genome.fa.s8180.2.7.7.80.10.50.1000.7.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: VEPZ01008180.1 Hibiscus syriacus cultivar Beakdansim tig00110777_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2670214

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

This is table  7  of  14  ( 1585 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)
1271115--1271226	57	1.9	57	82	5	136	46	4	4	44	1.43
1271280--1271346	24	2.9	22	82	6	80	46	1	2	49	1.26
1271236--1271327	18	4.7	18	65	21	51	45	5	5	43	1.50
1271111--1271329	20	10.9	20	64	21	66	46	5	4	43	1.47
1271485--1271534	22	2.5	20	87	9	66	50	8	2	40	1.43
1271633--1271673	12	2.9	15	75	24	52	34	7	2	56	1.40
1271718--1271752	18	1.9	18	94	0	61	40	8	8	42	1.66
1271763--1271810	24	2.0	24	84	8	62	37	8	10	43	1.69
1271807--1271856	25	2.0	25	84	7	66	48	8	0	44	1.32
1271824--1271913	19	4.6	19	72	15	58	43	6	2	47	1.41
1271862--1271989	47	2.7	47	75	12	118	45	5	4	44	1.47
1272046--1272158	18	6.5	17	68	15	63	47	7	4	39	1.53
1272041--1272089	20	2.5	20	82	0	71	48	8	2	40	1.44
1272068--1272156	16	5.4	16	67	12	54	48	8	4	38	1.55
1272045--1272189	69	2.1	66	84	10	186	48	6	4	40	1.49
1272066--1272206	31	4.3	34	72	15	109	47	7	4	40	1.52
1274069--1274466	92	4.3	93	96	2	727	21	12	19	46	1.82
1274513--1274637	19	7.1	19	74	18	117	46	28	16	8	1.77
1274549--1274637	33	2.7	32	91	5	142	47	26	17	7	1.75
1274637--1274699	19	3.3	19	86	6	83	11	15	26	46	1.80
1276589--1276620	14	2.3	14	94	0	55	37	0	21	40	1.54
1276730--1276825	19	5.3	19	84	13	139	44	17	22	14	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1276730--1276844	52	2.2	53	95	3	207	42	18	25	13	1.87
1276851--1277060	52	4.0	52	98	1	404	13	23	17	45	1.84
1276851--1277002	33	4.5	33	73	17	150	13	23	17	45	1.84
1276873--1277088	19	12.4	19	77	19	240	13	21	18	46	1.83
1276892--1277102	33	6.2	33	78	13	241	13	22	18	45	1.83
1280255--1280484	20	11.5	20	85	0	246	20	18	23	37	1.94
1280471--1280568	21	4.8	20	75	15	83	22	17	22	37	1.94
1280471--1280569	42	2.4	43	78	8	107	22	17	23	37	1.94
1280710--1280761	22	2.4	22	90	6	79	46	1	5	46	1.38
1280709--1280797	11	8.3	11	70	14	51	44	5	5	43	1.51
1280756--1280806	20	2.6	20	90	3	77	47	7	3	41	1.51
1280983--1281072	22	4.2	22	76	11	87	46	7	5	40	1.56
1281112--1281159	18	2.7	18	80	6	53	47	4	4	43	1.41
1281163--1281216	20	2.8	20	78	13	67	37	9	1	51	1.45
1281154--1281213	27	2.2	27	87	0	93	36	6	3	53	1.44
1281163--1281232	13	5.4	13	70	17	56	38	8	1	51	1.41
1281270--1281304	18	1.9	18	94	0	61	40	8	8	42	1.66
1281272--1281343	33	2.2	32	90	4	110	43	9	6	40	1.65
1281314--1281363	24	2.1	24	85	7	66	38	8	10	44	1.68
1281210--1281401	86	2.3	84	80	13	207	43	8	5	42	1.58
1281371--1281604	2	112.5	2	65	22	65	46	6	2	44	1.44
1281358--1281732	18	20.3	19	66	22	97	45	6	4	43	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1281370--1281464	7	13.6	7	74	14	54	43	5	1	50	1.31
1281423--1281604	22	8.1	22	69	18	99	47	6	3	43	1.44
1281571--1281603	9	3.7	9	84	15	50	54	6	0	39	1.25
1281570--1281953	51	7.3	51	76	12	221	44	7	5	41	1.57
1281710--1281785	29	2.4	32	80	14	95	42	7	3	46	1.51
1281620--1281749	70	1.9	69	90	6	210	46	7	4	41	1.53
1281751--1281953	58	3.6	58	83	11	264	43	7	6	41	1.60
1282029--1282140	59	1.9	59	87	5	163	47	6	12	33	1.66
1282354--1282695	113	3.0	112	84	11	435	29	28	7	35	1.83
1282458--1282716	120	2.1	123	90	4	411	26	28	8	37	1.85
1283176--1283583	31	13.5	31	88	4	582	24	3	25	47	1.67
1283480--1283530	22	2.3	22	96	0	93	15	5	27	50	1.67
1283356--1283635	146	1.9	146	87	7	408	26	5	23	44	1.74
1286784--1286880	51	1.9	51	95	0	176	50	5	3	41	1.40
1286850--1286890	17	2.4	17	91	0	64	46	4	0	48	1.23
1288297--1288352	29	1.9	29	85	0	76	64	10	3	21	1.40
1295935--1295983	3	16.3	3	100	0	98	65	0	0	34	0.93
1296797--1296884	4	22.0	4	94	0	131	46	3	2	47	1.31
1296797--1296884	10	8.8	10	92	0	131	46	3	2	47	1.31
1296797--1296884	14	6.3	14	93	0	131	46	3	2	47	1.31
1300301--1300458	21	7.8	20	72	7	86	38	25	17	18	1.92
1300425--1300618	20	9.6	20	79	5	203	36	25	19	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1300425--1300618	60	3.2	60	82	0	235	36	25	19	19	1.95
1301002--1301072	33	2.2	33	92	0	115	11	22	18	47	1.80
1301152--1301261	21	5.8	20	74	17	108	45	18	24	11	1.83
1301145--1301261	41	3.1	38	81	14	145	46	17	25	11	1.81
1301212--1301268	14	3.7	14	75	20	60	43	22	24	8	1.81
1301204--1301284	33	2.5	33	95	0	144	46	22	22	8	1.78
1301283--1301399	33	3.5	33	95	0	198	11	23	19	45	1.83
1301280--1301377	19	5.7	19	67	22	72	12	22	21	43	1.85
1301302--1301391	14	5.7	14	69	23	63	10	24	22	43	1.83
1303097--1303565	93	5.1	93	99	0	922	21	12	19	46	1.83
1303618--1303746	19	7.3	19	75	17	125	45	28	17	8	1.77
1303654--1303746	33	2.8	32	91	4	150	46	27	18	7	1.76
1303618--1303746	52	2.5	52	74	14	140	45	28	17	8	1.77
1303742--1303860	19	6.8	18	74	19	110	9	20	22	47	1.78
1303764--1303820	14	3.7	14	77	20	60	8	21	22	47	1.78
1303747--1303839	33	2.8	33	91	0	159	9	20	21	48	1.78
1303811--1303876	19	3.4	19	87	6	89	10	16	27	45	1.80
1305798--1305833	14	2.6	14	95	0	63	33	0	22	44	1.53
1305940--1306018	19	4.4	19	80	16	105	45	17	22	13	1.84
1306043--1306290	33	7.5	32	78	12	164	13	22	18	45	1.84
1306065--1306276	19	12.4	19	75	19	186	13	21	18	46	1.83
1306043--1306248	52	4.0	52	91	6	350	13	23	17	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1306103--1306171	14	4.6	14	80	16	84	10	24	20	44	1.82
1306051--1306243	99	1.9	100	97	1	370	12	23	18	45	1.84
1306084--1306290	33	6.2	33	81	9	269	13	22	18	45	1.83
1308763--1308809	24	2.0	24	87	8	69	38	21	14	25	1.92
1309492--1309721	20	11.5	20	85	3	230	20	18	24	36	1.94
1309688--1309786	42	2.4	43	75	8	98	23	17	22	37	1.94
1309929--1309977	17	2.8	18	82	11	57	65	4	6	24	1.33
1310612--1310639	2	14.0	2	100	0	56	50	0	0	50	1.00
1328777--1328928	76	2.0	76	98	0	295	27	19	19	33	1.96
1329664--1329717	20	2.7	20	97	0	99	27	16	31	24	1.96
1330834--1330894	22	2.8	22	75	5	61	36	18	24	21	1.95
1331525--1331584	22	2.8	21	82	2	66	23	21	13	41	1.88
1334751--1334907	64	2.5	64	81	8	194	35	20	18	26	1.95
1335434--1335467	15	2.3	15	94	0	59	14	20	32	32	1.93
1339192--1339437	123	2.0	123	96	0	456	28	15	25	30	1.96
1341308--1341461	64	2.5	60	77	11	150	35	18	17	27	1.94
1346634--1346659	8	3.2	8	100	0	52	42	0	11	46	1.40
1352400--1352474	28	2.7	28	93	4	125	32	16	30	21	1.95
1353450--1353506	30	2.0	28	83	13	71	29	3	24	42	1.71
1355111--1355155	20	2.2	20	84	0	63	44	28	2	24	1.66
1355326--1355435	36	3.1	35	85	5	132	19	20	18	41	1.90
1356769--1356813	20	2.2	20	84	0	63	44	28	2	24	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1356985--1357094	36	3.1	36	92	2	168	17	22	19	40	1.91
1358428--1358472	20	2.2	20	84	0	63	44	28	2	24	1.66
1365638--1365802	76	2.2	75	85	3	224	29	2	12	55	1.49
1366526--1366578	21	2.5	20	82	11	61	28	5	0	66	1.15
1366532--1366579	18	2.6	17	81	12	51	27	6	0	66	1.15
1372421--1372453	16	2.0	17	94	5	59	60	12	21	6	1.53
1372421--1372454	17	2.0	17	94	0	59	61	11	20	5	1.50
1374079--1374243	76	2.2	75	84	3	215	29	2	11	56	1.48
1374887--1374928	21	2.0	22	90	4	68	26	2	4	66	1.23
1374965--1375026	22	2.9	22	77	18	60	33	1	0	64	1.03

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