genome.fa.s8521.2.7.7.80.10.50.1000.6.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: VEPZ01008521.1 Hibiscus syriacus cultivar Beakdansim tig00111388_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1601068

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 737 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)
1271736--1271813	37	2.2	36	81	9	88	24	8	1	65	1.29
1273387--1273427	21	2.0	21	95	0	73	41	7	0	51	1.30
1273766--1273845	2	40.0	2	100	0	160	50	0	0	50	1.00
1273975--1274015	15	2.9	14	85	7	55	68	2	4	24	1.22
1274316--1274415	28	3.5	28	76	8	110	54	4	6	36	1.44
1275606--1275652	2	23.5	2	100	0	94	0	48	0	51	1.00
1279195--1279291	23	4.1	24	74	1	81	15	13	14	56	1.67
1282544--1282597	26	2.1	26	85	0	72	37	25	11	25	1.89
1288035--1288064	2	15.0	2	100	0	60	50	0	0	50	1.00
1291332--1291401	29	2.4	29	85	9	97	67	4	2	25	1.23
1291654--1291682	10	2.7	11	89	10	51	62	0	0	37	0.96
1292836--1292865	13	2.3	13	100	0	60	36	6	16	40	1.75
1294387--1294441	2	27.5	2	100	0	110	49	0	0	50	1.00
1296184--1296293	46	2.4	46	86	7	152	22	21	12	42	1.87
1296305--1296350	8	5.3	9	84	12	53	8	10	0	80	0.91
1296316--1296350	8	4.4	8	86	13	54	11	8	0	80	0.92
1309920--1310078	31	5.2	31	97	0	293	13	22	6	58	1.57
1310909--1310934	13	2.0	13	100	0	52	38	7	7	46	1.61
1324746--1324798	2	26.5	2	84	0	61	50	39	0	9	1.35
1324750--1324800	10	5.1	10	85	0	75	50	37	0	11	1.39
1324744--1324811	30	2.2	30	94	2	118	50	33	1	14	1.53
1331113--1331152	21	1.9	21	85	10	55	57	17	2	22	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1331826--1331950	42	3.0	40	77	18	121	50	0	0	48	1.12
1331904--1331952	23	2.1	23	77	11	55	53	0	0	46	1.00
1340771--1340805	15	2.3	15	95	0	61	8	68	17	5	1.35
1343496--1343537	21	2.0	21	95	0	75	30	14	7	47	1.71
1343530--1343634	33	3.2	32	88	6	158	33	7	16	42	1.76
1343821--1343852	16	2.0	17	88	11	50	43	21	21	12	1.86
1345843--1345883	21	1.9	22	90	5	66	24	43	24	7	1.79
1349859--1349891	16	2.0	17	94	5	59	36	21	6	36	1.78
1352405--1352434	2	15.0	2	92	0	51	46	0	0	53	1.00
1353941--1354093	43	3.6	43	77	12	138	54	4	16	24	1.61
1358438--1358501	17	3.5	19	76	18	73	51	28	14	6	1.66
1364534--1364690	64	2.5	63	81	8	167	31	19	24	23	1.98
1365796--1365829	2	17.0	2	88	11	52	50	2	0	47	1.16
1365796--1365835	10	3.8	11	87	12	50	47	5	2	45	1.38
1366339--1366392	23	2.3	23	87	0	90	18	24	24	33	1.97
1366654--1366743	32	2.8	32	96	0	162	58	23	3	14	1.51
1366662--1366744	21	3.9	22	84	4	107	60	20	3	15	1.50
1366662--1366744	11	7.7	11	82	5	107	60	20	3	15	1.50
1366849--1367314	36	12.9	36	83	2	506	20	24	22	32	1.98
1366849--1367313	108	4.3	108	84	1	572	20	24	22	32	1.98
1367488--1367526	21	1.9	20	85	15	53	23	20	10	46	1.81
1368362--1368434	11	6.7	11	85	3	103	60	19	4	16	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1372637--1372668	16	2.0	16	93	0	55	46	6	3	43	1.44
1373498--1373560	23	2.8	23	90	2	101	17	23	26	31	1.97
1377622--1377666	23	2.0	23	81	0	54	17	15	28	37	1.91
1377929--1377986	12	4.8	12	73	0	53	41	1	18	37	1.61
1381665--1381696	15	2.2	15	94	5	57	34	28	18	18	1.95
1381808--1381860	23	2.2	26	90	10	85	30	24	5	39	1.78
1382176--1382336	64	2.5	63	84	6	202	28	21	17	32	1.96
1388553--1388605	23	2.2	26	90	10	85	30	24	5	39	1.78
1388921--1389094	63	2.8	60	79	11	165	25	17	21	35	1.95
1390699--1390730	15	2.1	15	94	0	55	9	65	18	6	1.42
1390850--1390901	24	2.2	24	82	6	61	17	19	13	50	1.78
1404377--1404425	24	2.0	25	84	11	66	48	2	6	42	1.39
1404884--1405132	30	8.4	29	70	17	145	40	6	0	52	1.33
1405001--1405052	24	2.1	26	79	13	65	42	5	0	51	1.25
1405004--1405132	56	2.4	54	79	11	138	37	5	1	55	1.33
1405163--1405247	30	2.8	30	85	0	107	55	1	7	36	1.35
1405176--1405290	30	3.8	30	78	1	113	52	0	6	40	1.32
1428127--1428221	49	1.9	50	84	4	129	41	12	17	28	1.86
1433821--1433856	18	2.0	18	88	0	54	55	22	2	19	1.56
1435574--1435655	21	3.9	21	90	4	112	29	18	31	20	1.96
1435947--1436090	63	2.3	63	80	2	155	31	33	13	20	1.92
1435947--1436109	21	7.8	21	65	9	73	31	33	13	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1435985--1436106	63	1.9	63	83	3	156	28	34	15	21	1.94
1438336--1438373	20	1.9	20	94	0	67	15	13	26	44	1.83
1438367--1438433	20	3.3	20	85	0	98	22	16	20	40	1.91
1446473--1446526	23	2.5	21	77	16	56	59	1	1	37	1.19
1446455--1446533	21	3.6	21	70	21	54	54	6	1	37	1.34
1447197--1447302	39	2.7	39	76	13	110	37	16	1	44	1.58
1447516--1447574	21	2.6	22	82	15	75	40	6	1	50	1.39
1447520--1447588	25	2.6	27	76	21	74	40	5	1	52	1.34
1447534--1447590	27	2.2	24	85	11	78	40	5	0	54	1.23
1454209--1454278	23	3.2	23	62	25	60	41	15	25	17	1.89
1454213--1454280	21	3.2	21	62	25	52	42	16	25	16	1.87
1454194--1454288	43	2.2	43	96	0	172	40	12	28	18	1.88
1455465--1455496	4	8.0	4	100	0	64	50	0	50	0	1.00
1455599--1455658	20	2.9	21	78	19	63	33	0	10	56	1.32
1457500--1457553	27	2.0	26	85	7	72	35	1	1	61	1.18
1458017--1458077	30	2.0	30	90	0	95	27	19	32	19	1.96
1463436--1463480	19	2.4	19	81	3	56	26	2	11	60	1.42
1466137--1466171	17	2.1	17	88	0	52	45	11	2	40	1.55
1466656--1466713	30	1.9	30	96	0	107	34	22	18	24	1.96
1467279--1467350	19	3.5	21	87	12	89	31	19	13	34	1.91
1467296--1467364	19	3.6	19	92	0	111	30	20	15	33	1.94
1469972--1470017	2	23.0	2	100	0	92	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)
1471219--1471379	64	2.5	63	82	5	180	33	18	20	27	1.96
1472274--1472366	30	3.1	30	90	1	134	22	20	24	32	1.98
1475229--1475286	30	1.9	30	93	6	100	34	18	18	27	1.95
1475976--1476048	30	2.5	31	82	13	91	39	9	19	31	1.84
1485247--1485299	22	2.4	22	84	6	63	24	24	11	39	1.88
1492784--1492840	3	18.7	3	82	10	71	38	0	0	61	0.96
1494511--1494681	30	5.8	30	78	8	170	17	14	8	59	1.59
1494520--1494699	59	3.0	60	78	8	190	18	13	8	58	1.61
1496003--1496055	14	4.0	13	76	11	54	49	5	5	39	1.50
1502023--1502064	3	14.0	3	100	0	84	33	0	0	66	0.92
1510301--1510371	3	23.0	3	85	2	88	40	0	0	59	0.98
1511831--1511875	22	2.0	22	86	8	63	42	0	0	57	0.98
1512499--1512560	16	4.0	15	77	10	63	25	4	1	67	1.19
1512499--1512533	14	2.4	14	90	9	52	25	2	0	71	1.00
1515804--1515834	15	2.1	15	93	0	53	29	19	6	45	1.75
1523143--1523218	6	12.5	6	74	12	66	81	1	17	0	0.76
1523140--1523221	22	3.6	21	78	18	85	80	1	18	0	0.78
1523146--1523217	30	2.4	29	84	11	92	80	1	18	0	0.78
1523140--1523220	24	3.4	24	81	13	89	81	1	17	0	0.76
1523147--1523212	16	4.3	15	77	12	64	81	1	16	0	0.76
1523143--1523219	15	5.2	15	73	11	70	81	1	16	0	0.75
1524203--1524493	93	3.1	93	97	0	555	27	16	21	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1524397--1524711	115	2.7	115	92	1	517	33	14	20	31	1.93
1525425--1525900	112	4.2	113	82	6	531	39	14	18	28	1.89
1525425--1525900	228	2.1	220	81	8	555	39	14	18	28	1.89
1525846--1525936	36	2.4	38	87	5	132	48	10	20	19	1.79
1525996--1526294	112	2.7	108	82	10	354	38	15	18	28	1.91
1526525--1526586	3	20.0	3	90	3	52	45	0	0	54	0.99
1527593--1527640	20	2.4	20	75	6	53	37	4	2	56	1.30
1528054--1528098	22	2.0	22	86	8	63	42	0	0	57	0.98
1530944--1531249	141	2.1	143	89	6	474	27	17	20	33	1.95
1549358--1549392	18	1.9	18	88	0	52	34	0	0	65	0.93

Tables:   1   2   3   4   5   6   7