genome.fa.s8654.2.7.7.80.10.50.1000.8.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: VEPZ01008654.1 Hibiscus syriacus cultivar Beakdansim tig00111648_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3533819

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  8  of  18  ( 2052 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)
1422886--1422910	9	2.8	9	100	0	50	8	8	0	84	0.79
1423156--1423206	1	51.0	1	84	0	57	0	7	1	90	0.53
1423508--1423612	52	2.0	52	100	0	210	34	13	21	30	1.92
1423713--1423744	3	10.7	3	100	0	64	68	31	0	0	0.90
1423902--1424474	259	2.2	258	90	0	905	34	16	15	33	1.91
1434062--1434094	2	16.5	2	100	0	66	51	0	0	48	1.00
1437035--1438111	4	271.8	4	95	3	1941	24	49	0	25	1.54
1440851--1440882	17	1.9	17	93	6	57	46	6	12	34	1.67
1440847--1440889	16	2.6	17	85	7	63	46	9	9	34	1.68
1441036--1441065	2	15.5	2	93	6	53	50	0	0	50	1.00
1448194--1448226	16	2.1	16	100	0	66	21	24	30	24	1.99
1451052--1451082	11	2.7	12	90	10	55	12	0	38	48	1.42
1451029--1451105	35	2.2	35	83	0	91	15	5	35	44	1.69
1451076--1451113	12	3.2	12	85	3	51	21	15	23	39	1.92
1451760--1451812	5	9.8	5	80	15	61	75	1	0	22	0.90
1451777--1451814	13	3.0	13	88	11	53	73	0	0	26	0.83
1453273--1453768	45	11.0	46	77	8	139	43	19	15	22	1.88
1453382--1453975	45	13.2	44	76	9	332	44	19	14	21	1.86
1453356--1453975	90	6.9	89	80	7	547	43	19	14	22	1.87
1453426--1453975	135	4.1	134	81	6	585	44	19	14	21	1.86
1453984--1454081	37	2.6	37	79	6	99	45	17	12	24	1.82
1455408--1455451	20	2.1	21	91	4	72	4	11	2	81	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1462839--1462917	30	2.4	34	79	10	94	34	10	1	54	1.42
1465268--1465293	6	4.3	6	100	0	52	0	69	15	15	1.20
1466938--1467000	15	4.1	14	75	20	56	26	1	1	69	1.06
1466935--1466998	23	2.7	24	86	11	80	26	1	3	68	1.13
1466975--1467008	17	2.1	16	94	5	59	26	0	0	73	0.83
1466935--1467006	23	3.0	23	82	11	76	25	1	2	70	1.08
1467418--1467478	25	2.5	24	84	7	70	29	1	1	67	1.10
1468473--1468714	108	2.2	108	86	4	328	18	16	19	45	1.85
1469066--1469114	23	2.1	23	85	7	64	14	6	12	67	1.40
1470245--1470278	15	2.3	15	89	0	50	29	2	2	64	1.22
1480921--1481045	46	2.7	46	96	2	225	38	7	23	31	1.82
1483510--1483550	21	2.0	21	90	4	66	36	17	21	24	1.94
1487690--1487730	21	1.9	22	85	14	59	68	7	14	9	1.39
1493290--1493338	22	2.2	22	82	7	64	32	30	28	8	1.86
1494723--1495000	101	2.7	102	97	1	522	25	14	23	36	1.93
1494979--1495022	22	2.0	22	100	0	88	27	27	18	27	1.98
1495079--1495136	23	2.5	23	94	0	107	20	32	27	18	1.97
1495078--1495153	23	3.3	23	85	5	100	21	28	25	25	1.99
1503174--1503253	40	2.0	40	87	0	115	32	18	12	36	1.89
1503876--1504053	87	2.0	87	91	3	286	39	8	7	43	1.65
1507703--1507809	50	2.1	50	78	11	112	21	18	22	37	1.94
1507904--1507938	12	3.0	12	91	4	54	8	14	5	71	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1514481--1514522	11	3.7	11	84	9	50	14	11	4	69	1.34
1515087--1515129	15	2.9	14	80	10	50	62	25	2	9	1.37
1516053--1516105	20	2.7	19	82	5	61	39	16	24	18	1.91
1516145--1516208	22	2.9	22	92	0	101	29	14	20	35	1.92
1516558--1516699	55	2.6	54	86	4	196	38	11	14	35	1.81
1516919--1517431	68	7.6	68	88	1	742	31	15	23	29	1.95
1518171--1518221	26	2.0	26	81	11	61	37	1	5	54	1.36
1518814--1519416	118	5.2	118	78	7	658	37	13	17	31	1.88
1519140--1519555	108	3.7	109	72	9	365	37	13	16	33	1.87
1518811--1519524	226	3.1	226	85	5	875	37	13	17	32	1.88
1524693--1524723	13	2.4	13	94	0	53	25	41	0	32	1.56
1530256--1530313	26	2.2	26	87	6	82	75	0	17	6	1.01
1532411--1532743	55	6.2	54	75	8	277	33	9	16	40	1.80
1532424--1532781	105	3.3	104	79	6	328	32	8	16	41	1.80
1532411--1532796	160	2.4	159	77	7	370	33	9	17	40	1.81
1532424--1532822	214	1.9	213	79	6	457	32	9	17	41	1.81
1534176--1534239	20	3.2	20	65	20	53	39	9	25	26	1.86
1534871--1534979	44	2.5	44	77	3	112	35	17	16	30	1.92
1541748--1542512	139	5.5	138	82	5	859	25	16	21	35	1.95
1549073--1549850	137	5.6	136	75	8	482	24	31	18	25	1.98
1549490--1549883	136	2.9	133	78	5	423	24	31	18	25	1.98
1553601--1553834	128	1.8	128	87	1	353	29	14	21	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1554932--1554986	21	2.6	21	73	0	56	14	25	32	27	1.95
1554995--1555124	42	3.1	41	86	4	170	25	19	30	25	1.98
1555684--1555719	17	2.1	17	90	10	56	52	5	0	41	1.24
1556707--1556760	21	2.5	21	84	3	72	50	16	3	29	1.63
1556884--1556925	21	1.9	21	85	9	57	45	0	0	54	0.99
1558480--1558518	16	2.7	15	85	14	55	33	5	5	56	1.43
1558551--1558588	13	2.7	15	80	16	53	23	5	13	57	1.56
1559879--1559923	3	15.3	3	95	4	83	64	0	0	35	0.94
1574997--1575249	126	2.0	126	99	0	497	39	18	11	30	1.86
1576480--1576589	29	3.8	29	89	4	159	35	5	0	59	1.21
1576543--1576623	24	3.3	24	66	19	60	34	9	1	54	1.42
1576725--1576790	27	2.3	28	79	10	71	46	1	0	51	1.10
1576935--1576975	19	2.2	19	86	0	55	14	7	0	78	0.96
1577786--1577820	17	2.1	17	88	0	52	57	11	5	25	1.56
1579505--1579574	13	4.8	15	75	22	69	37	0	0	62	0.95
1579505--1579574	7	9.6	8	74	23	50	37	0	0	62	0.95
1582640--1582692	25	2.1	25	85	0	70	58	5	26	9	1.52
1586684--1586726	22	2.0	22	81	9	52	41	13	20	23	1.88
1593597--1593657	22	2.8	22	94	0	104	34	14	19	31	1.92
1593597--1593670	22	3.5	21	85	7	78	32	14	22	29	1.94
1594050--1594140	45	2.0	45	95	0	164	30	9	23	36	1.87
1594101--1594387	59	4.9	59	79	5	314	32	10	17	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1594002--1594193	104	1.8	104	88	4	298	32	10	19	37	1.86
1594164--1594249	29	3.0	27	69	14	75	36	10	16	37	1.83
1594098--1594368	58	4.6	59	78	6	266	32	10	17	39	1.84
1594100--1594368	116	2.3	116	83	5	321	32	10	17	39	1.84
1594102--1594422	174	1.8	175	82	8	413	33	9	17	39	1.82
1599470--1599649	59	3.1	59	88	1	281	30	11	19	38	1.86
1599604--1599694	45	2.0	45	100	0	182	30	10	21	36	1.88
1599552--1599875	104	3.0	105	81	12	400	32	11	18	37	1.87
1599649--1599945	59	5.0	59	88	4	447	31	12	18	37	1.88
1599485--1599945	163	2.7	171	88	6	645	31	11	19	37	1.87
1599649--1599940	119	2.5	117	86	6	435	31	11	18	37	1.88
1600846--1601492	90	7.3	90	87	2	858	33	18	18	28	1.95
1603232--1603309	16	5.3	15	77	20	76	37	0	0	62	0.95
1603232--1603300	28	2.4	27	81	11	84	36	0	0	63	0.94
1603234--1603308	30	2.5	30	81	14	93	38	0	0	61	0.96
1603232--1603309	8	10.6	8	77	21	66	37	0	0	62	0.95
1603254--1603299	20	2.2	21	85	11	60	32	0	0	67	0.91
1603251--1603301	17	2.7	19	74	20	54	33	0	0	66	0.92
1612571--1612595	8	3.1	8	100	0	50	76	0	24	0	0.80
1613799--1613839	14	2.9	14	85	7	57	58	0	4	36	1.20
1613965--1614123	70	2.3	70	82	4	187	41	24	1	32	1.66
1615415--1615506	47	2.0	47	93	0	157	41	17	17	23	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1617580--1617770	82	2.3	83	85	4	242	38	10	18	32	1.85
1622099--1622169	34	2.1	34	92	5	117	52	12	9	25	1.70
1624746--1624812	34	2.0	34	96	0	125	53	7	22	16	1.67
1626183--1626230	20	2.4	20	100	0	96	43	25	14	16	1.86
1626776--1626835	20	3.0	20	77	0	66	48	21	15	15	1.81
1626827--1626871	20	2.2	20	80	0	54	15	26	15	42	1.87
1626837--1626881	20	2.2	20	96	0	81	13	17	15	53	1.73
1626845--1626888	20	2.2	20	87	0	61	13	18	18	50	1.79
1628885--1629001	21	5.6	20	73	15	94	23	35	19	22	1.96
1628883--1629001	42	2.8	41	88	2	166	22	35	19	22	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18