genome.fa.s8092.2.7.7.80.10.50.1000.8.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: VEPZ01008092.1 Hibiscus syriacus cultivar Beakdansim tig00110607_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2324158

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  8  of  12  ( 1399 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)
1416018--1416077	22	2.8	21	76	14	61	26	26	16	30	1.97
1417852--1417890	15	2.6	15	91	0	60	38	12	28	20	1.89
1421857--1421959	23	4.7	23	79	12	112	27	26	17	29	1.98
1421860--1421959	44	2.3	42	81	6	121	27	27	16	30	1.96
1424555--1424742	76	2.5	76	90	4	283	29	24	19	26	1.98
1424709--1424762	20	2.6	21	85	2	74	24	33	18	24	1.97
1439336--1439461	63	2.0	63	92	0	207	31	16	19	31	1.94
1448837--1448888	15	3.5	15	89	5	79	36	7	19	36	1.80
1448871--1448941	20	3.5	20	96	0	133	39	9	14	36	1.79
1449108--1449207	28	3.4	29	82	10	98	53	2	1	44	1.19
1449106--1449252	54	2.6	57	76	15	139	51	1	1	46	1.18
1449221--1449264	22	2.0	23	86	4	63	54	0	0	45	0.99
1449225--1449281	21	2.6	22	81	10	64	52	0	0	47	1.00
1449162--1449281	54	2.3	51	77	19	131	50	0	0	48	1.12
1449470--1449589	42	2.9	42	98	0	231	44	19	20	15	1.87
1458138--1458789	179	3.6	181	90	1	1020	41	13	17	27	1.87
1458710--1458747	20	1.9	20	84	10	51	55	7	15	21	1.66
1460785--1460817	15	2.2	15	94	0	57	18	9	63	9	1.49
1460900--1460964	21	3.1	21	93	0	103	41	10	30	16	1.83
1460998--1461063	33	2.0	33	93	0	114	30	0	46	22	1.52
1461269--1461356	15	5.5	15	69	24	54	51	0	43	5	1.25
1461252--1461372	33	3.7	33	94	2	199	50	0	44	4	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1462326--1462358	4	8.2	4	100	0	66	24	0	27	48	1.51
1463197--1464181	200	4.9	200	94	1	1645	36	14	16	31	1.90
1470209--1470253	22	2.0	22	86	0	63	40	11	6	42	1.67
1470294--1470501	93	2.2	92	90	3	328	26	12	13	47	1.79
1470481--1470520	20	2.0	20	100	0	80	10	10	15	65	1.48
1470389--1470617	112	2.0	113	92	0	379	25	12	14	47	1.79
1470216--1470723	204	2.5	204	87	0	676	28	12	13	46	1.78
1470497--1470709	92	2.3	92	91	0	327	28	12	14	45	1.81
1470682--1470731	20	2.5	20	90	0	82	14	10	12	64	1.51
1470969--1470997	9	3.0	10	90	10	51	89	0	0	10	0.48
1470966--1470999	15	2.3	15	90	10	52	85	0	0	14	0.60
1471176--1471248	14	5.3	14	67	8	51	49	1	1	47	1.18
1471176--1471248	28	2.6	28	74	6	78	49	1	1	47	1.18
1471301--1471542	88	2.8	87	89	1	367	33	13	9	43	1.77
1472914--1472947	3	11.7	3	87	6	52	35	0	0	64	0.94
1472918--1472951	17	2.1	16	88	5	50	32	0	0	67	0.91
1474587--1474620	16	2.1	16	88	0	50	50	0	2	47	1.16
1474660--1474693	16	2.0	18	88	11	54	26	2	5	64	1.30
1475163--1475406	130	1.9	130	92	0	407	34	13	15	35	1.87
1475802--1475877	35	2.2	35	85	4	100	39	1	19	39	1.60
1476298--1476343	18	2.6	17	86	10	58	41	0	4	54	1.20
1476551--1476586	19	1.9	19	94	5	65	22	0	5	72	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1477336--1477382	20	2.4	19	79	6	58	48	0	2	48	1.13
1484848--1484891	23	2.0	23	82	13	56	50	9	2	38	1.47
1490724--1490761	20	1.9	20	88	0	58	26	34	26	13	1.93
1492912--1492945	17	2.0	17	88	0	50	14	2	29	52	1.56
1493345--1493369	13	1.9	13	100	0	50	44	8	8	40	1.63
1494645--1494710	28	2.4	28	94	2	116	45	16	1	36	1.57
1494795--1494890	3	32.0	3	97	0	183	32	0	1	66	0.99
1504435--1504502	31	2.2	31	89	0	100	23	29	13	33	1.93
1507628--1507668	21	2.0	21	95	0	73	29	24	21	24	1.99
1520237--1520295	24	2.7	21	85	14	91	23	18	22	35	1.96
1520244--1520292	24	2.0	24	100	0	98	24	16	22	36	1.94
1521627--1521748	31	3.9	31	78	9	131	30	19	18	31	1.96
1526143--1526267	31	4.0	31	78	10	137	29	20	20	30	1.97
1529190--1529219	12	2.5	12	88	0	51	23	23	33	20	1.97
1532584--1532969	183	2.1	184	90	3	611	43	3	7	45	1.48
1539843--1539896	19	2.8	18	81	13	54	27	5	1	64	1.26
1540027--1540078	24	2.2	22	80	16	59	23	7	3	65	1.35
1541181--1541220	11	3.8	11	90	9	66	15	0	0	85	0.61
1541181--1541212	6	5.7	6	89	10	50	15	0	0	84	0.63
1541181--1541220	5	7.8	5	84	15	55	15	0	0	85	0.61
1541278--1541579	151	2.0	151	100	0	604	45	13	16	24	1.84
1553268--1553319	25	2.1	25	100	0	104	44	7	7	40	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1555172--1555208	2	18.5	2	100	0	74	51	0	0	48	1.00
1557796--1558001	100	2.1	100	100	0	412	28	15	5	50	1.67
1557846--1558003	47	3.2	47	68	22	144	31	12	5	51	1.61
1562637--1562935	149	2.0	150	99	0	591	33	11	20	35	1.88
1564700--1564732	15	2.2	15	94	0	57	54	0	0	45	0.99
1565195--1565275	35	2.3	35	93	0	135	30	17	20	30	1.96
1568900--1568931	16	2.0	16	100	0	64	68	6	6	18	1.32
1571168--1571202	17	2.1	17	94	0	61	22	28	28	20	1.98
1579011--1579072	31	2.2	28	83	13	74	29	29	24	17	1.97
1579561--1579946	40	9.7	37	73	19	173	43	2	6	47	1.43
1579582--1579901	40	7.9	39	76	16	237	43	2	5	48	1.40
1579736--1579767	2	16.5	2	93	6	57	50	0	0	50	1.00
1579665--1579842	90	2.0	88	90	6	277	44	3	5	47	1.41
1579705--1579805	50	2.0	49	86	5	141	43	2	4	48	1.39
1579616--1579880	128	2.1	128	84	8	344	44	3	5	47	1.42
1579665--1579868	88	2.3	89	85	9	258	43	3	5	48	1.43
1579755--1579932	37	4.8	37	82	8	175	42	2	5	49	1.41
1579753--1579932	38	4.8	37	80	11	174	42	2	5	49	1.40
1579940--1579981	3	13.3	3	85	9	57	28	0	0	71	0.86
1579942--1579978	19	1.9	19	100	0	74	27	0	0	72	0.84
1581134--1581170	3	12.3	3	88	0	56	29	0	2	67	1.04
1581133--1581168	18	2.0	18	94	0	63	27	0	2	69	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1581223--1581273	10	5.0	10	81	13	52	17	3	1	76	1.03
1581376--1581450	4	18.8	4	72	15	57	25	2	4	68	1.21
1581385--1581413	11	2.5	12	94	5	51	24	3	0	72	1.00
1581942--1581976	18	1.9	18	88	0	52	25	11	5	57	1.56
1586614--1587357	332	2.2	333	88	1	1078	31	24	19	25	1.98
1586605--1587360	165	4.6	163	82	4	825	31	24	19	25	1.98
1586596--1587360	84	9.2	83	78	5	693	31	24	19	25	1.98
1587998--1588325	39	8.7	39	76	13	255	42	3	5	49	1.42
1588103--1588156	27	2.0	28	82	10	67	44	5	5	44	1.50
1588063--1588274	112	1.9	108	86	5	300	43	4	5	46	1.45
1588161--1588218	27	2.0	28	87	9	82	43	3	5	48	1.42
1587998--1588335	37	9.1	35	74	14	204	42	3	5	48	1.42
1588333--1588380	3	15.3	3	87	8	69	29	0	0	70	0.87
1588333--1588377	19	2.4	19	92	0	81	28	0	0	71	0.87
1588333--1588393	19	3.1	19	75	13	59	24	1	0	73	0.92
1588339--1588381	22	2.0	22	95	0	77	27	0	0	72	0.85
1594598--1594657	22	2.8	21	78	11	77	26	31	23	18	1.97
1595102--1595134	12	2.8	12	100	0	66	33	9	6	51	1.58
1596562--1596599	13	2.9	13	96	0	67	44	10	7	36	1.68
1598153--1598178	3	8.7	3	100	0	52	30	0	0	69	0.89
1598375--1598459	4	22.2	4	76	9	61	23	2	5	68	1.24
1607469--1607539	35	2.0	36	88	2	108	39	19	14	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1613545--1613603	29	2.0	29	100	0	118	27	13	16	42	1.86
1616481--1616521	20	2.0	20	86	9	57	39	9	7	43	1.65
1620902--1620932	15	2.1	15	94	5	55	19	19	19	41	1.90
1623306--1623346	18	2.2	20	86	8	59	39	7	7	46	1.60
1626283--1626309	14	1.9	14	100	0	54	33	22	14	29	1.94
1633198--1633226	14	2.0	15	93	6	51	20	27	41	10	1.85
1636615--1637025	206	2.0	205	96	3	765	28	21	26	23	1.99
1640917--1640980	20	3.3	20	68	24	64	48	3	31	17	1.62
1640914--1640992	38	2.1	38	100	0	158	51	2	27	17	1.58
1641458--1641514	29	2.0	29	96	0	105	45	14	15	24	1.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12