genome.fa.s8053.2.7.7.80.10.50.1000.3.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: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6772376

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   

This is table  3  of  32  ( 3749 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)
422192--422261	10	6.5	11	76	15	58	81	5	12	0	0.86
422193--422261	24	3.0	22	81	8	75	81	5	13	0	0.87
422194--422273	20	4.2	20	77	13	62	80	6	12	1	0.96
422201--422274	13	5.3	13	75	16	60	79	6	12	1	0.98
422192--422285	17	5.1	19	72	22	67	78	6	13	1	0.99
423698--423750	21	2.5	21	96	0	97	24	24	11	39	1.88
423761--425138	106	13.0	106	91	1	2165	33	24	18	22	1.97
425837--425941	37	2.8	37	83	0	138	40	15	13	30	1.85
426775--426806	2	16.5	2	93	6	57	50	0	0	50	1.00
426815--426855	15	2.6	16	81	14	50	14	7	0	78	0.96
430017--430057	21	2.0	21	90	4	66	39	29	14	17	1.89
431276--431313	12	3.2	12	82	14	51	68	0	31	0	0.90
431268--431313	24	2.0	23	86	4	65	67	0	30	2	1.03
434924--434977	24	2.4	22	78	9	65	48	3	0	48	1.19
439184--439223	21	1.9	21	84	0	53	37	5	17	40	1.72
441303--441528	30	7.6	30	85	5	298	38	4	18	38	1.71
441303--441528	61	3.8	59	85	8	305	38	4	18	38	1.71
448798--448839	17	2.4	17	88	4	57	19	47	19	14	1.82
448843--448975	29	4.6	29	86	0	194	36	6	21	36	1.78
452845--452890	23	2.0	22	87	4	65	52	0	0	47	1.00
452999--453076	23	3.5	23	80	5	88	56	1	1	41	1.15
453084--453150	22	3.0	23	76	12	68	50	0	1	47	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
454010--454083	32	2.2	34	83	9	91	47	1	1	50	1.18
457074--457134	20	3.0	20	100	0	122	54	14	0	31	1.41
459830--459893	30	2.1	30	94	0	110	26	20	10	42	1.85
459827--459925	30	3.3	31	84	8	109	25	20	11	43	1.84
460252--460280	12	2.3	13	94	5	51	68	0	0	31	0.89
460368--460402	15	2.3	15	90	0	61	77	0	0	22	0.78
462322--463934	106	16.0	105	87	9	2277	23	17	25	33	1.96
462923--463075	43	3.5	42	71	12	144	21	17	26	34	1.95
463511--463666	43	3.4	43	68	13	132	22	18	24	34	1.96
462904--463934	94	10.6	94	86	11	1465	22	17	25	34	1.96
462369--463934	200	7.8	200	92	4	2491	23	17	25	34	1.96
463711--463866	43	3.4	43	67	13	132	21	18	25	34	1.96
467991--468019	12	2.3	13	94	5	51	68	0	0	31	0.89
468107--468141	15	2.3	15	90	0	61	77	0	0	22	0.78
470231--470256	3	8.7	3	100	0	52	65	0	0	34	0.93
478390--478459	20	3.6	19	84	1	86	38	7	15	38	1.75
478502--478541	20	2.0	20	90	9	64	30	22	17	30	1.97
481823--481887	23	2.8	23	71	0	58	33	26	20	20	1.96
481989--482058	15	4.7	15	85	0	86	41	15	8	34	1.78
482526--482577	20	2.6	20	78	6	61	26	23	13	36	1.92
486336--486404	32	2.1	33	86	2	95	37	18	10	33	1.85
486345--486421	32	2.4	32	80	0	91	40	15	9	35	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490492--490578	42	2.1	41	87	10	126	49	14	2	33	1.57
490729--490878	40	3.8	40	91	0	237	35	26	15	22	1.94
494689--494771	29	3.1	26	79	17	75	3	16	1	78	0.96
494673--494781	9	11.1	9	74	19	69	3	17	1	77	1.01
497540--497769	40	5.8	40	93	0	388	33	26	15	23	1.95
499480--499552	30	2.4	29	80	6	83	34	19	6	39	1.78
499499--499569	30	2.3	30	87	2	97	29	18	9	42	1.82
501664--501782	32	3.7	32	80	0	139	32	14	19	33	1.92
501663--501808	32	4.6	32	79	0	121	34	13	17	34	1.89
506445--506470	12	2.2	12	100	0	52	19	7	50	23	1.73
509914--509951	19	2.0	20	85	10	53	57	5	7	28	1.49
515852--515895	18	2.4	18	100	0	88	25	0	29	45	1.54
522829--522870	19	2.3	18	80	11	50	28	21	16	33	1.95
523109--523170	24	2.6	23	87	7	79	37	9	17	35	1.83
526740--526781	12	3.6	12	87	6	52	66	4	0	28	1.12
528137--528189	21	2.5	21	78	0	61	18	28	18	33	1.95
528179--528292	20	5.7	20	81	2	147	39	19	19	21	1.93
528182--528290	40	2.7	40	91	1	164	40	19	19	21	1.92
528182--528310	40	3.2	39	80	13	145	38	20	19	21	1.93
528488--528549	18	3.0	22	69	26	62	27	38	16	17	1.91
528888--528951	34	1.9	34	90	3	103	10	15	25	48	1.77
530820--530923	20	5.5	20	81	13	130	38	22	20	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
530823--530961	54	2.6	54	90	1	208	39	20	21	17	1.92
530970--531080	20	5.9	20	76	12	92	18	20	19	40	1.92
530951--531092	73	1.9	73	92	0	239	16	20	20	42	1.89
531574--531615	21	2.2	19	87	12	59	21	35	19	23	1.96
531572--531675	42	2.5	41	76	11	106	21	37	18	23	1.94
532947--532982	14	2.6	14	90	0	54	30	0	22	47	1.52
532961--533030	31	2.5	28	70	18	65	27	1	20	51	1.56
533152--533244	20	4.7	20	86	7	136	19	21	24	34	1.96
533152--533244	39	2.3	40	91	8	147	19	21	24	34	1.96
535546--535597	24	2.2	24	82	0	59	36	21	19	23	1.95
536435--536551	20	5.8	20	77	11	98	23	22	20	34	1.97
536443--536551	40	2.7	40	84	4	139	22	22	21	34	1.97
536549--536588	21	1.9	21	94	0	71	45	17	20	17	1.86
537281--537321	21	2.0	21	100	0	82	41	0	0	58	0.98
538282--538328	15	3.1	15	96	0	85	46	0	23	29	1.52
540169--540309	23	6.0	23	72	9	90	36	23	21	17	1.94
544023--544060	19	2.0	19	89	0	58	63	0	2	34	1.09
546211--546266	24	2.3	24	84	9	78	62	0	3	33	1.12
546220--546269	15	3.6	14	76	15	50	64	0	2	34	1.05
546356--546391	2	18.0	2	94	0	63	47	0	2	50	1.15
550133--550281	61	2.5	62	80	9	164	43	4	18	34	1.68
550133--550280	60	2.5	59	82	7	156	43	4	17	34	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
551034--551116	42	2.0	42	90	0	130	39	24	8	27	1.84
551488--551989	250	2.0	252	97	2	958	34	21	16	27	1.94
556173--556316	71	2.0	71	100	0	288	38	5	26	29	1.79
560812--560962	74	2.0	74	100	0	302	31	9	27	31	1.88
563473--563500	2	14.0	2	100	0	56	50	0	0	50	1.00
563506--563825	159	2.0	160	99	0	633	35	7	23	33	1.83
570528--570577	21	2.4	21	86	6	66	70	12	0	18	1.17
583886--584034	42	3.5	42	75	8	149	24	10	17	47	1.78
585919--586091	43	4.1	42	77	8	172	28	17	22	30	1.97
588667--588732	2	33.0	2	100	0	132	50	0	50	0	1.00
590158--590182	2	12.5	2	100	0	50	48	0	0	52	1.00
597427--597497	35	2.1	32	87	7	97	22	29	15	32	1.95
598818--598853	2	18.0	2	100	0	72	50	0	0	50	1.00
598822--598886	18	3.3	19	74	10	60	43	3	0	53	1.16
602463--602544	23	3.7	22	80	4	94	20	25	29	24	1.99
602463--602545	22	3.8	22	78	9	80	20	25	28	25	1.99
608519--608543	13	1.9	13	100	0	50	40	8	8	44	1.63
615610--615663	25	2.2	25	100	0	108	44	12	3	38	1.61
620740--620787	24	2.0	24	100	0	96	25	33	16	25	1.96
621577--621608	15	2.0	17	88	11	50	46	6	15	31	1.71
622679--622724	16	2.9	15	84	12	56	28	8	0	63	1.24
622831--622886	23	2.4	23	82	11	62	21	0	5	73	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
623994--624034	20	2.0	20	86	9	57	70	0	17	12	1.16
624027--624074	20	2.4	20	96	0	87	50	12	14	22	1.77
625511--625556	21	2.2	21	92	0	74	30	17	19	32	1.95
628383--628473	3	30.3	3	83	4	103	57	1	1	40	1.13
628576--628773	79	2.5	79	82	4	222	28	17	15	38	1.91
629925--629977	21	2.5	21	84	6	63	67	15	3	13	1.35
629935--629981	24	2.0	24	86	0	67	68	14	4	12	1.36
631237--631272	18	2.1	17	94	5	63	19	0	5	75	1.00
631509--631542	11	2.9	11	91	8	50	8	11	0	79	0.94
633520--633552	6	5.7	6	89	3	50	84	15	0	0	0.61

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