genome.fa.s7841.2.7.7.80.10.50.1000.6.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: VEPZ01007841.1 Hibiscus syriacus cultivar Beakdansim tig00110195_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1873963

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 806 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)
1472955--1473055	31	3.2	31	84	4	105	44	4	4	45	1.47
1477713--1477770	30	1.9	30	89	0	89	22	32	17	27	1.96
1479885--1480024	3	46.7	3	83	0	181	34	5	0	60	1.18
1479887--1480019	27	4.9	27	98	0	248	33	5	0	60	1.19
1492805--1492888	5	16.2	5	72	20	66	80	0	16	2	0.81
1492820--1492889	9	7.4	9	72	24	56	78	0	18	2	0.87
1492805--1492888	37	2.3	37	84	10	102	80	0	16	2	0.81
1492805--1492888	42	2.0	41	88	6	125	80	0	16	2	0.81
1494716--1495376	113	5.8	113	90	1	1040	38	13	19	28	1.90
1495629--1495772	3	48.7	3	79	5	159	34	4	0	60	1.18
1499991--1500030	21	1.9	21	89	0	62	65	0	12	22	1.26
1503852--1504045	63	3.2	63	63	27	159	30	16	8	44	1.77
1503856--1504087	116	2.0	115	99	0	455	29	15	9	45	1.78
1505895--1505927	17	1.9	17	88	11	50	60	0	9	30	1.27
1506131--1506163	17	1.9	17	88	11	50	60	0	9	30	1.27
1505806--1506278	236	2.0	237	99	0	939	42	9	19	28	1.82
1511943--1512060	50	2.4	50	80	5	139	44	37	9	8	1.67
1512066--1512091	2	13.0	2	100	0	52	50	0	0	50	1.00
1522477--1522602	59	2.1	60	86	1	173	37	19	12	30	1.89
1524464--1524488	7	3.6	7	100	0	50	40	16	0	44	1.47
1528610--1528666	2	29.0	2	96	3	107	49	0	0	50	1.00
1530880--1530913	17	1.9	18	94	5	61	73	5	0	20	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1532148--1532271	3	40.7	3	88	3	185	62	2	0	33	1.14
1532676--1532794	61	1.9	62	94	1	213	31	21	10	36	1.88
1532518--1532908	175	2.2	175	98	0	748	27	21	11	39	1.88
1532742--1533454	113	6.3	113	96	0	1246	29	19	14	36	1.92
1534045--1534503	52	8.7	52	91	3	740	38	22	14	24	1.92
1534045--1534503	105	4.4	104	93	2	740	38	22	14	24	1.92
1534045--1534503	157	2.9	156	93	1	767	38	22	14	24	1.92
1535617--1535668	1	52.0	1	84	0	68	1	5	0	92	0.45
1535615--1535707	9	10.4	9	78	11	93	1	13	0	84	0.67
1535618--1535704	28	3.1	28	82	6	115	1	12	0	86	0.64
1535628--1535703	4	19.8	4	83	15	54	1	13	0	85	0.66
1546249--1546281	12	2.5	14	90	9	52	60	9	6	24	1.49
1547064--1547099	19	1.9	19	94	5	65	72	5	0	22	1.05
1547910--1547971	31	2.0	31	84	9	81	0	12	11	75	1.04
1548341--1548470	3	42.7	3	89	3	197	63	2	0	33	1.13
1549822--1549852	15	2.1	15	100	0	62	29	19	6	45	1.75
1551912--1551951	14	2.9	14	85	7	55	25	2	32	40	1.69
1551930--1551969	21	2.0	20	95	5	71	17	0	37	45	1.49
1555396--1555467	31	2.3	31	87	0	99	43	9	18	29	1.81
1556759--1556910	60	2.5	60	79	1	180	26	24	7	41	1.81
1557034--1557173	60	2.3	59	82	12	155	37	4	23	34	1.75
1558899--1558932	7	4.9	7	92	0	59	70	2	0	26	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1560230--1560273	16	2.8	16	85	0	61	31	6	29	31	1.84
1562670--1562711	21	2.0	21	90	0	66	33	14	7	45	1.72
1562964--1563004	22	1.9	21	85	5	55	21	24	21	31	1.98
1564244--1564589	66	5.2	66	74	5	241	40	19	11	28	1.87
1564294--1564590	32	8.9	34	70	9	175	40	20	11	27	1.87
1564252--1564590	34	10.2	32	69	7	176	40	19	11	27	1.87
1564263--1564508	134	1.8	135	86	3	361	39	18	13	28	1.89
1565502--1565791	146	2.0	150	89	5	457	45	3	5	45	1.44
1565718--1565853	66	2.1	63	80	9	150	47	1	5	45	1.34
1569048--1569092	19	2.4	19	88	3	65	13	15	6	64	1.47
1572465--1573309	85	10.2	82	80	6	925	30	24	20	25	1.98
1572456--1573426	498	1.9	499	90	1	1545	30	23	20	25	1.98
1572456--1573318	249	3.5	249	97	0	1573	30	24	20	24	1.98
1573978--1574250	34	7.8	35	76	14	253	44	3	6	45	1.46
1576576--1576689	35	3.2	35	80	4	131	33	23	20	22	1.97
1576571--1576671	36	2.9	35	83	2	132	33	24	20	20	1.97
1580156--1580643	102	4.8	102	93	1	818	12	16	32	38	1.86
1580225--1580396	57	3.2	56	64	25	145	12	16	33	37	1.86
1580570--1580785	45	4.8	45	83	4	220	11	14	32	41	1.82
1581040--1581386	172	2.0	172	98	1	678	35	15	19	29	1.93
1581809--1581931	62	2.0	62	87	1	176	36	8	4	49	1.56
1583726--1583882	52	3.0	52	95	0	278	33	19	12	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1599420--1599467	23	2.1	23	88	0	69	35	12	18	33	1.89
1599804--1599863	23	2.6	23	83	0	75	38	16	5	40	1.71
1600281--1600352	23	3.2	23	90	2	110	38	20	5	34	1.76
1599596--1600700	490	2.3	490	94	0	1933	40	10	7	41	1.68
1603201--1604138	183	5.1	183	95	1	1641	33	16	14	35	1.90
1605348--1605434	6	14.5	6	83	0	84	22	33	6	36	1.81
1605352--1605451	12	8.3	12	87	0	119	21	33	8	38	1.82
1605352--1605451	6	16.7	6	81	0	83	21	33	8	38	1.82
1606945--1607708	199	3.8	200	94	0	1316	30	18	15	36	1.91
1607809--1607869	19	3.3	18	88	2	59	52	11	1	34	1.47
1607821--1607869	19	2.6	19	96	0	89	55	10	2	32	1.45
1609662--1609727	33	2.0	33	90	0	105	22	48	0	28	1.51
1609761--1609825	21	3.1	21	93	0	103	16	30	10	41	1.83
1611941--1611987	20	2.3	20	89	10	78	17	17	10	55	1.69
1611728--1612199	182	2.6	181	90	0	703	26	16	14	42	1.86
1611728--1612201	180	2.6	180	89	1	696	26	16	14	42	1.86
1614415--1614446	13	2.5	13	100	0	64	37	31	9	21	1.85
1617052--1617078	7	3.9	7	100	0	54	40	14	14	29	1.86
1632898--1632962	2	33.0	2	93	3	114	49	0	0	50	1.00
1633161--1633225	24	2.7	23	80	4	76	52	21	16	9	1.72
1634195--1634224	2	15.5	2	93	6	53	50	0	0	50	1.00
1637382--1637431	20	2.5	20	86	0	64	2	32	6	60	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1645205--1645233	2	14.5	2	100	0	58	48	0	0	51	1.00
1647708--1647734	14	1.9	14	100	0	54	51	0	3	44	1.19
1653924--1653963	15	2.7	15	100	0	80	32	7	32	27	1.85
1653921--1653983	15	4.2	15	85	0	72	30	12	33	23	1.92
1664141--1664175	18	1.9	18	88	0	52	54	0	17	28	1.43
1666862--1667229	132	2.8	132	83	3	440	41	16	10	31	1.83
1670741--1670853	22	5.5	22	68	21	93	49	0	1	47	1.17
1670763--1670828	19	3.3	19	73	19	71	54	0	3	42	1.15
1670740--1670849	41	2.7	41	95	4	197	50	0	1	47	1.18
1676084--1676144	2	30.5	2	100	0	122	50	0	0	49	1.00
1676338--1676389	20	2.6	20	100	0	104	9	21	23	46	1.80
1676381--1676452	22	3.5	22	66	21	66	19	15	23	41	1.89
1676529--1676561	6	5.5	6	100	0	66	33	51	15	0	1.43
1677101--1677145	6	7.7	6	97	2	83	0	17	51	31	1.46
1678025--1678105	13	6.3	13	79	18	57	16	44	23	16	1.86
1678021--1678084	18	3.6	18	97	0	119	17	50	21	10	1.77
1678066--1678105	8	5.5	8	77	22	52	15	37	25	22	1.93
1678066--1678106	15	2.9	14	92	7	66	14	36	26	21	1.93
1679418--1679453	18	2.0	18	88	0	54	52	0	16	30	1.44
1680550--1680651	24	4.2	24	82	9	111	21	15	18	44	1.87
1682833--1682862	13	2.3	13	100	0	60	16	46	23	13	1.82
1682811--1682856	18	2.6	18	100	0	92	17	52	21	8	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1684171--1684206	18	2.0	18	88	0	54	52	0	16	30	1.44
1685304--1685405	24	4.2	24	82	9	111	21	15	18	44	1.87
1686219--1686291	22	3.4	22	74	14	89	38	26	20	15	1.92
1686241--1686396	20	7.6	20	71	13	129	39	24	21	14	1.91
1686303--1686417	21	5.6	21	71	12	103	36	26	19	18	1.94
1686213--1686421	41	5.0	41	94	1	305	38	23	20	16	1.92
1687015--1687061	23	2.0	23	83	0	58	40	21	10	27	1.86
1687849--1687885	15	2.5	15	90	0	65	21	5	35	37	1.77
1693600--1694890	218	6.0	218	98	1	2533	40	20	6	33	1.77
1699088--1699113	2	13.0	2	100	0	52	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7