genome.fa.s9586.2.7.7.80.10.50.1000.8.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: VEPZ01009586.1 Hibiscus syriacus cultivar Beakdansim tig00116964_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3773412

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  8  of  19  ( 2170 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)
1462699--1463361	182	3.6	182	89	2	967	26	17	13	42	1.86
1464520--1464566	22	2.1	22	96	0	85	38	4	10	46	1.58
1468760--1468793	17	1.9	18	88	5	52	64	5	0	29	1.17
1471693--1471753	23	2.7	21	78	14	68	14	6	8	70	1.32
1472205--1472234	2	15.0	2	100	0	60	50	0	0	50	1.00
1477329--1477426	28	3.2	32	65	17	82	19	18	20	41	1.90
1478216--1478246	2	15.5	2	93	0	53	54	45	0	0	0.99
1482904--1482943	21	2.0	20	85	5	53	57	7	0	35	1.27
1485799--1485835	16	2.2	17	90	4	58	0	32	2	64	1.07
1490095--1490139	19	2.3	20	75	21	51	62	13	0	24	1.31
1490535--1490574	21	1.9	21	89	0	62	10	25	40	25	1.86
1497256--1497297	21	1.9	21	85	9	57	45	2	2	50	1.27
1497338--1497379	18	2.4	17	77	14	50	64	2	0	33	1.07
1497658--1497699	2	21.0	2	100	0	84	50	0	0	50	1.00
1497719--1497780	12	5.8	11	74	14	51	67	1	3	27	1.15
1498960--1499010	15	3.4	15	76	7	50	7	19	33	39	1.81
1499051--1499106	3	19.0	3	88	3	87	62	0	0	37	0.95
1499228--1499862	45	13.8	45	79	10	640	34	19	22	24	1.97
1499311--1499384	25	3.2	25	61	28	63	35	17	22	24	1.95
1499228--1499553	134	2.4	135	95	0	573	35	18	21	24	1.96
1499487--1499705	76	2.9	76	91	1	325	33	19	21	25	1.97
1500526--1500583	22	2.6	22	80	0	80	36	13	18	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1504313--1504504	65	3.0	64	81	9	203	25	18	23	31	1.98
1511037--1511295	41	6.3	41	82	2	286	29	20	18	31	1.96
1511020--1511297	123	2.2	122	84	5	360	29	20	18	32	1.96
1514578--1514891	85	3.7	86	80	8	338	23	21	19	35	1.96
1514586--1514881	128	2.3	130	74	9	293	22	21	19	35	1.96
1514578--1514891	43	7.4	42	77	9	280	23	21	19	35	1.96
1515185--1515224	21	1.9	21	90	10	64	32	10	5	52	1.56
1517168--1517377	65	3.2	64	76	9	203	25	17	24	31	1.97
1529315--1529354	21	1.9	21	85	10	55	25	37	25	12	1.91
1529383--1529407	8	3.1	8	100	0	50	52	48	0	0	1.00
1531334--1531379	19	2.4	19	100	0	92	19	4	30	45	1.70
1533415--1533458	11	4.2	11	85	8	65	38	27	18	15	1.91
1533415--1533466	21	2.5	21	93	0	86	38	25	19	17	1.93
1533415--1533466	10	5.0	10	84	9	68	38	25	19	17	1.93
1546224--1546252	14	2.1	14	100	0	58	0	24	55	20	1.44
1549026--1549067	21	1.9	21	85	9	57	47	0	2	50	1.14
1550828--1550875	3	16.0	3	86	0	69	60	0	0	39	0.97
1550823--1550871	12	4.4	12	78	17	61	57	0	0	42	0.99
1570593--1570643	24	2.2	24	86	6	70	47	0	3	49	1.20
1570931--1570963	15	2.2	15	94	0	57	18	3	63	15	1.43
1571046--1571110	21	3.1	21	88	0	85	41	10	30	16	1.83
1571144--1571207	33	1.9	33	90	0	101	31	0	45	23	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1572955--1573018	6	10.7	6	87	0	83	42	4	32	20	1.73
1572955--1573018	12	5.3	12	94	0	101	42	4	32	20	1.73
1574557--1574926	179	2.1	179	86	3	503	39	13	15	31	1.86
1579117--1579181	24	2.8	24	85	2	87	50	18	12	18	1.77
1579125--1579181	12	4.9	11	75	12	51	50	19	12	17	1.77
1580297--1580331	18	1.9	18	88	0	52	28	17	0	54	1.43
1581643--1581681	18	2.2	18	90	0	60	17	20	41	20	1.91
1581662--1581695	13	2.6	13	85	0	50	17	20	44	17	1.87
1581634--1581700	31	2.2	30	86	2	89	17	22	41	17	1.90
1583821--1583927	24	4.5	24	76	11	105	47	17	14	20	1.82
1583825--1583916	12	7.8	12	71	16	66	47	18	15	18	1.82
1583823--1583927	47	2.2	48	81	13	128	47	18	14	20	1.82
1585011--1585045	18	1.9	18	88	0	52	28	17	0	54	1.43
1587821--1587865	23	2.0	23	86	0	63	26	26	26	20	1.99
1587981--1588044	25	2.5	26	92	5	112	31	23	28	17	1.97
1588614--1588656	22	2.1	19	83	12	50	34	23	9	32	1.87
1590968--1591063	48	2.0	48	100	0	192	37	18	12	31	1.88
1592600--1592659	29	2.0	30	96	3	113	28	23	20	28	1.99
1594390--1594434	23	2.0	23	86	0	63	26	26	26	20	1.99
1594551--1594617	25	2.7	25	95	0	125	28	26	26	17	1.98
1615967--1616028	20	3.0	20	83	4	88	19	40	27	12	1.88
1615967--1616028	21	3.0	21	85	2	90	19	40	27	12	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1619323--1619406	22	4.0	21	86	9	118	19	36	28	15	1.92
1619321--1619405	41	2.0	42	88	6	129	18	38	28	14	1.90
1619754--1619819	33	2.1	32	82	5	80	33	16	25	24	1.96
1633194--1633228	3	11.7	3	100	0	70	68	0	0	31	0.90
1633310--1633403	20	4.7	20	81	7	91	35	25	11	27	1.91
1634617--1634655	20	2.0	20	94	0	69	15	10	20	53	1.70
1634619--1634662	20	2.2	20	87	0	61	15	11	20	52	1.74
1634980--1635037	22	2.6	22	94	0	98	18	20	43	17	1.89
1635204--1635255	20	2.6	20	75	6	52	21	7	32	38	1.82
1635821--1635980	59	2.7	59	83	4	189	36	4	23	35	1.75
1638851--1638909	23	2.6	23	91	0	91	37	23	15	23	1.93
1641424--1641452	2	15.0	2	92	7	51	48	0	0	51	1.00
1642689--1642721	2	16.5	2	100	0	66	48	0	0	51	1.00
1644863--1644949	43	2.0	44	86	2	122	28	11	25	34	1.91
1645026--1645094	13	5.2	13	75	15	61	17	18	10	53	1.71
1645026--1645094	26	2.6	26	74	17	70	17	18	10	53	1.71
1645571--1645752	90	2.0	90	100	0	364	47	13	18	20	1.81
1648319--1648361	9	4.6	9	80	8	50	86	0	13	0	0.58
1648327--1648353	11	2.5	11	100	0	54	92	0	7	0	0.38
1648319--1648361	20	2.2	20	91	0	68	86	0	13	0	0.58
1652311--1652367	22	2.6	22	97	0	105	33	15	14	36	1.88
1652714--1652746	12	3.0	11	87	12	50	54	15	9	21	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1652879--1653304	122	3.5	122	91	2	653	40	15	19	24	1.91
1655510--1655557	24	2.0	23	84	4	60	50	4	4	41	1.41
1655281--1655615	155	2.2	153	80	10	344	39	5	6	48	1.53
1659964--1660017	26	2.0	26	83	16	67	62	1	20	14	1.40
1673605--1673723	24	5.0	24	88	3	170	43	4	26	26	1.73
1673609--1673727	23	5.1	23	88	3	166	45	4	25	25	1.71
1673609--1673723	47	2.4	47	92	0	194	44	4	25	26	1.72
1673928--1673952	11	2.3	11	100	0	50	44	20	12	24	1.85
1674091--1674551	223	2.1	223	92	0	778	44	14	15	25	1.84
1674091--1674551	112	4.1	111	94	0	769	44	14	15	25	1.84
1674422--1674873	178	2.5	180	94	2	766	43	13	16	26	1.85
1676436--1676522	44	2.0	44	93	0	147	44	2	13	39	1.57
1676675--1676707	15	2.2	15	100	0	66	27	18	21	33	1.96
1681133--1681161	2	14.5	2	100	0	58	51	0	0	48	1.00
1681365--1681402	15	2.4	16	83	16	53	57	0	18	23	1.40
1681594--1681626	17	2.0	17	88	5	50	27	6	6	60	1.44
1683572--1683622	15	3.4	15	88	0	84	37	5	19	37	1.76
1683566--1683638	30	2.5	29	93	2	128	43	6	17	31	1.75
1683621--1683690	20	3.5	20	90	3	106	42	8	12	35	1.74
1683851--1683913	27	2.3	26	84	10	81	50	1	1	46	1.20
1683850--1683994	58	2.6	55	75	14	134	50	1	1	46	1.18
1683900--1684010	28	3.9	28	74	18	95	50	0	0	47	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1683965--1684028	21	3.1	20	80	10	67	53	0	0	46	1.00
1683972--1684035	21	3.1	21	74	17	62	50	0	0	50	1.00
1684208--1684327	42	2.9	42	98	0	231	44	19	20	15	1.87
1686866--1686899	2	17.0	2	100	0	68	50	0	0	50	1.00
1696353--1696829	223	2.2	219	90	6	750	44	6	8	40	1.62
1696899--1697372	181	2.6	182	89	1	693	41	13	17	27	1.87
1697293--1697339	20	2.4	19	79	10	58	51	12	17	19	1.77
1699555--1699598	21	2.1	21	91	0	70	40	11	31	15	1.83
1699632--1699692	32	1.9	32	89	0	95	29	0	47	22	1.52
1701484--1701532	19	2.6	19	93	0	80	30	2	10	57	1.43

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19