genome.fa.s7956.2.7.7.80.10.50.1000.7.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: VEPZ01007956.1 Hibiscus syriacus cultivar Beakdansim tig00110383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3102597

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

This is table  7  of  14  ( 1676 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)
1334697--1334761	23	2.8	23	80	0	76	32	24	23	20	1.98
1336428--1336496	23	3.0	23	76	4	77	30	24	23	21	1.99
1337663--1337700	20	1.9	20	94	0	67	26	21	18	34	1.96
1337708--1337869	64	2.5	63	80	5	182	24	23	19	32	1.97
1345246--1345332	42	2.1	42	100	0	174	40	11	14	33	1.83
1350401--1350456	23	2.6	21	78	10	67	30	8	32	28	1.88
1350403--1350452	23	2.2	23	88	0	73	34	8	34	24	1.84
1354602--1354651	19	2.6	19	93	0	82	28	24	22	26	1.99
1357335--1357446	31	3.6	31	97	0	206	19	18	25	36	1.94
1361401--1361512	31	3.6	31	93	2	172	19	17	24	38	1.93
1362671--1362714	23	1.9	23	85	0	61	15	27	25	31	1.96
1364316--1364401	31	2.8	31	89	1	129	25	20	19	33	1.97
1366124--1366149	9	2.9	9	100	0	52	11	23	0	65	1.25
1372254--1372293	20	2.0	20	90	0	62	47	7	20	25	1.75
1372412--1372450	17	2.2	18	86	4	53	46	2	5	46	1.38
1372443--1372512	37	1.9	37	88	2	106	47	4	0	48	1.21
1379538--1379568	2	15.5	2	100	0	62	51	0	0	48	1.00
1384686--1384726	16	2.5	17	80	15	50	39	0	0	60	0.96
1385458--1385523	20	3.3	20	83	8	73	46	25	22	4	1.70
1385629--1385701	31	2.4	31	97	0	137	43	23	10	21	1.84
1385788--1385843	24	2.3	24	93	0	103	37	14	17	30	1.90
1397049--1397075	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1402847--1402875	14	2.1	14	93	6	51	31	0	0	68	0.89
1403270--1403346	38	2.0	38	100	0	154	50	5	23	20	1.68
1403282--1403341	17	3.3	17	67	24	50	51	3	25	20	1.62
1414241--1414284	18	2.4	18	82	14	54	40	0	6	52	1.28
1415375--1415402	14	2.0	14	100	0	56	64	7	7	21	1.43
1421909--1421953	20	2.2	20	96	0	81	42	0	22	35	1.54
1422128--1422178	20	2.5	20	100	0	102	37	21	15	25	1.93
1423020--1423055	18	2.0	18	88	0	54	22	19	30	27	1.98
1423588--1423629	2	21.0	2	85	0	57	50	0	7	42	1.30
1423590--1423628	8	4.9	8	96	0	69	51	0	7	41	1.31
1432579--1432643	23	2.8	22	77	9	58	38	3	4	53	1.37
1432608--1432660	15	3.6	15	78	9	56	43	1	1	52	1.23
1433690--1433724	2	17.5	2	100	0	70	51	0	0	48	1.00
1438104--1438211	31	3.5	31	87	0	153	23	18	17	40	1.91
1438834--1438874	22	1.9	22	85	5	57	24	21	26	26	2.00
1440219--1440270	22	2.3	22	90	3	77	28	19	19	32	1.96
1446397--1446457	17	3.6	17	82	8	72	73	8	16	1	1.14
1447889--1448167	39	7.2	39	84	4	314	29	17	15	37	1.91
1447884--1448167	78	3.7	78	81	4	349	30	17	15	36	1.91
1448389--1448502	42	2.7	42	82	9	144	27	21	21	28	1.99
1448684--1448724	21	2.0	21	90	4	66	26	21	9	41	1.84
1448721--1448784	30	2.1	30	83	11	78	28	21	7	42	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1449082--1449442	91	4.0	91	92	0	596	36	15	21	25	1.93
1449383--1449424	22	2.0	21	86	13	59	42	14	26	16	1.86
1449359--1449886	139	3.8	139	89	0	759	36	18	19	26	1.94
1452741--1452833	40	2.3	40	86	1	123	33	16	20	30	1.94
1458415--1458495	42	1.9	43	89	2	128	24	1	19	54	1.52
1461898--1461922	6	4.2	6	100	0	50	20	16	64	0	1.30
1461986--1462030	13	3.5	13	85	11	65	17	53	15	13	1.73
1462146--1462180	12	2.9	12	95	0	61	28	51	11	8	1.67
1463317--1463342	2	13.0	2	100	0	52	50	0	0	50	1.00
1463826--1463859	3	11.3	3	100	0	68	0	32	0	67	0.91
1466686--1466715	15	1.9	16	93	6	53	53	0	16	30	1.44
1469266--1469297	2	16.0	2	100	0	64	50	0	0	50	1.00
1474226--1474255	15	1.9	16	93	6	53	46	0	0	53	1.00
1474559--1474604	24	2.0	23	91	4	74	15	10	26	47	1.78
1475443--1475488	24	2.0	23	91	4	74	15	10	26	47	1.78
1475478--1475526	19	2.6	19	100	0	98	6	10	36	46	1.63
1477872--1478070	98	2.0	98	100	0	398	42	7	6	44	1.56
1479376--1479403	14	2.0	14	100	0	56	21	42	0	35	1.53
1481573--1481670	45	2.2	44	83	8	119	26	21	22	29	1.99
1481614--1481670	24	2.6	21	74	15	60	28	19	21	31	1.97
1488498--1488569	30	2.4	30	86	2	92	31	29	20	18	1.96
1488555--1488619	31	2.1	31	97	0	121	32	27	21	18	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1489554--1489611	20	2.6	22	81	10	66	27	22	20	29	1.99
1489599--1489739	64	2.2	63	82	7	169	25	24	17	32	1.97
1492789--1492859	35	2.0	35	86	5	99	50	2	1	45	1.25
1500093--1500299	21	10.0	21	72	13	160	21	19	23	35	1.96
1500118--1500296	42	4.3	42	91	1	290	21	18	23	36	1.95
1501022--1501198	40	4.3	42	95	1	308	35	23	19	21	1.96
1501047--1501217	21	8.3	21	74	10	156	33	25	19	21	1.97
1501232--1501284	21	2.5	21	93	0	88	18	22	30	28	1.98
1505946--1506005	2	30.0	2	96	0	111	48	0	0	51	1.00
1507113--1507143	16	1.9	16	93	0	53	61	0	3	35	1.12
1511142--1511183	19	2.3	19	87	4	59	28	16	30	23	1.96
1511153--1511188	19	1.9	18	94	5	63	22	13	33	30	1.93
1511154--1511195	18	2.3	19	87	4	59	28	14	28	28	1.95
1513586--1513704	16	7.4	16	92	0	193	19	26	13	40	1.89
1514184--1514254	14	5.1	14	77	3	63	22	0	28	49	1.50
1514178--1514254	41	1.9	40	86	2	109	24	0	25	49	1.51
1514329--1514365	15	2.4	15	95	4	65	40	2	5	51	1.39
1514732--1514795	14	4.6	14	78	3	58	23	0	26	50	1.50
1514106--1515275	546	2.1	541	92	3	1938	36	9	12	42	1.75
1516611--1516697	40	2.2	40	80	0	93	37	13	14	33	1.86
1517564--1517615	20	2.6	19	75	3	50	30	0	21	48	1.51
1518128--1518153	3	8.7	3	100	0	52	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1527444--1527546	51	2.0	51	98	0	197	32	13	18	35	1.90
1531885--1531930	21	2.2	20	88	11	74	36	21	10	30	1.88
1531891--1531933	21	2.0	21	100	0	86	37	25	9	27	1.87
1532134--1532168	12	2.9	12	100	0	70	34	25	22	17	1.96
1534368--1534406	19	2.0	20	90	5	62	30	30	7	30	1.85
1538941--1538979	19	2.0	20	85	5	53	28	30	10	30	1.90
1541480--1541538	29	2.0	29	93	0	100	27	13	10	49	1.74
1543914--1543956	21	2.0	21	91	8	70	20	25	23	30	1.99
1544671--1544826	31	5.0	30	83	9	188	39	22	17	21	1.93
1544684--1544826	62	2.3	62	95	0	250	39	22	17	20	1.92
1547631--1547667	16	2.2	18	85	9	51	18	18	0	62	1.34
1549536--1549578	21	2.0	21	95	0	77	23	25	23	27	2.00
1550307--1550479	31	5.6	31	94	0	301	39	22	19	19	1.93
1554454--1554512	29	2.0	29	93	0	100	25	10	13	50	1.72
1554463--1554520	29	2.0	29	83	3	73	31	8	15	44	1.76
1555991--1556122	59	2.2	60	79	10	139	30	16	18	34	1.93
1566414--1566472	28	2.1	28	93	0	100	45	3	15	35	1.63
1572448--1572545	21	4.8	20	76	10	74	37	21	19	21	1.94
1572513--1572741	20	11.4	20	81	5	230	36	24	17	20	1.94
1573434--1573480	24	2.0	24	87	8	69	25	14	21	38	1.92
1573655--1573679	12	2.1	12	100	0	50	72	0	28	0	0.86
1575975--1576197	53	4.2	52	94	1	367	45	17	21	15	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1575975--1576197	19	12.7	19	75	19	225	45	17	21	15	1.85
1575961--1576140	86	2.1	84	85	12	233	46	17	22	13	1.84
1575961--1576140	33	5.2	33	72	18	161	46	17	22	13	1.84
1576028--1576191	33	4.8	33	74	16	154	45	17	22	14	1.84
1576187--1576303	53	2.2	53	98	1	227	13	23	17	44	1.85
1576206--1576303	19	5.4	19	84	13	143	14	22	17	45	1.84
1576410--1576446	14	2.6	14	91	0	65	45	21	0	32	1.52
1578464--1578520	14	3.7	14	72	20	51	43	22	21	12	1.85
1578445--1578534	33	2.7	33	94	0	162	45	21	21	12	1.83
1578370--1578534	19	9.2	19	76	13	143	46	23	19	10	1.81

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