genome.fa.s8229.2.7.7.80.10.50.1000.7.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: VEPZ01008229.1 Hibiscus syriacus cultivar Beakdansim tig00110865_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3634043

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

This is table  7  of  17  ( 2034 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)
1350445--1350540	33	2.8	33	90	3	138	41	20	23	13	1.88
1350478--1350545	19	3.8	19	72	21	74	45	19	22	13	1.84
1350549--1350669	19	6.8	19	71	19	100	15	21	19	43	1.87
1350549--1350669	52	2.3	53	88	1	181	15	21	19	43	1.87
1350610--1350684	33	2.3	33	85	0	114	16	22	18	42	1.88
1350672--1350783	20	5.6	20	87	2	152	19	20	23	36	1.95
1350674--1350805	40	3.3	41	82	5	119	20	19	24	35	1.96
1350792--1350844	20	2.7	20	86	13	74	13	16	24	45	1.83
1350894--1350947	20	2.7	19	75	8	63	16	18	31	33	1.93
1353334--1353375	15	2.8	15	82	7	50	59	14	2	23	1.47
1362889--1362939	6	8.3	6	79	12	59	78	1	15	3	0.99
1366065--1366109	9	5.3	9	87	10	60	40	0	0	60	0.97
1371729--1371770	17	2.5	17	88	0	66	45	7	23	23	1.78
1373259--1373406	76	2.0	75	87	4	217	29	2	9	58	1.44
1373380--1373442	19	3.2	19	75	4	54	31	0	12	55	1.37
1373444--1373487	19	2.2	20	84	8	54	31	0	13	54	1.39
1374078--1374120	17	2.4	18	80	3	52	16	6	0	76	0.99
1375806--1375839	15	2.3	15	89	0	50	47	26	23	2	1.66
1379561--1379609	21	2.3	21	86	6	73	10	2	4	83	0.85
1379564--1379608	11	4.4	10	83	13	56	8	2	4	84	0.84
1379553--1379611	30	1.9	30	89	6	91	10	3	5	81	0.96
1381551--1381613	19	3.2	19	75	4	54	31	0	12	55	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1381542--1381676	64	2.1	64	85	8	177	28	0	16	54	1.48
1382241--1382292	24	2.2	24	86	6	70	17	5	0	76	0.97
1383547--1383576	13	2.3	13	100	0	60	33	6	40	20	1.78
1389519--1389696	85	2.1	85	87	4	252	29	20	16	33	1.95
1389756--1389836	2	42.5	2	78	9	89	51	1	2	44	1.22
1391789--1391885	51	1.9	50	85	10	135	2	36	8	53	1.43
1399518--1399567	17	2.8	17	84	9	55	78	2	4	16	1.00
1402204--1402275	25	2.9	25	100	0	144	27	25	16	30	1.97
1403626--1403652	11	2.5	11	100	0	54	33	0	37	29	1.58
1404404--1404455	24	2.1	25	96	3	97	32	13	9	44	1.76
1405710--1405834	47	2.8	43	83	9	142	31	20	8	39	1.83
1412472--1412596	47	2.8	45	86	7	173	31	20	8	39	1.83
1416680--1416704	13	1.9	13	100	0	50	44	8	0	48	1.32
1418835--1418896	23	2.7	23	87	0	88	22	22	29	25	1.99
1422719--1422758	21	1.9	21	85	10	55	35	10	2	52	1.48
1430716--1430764	24	2.0	24	92	0	80	30	12	12	44	1.78
1436496--1436527	2	16.0	2	100	0	64	50	0	0	50	1.00
1438058--1438162	51	2.1	50	80	8	115	23	15	6	54	1.65
1453859--1454066	58	3.7	57	76	11	196	30	10	18	40	1.83
1454373--1454525	38	4.0	38	88	0	225	30	16	18	33	1.94
1454560--1454671	42	2.7	41	79	9	129	27	20	18	33	1.96
1454879--1455099	60	3.7	59	79	3	228	30	26	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1456396--1456457	9	6.8	9	72	9	54	16	1	3	79	0.95
1456391--1456456	11	5.8	11	73	5	51	15	1	3	80	0.91
1456391--1456451	17	3.5	17	78	10	70	14	1	3	80	0.92
1464421--1464467	23	2.0	23	84	8	60	38	10	8	42	1.70
1464831--1464873	22	1.9	22	85	4	59	60	2	4	32	1.30
1465786--1465841	27	2.1	27	93	0	94	23	28	23	25	1.99
1465929--1466005	21	3.7	21	85	1	102	28	23	25	22	1.99
1466026--1466124	42	2.4	42	84	6	121	22	18	37	22	1.94
1466026--1466124	21	4.8	20	79	13	101	22	18	37	22	1.94
1466204--1466263	29	2.0	31	90	6	97	45	16	1	36	1.58
1467528--1467574	20	2.4	19	82	10	51	29	14	4	51	1.62
1468719--1468758	21	1.9	22	90	10	66	12	10	40	37	1.77
1468871--1468944	20	3.7	20	83	3	94	28	22	28	20	1.99
1468862--1468944	41	2.0	41	86	4	114	26	25	27	20	1.99
1468966--1469063	21	4.7	21	79	10	85	22	16	35	25	1.94
1469142--1469201	29	2.0	31	93	6	106	43	16	6	33	1.74
1469742--1469778	20	1.9	19	89	10	58	18	21	10	48	1.78
1469234--1471670	659	3.7	656	93	1	4142	35	14	11	37	1.82
1471054--1471091	20	2.0	20	90	10	62	21	18	7	52	1.70
1471048--1471092	18	2.5	17	80	19	56	24	17	8	48	1.75
1477563--1477632	37	1.9	37	85	8	99	34	2	7	55	1.42
1482660--1482723	30	2.1	31	94	2	112	21	3	34	40	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1484006--1484054	24	2.0	24	96	0	89	34	12	12	40	1.80
1494266--1494592	172	1.9	172	81	5	396	36	15	14	33	1.88
1495289--1495397	32	3.4	32	77	7	105	30	24	11	33	1.90
1495668--1495736	34	2.0	34	97	0	129	34	28	20	15	1.94
1496762--1496796	15	2.3	15	100	0	70	31	25	8	34	1.86
1496742--1496825	15	5.6	15	75	10	57	30	20	11	36	1.89
1496827--1496866	20	2.0	20	90	0	62	55	12	7	25	1.63
1501267--1501336	33	2.2	33	86	2	97	30	18	14	37	1.90
1516510--1516680	61	2.8	61	91	3	263	25	10	11	52	1.69
1516509--1516742	61	3.8	60	83	10	226	25	11	11	52	1.69
1516510--1516742	123	1.9	124	80	12	275	25	11	11	52	1.70
1518026--1518223	102	1.9	102	82	2	245	34	24	13	27	1.93
1520344--1520457	51	2.3	50	87	1	156	38	2	7	50	1.45
1530081--1530182	15	6.8	15	73	10	66	23	3	7	64	1.37
1530066--1530164	30	3.3	30	81	7	110	22	3	10	64	1.38
1538639--1538674	12	3.0	12	88	11	56	22	0	2	75	0.94
1538729--1538778	19	2.5	20	84	12	68	22	8	0	70	1.13
1544833--1544876	19	2.3	19	92	0	70	22	20	22	34	1.97
1547130--1547189	29	2.0	30	90	6	95	35	6	13	45	1.70
1547272--1547368	21	4.6	21	87	7	126	21	38	17	22	1.93
1547393--1547445	21	2.6	20	82	5	70	20	18	24	35	1.95
1554265--1554299	11	3.0	12	91	4	54	22	0	5	71	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1554553--1554715	83	2.0	83	96	0	299	31	19	16	33	1.94
1559689--1559723	18	1.9	18	94	0	61	28	34	17	20	1.95
1560390--1560457	35	1.9	35	82	5	84	25	25	16	33	1.95
1570046--1570081	12	3.0	12	95	0	63	41	30	0	27	1.56
1570102--1570140	21	1.9	20	84	5	51	33	15	15	35	1.89
1572722--1572897	89	2.0	89	94	2	309	38	11	5	44	1.65
1596305--1596376	3	24.0	3	80	10	85	62	0	1	36	1.04
1600009--1600082	2	37.0	2	100	0	148	50	0	0	50	1.00
1609550--1609696	24	6.2	24	80	2	145	11	11	18	58	1.62
1609638--1609690	14	4.1	14	72	18	51	7	15	20	56	1.63
1614106--1614149	20	2.2	20	87	0	61	11	40	29	18	1.85
1618223--1618257	18	1.9	18	94	0	61	14	42	28	14	1.84
1622804--1622955	63	2.4	63	95	0	277	17	28	25	28	1.98
1623996--1624046	26	2.0	25	85	14	70	21	9	7	60	1.53
1627557--1627720	76	2.1	76	83	5	206	31	14	11	42	1.82
1627725--1628037	39	8.0	39	94	0	500	29	19	16	34	1.94
1627725--1628036	118	2.7	117	93	1	516	29	19	16	34	1.94
1632116--1632162	21	2.2	21	96	0	85	53	17	4	25	1.62
1635732--1635959	41	5.6	40	75	7	203	29	17	18	34	1.94
1635732--1635963	82	2.8	80	77	7	243	29	17	18	34	1.94
1649026--1649052	3	9.0	3	100	0	54	33	0	0	66	0.92
1651875--1651927	3	17.7	3	92	0	88	37	0	0	62	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1654949--1654980	16	2.0	16	100	0	64	37	12	6	43	1.68
1657114--1657143	16	1.9	16	93	6	53	0	10	3	86	0.67
1660382--1660506	28	4.5	28	95	0	223	26	22	20	31	1.98
1663201--1663240	19	2.1	19	85	0	53	37	0	0	62	0.95
1663902--1663953	25	2.1	24	82	3	59	75	1	3	19	1.06
1664214--1664256	18	2.5	17	85	7	61	67	2	4	25	1.22
1664668--1664736	34	2.0	34	91	0	111	33	13	11	42	1.80
1665285--1666050	105	7.3	105	89	2	1078	22	17	26	33	1.96
1666833--1667013	65	2.8	65	92	0	299	35	12	20	30	1.90
1666965--1667049	37	2.3	37	87	2	118	41	14	20	24	1.89

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