genome.fa.s7999.2.7.7.80.10.50.1000.2.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   

This is table  2  of  50  ( 5918 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)
272323--272444	40	3.0	40	100	0	244	22	17	27	32	1.96
272549--272674	47	2.8	45	84	8	157	39	7	21	30	1.82
275501--275859	45	8.0	45	84	2	463	30	23	6	38	1.81
275509--275856	90	3.9	90	93	1	563	30	24	7	38	1.82
275968--276089	61	2.0	61	83	3	156	31	29	15	22	1.95
281947--282033	38	2.3	38	88	5	124	10	10	41	37	1.73
281714--282309	270	2.2	267	89	4	900	20	12	30	36	1.89
282218--282354	43	3.3	43	92	7	214	12	12	37	37	1.81
282848--282931	44	1.9	44	97	0	159	34	22	15	27	1.94
282920--282964	18	2.6	18	89	6	67	28	28	6	35	1.83
293673--293708	18	2.0	18	94	0	63	22	22	19	36	1.95
293675--293715	18	2.3	18	86	0	55	24	24	17	34	1.96
296520--296860	156	2.2	160	87	4	496	27	18	5	48	1.71
304506--304557	20	2.6	19	87	6	68	34	15	30	19	1.93
304990--305140	55	2.7	55	80	5	162	38	11	18	31	1.86
311167--311301	46	2.9	46	89	0	189	25	20	9	43	1.82
311200--311281	20	3.8	21	77	19	96	21	23	9	45	1.81
311218--311301	26	3.5	26	78	18	117	21	23	10	44	1.84
320623--320687	35	1.9	35	90	6	107	24	15	26	33	1.95
322309--322360	21	2.5	21	93	0	86	26	9	28	34	1.88
322812--322862	21	2.4	22	83	6	70	23	27	13	35	1.93
322895--322960	20	3.3	20	78	0	78	28	25	15	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
323150--323192	22	2.0	22	90	4	70	20	46	13	18	1.83
323150--323192	21	2.0	21	86	8	61	20	46	13	18	1.83
323456--323514	20	3.0	20	82	0	64	13	18	22	45	1.84
324814--324861	18	2.7	18	93	0	87	27	45	12	14	1.81
325402--325468	20	3.4	20	81	2	73	38	23	22	14	1.92
325402--325504	19	5.6	19	75	14	72	41	23	21	13	1.88
325519--325575	14	3.7	14	75	20	60	10	15	22	50	1.74
325513--325591	33	2.4	33	97	0	149	13	18	20	46	1.83
325533--325629	19	5.3	19	69	18	71	16	20	21	41	1.90
325578--325673	20	4.8	20	87	5	115	21	20	22	34	1.97
325564--325673	39	2.8	40	81	4	125	20	20	22	35	1.96
327652--327719	19	3.8	19	81	14	92	45	17	22	14	1.85
327746--327793	20	2.4	20	100	0	96	14	22	27	35	1.93
328077--328128	20	2.5	21	87	3	70	21	23	17	38	1.93
328892--328945	24	2.2	24	90	0	81	22	16	20	40	1.91
331691--331757	21	3.2	21	68	4	55	19	20	35	23	1.95
331691--331813	42	2.9	41	80	7	113	22	17	36	22	1.95
332030--332208	93	2.0	87	87	8	254	47	19	12	20	1.81
333850--333963	20	6.4	19	66	21	68	42	21	22	13	1.87
333891--333946	14	3.6	14	74	21	58	39	23	25	12	1.89
333870--333963	33	2.8	33	91	1	152	41	22	23	12	1.88
333981--334072	33	2.8	32	87	8	116	11	21	23	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
334585--334696	20	5.6	20	84	4	82	21	20	20	37	1.94
334603--334696	41	2.3	40	88	1	134	20	21	19	39	1.93
334577--334711	41	3.3	40	74	10	121	25	18	19	36	1.94
334693--334748	20	2.7	21	80	5	69	42	16	21	19	1.89
334605--334737	61	2.2	61	79	5	144	26	21	19	33	1.97
334767--334809	21	2.0	21	86	8	61	23	23	18	34	1.96
334798--334848	21	2.3	22	80	6	68	37	17	25	19	1.94
335119--335176	30	1.9	30	96	0	107	32	3	20	43	1.69
335254--335342	46	1.9	47	95	2	162	32	14	21	31	1.93
335331--335360	13	2.2	14	94	5	53	56	0	43	0	0.99
335527--335574	21	2.3	21	96	0	87	41	12	20	25	1.87
342585--342643	3	19.7	3	84	6	66	28	3	1	66	1.18
342578--342622	21	2.2	20	84	4	54	26	0	4	68	1.08
344838--344889	22	2.4	22	96	0	95	46	7	13	32	1.72
345147--345189	23	1.9	22	85	4	59	39	11	13	34	1.82
347465--347503	11	3.6	11	86	3	53	56	0	25	17	1.41
349292--349357	26	2.5	26	92	0	105	39	0	31	28	1.57
350036--350149	35	3.2	35	83	1	138	32	4	35	28	1.77
352282--352310	15	1.9	15	100	0	58	55	0	27	17	1.42
354158--354222	26	2.5	26	95	2	114	38	0	33	27	1.57
354928--355002	36	2.1	35	87	4	107	30	5	38	25	1.78
357323--357432	34	3.2	34	84	2	130	31	3	36	28	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
357369--357425	13	4.7	13	72	16	50	31	1	40	26	1.66
362701--362821	33	3.5	33	70	21	102	25	28	12	33	1.92
362837--362953	34	3.1	34	70	23	108	27	28	10	34	1.89
362646--362956	79	4.1	79	88	7	455	26	27	12	34	1.92
362663--362956	156	1.9	149	90	6	464	26	27	12	34	1.92
363367--363413	22	2.2	22	88	7	71	29	17	10	42	1.82
366043--366072	15	1.9	16	93	6	53	20	0	3	76	0.92
372642--372703	32	1.9	32	86	0	88	30	20	16	32	1.95
378840--378871	16	2.0	16	93	0	55	15	12	18	53	1.73
380780--380813	17	2.0	17	88	0	50	32	14	17	35	1.91
381057--381120	15	4.3	14	75	19	58	23	3	1	71	1.08
381054--381106	18	2.8	18	91	5	79	22	3	1	71	1.12
394235--394351	47	2.4	49	83	8	143	31	20	7	40	1.81
394647--399648	540	9.3	541	94	0	8528	35	16	10	38	1.82
399643--405985	541	11.9	541	90	2	9729	34	16	9	39	1.81
403939--405985	516	4.0	517	87	6	2961	34	16	9	39	1.82
408528--408567	20	1.9	19	85	14	53	50	17	0	32	1.47
412606--412662	29	1.9	31	85	7	82	33	14	8	43	1.76
418782--418837	22	2.7	21	78	13	62	28	28	17	25	1.98
418801--418878	22	3.6	22	70	8	70	26	24	21	26	1.99
418782--418875	42	2.2	43	84	5	120	28	25	19	26	1.98
418802--418901	43	2.3	43	74	16	109	27	26	21	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
420435--420478	21	2.1	21	82	0	52	9	38	15	36	1.80
421118--421191	26	2.5	33	70	29	99	36	0	33	29	1.58
421131--421192	26	2.4	26	100	0	124	40	0	29	30	1.57
421590--421749	65	2.5	66	86	5	211	30	23	18	27	1.97
428652--428718	3	22.3	3	82	8	66	56	0	1	41	1.08
428679--428737	11	4.6	13	75	25	63	52	0	1	45	1.10
428660--428737	37	2.1	37	88	4	113	53	0	1	44	1.08
428889--429973	54	20.1	54	90	0	1636	22	27	19	30	1.98
429974--430055	37	2.2	36	82	6	94	19	17	17	46	1.85
441545--441602	26	2.2	27	93	3	100	31	1	10	56	1.43
442324--442385	3	20.7	3	80	6	63	56	1	3	38	1.25
442353--442425	14	5.6	13	73	16	71	49	0	1	49	1.09
442324--442425	51	2.1	48	83	5	123	51	0	1	45	1.19
442867--443272	85	4.8	84	81	6	389	34	20	19	25	1.96
443944--443979	2	18.5	2	94	5	65	50	0	0	50	1.00
445011--445121	8	13.9	7	76	15	51	19	3	2	73	1.10
445013--445109	9	11.3	9	76	11	62	20	3	3	73	1.11
445063--445112	3	17.7	3	88	12	79	30	0	0	70	0.88
445063--445112	26	2.0	25	92	4	82	30	0	0	70	0.88
445459--445604	19	7.6	19	65	17	61	13	10	1	73	1.15
445534--445610	9	9.2	9	68	21	60	14	10	1	74	1.14
445543--445604	14	4.6	14	76	8	65	14	9	1	74	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446154--446250	31	3.1	31	88	5	151	37	13	26	22	1.91
447143--447217	31	2.4	31	93	0	123	25	30	12	32	1.92
447226--447303	31	2.5	31	93	2	131	37	12	21	28	1.90
448369--448445	3	25.7	3	97	0	145	33	1	0	64	1.01
449794--449834	20	2.0	21	85	4	57	36	2	2	58	1.24
457620--457644	13	1.9	13	100	0	50	16	8	0	76	1.02
458923--459941	83	12.4	83	95	2	1835	28	13	21	35	1.92
458923--459941	165	6.2	166	96	2	1835	28	13	21	35	1.92
460638--460935	113	2.6	113	93	2	481	37	13	20	27	1.91
460836--461027	93	2.1	93	96	0	357	35	14	18	31	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50