genome.fa.s5946.2.7.7.80.10.50.1000.8.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: VEPZ01005946.1 Hibiscus syriacus cultivar Beakdansim tig00013960_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2465359

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

This is table  8  of  11  ( 1316 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)
1508301--1508387	19	4.6	18	69	19	61	18	8	2	71	1.22
1511093--1511134	22	1.9	22	90	0	66	35	28	28	7	1.84
1511841--1511958	28	4.2	28	83	13	138	59	0	10	30	1.30
1511838--1511959	57	2.2	59	86	7	173	58	0	10	31	1.32
1513250--1514045	6	133.0	6	96	1	1303	46	17	1	33	1.59
1515952--1516093	60	2.4	60	80	7	162	38	4	21	36	1.73
1516340--1516376	14	2.9	12	85	14	56	43	0	8	48	1.32
1516345--1516375	14	2.2	14	100	0	62	41	0	6	51	1.27
1522186--1522246	24	2.6	24	84	2	79	59	19	11	9	1.60
1522168--1522276	47	2.3	47	80	0	128	56	18	13	11	1.66
1523420--1523449	14	2.1	14	93	0	51	3	13	23	60	1.48
1523571--1523635	2	32.5	2	100	0	130	50	0	0	49	1.00
1525171--1525210	20	2.0	20	95	0	71	35	12	20	32	1.90
1528500--1528525	2	13.0	2	100	0	52	50	0	0	50	1.00
1529552--1529585	14	2.4	14	90	0	50	8	20	0	70	1.13
1530073--1530112	20	2.0	20	95	0	71	35	12	20	32	1.90
1542569--1542617	23	2.1	23	92	0	80	22	26	24	26	2.00
1553940--1553991	20	2.6	20	96	0	95	28	11	25	34	1.91
1555211--1555236	2	13.0	2	100	0	52	50	0	0	50	1.00
1555263--1555288	12	2.2	12	100	0	52	34	26	7	30	1.85
1557072--1557140	34	2.0	34	97	0	129	21	8	30	39	1.84
1565386--1566152	191	4.0	191	93	0	1302	28	18	15	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1578148--1578478	166	2.0	166	89	1	511	21	19	20	37	1.94
1581142--1581180	13	2.8	14	84	7	53	48	0	2	48	1.15
1581142--1581178	15	2.6	15	87	8	51	51	0	2	45	1.15
1582241--1582303	23	2.7	23	90	0	99	34	17	20	26	1.95
1582293--1582412	27	4.4	27	93	0	177	37	16	15	30	1.90
1584736--1584770	2	17.5	2	93	0	61	54	0	0	45	0.99
1597677--1597715	14	2.8	14	85	11	53	23	7	28	41	1.82
1599374--1599404	16	1.9	16	93	0	53	58	0	0	41	0.98
1600823--1600867	23	2.0	23	86	0	63	37	15	22	24	1.93
1600929--1600982	15	3.5	15	89	2	72	33	24	7	35	1.83
1630181--1630349	36	4.7	36	96	0	293	28	23	28	18	1.98
1634284--1634389	31	3.4	31	80	0	113	49	7	11	32	1.67
1634969--1635036	31	2.3	30	83	14	81	36	22	22	19	1.95
1635649--1635690	21	2.0	21	90	9	68	54	0	0	45	0.99
1636177--1636248	31	2.3	31	87	4	99	26	18	9	45	1.80
1636188--1636273	31	2.8	30	82	10	84	25	22	8	44	1.80
1636998--1638014	113	9.0	113	99	0	1917	26	15	20	37	1.92
1638366--1638393	2	14.0	2	100	0	56	50	0	0	50	1.00
1639104--1639171	31	2.2	31	86	0	91	26	23	8	41	1.83
1643269--1643363	49	1.9	49	86	0	136	17	36	30	14	1.90
1645987--1646099	49	2.3	49	98	0	217	35	13	11	39	1.80
1649857--1649900	20	2.3	19	82	17	56	50	9	20	20	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1650623--1650652	16	1.9	15	93	6	51	13	23	0	63	1.29
1651291--1651330	21	1.9	21	85	10	55	62	5	0	32	1.17
1655654--1655809	31	5.0	31	92	1	251	21	19	22	37	1.95
1659754--1659791	19	2.0	19	94	0	67	21	34	15	28	1.94
1659711--1659917	64	3.2	61	76	10	193	28	26	17	28	1.98
1663720--1663801	32	2.6	32	80	7	94	37	7	9	45	1.65
1664949--1665000	21	2.5	21	81	3	61	38	19	25	17	1.93
1664986--1665063	41	1.9	41	89	0	120	38	23	15	23	1.92
1664989--1665082	20	4.7	20	80	7	91	32	25	17	24	1.96
1665271--1665314	22	2.0	22	95	0	79	20	40	15	22	1.90
1666816--1666860	21	2.1	21	87	0	63	31	28	24	15	1.96
1667495--1667541	23	2.0	24	91	4	78	44	0	21	34	1.52
1667816--1668033	31	7.0	31	94	1	366	19	20	22	36	1.95
1669496--1669540	18	2.5	18	85	0	63	26	46	15	11	1.79
1670013--1670127	19	6.3	18	75	15	85	43	23	20	13	1.86
1670145--1670201	14	3.8	14	74	17	60	7	15	28	49	1.71
1670139--1670217	32	2.4	33	91	2	124	8	17	25	48	1.76
1670190--1670256	19	3.5	19	83	4	89	14	23	23	37	1.93
1670202--1670256	20	2.8	19	89	5	83	16	25	23	34	1.95
1672247--1672317	19	3.7	19	92	0	106	46	18	22	12	1.82
1672247--1672329	38	2.3	36	86	10	109	44	19	22	13	1.85
1672348--1672425	20	3.9	20	96	0	138	16	23	23	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1673462--1673515	24	2.2	24	90	0	81	24	16	20	38	1.92
1676003--1676129	33	3.8	33	87	4	193	42	18	22	15	1.89
1676004--1676137	66	2.0	66	95	0	241	41	19	22	17	1.91
1676260--1676296	14	2.6	14	91	0	65	45	24	0	29	1.53
1677643--1677709	21	3.2	21	68	4	55	19	20	35	23	1.95
1677643--1677765	42	2.9	41	80	7	113	22	17	36	22	1.95
1679769--1679895	39	3.4	37	75	12	127	45	22	20	11	1.83
1679769--1679900	19	7.1	19	79	11	139	44	21	21	12	1.84
1679896--1679976	19	4.5	19	74	16	73	11	17	24	46	1.80
1680494--1680587	20	4.7	20	80	7	91	24	17	25	32	1.96
1680576--1680668	20	4.5	21	78	4	100	17	24	18	39	1.91
1680515--1680649	41	3.3	41	84	4	148	20	20	21	37	1.94
1680576--1680668	41	2.3	41	100	0	186	17	24	18	39	1.91
1681054--1681100	18	2.5	19	82	6	60	27	25	31	14	1.95
1682551--1682733	60	3.0	60	83	7	230	35	19	4	39	1.73
1682927--1683045	60	2.0	60	83	0	148	42	6	15	34	1.74
1683313--1683430	10	10.5	10	66	21	56	60	19	10	10	1.57
1683277--1683425	23	6.3	23	76	6	129	58	18	12	10	1.62
1683280--1683425	47	3.1	47	83	2	168	58	18	13	10	1.62
1683567--1683609	14	3.1	14	83	9	52	62	16	11	9	1.53
1688905--1688947	22	2.0	22	86	9	61	76	4	4	13	1.10
1705009--1705080	30	2.4	30	79	4	74	36	9	13	40	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1705549--1705581	2	16.5	2	100	0	66	51	0	0	48	1.00
1705602--1705656	26	2.2	25	81	9	67	36	16	3	43	1.65
1706356--1706442	2	44.5	2	90	4	142	52	0	0	47	1.00
1708877--1708909	4	8.2	4	100	0	66	24	0	24	51	1.48
1710072--1710106	17	2.1	17	88	0	52	17	20	11	51	1.75
1715891--1716077	56	3.4	56	84	3	243	29	14	14	41	1.86
1725029--1725055	2	13.5	2	100	0	54	48	0	0	51	1.00
1727468--1727513	17	2.8	17	86	3	58	56	6	0	36	1.25
1729551--1729586	18	2.0	18	88	0	54	22	22	27	27	1.99
1732557--1732605	19	2.5	19	78	15	64	51	10	16	22	1.74
1735060--1735125	33	2.0	33	87	0	96	28	1	45	24	1.62
1736908--1736970	19	3.4	19	95	2	110	31	3	9	55	1.48
1737053--1738206	395	2.9	397	96	1	2142	37	14	14	33	1.87
1737053--1738206	198	5.8	198	96	1	2129	37	14	14	33	1.87
1739254--1739316	23	2.7	23	90	0	90	36	6	19	38	1.77
1739254--1739326	23	3.2	23	86	3	85	35	5	19	39	1.75
1739681--1739743	23	2.7	23	90	0	90	36	6	19	38	1.77
1739681--1739753	23	3.2	23	86	3	85	35	5	19	39	1.75
1739155--1740019	427	2.0	427	99	0	1698	39	8	13	38	1.75
1746491--1746515	12	2.1	12	100	0	50	60	32	0	8	1.26
1762070--1762299	115	2.0	115	100	0	460	40	12	10	37	1.77
1762354--1762421	27	2.6	27	95	4	122	41	16	11	30	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1766114--1766181	27	2.6	27	95	4	122	41	16	11	30	1.84
1777622--1777685	26	2.4	27	80	17	71	64	6	3	26	1.33
1780822--1780852	15	2.1	15	93	0	53	32	12	16	38	1.86
1784482--1784523	21	1.9	23	85	9	61	50	2	2	45	1.27
1784946--1784972	2	13.5	2	100	0	54	51	0	0	48	1.00
1787698--1787833	67	2.0	67	100	0	272	18	26	16	38	1.92
1789705--1789795	44	2.1	44	93	4	157	19	13	23	43	1.86
1790659--1790720	23	2.6	24	82	7	72	45	11	1	41	1.50
1790724--1790862	45	3.1	45	85	6	208	43	3	1	51	1.28
1790765--1790836	23	3.1	23	63	0	63	38	4	1	55	1.28

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