genome.fa.s8252.2.7.7.80.10.50.1000.7.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: VEPZ01008252.1 Hibiscus syriacus cultivar Beakdansim tig00110904_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2928487

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  7  of  13  ( 1474 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)
1398311--1398350	21	1.9	21	89	0	62	25	12	25	37	1.91
1398647--1398742	21	4.6	21	82	1	122	21	37	19	20	1.94
1400245--1400301	20	2.8	21	84	5	73	49	22	15	12	1.78
1400454--1400538	20	4.2	20	87	0	125	40	23	17	18	1.92
1400854--1400883	6	5.0	6	91	0	51	16	3	16	63	1.44
1403147--1403201	24	2.3	24	87	3	85	41	18	18	21	1.90
1403948--1403986	15	2.5	15	83	4	51	66	0	5	28	1.12
1404142--1404231	20	4.5	20	72	14	78	33	12	23	31	1.91
1404142--1404232	40	2.3	40	84	0	119	34	12	23	30	1.91
1404255--1404355	20	5.0	20	72	13	73	21	15	27	34	1.94
1404255--1404314	19	3.0	21	83	9	72	21	15	25	38	1.92
1406239--1406564	63	5.4	62	65	17	191	18	7	51	22	1.71
1406455--1406506	6	8.2	6	75	12	50	17	0	59	23	1.37
1406242--1406644	123	3.3	125	71	16	293	19	7	50	21	1.73
1406577--1406842	126	2.1	125	95	0	478	19	8	51	20	1.73
1412229--1412300	25	3.0	24	82	13	94	43	4	0	52	1.20
1414147--1414409	143	1.8	142	86	3	384	37	12	15	33	1.86
1417412--1417461	3	16.3	3	95	4	91	2	32	0	66	1.03
1420253--1420326	12	5.8	12	70	23	53	77	2	1	18	0.97
1420256--1420324	26	2.6	25	84	11	77	75	2	1	20	1.01
1420261--1420326	23	2.8	22	78	15	62	75	3	1	19	1.01
1420244--1420319	27	2.7	27	75	8	71	75	2	2	19	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1420258--1420326	7	9.3	7	72	16	50	76	2	1	18	0.98
1420973--1421023	3	17.0	3	80	11	52	68	0	0	31	0.90
1420973--1421023	25	2.0	25	88	11	77	68	0	0	31	0.90
1424629--1424689	3	20.3	3	77	15	56	68	0	0	31	0.89
1424629--1424689	26	2.5	25	79	15	74	68	0	0	31	0.89
1424628--1424686	20	3.0	20	77	18	61	69	0	0	30	0.89
1426010--1426057	23	2.1	23	84	0	60	27	18	18	35	1.95
1426043--1426086	21	2.1	21	100	0	88	40	27	9	22	1.84
1427014--1427058	2	22.5	2	100	0	90	48	0	0	51	1.00
1432800--1432925	31	4.0	31	86	4	182	41	23	16	19	1.90
1434210--1434252	3	14.3	3	100	0	86	67	0	32	0	0.91
1434921--1435250	59	5.6	59	92	0	552	33	15	19	31	1.92
1440058--1440393	59	5.7	59	91	0	537	33	15	19	31	1.92
1441949--1442100	45	3.4	44	88	2	223	30	21	7	39	1.82
1441955--1442100	44	3.3	44	89	2	211	31	21	8	39	1.83
1442354--1442422	21	3.3	21	97	0	129	27	28	14	28	1.95
1445114--1445168	26	2.1	26	96	0	101	27	29	7	36	1.84
1446276--1446325	2	25.0	2	100	0	100	50	0	0	50	1.00
1446336--1446376	16	2.7	15	82	10	57	9	14	0	75	1.04
1446363--1446432	27	2.6	26	80	8	70	2	20	4	72	1.14
1446389--1446427	18	2.3	18	86	8	55	0	20	5	74	1.01
1447135--1447166	16	2.0	16	93	0	55	28	12	12	46	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1448889--1449030	45	3.2	45	91	1	223	29	21	8	40	1.82
1449027--1449069	20	2.2	20	86	0	59	53	23	4	18	1.63
1455282--1455330	25	1.9	26	87	4	73	44	0	12	42	1.41
1456289--1456340	16	3.2	16	72	2	50	53	26	7	11	1.63
1456992--1457064	32	2.3	31	86	6	101	42	28	8	20	1.81
1457211--1457245	15	2.3	15	90	0	52	31	37	20	11	1.88
1460193--1460236	3	14.3	3	80	4	52	38	0	0	61	0.96
1461894--1461935	2	21.0	2	100	0	84	50	0	0	50	1.00
1462198--1462240	21	2.0	22	82	13	54	16	6	2	74	1.14
1462346--1462510	82	2.0	82	100	0	330	29	10	15	44	1.81
1473332--1473372	14	2.9	14	86	13	50	73	0	19	7	1.07
1474350--1474834	137	3.5	137	82	5	543	29	28	16	26	1.97
1475072--1475132	3	19.3	3	76	6	50	36	1	3	59	1.24
1477015--1477046	5	6.6	5	92	7	57	18	0	0	81	0.70
1477016--1477046	9	3.3	9	95	4	53	19	0	0	80	0.71
1478415--1478441	14	1.9	14	100	0	54	29	22	7	40	1.81
1483935--1484004	26	2.7	26	100	0	140	32	31	17	18	1.94
1484845--1484894	21	2.4	21	96	0	91	28	30	12	30	1.92
1484972--1485011	21	2.0	19	90	9	62	35	32	10	22	1.87
1494110--1494677	55	10.3	55	87	1	755	33	18	19	28	1.95
1500763--1500810	20	2.4	20	86	6	62	35	10	29	25	1.89
1501655--1501723	29	2.4	29	97	0	129	34	13	18	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1502619--1502687	29	2.4	29	97	0	129	34	13	18	33	1.90
1503122--1503162	3	13.7	3	85	10	57	34	0	2	63	1.08
1506260--1506745	55	8.9	55	87	0	692	34	18	20	27	1.96
1510558--1510609	21	2.5	21	87	3	70	21	17	9	51	1.73
1528272--1528338	34	2.0	34	90	0	107	34	20	10	34	1.87
1528658--1528743	33	2.6	33	78	7	102	34	16	12	36	1.87
1529061--1529388	129	2.5	128	77	8	322	25	30	17	25	1.98
1529592--1529670	3	26.0	3	97	2	149	32	0	0	67	0.91
1531056--1531153	30	3.3	30	80	9	94	19	17	12	51	1.76
1531092--1531211	30	4.0	30	81	7	100	15	14	12	57	1.65
1534232--1534297	30	2.2	30	83	5	80	66	9	3	21	1.33
1535896--1535972	3	25.0	3	80	10	84	61	2	2	33	1.24
1536215--1536493	131	2.1	131	82	7	323	24	17	31	27	1.97
1536498--1536597	28	3.5	28	82	9	112	48	15	15	22	1.81
1536609--1536778	67	2.6	65	75	4	171	37	13	22	25	1.91
1537090--1537183	31	2.8	33	84	9	120	41	12	20	25	1.87
1537491--1537539	10	5.1	10	85	7	57	6	2	42	48	1.39
1537495--1537522	2	14.0	2	100	0	56	0	0	50	50	1.00
1538533--1538588	2	28.5	2	96	3	105	50	0	0	50	1.00
1540433--1540513	32	2.5	32	97	0	153	33	27	11	28	1.91
1542099--1542225	30	4.2	30	74	4	103	55	5	14	24	1.60
1542086--1542225	60	2.3	60	78	0	163	57	7	12	22	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1543695--1543765	3	24.0	3	78	8	74	59	2	4	33	1.31
1543689--1543773	27	3.3	25	80	12	93	61	2	3	32	1.26
1546676--1546868	83	2.3	82	92	0	323	39	4	11	45	1.60
1547113--1547305	95	2.0	95	88	4	282	24	27	15	33	1.95
1551971--1552059	25	3.4	27	76	17	82	42	5	0	51	1.25
1559485--1559523	20	2.0	20	84	0	51	23	5	23	48	1.70
1559678--1559728	23	2.3	23	83	6	70	17	21	41	19	1.91
1562747--1562771	2	12.5	2	100	0	50	48	0	0	52	1.00
1567881--1567915	9	3.9	9	88	0	52	11	34	0	54	1.37
1571458--1571570	59	1.9	57	87	3	163	31	14	30	23	1.94
1577982--1578052	36	2.0	35	97	2	133	35	19	8	36	1.82
1589979--1590024	18	2.6	18	92	0	74	47	13	6	32	1.68
1590080--1590121	17	2.5	17	77	14	50	45	11	11	30	1.77
1591343--1591387	22	2.0	22	91	0	72	46	20	2	31	1.62
1592692--1592732	21	2.0	21	85	0	55	29	29	24	17	1.97
1594255--1594575	103	3.1	103	96	0	588	25	13	23	36	1.92
1594590--1594651	23	2.7	23	79	0	70	24	27	22	25	2.00
1595649--1595697	24	2.0	24	84	7	64	32	22	22	22	1.98
1595686--1595779	23	4.1	23	79	5	102	35	24	21	19	1.96
1597359--1597476	4	29.5	4	89	0	164	43	24	6	25	1.79
1597477--1597969	4	125.0	4	96	3	921	25	49	25	0	1.50
1597968--1599467	4	382.0	4	93	5	2537	49	24	0	25	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1603973--1603997	11	2.3	11	100	0	50	64	0	0	36	0.94
1603970--1604048	3	27.0	3	75	19	69	65	2	0	31	1.06
1603970--1604048	24	3.4	25	78	13	80	65	2	0	31	1.06
1604190--1604472	124	2.3	119	84	6	345	24	17	15	43	1.87
1604419--1604507	36	2.5	36	94	0	151	20	21	10	48	1.78
1604561--1604663	38	2.6	39	87	7	136	23	21	11	43	1.85
1604401--1604770	154	2.5	147	87	7	545	28	18	12	39	1.88
1604604--1605240	222	2.9	222	92	2	1005	27	18	14	38	1.91
1604606--1605240	113	5.7	112	90	4	939	27	18	14	38	1.91
1605947--1606242	115	2.6	115	91	2	467	32	19	14	33	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13