genome.fa.s1279.2.7.7.80.10.50.1000.7.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: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6984689

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  7  of  29  ( 3433 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)
1444667--1444727	23	2.7	23	73	0	59	21	21	22	34	1.97
1444757--1444790	17	2.1	17	88	5	52	32	23	5	38	1.79
1446789--1447147	47	7.6	47	89	3	515	23	24	11	40	1.87
1446893--1447114	27	9.3	25	62	25	88	22	25	12	39	1.89
1447556--1447752	95	2.1	96	85	2	263	28	23	16	31	1.96
1460095--1460533	82	5.4	82	88	1	655	32	15	15	36	1.89
1460482--1460626	68	2.1	68	97	0	272	35	13	19	31	1.91
1461982--1462016	3	11.3	3	93	6	61	65	0	2	31	1.07
1462702--1462759	28	2.1	28	93	0	98	22	18	12	46	1.82
1464037--1464083	24	1.9	25	86	4	69	40	14	19	25	1.90
1466193--1466239	22	2.2	20	85	7	58	38	10	27	23	1.88
1466193--1466241	20	2.3	22	86	6	66	36	10	28	24	1.88
1480056--1480082	8	3.4	8	100	0	54	25	14	11	48	1.77
1480063--1480116	28	1.9	28	85	7	74	20	18	16	44	1.87
1481450--1481520	10	7.3	10	74	6	65	80	0	15	4	0.86
1481450--1481519	29	2.4	28	81	6	77	80	0	15	4	0.87
1483624--1483688	22	3.0	22	70	12	55	38	3	0	58	1.14
1483735--1483813	30	2.6	31	75	18	85	50	0	1	48	1.08
1483646--1483813	57	2.9	58	77	13	150	48	1	1	48	1.19
1483775--1483812	11	3.5	11	82	10	51	47	0	0	52	1.00
1483793--1483851	23	2.5	23	86	2	73	47	1	1	49	1.21
1483937--1483969	13	2.4	14	85	5	50	69	0	0	30	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1483967--1484025	22	2.7	22	84	7	75	54	0	1	44	1.10
1484205--1484273	36	1.9	35	94	2	120	30	21	7	40	1.80
1484219--1484261	21	2.0	21	86	0	59	27	20	11	39	1.88
1484195--1484240	15	3.1	15	81	6	67	30	19	6	43	1.76
1485047--1485721	139	4.9	139	86	3	884	36	18	19	25	1.95
1485479--1485542	17	3.2	20	67	20	62	42	10	21	25	1.85
1485047--1485689	279	2.3	273	86	4	873	36	18	19	25	1.95
1485956--1486010	12	4.7	11	78	10	56	34	0	3	61	1.13
1485956--1485998	3	14.3	3	85	0	59	34	0	2	62	1.08
1485966--1486009	12	3.5	12	87	6	61	36	0	2	61	1.09
1497358--1497405	24	2.0	24	91	0	78	8	22	18	50	1.74
1503601--1504271	333	2.0	333	99	0	1333	34	13	14	37	1.85
1508266--1508331	31	2.1	31	91	0	105	46	10	13	28	1.76
1514618--1514772	79	2.0	79	83	8	201	29	23	20	27	1.98
1514751--1514793	19	2.4	19	84	7	54	23	27	20	27	1.99
1517967--1518215	137	1.8	138	86	3	369	39	16	16	28	1.89
1519594--1519632	17	2.3	17	86	0	51	28	15	12	43	1.83
1519611--1520035	117	3.6	117	80	1	460	27	22	15	34	1.94
1523016--1523076	21	2.9	21	78	9	70	27	11	27	32	1.91
1528967--1529004	20	1.9	20	84	10	51	18	2	21	57	1.52
1538914--1538967	21	2.8	18	79	15	72	27	9	11	51	1.67
1539256--1539354	32	2.9	34	86	8	148	20	34	25	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1539283--1539333	15	3.3	15	70	20	50	21	33	23	21	1.97
1540659--1540688	12	2.5	12	88	0	51	23	33	0	43	1.54
1543466--1543538	20	3.7	20	90	0	110	27	23	28	20	1.99
1544575--1544608	16	2.1	16	89	10	52	73	0	8	17	1.08
1545488--1545535	23	2.1	22	84	3	60	29	27	16	27	1.97
1546826--1547176	175	2.0	175	100	0	702	43	13	11	31	1.80
1548038--1548082	20	2.2	20	84	4	54	26	13	4	55	1.57
1549331--1549371	21	2.0	21	85	9	57	46	7	9	36	1.65
1550133--1550193	28	2.2	27	85	8	79	26	9	27	36	1.88
1551791--1551842	19	2.7	19	75	16	54	69	1	3	25	1.16
1552563--1552600	19	2.0	19	89	0	58	55	13	0	31	1.38
1554310--1554338	12	2.5	12	94	5	51	82	6	0	10	0.83
1560439--1560485	24	2.0	24	82	0	58	61	12	2	23	1.42
1562871--1562927	29	2.0	29	85	0	78	7	12	15	64	1.47
1566635--1566893	124	2.1	124	95	0	464	42	14	11	30	1.82
1568130--1568177	23	2.1	23	92	0	78	35	8	18	37	1.81
1568567--1569198	182	3.5	182	91	1	982	28	15	12	42	1.84
1569107--1569158	20	2.6	20	78	0	68	15	15	11	57	1.65
1569071--1569645	112	5.1	112	91	0	882	25	15	13	45	1.83
1569071--1569645	223	2.6	224	90	0	891	25	15	13	45	1.83
1575645--1575686	14	2.9	14	80	20	50	9	28	0	61	1.27
1576161--1576199	20	2.0	20	84	0	51	23	30	20	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1585650--1585802	56	2.7	57	83	3	191	26	17	24	31	1.97
1585622--1585799	59	3.1	59	80	6	220	28	16	23	32	1.96
1593445--1593488	22	2.0	23	90	4	72	27	15	20	36	1.93
1593821--1593862	12	3.7	12	84	12	61	35	23	14	26	1.93
1593821--1593862	22	1.9	22	95	0	75	35	23	14	26	1.93
1594242--1594348	45	2.4	45	88	1	162	28	24	7	39	1.82
1594345--1594387	20	2.2	20	91	0	68	55	20	4	18	1.60
1594456--1594577	59	2.1	59	85	0	163	27	22	18	31	1.97
1599221--1599281	11	5.6	11	79	14	56	22	27	31	18	1.97
1599221--1599281	22	2.9	21	80	9	70	22	27	31	18	1.97
1599233--1599271	12	3.5	11	86	10	53	25	25	28	20	1.99
1603908--1603947	19	2.1	19	95	0	71	40	0	7	52	1.30
1604719--1605111	130	3.0	130	93	1	680	27	21	17	34	1.95
1606274--1606521	124	2.0	124	97	0	469	34	22	16	26	1.95
1612496--1612534	20	2.0	20	84	0	51	23	7	23	46	1.78
1612714--1612764	23	2.3	23	80	6	61	21	19	39	19	1.93
1616410--1616453	21	2.2	20	84	12	54	27	13	6	52	1.66
1619057--1619118	17	3.9	17	73	12	60	29	24	27	19	1.98
1621648--1621681	17	2.0	17	88	0	50	26	20	8	44	1.81
1622065--1622153	42	2.1	42	81	8	101	41	11	11	35	1.77
1622065--1622153	21	4.2	21	72	4	72	41	11	11	35	1.77
1624456--1624562	30	3.5	30	87	3	144	28	24	10	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1624456--1624579	59	2.0	60	81	9	144	27	25	8	37	1.86
1626469--1626535	34	1.9	34	82	14	84	20	13	19	46	1.83
1628474--1628685	103	2.1	100	92	2	352	26	12	24	36	1.91
1628718--1628767	23	2.2	23	92	0	82	20	28	24	28	1.99
1633347--1633398	21	2.5	21	100	0	104	28	25	19	26	1.98
1634328--1634374	21	2.2	21	100	0	94	23	17	23	36	1.95
1634348--1634563	103	2.1	103	94	0	378	27	13	22	36	1.92
1634583--1634645	23	2.7	23	92	0	99	20	25	26	26	1.99
1640624--1640759	66	2.1	66	98	0	263	38	34	1	25	1.65
1644251--1644303	20	2.7	20	96	0	97	43	11	22	22	1.85
1644457--1644487	15	2.1	15	93	0	53	54	0	0	45	0.99
1644552--1644615	32	1.9	31	81	12	74	50	7	1	40	1.41
1647598--1647679	40	2.0	40	100	0	164	32	26	17	23	1.96
1658949--1659002	29	1.9	28	81	7	65	61	0	3	35	1.14
1674884--1674912	12	2.3	13	94	5	51	51	31	0	17	1.45
1677871--1677928	21	2.8	21	83	0	80	17	18	18	44	1.87
1677929--1678000	20	3.6	20	79	7	74	30	20	20	27	1.98
1678822--1678875	24	2.2	24	93	0	90	20	18	20	40	1.91
1679065--1679101	14	2.6	14	91	4	56	51	21	21	5	1.68
1679907--1680176	140	1.9	140	95	0	486	28	12	14	43	1.83
1680147--1680480	20	17.6	20	75	12	285	34	21	18	25	1.96
1680175--1680317	74	1.9	74	88	2	216	33	23	18	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1680155--1680480	94	3.5	94	87	2	433	34	22	18	25	1.96
1680175--1680391	54	3.9	54	69	14	154	34	23	17	24	1.96
1680147--1680432	114	2.5	112	83	5	326	34	21	17	26	1.96
1680269--1680411	74	1.9	74	88	2	216	34	22	18	25	1.96
1680470--1680527	20	2.9	20	78	0	62	13	15	24	46	1.82
1680626--1680701	14	5.3	14	82	4	80	46	13	0	40	1.43
1682702--1682768	20	3.5	19	88	8	91	37	26	17	17	1.93
1682712--1682768	20	2.8	20	94	0	96	36	24	19	19	1.94
1682813--1682918	20	5.3	20	84	0	113	20	14	24	40	1.90
1683066--1683133	18	3.8	18	96	0	127	42	4	20	32	1.72

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29