genome.fa.s9585.2.7.7.80.10.50.1000.2.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

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   

This is table  2  of  35  ( 4106 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)
309006--309043	19	2.1	19	85	9	53	18	21	13	47	1.82
314288--314317	3	9.7	3	92	7	51	33	3	0	63	1.11
314288--314323	13	2.8	13	91	4	56	33	5	0	61	1.19
315935--315986	16	2.9	17	83	13	61	32	0	3	63	1.12
324785--324834	5	10.0	5	78	21	52	56	0	2	42	1.11
329944--330125	69	2.6	69	86	5	249	52	18	12	15	1.74
332517--332569	23	2.3	23	80	0	61	28	22	20	28	1.99
333326--333399	18	3.9	18	76	13	76	29	33	21	14	1.94
333325--333420	40	2.4	40	94	0	165	29	32	22	15	1.95
333325--333443	22	5.8	22	76	11	110	31	30	22	15	1.95
333677--333704	2	14.0	2	100	0	56	50	0	0	50	1.00
334011--334148	64	2.2	64	80	6	154	26	18	20	34	1.96
340217--340312	40	2.4	40	92	0	156	29	32	21	16	1.96
340217--340335	22	5.8	21	73	15	115	30	31	21	16	1.96
347799--347836	20	1.9	20	94	0	67	47	15	13	23	1.81
347826--347886	21	2.9	21	90	0	95	29	29	14	26	1.95
347860--347914	28	2.0	28	92	0	92	27	21	12	38	1.90
347899--348236	57	5.9	57	89	2	466	38	20	14	27	1.91
347899--348236	114	3.0	114	89	0	516	38	20	14	27	1.91
347903--348232	171	1.9	171	90	2	520	38	19	14	27	1.90
348257--348407	20	7.6	19	81	8	149	19	14	23	43	1.87
348257--348407	40	3.8	39	87	3	203	19	14	23	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
348257--348407	60	2.5	59	80	6	178	19	14	23	43	1.87
348492--348516	13	1.9	13	100	0	50	32	8	24	36	1.84
348545--348648	20	5.2	20	78	9	122	16	12	24	47	1.81
348526--348676	40	3.8	40	81	8	141	19	13	21	45	1.85
348660--348714	20	2.8	21	75	10	62	21	14	30	32	1.93
350082--350123	22	2.0	22	81	13	52	38	9	0	52	1.34
350357--350409	16	3.5	15	77	7	54	54	0	0	45	0.99
350347--350449	32	3.3	32	77	11	83	59	0	0	40	0.98
350371--350450	31	2.4	33	83	10	92	57	0	0	42	0.98
355736--355788	21	2.5	21	78	6	63	22	24	18	33	1.97
355778--355829	21	2.5	21	87	3	70	38	17	23	21	1.93
355815--355892	41	1.9	41	91	0	129	37	24	17	20	1.94
355819--355927	20	5.4	20	82	6	121	30	27	18	23	1.98
355864--355936	20	3.7	20	94	0	110	27	27	19	26	1.99
355814--355945	40	3.3	40	80	1	147	34	25	18	22	1.96
356232--356274	19	2.3	19	91	0	68	16	18	16	48	1.81
357860--357956	42	2.2	42	81	7	113	19	14	45	20	1.85
357892--357952	21	2.9	21	73	9	70	21	13	42	22	1.87
358294--358332	20	2.0	20	94	0	69	33	28	12	25	1.93
358322--358372	20	2.5	20	83	0	66	39	21	25	13	1.90
358359--358404	14	2.9	16	75	18	51	45	21	19	13	1.84
358411--358513	19	5.6	19	79	12	117	15	22	19	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
359067--359114	18	2.7	18	90	0	78	16	12	43	27	1.84
360913--360965	20	2.7	20	93	0	88	24	20	26	28	1.99
360955--361052	21	4.7	21	98	0	187	21	23	16	38	1.92
360955--361064	42	2.6	42	92	0	157	23	22	18	35	1.96
360954--361092	63	2.2	63	82	0	170	26	21	19	32	1.97
361039--361091	21	2.5	22	78	6	65	32	18	26	22	1.97
364990--365017	10	2.8	10	100	0	56	21	28	21	28	1.99
367428--367540	46	2.4	47	86	5	158	25	13	20	40	1.89
367428--367540	24	4.8	24	86	8	160	25	13	20	40	1.89
367431--367557	24	5.4	24	84	7	134	26	11	21	40	1.86
369720--369795	27	2.6	28	85	10	100	27	17	3	51	1.63
369904--370217	144	2.2	144	87	0	430	34	25	17	23	1.96
369904--370245	48	7.1	48	83	0	369	34	24	16	23	1.96
372383--372414	16	2.1	16	94	5	57	34	6	6	53	1.51
373303--373342	20	2.0	21	85	5	55	37	7	10	45	1.66
373432--373471	18	2.3	18	82	4	55	30	7	15	47	1.72
374333--374379	21	2.2	21	100	0	94	25	4	27	42	1.73
378660--378736	36	2.1	37	85	4	102	49	1	3	45	1.28
379140--379371	114	2.0	115	89	2	360	38	8	16	35	1.80
379913--379953	21	2.0	20	85	4	55	34	0	7	58	1.26
382415--382494	40	2.0	40	90	4	126	42	3	22	31	1.71
382854--382896	19	2.3	19	84	4	52	27	4	4	62	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384443--384468	2	13.0	2	100	0	52	50	0	0	50	1.00
398924--399070	7	21.0	7	85	0	186	61	0	37	1	1.05
398924--399071	14	10.6	14	91	0	206	61	0	37	1	1.05
409431--409496	29	2.3	29	86	2	98	34	28	7	28	1.85
409472--409549	31	2.5	31	93	0	138	21	26	17	33	1.96
416535--416560	2	13.0	2	100	0	52	50	0	0	50	1.00
430259--430291	17	1.9	17	100	0	66	39	6	6	48	1.53
446703--446880	85	2.1	85	93	2	302	46	7	10	35	1.68
451869--451898	13	2.3	13	94	0	51	50	30	6	13	1.67
459634--459681	23	2.1	23	88	0	69	35	12	18	33	1.89
460058--460111	23	2.5	20	75	18	54	42	18	1	37	1.61
460073--460135	23	2.7	23	90	0	90	38	19	6	36	1.77
460486--460539	23	2.5	20	75	18	54	42	18	1	37	1.61
460501--460558	23	2.5	23	91	0	89	37	18	6	36	1.78
463052--463913	184	4.7	184	97	1	1573	34	15	14	35	1.88
465282--465332	3	17.0	3	83	0	66	25	33	3	37	1.74
465282--465344	12	5.2	12	90	0	81	23	33	6	36	1.80
465286--465347	18	3.4	18	88	0	88	20	33	6	38	1.79
465286--465347	6	10.3	6	83	0	61	20	33	6	38	1.79
466810--468407	198	8.1	199	83	10	2119	32	15	14	37	1.88
467552--467919	178	2.1	178	96	0	675	33	15	15	36	1.89
467729--468407	199	3.4	200	96	0	1227	32	15	15	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
468473--468552	38	2.1	38	83	2	99	55	10	2	32	1.47
468489--468552	19	3.4	19	95	0	110	56	9	3	31	1.47
470344--470409	33	2.0	33	87	0	96	24	45	1	28	1.62
472513--472565	24	2.2	24	83	6	63	26	7	13	52	1.66
472710--472756	20	2.4	19	79	10	58	19	17	8	55	1.67
472876--472922	20	2.3	20	89	10	78	17	17	10	55	1.69
474538--474641	32	3.3	31	68	12	86	25	16	18	39	1.91
474525--474668	63	2.3	63	93	1	245	26	18	16	38	1.91
474525--474668	32	4.6	30	65	16	78	26	18	16	38	1.91
474659--474723	31	2.1	31	94	0	112	32	24	13	29	1.94
477013--477050	18	2.2	17	86	13	51	65	7	5	21	1.38
482395--482557	65	2.5	65	85	3	222	26	15	26	30	1.96
482397--482606	65	3.2	64	82	8	214	26	17	25	30	1.97
482774--482813	20	2.0	21	85	14	57	47	5	5	42	1.47
487990--488029	21	1.9	21	85	10	55	35	10	2	52	1.48
489974--490132	65	2.5	64	84	3	212	27	16	27	28	1.97
490353--490392	20	2.0	21	85	14	57	45	7	5	42	1.54
490597--490628	15	2.1	15	94	0	55	6	25	15	53	1.65
493081--493164	37	2.3	36	87	6	116	33	4	19	42	1.72
494917--494948	16	2.0	16	93	0	55	18	34	18	28	1.95
497442--497559	34	3.3	36	88	7	161	32	5	18	44	1.72
504602--504818	108	2.0	108	99	0	425	43	16	18	21	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
505169--505230	32	1.9	32	90	0	97	35	8	25	30	1.85
506427--506499	28	2.6	28	91	0	119	27	16	19	36	1.93
506449--506511	28	2.2	28	88	0	90	31	15	17	34	1.92
509991--510035	22	2.0	22	100	0	90	42	8	13	35	1.75
511991--512052	32	1.9	32	100	0	124	46	9	6	37	1.62
513037--513080	2	22.5	2	95	4	81	50	0	0	50	1.00
513038--513085	8	6.4	7	95	4	53	52	0	0	47	1.00
515378--515463	39	2.2	39	80	0	100	26	25	17	30	1.97
520723--520770	22	2.1	23	88	11	73	41	6	16	35	1.74
522138--522223	21	4.0	21	95	1	145	48	23	23	4	1.69

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