genome.fa.s8128.2.7.7.80.10.50.1000.6.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: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4987688

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  6  of  20  ( 2387 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)
1349322--1349411	32	2.8	33	91	6	148	12	17	23	46	1.82
1349354--1349453	19	5.5	19	77	12	77	14	21	22	43	1.87
1349396--1349450	20	2.8	19	89	5	83	16	25	23	34	1.95
1351435--1351574	19	7.6	19	84	7	191	45	17	21	16	1.86
1351569--1351622	14	3.5	14	77	22	63	11	20	20	48	1.80
1351435--1351568	52	2.5	52	86	6	178	46	17	20	15	1.84
1351564--1351642	33	2.4	34	89	2	115	13	22	20	43	1.87
1351607--1351664	20	2.9	20	94	0	98	17	22	22	37	1.93
1352696--1352749	24	2.2	24	90	0	81	24	16	20	38	1.92
1352924--1352948	12	2.1	12	100	0	50	72	0	28	0	0.86
1355221--1355351	19	7.7	19	62	23	76	43	19	22	15	1.87
1355221--1355347	33	3.8	33	85	4	184	43	18	22	15	1.88
1355222--1355354	66	2.0	66	94	0	230	42	18	21	17	1.90
1355347--1355389	20	2.2	20	87	4	61	16	18	23	41	1.89
1355362--1355421	32	1.9	32	93	3	104	11	21	21	45	1.84
1355528--1355563	14	2.6	14	86	4	56	47	25	0	27	1.52
1356909--1356975	21	3.2	21	68	4	55	19	20	35	23	1.95
1356909--1357031	42	2.9	41	80	7	113	22	17	36	22	1.95
1359016--1359142	39	3.4	37	75	12	127	45	21	20	12	1.84
1359016--1359147	19	7.1	19	79	11	139	44	21	21	12	1.85
1360706--1360773	35	1.9	35	85	5	93	45	19	0	35	1.50
1368237--1368269	16	2.1	16	88	5	50	54	6	12	27	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1369944--1370028	30	2.8	31	72	13	79	35	17	4	42	1.70
1371333--1371421	46	2.0	45	90	2	142	25	16	26	30	1.97
1371443--1371481	20	2.0	20	89	0	60	20	15	33	30	1.94
1379998--1380169	91	1.9	91	82	9	217	29	16	25	29	1.96
1381255--1381336	41	2.0	41	97	0	155	30	14	35	19	1.92
1382195--1382235	20	2.2	18	86	8	55	48	0	0	51	1.00
1382391--1382443	20	2.5	21	85	11	65	50	0	1	47	1.12
1382431--1382478	22	2.2	21	85	3	60	47	0	0	52	1.00
1382525--1382567	21	2.0	22	90	4	70	53	0	0	46	1.00
1382520--1382578	29	2.0	29	87	6	84	52	0	0	47	1.00
1382498--1382641	21	7.0	21	67	22	56	50	0	2	46	1.21
1382528--1382594	23	3.0	24	82	8	70	53	0	0	46	1.00
1387153--1387190	16	2.4	16	100	0	76	13	7	57	21	1.60
1389825--1389877	25	2.1	25	83	13	65	66	0	3	30	1.10
1399639--1399695	20	2.6	21	86	10	71	31	14	21	33	1.92
1400191--1400230	2	20.0	2	89	0	62	5	0	45	50	1.23
1408174--1408214	20	2.0	21	90	4	66	31	14	21	31	1.94
1412734--1412799	32	2.0	34	85	5	91	34	15	15	34	1.88
1412765--1412846	39	2.1	40	86	2	112	39	13	15	31	1.87
1412942--1413055	42	2.7	40	75	9	111	32	20	19	28	1.97
1413120--1413180	19	3.2	19	65	9	52	31	18	19	31	1.96
1413086--1413393	39	8.2	39	83	8	397	35	16	15	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1413200--1413257	29	2.0	29	96	0	107	39	17	8	34	1.80
1413124--1413323	107	1.9	105	91	4	330	35	17	14	33	1.90
1413086--1413361	146	1.9	144	93	1	471	35	16	14	33	1.90
1413368--1413538	76	2.2	77	81	5	195	39	11	16	31	1.85
1418271--1418318	6	8.6	5	86	11	51	77	2	0	20	0.88
1418277--1418321	23	2.0	23	91	8	74	75	2	0	22	0.91
1426594--1426648	20	2.8	20	82	0	65	29	14	16	40	1.88
1427345--1427395	14	3.5	14	80	19	68	47	0	0	52	1.00
1427349--1427402	16	3.5	16	78	19	69	50	0	0	50	1.00
1427906--1427944	16	2.4	16	100	0	78	61	12	25	0	1.31
1431289--1431336	23	2.1	23	88	0	69	37	8	16	37	1.79
1431174--1431336	87	1.9	87	93	0	281	41	12	14	31	1.82
1431612--1432722	181	6.1	182	90	1	1648	26	15	13	44	1.83
1431612--1432722	363	3.1	362	90	1	1732	26	15	13	44	1.83
1436258--1436822	200	2.8	197	85	4	758	28	15	15	41	1.87
1437003--1437059	24	2.3	24	82	11	71	47	14	1	36	1.54
1440464--1440678	103	2.1	103	96	0	394	26	12	24	37	1.90
1440705--1440765	23	2.7	23	89	0	86	21	22	26	29	1.99
1440992--1441267	140	2.0	140	98	0	534	38	5	21	34	1.76
1446278--1446347	35	2.0	35	97	0	131	25	2	30	41	1.70
1446765--1446982	103	2.1	101	94	5	375	26	12	23	37	1.90
1446989--1447066	23	3.3	23	81	1	93	24	20	23	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1447297--1447576	140	2.0	140	99	0	551	37	5	21	35	1.76
1448735--1448778	15	2.9	15	86	0	70	25	4	50	20	1.67
1449118--1450019	199	4.5	199	93	0	1493	27	15	15	41	1.87
1449118--1450019	397	2.3	397	92	0	1502	27	15	15	41	1.87
1450416--1450465	19	2.6	19	93	0	82	58	10	2	30	1.42
1453864--1453931	19	3.6	19	85	0	91	35	17	1	45	1.58
1454319--1455522	182	6.6	179	88	3	1596	25	16	13	45	1.83
1454319--1455522	363	3.3	363	89	2	1800	25	16	13	45	1.83
1454319--1455522	545	2.2	544	87	4	1757	25	16	13	45	1.83
1466957--1467048	3	31.0	3	95	2	168	33	0	1	65	1.00
1472972--1473016	16	2.8	16	83	6	56	48	13	8	28	1.72
1473702--1473833	64	2.0	65	88	1	194	53	19	7	19	1.69
1501096--1501150	24	2.3	24	96	0	101	21	27	12	38	1.90
1501718--1501746	14	2.1	14	100	0	58	27	0	6	65	1.18
1503488--1503605	16	7.4	16	88	0	155	23	22	26	27	1.99
1504228--1504294	26	2.7	26	88	6	95	47	8	7	35	1.63
1505561--1505600	20	2.2	19	86	13	57	67	2	10	20	1.31
1505589--1505628	16	2.5	16	84	11	55	77	0	2	20	0.88
1509396--1509480	23	3.6	23	95	4	143	48	9	4	37	1.57
1510128--1510253	35	3.6	35	80	3	121	31	15	19	34	1.92
1518264--1518369	31	3.3	31	71	14	88	20	19	17	41	1.90
1518239--1518368	66	2.0	66	89	3	199	19	21	20	38	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1524604--1524929	165	2.0	164	97	1	618	32	20	16	30	1.95
1527121--1527174	20	2.7	19	80	8	63	37	27	9	25	1.87
1528472--1528603	24	5.5	24	78	0	111	40	17	20	21	1.92
1533312--1533349	10	3.7	10	89	3	58	76	0	21	2	0.91
1534696--1534758	18	3.5	18	84	4	74	33	12	6	47	1.67
1535120--1535162	21	2.0	21	86	0	59	23	25	16	34	1.95
1540529--1540608	3	27.0	3	83	7	101	62	0	2	35	1.09
1540813--1541320	45	11.3	45	93	0	876	34	19	23	23	1.97
1540813--1541602	134	6.0	135	89	4	1225	34	18	23	23	1.97
1541288--1541352	32	2.0	32	93	0	112	36	13	26	23	1.92
1541245--1541579	89	4.0	82	85	6	392	34	18	22	23	1.96
1541320--1541602	45	6.3	45	89	0	442	34	18	22	24	1.96
1540813--1541591	179	4.4	170	88	5	976	34	18	23	23	1.96
1541119--1541531	211	2.0	211	93	0	702	34	18	23	23	1.96
1542274--1542341	22	3.1	22	93	0	118	33	10	22	33	1.88
1542643--1542715	37	2.0	36	89	5	112	39	17	13	28	1.88
1546533--1546590	8	6.9	8	88	11	89	0	24	0	75	0.80
1546534--1546591	9	6.7	9	92	4	93	0	22	0	77	0.77
1549410--1549444	7	5.0	7	86	13	54	54	14	17	14	1.72
1549412--1549440	15	1.9	15	100	0	58	55	13	17	13	1.70
1554195--1554221	3	9.0	3	100	0	54	66	0	0	33	0.92
1557513--1557591	21	3.7	21	81	8	79	22	35	25	16	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1557511--1557572	20	2.9	21	88	7	81	20	35	25	17	1.95
1562478--1562560	3	27.0	3	82	4	103	59	0	0	40	0.98
1562478--1562560	15	5.4	15	90	5	130	59	0	0	40	0.98
1562911--1563148	132	1.8	131	88	4	372	34	13	24	27	1.92
1564614--1564672	20	2.8	21	78	14	75	33	13	20	32	1.91
1564575--1564672	44	2.2	45	87	5	139	31	15	19	33	1.93
1565019--1565060	19	2.2	19	86	0	57	57	4	7	30	1.47
1571655--1571686	2	16.0	2	100	0	64	50	0	0	50	1.00
1580239--1580367	22	6.5	18	78	15	66	40	2	2	55	1.25
1580240--1580328	2	44.5	2	83	12	112	43	1	3	51	1.25

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20