genome.fa.s8180.2.7.7.80.10.50.1000.8.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: VEPZ01008180.1 Hibiscus syriacus cultivar Beakdansim tig00110777_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2670214

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

This is table  8  of  14  ( 1585 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)
1374972--1375016	19	2.3	20	85	14	60	33	2	0	64	1.06
1378302--1378370	21	3.2	21	64	31	56	43	11	15	28	1.82
1378294--1378379	43	2.0	43	100	0	172	41	11	16	30	1.83
1381129--1381222	29	3.2	29	72	11	91	34	25	5	35	1.79
1387638--1387696	30	2.0	29	96	3	109	40	13	15	30	1.86
1388628--1388668	21	1.9	22	85	14	59	29	0	7	63	1.21
1388661--1388701	21	2.0	21	95	0	73	41	7	4	46	1.53
1388675--1388735	29	2.1	30	87	3	88	40	6	11	40	1.67
1391459--1391525	2	33.0	2	90	3	98	47	1	0	50	1.10
1394094--1394133	21	1.9	21	90	10	64	52	0	10	37	1.35
1397939--1397992	19	2.8	19	94	0	90	27	37	25	9	1.87
1408111--1408263	52	2.9	52	81	5	164	35	14	20	28	1.92
1408620--1408676	22	2.6	22	91	0	87	33	17	12	36	1.87
1409405--1409518	36	3.1	36	75	2	138	33	14	10	41	1.81
1409398--1409546	73	2.0	73	92	0	244	33	15	12	38	1.84
1409405--1409531	36	3.5	36	75	2	137	31	14	11	41	1.83
1409405--1409555	36	4.1	36	73	7	117	33	15	11	39	1.84
1409570--1410149	123	4.7	123	90	0	917	39	15	20	24	1.91
1411588--1411655	25	2.9	24	70	23	63	30	5	2	60	1.35
1411675--1411726	28	1.9	26	85	14	70	40	0	1	57	1.10
1412109--1412135	2	13.5	2	100	0	54	48	0	0	51	1.00
1418386--1418486	33	3.1	33	98	0	193	30	7	14	46	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1418406--1418470	19	3.7	19	70	19	68	30	6	15	47	1.70
1418401--1418484	14	5.3	14	68	24	51	28	7	15	48	1.71
1418951--1419026	26	3.0	25	78	12	77	43	1	5	50	1.33
1418953--1419032	20	3.8	20	76	14	63	41	1	5	52	1.31
1418953--1419032	23	3.6	22	76	6	72	41	1	5	52	1.31
1419024--1419068	12	3.8	12	82	5	56	53	0	2	44	1.13
1429172--1429845	182	3.7	182	90	0	992	40	14	15	28	1.87
1431778--1431832	24	2.5	22	81	18	62	49	0	3	47	1.19
1432497--1432532	18	2.0	18	94	0	63	55	0	36	8	1.30
1434086--1434130	19	2.4	19	96	0	81	33	2	8	55	1.43
1434446--1434514	15	4.6	15	98	0	129	39	26	13	21	1.90
1434531--1435494	200	4.8	200	86	2	1290	37	13	16	32	1.88
1435818--1435846	15	1.9	15	100	0	58	20	44	6	27	1.77
1437008--1437060	6	8.8	6	85	0	52	39	1	32	26	1.67
1447935--1448961	200	5.1	200	89	2	1361	38	14	16	30	1.89
1450589--1450638	20	2.5	20	100	0	100	30	0	24	46	1.53
1450631--1450678	19	2.5	19	93	0	78	29	6	10	54	1.59
1453306--1453829	199	2.6	198	84	4	716	39	14	16	30	1.88
1453872--1453928	23	2.4	23	73	2	60	36	15	10	36	1.82
1453965--1454009	23	2.0	23	90	0	72	40	20	6	33	1.78
1453881--1454043	87	1.9	87	94	0	290	33	14	11	41	1.80
1459655--1459697	23	1.9	23	90	4	70	53	2	2	41	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1459703--1459772	29	2.4	29	85	4	79	44	21	7	27	1.78
1459782--1459820	18	2.2	18	95	0	69	10	20	48	20	1.78
1466940--1467075	29	5.0	28	71	15	88	47	14	0	36	1.50
1466925--1467001	29	2.6	29	81	2	91	51	12	0	35	1.40
1467013--1467116	29	3.6	29	84	5	122	44	22	4	28	1.73
1467031--1467117	29	3.0	30	91	3	133	40	24	4	31	1.75
1468572--1468610	17	2.4	17	95	4	71	43	0	5	51	1.24
1471677--1471761	28	3.0	27	87	3	116	31	17	21	29	1.96
1471882--1471994	60	1.9	60	87	7	167	33	15	19	30	1.93
1476896--1476941	16	3.0	16	81	12	53	0	15	8	76	1.02
1477404--1477528	3	41.0	3	85	3	124	56	2	0	40	1.12
1477740--1477854	60	1.9	59	94	1	203	40	20	20	19	1.92
1477800--1478357	76	7.3	76	98	0	1071	35	21	21	21	1.96
1479032--1479086	22	2.5	22	93	0	101	40	14	10	34	1.81
1483937--1483980	15	2.8	16	82	6	54	0	9	11	79	0.93
1490756--1490818	22	3.0	19	76	19	63	49	0	1	49	1.10
1492654--1492684	12	2.6	12	100	0	62	22	6	45	25	1.76
1494324--1494439	60	1.9	59	81	11	139	41	4	6	47	1.50
1495046--1495120	32	2.3	32	93	0	123	41	8	4	46	1.52
1499388--1499451	32	2.0	32	100	0	128	37	28	6	28	1.81
1501649--1501709	24	2.5	24	86	5	79	72	0	3	24	1.00
1502426--1502545	32	3.4	32	67	28	91	61	13	1	23	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1502381--1502604	76	2.9	76	93	1	378	58	13	1	26	1.44
1502457--1502589	44	3.3	44	66	28	130	57	15	0	26	1.43
1504405--1504463	24	2.5	24	88	0	82	16	20	13	49	1.80
1504560--1504609	5	9.8	5	93	4	73	66	0	14	20	1.26
1504559--1504603	21	2.1	21	91	0	72	68	0	13	17	1.20
1507426--1507467	22	2.0	22	85	4	59	73	0	2	23	0.94
1507546--1507579	17	2.0	17	88	0	50	73	2	0	23	0.97
1508244--1508354	19	5.8	19	72	16	70	59	13	0	26	1.40
1508176--1508439	76	3.5	76	95	1	458	59	12	0	26	1.38
1517142--1517194	21	2.5	21	84	0	70	64	0	1	33	1.05
1517174--1517221	24	2.0	25	87	4	71	60	2	6	31	1.33
1517482--1517533	21	2.5	20	81	6	59	42	19	7	30	1.79
1517748--1517800	27	2.0	27	100	0	106	18	3	16	60	1.51
1519136--1519249	20	5.7	19	74	11	68	32	24	9	33	1.88
1519220--1519273	18	2.8	20	72	13	60	37	18	9	35	1.83
1524260--1524311	21	2.5	21	84	6	70	19	19	36	25	1.95
1524729--1524769	21	2.0	21	90	0	64	34	36	14	14	1.87
1526172--1526209	16	2.5	15	87	8	51	78	2	0	18	0.86
1526282--1526329	22	2.2	22	88	0	69	25	18	39	16	1.91
1529288--1529323	2	18.0	2	100	0	72	50	0	0	50	1.00
1533231--1533291	29	2.1	29	90	0	95	29	18	16	36	1.92
1533388--1533414	12	2.2	12	100	0	54	48	18	7	25	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1535120--1535149	14	2.1	14	100	0	60	6	23	20	50	1.71
1543748--1544063	150	2.1	150	94	1	555	26	17	21	34	1.95
1550668--1550983	150	2.1	149	93	0	533	26	17	21	34	1.95
1555483--1555541	30	2.0	29	83	9	75	28	30	23	16	1.97
1561382--1561524	58	2.5	56	85	4	205	46	4	6	41	1.50
1562838--1562889	22	2.3	23	76	3	61	71	3	3	21	1.18
1563083--1563352	40	6.8	40	87	2	129	36	25	18	19	1.94
1563122--1563352	20	11.6	20	85	3	277	34	25	19	21	1.96
1563083--1563352	60	4.5	59	82	2	263	36	25	18	19	1.94
1564251--1564275	12	2.1	12	100	0	50	72	0	28	0	0.86
1566611--1566708	19	5.4	19	84	13	143	14	22	17	45	1.84
1566592--1566708	53	2.2	53	98	1	227	13	23	17	44	1.85
1566785--1566839	14	3.6	14	73	21	56	45	20	23	10	1.82
1566767--1566858	33	2.8	33	98	1	175	44	18	23	13	1.85
1566799--1566915	52	2.2	52	95	0	207	44	17	21	16	1.87
1566922--1567019	19	5.5	18	84	12	132	15	23	17	43	1.87
1566905--1567019	51	2.2	52	92	4	189	14	25	17	42	1.87
1567126--1567161	13	2.6	14	86	4	56	47	22	0	30	1.52
1569129--1569185	14	3.7	14	77	20	60	45	22	21	10	1.82
1569110--1569202	33	2.8	33	93	0	159	48	21	19	10	1.79
1569073--1569207	19	7.6	19	75	16	119	46	23	18	11	1.81
1569073--1569207	52	2.6	51	73	13	130	46	23	18	11	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1569203--1569331	19	7.3	19	75	17	125	8	17	28	45	1.77
1569203--1569294	33	2.8	33	93	3	150	7	18	28	45	1.76
1569375--1569948	93	6.1	93	94	4	1022	46	18	12	21	1.83
1569578--1569608	11	2.8	11	100	0	62	74	16	9	0	1.07
1571653--1571742	14	5.7	14	74	23	81	42	23	25	8	1.83
1571645--1571759	33	3.5	33	95	0	212	45	20	24	9	1.81
1571652--1571764	19	6.8	18	72	23	88	43	22	24	9	1.83
1571776--1571829	14	3.5	14	73	22	54	7	25	24	42	1.80
1571760--1571840	33	2.5	33	93	0	135	7	23	22	46	1.76
1571816--1571893	20	3.8	21	79	14	74	11	26	16	44	1.82

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