genome.fa.s9175.2.7.7.80.10.50.1000.8.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  8  of  51  ( 6037 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)
1371939--1372051	30	3.9	30	72	15	85	58	7	13	21	1.59
1371908--1372023	60	1.9	61	80	5	137	55	8	14	21	1.66
1371950--1372049	27	3.5	27	76	9	92	61	6	12	21	1.52
1373236--1373280	3	14.7	3	82	13	56	71	0	0	28	0.87
1373235--1373277	10	4.2	10	91	5	68	72	0	0	27	0.85
1373237--1373279	21	2.0	21	95	0	77	69	0	0	30	0.88
1377293--1377444	79	1.9	79	94	0	268	36	8	24	30	1.85
1377380--1377641	45	6.1	45	77	12	235	35	11	24	28	1.91
1377292--1377624	124	2.7	124	85	3	463	36	10	24	28	1.89
1382511--1382559	20	2.5	20	90	6	73	34	18	30	16	1.93
1383071--1383349	45	6.7	45	70	19	192	36	13	25	25	1.92
1383116--1383259	34	3.9	34	77	18	144	36	13	25	25	1.92
1383061--1383266	79	2.6	79	94	0	349	37	12	24	25	1.91
1390029--1390107	36	2.2	36	86	0	104	17	6	35	40	1.75
1391544--1391661	42	2.9	41	80	8	116	46	0	1	50	1.17
1391627--1391668	21	2.0	22	86	9	61	50	0	2	47	1.14
1392294--1392348	20	2.9	19	76	7	58	30	1	7	60	1.35
1392494--1392657	83	2.0	83	93	2	285	45	1	7	46	1.39
1393069--1393113	16	2.8	16	79	3	54	46	2	6	44	1.42
1401150--1401194	21	2.1	21	87	0	63	31	28	24	15	1.96
1401665--1401695	2	15.5	2	100	0	62	51	0	0	48	1.00
1402532--1402628	32	3.1	32	78	14	128	28	17	18	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1402531--1402631	31	3.2	31	81	10	125	28	18	18	33	1.95
1402619--1402712	30	3.1	30	90	3	136	20	21	27	30	1.98
1405342--1405388	21	2.2	21	92	0	76	21	10	14	53	1.71
1406322--1406382	27	2.3	27	88	2	88	39	18	11	31	1.86
1410396--1410465	24	2.9	24	76	0	68	45	17	10	27	1.80
1410371--1410465	48	2.0	47	83	2	118	46	16	12	24	1.82
1411153--1411244	29	3.2	29	85	3	87	41	21	6	30	1.78
1411384--1411419	11	3.6	10	89	10	56	33	30	22	13	1.93
1416974--1417469	243	2.0	245	93	2	852	40	15	12	31	1.85
1417808--1417876	24	2.9	24	71	0	66	43	17	11	27	1.83
1418570--1418637	29	2.3	29	82	5	75	39	25	5	29	1.79
1418610--1418715	54	1.9	55	84	5	144	39	16	7	35	1.78
1418591--1418719	29	4.6	29	69	11	79	40	20	7	31	1.81
1418591--1418744	83	1.9	83	84	5	213	40	20	8	30	1.82
1418756--1418796	17	2.4	17	88	11	66	17	24	41	17	1.89
1424058--1424100	21	2.0	21	81	0	50	30	30	25	13	1.94
1424635--1424950	150	2.1	150	93	1	537	26	17	21	34	1.95
1424918--1424962	23	2.0	23	81	0	54	20	24	26	28	1.99
1430582--1430624	21	2.0	21	81	0	50	30	30	25	13	1.94
1431165--1431482	152	2.1	149	92	2	530	26	16	21	34	1.95
1431450--1431494	23	2.0	23	86	0	63	20	26	26	26	1.99
1454033--1454077	19	2.4	19	88	0	72	6	33	11	48	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1454616--1454653	19	2.0	20	85	15	53	5	34	0	60	1.19
1455114--1455156	21	2.0	21	81	0	50	32	27	23	16	1.96
1455850--1455894	23	2.0	23	82	8	56	22	24	24	28	1.99
1459989--1460031	21	2.0	21	86	8	61	55	2	0	41	1.12
1462688--1462736	17	2.6	20	87	9	68	28	0	2	69	1.00
1466564--1466615	2	26.0	2	100	0	104	50	0	0	50	1.00
1467725--1467771	19	2.5	19	86	10	62	44	0	0	55	0.99
1468630--1468671	15	2.9	14	89	7	57	0	21	2	76	0.90
1468630--1468671	20	2.1	20	86	8	59	0	21	2	76	0.90
1469160--1469233	3	25.0	3	85	8	80	58	0	1	40	1.07
1469160--1469231	16	4.4	16	79	12	76	56	0	1	41	1.07
1469549--1470334	229	3.5	229	90	2	1178	29	18	13	37	1.90
1469546--1470334	113	6.9	113	84	4	960	29	19	14	37	1.90
1471131--1471814	83	8.2	83	96	1	1161	36	21	14	28	1.92
1472953--1473025	7	10.3	7	77	14	62	0	17	0	82	0.68
1472973--1473024	11	3.9	13	77	20	54	0	17	0	82	0.66
1472977--1473022	15	3.1	15	84	9	60	0	15	0	84	0.62
1472952--1473021	17	3.8	17	77	22	70	0	17	0	82	0.66
1484390--1484436	19	2.5	19	86	10	62	44	0	0	55	0.99
1485304--1485335	15	2.1	15	94	0	55	0	21	0	78	0.76
1485834--1485938	3	35.0	3	94	0	147	60	0	0	39	1.04
1493134--1493183	25	2.0	25	88	4	73	52	0	4	44	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1493669--1493735	31	2.2	31	91	2	109	40	10	17	31	1.84
1505812--1505896	21	3.9	21	75	11	73	22	36	23	17	1.95
1505812--1505873	21	2.9	21	87	4	79	20	35	24	19	1.96
1506587--1506612	12	2.2	12	100	0	52	30	53	0	15	1.42
1514134--1514202	23	3.0	23	89	0	93	28	27	24	18	1.98
1523257--1523312	23	2.4	23	87	0	76	30	25	26	17	1.97
1525107--1525152	23	2.0	23	83	12	58	60	8	8	21	1.53
1535309--1535351	22	2.0	22	90	0	68	41	6	11	39	1.68
1536481--1536617	45	3.0	45	95	0	247	40	2	24	33	1.67
1539144--1539188	23	2.0	23	90	0	72	24	26	26	22	2.00
1539156--1539457	157	1.9	156	90	2	480	36	20	14	27	1.92
1540896--1541055	64	2.5	62	82	10	180	26	20	18	34	1.96
1543203--1543244	18	2.3	18	95	0	75	33	11	11	42	1.78
1554560--1554665	52	2.0	54	88	3	162	21	20	16	41	1.90
1565650--1565681	2	16.0	2	100	0	64	50	0	0	50	1.00
1565834--1565905	32	2.3	31	80	7	74	34	4	1	59	1.25
1578338--1578425	44	2.0	44	100	0	176	36	38	4	20	1.73
1578350--1578421	22	3.3	22	71	21	78	34	40	4	20	1.72
1589416--1589473	30	1.9	31	86	10	84	32	10	3	53	1.52
1593342--1593401	23	2.8	21	77	7	57	21	21	30	26	1.99
1593343--1593390	23	2.1	22	84	3	60	20	18	35	25	1.95
1594799--1594867	23	3.0	23	84	0	102	30	26	26	17	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1596286--1596370	21	4.0	21	90	0	116	17	25	25	30	1.97
1598286--1598316	14	2.3	14	94	5	55	35	3	25	35	1.72
1599215--1599256	19	2.2	19	100	0	84	14	4	21	59	1.53
1599215--1599264	19	2.6	19	93	0	73	16	6	20	58	1.59
1599725--1599767	17	2.6	16	78	7	50	39	25	0	34	1.56
1602401--1602469	23	3.0	23	84	0	102	30	26	26	17	1.97
1603886--1603949	21	3.0	21	80	8	76	20	23	23	32	1.98
1610669--1610715	3	15.7	3	100	0	94	34	0	0	65	0.93
1610738--1610809	32	2.2	32	95	0	126	44	29	16	9	1.80
1613012--1613094	27	3.2	27	68	13	75	45	2	4	46	1.37
1620356--1620418	23	2.7	23	80	5	63	46	1	1	50	1.20
1620394--1620446	20	2.7	20	75	16	56	49	1	0	49	1.12
1620403--1620467	28	2.3	27	82	10	76	46	1	1	50	1.20
1620480--1620545	18	3.4	18	76	15	78	40	3	1	54	1.25
1620502--1620565	17	3.4	17	69	22	56	40	1	3	54	1.25
1620489--1620567	22	3.7	22	77	14	94	40	1	2	55	1.21
1620479--1620567	40	2.2	40	100	0	178	41	2	2	53	1.25
1620531--1620611	31	2.6	32	81	15	89	53	0	1	45	1.08
1620559--1620611	14	3.5	15	80	14	65	60	0	0	39	0.97
1620560--1620603	22	2.0	23	81	4	54	56	0	0	43	0.99
1620558--1620607	16	3.1	16	78	16	59	58	0	0	42	0.98
1620795--1620907	42	2.7	42	84	2	156	50	13	15	20	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1622002--1622044	11	3.9	11	76	11	52	69	0	2	27	1.00
1622003--1622047	23	2.0	22	91	8	74	73	0	2	24	0.95
1624528--1624594	27	2.5	27	97	0	125	35	17	17	28	1.93
1624767--1624829	26	2.4	26	100	0	126	33	6	0	60	1.22
1626740--1626784	21	2.1	21	83	0	54	28	20	17	33	1.95
1635565--1635712	64	2.3	63	77	10	158	36	19	17	26	1.94
1640850--1641006	64	2.4	65	80	12	166	35	17	18	28	1.94
1641537--1641567	15	2.1	15	100	0	62	12	19	32	35	1.90
1644953--1645004	20	2.6	19	79	8	59	65	1	0	32	1.04
1644862--1645096	120	2.0	120	82	5	291	46	8	7	38	1.61

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   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51