genome.fa.s5129.2.7.7.80.10.50.1000.2.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: VEPZ01005129.1 Hibiscus syriacus cultivar Beakdansim tig00011547_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  545926

Tables:   1   2   3   

This is table  2  of  3  ( 290 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)
211230--211276	19	2.4	20	89	3	69	29	29	25	14	1.95
219940--220004	31	2.1	31	91	0	103	23	21	13	41	1.89
221586--221785	56	3.6	56	85	0	256	28	17	14	40	1.88
234828--234881	14	4.0	14	83	4	67	44	1	16	37	1.59
235362--235408	23	2.1	23	92	4	78	27	21	29	21	1.98
242510--242578	23	3.0	23	73	12	70	30	24	21	23	1.99
242594--242811	103	2.1	103	96	0	400	37	23	13	25	1.91
243343--243385	21	2.0	21	86	0	59	16	25	27	30	1.97
246108--246145	20	1.9	20	88	0	58	10	31	34	23	1.89
251363--251415	20	2.6	20	72	3	52	26	3	3	66	1.26
251440--251545	48	2.2	48	91	0	176	30	5	20	43	1.75
256885--256954	18	3.9	18	88	0	113	17	21	30	31	1.96
258395--258467	35	2.1	35	92	0	119	32	30	26	10	1.90
258543--258633	24	3.8	24	82	2	112	37	20	17	24	1.94
258550--258617	23	2.9	24	86	2	93	36	23	16	23	1.94
263290--263364	35	2.1	35	95	0	132	34	28	28	9	1.88
268080--268154	35	2.1	35	95	0	132	33	28	28	10	1.90
268233--268323	24	3.8	24	82	2	112	37	20	17	24	1.94
268240--268307	23	2.9	24	86	2	93	36	23	16	23	1.94
276308--276384	31	2.5	31	78	2	82	27	29	27	15	1.96
277254--277302	13	3.8	13	100	0	98	22	30	30	16	1.96
277292--277349	17	3.4	17	100	0	116	13	24	44	17	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
277254--277302	7	7.4	7	86	13	77	22	30	30	16	1.96
277345--277413	9	7.1	10	76	12	72	27	30	23	18	1.98
277343--277413	19	3.7	20	88	5	101	26	29	25	18	1.98
283664--283740	31	2.5	31	80	2	91	27	31	27	14	1.95
283617--283740	63	2.0	63	82	6	153	25	29	27	17	1.98
284611--284646	13	2.8	13	100	0	72	22	30	30	16	1.96
284636--284710	17	4.4	17	98	0	141	14	24	44	17	1.86
284611--284646	7	5.4	7	87	12	58	22	30	30	16	1.96
284706--284755	9	5.1	10	74	13	50	28	30	22	20	1.98
284704--284755	20	2.7	19	87	3	68	26	28	25	19	1.98
286079--286125	24	2.0	24	95	0	85	44	12	12	29	1.80
286590--286656	30	2.2	30	82	10	75	35	20	8	34	1.84
290027--290103	36	2.1	36	100	0	154	24	15	12	46	1.81
300590--300625	17	2.1	17	94	0	63	33	8	16	41	1.78
301522--301610	42	2.1	43	95	2	162	42	24	7	24	1.81
304935--304981	19	2.4	19	92	3	76	29	17	10	42	1.82
308272--308318	19	2.5	19	92	0	76	53	10	4	31	1.55
311580--311623	23	2.0	22	90	4	70	15	36	27	20	1.93
315028--315086	21	2.9	19	83	13	82	16	42	25	15	1.88
315028--315086	20	2.9	20	85	11	84	16	42	25	15	1.88
324089--324160	37	1.9	37	97	0	135	41	26	20	11	1.86
325633--325687	24	2.3	24	93	0	92	49	3	0	47	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
330551--330591	2	21.0	2	95	5	75	48	0	0	51	1.00
331016--331040	13	1.9	13	100	0	50	24	0	4	72	1.02
341101--341237	21	6.8	21	74	13	135	43	10	14	30	1.80
341183--341237	20	2.7	21	91	2	85	45	9	12	32	1.74
342669--342781	35	3.2	35	83	2	145	40	20	0	38	1.59
349719--349760	19	2.2	19	83	8	50	21	19	11	47	1.81
350620--350686	3	22.7	3	88	8	66	40	0	0	59	0.97
350996--351037	20	2.1	20	100	0	84	14	26	45	14	1.83
352575--352621	19	2.6	18	83	12	60	25	2	0	72	0.96
352595--352626	12	2.6	13	85	14	50	25	0	0	75	0.81
356530--356674	71	2.0	71	100	0	290	33	6	12	46	1.68
356902--356939	19	2.1	18	85	14	51	63	26	0	10	1.27
357879--357917	17	2.4	16	82	4	51	74	0	20	5	1.01
362429--362508	40	2.0	40	95	0	142	33	15	20	31	1.93
362911--362965	22	2.5	22	87	0	83	34	14	14	36	1.87
363403--364268	113	7.6	113	91	2	1423	38	13	18	29	1.89
363365--364268	340	2.7	339	94	1	1576	38	14	17	29	1.89
363403--364268	453	1.9	452	92	2	1452	38	13	18	29	1.89
364486--364556	29	2.4	29	88	4	99	38	0	0	61	0.96
364488--364556	3	23.7	3	87	11	90	36	0	0	63	0.94
372716--372750	11	3.1	11	87	4	52	42	2	0	54	1.15
383388--383480	30	3.0	30	82	11	109	31	22	19	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
383386--383481	32	3.1	31	85	8	124	31	23	18	26	1.98
384331--384429	22	4.6	21	80	12	96	27	22	15	35	1.94
384331--384402	22	3.3	22	88	11	105	25	23	15	36	1.94
389232--389277	18	2.6	18	92	0	74	19	28	28	23	1.98
389246--389285	18	2.2	18	86	0	53	27	27	27	17	1.98
391685--391738	19	2.8	19	94	0	90	27	31	18	22	1.97
392651--392714	18	3.6	18	95	0	110	17	25	32	25	1.96
394616--394747	18	7.3	18	85	0	156	21	24	29	25	1.99
394616--394753	36	3.8	36	83	3	188	22	23	29	23	1.99
397891--397927	19	1.9	19	94	0	65	21	32	18	27	1.97
398842--398912	18	3.9	18	92	3	108	18	22	33	25	1.96
404283--404340	30	1.9	30	86	6	82	15	22	29	32	1.95
404407--404460	25	2.2	25	96	0	99	27	25	3	42	1.72
408419--408459	8	5.2	8	82	5	57	34	0	29	36	1.58
408540--409011	128	3.7	128	92	3	823	20	25	21	32	1.97
409086--409186	34	3.0	34	86	0	148	38	0	3	56	1.25
409712--409814	21	4.9	21	83	8	120	24	21	34	19	1.96
409706--409814	42	2.6	42	88	2	148	25	22	33	19	1.97
409825--409871	21	2.2	21	84	0	58	23	12	40	23	1.89
411598--411685	33	2.7	32	82	10	99	57	1	0	40	1.06
411772--411809	20	1.9	20	100	0	76	28	2	31	36	1.71
413187--413241	24	2.2	24	84	9	67	67	0	5	27	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
414311--414360	17	2.8	18	78	9	57	62	2	0	36	1.07
414468--414602	73	1.9	72	81	4	164	35	11	5	47	1.63
414626--414704	36	2.1	38	84	9	101	46	13	3	35	1.62
414959--415000	21	2.0	20	90	4	66	21	0	2	76	0.90
415904--415933	15	2.0	15	100	0	60	46	6	0	46	1.29
416107--416153	18	2.6	18	86	3	58	68	10	0	21	1.20
421882--421918	16	2.3	17	81	13	51	72	0	2	24	0.97
424349--424894	273	2.0	273	100	0	1092	23	15	18	42	1.88
427332--427375	21	2.0	22	86	4	63	40	11	9	38	1.73
429307--429395	30	2.9	30	73	6	90	25	17	21	34	1.96
429588--429651	2	32.0	2	100	0	128	50	0	0	50	1.00
430212--430267	21	2.7	21	88	5	87	23	3	23	50	1.65
434515--434597	31	2.8	30	81	5	98	25	20	16	37	1.93
434535--434602	30	2.2	31	86	2	93	27	17	19	35	1.94
434790--434827	2	19.0	2	100	0	76	50	0	0	50	1.00
436489--436526	20	1.9	20	88	0	58	34	31	15	18	1.92
436537--436690	65	2.4	64	83	5	186	31	22	18	27	1.97
436692--436732	16	2.3	18	76	20	50	21	31	19	26	1.97
436700--436733	16	2.1	16	94	0	59	26	29	20	23	1.99
442441--442513	21	3.5	20	72	17	60	30	24	20	24	1.99
444631--444659	8	3.6	8	100	0	58	55	0	44	0	0.99
445047--445206	65	2.5	64	86	5	216	31	22	18	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
445047--445226	65	2.8	65	76	16	169	30	22	18	28	1.98
446453--446494	22	1.9	22	100	0	84	21	35	23	19	1.96
450177--450209	16	2.1	16	100	0	66	57	24	12	6	1.57
450284--450339	23	2.4	23	84	0	76	58	19	10	10	1.60
450295--450339	13	3.7	13	74	17	51	62	17	8	11	1.53
450594--450682	24	3.7	24	93	0	142	64	10	8	16	1.49
450608--450654	14	3.6	14	78	21	66	68	6	8	17	1.37
450595--450665	10	6.3	10	73	23	61	64	8	8	18	1.46
450595--450665	34	2.1	34	84	10	92	64	8	8	18	1.46
450683--450732	20	2.5	20	93	0	82	38	16	20	26	1.92

Tables:   1   2   3