genome.fa.s9463.2.7.7.80.10.50.1000.8.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: VEPZ01009463.1 Hibiscus syriacus cultivar Beakdansim tig00113726_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3931635

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  8  of  20  ( 2327 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)
1474997--1475682	122	5.7	122	83	5	774	26	17	15	40	1.90
1475470--1475696	112	2.0	112	91	3	368	27	18	16	36	1.93
1475722--1475837	36	3.2	35	67	7	88	38	14	17	29	1.89
1475706--1475923	73	3.0	73	91	2	325	36	12	18	32	1.88
1475740--1475923	37	5.1	37	70	5	151	36	11	18	33	1.87
1476649--1476703	22	2.5	22	93	0	92	40	10	16	32	1.83
1486206--1486244	16	2.3	16	91	8	60	48	0	0	51	1.00
1486216--1486252	16	2.2	16	90	4	56	43	0	2	54	1.14
1486222--1486481	137	1.9	136	87	5	382	47	7	6	38	1.58
1486452--1486532	40	1.9	43	80	9	96	55	1	4	38	1.29
1495610--1495647	16	2.5	15	88	12	60	63	0	5	31	1.17
1505893--1505927	16	2.2	16	89	0	52	28	0	11	60	1.32
1506341--1506375	18	1.9	18	100	0	70	11	5	14	68	1.37
1511778--1511869	45	2.0	45	95	0	166	40	17	8	33	1.80
1513272--1513333	21	2.9	22	73	9	65	24	20	19	35	1.96
1519839--1519876	15	2.4	16	86	4	51	47	5	13	34	1.65
1523059--1523108	21	2.4	21	96	0	91	52	16	14	18	1.76
1524172--1524282	16	6.9	16	70	4	71	51	27	12	8	1.68
1524171--1524276	32	3.3	32	76	5	90	52	27	12	7	1.65
1524511--1524579	32	2.2	32	84	5	86	36	21	14	27	1.93
1524522--1524608	32	2.7	32	83	3	113	35	21	13	28	1.92
1530527--1530598	12	6.1	11	73	13	63	45	18	11	25	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1530524--1530601	24	3.2	24	87	0	111	46	17	10	25	1.80
1530538--1530615	24	3.2	24	77	10	79	44	17	14	23	1.85
1534914--1534938	2	12.5	2	100	0	50	52	0	0	48	1.00
1535145--1535198	23	2.4	21	74	17	54	44	16	14	24	1.85
1545443--1545996	276	2.0	275	95	4	990	35	11	20	32	1.89
1547321--1547414	2	47.0	2	95	4	172	48	1	0	50	1.07
1548401--1548446	2	23.5	2	82	12	60	50	0	4	45	1.21
1548401--1548447	23	2.0	23	88	8	69	51	0	4	44	1.21
1552796--1552885	39	2.3	39	88	0	126	32	21	28	17	1.96
1554201--1554375	90	1.9	93	88	5	268	41	11	8	38	1.72
1554572--1554608	7	5.6	7	87	6	51	35	10	0	54	1.36
1554570--1554628	18	3.2	18	80	15	59	40	6	0	52	1.28
1554757--1554796	11	3.6	12	80	12	50	40	7	10	42	1.67
1554829--1554877	8	6.2	8	82	15	50	48	0	2	48	1.12
1554837--1554871	18	1.9	18	94	0	61	48	0	2	48	1.16
1556988--1557038	23	2.3	22	80	10	59	11	13	15	58	1.63
1559131--1559265	45	2.8	49	85	9	190	46	0	2	51	1.13
1559209--1559309	22	4.5	22	71	7	94	38	0	9	51	1.35
1559132--1559264	15	8.5	15	83	11	160	46	0	2	51	1.13
1559244--1559985	32	24.4	32	67	25	300	34	0	13	52	1.40
1559162--1559319	69	2.3	67	84	6	203	43	0	6	50	1.27
1559244--1560017	54	14.4	54	79	12	575	34	0	12	52	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1559375--1559437	20	3.0	22	71	17	69	34	0	14	50	1.43
1559348--1559485	74	1.9	74	98	0	267	34	0	13	52	1.40
1559289--1559539	128	2.0	128	97	0	475	35	0	13	51	1.41
1559449--1559491	22	2.0	22	100	0	86	34	0	13	51	1.42
1559244--1560017	236	3.3	236	88	6	1204	34	0	12	52	1.40
1559503--1559545	22	2.0	22	100	0	86	34	0	13	51	1.42
1559557--1559599	22	2.0	22	100	0	86	34	0	13	51	1.42
1559611--1559750	22	5.7	22	68	21	91	33	0	14	52	1.42
1559793--1559835	22	2.0	22	100	0	86	34	0	13	51	1.42
1560030--1560090	31	2.0	31	93	0	104	44	9	6	39	1.64
1561502--1561586	43	2.0	41	80	13	93	43	2	3	50	1.32
1572141--1572182	22	1.9	22	90	9	68	47	4	16	30	1.67
1572141--1572188	22	2.1	22	85	11	62	41	8	14	35	1.76
1573087--1573390	83	3.7	83	76	8	217	36	14	17	31	1.90
1573185--1573406	83	2.7	82	79	5	223	37	15	15	30	1.89
1574845--1574875	15	2.1	15	100	0	62	45	25	12	16	1.83
1583939--1584052	44	2.6	44	87	5	153	33	23	10	32	1.89
1584100--1584191	42	2.2	42	82	3	105	33	17	18	30	1.94
1586200--1586268	33	2.1	33	94	5	122	47	7	20	24	1.75
1586625--1586685	18	3.4	18	84	4	79	37	0	1	60	1.07
1586623--1586676	3	18.3	3	88	3	74	33	0	1	64	1.04
1588427--1588690	143	1.9	142	82	7	338	37	6	7	48	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1596352--1596500	75	2.0	74	85	1	199	32	14	21	32	1.93
1596352--1596523	74	2.3	75	82	3	213	31	13	23	31	1.93
1597444--1597498	19	2.7	20	86	11	76	34	10	14	40	1.81
1598156--1598425	45	6.0	45	91	3	393	25	22	19	32	1.97
1598156--1598425	134	2.0	135	88	5	402	25	22	19	32	1.97
1598433--1598534	45	2.3	45	86	3	136	26	19	20	33	1.97
1598552--1598664	45	2.5	45	88	2	154	25	23	18	31	1.97
1598476--1598617	76	1.9	74	85	2	194	26	22	17	33	1.96
1598312--1598729	121	3.5	121	91	1	651	25	20	19	34	1.96
1598851--1598880	3	10.3	3	92	7	53	30	0	0	70	0.88
1600439--1600482	12	3.9	11	80	16	54	27	2	0	70	0.99
1600404--1600483	8	10.2	8	69	23	55	27	2	1	68	1.10
1600749--1600792	22	2.0	21	82	4	52	45	6	0	47	1.29
1602764--1602805	19	2.1	19	86	8	57	28	28	11	30	1.92
1605628--1605659	13	2.5	13	94	0	55	25	18	21	34	1.96
1614004--1614052	20	2.3	21	82	10	64	44	0	10	44	1.37
1614004--1614061	20	2.8	20	84	5	62	41	1	10	46	1.48
1617267--1617586	55	5.8	55	89	2	457	34	17	20	28	1.95
1617267--1617586	111	2.9	108	88	3	446	34	17	20	28	1.95
1624245--1624584	85	4.0	84	86	1	421	24	20	21	33	1.97
1624258--1624584	169	1.9	170	88	1	487	24	20	21	33	1.97
1624807--1625043	112	2.1	112	89	1	359	22	16	26	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1625166--1625275	43	2.5	44	86	4	152	21	16	32	29	1.95
1625345--1625471	43	3.0	43	83	2	148	20	19	31	28	1.97
1625154--1625536	197	1.9	197	90	1	615	22	19	27	30	1.98
1625676--1625805	64	2.0	64	92	0	215	30	11	20	36	1.88
1626062--1626123	32	1.9	32	90	0	97	33	25	9	30	1.88
1627364--1627397	2	17.0	2	93	0	59	50	2	0	47	1.16
1634586--1634624	13	2.9	13	88	3	60	41	23	23	12	1.88
1635865--1635935	3	24.0	3	88	2	90	36	1	1	60	1.14
1637223--1637283	2	30.0	2	85	3	77	42	1	4	50	1.33
1637820--1637941	61	2.0	61	100	0	244	31	27	16	24	1.96
1638823--1638865	21	2.1	21	83	12	54	46	9	11	32	1.72
1642907--1642970	15	4.5	15	67	21	57	51	3	12	32	1.55
1642892--1642972	41	2.0	41	100	0	162	49	4	12	33	1.62
1643546--1644488	472	2.0	472	98	0	1807	31	19	15	32	1.93
1650327--1650363	19	2.0	18	89	5	56	45	0	21	32	1.52
1651395--1651600	72	2.9	72	86	0	295	27	20	16	34	1.95
1652006--1652211	72	2.9	72	85	0	277	26	20	17	34	1.96
1651223--1652441	611	2.0	609	97	1	2316	32	17	16	32	1.93
1654140--1654306	74	2.2	75	90	2	264	30	15	23	29	1.96
1655171--1655313	54	2.7	55	90	3	211	40	13	22	23	1.90
1655728--1655781	21	2.5	22	81	6	74	29	12	16	40	1.86
1656549--1656831	90	3.0	89	79	13	316	29	21	20	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1656728--1657183	116	3.9	116	88	0	689	31	20	19	27	1.97
1656730--1657178	231	1.9	232	90	1	713	31	20	19	27	1.97
1657186--1657253	20	3.3	20	73	15	75	36	26	20	16	1.93
1657177--1657239	21	3.0	21	69	17	67	36	23	22	17	1.95
1657177--1657269	42	2.2	42	96	0	168	34	23	23	18	1.96
1657207--1658045	116	7.3	115	89	2	1252	31	20	19	27	1.97
1657207--1658045	231	3.6	232	89	1	1267	31	20	19	27	1.97
1658191--1658251	3	21.0	3	91	6	90	37	0	0	62	0.96
1658195--1658255	20	3.1	20	92	2	97	40	0	0	59	0.98
1658192--1658251	23	2.6	23	94	0	102	38	0	0	61	0.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20