genome.fa.s851.2.7.7.80.10.50.1000.5.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: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7304151

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   

This is table  5  of  31  ( 3618 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)
1233084--1233194	51	2.2	51	100	0	222	37	33	5	23	1.78
1237542--1237621	39	2.1	39	95	0	142	43	13	6	36	1.70
1238973--1239017	3	15.0	3	81	9	56	71	2	26	0	0.98
1238973--1239016	17	2.6	17	89	3	63	72	2	25	0	0.96
1240799--1240923	64	1.9	66	86	3	182	32	17	20	29	1.96
1240907--1241024	20	5.9	20	95	0	209	24	21	27	26	1.99
1243642--1243728	23	3.8	23	77	17	101	28	21	22	26	1.99
1243643--1243728	24	3.8	22	79	14	104	29	22	22	26	1.99
1243643--1243743	21	4.5	22	77	16	102	28	20	22	27	1.99
1249405--1249558	64	2.4	64	90	4	231	29	18	22	29	1.97
1250731--1251094	59	6.2	59	87	1	496	35	12	23	28	1.91
1251060--1251117	27	2.1	27	84	6	73	36	10	24	29	1.88
1250731--1251094	118	3.1	118	88	0	548	35	12	23	28	1.91
1251002--1251168	86	1.9	86	85	0	226	34	13	22	29	1.92
1257890--1257964	20	3.8	20	94	0	123	38	6	21	33	1.79
1258008--1258046	20	2.0	20	84	0	51	35	17	12	33	1.88
1258405--1258471	34	2.0	34	90	0	107	31	14	28	25	1.95
1258451--1258523	36	2.0	36	100	0	146	32	13	27	26	1.94
1259820--1260009	91	2.1	92	97	1	364	33	17	17	30	1.94
1260771--1260809	16	2.4	17	83	16	55	30	2	2	64	1.21
1260780--1260812	16	2.1	16	100	0	66	33	0	6	60	1.21
1261519--1261569	21	2.4	21	93	0	84	33	15	23	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1261597--1261640	20	2.2	20	87	0	61	34	13	15	36	1.87
1263080--1263120	15	2.7	15	82	10	57	48	26	0	24	1.51
1268502--1268532	15	2.1	15	100	0	62	54	19	0	25	1.44
1271661--1271700	3	13.0	3	94	5	71	67	0	0	32	0.91
1299409--1299452	21	2.1	21	91	0	70	20	20	29	29	1.98
1311732--1311779	22	2.2	22	85	7	62	43	2	22	31	1.65
1312223--1312337	3	38.3	3	94	0	149	66	7	0	26	1.19
1316309--1316372	22	2.9	21	84	9	83	39	20	15	25	1.92
1320469--1320850	187	2.0	186	96	2	712	36	7	16	39	1.77
1322919--1322961	20	2.0	22	82	8	54	41	2	4	51	1.35
1333809--1334016	104	2.0	104	100	0	416	37	16	8	37	1.79
1340272--1340417	38	3.9	37	69	11	109	30	23	8	37	1.85
1340205--1340521	73	4.3	73	83	4	334	28	21	11	38	1.89
1340205--1340521	147	2.2	146	84	2	395	28	21	11	38	1.89
1340429--1340622	101	1.9	101	84	4	257	27	20	13	39	1.89
1340530--1340669	74	1.9	73	86	1	199	28	22	12	36	1.90
1342019--1342058	21	1.9	21	90	10	64	30	10	0	60	1.30
1342778--1342809	16	2.0	16	93	0	55	75	3	0	21	0.95
1344947--1344988	4	10.2	4	80	14	50	28	0	0	71	0.86
1346455--1346496	15	2.7	15	79	17	50	50	2	0	47	1.14
1347879--1347927	21	2.3	21	85	0	62	40	20	20	18	1.91
1351983--1352034	20	2.6	21	78	9	63	25	17	23	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1360048--1360100	22	2.4	22	87	6	72	39	5	1	52	1.36
1378915--1379009	34	2.8	34	80	1	109	24	18	20	36	1.95
1382956--1383022	30	2.2	30	86	0	89	28	17	5	47	1.71
1395621--1395666	20	2.3	20	88	3	67	39	23	0	36	1.55
1396317--1396361	22	2.0	22	83	8	56	33	13	2	51	1.53
1396322--1396364	22	1.9	23	85	4	61	37	11	0	51	1.39
1398470--1398544	35	2.1	35	90	0	114	52	6	16	25	1.68
1408404--1408441	15	2.5	16	83	12	53	42	7	31	18	1.79
1418188--1418445	129	2.0	129	100	0	516	31	17	10	41	1.83
1420387--1420549	60	2.7	60	81	6	188	35	17	3	43	1.66
1425330--1425355	2	13.0	2	100	0	52	50	50	0	0	1.00
1426717--1426758	21	2.0	21	100	0	84	33	19	4	42	1.72
1428998--1429052	28	2.0	27	85	7	74	21	14	12	50	1.76
1435581--1435616	3	11.7	3	88	5	54	72	0	27	0	0.85
1435584--1435617	16	2.1	16	94	0	59	73	0	26	0	0.83
1441543--1441626	32	2.6	31	81	5	96	29	29	25	15	1.96
1442375--1442420	22	2.1	22	84	8	58	41	10	17	30	1.84
1455029--1455157	62	2.1	63	91	1	206	21	17	28	31	1.96
1456170--1456223	20	2.5	22	88	5	76	25	18	22	33	1.97
1457622--1457662	21	1.9	22	90	5	66	39	7	12	41	1.70
1460845--1460873	2	14.5	2	100	0	58	51	0	0	48	1.00
1460994--1461048	25	2.2	25	84	12	69	49	1	0	49	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1462248--1462303	9	5.5	11	75	23	52	35	26	30	7	1.83
1462246--1462312	30	2.2	30	91	0	107	32	25	29	11	1.92
1467126--1467226	29	3.5	29	82	2	105	43	17	19	18	1.88
1473126--1473453	54	6.1	54	92	1	505	36	17	13	31	1.89
1473801--1473993	94	2.0	95	84	1	253	27	23	10	37	1.89
1473964--1474011	20	2.5	19	86	6	62	29	27	12	31	1.93
1479809--1480088	54	5.2	54	89	1	393	36	17	13	32	1.89
1480415--1480564	73	2.0	74	93	1	257	23	21	13	42	1.88
1491980--1492066	34	2.6	34	79	0	111	22	9	22	44	1.81
1495500--1495582	41	2.0	42	97	2	159	31	28	18	21	1.97
1505392--1505432	2	21.0	2	95	5	75	51	0	0	48	1.00
1505390--1505432	21	2.0	21	100	0	86	51	0	0	48	1.00
1505432--1505482	25	2.1	25	85	3	68	11	11	0	76	1.02
1505630--1505681	27	2.0	27	88	3	79	19	7	1	71	1.20
1505575--1505680	30	3.7	28	74	18	94	16	9	1	72	1.19
1507444--1507482	20	2.0	20	100	0	78	15	20	41	23	1.90
1510873--1511050	90	2.0	90	92	0	293	44	6	11	37	1.67
1517250--1517417	90	1.9	90	91	2	275	42	6	11	39	1.68
1519220--1519264	6	7.5	6	89	0	72	15	4	15	64	1.44
1519273--1519301	15	1.9	15	100	0	58	20	3	0	75	0.94
1521352--1521386	17	2.1	17	88	0	52	17	0	17	65	1.27
1539321--1539506	57	3.4	56	83	8	206	37	9	18	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1544123--1544177	23	2.4	23	96	0	101	34	16	18	30	1.93
1547438--1547716	57	5.0	57	82	4	248	35	11	18	33	1.88
1547572--1547712	54	2.6	54	84	3	167	38	12	17	31	1.87
1554929--1554966	2	19.5	2	89	5	60	50	2	0	47	1.15
1555679--1555713	2	18.5	2	88	11	56	51	0	0	48	1.00
1558789--1558878	25	3.6	25	83	0	108	30	20	21	28	1.98
1558780--1558878	50	2.0	50	84	3	130	31	21	20	27	1.98
1559018--1559102	15	5.7	15	78	2	73	36	18	7	37	1.78
1565793--1565892	25	4.0	25	74	7	87	33	22	21	24	1.98
1566022--1566103	15	5.5	15	77	8	78	36	21	3	37	1.72
1566476--1566523	22	2.2	22	84	0	60	25	22	8	43	1.81
1566482--1566536	22	2.5	22	90	0	83	21	23	12	41	1.88
1566624--1566679	21	2.7	20	83	8	76	35	19	7	37	1.79
1567033--1567062	13	2.3	13	100	0	60	53	33	0	13	1.40
1568621--1568664	23	1.9	23	85	0	61	38	2	4	54	1.33
1568659--1568859	39	5.6	37	69	21	124	45	2	6	45	1.42
1568698--1568776	27	3.0	27	88	1	106	46	2	3	46	1.34
1568654--1568804	66	2.3	66	82	6	182	46	2	5	45	1.41
1568735--1568808	40	1.9	37	86	8	103	45	0	4	50	1.20
1568652--1568878	36	6.3	35	69	20	132	45	2	7	45	1.43
1572610--1572644	17	2.1	17	94	0	61	22	25	17	34	1.96
1572966--1573065	25	4.0	25	79	7	114	30	20	24	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1573195--1573280	15	5.8	15	77	8	77	40	20	3	34	1.70
1573648--1573706	22	2.7	22	74	10	66	22	23	15	38	1.92
1573796--1573850	21	2.6	21	82	0	74	40	20	5	34	1.75
1575877--1575959	27	3.2	26	83	6	105	40	1	7	50	1.38
1575888--1575964	27	2.9	27	86	0	109	44	1	6	48	1.37
1575974--1576000	2	13.5	2	100	0	54	51	0	0	48	1.00
1575939--1576033	45	2.1	45	83	11	115	45	1	7	46	1.38
1575939--1576033	46	2.1	44	83	11	113	45	1	7	46	1.38
1575986--1576087	36	2.9	35	78	10	109	43	0	9	46	1.43
1575988--1576087	34	2.9	34	79	8	103	43	1	10	46	1.44

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