genome.fa.s7957.2.7.7.80.10.50.1000.8.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

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   

This is table  8  of  43  ( 5063 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)
1453856--1453995	24	5.9	24	80	7	72	28	22	22	27	1.99
1455531--1455768	117	2.0	117	81	1	271	36	15	20	27	1.92
1455615--1456132	201	2.6	201	84	2	655	34	18	19	26	1.95
1455947--1456059	42	2.6	44	75	9	108	34	21	15	28	1.94
1456074--1456171	39	2.5	39	93	0	160	44	13	18	23	1.85
1456227--1456499	42	6.6	42	86	3	313	28	22	16	31	1.96
1456221--1456510	126	2.3	123	84	4	375	28	22	16	32	1.96
1456773--1456808	3	12.0	3	87	0	54	30	2	0	66	1.06
1457009--1457045	14	2.6	14	95	0	65	21	29	18	29	1.97
1460083--1460131	21	2.3	21	96	0	89	20	26	36	16	1.93
1469552--1469616	30	2.2	30	78	10	71	30	21	13	33	1.92
1471448--1471525	31	2.5	31	89	0	120	32	15	25	26	1.95
1477453--1477511	25	2.4	25	88	0	91	42	5	13	38	1.66
1477448--1477515	25	2.5	27	79	13	86	42	5	13	38	1.68
1479050--1479116	24	3.0	21	74	8	55	37	14	23	23	1.93
1486938--1486980	17	2.5	17	85	11	61	79	2	0	18	0.85
1486939--1486980	6	7.3	6	80	20	54	80	2	0	16	0.81
1486930--1486980	17	3.1	16	83	10	59	78	1	0	19	0.85
1487036--1487104	29	2.8	23	73	24	68	60	8	10	20	1.54
1488337--1488382	3	15.3	3	78	17	51	65	0	0	34	0.93
1488328--1488382	19	3.0	19	75	15	62	61	0	0	38	0.96
1488339--1488371	16	2.1	16	88	11	50	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1488961--1489021	22	2.8	22	82	9	79	24	16	19	39	1.92
1490947--1491015	3	22.3	3	91	5	111	33	0	1	65	1.02
1491051--1491109	23	2.6	23	77	20	61	50	20	8	20	1.73
1493192--1493266	35	2.1	35	87	0	105	34	26	28	10	1.90
1493344--1493434	24	3.8	24	85	2	130	37	19	16	26	1.93
1493344--1493434	47	1.9	48	90	2	148	37	19	16	26	1.93
1495894--1495918	13	1.9	13	100	0	50	20	24	40	16	1.91
1495898--1495938	18	2.3	18	86	0	55	12	21	48	17	1.79
1495890--1495957	31	2.2	31	89	0	100	14	22	47	16	1.82
1497933--1498007	35	2.1	35	90	0	114	34	29	26	9	1.88
1498085--1498154	24	3.0	24	91	2	115	37	21	14	27	1.92
1498085--1498175	47	1.9	48	84	2	121	37	18	16	27	1.92
1500646--1500688	13	3.3	13	80	0	50	16	20	46	16	1.84
1503840--1503870	14	2.1	15	94	5	55	25	16	12	45	1.83
1509452--1509520	20	3.3	20	69	15	59	15	24	21	37	1.93
1509448--1509529	42	2.0	42	92	0	137	21	21	21	34	1.97
1509286--1509826	250	2.2	250	94	0	947	29	16	18	35	1.92
1509698--1509779	42	2.0	42	85	0	110	23	17	20	39	1.92
1509988--1510048	3	19.3	3	78	21	63	34	0	1	63	1.04
1509988--1510051	30	2.2	29	83	10	85	34	0	1	64	1.03
1512496--1512520	3	8.3	3	100	0	50	68	0	0	32	0.90
1514419--1514449	2	15.5	2	100	0	62	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1517473--1517532	31	1.9	32	89	3	95	68	0	11	20	1.20
1520587--1520622	16	2.2	16	90	0	54	66	0	2	30	1.06
1522333--1522377	13	3.2	14	78	9	56	40	11	11	37	1.76
1523947--1524168	95	2.3	94	84	3	284	31	15	24	28	1.95
1524114--1524168	22	2.7	20	86	10	83	29	14	29	27	1.95
1524490--1524955	59	7.9	59	94	0	788	34	11	22	31	1.89
1526577--1526616	19	2.0	20	85	4	55	57	7	0	35	1.27
1528339--1528388	15	3.4	14	80	8	55	2	32	2	64	1.16
1529976--1530015	20	2.0	20	90	4	64	55	7	0	37	1.29
1539401--1539439	19	2.1	19	95	0	69	20	38	15	25	1.92
1539387--1539549	65	2.5	65	85	3	222	30	26	15	26	1.96
1543075--1543133	20	2.8	21	87	7	84	23	30	22	23	1.99
1548504--1548559	23	2.4	23	100	0	112	21	19	30	28	1.98
1551234--1551298	30	2.2	30	100	0	130	27	23	6	43	1.77
1553426--1553500	37	2.0	37	86	0	105	17	10	41	30	1.83
1553789--1553818	15	2.1	14	93	6	51	43	0	0	56	0.99
1555379--1555403	12	2.1	12	100	0	50	48	12	8	32	1.69
1557132--1557197	33	2.0	34	84	3	89	36	3	1	59	1.22
1557720--1557761	14	2.9	14	83	16	50	52	2	0	45	1.13
1557721--1557750	16	1.9	16	93	6	53	56	0	0	43	0.99
1560636--1560685	21	2.3	22	83	13	68	32	16	28	24	1.96
1560707--1560756	19	2.6	19	96	0	91	26	18	34	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1563991--1564021	15	2.1	15	100	0	62	48	6	0	45	1.28
1568226--1568285	25	2.5	22	80	17	59	73	0	10	16	1.09
1572496--1572572	20	3.8	20	73	0	64	32	20	11	35	1.89
1572485--1572572	40	2.2	40	79	0	95	31	19	13	35	1.91
1575738--1575769	3	10.7	3	93	0	55	37	31	31	0	1.58
1583750--1583807	16	3.4	16	69	17	53	29	1	3	65	1.19
1583742--1583821	36	2.2	37	95	4	146	28	2	2	66	1.18
1584548--1584587	20	2.1	19	85	4	53	55	2	0	42	1.13
1584520--1584628	35	3.2	34	81	12	100	60	3	0	35	1.14
1585485--1585734	124	2.0	124	97	0	473	35	11	18	34	1.87
1586402--1586455	26	2.1	26	92	0	90	53	18	3	24	1.60
1586803--1586842	21	1.9	21	85	10	55	52	0	2	45	1.14
1586804--1586853	23	2.2	23	86	10	68	56	0	2	42	1.11
1601150--1601191	21	2.0	21	90	0	66	40	16	16	26	1.90
1601902--1601958	20	2.8	20	79	12	62	33	0	8	57	1.29
1604485--1604663	64	2.8	64	81	1	180	28	24	17	29	1.97
1610440--1610543	44	2.3	44	80	11	122	25	28	22	24	1.99
1613115--1613320	64	3.2	65	79	8	208	30	23	17	28	1.97
1613143--1613322	64	2.8	63	83	9	229	30	24	17	28	1.97
1614811--1614894	33	2.5	33	78	5	107	50	13	0	36	1.41
1615615--1615642	14	2.0	14	100	0	56	42	21	7	28	1.79
1620745--1620831	34	2.9	28	68	23	77	57	17	10	14	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1627344--1627397	24	2.2	24	90	0	81	22	18	18	40	1.91
1628694--1628735	20	2.1	20	95	0	75	45	21	19	14	1.85
1628702--1628771	20	3.5	20	86	0	95	32	22	18	25	1.97
1628814--1628861	20	2.4	20	89	0	69	18	18	29	33	1.95
1630764--1630814	20	2.5	20	87	0	66	52	19	13	13	1.73
1630777--1630859	20	4.2	20	82	3	96	44	21	19	14	1.86
1631244--1631300	22	2.6	22	85	0	87	17	19	42	21	1.90
1631472--1631558	20	4.3	20	92	0	129	22	20	27	28	1.99
1631552--1631598	20	2.3	20	100	0	94	23	19	17	40	1.91
1634289--1634390	18	5.7	18	74	22	58	51	3	0	44	1.19
1634374--1634538	13	11.8	13	67	16	64	47	4	4	42	1.46
1634318--1634386	9	7.7	9	69	18	54	49	5	0	44	1.26
1634409--1634488	18	4.3	18	78	12	74	50	5	2	42	1.37
1634316--1634533	100	2.2	98	87	7	318	48	4	3	43	1.41
1634574--1634638	10	6.5	11	77	12	52	49	3	6	41	1.43
1635240--1635282	20	2.2	20	95	0	77	27	25	11	34	1.91
1635368--1635417	23	2.1	24	92	3	84	48	6	0	46	1.27
1635671--1635741	32	2.2	32	85	5	90	43	12	22	21	1.86
1635678--1635737	16	3.8	16	82	4	68	48	11	20	20	1.80
1638237--1638295	16	3.6	17	73	19	63	33	1	0	64	1.04
1638471--1638505	16	2.2	16	94	0	61	51	0	0	48	1.00
1639795--1639819	10	2.5	10	100	0	50	52	16	8	24	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1641678--1642616	57	16.5	57	90	1	1359	32	18	11	37	1.87
1642957--1643181	96	2.3	95	80	3	254	28	23	13	34	1.93
1644934--1645183	101	2.5	101	81	2	259	31	24	18	26	1.98
1647507--1647731	91	2.5	90	89	5	348	67	5	2	24	1.24
1647507--1647730	44	4.9	47	87	3	311	67	5	2	24	1.24
1647650--1647686	13	2.9	13	81	18	51	72	2	0	24	0.97
1648120--1648194	21	3.6	21	71	7	62	29	17	29	24	1.97
1649525--1649576	23	2.3	23	79	0	59	36	19	21	23	1.95
1656820--1656886	23	2.9	23	95	0	116	28	26	26	17	1.98
1659109--1659143	2	17.5	2	100	0	70	51	0	0	48	1.00

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