genome.fa.s9624.2.7.7.80.10.50.1000.9.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   

This is table  9  of  38  ( 4514 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)
1497333--1497357	2	12.5	2	100	0	50	52	0	0	48	1.00
1499257--1499814	85	6.5	84	83	4	620	25	16	20	37	1.93
1499275--1499771	255	1.9	255	86	3	705	26	15	19	37	1.92
1505187--1505299	5	23.4	5	81	11	114	77	3	2	15	1.01
1505336--1505449	49	2.2	50	80	14	135	64	3	3	28	1.26
1509760--1509828	35	2.0	35	88	0	102	31	1	10	56	1.41
1510590--1510625	18	1.9	19	88	5	56	36	0	2	61	1.11
1512339--1512386	21	2.3	21	85	0	60	25	39	12	22	1.89
1512390--1512483	21	4.5	21	89	5	120	18	35	25	21	1.95
1513006--1513102	33	2.9	34	85	3	124	56	4	2	37	1.30
1513004--1513109	34	3.2	32	82	8	122	55	4	1	37	1.32
1513506--1514115	128	4.8	128	98	0	1179	32	19	25	22	1.97
1513506--1514115	254	2.4	256	98	1	1179	32	19	25	22	1.97
1514090--1514131	16	2.6	16	92	0	66	14	47	38	0	1.44
1520213--1520322	28	3.9	28	89	2	107	49	14	13	22	1.79
1520428--1520586	67	2.4	65	81	8	180	42	12	13	30	1.82
1529182--1529215	3	11.3	3	87	0	50	61	0	2	35	1.11
1532480--1532528	16	3.1	16	96	0	89	57	22	12	8	1.61
1532602--1532682	23	3.5	23	78	9	92	58	16	12	13	1.64
1532947--1533040	24	4.3	22	83	12	115	57	8	13	20	1.62
1533011--1533038	14	2.0	14	100	0	56	57	14	14	14	1.66
1532947--1533024	10	7.4	10	83	11	102	57	7	14	20	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1534512--1534561	2	25.0	2	100	0	100	50	0	0	50	1.00
1536046--1536079	2	17.0	2	100	0	68	50	0	0	50	1.00
1537375--1537482	36	3.0	36	90	4	173	17	19	22	40	1.91
1537448--1537739	89	3.3	89	90	0	451	23	17	20	38	1.93
1537500--1537731	43	5.3	43	64	10	135	24	18	18	38	1.93
1542340--1542446	45	2.4	45	92	6	173	33	17	19	28	1.95
1542433--1542477	18	2.5	18	85	7	56	31	17	22	28	1.97
1550327--1550421	8	12.5	8	70	19	53	53	2	2	42	1.24
1551957--1552159	83	2.4	84	82	4	225	33	18	21	27	1.97
1552007--1552178	83	2.1	84	82	5	206	35	18	20	25	1.95
1554919--1554944	8	3.2	8	100	0	52	23	11	53	11	1.69
1555842--1555937	21	4.6	21	84	0	93	37	19	41	1	1.59
1562839--1563238	198	2.0	201	98	1	770	34	20	18	26	1.95
1568302--1569073	419	1.9	416	88	2	1165	38	8	8	43	1.67
1571483--1571519	3	12.3	3	94	0	65	32	64	0	2	1.07
1571637--1571681	19	2.3	19	84	3	54	55	4	0	40	1.20
1574523--1574598	32	2.4	33	77	4	84	48	10	3	36	1.56
1585491--1585938	81	5.5	81	88	3	618	28	25	12	33	1.92
1585491--1585938	243	1.8	243	89	0	700	28	25	12	33	1.92
1586225--1586358	55	2.5	55	87	3	200	33	19	12	34	1.90
1586699--1586751	22	2.5	22	87	6	74	32	26	13	28	1.93
1586792--1586843	20	2.6	20	85	14	72	19	25	17	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1586903--1586938	18	2.0	18	100	0	72	33	16	11	38	1.84
1622757--1622786	12	2.4	13	94	5	53	56	0	3	40	1.16
1623185--1623225	16	2.6	16	96	0	73	31	36	2	29	1.71
1624314--1624386	10	6.8	11	72	20	57	58	1	2	36	1.21
1624353--1624386	5	6.8	5	93	0	59	55	0	2	41	1.15
1624420--1624460	22	1.9	22	85	5	57	48	7	2	41	1.44
1624417--1624460	23	1.9	23	85	0	61	47	9	2	40	1.48
1624419--1624471	22	2.5	21	76	8	54	45	5	1	47	1.37
1625120--1625148	14	2.1	14	100	0	58	34	0	31	34	1.58
1629627--1629690	24	2.7	24	87	0	83	21	17	23	37	1.94
1631150--1631180	15	2.1	15	100	0	62	19	25	12	41	1.87
1633201--1633247	18	2.6	17	78	18	51	72	2	4	21	1.12
1633276--1633340	5	13.2	5	74	19	57	67	0	1	30	1.00
1633271--1633315	21	2.1	22	95	4	83	71	0	0	28	0.87
1633276--1633328	16	3.2	16	89	5	70	69	0	0	30	0.88
1633287--1633352	29	2.3	28	84	10	80	68	0	4	27	1.09
1633305--1633352	13	3.4	14	91	5	71	64	0	6	29	1.18
1634684--1635348	5	132.6	5	89	10	1031	59	0	0	40	0.99
1635308--1635396	27	3.1	29	78	12	78	51	4	0	43	1.21
1635334--1635399	29	2.2	31	89	5	100	50	6	0	43	1.27
1635403--1635483	40	1.9	41	90	9	128	46	6	2	44	1.41
1635398--1635509	43	2.7	41	81	13	131	44	6	2	46	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1635513--1635583	38	1.9	37	91	5	117	33	7	4	54	1.47
1637642--1637749	53	2.0	54	90	1	173	37	45	10	7	1.66
1637690--1637779	38	2.3	39	84	7	121	37	38	10	13	1.78
1637911--1637979	24	2.9	24	80	2	77	42	0	0	57	0.98
1637921--1637979	27	2.2	27	87	6	84	42	0	0	57	0.98
1637912--1637966	3	18.7	3	85	10	60	38	0	0	61	0.96
1639441--1639673	120	2.0	120	83	5	303	36	8	8	46	1.64
1639545--1639586	20	2.2	19	86	4	57	33	0	2	64	1.07
1640182--1640265	33	2.6	33	80	14	88	28	5	3	61	1.36
1643510--1643556	15	3.1	15	96	0	85	25	19	10	44	1.82
1650892--1650934	8	5.1	8	83	10	59	86	0	13	0	0.58
1650895--1650932	10	3.7	10	89	3	58	86	0	13	0	0.56
1650892--1650927	18	1.9	19	94	5	65	86	0	13	0	0.58
1651288--1651336	19	2.8	18	78	9	57	34	6	6	53	1.51
1652497--1653270	113	6.9	112	90	2	1052	38	14	19	27	1.91
1652511--1653270	338	2.2	339	88	2	1116	38	14	19	27	1.91
1653608--1653653	3	15.7	3	86	13	69	32	0	0	67	0.91
1655248--1655289	20	2.2	19	86	4	57	33	0	2	64	1.07
1655144--1655380	120	2.0	117	83	4	298	37	7	8	46	1.64
1657137--1657178	15	2.7	16	92	7	77	19	4	0	76	0.96
1658815--1658864	15	3.3	15	94	2	82	54	0	0	46	1.00
1658829--1658920	41	2.2	41	92	3	150	51	5	2	41	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1658814--1658900	27	3.1	26	68	22	61	52	3	1	42	1.25
1660569--1660639	33	2.2	33	94	0	124	38	11	9	40	1.74
1661362--1661394	9	3.8	9	96	4	59	57	12	18	12	1.64
1662106--1662134	13	2.2	13	100	0	58	51	13	0	34	1.42
1662655--1662773	36	2.8	45	75	24	157	21	24	36	16	1.94
1662692--1662788	36	2.7	36	100	0	194	20	23	38	17	1.93
1662865--1662949	29	2.9	29	82	0	98	14	29	38	17	1.89
1664034--1664085	20	2.6	20	96	0	95	38	26	13	21	1.90
1664141--1664334	20	9.6	20	76	8	76	35	25	19	19	1.95
1664137--1664334	40	5.0	39	81	4	200	35	26	19	19	1.95
1664141--1664333	60	3.2	60	83	0	251	35	25	19	19	1.95
1664715--1664785	33	2.2	33	92	0	115	11	22	18	47	1.80
1664906--1664960	14	3.6	14	73	21	56	41	23	25	9	1.83
1664906--1664976	33	2.2	33	94	0	124	43	25	22	8	1.81
1664972--1665069	19	5.7	19	70	22	81	10	24	22	42	1.84
1664994--1665083	14	5.7	14	74	23	81	8	25	23	42	1.83
1664977--1665091	33	3.5	33	95	0	212	9	24	20	45	1.81
1666789--1667254	184	2.5	186	98	0	909	21	12	19	46	1.83
1666789--1667254	93	5.0	93	98	1	909	21	12	19	46	1.83
1667286--1667414	19	7.3	19	75	17	125	45	28	17	8	1.77
1667322--1667414	33	2.8	32	91	4	150	46	27	18	7	1.76
1667286--1667414	52	2.5	52	74	14	140	45	28	17	8	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1667410--1667544	19	7.6	19	75	16	128	11	19	23	45	1.82
1667432--1667488	14	3.7	14	77	20	60	10	21	22	45	1.82
1667415--1667507	33	2.8	33	95	0	168	10	20	21	47	1.80
1669467--1669502	14	2.6	14	95	0	63	33	0	22	44	1.53
1669609--1669710	19	5.6	19	84	13	151	44	17	23	14	1.86
1669717--1670030	33	9.1	36	82	14	291	14	21	17	46	1.83
1669739--1670058	19	18.4	19	78	18	360	13	20	18	46	1.83
1669717--1670030	52	6.0	52	83	11	403	14	21	17	46	1.83
1672338--1672362	12	2.1	12	100	0	50	0	28	0	72	0.86
1672537--1672583	24	2.0	24	87	8	69	38	21	14	25	1.92

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