1.65
1621430--1621566	58	2.4	57	83	4	168	41	14	7	36	1.74
1624362--1624434	35	2.1	35	100	0	146	46	5	24	23	1.73
1625191--1625274	4	19.5	4	74	13	69	64	1	32	2	1.14
1625191--1625274	18	4.6	18	90	3	123	64	1	32	2	1.14
1626736--1626804	31	2.3	31	87	2	95	34	17	1	46	1.57
1627949--1628735	44	17.9	44	81	0	734	32	14	21	31	1.93
1628744--1628910	81	2.1	81	94	0	289	22	23	11	41	1.87
1629378--1629612	81	2.9	82	77	10	239	36	23	17	22	1.95
1632555--1632597	21	2.0	21	81	0	50	30	30	25	13	1.94
1632577--1632727	67	2.3	67	92	2	250	30	28	25	15	1.96
1633208--1633511	149	2.0	149	99	0	599	27	16	20	35	1.94
1633490--1633534	23	2.0	23	86	0	63	20	24	28	26	1.99
1634393--1634422	2	15.0	2	100	0	60	50	0	0	50	1.00
1636677--1636718	19	2.2	20	86	4	59	54	11	16	16	1.70
1636692--1636719	13	2.2	13	100	0	56	57	14	14	14	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1637450--1637494	23	2.0	23	82	8	56	33	20	15	31	1.93
1639107--1639173	28	2.4	27	83	11	82	71	2	4	20	1.17
1639128--1639172	19	2.3	20	82	17	60	75	4	2	17	1.07
1646855--1646940	31	2.8	31	81	8	86	38	5	12	43	1.67
1649693--1649718	2	13.0	2	100	0	52	50	0	0	50	1.00
1650786--1650833	2	25.0	2	83	8	55	50	4	2	43	1.33
1651584--1651626	22	2.0	22	86	9	61	48	13	16	20	1.80
1651640--1651677	19	2.0	20	85	10	53	68	5	7	18	1.34
1652499--1652539	19	2.1	20	86	4	57	60	12	12	14	1.58
1652555--1652608	23	2.5	21	77	11	54	51	7	22	18	1.70
1669167--1669212	2	23.0	2	100	0	92	50	0	0	50	1.00
1670418--1670492	37	2.0	37	100	0	150	28	32	2	37	1.71
1678821--1678882	30	2.1	30	100	0	124	38	9	12	38	1.77
1685263--1685310	20	2.5	20	93	3	80	33	25	6	35	1.81
1688499--1688527	12	2.4	12	100	0	58	41	24	10	24	1.86
1696046--1696080	17	2.1	17	88	0	52	17	11	0	71	1.14
1702179--1702239	20	3.2	20	77	15	67	55	3	4	36	1.38
1702907--1702932	2	13.0	2	100	0	52	50	0	0	50	1.00
1703174--1703204	2	15.5	2	100	0	62	51	0	0	48	1.00
1704551--1704577	12	2.2	12	100	0	54	22	0	0	77	0.76
1705589--1705632	8	5.6	8	87	12	65	79	9	2	9	1.02
1705589--1705644	16	3.6	15	85	2	58	82	8	1	7	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1707203--1707264	21	3.0	21	90	4	90	29	35	6	29	1.82
1707202--1707270	21	3.3	21	85	4	68	30	33	5	30	1.81
1710006--1710043	6	6.7	6	91	5	53	21	0	7	71	1.11
1717223--1717262	20	2.0	20	85	0	53	45	7	15	32	1.74
1718035--1718072	2	19.0	2	100	0	76	50	0	0	50	1.00
1718646--1718697	24	2.2	23	82	3	59	38	3	28	28	1.75
1718663--1718706	23	1.9	23	86	9	63	34	9	27	29	1.87
1719252--1719357	39	2.6	39	78	11	90	71	1	12	14	1.22
1719345--1719422	14	5.4	15	76	11	67	78	1	5	15	0.99
1719363--1719440	23	3.4	22	76	5	66	76	2	5	15	1.06

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   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56