genome.fa.s3805.2.7.7.80.10.50.1000.7.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: VEPZ01003805.1 Hibiscus syriacus cultivar Beakdansim tig00008145_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2300233

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  7  of  11  ( 1239 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)
1482776--1482830	27	2.0	27	100	0	110	25	21	23	29	1.99
1483136--1483193	24	2.2	25	82	14	64	67	6	0	25	1.16
1484501--1484543	15	2.8	15	82	10	52	79	0	0	20	0.74
1484501--1484542	19	2.2	19	87	12	59	78	0	0	21	0.75
1485027--1485794	94	8.1	94	92	1	1257	22	17	24	34	1.96
1485027--1485794	286	2.7	285	94	1	1328	22	17	24	34	1.96
1486557--1486600	11	4.0	11	82	11	54	6	11	0	81	0.86
1486565--1486594	13	2.4	12	94	5	51	0	10	0	90	0.47
1486557--1486595	10	3.6	10	83	16	51	2	12	0	84	0.72
1497136--1497189	15	3.8	14	81	16	58	70	1	1	25	1.07
1499743--1499778	17	2.2	17	90	5	56	33	16	19	30	1.94
1501387--1501424	12	2.9	13	84	11	51	52	0	10	36	1.36
1502146--1502173	12	2.3	12	100	0	56	50	0	0	50	1.00
1502392--1502507	50	2.5	45	78	13	142	25	12	13	48	1.78
1502407--1502555	50	3.0	50	88	1	217	24	12	14	48	1.78
1503053--1503083	13	2.4	13	94	0	53	48	35	0	16	1.46
1512520--1512585	32	2.1	32	97	0	123	25	19	16	37	1.93
1512873--1512919	23	2.0	23	100	0	94	21	8	31	38	1.83
1513115--1513222	54	2.0	54	98	0	207	20	13	38	26	1.90
1514038--1514134	41	2.5	38	73	11	90	69	3	5	22	1.23
1514247--1514308	33	2.0	33	87	9	94	67	8	1	22	1.25
1515512--1515917	37	11.0	36	83	10	386	43	5	3	47	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1515512--1515917	111	3.7	112	82	9	439	43	5	3	47	1.46
1515930--1515962	2	17.0	2	87	6	50	48	0	3	48	1.17
1516582--1516991	85	4.8	85	83	3	452	24	17	21	36	1.95
1517297--1517348	25	2.1	25	85	7	70	32	9	17	40	1.82
1517342--1517630	156	1.9	156	87	0	434	26	14	21	36	1.92
1518970--1519171	99	2.0	99	90	1	316	32	17	15	34	1.91
1524544--1524577	6	5.8	6	86	6	52	82	0	0	17	0.67
1524545--1524577	17	1.9	17	93	0	57	81	0	0	18	0.68
1524544--1524576	11	2.9	11	95	4	57	81	0	0	18	0.68
1524632--1525058	38	11.4	36	84	8	443	43	6	4	45	1.50
1524680--1524704	12	2.1	12	100	0	50	52	0	0	48	1.00
1524796--1524854	12	4.8	12	69	19	50	42	8	6	42	1.61
1524664--1525015	37	9.5	36	87	7	469	43	5	4	45	1.49
1525042--1525124	2	41.5	2	100	0	166	49	0	0	50	1.00
1525718--1525885	56	3.0	57	91	1	259	46	6	30	16	1.72
1528140--1528181	19	2.2	20	91	4	68	9	9	21	59	1.57
1528838--1528895	20	2.9	20	97	0	107	36	8	29	25	1.86
1528838--1528908	20	3.8	18	90	7	74	38	8	28	25	1.85
1530236--1530282	20	2.3	20	100	0	94	46	0	4	48	1.21
1530307--1530366	24	2.6	23	82	17	79	50	0	1	48	1.11
1530814--1530872	5	11.8	5	96	0	100	3	40	38	16	1.66
1530870--1530906	6	6.2	6	100	0	74	0	16	48	35	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1531143--1531195	22	2.4	22	80	0	61	28	11	24	35	1.90
1541555--1541584	15	2.0	15	100	0	60	13	26	46	13	1.80
1547440--1547512	38	1.9	38	94	2	130	13	10	35	39	1.80
1547207--1547729	259	2.0	257	88	3	773	23	11	27	37	1.90
1547477--1547940	211	2.2	212	90	3	734	24	11	26	37	1.89
1547904--1547992	38	2.4	37	83	7	117	13	8	39	38	1.76
1547119--1548021	470	1.9	468	86	7	1302	23	11	27	37	1.89
1548568--1548613	18	2.7	18	93	6	78	28	32	6	32	1.83
1550573--1550599	13	2.1	13	100	0	54	29	7	0	62	1.22
1556246--1556510	135	2.0	135	85	5	358	29	16	5	47	1.69
1556371--1557224	158	5.5	156	82	5	994	28	17	5	48	1.70
1556371--1557224	314	2.7	312	85	4	1114	28	17	5	48	1.70
1557769--1557961	95	2.0	95	100	0	386	28	10	24	35	1.89
1562520--1562664	29	5.0	29	83	1	184	25	22	8	44	1.80
1562520--1562664	57	2.5	58	89	1	220	25	22	8	44	1.80
1563129--1563323	20	8.7	20	65	23	68	20	24	14	40	1.90
1563149--1563524	47	8.0	47	87	0	536	21	21	14	43	1.87
1563223--1563350	27	5.3	27	64	27	97	19	21	14	44	1.86
1563951--1564144	94	2.1	95	87	1	273	24	22	17	36	1.94
1570402--1570547	29	5.0	29	83	0	166	25	22	8	43	1.82
1570407--1570547	58	2.4	58	87	0	201	25	22	9	42	1.83
1571014--1571141	20	5.7	20	68	22	67	21	24	14	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1571009--1571341	47	7.1	47	88	0	513	21	20	13	44	1.85
1571034--1571168	27	5.5	26	67	25	98	20	21	14	43	1.87
1571224--1571309	27	3.5	26	68	21	67	20	20	13	44	1.86
1576089--1576155	29	2.3	29	89	0	107	19	29	17	32	1.95
1576950--1576990	17	2.4	17	91	4	64	51	2	4	41	1.36
1577125--1577366	99	2.4	99	88	1	351	33	18	16	31	1.93
1578386--1578467	31	2.6	31	78	3	85	36	18	18	26	1.94
1578414--1578473	31	1.9	31	89	0	93	35	23	13	28	1.92
1578419--1578911	254	1.9	254	92	0	833	32	22	15	29	1.95
1583917--1584009	46	2.0	48	89	4	145	35	17	12	34	1.88
1585445--1585478	3	11.0	3	93	6	59	64	0	0	35	0.94
1585741--1585888	29	5.1	29	84	0	206	25	22	7	44	1.79
1585882--1586068	68	2.7	66	88	4	275	26	26	14	31	1.95
1586441--1586850	27	17.3	26	63	27	164	20	21	13	44	1.85
1586412--1586884	47	10.1	47	91	0	772	20	21	13	44	1.86
1587321--1587367	19	2.5	19	86	10	62	19	23	19	38	1.93
1587319--1587503	94	2.0	95	85	3	257	24	24	16	34	1.95
1589605--1589648	16	2.8	16	96	0	79	20	25	13	40	1.89
1589645--1589681	16	2.3	16	95	0	65	18	10	21	48	1.78
1590098--1590149	22	2.4	22	86	0	77	25	19	25	30	1.98
1596273--1596309	18	2.1	18	90	5	58	29	21	27	21	1.99
1596882--1596956	23	3.3	23	88	0	114	25	20	24	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1596882--1596997	46	2.6	45	78	6	121	27	17	23	31	1.97
1603328--1603410	23	3.7	22	82	9	98	21	21	25	31	1.98
1605462--1605525	3	21.3	3	100	0	128	32	0	0	67	0.91
1606277--1606342	21	3.1	21	95	0	114	13	27	22	36	1.92
1607075--1607109	15	2.3	15	95	0	61	40	40	5	14	1.69
1611535--1611572	20	1.9	20	94	0	67	31	34	15	18	1.92
1611535--1611743	65	3.2	64	81	8	208	32	23	17	26	1.97
1612354--1612392	20	1.9	20	84	5	51	28	15	12	43	1.83
1619876--1619908	11	2.8	12	90	4	50	42	15	3	39	1.62
1620220--1620277	20	2.9	20	89	0	89	31	32	15	20	1.94
1620288--1620447	65	2.5	64	82	3	187	31	21	16	29	1.96
1622035--1622383	69	5.1	69	82	3	382	30	20	24	24	1.98
1623011--1623117	31	3.0	36	69	23	91	31	22	21	24	1.98
1626614--1627010	198	2.0	198	100	0	794	27	24	22	25	2.00
1627616--1627649	15	2.3	15	89	0	50	35	26	29	8	1.87
1651852--1651937	3	28.0	3	90	2	127	32	1	0	66	1.00
1652635--1652685	21	2.4	22	80	9	70	29	13	39	17	1.88
1653411--1653451	22	1.9	21	85	5	55	46	4	0	48	1.23
1658809--1658853	6	7.5	6	84	0	63	77	0	20	2	0.87
1658809--1658862	12	4.5	12	86	4	65	74	0	24	1	0.92
1658809--1658853	18	2.5	18	96	0	81	77	0	20	2	0.87
1660723--1661169	221	2.0	222	90	3	704	31	15	19	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1661124--1661210	42	2.1	42	84	2	113	25	22	20	31	1.98
1661377--1661483	42	2.5	42	73	8	101	24	26	21	28	1.99
1660907--1661614	262	2.7	263	90	1	1100	30	17	20	31	1.95
1661978--1662041	16	3.9	16	79	15	60	34	1	0	64	1.03
1661992--1662064	19	3.8	19	90	1	101	38	0	0	61	0.96
1662037--1662070	17	2.0	17	100	0	68	41	0	0	58	0.98
1661997--1662069	3	24.0	3	78	8	76	39	0	0	60	0.97
1665072--1665165	40	2.3	40	79	0	98	27	20	10	41	1.85
1673884--1674119	46	5.1	46	90	2	359	38	6	22	32	1.79
1673899--1674119	93	2.4	93	97	0	415	39	6	21	32	1.79

Tables:   1   2   3   4   5   6   7   8   9   10   11