genome.fa.s7859.2.7.7.80.10.50.1000.7.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: VEPZ01007859.1 Hibiscus syriacus cultivar Beakdansim tig00110221_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3538007

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  7  of  18  ( 2075 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)
1364762--1364883	37	3.4	36	95	4	219	55	0	2	41	1.13
1365311--1365375	29	2.2	29	97	0	121	24	1	23	50	1.58
1373536--1373592	29	2.0	28	83	16	73	70	8	0	21	1.14
1373531--1373596	26	2.4	26	78	12	71	72	7	0	19	1.08
1373597--1373659	32	2.1	32	82	11	80	61	4	7	25	1.43
1375133--1375182	26	1.9	26	87	0	73	40	4	16	40	1.67
1376790--1376843	26	2.1	26	100	0	108	27	42	7	22	1.80
1377537--1377639	33	3.1	33	86	9	147	54	0	0	43	1.13
1377536--1377588	19	2.8	20	74	8	56	54	0	1	43	1.11
1377545--1377640	7	14.4	7	70	20	64	56	1	1	41	1.13
1377661--1377710	25	2.0	25	100	0	100	40	16	4	40	1.67
1377698--1377746	13	3.9	13	92	7	84	40	8	4	46	1.52
1377697--1377753	24	2.4	24	86	13	82	42	8	3	45	1.52
1380644--1380737	45	2.1	45	89	0	143	43	28	7	20	1.78
1387505--1387537	17	1.9	17	100	0	66	36	24	18	21	1.95
1389585--1389634	2	25.0	2	100	0	100	50	0	0	50	1.00
1397490--1397627	35	3.9	35	78	7	163	31	18	19	31	1.96
1397487--1397629	71	2.0	71	91	0	232	30	18	20	30	1.97
1401731--1401865	35	3.8	34	80	7	162	35	15	20	28	1.93
1401732--1401863	71	1.9	71	90	0	210	34	15	19	29	1.93
1403594--1403642	20	2.5	20	86	0	62	16	16	34	32	1.91
1410325--1410378	2	28.0	2	79	20	62	48	0	3	48	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1410324--1410385	24	2.5	24	75	20	65	48	0	4	46	1.23
1410459--1410512	27	2.0	26	85	10	72	46	1	7	44	1.42
1410527--1410565	3	13.0	3	100	0	78	66	0	0	33	0.92
1413924--1414080	65	2.4	64	87	7	212	30	15	21	32	1.94
1416788--1416882	45	2.1	44	83	12	115	27	18	24	29	1.98
1416824--1416882	24	2.6	23	81	7	68	28	18	23	28	1.98
1422271--1422423	65	2.4	64	91	5	238	30	16	21	32	1.95
1422271--1422464	65	3.0	64	76	17	179	29	15	22	32	1.95
1423633--1423752	62	1.9	62	91	0	195	30	19	16	33	1.94
1430644--1430673	2	15.5	2	93	6	53	50	0	0	50	1.00
1431242--1431836	226	2.6	225	82	4	680	32	19	17	30	1.95
1432185--1432268	2	44.0	2	74	17	63	45	0	5	48	1.27
1432265--1432324	28	2.1	29	87	3	86	43	3	8	45	1.50
1433998--1434133	65	2.1	65	86	2	184	33	17	20	28	1.96
1440640--1440839	56	3.6	55	83	6	258	39	16	18	26	1.91
1441522--1441563	18	2.3	18	80	11	50	59	0	14	26	1.35
1453366--1453421	23	2.5	22	82	2	67	42	0	10	46	1.38
1453487--1453541	14	3.5	15	80	12	58	67	0	3	29	1.08
1454427--1454515	30	3.0	30	93	1	144	31	25	21	21	1.98
1454511--1454611	31	3.2	31	75	8	105	34	17	16	30	1.93
1454514--1454610	32	3.1	32	79	10	110	36	17	15	30	1.91
1455449--1455508	2	30.0	2	100	0	120	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1455537--1455592	29	1.9	29	82	7	69	44	23	1	30	1.63
1455981--1456025	21	2.1	21	87	0	63	15	24	28	31	1.96
1458875--1458963	30	3.0	30	91	1	135	31	26	21	20	1.98
1458959--1459059	31	3.2	31	78	8	114	34	17	17	29	1.94
1458962--1459058	32	3.1	31	82	10	108	36	17	16	29	1.92
1459950--1460005	29	1.9	29	82	7	69	44	23	1	30	1.63
1460394--1460438	21	2.1	21	87	0	63	15	24	28	31	1.96
1463719--1463746	2	14.0	2	100	0	56	50	0	0	50	1.00
1472747--1472806	2	30.5	2	93	3	104	51	0	0	48	1.00
1473219--1473333	33	3.4	33	83	7	151	29	8	18	43	1.80
1473353--1473504	65	2.3	66	84	5	200	42	9	18	29	1.82
1473521--1473634	29	3.7	29	66	25	72	38	9	20	31	1.85
1473389--1473603	99	2.2	100	90	1	342	39	9	20	30	1.85
1473534--1473660	66	2.0	64	93	3	218	38	11	20	29	1.87
1473358--1473761	165	2.4	163	90	3	614	38	10	20	31	1.85
1473630--1473697	36	1.9	36	85	5	95	39	11	19	29	1.87
1473550--1473761	99	2.1	102	88	4	322	37	10	20	31	1.86
1475137--1475318	95	1.9	95	90	2	294	29	20	19	30	1.97
1479349--1479378	11	2.8	11	95	5	53	66	0	0	33	0.92
1479372--1479438	18	3.9	17	74	16	66	70	1	4	23	1.14
1480838--1480944	5	20.2	5	71	17	65	72	4	1	20	1.12
1480847--1480902	17	3.4	17	82	7	71	76	3	0	19	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1480832--1480914	44	1.9	43	82	7	105	74	3	2	19	1.07
1480843--1481026	10	17.4	10	70	22	87	73	3	4	18	1.13
1480957--1481019	28	2.2	28	83	5	74	77	1	3	17	0.97
1481122--1481150	2	14.5	2	100	0	58	51	0	0	48	1.00
1496691--1496750	29	2.0	31	90	6	97	35	6	16	41	1.75
1496826--1496877	19	2.7	19	93	0	86	38	13	11	36	1.81
1496987--1497028	21	2.0	21	95	0	75	23	21	28	26	1.99
1498243--1498289	19	2.5	19	79	6	51	53	6	10	29	1.60
1499511--1499570	29	2.0	31	90	6	97	35	6	16	41	1.75
1499635--1499697	19	3.3	19	90	0	90	38	12	14	34	1.84
1499806--1499847	21	2.0	21	100	0	84	23	19	28	28	1.98
1500132--1500201	34	2.1	32	89	5	104	31	15	31	21	1.95
1502210--1502264	22	2.5	22	88	5	76	30	23	18	27	1.97
1509189--1509231	23	1.9	22	85	4	59	25	23	20	30	1.99
1525838--1525894	3	19.0	3	89	7	89	36	0	0	63	0.95
1525830--1525894	21	3.1	21	87	10	98	35	0	0	64	0.94
1528104--1528140	17	2.2	17	90	9	58	27	2	0	70	1.01
1531418--1531449	15	2.1	15	94	0	55	25	18	9	46	1.79
1538778--1538850	11	6.6	11	79	16	80	82	0	17	0	0.68
1538777--1538847	17	3.9	17	82	14	72	83	0	16	0	0.66
1538777--1538850	28	2.7	26	86	12	103	82	0	17	0	0.67
1539546--1539882	114	3.0	114	89	0	505	35	16	18	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1541183--1541227	24	1.9	23	82	13	56	48	11	26	13	1.75
1540576--1541357	113	6.9	113	97	0	1375	37	13	19	29	1.90
1541630--1541683	3	18.0	3	88	7	83	37	0	0	62	0.95
1554433--1554487	16	2.9	21	69	25	57	69	3	20	7	1.28
1554439--1554480	16	2.6	16	100	0	84	69	4	19	7	1.31
1555549--1555635	19	4.7	19	70	17	60	77	1	6	14	1.04
1556825--1556867	12	3.9	11	83	16	54	55	0	2	41	1.12
1556820--1556867	17	2.9	17	87	6	73	56	0	2	41	1.11
1556890--1557119	35	6.5	35	83	7	193	43	6	2	46	1.43
1556890--1557119	36	6.4	36	81	12	178	43	6	2	46	1.43
1557080--1557131	25	2.0	27	85	7	72	42	5	5	46	1.51
1558395--1558470	38	2.0	38	97	0	143	43	9	21	26	1.82
1559104--1559148	3	15.0	3	90	9	74	35	0	0	64	0.94
1559115--1559160	21	2.2	21	84	0	56	47	0	0	52	1.00
1560485--1560557	27	2.7	27	77	12	78	30	1	2	65	1.15
1561494--1561547	25	2.2	25	100	0	108	12	24	16	46	1.82
1562295--1562333	20	2.0	20	100	0	78	61	5	28	5	1.39
1576147--1576189	2	21.5	2	100	0	86	51	0	48	0	1.00
1584024--1584050	2	13.5	2	100	0	54	0	48	0	51	1.00
1584930--1585008	31	2.5	31	81	0	95	39	11	8	40	1.72
1585762--1585815	23	2.3	23	90	0	90	27	25	29	16	1.97
1588637--1588717	29	2.8	27	73	17	65	51	18	2	27	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1588626--1588912	157	1.8	158	87	5	429	50	17	4	27	1.65
1589471--1589749	153	1.8	154	86	3	411	29	3	17	49	1.63
1590243--1590275	14	2.4	14	100	0	66	36	6	0	57	1.23
1590478--1590514	3	12.7	3	83	16	51	32	0	2	64	1.07
1590478--1590514	13	3.2	12	82	17	51	32	0	2	64	1.07
1596837--1596869	15	2.2	15	89	10	50	87	0	0	12	0.53
1596886--1596925	6	6.8	6	88	5	64	70	0	15	15	1.18
1596888--1596946	17	3.5	16	79	13	57	69	0	13	16	1.19
1596888--1596941	23	2.3	23	87	12	76	68	0	14	16	1.21
1599409--1600064	45	14.9	45	74	8	397	24	16	19	40	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18