genome.fa.s9581.2.7.7.80.10.50.1000.8.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: VEPZ01009581.1 Hibiscus syriacus cultivar Beakdansim tig00116958_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2551150

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

This is table  8  of  13  ( 1494 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)
1443416--1443485	30	2.4	29	92	4	122	34	2	28	34	1.72
1449413--1449666	127	2.0	127	100	0	508	39	10	28	22	1.86
1454922--1454999	29	2.7	29	93	0	138	29	19	11	39	1.87
1460997--1461037	18	2.3	18	87	4	57	60	4	4	29	1.38
1469389--1469707	160	2.0	159	98	1	613	30	17	20	31	1.96
1472126--1472370	29	8.4	29	100	0	490	34	10	24	30	1.89
1472863--1472903	21	2.0	21	85	9	57	34	12	2	51	1.52
1473546--1473641	29	3.2	29	74	11	95	37	16	4	41	1.68
1473545--1473690	60	2.4	60	80	3	159	34	19	5	40	1.75
1473840--1474027	60	3.1	57	78	9	178	42	4	21	31	1.72
1474243--1474593	112	3.1	112	91	2	553	45	13	15	26	1.82
1474464--1474916	182	2.5	182	92	0	726	42	13	16	27	1.86
1495570--1495629	31	1.9	31	96	0	111	31	6	15	46	1.71
1497541--1497571	16	1.9	16	100	0	62	58	22	12	6	1.58
1497642--1497702	16	3.8	16	95	0	113	55	22	13	8	1.64
1498543--1498568	13	2.0	13	100	0	52	23	7	7	61	1.49
1498791--1498865	24	3.1	24	84	3	89	57	21	10	10	1.62
1498811--1498866	14	4.3	14	80	17	66	53	25	12	8	1.67
1498804--1498865	24	2.6	24	92	0	97	54	24	11	9	1.65
1500637--1500678	20	2.1	20	95	0	75	40	9	11	38	1.75
1500777--1500849	25	3.3	22	69	14	60	50	2	0	46	1.15
1501014--1501185	26	6.8	25	76	19	121	52	0	0	47	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1501063--1501192	27	4.8	29	75	16	109	51	0	0	48	1.00
1501087--1501158	22	3.3	22	77	12	78	50	0	0	50	1.00
1501063--1501167	29	3.6	28	81	12	97	53	0	0	46	1.00
1501119--1501184	22	3.0	22	82	12	66	53	0	0	46	1.00
1501121--1501184	21	3.0	21	82	13	69	53	0	0	46	1.00
1501366--1501481	42	2.7	43	84	4	155	50	15	14	19	1.79
1511060--1511100	21	2.0	21	85	4	57	65	4	14	14	1.42
1515169--1515250	29	2.9	27	70	13	67	47	4	0	47	1.23
1515377--1515427	14	3.5	15	78	17	54	66	9	0	23	1.21
1515419--1515454	19	1.9	19	88	5	56	69	8	2	19	1.27
1516693--1516805	3	38.7	3	82	8	144	61	2	0	34	1.16
1516693--1516808	48	2.4	49	90	5	177	62	2	0	34	1.15
1516979--1517967	110	9.0	109	88	8	1370	28	20	14	36	1.91
1516979--1517968	223	4.5	221	89	7	1450	28	20	14	36	1.91
1518585--1519289	51	13.9	51	91	6	1139	38	22	15	23	1.92
1518585--1519286	203	3.5	200	91	5	1130	38	22	15	23	1.92
1518585--1519289	152	4.6	150	90	7	1106	38	22	15	23	1.92
1520260--1520331	1	72.0	1	77	0	63	0	12	0	87	0.54
1520263--1520334	21	3.5	21	78	16	78	0	13	0	86	0.58
1520260--1520331	26	2.8	25	89	8	108	0	12	0	87	0.54
1520259--1520334	38	2.1	37	90	7	120	0	14	0	85	0.60
1532995--1533114	3	40.7	3	81	6	147	63	1	1	33	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1547942--1548004	31	2.0	31	96	0	117	22	34	22	20	1.96
1548112--1548141	15	2.0	15	100	0	60	53	6	0	40	1.27
1549370--1549436	34	2.0	34	82	5	82	49	5	4	40	1.48
1549405--1549547	71	2.0	71	100	0	286	41	9	4	44	1.57
1554816--1554900	34	2.5	34	94	0	143	40	0	0	60	0.97
1555517--1555622	39	2.8	38	84	4	133	33	21	25	18	1.96
1563302--1563335	13	2.6	13	85	0	50	50	0	0	50	1.00
1565022--1565079	29	2.0	29	82	0	71	15	24	25	34	1.95
1565118--1565184	34	2.0	34	90	0	107	25	34	26	13	1.93
1565156--1565188	14	2.4	14	94	0	57	24	33	30	12	1.91
1565170--1565253	33	2.5	33	86	3	107	26	26	36	10	1.89
1565360--1565397	19	2.0	19	90	10	60	21	23	36	18	1.95
1565379--1565435	29	2.0	29	85	0	78	24	28	31	15	1.96
1566020--1566052	3	11.0	3	93	0	57	30	0	0	69	0.88
1566878--1566922	7	6.9	7	87	7	60	57	0	0	42	0.98
1567059--1567121	34	1.9	32	83	6	81	47	1	1	49	1.20
1567068--1567113	23	2.1	21	84	8	56	43	2	2	52	1.25
1572785--1572816	12	2.7	12	95	0	55	71	0	0	28	0.86
1574760--1574967	93	2.3	93	90	3	325	47	10	2	40	1.50
1580497--1580586	47	1.9	46	82	10	112	37	3	1	57	1.22
1585596--1585734	57	2.5	54	75	14	147	30	17	12	38	1.87
1596141--1596190	24	2.0	25	84	3	66	32	30	18	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1596446--1597343	463	1.9	456	82	7	1123	36	18	14	30	1.91
1598453--1598599	59	2.4	61	82	4	165	42	4	17	35	1.71
1607247--1607448	84	2.4	86	82	9	252	42	15	11	30	1.83
1608179--1608333	75	2.1	75	95	0	274	20	24	12	42	1.86
1610046--1610113	11	6.2	11	76	17	70	44	2	7	45	1.46
1610052--1610077	13	2.0	13	100	0	52	46	0	7	46	1.31
1611083--1611142	30	2.1	29	90	9	97	36	3	3	56	1.32
1615134--1615184	12	4.2	12	75	9	50	23	23	11	41	1.87
1615150--1615342	24	8.1	24	84	4	194	21	22	17	38	1.93
1615150--1615337	71	2.6	72	82	0	207	22	22	17	38	1.93
1615206--1615342	12	11.5	12	64	16	61	21	21	17	39	1.92
1615378--1615435	23	2.5	24	94	2	100	17	13	27	41	1.87
1615378--1615439	24	2.7	23	94	2	106	19	12	27	40	1.88
1615432--1615521	12	7.5	12	76	5	83	31	15	8	44	1.77
1615431--1615521	24	3.8	24	78	11	96	30	15	9	43	1.79
1615432--1615521	36	2.5	36	76	7	92	31	15	8	44	1.77
1615480--1615586	24	4.5	24	78	0	88	26	18	13	42	1.87
1615565--1615645	28	2.9	28	81	3	83	25	16	16	41	1.88
1615631--1615655	12	2.1	12	100	0	50	24	16	20	40	1.91
1615664--1615718	24	2.3	24	84	12	69	30	12	10	45	1.77
1615660--1615746	12	7.2	12	74	5	59	26	17	12	43	1.84
1615660--1615745	36	2.4	36	84	0	100	26	17	12	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1621521--1621572	26	2.0	27	84	3	70	46	21	9	23	1.80
1624200--1624260	31	1.9	31	87	9	88	32	4	1	60	1.28
1624205--1624279	30	2.5	29	83	12	89	33	4	1	61	1.23
1624513--1624583	30	2.4	30	85	4	90	56	2	9	30	1.46
1624805--1624840	16	2.2	17	90	5	56	72	0	0	27	0.85
1629095--1629158	32	2.0	32	93	0	110	35	10	21	31	1.88
1629095--1629168	32	2.3	32	88	4	105	36	13	20	29	1.91
1630027--1630450	150	2.8	149	91	3	649	36	21	23	18	1.95
1641477--1641539	33	1.9	33	90	0	99	22	34	22	20	1.96
1644052--1644088	7	5.4	7	93	6	67	24	29	29	16	1.96
1644052--1644088	13	2.7	14	91	8	67	24	29	29	16	1.96
1644107--1644196	19	4.7	19	78	12	85	30	28	22	18	1.97
1644107--1644196	38	2.3	39	83	5	112	30	28	22	18	1.97
1644123--1644193	9	7.4	9	72	12	61	30	29	22	16	1.96
1647484--1647599	60	1.9	60	85	0	160	14	28	32	24	1.94
1648208--1648237	2	15.0	2	100	0	60	50	0	0	50	1.00
1649803--1649838	16	2.2	17	90	5	56	38	0	0	61	0.96
1650082--1650108	13	2.1	13	100	0	54	70	0	0	29	0.88
1650101--1650132	3	10.3	3	93	6	55	65	0	0	34	0.93
1650990--1651042	21	2.5	22	90	3	81	50	28	0	20	1.48
1655421--1655554	66	2.0	66	100	0	268	22	22	23	32	1.98
1656746--1656772	6	4.5	6	100	0	54	48	18	0	33	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1661479--1661537	23	2.5	23	86	2	73	33	8	5	52	1.54
1661860--1661902	21	2.0	21	100	0	86	39	18	13	27	1.89
1667439--1667484	10	4.5	10	86	10	58	60	21	2	15	1.45
1667439--1667484	21	2.2	20	88	3	65	60	21	2	15	1.45
1667448--1667497	21	2.4	21	83	6	66	62	22	2	14	1.42
1673997--1674031	10	3.5	10	88	11	54	62	20	0	17	1.32
1683525--1683639	33	3.5	33	91	0	176	41	13	22	21	1.89
1683541--1683653	33	3.6	30	88	4	120	42	14	24	18	1.87
1690198--1690249	21	2.5	22	78	9	63	38	5	17	38	1.74
1690684--1690806	60	2.0	60	79	3	131	34	11	15	39	1.83

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