genome.fa.s1448.2.7.7.80.10.50.1000.7.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: VEPZ01001448.1 Hibiscus syriacus cultivar Beakdansim tig00002799_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1849635

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 993 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)
1477984--1478283	10	29.4	10	68	18	111	39	4	3	52	1.40
1477986--1478052	2	33.5	2	79	11	66	41	2	1	53	1.25
1477789--1478045	133	1.9	131	83	10	331	36	8	3	51	1.49
1478179--1478516	2	171.0	2	66	18	131	45	3	4	46	1.39
1478421--1478518	11	8.9	11	72	11	67	47	2	5	44	1.36
1484803--1484854	6	9.0	6	83	8	54	17	3	0	78	0.89
1484925--1484962	19	2.0	19	89	0	58	34	0	2	63	1.09
1485918--1485954	18	2.1	19	90	10	60	8	21	0	70	1.13
1488730--1490065	106	12.6	106	93	0	2161	33	24	17	23	1.96
1490823--1490873	26	1.9	27	84	11	70	41	1	1	54	1.22
1492271--1492372	9	11.3	9	73	12	75	21	0	2	74	1.01
1492311--1492366	14	3.9	14	79	11	51	21	0	3	75	0.96
1492316--1492377	6	9.7	6	83	11	52	20	1	1	75	0.97
1492344--1492369	3	8.7	3	100	0	52	30	0	0	69	0.89
1492458--1492495	19	2.0	19	89	0	58	34	0	2	63	1.09
1499171--1499247	22	3.6	22	77	13	97	35	28	16	19	1.94
1499165--1499256	42	2.2	42	86	0	139	40	23	17	18	1.91
1499352--1499495	6	24.5	6	99	0	267	31	51	16	0	1.45
1499841--1500256	20	20.2	20	78	8	345	16	19	25	38	1.92
1499841--1500256	42	10.1	40	82	10	420	16	19	25	38	1.92
1499848--1500256	62	6.6	60	84	7	377	16	19	26	37	1.93
1500340--1500397	27	2.1	27	100	0	116	51	3	3	41	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1501564--1501661	44	2.2	45	85	1	135	26	40	16	16	1.89
1507687--1507713	2	13.5	2	100	0	54	51	0	0	48	1.00
1507873--1507915	16	2.8	16	85	3	61	46	0	6	46	1.30
1508971--1509008	9	4.2	9	86	0	58	26	0	0	73	0.83
1509323--1509382	23	2.6	24	84	5	79	55	0	0	45	0.99
1517174--1517203	2	15.0	2	100	0	60	50	0	0	50	1.00
1518379--1518408	15	2.1	15	93	6	53	40	0	3	56	1.16
1518402--1518663	36	7.1	36	87	7	332	44	4	4	46	1.44
1518402--1518663	73	3.6	73	86	7	361	44	4	4	46	1.44
1518618--1518694	28	2.8	26	73	9	66	41	6	9	42	1.62
1521383--1521444	23	2.7	22	79	18	72	20	4	0	74	1.00
1521452--1521506	24	2.3	23	84	3	65	14	9	1	74	1.14
1521385--1521515	29	4.8	27	75	19	101	19	6	0	72	1.12
1521383--1521535	81	1.9	79	80	14	177	20	5	0	73	1.08
1521555--1521608	17	3.4	17	71	23	62	11	12	3	72	1.25
1521525--1521608	30	2.8	30	87	5	107	14	11	3	70	1.30
1522320--1522345	2	13.0	2	100	0	52	50	0	0	50	1.00
1524650--1525032	193	2.0	189	95	4	689	27	15	21	34	1.94
1525903--1525954	21	2.5	21	81	3	61	38	19	25	17	1.93
1525943--1526056	20	5.7	20	83	6	113	31	25	18	24	1.97
1525940--1526056	61	1.9	61	85	0	162	33	24	17	23	1.97
1526608--1526644	19	1.9	19	94	0	65	56	24	16	2	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1526650--1526776	19	6.8	19	75	12	120	14	22	17	46	1.83
1526688--1526751	34	1.9	34	90	3	103	12	25	20	42	1.87
1526730--1526776	20	2.4	19	82	10	58	12	25	14	46	1.80
1528827--1528893	21	3.2	21	66	6	55	23	35	20	19	1.95
1528775--1528893	42	2.8	42	81	5	107	22	36	18	22	1.95
1530393--1530446	20	2.8	19	91	5	90	46	20	20	12	1.83
1530451--1530620	19	9.7	19	66	18	100	15	21	19	42	1.88
1530456--1530582	33	3.9	32	84	8	157	15	21	18	44	1.87
1530448--1530580	66	2.0	66	91	0	212	17	21	18	42	1.90
1532751--1532795	23	2.0	23	90	0	72	31	22	20	26	1.98
1533844--1533904	20	3.0	20	92	0	104	39	22	21	16	1.92
1533928--1533981	14	3.5	14	77	22	63	11	20	20	48	1.80
1533910--1533980	33	2.2	33	81	0	79	19	21	21	38	1.94
1533924--1534000	33	2.3	33	90	0	118	12	23	22	41	1.88
1534087--1534123	14	2.6	14	86	0	56	48	21	0	29	1.50
1535850--1535916	19	3.5	19	77	2	71	38	23	22	14	1.92
1535905--1535960	14	3.9	14	82	17	78	46	26	17	8	1.78
1535908--1535965	30	1.9	30	100	0	116	44	27	18	8	1.79
1535972--1536053	19	4.6	19	80	14	104	13	20	20	45	1.85
1536018--1536081	19	3.3	19	86	2	83	17	23	18	40	1.91
1536019--1536092	20	3.8	19	83	5	67	16	22	21	39	1.92
1536568--1536612	18	2.5	18	88	0	72	13	15	44	26	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1537483--1537690	106	2.0	101	95	4	371	26	21	21	30	1.98
1538315--1538358	22	2.0	22	90	0	70	18	15	43	22	1.88
1538541--1538634	20	4.7	20	77	7	82	24	19	24	31	1.98
1538521--1538635	20	5.7	20	75	9	81	24	18	23	33	1.96
1538624--1538737	21	5.5	21	83	3	142	19	25	15	39	1.91
1538563--1538697	41	3.3	41	81	6	123	20	22	20	37	1.94
1538624--1538720	41	2.3	42	89	1	142	18	25	15	40	1.90
1539122--1539151	2	15.0	2	100	0	60	50	0	0	50	1.00
1545213--1545242	9	3.4	9	90	9	53	10	0	0	90	0.47
1545213--1545242	8	3.6	8	95	4	51	10	0	0	90	0.47
1545266--1545313	24	1.9	27	84	16	68	25	2	0	72	0.95
1548902--1550065	105	11.4	105	88	7	1692	33	25	17	22	1.96
1554096--1554488	195	2.0	198	97	1	756	23	19	13	44	1.85
1556818--1556849	12	2.7	12	90	0	55	62	6	0	31	1.20
1560330--1560406	40	1.9	41	86	2	111	51	20	10	16	1.73
1562191--1562247	23	2.5	23	91	8	98	3	22	47	26	1.67
1562612--1562640	14	2.1	14	100	0	58	51	13	6	27	1.66
1564095--1564444	42	8.2	42	78	10	293	52	6	15	25	1.67
1564094--1564409	85	3.7	84	76	13	270	52	6	15	25	1.66
1564180--1564444	87	3.1	82	75	13	225	52	7	13	26	1.66
1564420--1564479	27	2.2	28	88	8	88	61	6	8	23	1.48
1564636--1564678	19	2.3	19	84	8	52	48	0	13	37	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1564636--1564678	20	2.2	19	83	4	50	48	0	13	37	1.43
1572295--1572340	15	2.9	16	80	6	58	17	6	2	73	1.14
1572366--1572392	14	1.9	14	100	0	54	33	0	0	66	0.92
1573578--1573678	35	2.9	36	86	4	125	43	20	0	34	1.59
1573586--1573678	36	2.7	35	86	3	116	45	20	1	33	1.58
1573685--1573759	35	2.1	35	82	4	89	34	0	21	44	1.53
1573719--1573821	48	2.1	48	100	0	206	35	1	22	39	1.65
1576222--1576264	18	2.4	18	92	0	68	20	6	0	72	1.08
1576312--1576384	31	2.3	30	77	13	76	26	6	0	67	1.16
1576559--1576723	35	4.7	35	76	8	149	39	16	20	23	1.92
1576559--1576723	70	2.4	70	82	8	185	39	16	20	23	1.92
1576723--1576830	54	2.0	54	96	0	198	33	9	25	31	1.88
1578295--1578337	20	2.2	20	87	8	61	65	0	6	27	1.18
1578357--1579058	351	2.0	351	100	0	1404	45	13	15	25	1.83
1579255--1579300	18	2.7	17	90	6	67	32	4	32	30	1.77
1579872--1579966	39	2.5	39	87	5	131	38	37	10	12	1.78
1580463--1580501	19	2.0	20	85	5	53	12	20	12	53	1.71
1581187--1581234	8	5.1	10	85	14	59	75	0	0	25	0.81
1581189--1581241	8	6.4	8	77	4	52	77	0	1	20	0.87
1581440--1581501	12	4.8	12	76	18	52	40	12	3	43	1.59
1581516--1581575	12	4.7	12	78	15	66	40	15	6	38	1.73
1581414--1581581	74	2.2	77	87	5	236	39	14	5	40	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1583575--1583607	12	2.8	12	100	0	66	24	15	27	33	1.95
1592268--1592301	16	2.1	17	88	5	52	76	5	11	5	1.14
1594715--1594782	4	17.2	4	74	19	63	70	1	1	26	1.04
1594715--1594782	19	3.7	18	81	12	77	70	1	1	26	1.04
1594892--1595121	36	6.1	37	73	10	173	40	13	5	40	1.68
1594972--1595108	12	10.8	12	70	20	82	40	15	6	37	1.73
1594972--1595096	28	4.8	27	71	19	113	40	15	6	38	1.73
1594933--1595121	76	2.5	75	90	4	290	40	14	5	38	1.70
1595100--1595163	24	2.7	24	78	4	67	43	17	1	37	1.58
1595570--1595595	2	13.0	2	100	0	52	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9