genome.fa.s5349.2.7.7.80.10.50.1000.7.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: VEPZ01005349.1 Hibiscus syriacus cultivar Beakdansim tig00012136_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1796274

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 858 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)
1408836--1408862	11	2.5	11	100	0	54	37	25	18	18	1.94
1410021--1410085	30	2.2	30	83	5	78	38	7	10	43	1.68
1412928--1413157	57	4.0	57	84	1	273	34	30	16	19	1.93
1413211--1413274	24	2.7	24	77	0	65	42	18	14	25	1.88
1414321--1414354	16	2.1	16	100	0	68	20	29	11	38	1.88
1415499--1415560	27	2.3	27	100	0	124	29	25	25	19	1.99
1415536--1415577	17	2.5	17	88	0	57	28	28	26	16	1.97
1415499--1415571	27	2.7	27	93	4	112	28	26	27	17	1.98
1421612--1421660	26	2.0	24	85	14	66	44	0	4	51	1.20
1434060--1434092	17	2.0	16	94	5	57	66	12	0	21	1.23
1435606--1435651	16	3.0	16	73	20	53	43	4	0	52	1.21
1437406--1437455	24	2.1	23	85	3	64	36	44	18	2	1.61
1449973--1450822	240	3.6	240	84	4	1060	31	17	16	34	1.92
1452919--1452952	10	3.6	9	88	11	50	52	2	0	44	1.16
1464070--1464115	5	8.8	5	86	9	56	73	4	0	21	1.00
1464071--1464111	21	2.0	21	90	0	64	73	4	0	21	1.02
1464332--1464386	2	27.5	2	100	0	110	49	0	0	50	1.00
1465551--1465715	3	51.7	3	74	13	107	60	6	2	30	1.36
1465583--1465712	10	13.1	10	75	12	81	60	5	1	32	1.28
1465589--1465715	29	4.5	28	74	9	116	60	4	1	33	1.27
1465551--1465718	13	13.2	12	71	16	81	60	7	2	30	1.36
1466243--1466360	60	2.0	60	83	3	148	39	16	15	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1468136--1468256	3	41.0	3	71	15	83	32	1	3	62	1.21
1468145--1468199	18	3.0	18	97	2	101	23	0	5	70	1.07
1469497--1469527	15	2.0	16	93	6	55	45	0	0	54	0.99
1477303--1477389	46	1.9	45	86	4	122	34	21	8	35	1.83
1477409--1477489	40	2.0	41	97	2	155	37	18	7	37	1.79
1478778--1478827	24	2.1	24	96	0	91	50	16	6	28	1.68
1488292--1488394	54	1.9	53	86	2	143	37	16	19	26	1.92
1489152--1489493	113	3.0	112	87	3	490	35	16	21	26	1.94
1489398--1489836	122	3.5	122	70	12	353	40	14	17	27	1.89
1490126--1490228	3	35.0	3	74	14	81	34	1	1	61	1.18
1490124--1490210	31	2.8	32	80	7	88	32	2	2	63	1.19
1498721--1498784	3	21.7	3	84	9	87	65	0	3	31	1.08
1498969--1499401	133	3.2	133	84	1	537	28	14	22	33	1.94
1499725--1500172	230	1.9	230	85	1	612	34	16	17	32	1.92
1504886--1505027	65	2.2	65	98	0	275	37	12	20	29	1.90
1508768--1508801	17	2.1	17	88	5	52	29	14	11	44	1.81
1509361--1509415	22	2.5	22	91	2	85	29	27	14	29	1.95
1516185--1516269	23	3.7	23	76	6	91	27	24	22	25	2.00
1517899--1517954	29	1.9	29	81	0	67	33	7	21	37	1.81
1517963--1518119	28	5.8	27	75	12	126	38	4	10	46	1.59
1517951--1518171	82	2.6	82	84	8	293	35	4	13	45	1.65
1518110--1518167	29	2.0	30	86	3	82	32	5	15	46	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1519120--1519249	42	3.1	42	89	0	206	17	23	23	35	1.95
1519109--1519278	84	2.0	84	89	2	261	20	20	22	36	1.95
1519120--1519278	42	3.8	41	82	5	183	20	20	22	35	1.96
1525421--1525475	18	3.1	18	94	0	92	18	47	21	12	1.82
1525488--1525544	29	2.0	29	82	0	69	36	7	15	40	1.75
1525544--1525623	28	2.9	28	85	3	92	36	2	10	51	1.49
1525614--1525671	29	2.0	30	82	3	73	31	3	15	50	1.61
1526451--1526508	29	2.0	29	100	0	116	27	17	10	44	1.81
1526556--1526721	42	4.0	42	88	1	253	19	23	24	33	1.97
1526552--1526721	84	2.0	84	91	2	279	19	22	23	34	1.97
1530365--1530405	15	2.8	15	85	3	57	39	4	19	36	1.73
1530558--1530647	23	3.9	22	78	7	90	23	20	23	33	1.97
1532965--1533041	21	3.5	21	67	25	59	19	23	11	45	1.83
1532950--1533091	46	3.1	46	85	1	178	23	20	9	45	1.81
1539502--1539638	46	3.0	45	91	4	211	21	18	12	47	1.81
1542246--1542305	22	2.8	21	87	7	84	43	40	0	16	1.48
1543097--1543161	3	22.7	3	78	12	66	66	0	1	32	1.01
1543100--1543161	13	4.8	13	76	6	54	66	0	1	32	1.02
1543097--1543158	11	5.5	11	76	14	54	66	0	1	32	1.02
1547020--1547074	4	13.8	4	100	0	110	25	0	23	50	1.49
1553657--1553681	12	2.1	12	100	0	50	32	32	8	28	1.86
1557696--1557741	24	1.9	24	95	0	83	32	13	13	41	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1564789--1564834	24	1.9	24	100	0	92	30	13	15	41	1.85
1568952--1568990	20	2.0	20	85	10	53	71	10	0	17	1.12
1568956--1568999	16	2.8	16	80	12	56	72	9	0	18	1.10
1575728--1575767	21	1.9	21	90	10	64	37	2	0	60	1.11
1580509--1580620	24	4.6	24	70	18	79	58	11	0	28	1.39
1580499--1580647	73	2.0	73	92	2	246	59	10	1	29	1.39
1582077--1582103	13	2.1	13	100	0	54	37	14	25	22	1.93
1587082--1587114	2	17.0	2	93	6	59	51	0	0	48	1.00
1588486--1588661	87	2.0	87	91	0	280	44	15	19	20	1.87
1591484--1591516	12	2.8	12	86	4	50	75	6	0	18	1.00
1594446--1594605	47	3.5	47	93	2	254	37	8	21	32	1.83
1600852--1601011	47	3.5	47	90	2	236	36	8	21	33	1.83
1602387--1602946	140	4.0	140	82	2	653	27	15	26	31	1.95
1602419--1602946	278	1.9	278	85	3	740	27	14	26	31	1.95
1603093--1603179	37	2.4	36	84	1	111	40	11	18	29	1.86
1603395--1603508	36	3.1	36	79	8	122	39	9	21	29	1.85
1605838--1605902	18	3.8	16	76	21	53	1	21	3	73	1.05
1605881--1605918	15	2.5	16	83	12	53	2	21	5	71	1.19
1605895--1605934	20	2.0	20	95	0	71	5	12	5	77	1.09
1605845--1605920	13	5.6	13	75	13	64	2	19	3	73	1.11
1608684--1608793	47	2.5	43	89	5	157	33	19	8	39	1.81
1613735--1613858	47	2.8	46	85	7	157	33	20	6	40	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1618225--1618258	16	2.2	15	89	5	50	55	5	14	23	1.61
1619562--1619752	59	3.3	59	91	2	314	33	4	18	43	1.71
1619733--1619894	29	5.7	29	88	5	242	33	4	18	43	1.72
1623878--1624068	59	3.3	58	91	2	303	35	4	17	42	1.71
1624053--1624183	29	4.6	29	88	0	192	35	4	17	41	1.70
1624054--1624200	58	2.6	58	86	1	197	34	4	17	44	1.67
1624046--1624230	86	2.1	87	79	3	194	33	3	16	45	1.65
1628774--1628810	2	18.5	2	100	0	74	51	0	0	48	1.00
1630573--1630602	15	2.0	15	93	0	51	16	13	13	56	1.67
1630922--1630973	24	2.2	24	92	0	86	40	9	32	17	1.82
1635427--1635462	18	1.9	19	88	5	56	44	5	36	13	1.68
1641728--1641756	2	14.5	2	100	0	58	51	0	0	48	1.00
1643550--1644351	257	3.1	255	81	5	934	32	14	17	35	1.90
1644547--1644783	45	5.2	45	82	3	278	23	14	17	44	1.86
1644524--1644783	91	2.9	90	82	4	294	23	13	18	43	1.86
1644774--1644894	51	2.4	51	90	0	179	24	22	13	39	1.90
1644771--1644919	51	2.9	51	86	3	158	26	20	14	38	1.90
1645527--1646071	268	2.0	268	85	2	727	31	18	18	31	1.95
1645527--1646099	134	4.3	134	80	3	607	31	19	18	31	1.95
1647051--1647114	27	2.4	27	79	12	69	59	15	9	15	1.60
1649365--1649574	56	3.8	56	82	4	219	32	11	15	40	1.83
1649633--1649739	42	2.6	42	80	4	128	29	21	17	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1649632--1650714	240	4.6	239	83	7	1343	30	17	17	34	1.93
1650402--1650447	20	2.3	20	92	0	74	19	26	23	30	1.98
1650195--1650645	220	2.1	219	87	2	647	30	17	16	35	1.92
1652800--1652827	2	14.0	2	100	0	56	50	0	0	50	1.00
1660468--1660511	2	22.0	2	95	0	79	50	2	0	47	1.13
1662056--1662121	3	22.0	3	84	6	89	62	0	3	34	1.11
1662287--1662486	95	2.1	96	93	2	341	29	21	18	31	1.97
1662383--1662950	116	4.9	116	92	0	931	27	20	20	30	1.98
1662855--1663024	74	2.3	74	89	0	250	31	21	17	29	1.96
1663681--1663757	22	3.5	22	87	0	109	38	10	15	35	1.82

Tables:   1   2   3   4   5   6   7   8