genome.fa.s8194.2.7.7.80.10.50.1000.8.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: VEPZ01008194.1 Hibiscus syriacus cultivar Beakdansim tig00110813_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2426039

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

This is table  8  of  13  ( 1464 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)
1479050--1479099	20	2.5	20	100	0	100	34	22	8	36	1.83
1479166--1479203	18	2.1	18	95	0	67	34	0	0	65	0.93
1484494--1484581	40	2.2	40	91	0	140	35	22	18	23	1.96
1484476--1484940	41	11.3	41	82	6	394	27	18	19	33	1.96
1487548--1487825	43	6.5	42	78	6	247	24	23	18	33	1.97
1487552--1487825	85	3.2	84	80	8	252	25	22	17	33	1.96
1487548--1487825	128	2.2	129	81	5	305	24	23	18	33	1.97
1487548--1487856	43	7.2	43	76	10	190	24	22	19	33	1.97
1487929--1487967	18	2.2	18	100	0	78	25	25	23	25	2.00
1488498--1488558	21	3.2	21	63	29	55	32	4	19	42	1.73
1488490--1488608	35	3.3	36	90	5	179	32	5	18	43	1.72
1493053--1493113	21	3.2	21	65	29	64	31	4	21	42	1.74
1493045--1493163	35	3.3	37	88	8	174	31	5	19	43	1.72
1494702--1494740	19	2.1	19	90	0	60	48	2	5	43	1.38
1494954--1495027	38	1.9	38	81	5	87	16	10	36	36	1.83
1511077--1511137	20	2.9	20	82	7	68	22	26	29	21	1.99
1513693--1513753	3	20.0	3	83	3	68	39	0	1	59	1.08
1514564--1514591	13	2.2	13	100	0	56	0	21	64	14	1.29
1515226--1515301	35	2.2	35	79	9	84	35	3	1	59	1.24
1522402--1522743	83	4.1	83	93	2	548	27	14	21	36	1.93
1525913--1526600	76	9.0	76	96	0	1216	22	21	21	34	1.96
1525913--1526600	305	2.3	305	95	1	1247	22	21	21	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1526756--1526828	3	24.0	3	87	2	101	36	0	1	61	1.05
1526754--1526837	15	5.6	15	85	4	89	40	0	1	58	1.06
1528242--1528345	52	2.0	52	81	11	122	27	4	3	63	1.32
1528297--1528372	35	2.2	35	79	9	84	35	3	1	59	1.24
1532501--1532592	23	4.0	23	74	7	71	20	22	20	35	1.96
1532558--1532609	24	2.2	24	85	0	68	19	21	21	38	1.94
1532729--1532789	31	2.0	31	86	0	86	31	1	19	47	1.59
1536223--1536254	13	2.5	13	94	0	55	34	9	15	40	1.80
1549406--1549518	32	3.5	32	90	2	113	30	24	25	19	1.98
1549440--1549548	32	3.4	32	93	0	173	29	27	24	18	1.98
1553746--1553800	23	2.4	23	96	0	101	40	7	29	23	1.81
1570624--1570656	3	11.3	3	90	6	50	36	0	0	63	0.95
1575989--1576035	20	2.4	19	80	16	51	72	0	14	12	1.13
1576032--1576069	17	2.1	19	85	9	53	76	2	18	2	1.02
1578146--1578584	54	8.1	53	78	6	391	31	6	19	42	1.77
1578146--1578584	108	4.0	108	80	5	458	31	6	19	42	1.77
1578147--1578580	162	2.7	161	81	6	484	31	6	18	42	1.77
1578871--1578929	14	4.3	14	75	12	59	52	0	0	47	1.00
1581770--1582086	118	2.7	119	88	0	456	39	14	20	25	1.91
1582070--1582195	43	3.0	43	77	4	114	30	24	17	26	1.97
1597651--1597705	23	2.4	23	75	6	58	23	25	21	29	1.99
1597809--1597879	36	2.0	36	100	0	142	39	8	12	39	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1601806--1601848	21	2.0	21	90	0	68	20	20	16	41	1.90
1602373--1602416	12	3.4	12	90	9	61	29	11	6	52	1.63
1602743--1602784	20	2.1	20	90	0	66	26	42	21	9	1.83
1606107--1606185	34	2.4	33	83	8	90	39	0	1	59	1.06
1606097--1606185	34	2.7	31	79	6	88	39	0	2	58	1.11
1606324--1606377	17	3.2	17	72	0	54	31	0	3	64	1.11
1614714--1614791	26	2.9	26	75	11	77	70	5	3	20	1.22
1614968--1615003	3	12.0	3	87	0	54	33	33	2	30	1.72
1617749--1617793	12	3.8	12	85	5	56	40	0	0	60	0.97
1618326--1618360	2	17.5	2	100	0	70	51	0	0	48	1.00
1618786--1618829	20	2.0	23	83	16	58	56	2	0	40	1.11
1619894--1619928	18	1.9	18	88	0	52	54	8	5	31	1.54
1620000--1620045	22	2.0	22	87	4	65	28	2	4	65	1.23
1622023--1622073	26	2.0	26	88	0	75	25	5	19	49	1.71
1622017--1622070	13	4.2	13	74	9	56	24	3	22	50	1.65
1622254--1622294	20	2.0	21	86	13	59	36	0	12	51	1.40
1624420--1624464	6	7.5	6	94	0	72	20	13	35	31	1.91
1625117--1625192	30	2.6	29	82	12	91	50	0	0	50	1.00
1625130--1625219	21	4.2	21	76	15	78	52	1	0	46	1.07
1625142--1625192	10	5.3	9	78	17	50	49	0	0	50	1.00
1625157--1625221	8	8.6	8	74	16	50	55	1	0	43	1.09
1625139--1625264	29	4.6	28	70	19	95	50	0	0	48	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1625140--1625221	31	2.7	29	85	11	94	52	1	0	46	1.08
1625156--1625259	52	2.0	52	81	12	124	50	0	0	48	1.14
1625340--1625393	23	2.3	23	87	0	72	53	1	0	44	1.11
1625492--1625542	20	2.5	20	75	15	59	60	0	0	39	0.97
1625663--1625693	14	2.2	14	94	0	53	48	9	6	35	1.62
1629807--1629964	36	4.4	36	85	4	194	25	22	20	31	1.98
1631812--1631876	3	21.3	3	74	3	58	38	0	4	56	1.20
1631795--1631864	9	7.8	9	76	15	65	44	0	2	52	1.15
1633347--1633388	18	2.4	17	81	14	50	38	2	0	59	1.10
1636312--1636362	6	8.2	6	82	8	66	15	15	15	52	1.74
1639534--1639604	10	7.3	10	81	16	87	78	0	21	0	0.74
1639534--1639604	29	2.5	28	88	9	99	78	0	21	0	0.74
1639539--1639601	6	10.5	6	74	19	60	80	0	19	0	0.70
1639535--1639604	19	3.9	18	81	18	92	80	0	20	0	0.72
1641016--1641173	47	3.0	54	79	14	197	39	12	23	24	1.90
1642094--1642213	55	2.2	54	82	8	136	35	9	13	41	1.76
1642206--1642608	177	2.3	178	91	1	675	28	16	20	34	1.94
1642590--1642672	42	2.0	42	90	0	130	25	19	21	33	1.97
1642930--1643126	95	2.1	95	88	1	288	35	11	22	30	1.90
1643025--1643401	117	3.2	116	92	2	594	37	13	21	27	1.91
1643227--1643290	20	3.2	20	65	12	60	42	10	21	25	1.85
1643343--1643440	39	2.5	39	93	3	162	46	13	21	18	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1643376--1643438	17	3.4	17	68	19	54	50	11	22	15	1.75
1643618--1643673	3	18.3	3	77	3	58	35	0	5	58	1.21
1645292--1645333	21	2.0	20	82	13	50	30	9	0	59	1.29
1645744--1645835	45	2.0	45	100	0	184	38	19	13	29	1.89
1646338--1646416	39	2.0	39	90	0	122	36	12	29	21	1.90
1646415--1646472	21	2.7	21	77	17	66	53	17	10	18	1.71
1646819--1646862	14	3.1	14	90	0	70	11	9	18	61	1.55
1647137--1647205	10	7.1	10	75	9	54	7	13	21	57	1.59
1647116--1647202	13	6.9	14	73	25	79	5	11	24	58	1.54
1647124--1647202	24	3.3	23	81	15	99	6	12	22	58	1.57
1648946--1649007	3	20.0	3	78	15	56	37	1	1	59	1.17
1650564--1650603	3	13.3	3	87	10	55	40	0	0	60	0.97
1662958--1663028	35	2.0	35	91	0	115	40	7	14	38	1.73
1668233--1668285	20	2.7	20	90	0	79	50	11	30	7	1.65
1672238--1672286	17	2.9	17	87	0	62	36	10	6	46	1.63
1682020--1682161	44	3.2	44	61	20	103	44	17	9	28	1.79
1682020--1682202	91	2.0	91	100	0	366	45	16	9	28	1.79
1691314--1691351	8	4.8	8	87	12	51	89	5	0	5	0.59
1691314--1691350	14	2.5	15	91	8	58	89	5	0	5	0.60
1701866--1701904	2	19.5	2	94	0	69	51	2	0	46	1.14
1708631--1708671	21	2.0	21	90	0	64	43	12	0	43	1.41
1708754--1708818	27	2.4	27	97	0	121	50	21	15	12	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1711725--1711847	61	2.0	62	98	1	239	22	8	21	47	1.77
1716442--1716471	8	3.8	8	100	0	60	76	0	0	23	0.78
1721362--1721431	3	23.7	3	91	2	115	62	0	2	34	1.10
1721430--1721479	3	16.7	3	100	0	100	34	0	32	34	1.58
1725072--1725117	3	16.0	3	77	8	51	63	2	0	34	1.07
1725436--1725541	40	2.6	41	77	4	106	24	14	30	31	1.94
1725431--1725848	140	3.0	140	86	0	586	24	14	28	31	1.94
1726068--1726235	67	2.5	65	83	8	169	38	8	17	36	1.80
1726201--1726287	37	2.3	38	82	2	104	45	11	16	26	1.81
1726201--1726303	38	2.8	36	76	8	98	43	11	14	30	1.81

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