genome.fa.s1465.2.7.7.80.10.50.1000.2.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   51   52   53   54   55   

This is table  2  of  55  ( 6520 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)
231969--232005	20	1.9	19	89	10	58	45	10	24	18	1.81
232379--232434	28	2.1	26	83	6	67	30	3	0	66	1.09
235256--235330	31	2.4	32	75	2	80	41	14	34	9	1.78
236240--236283	13	3.4	13	83	0	61	34	20	15	29	1.94
250442--250487	22	2.0	23	83	8	58	15	19	36	28	1.92
250828--250870	20	2.2	20	86	0	59	34	16	11	37	1.85
253462--253523	30	2.1	30	93	3	108	32	9	33	24	1.88
253540--253588	12	4.0	12	86	2	53	22	48	16	12	1.79
256529--256553	3	8.3	3	100	0	50	68	0	0	32	0.90
264228--264284	5	11.2	5	75	17	55	19	1	0	78	0.83
264227--264284	22	2.5	24	78	18	70	20	1	0	77	0.86
265443--265546	52	2.0	52	96	0	190	26	9	23	40	1.85
268565--268643	39	2.0	39	92	0	131	39	22	11	26	1.88
270023--270088	28	2.4	28	100	0	132	57	3	0	39	1.14
271113--271154	22	2.0	21	85	4	57	71	0	4	23	1.05
271132--271170	16	2.4	16	91	4	60	76	0	5	17	0.96
271214--271261	12	4.2	11	82	15	53	75	0	0	25	0.81
272136--272191	3	17.3	3	87	10	60	67	1	1	28	1.10
272737--272762	9	2.9	9	100	0	52	34	23	11	30	1.90
275032--275074	24	2.0	21	82	17	52	20	39	0	39	1.53
276049--276130	35	2.3	35	81	10	96	42	6	3	47	1.45
276054--276131	37	2.1	36	86	6	104	43	6	2	47	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
276111--276151	20	2.0	20	95	0	73	58	4	0	36	1.20
276792--277051	123	2.1	123	91	0	412	28	13	21	36	1.91
287031--287096	24	2.8	24	84	9	73	63	0	6	30	1.18
296739--296801	30	2.1	30	100	0	126	33	25	19	22	1.97
297345--297385	17	2.4	18	76	12	50	19	9	2	68	1.29
302457--302579	62	2.0	61	85	6	167	25	14	16	43	1.85
302692--302745	23	2.3	23	93	0	90	57	18	5	18	1.59
306818--306868	21	2.5	20	80	3	57	27	23	19	29	1.98
312514--312813	137	2.2	136	76	9	288	41	15	13	29	1.85
314527--314860	119	2.8	119	83	4	394	26	20	16	36	1.94
314902--315123	118	1.9	118	84	5	297	24	21	13	40	1.88
316750--316956	54	3.8	53	81	8	222	42	16	10	29	1.82
316692--316972	111	2.6	108	75	9	284	42	16	9	31	1.81
321607--321648	18	2.3	18	87	0	57	50	0	2	47	1.14
325061--325286	35	6.6	35	78	9	232	44	4	9	41	1.57
325210--325272	28	2.2	28	91	2	99	39	3	12	44	1.59
325314--325338	13	1.9	13	100	0	50	32	4	24	40	1.73
325376--325416	9	4.2	10	87	12	50	21	4	0	73	1.02
328317--328354	14	2.7	14	84	11	51	21	10	28	39	1.86
337257--337499	105	2.4	100	86	4	335	43	4	11	41	1.59
337263--337487	35	6.6	35	84	5	280	43	3	10	42	1.56
337510--337539	13	2.3	13	94	0	51	40	3	20	36	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
342117--342152	18	2.0	18	94	0	63	55	22	2	19	1.56
342455--342494	20	2.0	20	90	0	62	52	22	7	17	1.69
342485--342545	29	2.1	29	96	0	113	31	26	18	24	1.97
344026--344102	21	3.7	21	71	10	68	25	18	32	23	1.97
344246--344287	12	3.5	12	83	0	57	66	2	2	28	1.16
346070--346108	20	2.0	20	100	0	78	15	12	20	51	1.76
346072--346115	20	2.2	20	91	0	70	15	13	20	50	1.78
346436--346505	22	3.2	22	84	8	97	20	14	42	22	1.88
346698--346746	20	2.5	20	86	0	71	30	12	28	28	1.93
349675--349920	106	2.5	94	77	15	246	23	13	15	47	1.80
349738--350032	108	2.8	105	83	4	376	22	14	15	47	1.81
352122--352155	17	2.0	17	88	0	50	44	20	5	29	1.75
354277--354332	25	2.2	25	100	0	112	26	16	23	33	1.95
357422--357895	182	2.6	182	88	0	689	43	13	16	26	1.85
357825--357867	20	2.3	19	88	11	63	51	11	16	20	1.75
359993--360025	15	2.2	15	94	0	57	18	9	63	9	1.49
360108--360148	21	2.0	21	90	0	64	41	12	26	19	1.87
360185--360250	33	2.0	33	93	0	114	30	0	46	22	1.52
360455--360509	15	3.5	15	73	22	58	52	0	43	3	1.18
360438--360525	33	2.7	33	94	3	151	51	0	45	3	1.18
361439--361495	4	14.2	4	100	0	114	24	0	26	49	1.51
362074--362122	19	2.5	20	90	9	84	30	0	10	59	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
362357--362944	200	2.9	200	97	0	1113	36	14	18	30	1.91
364385--364418	12	2.8	12	86	0	50	41	8	32	17	1.80
365716--366064	184	1.9	184	95	1	628	37	13	14	34	1.86
368665--368708	22	2.1	21	87	8	63	38	11	13	36	1.81
368841--369170	160	2.1	160	93	2	565	41	11	16	30	1.84
369002--369723	182	4.0	182	94	1	1229	41	12	17	28	1.86
375125--375454	180	1.9	176	81	10	402	41	10	10	36	1.74
375024--375511	176	2.7	175	77	8	470	41	10	11	37	1.75
377850--377890	17	2.5	17	84	4	57	51	7	0	41	1.30
377842--377888	17	2.9	17	78	12	55	51	6	0	42	1.27
377792--378133	180	1.9	179	87	3	508	47	10	4	37	1.59
383313--383368	22	2.5	22	75	16	62	35	1	1	60	1.17
384830--384906	2	40.5	2	89	10	126	46	0	0	53	1.00
385459--385594	69	2.0	70	91	4	222	40	6	16	36	1.74
389246--389308	21	3.0	21	86	4	90	23	25	22	28	1.99
389250--389302	22	2.5	21	90	3	79	20	28	24	26	1.99
395977--396021	22	2.1	21	84	12	56	22	22	24	31	1.99
396713--396755	18	2.4	18	100	0	86	27	27	16	27	1.97
397681--397762	17	5.5	14	72	17	58	48	26	13	10	1.75
397707--397760	17	3.4	17	73	23	62	46	24	14	14	1.83
397688--397762	31	2.4	31	93	0	132	49	26	13	10	1.74
398010--398079	26	2.6	27	90	2	115	37	2	2	57	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
400392--400446	17	3.2	17	84	2	65	81	3	10	3	0.93
402455--402667	43	5.0	43	92	2	349	26	13	32	26	1.94
402827--402932	34	3.1	34	89	1	151	38	18	19	22	1.93
402948--402986	20	2.0	20	100	0	78	30	15	25	28	1.96
406051--406104	28	1.9	28	85	14	76	48	0	0	51	1.00
406548--406651	29	3.8	28	76	14	101	34	7	10	47	1.67
406604--406658	14	3.9	14	75	13	58	32	5	10	50	1.60
410710--410734	13	1.9	13	100	0	50	44	16	8	32	1.76
411527--411650	64	1.9	64	85	6	171	17	8	15	58	1.60
412226--412256	2	15.5	2	100	0	62	51	0	0	48	1.00
412798--412850	26	2.0	26	82	13	65	62	5	9	22	1.47
412835--412896	20	3.0	20	76	21	58	75	4	6	12	1.15
413129--413179	15	3.5	15	72	5	50	78	0	5	15	0.93
413095--413281	9	19.2	9	68	16	63	74	2	10	13	1.16
413142--413179	20	1.9	20	88	0	58	81	0	5	13	0.85
414601--414653	4	13.0	4	86	7	72	71	0	3	24	1.02
414597--414653	29	1.9	30	92	3	98	71	0	3	24	1.01
414653--414950	37	8.0	38	88	4	394	47	7	1	43	1.38
414791--414948	75	2.1	75	89	2	237	47	6	1	44	1.38
414945--415082	35	3.9	36	76	11	99	45	7	2	44	1.45
414947--415074	36	3.6	35	81	9	109	46	7	1	43	1.42
415273--415351	24	3.3	24	100	0	158	7	26	31	34	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
415397--415449	4	13.0	4	86	7	72	71	0	3	24	1.02
415393--415449	29	1.9	30	92	3	98	71	0	3	24	1.01
415397--415454	25	2.3	25	88	11	84	72	0	3	24	1.00
415478--415927	38	12.2	38	82	10	476	48	7	1	43	1.38
419791--419874	29	2.9	29	69	1	69	50	1	0	48	1.08
420729--420774	20	2.3	19	89	10	74	54	10	17	17	1.70
420895--420941	20	2.4	19	79	10	58	55	8	17	19	1.67
423244--423309	33	2.0	33	87	0	96	28	1	45	24	1.62
425092--425140	19	2.6	19	93	0	80	30	2	10	57	1.43
425259--427609	394	5.9	396	98	1	4502	36	15	16	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   51   52   53   54   55