genome.fa.s2755.2.7.7.80.10.50.1000.2.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: VEPZ01002755.1 Hibiscus syriacus cultivar Beakdansim tig00005678_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  722678

Tables:   1   2   3   4   

This is table  2  of  4  ( 450 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)
216969--217016	24	2.0	24	100	0	96	25	20	16	37	1.93
223213--223245	15	2.1	17	88	11	52	30	12	12	45	1.78
223779--223836	24	2.4	24	76	0	71	31	22	24	22	1.99
226473--226556	43	2.0	43	83	4	107	35	15	21	27	1.94
227394--227466	33	2.2	33	100	0	146	34	26	2	36	1.71
231146--231184	19	2.1	19	95	0	69	53	10	0	35	1.35
238110--238184	14	5.9	14	77	15	56	46	2	4	46	1.35
238124--238276	21	6.7	22	68	19	66	47	2	5	44	1.39
238051--238209	35	4.4	36	80	5	169	44	5	6	44	1.53
238145--238404	14	18.8	14	67	21	97	48	3	5	43	1.41
238205--238387	24	7.4	24	73	19	144	48	2	5	43	1.40
238195--238372	10	18.8	9	65	19	51	49	2	5	42	1.39
238145--238378	98	2.4	97	87	5	353	48	2	5	43	1.41
238243--238308	18	3.9	17	73	15	66	45	0	7	46	1.31
238124--238352	24	10.2	20	70	19	70	48	2	5	44	1.39
238428--238469	15	2.9	15	89	3	68	30	2	0	66	1.04
238446--238535	13	6.8	13	70	13	60	37	1	1	60	1.12
238452--238544	33	2.8	32	90	4	141	39	1	2	56	1.18
238426--238540	7	16.9	7	70	16	73	37	1	1	59	1.18
239387--239438	18	2.8	19	80	8	72	42	1	7	48	1.43
239452--239524	13	5.9	13	79	10	91	49	4	6	39	1.49
239430--239528	24	4.1	23	73	20	78	47	4	7	41	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
246674--246717	20	2.2	20	88	8	63	27	20	13	38	1.90
255708--255739	16	2.1	16	94	5	57	71	6	9	12	1.29
269948--270009	22	2.9	22	87	2	90	70	4	0	24	1.06
276575--276620	21	2.1	21	88	11	67	73	8	6	10	1.23
276768--276820	27	2.0	26	88	3	79	71	0	1	26	0.96
280977--281432	77	5.9	77	83	3	497	34	9	18	37	1.83
280977--281432	154	3.0	153	83	2	549	34	9	18	37	1.83
280977--281423	231	1.9	231	85	4	614	34	9	18	37	1.84
281927--282147	103	2.2	103	87	2	311	37	10	9	41	1.74
284299--284336	20	1.9	20	88	0	58	10	26	36	26	1.89
290513--290696	101	1.8	100	84	3	253	34	11	16	36	1.86
292290--292331	18	2.3	19	80	12	52	54	2	33	9	1.46
301172--301226	3	18.7	3	96	3	103	67	0	0	32	0.91
301360--301451	41	2.2	43	92	5	152	17	25	18	39	1.92
301590--301674	35	2.4	35	82	5	100	22	24	20	32	1.97
301692--302121	89	4.8	89	92	0	689	25	19	18	36	1.94
301692--302121	179	2.4	178	91	0	698	25	19	18	36	1.94
301704--302124	43	9.5	43	63	13	145	25	19	18	36	1.95
302225--302294	20	3.5	20	92	0	113	32	20	22	24	1.97
310239--310520	146	1.9	146	99	0	555	19	24	16	39	1.92
310987--311013	3	9.0	3	100	0	54	33	0	0	66	0.92
312650--312689	21	2.0	19	85	9	53	20	0	10	70	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
315906--315948	20	2.2	20	87	8	61	20	0	9	69	1.15
319148--319675	139	3.8	138	81	3	630	28	12	13	46	1.79
320089--320540	224	2.0	224	98	0	870	30	19	13	36	1.90
324957--324997	2	20.5	2	100	0	82	48	0	0	51	1.00
325032--325094	3	21.7	3	84	12	87	34	0	0	65	0.93
325562--325603	12	3.6	12	83	6	50	64	30	4	0	1.14
328753--328809	2	29.0	2	96	3	107	49	0	0	50	1.00
345881--345905	11	2.3	11	100	0	50	76	0	0	24	0.80
346077--346288	102	2.1	97	93	4	361	53	11	7	28	1.63
347707--347801	41	2.3	41	80	10	104	28	15	24	31	1.96
347765--347904	42	3.4	40	74	20	137	37	21	18	22	1.94
347726--347925	41	4.9	41	71	18	132	35	19	18	26	1.95
347930--348041	41	2.7	41	84	0	134	37	11	20	30	1.88
349564--349826	41	6.4	40	81	6	285	28	20	17	32	1.96
349564--349820	83	3.1	81	81	7	293	28	21	17	33	1.96
350491--350516	13	2.0	13	100	0	52	30	7	15	46	1.74
352153--352205	26	2.1	26	82	3	63	30	15	7	47	1.73
353417--353448	2	16.5	2	93	6	57	53	0	0	46	1.00
353441--353503	21	3.0	21	83	4	65	65	1	4	28	1.22
353573--353615	12	3.5	11	84	15	50	81	2	0	16	0.79
353627--353737	51	2.2	51	98	0	213	55	4	10	28	1.54
354246--354329	36	2.3	36	85	2	105	30	16	10	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354271--354346	36	2.1	37	90	7	120	28	15	15	39	1.89
354813--355436	109	5.9	108	83	4	569	21	19	25	32	1.97
356015--356173	67	2.4	67	86	4	214	35	10	21	32	1.88
356132--356303	36	4.9	36	67	21	114	37	12	20	29	1.90
356216--356524	37	8.9	37	68	17	214	37	12	21	28	1.90
356115--356506	102	3.9	102	92	0	633	37	11	20	29	1.89
356048--356507	204	2.2	205	87	1	681	36	12	21	29	1.90
356420--356524	36	2.9	36	89	1	156	39	12	23	24	1.89
357379--357429	22	2.3	22	96	0	93	25	11	27	35	1.91
358045--358093	11	4.3	11	77	10	53	0	14	4	81	0.83
358045--358093	23	2.1	24	84	3	64	0	14	4	81	0.83
361421--361460	21	2.0	20	85	5	53	65	2	5	27	1.27
361441--361478	16	2.4	16	82	4	51	63	0	5	31	1.17
361551--361583	15	2.1	16	88	5	50	75	6	0	18	1.00
361586--361693	51	2.2	51	93	5	186	55	4	11	28	1.55
362209--362309	36	2.8	37	86	6	134	30	15	14	38	1.88
363562--363611	21	2.4	21	86	0	73	42	22	34	2	1.65
364036--364268	43	5.4	43	81	4	148	34	22	14	28	1.93
364112--364278	86	1.9	86	86	2	237	32	22	14	31	1.93
369100--369144	21	2.1	21	100	0	90	35	20	22	22	1.96
369262--369331	20	3.3	20	70	18	70	45	8	10	35	1.68
369255--369340	43	2.0	43	100	0	172	44	11	9	34	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
370101--370139	20	2.0	19	90	5	60	76	10	12	0	1.01
380531--380560	15	1.9	16	93	6	53	20	6	6	66	1.38
381759--381808	19	2.6	19	100	0	100	28	12	20	40	1.87
382875--382964	32	2.9	30	82	11	110	24	16	24	34	1.95
382875--382968	30	3.1	29	83	10	107	24	15	24	35	1.95
386304--386328	10	2.5	10	100	0	50	20	8	20	52	1.71
395274--395314	20	2.0	20	90	0	64	24	31	14	29	1.95
396467--396508	17	2.5	17	88	0	57	35	28	19	16	1.93
397287--397328	17	2.5	17	88	7	59	26	4	4	64	1.33
397353--397401	17	2.8	18	78	9	57	40	10	0	48	1.37
398694--398737	21	2.1	21	83	8	54	11	11	15	61	1.57
402699--402757	22	2.7	22	94	0	109	16	27	28	27	1.97
404236--404296	19	3.2	18	71	13	50	68	3	1	26	1.14
405644--405686	20	2.2	20	86	0	59	34	11	18	34	1.87
407760--407918	64	2.5	63	84	11	200	27	18	23	31	1.97
408543--408568	2	13.0	2	100	0	52	50	0	0	50	1.00
410172--410201	12	2.5	12	94	0	51	33	3	16	46	1.64
410514--410595	23	3.6	23	77	8	87	29	20	24	25	1.99
410518--410614	44	2.2	44	83	7	117	29	18	22	28	1.97
416383--416525	65	2.2	64	86	6	191	27	20	23	27	1.99
416496--416544	19	2.6	19	96	0	89	20	20	28	30	1.98
417353--417390	17	2.4	17	82	8	53	18	5	2	73	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
423149--423202	28	2.0	28	92	7	94	11	20	3	64	1.40
424354--424407	24	2.2	24	80	0	63	33	29	24	12	1.92
428981--429034	9	5.9	9	84	2	63	55	0	3	40	1.17
429487--429835	113	3.1	112	87	4	497	28	18	14	37	1.91
430983--431023	21	2.0	21	95	0	73	58	4	9	26	1.50
431371--431427	18	2.8	21	82	15	66	14	10	0	75	1.05
431371--431426	9	5.5	11	80	16	52	14	8	0	76	1.00
431390--431427	9	4.2	9	100	0	76	10	13	0	76	1.02
438437--438467	14	2.1	15	94	5	55	32	3	9	54	1.49
441843--441915	28	2.6	28	75	25	75	64	0	4	31	1.12

Tables:   1   2   3   4