genome.fa.s4920.2.7.7.80.10.50.1000.7.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: VEPZ01004920.1 Hibiscus syriacus cultivar Beakdansim tig00011079_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1590857

Tables:   1   2   3   4   5   6   7   

This is table  7  of  7  ( 832 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)
1398553--1398843	33	8.5	33	77	17	242	46	17	22	13	1.82
1398581--1398843	52	5.0	52	98	0	508	46	16	23	13	1.83
1398868--1398912	19	2.4	19	100	0	90	15	20	17	46	1.84
1398877--1398920	19	2.3	19	92	0	70	18	20	15	45	1.85
1399019--1399055	14	2.6	14	91	0	65	45	21	0	32	1.52
1401038--1401094	14	3.7	14	77	20	60	45	22	21	10	1.82
1401019--1401111	33	2.8	33	95	0	168	47	21	20	10	1.80
1400982--1401116	19	7.6	19	76	16	128	45	23	19	11	1.82
1401112--1401203	33	2.8	33	91	3	141	7	16	28	47	1.73
1401112--1401240	19	7.3	19	73	17	116	8	15	28	47	1.75
1401288--1401756	93	5.1	93	99	0	922	46	19	12	21	1.83
1403462--1403551	14	5.7	14	72	23	72	43	23	24	8	1.82
1403454--1403568	33	3.5	33	97	0	221	46	20	23	9	1.80
1403476--1403573	19	5.7	19	71	22	90	43	22	23	10	1.83
1403585--1403641	14	3.7	14	75	20	60	10	24	22	42	1.85
1403582--1403646	33	2.0	33	100	0	130	10	24	21	43	1.84
1403626--1403701	21	3.7	21	80	3	100	13	25	15	46	1.82
1403625--1403702	41	1.9	41	94	0	138	14	25	15	44	1.84
1403781--1403851	33	2.2	33	92	0	115	47	18	22	11	1.80
1404234--1404427	20	9.6	20	81	5	212	19	19	25	35	1.95
1404234--1404427	60	3.2	60	81	3	237	19	19	25	35	1.95
1404414--1404496	21	4.0	21	73	6	78	25	16	24	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1404394--1404492	42	2.4	43	77	11	100	21	18	23	37	1.94
1407394--1407469	37	2.1	37	94	0	134	19	22	23	34	1.97
1407738--1407795	22	2.6	22	75	2	62	32	3	8	55	1.47
1410829--1410900	36	2.0	36	100	0	144	30	13	27	27	1.94
1414467--1414556	32	2.8	32	87	0	144	18	31	12	37	1.88
1418175--1418234	29	2.1	28	84	9	77	43	5	8	43	1.56
1426428--1426492	23	2.9	22	82	8	76	26	32	18	23	1.97
1426438--1426492	23	2.4	23	90	6	85	23	36	16	23	1.94
1430080--1430138	23	2.6	23	83	0	73	30	23	27	18	1.98
1435626--1435698	2	36.5	2	100	0	146	49	0	0	50	1.00
1436949--1436974	12	2.2	12	100	0	52	50	0	0	50	1.00
1437332--1437379	19	2.5	19	75	3	60	50	0	2	47	1.12
1438591--1438628	19	2.1	18	90	5	58	52	0	2	44	1.14
1441965--1442016	20	2.6	20	96	0	95	38	26	13	21	1.90
1442072--1442265	20	9.6	20	76	8	76	35	25	19	19	1.95
1442068--1442265	40	5.0	39	81	4	200	35	26	19	19	1.95
1442072--1442264	60	3.2	60	83	0	251	35	25	19	19	1.95
1442643--1442713	33	2.2	33	92	0	115	11	22	18	47	1.80
1442833--1442887	14	3.6	14	73	21	56	40	23	27	9	1.85
1442833--1442903	33	2.2	33	92	0	115	42	25	23	8	1.82
1442921--1442977	14	3.7	14	79	20	69	8	26	24	40	1.84
1442904--1442982	33	2.4	33	93	0	140	10	24	21	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1442899--1442978	19	4.8	18	74	22	68	10	25	22	42	1.84
1444674--1445052	92	4.1	93	98	1	744	22	12	18	46	1.83
1445094--1445221	19	7.3	19	74	18	116	45	28	17	8	1.78
1445130--1445221	33	2.8	32	90	6	141	45	28	18	7	1.76
1445217--1445351	19	7.6	19	75	16	128	11	19	23	45	1.82
1445239--1445295	14	3.7	14	77	20	60	10	21	22	45	1.82
1445222--1445314	33	2.8	33	95	0	168	10	20	21	47	1.80
1447153--1447225	38	1.9	38	97	0	137	28	1	16	53	1.51
1447148--1447212	19	3.4	19	64	8	51	24	1	15	58	1.46
1447207--1447242	14	2.6	14	95	0	63	33	0	22	44	1.53
1447349--1447449	19	5.6	19	82	15	142	43	17	23	14	1.87
1447456--1447784	33	9.5	33	77	16	219	14	20	18	46	1.84
1447478--1447784	19	17.4	19	78	17	342	14	20	18	46	1.83
1447478--1447717	71	3.4	70	83	11	344	15	20	17	47	1.83
1447478--1447756	52	5.2	52	89	7	329	14	21	17	46	1.83
1450088--1450112	12	2.1	12	100	0	50	0	28	0	72	0.86
1450286--1450332	24	2.0	24	87	8	69	38	21	14	25	1.92
1451005--1451340	20	17.0	20	86	6	445	21	18	27	32	1.97
1451288--1451320	15	2.2	15	100	0	66	24	21	30	24	1.99
1451561--1451607	13	3.5	13	77	13	51	55	2	2	40	1.24
1453024--1453055	11	2.8	11	95	4	55	43	0	0	56	0.99
1453051--1453117	3	22.7	3	93	3	118	64	0	1	34	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1453436--1454046	114	5.3	114	88	4	852	30	19	12	37	1.89
1454315--1455049	83	8.6	84	90	6	1099	36	23	13	26	1.92
1454276--1455048	343	2.3	343	99	0	1521	35	23	13	27	1.92
1456201--1456248	11	4.3	11	81	10	53	2	14	0	83	0.74
1456205--1456245	15	2.7	15	92	7	66	2	12	0	85	0.70
1456202--1456245	14	3.1	14	84	15	54	2	11	0	86	0.66
1466785--1466831	13	3.5	13	77	13	51	55	2	2	40	1.24
1468260--1468318	3	19.7	3	96	0	109	64	0	1	33	1.04
1469087--1469151	34	1.9	34	84	9	89	49	3	0	47	1.17
1474980--1475023	2	22.0	2	95	0	79	52	0	0	47	1.00
1478273--1478335	11	5.6	11	83	12	76	17	23	34	23	1.96
1478259--1478333	17	4.4	17	98	0	141	20	22	34	22	1.96
1480634--1480678	21	2.1	21	87	0	63	31	28	24	15	1.96
1482471--1482515	23	2.0	23	86	0	63	20	26	26	26	1.99
1485648--1485692	21	2.1	21	87	0	63	31	28	24	15	1.96
1487345--1487395	25	2.0	26	96	3	95	19	23	23	33	1.97
1487503--1487547	23	2.0	23	86	0	63	20	26	26	26	1.99
1500773--1500845	31	2.4	31	80	0	83	42	9	5	42	1.60
1515256--1515315	22	2.7	22	81	2	75	56	6	18	18	1.62
1518082--1518238	60	2.6	60	81	7	151	42	5	20	31	1.76
1523280--1523310	12	2.5	13	94	5	55	41	0	0	58	0.98
1523563--1523634	27	2.5	29	88	8	112	41	23	0	34	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1523818--1523889	32	2.4	31	90	6	112	16	38	23	20	1.92
1524196--1524572	185	2.0	185	91	2	614	46	9	2	42	1.49
1529492--1529529	15	2.7	14	92	8	60	34	0	0	65	0.93
1532854--1533035	60	3.0	60	75	7	165	31	23	4	40	1.76
1533087--1533204	60	2.0	59	88	1	173	47	5	15	32	1.67
1535786--1535848	27	2.3	26	79	12	65	30	6	3	60	1.37
1543522--1543559	12	3.2	12	92	0	58	34	15	23	26	1.95
1544537--1544579	14	3.0	14	76	6	50	39	13	6	39	1.72
1545454--1545486	12	2.8	12	90	4	50	57	0	33	9	1.30
1547285--1547363	22	3.7	22	91	5	126	29	24	26	20	1.99
1548731--1548943	103	2.1	103	95	0	381	25	14	23	37	1.92
1548973--1549027	23	2.4	23	87	0	74	23	27	21	27	1.99
1552373--1552417	22	2.0	22	91	4	72	28	33	26	11	1.91
1552851--1552894	20	2.2	20	95	0	79	52	0	27	20	1.47
1553712--1553924	103	2.1	103	94	0	372	26	13	23	36	1.92
1553941--1554008	23	3.0	23	84	0	82	22	26	25	26	2.00
1559991--1560033	17	2.6	17	85	3	52	74	0	4	20	1.00
1563520--1563550	15	2.1	15	100	0	62	35	25	19	19	1.95
1570928--1570971	21	2.2	20	83	4	52	31	4	0	63	1.14
1571332--1571373	3	14.0	3	84	0	57	59	0	40	0	0.97
1571643--1571691	21	2.3	21	96	0	89	18	28	16	36	1.92
1580157--1580223	30	2.2	30	83	5	80	31	14	11	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1580535--1580575	21	2.0	21	95	0	73	24	31	24	19	1.98
1580596--1580639	21	2.1	21	86	0	61	20	22	27	29	1.99

Tables:   1   2   3   4   5   6   7

The End!