genome.fa.s9582.2.7.7.80.10.50.1000.7.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: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4978262

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   

This is table  7  of  24  ( 2799 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)
1428281--1428587	165	1.8	168	84	6	419	26	19	10	43	1.83
1430068--1430135	3	22.7	3	93	0	118	29	0	0	70	0.87
1430198--1430263	15	4.5	15	68	24	50	16	12	1	69	1.25
1430187--1430286	44	2.3	44	84	3	130	21	9	2	68	1.28
1437613--1437645	5	6.8	5	93	6	59	18	0	0	81	0.68
1437612--1437654	15	2.9	15	83	13	61	20	0	0	79	0.74
1437544--1437778	130	1.8	130	81	3	294	25	17	12	43	1.85
1437768--1437823	25	2.3	25	93	3	96	23	14	3	58	1.51
1437790--1437854	33	2.0	33	81	6	78	30	16	3	49	1.61
1440448--1440484	14	2.6	15	83	12	51	16	29	8	45	1.76
1442681--1442907	77	3.0	75	80	4	269	32	14	14	37	1.88
1442932--1443517	39	15.0	39	86	1	735	28	17	17	35	1.93
1443572--1443663	42	2.2	41	88	1	139	23	22	23	29	1.99
1443847--1443956	36	3.1	34	78	10	82	23	18	17	40	1.90
1443869--1443989	36	3.4	36	77	10	122	26	20	14	38	1.92
1444433--1444605	44	4.0	44	70	8	138	36	19	14	30	1.91
1444313--1444856	132	4.1	132	81	3	587	33	19	16	30	1.94
1445425--1445454	13	2.3	13	94	0	51	10	10	40	40	1.72
1446265--1446320	25	2.3	25	90	3	87	23	16	3	57	1.55
1446287--1446351	33	2.0	33	81	6	78	30	18	3	47	1.64
1446675--1446757	38	2.2	38	95	0	148	25	19	1	54	1.52
1447744--1452940	4	1334.0	4	92	6	8821	24	0	25	49	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1452942--1453090	4	39.0	4	88	9	231	0	0	50	48	1.05
1452821--1453090	12	22.9	12	87	6	320	6	0	44	49	1.31
1453088--1453123	4	9.0	4	100	0	72	25	0	25	50	1.50
1461916--1461972	12	4.8	12	86	0	78	56	15	17	10	1.67
1461919--1461972	24	2.2	24	93	0	90	57	14	16	11	1.65
1463498--1463819	160	2.0	161	97	2	612	20	23	29	27	1.99
1465893--1465946	12	4.5	12	90	0	90	57	14	16	11	1.65
1468743--1468768	13	2.0	13	100	0	52	46	0	7	46	1.31
1473826--1473978	74	2.1	74	100	0	306	28	28	10	33	1.90
1474269--1474320	20	2.6	20	90	0	77	32	38	17	11	1.85
1475012--1475067	20	2.7	22	78	15	66	32	21	16	30	1.95
1483633--1483785	47	3.3	47	72	8	132	34	17	18	28	1.94
1483873--1483989	47	2.5	47	81	2	137	41	13	19	25	1.88
1483959--1484141	48	3.9	47	78	9	146	37	12	15	34	1.85
1483989--1484141	48	3.2	48	83	2	193	37	12	14	35	1.84
1484982--1485033	8	6.4	8	78	12	61	15	0	0	84	0.62
1484982--1485033	6	8.8	6	80	16	56	15	0	0	84	0.62
1484982--1485033	17	3.1	17	83	2	70	15	0	0	84	0.62
1484982--1485033	12	4.3	12	79	15	63	15	0	0	84	0.62
1489921--1490078	77	2.0	80	89	6	243	32	1	10	54	1.46
1490850--1490893	19	2.4	18	88	3	61	20	9	0	70	1.14
1492388--1492428	21	2.0	21	85	0	55	43	19	17	19	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1496504--1496533	15	2.0	15	93	0	51	13	16	6	63	1.50
1498515--1498686	82	2.1	82	93	2	292	30	1	12	55	1.46
1499217--1499263	19	2.5	19	89	3	69	21	6	2	70	1.20
1500408--1500458	19	2.6	20	93	3	86	23	17	29	29	1.97
1500447--1500695	20	12.6	20	71	14	153	17	21	22	38	1.93
1500432--1500562	61	2.2	60	93	2	219	18	19	25	37	1.94
1500405--1500539	41	3.4	40	72	6	112	21	18	24	35	1.95
1500412--1500559	81	1.8	79	86	2	215	19	18	25	36	1.95
1500551--1500622	22	3.4	22	73	11	87	18	19	25	37	1.94
1500572--1500640	19	3.5	19	73	11	75	18	20	21	39	1.93
1500531--1500906	41	9.2	41	73	16	309	19	19	21	38	1.93
1500528--1500756	116	2.0	116	87	3	336	18	20	23	37	1.94
1500508--1500848	157	2.2	150	88	4	495	18	20	21	39	1.92
1500708--1500779	22	3.4	21	73	11	76	19	18	23	38	1.93
1500729--1500789	19	3.0	21	69	11	63	21	18	18	42	1.89
1500802--1500845	20	2.2	20	95	0	79	13	25	18	43	1.86
1500876--1500932	22	2.6	22	94	0	105	19	17	28	35	1.94
1500508--1500929	150	2.8	154	83	7	425	18	20	22	38	1.93
1501520--1501569	5	10.6	5	87	10	70	0	38	24	38	1.56
1501561--1501620	6	10.2	6	98	1	113	0	16	48	35	1.47
1501696--1501789	22	4.5	22	75	9	97	37	23	18	21	1.94
1501722--1501852	41	3.2	41	86	8	153	38	22	20	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1501783--1501855	20	3.6	20	75	3	83	38	23	21	16	1.93
1501756--1501880	41	3.0	41	91	4	191	36	23	20	19	1.95
1501780--1501884	21	5.1	21	72	4	97	37	25	19	18	1.94
1513184--1513208	11	2.3	11	100	0	50	16	28	56	0	1.41
1513837--1513955	29	4.1	29	100	0	238	13	31	36	17	1.89
1513977--1514017	18	2.3	18	95	4	75	39	21	21	17	1.93
1514051--1514178	15	8.1	15	76	14	123	21	7	53	17	1.69
1514038--1514163	65	1.9	65	93	4	218	23	9	50	16	1.75
1514043--1514177	32	4.2	32	83	11	177	22	8	51	17	1.72
1514643--1514691	21	2.3	21	82	3	62	32	0	16	51	1.45
1514668--1514730	28	2.2	30	88	5	94	33	0	11	55	1.35
1515217--1515270	15	3.3	15	74	18	54	37	0	11	51	1.37
1515527--1515585	26	2.3	25	75	18	66	47	8	3	40	1.51
1515474--1515585	58	1.9	57	80	10	129	47	7	4	41	1.51
1518395--1518654	11	21.5	11	68	23	77	43	2	10	44	1.50
1518455--1518730	26	11.2	26	76	15	212	42	2	10	45	1.50
1518401--1518621	97	2.3	98	97	1	419	42	2	10	44	1.52
1518455--1518722	124	2.2	123	94	2	466	42	2	10	44	1.50
1518699--1518727	14	2.1	14	100	0	58	41	0	0	58	0.98
1518930--1518962	17	1.9	17	93	0	57	36	6	12	45	1.66
1521303--1521393	45	2.0	47	87	8	134	46	12	0	41	1.41
1521324--1521462	41	3.3	40	76	14	111	46	11	0	41	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1521618--1521659	4	10.5	4	80	10	50	0	33	0	66	0.92
1521617--1521658	21	2.0	20	90	4	66	0	35	0	64	0.94
1521721--1521772	25	2.1	25	92	0	86	28	32	9	28	1.89
1521893--1521939	23	2.0	23	100	0	94	21	8	44	25	1.80
1521926--1521957	13	2.5	13	94	0	55	31	3	46	18	1.65
1521958--1522066	29	3.8	29	91	2	166	22	30	32	15	1.95
1522078--1522209	41	3.2	41	66	19	119	16	31	28	23	1.96
1522188--1522371	35	5.2	35	72	16	164	18	26	29	25	1.98
1522133--1522359	106	2.1	106	96	0	427	19	28	28	23	1.98
1522335--1522384	26	1.9	26	100	0	100	22	20	36	22	1.96
1522769--1522963	75	2.6	75	82	0	237	26	7	15	50	1.69
1522965--1523008	20	2.3	19	81	11	54	34	4	0	61	1.16
1524219--1524305	32	2.8	32	84	3	97	57	9	12	20	1.62
1525718--1525774	2	28.5	2	96	0	105	50	0	0	49	1.00
1527924--1528052	23	5.7	23	88	4	156	27	27	21	23	1.99
1534754--1534829	23	3.3	23	80	7	91	26	26	17	30	1.97
1534788--1534844	23	2.5	23	85	0	78	26	22	24	26	2.00
1574028--1574087	29	2.0	30	90	6	95	43	15	6	35	1.72
1577255--1577328	20	3.7	20	83	7	87	32	24	21	21	1.98
1577349--1577447	42	2.4	42	86	6	130	23	19	34	23	1.97
1577350--1577447	21	4.7	20	80	10	99	23	19	33	23	1.97
1577527--1577584	30	2.0	29	90	10	91	44	17	5	32	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1577527--1577585	29	2.0	30	93	6	102	44	16	5	33	1.70
1581365--1581474	52	2.1	52	94	0	193	32	14	19	33	1.92
1581388--1581576	54	3.5	54	81	1	175	35	13	20	30	1.90
1581940--1581996	22	2.6	22	88	0	87	33	14	12	40	1.83
1582666--1582880	45	4.8	45	88	0	259	26	22	19	31	1.97
1582666--1582881	90	2.4	90	85	1	290	27	22	18	31	1.97
1582900--1583048	45	3.3	45	87	0	199	24	22	20	32	1.97
1582778--1583003	122	1.9	122	84	0	308	26	22	19	32	1.97
1582733--1583215	167	2.9	168	90	0	718	24	22	19	33	1.97
1583068--1583305	45	5.3	45	90	0	359	23	22	20	34	1.97

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