genome.fa.s6093.2.7.7.80.10.50.1000.7.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: VEPZ01006093.1 Hibiscus syriacus cultivar Beakdansim tig00014444_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3172561

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  7  of  13  ( 1555 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)
1296919--1296964	8	5.8	8	82	7	58	58	13	17	10	1.62
1296919--1296957	15	2.5	15	87	4	51	58	12	17	10	1.61
1296919--1296964	23	2.0	24	86	4	67	58	13	17	10	1.62
1299432--1299461	15	2.0	15	93	0	51	63	0	20	16	1.31
1299535--1299592	19	3.1	19	78	16	50	75	0	8	15	1.02
1299549--1299601	19	2.7	19	78	18	56	79	0	9	11	0.94
1299579--1299650	24	3.0	24	80	17	62	73	1	4	20	1.07
1299537--1299670	18	7.1	18	72	20	73	75	0	5	17	1.05
1299594--1299676	29	2.7	31	78	12	84	73	1	2	22	1.02
1299609--1299686	38	2.1	38	88	7	115	69	0	2	28	1.02
1299728--1299795	24	2.9	23	78	6	73	67	4	4	23	1.27
1299748--1299807	22	2.8	21	76	14	61	68	5	5	21	1.29
1300121--1300189	34	2.0	34	94	0	120	31	14	11	42	1.82
1300786--1300830	24	1.9	23	90	4	72	24	24	28	22	1.99
1301747--1301867	42	2.9	42	86	2	127	31	23	21	23	1.98
1301789--1301852	22	3.0	22	67	15	62	29	26	18	25	1.98
1301798--1301870	20	3.5	20	70	7	65	30	24	23	21	1.99
1301853--1302304	145	3.1	144	87	2	647	30	15	26	27	1.96
1302281--1302394	42	2.7	41	77	9	115	30	21	20	28	1.98
1302554--1302622	32	2.1	33	86	2	95	37	11	8	42	1.72
1302817--1302982	66	2.5	66	83	3	194	37	11	18	31	1.87
1303070--1303325	102	2.5	103	85	2	329	42	9	17	30	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1303246--1303322	37	2.1	36	90	2	118	48	6	15	29	1.70
1304709--1304741	2	16.5	2	100	0	66	48	0	0	51	1.00
1308501--1308530	15	2.0	15	93	0	51	30	20	16	33	1.94
1311156--1311180	2	12.5	2	100	0	50	52	0	0	48	1.00
1311272--1311298	14	1.9	14	100	0	54	66	0	7	25	1.17
1311272--1311311	14	2.9	14	88	0	53	62	0	10	27	1.27
1311304--1311347	20	2.1	21	87	8	63	61	9	9	20	1.53
1311505--1311551	23	2.0	23	87	0	67	68	8	8	14	1.39
1315464--1315543	33	2.6	30	84	11	115	22	27	20	30	1.98
1315474--1315555	33	2.5	33	97	0	155	20	29	20	29	1.98
1315598--1315734	30	4.6	30	77	5	116	16	25	32	26	1.96
1319788--1319832	15	2.8	15	81	15	54	44	4	2	48	1.35
1336402--1336988	57	10.3	57	93	1	962	35	11	20	32	1.89
1341085--1341309	96	2.4	96	83	5	287	35	14	23	27	1.94
1341649--1341907	57	4.5	57	86	1	329	37	11	18	32	1.86
1346677--1346763	31	2.8	31	83	1	102	31	14	22	31	1.95
1357861--1357941	19	4.3	19	76	9	58	77	4	16	1	1.00
1357874--1357934	9	7.1	8	83	10	68	80	1	16	1	0.88
1357874--1357921	10	5.2	10	80	16	59	81	0	16	2	0.79
1357863--1357921	27	2.1	27	87	3	82	79	5	13	1	0.97
1357874--1357946	16	4.3	17	81	8	78	79	1	17	1	0.88
1358527--1358648	45	2.7	45	89	0	181	22	22	6	47	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1359234--1359935	57	12.5	57	87	4	980	33	17	11	37	1.86
1360278--1360497	96	2.3	95	86	3	291	26	23	15	34	1.95
1362273--1362398	44	2.8	45	86	2	173	24	20	7	47	1.75
1363584--1363726	65	2.2	65	82	6	166	27	18	23	30	1.97
1363695--1363746	19	2.7	19	90	0	77	25	17	25	32	1.97
1366621--1366669	18	2.7	18	100	0	98	55	6	16	22	1.63
1368705--1368804	37	2.7	37	90	0	164	31	18	15	36	1.91
1368828--1369086	76	3.4	76	81	5	265	32	15	9	42	1.80
1369142--1369287	53	2.8	52	75	6	168	30	10	17	40	1.84
1369381--1369511	42	3.1	41	78	6	129	25	17	23	33	1.96
1369531--1369662	65	2.0	65	91	5	214	27	21	16	34	1.95
1369633--1369781	60	2.5	60	91	0	226	28	28	16	26	1.97
1369783--1369924	41	3.4	43	84	8	179	21	20	23	33	1.97
1377726--1377754	15	1.9	15	100	0	58	6	34	24	34	1.82
1379818--1379874	23	2.7	19	72	27	53	66	0	1	31	1.02
1379808--1379873	25	2.6	26	77	18	68	69	0	1	28	0.97
1386719--1386777	29	2.0	29	96	0	109	23	15	13	47	1.81
1393765--1393852	29	3.0	29	98	0	167	51	13	11	23	1.74
1401363--1401391	14	2.0	15	93	6	51	48	0	3	48	1.18
1401546--1401585	14	2.9	14	76	0	53	40	0	0	60	0.97
1401546--1401610	28	2.2	28	84	13	78	36	1	3	58	1.23
1401724--1401767	22	2.0	22	90	0	70	50	0	2	47	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1401936--1401960	2	12.5	2	100	0	50	48	0	0	52	1.00
1409804--1409855	13	4.0	13	79	0	59	30	19	21	28	1.97
1410899--1410939	17	2.4	17	83	0	55	36	14	14	34	1.87
1413063--1413123	29	2.1	29	84	0	77	22	21	8	47	1.77
1413475--1413685	34	5.6	34	70	23	154	28	22	10	37	1.88
1413416--1413719	79	3.9	79	90	1	450	27	22	12	37	1.90
1413587--1413719	45	3.2	43	70	22	131	29	24	11	34	1.90
1413416--1413716	157	1.9	158	89	4	466	27	21	12	37	1.90
1418273--1418297	10	2.5	10	100	0	50	0	12	0	88	0.53
1419372--1419405	17	2.0	17	100	0	68	35	23	17	23	1.95
1420353--1420409	7	7.7	7	90	7	69	85	0	3	10	0.70
1420346--1420403	8	7.5	8	88	3	75	86	0	3	10	0.69
1425861--1425898	18	2.1	18	90	0	58	21	10	36	31	1.87
1433623--1433847	94	2.4	95	82	4	249	36	15	20	27	1.93
1434535--1435216	81	8.5	81	88	0	965	38	12	21	27	1.89
1434535--1435216	161	4.2	162	87	2	962	38	12	21	27	1.89
1435163--1435269	53	2.0	53	90	0	169	38	12	22	27	1.89
1436742--1438242	81	18.6	81	88	1	2080	38	12	20	27	1.89
1442092--1442288	95	2.1	94	80	3	216	37	15	20	26	1.92
1442651--1442798	56	2.7	55	83	5	174	34	11	19	34	1.88
1443082--1443852	81	9.6	81	90	0	1143	36	12	22	28	1.90
1443082--1443852	242	3.2	242	89	0	1159	36	12	22	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1445653--1445690	20	1.9	19	85	15	51	65	2	10	21	1.35
1445433--1445808	154	2.4	158	84	5	480	46	5	19	28	1.73
1447302--1447373	37	1.9	38	88	2	110	50	5	15	29	1.66
1454256--1454304	20	2.6	19	81	12	57	30	18	22	28	1.97
1460021--1460091	23	3.2	23	67	18	60	28	21	19	30	1.97
1459995--1460063	21	3.2	20	70	11	57	33	20	18	27	1.96
1459995--1460097	44	2.3	44	88	6	147	31	21	18	29	1.97
1460088--1460136	20	2.5	20	100	0	98	34	22	22	20	1.97
1462344--1462377	12	2.7	13	86	9	52	44	8	5	41	1.60
1462708--1462851	65	2.2	65	85	6	186	28	21	18	31	1.96
1468916--1469233	103	3.1	103	95	1	593	27	14	23	35	1.93
1474065--1474298	103	2.3	103	96	0	441	26	13	22	36	1.92
1474298--1474358	23	2.7	23	84	0	86	19	24	27	27	1.99
1480262--1480304	2	21.5	2	90	0	68	46	2	0	51	1.13
1480266--1480320	24	2.3	24	90	6	85	41	7	0	50	1.30
1484246--1484449	65	3.2	64	79	10	200	30	22	18	27	1.97
1487178--1487258	23	3.6	22	75	8	83	25	24	23	25	2.00
1491335--1491360	12	2.2	12	100	0	52	46	0	30	23	1.53
1491324--1491382	13	4.6	13	80	4	57	52	0	25	22	1.47
1497757--1497796	21	1.9	21	94	0	71	30	20	22	27	1.98
1499148--1499181	15	2.2	16	89	5	52	64	0	17	17	1.29
1499847--1499888	22	1.9	22	90	0	66	47	0	7	45	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1507152--1507209	29	2.0	30	89	3	91	50	12	8	29	1.69
1507539--1507579	19	2.2	19	86	0	55	56	4	0	39	1.21
1507554--1507591	19	2.0	19	89	0	58	55	2	0	42	1.14
1507533--1507590	11	5.5	11	76	12	59	55	3	0	41	1.17
1507576--1507636	19	2.9	21	78	14	72	37	19	1	40	1.62
1507894--1507959	18	3.7	18	77	0	69	25	21	25	27	1.99
1507879--1507978	36	2.8	36	78	1	94	25	19	26	30	1.98
1512978--1513032	24	2.3	24	70	14	60	7	14	10	67	1.41
1518338--1518422	42	2.0	41	86	2	116	27	1	20	51	1.54
1539146--1539194	21	2.4	21	83	10	57	26	8	8	57	1.56

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13