genome.fa.s7716.2.7.7.80.10.50.1000.6.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: VEPZ01007716.1 Hibiscus syriacus cultivar Beakdansim tig00109945_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4364108

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

This is table  6  of  17  ( 1966 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)
1339104--1339667	56	10.2	56	87	2	762	26	17	19	36	1.93
1342491--1342542	20	2.6	20	100	0	104	40	25	9	25	1.85
1343352--1343376	12	2.1	12	100	0	50	44	0	0	56	0.99
1344804--1345363	276	2.0	278	97	0	1052	26	18	18	36	1.94
1346802--1346868	28	2.4	28	89	0	98	23	14	20	40	1.90
1351150--1351174	13	1.9	13	100	0	50	40	8	8	44	1.63
1353579--1353626	24	2.0	24	95	0	87	20	27	33	18	1.96
1359168--1359203	11	3.4	11	96	3	65	8	25	8	58	1.55
1362939--1362983	23	1.9	24	90	4	74	64	6	13	15	1.47
1363760--1363802	19	2.3	19	100	0	86	34	0	34	30	1.58
1363767--1363808	19	2.2	19	91	0	66	30	2	40	26	1.69
1368921--1368952	2	16.0	2	100	0	64	50	0	0	50	1.00
1369032--1369073	14	3.1	14	79	6	50	45	0	7	47	1.30
1369095--1369420	38	9.1	36	78	11	212	45	2	6	46	1.41
1369095--1369420	35	9.1	36	75	17	245	45	2	6	46	1.41
1369400--1369451	18	2.8	18	80	11	52	42	0	1	55	1.10
1370845--1370905	25	2.4	25	84	15	90	14	9	1	73	1.16
1370840--1370923	12	6.3	13	69	28	52	16	7	1	75	1.09
1371467--1371536	20	3.5	20	71	11	54	34	25	15	24	1.95
1371531--1371614	20	4.2	20	90	0	114	42	23	13	20	1.87
1371628--1371665	20	1.9	20	100	0	76	28	42	10	18	1.83
1372619--1372657	19	2.1	19	95	0	69	23	28	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1372718--1372788	19	3.7	19	84	1	79	22	21	19	36	1.95
1373658--1373701	22	2.1	20	83	8	52	70	2	2	25	1.10
1375486--1375527	21	2.0	21	81	9	50	42	0	21	35	1.53
1381477--1381516	20	2.0	20	100	0	80	45	20	20	15	1.86
1414104--1414153	19	2.6	19	96	0	91	24	30	16	30	1.96
1414042--1414197	83	1.9	81	81	7	190	26	22	18	32	1.97
1419090--1419115	2	13.0	2	100	0	52	50	0	0	50	1.00
1426725--1426884	65	2.5	65	85	5	200	27	18	23	31	1.97
1431061--1431112	20	2.5	21	78	12	63	25	23	21	30	1.99
1446315--1446656	54	6.4	54	81	7	365	34	18	18	28	1.95
1449310--1449350	20	2.0	20	90	0	64	19	26	36	17	1.94
1449771--1449849	40	2.0	40	100	0	158	32	25	2	39	1.69
1450833--1450911	40	2.0	40	97	0	149	40	2	24	32	1.68
1451235--1451315	21	3.9	21	90	1	128	17	29	34	18	1.94
1456139--1456619	54	8.9	54	86	1	563	36	18	17	27	1.93
1466229--1466353	59	2.1	59	87	0	178	30	26	16	27	1.96
1467881--1467916	11	3.3	11	96	0	63	27	16	0	55	1.42
1468902--1468958	30	1.9	29	89	3	87	35	12	5	47	1.64
1471642--1471681	16	2.5	16	95	0	71	42	12	10	35	1.76
1474227--1474256	13	2.3	13	94	0	51	70	0	0	30	0.88
1474325--1474398	9	6.9	11	74	21	52	68	0	4	27	1.07
1474360--1474397	3	12.7	3	89	10	60	71	0	0	28	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1475766--1475801	2	18.5	2	94	5	65	50	0	0	50	1.00
1480037--1480070	2	17.0	2	100	0	68	50	0	0	50	1.00
1481867--1481900	3	11.0	3	93	6	59	67	0	0	32	0.91
1481868--1481915	16	3.2	16	91	8	75	72	0	0	27	0.84
1482217--1482672	123	3.7	123	94	0	770	25	19	15	39	1.90
1482669--1482800	43	3.0	45	82	6	171	29	20	25	24	1.99
1484139--1484324	75	2.5	75	90	0	291	33	19	12	33	1.90
1488622--1488660	18	2.2	18	90	0	60	71	5	7	15	1.26
1492711--1492785	3	24.0	3	87	12	107	66	1	0	32	1.00
1496923--1497435	55	9.3	55	86	0	670	36	18	18	26	1.94
1498280--1498390	24	4.5	24	65	20	75	28	0	13	57	1.37
1498289--1498427	19	7.2	19	69	16	56	30	0	12	56	1.36
1499054--1499097	19	2.4	18	88	3	61	20	6	0	72	1.07
1499144--1499194	17	2.9	17	80	16	59	27	1	0	70	0.98
1509310--1509366	3	18.3	3	85	7	78	63	1	0	35	1.05
1509479--1510618	258	4.4	257	84	3	1377	34	16	15	34	1.90
1509524--1510621	515	2.1	514	84	3	1413	34	15	14	34	1.89
1512651--1512688	12	3.1	12	92	3	58	2	13	0	84	0.73
1512654--1512736	12	6.8	12	73	20	57	3	14	2	79	0.97
1519881--1519968	29	3.0	29	79	11	99	45	5	13	35	1.67
1522279--1522327	17	2.8	17	76	14	55	28	6	6	59	1.46
1523093--1523153	27	2.3	26	80	8	68	62	1	0	36	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1523099--1523140	19	2.2	19	86	0	57	66	0	0	33	0.92
1525813--1525837	11	2.3	11	100	0	50	32	0	0	68	0.90
1525854--1525927	2	37.0	2	100	0	148	50	0	0	50	1.00
1526759--1526792	17	1.9	18	94	5	61	20	11	0	67	1.21
1526759--1526792	18	1.9	17	88	5	50	20	11	0	67	1.21
1529184--1529247	20	3.3	19	77	12	58	14	15	14	56	1.68
1534240--1534415	94	1.9	92	82	4	219	30	17	19	32	1.95
1541906--1541983	31	2.5	31	85	2	102	15	26	29	28	1.96
1543555--1543888	43	7.8	43	92	0	544	27	19	27	25	1.99
1547686--1548048	163	2.3	159	86	4	487	30	19	18	32	1.95
1547686--1548048	81	4.5	82	77	7	391	30	19	18	32	1.95
1549454--1549500	22	2.2	21	84	3	58	42	12	6	38	1.69
1549630--1549668	15	2.6	15	100	0	78	46	10	15	28	1.78
1566799--1566831	2	17.0	2	93	6	59	51	0	0	48	1.00
1566755--1566888	68	2.0	67	82	4	162	45	4	1	48	1.31
1566848--1566933	44	1.9	45	83	2	111	50	6	1	41	1.37
1566909--1566937	2	14.5	2	100	0	58	51	0	0	48	1.00
1567299--1567366	2	35.0	2	94	5	122	51	0	0	48	1.00
1572945--1572989	21	2.1	21	87	0	63	31	28	24	15	1.96
1573419--1573456	20	1.9	20	88	0	58	47	5	13	34	1.65
1574651--1574710	23	2.6	23	71	10	59	25	20	25	30	1.99
1576959--1577115	77	2.0	77	100	0	314	38	7	21	31	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1578442--1578509	13	5.4	13	80	7	77	64	2	0	32	1.08
1578442--1578509	3	21.7	3	79	8	73	64	2	0	32	1.08
1581354--1581545	52	3.7	52	87	2	262	23	22	16	36	1.94
1581353--1581539	103	1.8	103	85	2	268	23	21	17	37	1.94
1582832--1582925	5	17.4	5	77	16	82	3	17	0	79	0.85
1582832--1582927	23	4.4	23	77	15	89	3	16	0	80	0.84
1582846--1582925	33	2.5	33	85	6	101	3	16	0	80	0.86
1582832--1582920	16	5.4	16	84	11	101	3	16	0	79	0.86
1585123--1585157	11	3.3	11	96	4	63	8	25	0	65	1.21
1587295--1587346	27	1.9	27	92	0	86	61	11	11	15	1.57
1590212--1590283	3	22.7	3	80	8	72	63	2	0	33	1.08
1593614--1593658	20	2.2	21	84	11	58	13	22	0	64	1.28
1596709--1597272	213	2.6	211	87	2	763	29	17	21	31	1.96
1597927--1598576	54	12.0	54	79	1	620	30	15	22	30	1.95
1599891--1599926	18	2.0	18	100	0	72	22	5	16	55	1.62
1605329--1605394	26	2.5	26	76	13	64	21	19	0	59	1.38
1613325--1613520	102	1.9	103	87	3	288	29	17	22	30	1.97
1618308--1618464	21	7.6	21	74	13	119	33	22	21	22	1.98
1618321--1618464	62	2.3	62	97	0	270	33	21	21	23	1.97
1618308--1618490	41	4.4	42	77	16	168	33	22	21	22	1.97
1618595--1618625	6	5.3	6	96	3	55	32	51	16	0	1.44
1619132--1619164	12	2.8	12	90	4	50	0	15	57	27	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1619254--1619306	19	2.6	20	82	11	63	32	26	20	20	1.98
1619254--1619346	21	4.6	21	75	12	86	31	22	21	24	1.98
1619335--1619490	20	7.7	20	75	16	124	25	21	19	34	1.96
1619355--1619449	41	2.3	42	90	3	149	24	21	20	34	1.96
1619376--1619494	21	5.8	21	74	16	106	23	21	21	33	1.97
1619331--1619506	62	2.9	62	92	2	284	25	21	19	34	1.96
1619331--1619490	41	3.9	42	77	17	133	25	21	19	34	1.96
1619602--1619812	20	10.4	20	77	7	210	18	17	25	38	1.92
1619602--1619812	41	5.2	41	88	1	318	18	17	25	38	1.92
1619821--1619873	20	2.7	20	85	5	72	13	16	24	45	1.83

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