genome.fa.s8527.2.7.7.80.10.50.1000.7.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

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   

This is table  7  of  37  ( 4336 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)
1486610--1486650	10	4.1	10	84	12	57	39	0	29	31	1.57
1486760--1486886	51	2.5	50	82	6	148	17	29	35	17	1.93
1487371--1487403	9	3.7	9	92	8	50	51	3	0	45	1.16
1491423--1491498	24	3.2	24	84	3	73	46	18	13	22	1.83
1491440--1491555	24	4.8	24	87	6	146	40	18	16	25	1.90
1491476--1491573	48	2.0	48	84	3	126	41	18	15	24	1.89
1494078--1494119	18	2.3	18	100	0	84	9	21	52	16	1.72
1494071--1494100	13	2.3	13	94	0	51	13	20	46	20	1.83
1496076--1496176	2	50.5	2	100	0	202	50	0	0	49	1.00
1496359--1496474	24	4.8	24	87	8	155	41	18	15	24	1.89
1498960--1499002	13	3.3	13	90	0	68	18	20	44	16	1.87
1500660--1500737	33	2.4	33	91	0	129	33	7	21	37	1.82
1518911--1518970	20	3.0	20	72	0	66	25	20	23	31	1.98
1522174--1522256	43	2.0	39	82	13	96	51	2	2	43	1.27
1524690--1524753	30	2.1	31	85	2	85	29	17	10	42	1.83
1524828--1524894	31	2.2	31	89	2	100	46	5	1	46	1.36
1525202--1525315	32	3.7	30	71	11	79	46	5	2	45	1.39
1527936--1528027	11	9.2	10	68	19	50	42	1	3	53	1.24
1527967--1528026	19	3.2	19	73	15	61	41	1	1	55	1.20
1527936--1528021	31	2.8	30	77	10	84	44	1	3	51	1.26
1528082--1528153	27	2.8	26	79	10	85	58	5	2	33	1.36
1528748--1528798	20	2.7	18	75	21	50	54	0	3	41	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1532227--1532271	23	2.0	23	86	0	63	26	26	26	20	1.99
1539073--1539117	23	2.0	23	86	0	63	26	26	26	20	1.99
1539754--1539791	20	1.9	20	88	0	58	10	31	34	23	1.89
1543446--1543490	22	2.0	22	95	0	81	37	24	13	24	1.91
1544047--1544089	15	2.8	16	89	7	70	13	25	32	27	1.94
1544125--1544193	15	4.3	16	75	15	63	18	27	33	20	1.96
1544125--1544193	32	2.2	32	89	5	104	18	27	33	20	1.96
1547468--1547584	24	4.9	24	92	0	171	21	11	17	49	1.78
1547471--1547582	12	9.3	12	70	14	61	19	12	17	50	1.78
1548803--1548899	50	1.9	50	93	0	167	45	4	9	41	1.55
1548816--1548919	50	2.1	50	85	0	136	44	4	7	43	1.54
1554695--1554737	12	3.9	11	77	22	54	16	39	25	18	1.91
1554750--1554878	29	4.5	29	90	5	190	35	6	13	44	1.70
1554744--1554897	57	2.7	57	85	4	195	35	5	14	44	1.69
1564044--1564108	24	2.7	24	80	0	67	41	15	15	27	1.87
1564798--1564975	29	6.2	29	85	7	220	47	14	3	34	1.61
1564798--1564976	58	3.1	57	90	1	259	46	14	3	34	1.63
1575042--1575086	23	2.0	24	82	8	58	40	2	0	57	1.11
1586186--1586246	3	20.0	3	96	3	113	65	0	1	32	1.02
1586466--1586580	40	2.9	40	78	7	112	36	17	6	40	1.74
1588544--1588571	2	14.0	2	100	0	56	50	0	0	50	1.00
1588705--1588750	21	2.2	21	96	0	83	30	26	23	19	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1589201--1589225	13	1.9	13	100	0	50	72	12	0	16	1.13
1589507--1589656	77	2.0	77	91	1	248	32	7	23	36	1.82
1590864--1590913	25	2.0	25	96	0	91	46	16	12	26	1.81
1600140--1600238	9	10.3	9	73	12	81	15	27	27	30	1.96
1600139--1600232	19	4.8	19	75	13	84	15	25	27	30	1.96
1600139--1600238	29	3.4	30	83	9	118	16	27	27	30	1.96
1600252--1600289	17	2.2	17	100	0	76	18	47	23	10	1.79
1600235--1600296	22	2.7	22	92	5	97	17	45	24	12	1.84
1600279--1600316	7	5.4	7	100	0	76	15	28	28	26	1.96
1600234--1600277	12	3.8	12	82	11	65	18	47	22	11	1.80
1601177--1601253	31	2.5	31	82	2	100	14	25	31	28	1.95
1607493--1607583	10	9.4	9	72	13	74	15	25	28	30	1.96
1607492--1607530	21	1.9	21	94	5	71	15	25	25	33	1.95
1607492--1607583	19	4.7	20	78	14	93	16	25	28	30	1.96
1607492--1607577	29	2.9	30	87	6	122	16	24	27	31	1.96
1608504--1608580	31	2.5	31	82	2	100	14	25	31	28	1.95
1624794--1624828	18	1.9	18	88	0	52	37	14	0	48	1.44
1627638--1627821	89	2.0	91	90	4	293	29	26	23	21	1.99
1631790--1631991	101	2.0	101	100	0	404	32	16	13	36	1.89
1640577--1640682	55	1.9	55	90	0	167	28	14	5	51	1.64
1648702--1648745	22	1.9	24	90	9	74	72	0	2	25	0.96
1653224--1653409	42	4.4	42	81	2	194	32	17	22	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1657261--1657564	42	7.1	42	82	4	333	24	22	20	33	1.97
1657261--1657568	85	3.6	85	81	4	354	24	21	20	34	1.97
1658580--1658638	29	2.0	29	100	0	118	40	18	3	37	1.68
1667362--1667486	31	4.0	31	91	2	198	36	21	20	21	1.95
1667663--1667709	23	2.0	24	91	4	78	34	21	0	44	1.52
1671332--1671456	31	4.0	31	91	2	198	36	21	20	21	1.95
1671633--1671677	22	2.0	22	86	4	63	33	22	0	44	1.53
1672272--1672316	21	2.1	21	91	0	72	15	22	28	33	1.95
1675295--1675419	31	4.0	31	91	2	198	36	21	20	21	1.95
1675597--1675643	23	2.0	24	91	4	78	34	21	0	44	1.52
1676244--1676288	21	2.1	21	87	0	63	15	24	28	31	1.96
1680289--1680328	18	2.2	18	100	0	80	27	25	17	30	1.97
1691436--1691635	99	2.0	99	97	0	373	20	26	23	30	1.99
1698414--1698494	20	4.1	20	90	0	126	45	9	20	23	1.81
1698650--1698680	15	2.1	15	93	0	53	54	0	0	45	0.99
1699771--1699887	58	2.0	58	100	0	234	42	22	10	24	1.84
1703404--1703447	23	1.9	23	90	0	70	27	18	20	34	1.96
1703655--1703733	22	3.6	22	96	0	140	51	8	0	39	1.33
1703655--1703750	22	4.4	22	85	7	106	48	8	0	42	1.33
1707135--1707560	106	4.0	106	91	0	681	21	19	25	34	1.96
1708356--1708432	36	2.1	38	90	4	122	36	14	23	25	1.93
1708919--1708954	18	2.0	18	94	0	63	41	33	8	16	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1710007--1710063	18	3.1	19	75	10	73	0	14	7	78	0.94
1710007--1710069	16	3.8	16	78	17	74	0	14	7	77	0.97
1710019--1710056	11	3.7	10	83	16	51	0	13	7	78	0.94
1712482--1712509	14	2.0	14	100	0	56	28	21	14	35	1.92
1714622--1714694	9	7.7	9	72	22	51	73	1	5	19	1.09
1714587--1714699	13	8.6	13	66	23	58	71	1	7	19	1.18
1714662--1714694	15	2.2	15	89	10	50	81	0	0	18	0.68
1714787--1714834	2	24.5	2	95	4	89	52	0	0	47	1.00
1718519--1718576	30	1.9	30	85	0	80	37	8	18	34	1.82
1729720--1729745	2	13.0	2	100	0	52	50	0	0	50	1.00
1734850--1735233	206	1.8	211	93	5	670	30	17	23	27	1.97
1739041--1739150	39	2.9	38	89	2	175	41	0	10	47	1.39
1739131--1739210	13	6.1	13	74	18	51	40	0	8	51	1.33
1739092--1739210	53	2.3	51	83	4	148	41	0	8	50	1.33
1739144--1739271	38	3.4	38	81	12	156	41	0	8	49	1.39
1739054--1739248	91	2.2	90	88	4	286	41	0	9	48	1.36
1739157--1739256	38	2.6	39	90	3	157	42	0	8	50	1.32
1739144--1739266	40	3.2	37	84	11	144	41	0	8	49	1.34
1739241--1739306	27	2.4	29	85	12	95	46	1	6	45	1.37
1739168--1739283	38	3.1	38	77	14	116	43	0	7	47	1.38
1739235--1739317	23	3.4	24	75	18	73	44	1	8	45	1.41
1739364--1739404	16	2.6	16	88	3	66	21	0	0	78	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1739361--1739409	22	2.1	23	88	11	73	26	0	0	73	0.83
1739370--1739410	18	2.3	18	87	8	57	24	0	0	75	0.80
1739364--1739407	15	2.9	15	80	12	54	22	0	0	77	0.77
1739382--1739418	18	2.1	18	89	0	56	21	2	2	72	1.09
1739361--1739422	22	2.9	21	76	9	63	24	1	1	72	1.02
1740474--1740531	30	2.0	30	82	3	73	32	13	3	50	1.59
1740560--1740608	14	3.5	13	79	20	55	16	4	2	77	1.01
1740542--1740615	14	5.4	13	74	18	53	18	4	4	72	1.16
1740574--1740621	23	2.1	23	84	7	62	22	6	0	70	1.09
1740630--1740718	42	2.1	41	87	6	126	17	8	2	70	1.23

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