genome.fa.s7777.2.7.7.80.10.50.1000.8.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: VEPZ01007777.1 Hibiscus syriacus cultivar Beakdansim tig00110059_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1720799

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  8  of  10  ( 1086 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)
1355843--1355907	20	3.2	20	91	2	103	36	20	24	18	1.94
1356605--1356635	13	2.4	13	94	0	53	41	22	9	25	1.84
1356852--1356899	2	24.0	2	100	0	96	50	0	0	50	1.00
1359258--1359295	20	1.9	20	88	0	58	44	15	10	28	1.80
1359533--1359589	21	2.9	19	75	19	55	50	8	10	29	1.67
1360929--1360971	18	2.4	18	96	0	77	27	23	9	39	1.85
1362725--1362761	19	2.0	19	89	5	58	32	16	16	35	1.91
1363741--1363797	18	2.9	18	76	23	62	49	8	12	29	1.70
1366831--1366871	21	2.0	21	100	0	82	29	29	17	24	1.97
1369787--1369937	64	2.3	63	84	6	178	34	19	17	29	1.94
1370421--1370456	17	2.0	19	89	10	58	44	5	11	38	1.63
1370612--1370675	30	2.1	30	88	0	92	20	18	26	34	1.96
1373649--1373692	2	22.5	2	95	4	81	50	0	0	50	1.00
1374489--1374918	2	223.5	2	65	21	118	46	4	7	41	1.53
1374499--1374592	17	5.4	16	77	11	80	53	0	5	41	1.24
1374538--1374681	56	2.5	54	81	10	139	51	2	6	39	1.41
1374604--1374670	15	4.6	16	75	20	51	50	1	10	37	1.46
1375628--1375658	16	1.9	16	93	0	53	54	3	12	29	1.53
1376030--1376083	28	1.9	28	88	0	81	31	3	3	61	1.31
1376649--1376698	23	2.2	23	92	0	82	38	8	22	32	1.83
1376612--1376774	87	1.9	87	94	0	290	41	12	15	31	1.84
1376776--1377290	198	2.6	198	81	6	553	32	15	13	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1380432--1381742	197	6.6	198	87	4	1787	31	13	15	39	1.86
1380432--1381742	397	3.3	397	88	3	1818	31	13	15	39	1.86
1383873--1383902	2	15.0	2	100	0	60	50	0	0	50	1.00
1384207--1384243	15	2.5	15	100	0	74	32	0	51	16	1.45
1384656--1385680	198	5.2	197	93	2	1643	30	16	15	37	1.90
1386011--1386060	19	2.6	19	90	0	73	56	12	2	30	1.47
1387207--1387242	17	2.1	17	100	0	72	30	11	8	50	1.67
1387542--1387580	18	2.2	18	95	0	69	5	35	0	58	1.20
1390144--1390190	20	2.3	20	75	7	51	17	21	12	48	1.79
1390107--1390760	180	3.6	181	82	6	699	27	16	13	41	1.86
1391311--1391440	65	2.0	66	92	1	217	32	9	6	52	1.58
1391440--1391533	49	1.9	49	86	0	134	29	12	12	44	1.80
1399583--1399612	10	2.8	11	90	10	53	50	20	0	30	1.49
1400241--1400315	3	25.7	3	84	10	102	37	0	0	62	0.95
1401286--1401345	29	2.0	30	90	9	97	28	6	5	60	1.43
1401930--1401957	13	2.2	13	100	0	56	35	0	0	64	0.94
1402610--1402671	30	2.1	28	85	11	81	33	4	0	61	1.17
1405796--1405831	19	1.9	18	88	5	54	47	0	19	33	1.50
1410455--1410629	73	2.4	75	82	7	205	34	16	20	29	1.94
1411503--1411661	54	2.9	53	81	5	194	37	15	21	26	1.93
1412032--1412090	22	2.8	22	87	5	77	35	8	11	44	1.72
1412738--1412906	45	3.8	45	97	0	320	23	23	18	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1413032--1413097	3	21.7	3	80	9	71	37	1	0	60	1.06
1414107--1414166	29	2.0	30	90	9	97	28	6	5	60	1.43
1414818--1415122	140	2.2	138	81	9	348	39	7	6	46	1.59
1415118--1415147	2	15.5	2	93	6	53	50	0	0	50	1.00
1417272--1417341	26	2.6	26	78	17	72	54	1	4	40	1.29
1426300--1426643	152	2.3	147	79	13	360	27	16	6	49	1.71
1426921--1426955	2	17.5	2	100	0	70	51	0	0	48	1.00
1428291--1428532	120	2.0	120	99	0	475	46	9	25	18	1.79
1428878--1428919	3	13.3	3	81	18	50	35	2	0	61	1.09
1434586--1434627	16	2.4	17	84	15	59	28	33	21	16	1.95
1434597--1434630	16	2.1	16	100	0	68	32	32	17	17	1.94
1435219--1435271	18	2.9	18	88	0	79	20	20	30	28	1.98
1442690--1442778	18	4.9	18	87	0	115	22	17	32	26	1.97
1446616--1446650	2	17.5	2	100	0	70	48	0	0	51	1.00
1446703--1446742	2	21.0	2	90	10	66	52	0	0	47	1.00
1448389--1448544	43	3.4	43	71	19	145	21	17	26	35	1.95
1448432--1448595	51	3.4	51	69	19	168	23	17	26	32	1.97
1448363--1449048	105	7.0	96	91	4	858	23	17	24	33	1.96
1448892--1449044	43	3.5	42	70	11	126	21	20	25	32	1.97
1448876--1449054	91	2.0	91	95	0	322	21	21	25	31	1.98
1449811--1449844	18	1.9	17	88	5	50	0	20	2	76	0.92
1449882--1449936	11	5.1	11	77	4	58	0	14	1	83	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1449885--1449933	14	3.5	14	86	5	64	0	14	2	83	0.73
1449882--1449931	25	2.0	26	84	11	68	0	16	2	82	0.77
1449882--1449937	17	3.2	17	80	14	69	0	16	1	82	0.76
1459337--1459380	20	2.2	20	88	8	63	72	2	6	18	1.17
1460538--1460590	2	26.5	2	100	0	106	49	0	0	50	1.00
1460627--1460737	32	3.5	30	70	22	75	61	1	6	30	1.31
1466647--1466997	160	2.2	157	85	3	499	27	15	7	48	1.73
1466647--1467019	158	2.4	155	83	4	478	28	16	7	47	1.74
1475591--1475645	28	2.0	28	89	7	85	40	25	9	25	1.85
1477366--1477416	11	4.6	11	76	9	50	27	17	25	29	1.98
1478857--1478897	16	2.6	16	88	3	57	19	7	9	63	1.48
1482909--1482977	19	3.6	19	67	21	54	50	1	1	46	1.19
1483094--1483137	22	2.0	22	90	0	70	50	0	2	47	1.13
1485525--1485950	106	4.0	106	91	0	654	22	17	24	35	1.95
1486584--1486668	37	2.3	37	81	4	91	42	15	17	24	1.88
1487380--1487415	18	2.0	18	94	0	63	41	33	8	16	1.78
1488464--1488515	22	2.5	19	82	14	59	3	9	7	78	1.06
1488476--1488533	16	3.4	16	76	17	53	1	10	8	79	1.01
1488488--1488525	11	3.7	10	83	16	51	0	10	7	81	0.87
1491977--1492026	5	9.8	5	89	8	75	78	0	2	20	0.86
1493147--1493176	15	2.0	15	93	0	51	76	0	3	20	0.92
1493992--1494047	28	2.0	28	96	0	103	17	12	50	19	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1494332--1494359	2	14.0	2	100	0	56	50	0	0	50	1.00
1496498--1496547	21	2.5	20	87	9	66	30	12	26	32	1.92
1497396--1497496	23	4.4	22	73	9	67	25	17	22	33	1.96
1497462--1497542	24	3.4	24	83	10	96	29	19	19	30	1.97
1499275--1499340	33	2.0	34	93	3	116	33	19	22	24	1.97
1503095--1503184	45	2.0	45	93	0	153	38	28	5	26	1.79
1508354--1508405	14	3.6	14	76	5	59	42	5	21	30	1.76
1508622--1508651	15	2.0	15	93	0	51	30	0	0	70	0.88
1508745--1508795	23	2.2	23	82	0	57	45	1	1	50	1.24
1508932--1508981	8	6.4	8	73	13	50	40	0	2	58	1.10
1508921--1508981	23	2.6	24	82	7	72	42	1	1	54	1.20
1515120--1515200	21	3.8	22	79	7	87	24	34	23	17	1.96
1518602--1518697	42	2.3	42	87	1	140	51	17	14	16	1.77
1519376--1519437	30	2.1	30	88	8	92	29	4	9	56	1.52
1519668--1519740	24	3.0	25	78	11	73	56	0	2	41	1.14
1519668--1519722	26	2.1	27	83	9	71	60	0	1	38	1.08
1523629--1523761	61	2.2	60	90	2	205	35	20	10	33	1.87
1531115--1531234	23	5.2	23	85	4	136	15	18	10	56	1.66
1534744--1534785	17	2.5	17	88	0	57	19	33	21	26	1.97
1536609--1536702	24	3.9	24	80	2	91	22	12	18	46	1.82
1536601--1536706	48	2.2	49	86	3	144	20	13	16	49	1.79
1536642--1536694	12	4.4	12	74	9	54	20	13	15	50	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1540278--1540364	44	2.0	44	86	4	122	22	22	20	33	1.97
1540278--1540382	44	2.4	44	82	7	106	21	23	19	35	1.96
1542373--1542431	25	2.3	26	91	5	102	15	0	50	33	1.44
1542871--1543357	259	1.9	259	84	0	661	26	20	19	33	1.97
1543211--1543438	85	2.7	84	86	2	339	25	18	19	35	1.95
1544279--1544360	32	2.6	32	83	11	105	32	24	13	29	1.93
1547199--1547241	14	3.1	13	86	10	50	74	0	13	11	1.07
1547199--1547241	13	3.2	13	86	6	50	74	0	13	11	1.07
1549543--1549591	3	15.7	3	91	8	80	36	0	0	63	0.95
1549541--1549590	16	3.1	16	100	0	100	38	0	0	62	0.96

Tables:   1   2   3   4   5   6   7   8   9   10