genome.fa.s8209.2.7.7.80.10.50.1000.2.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

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   

This is table  2  of  30  ( 3569 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)
476960--477035	22	3.5	22	89	3	127	40	13	11	34	1.81
481894--481933	20	2.1	20	86	9	57	0	15	0	85	0.61
484417--484463	13	3.8	13	83	11	71	76	8	6	8	1.15
484419--484463	12	3.8	12	88	11	74	77	6	6	8	1.11
494532--494594	3	20.7	3	84	9	83	65	0	0	34	0.93
496088--496130	20	2.2	19	83	4	50	44	18	0	37	1.50
498163--498192	12	2.6	12	94	5	53	33	23	6	36	1.81
502152--502277	47	2.8	46	81	7	143	33	20	5	40	1.76
507239--507312	29	2.5	30	73	18	75	29	17	8	44	1.77
508387--508449	30	2.2	28	81	18	78	44	1	20	33	1.61
508399--508460	30	2.1	30	93	0	106	45	3	17	33	1.65
515768--515865	50	2.1	48	81	12	114	52	14	2	31	1.53
517678--517728	19	2.6	20	87	3	68	45	5	15	33	1.71
519651--519693	23	1.9	21	81	13	50	34	13	18	32	1.90
530457--530585	62	2.1	61	86	1	177	28	20	25	25	1.99
530472--530609	61	2.2	62	83	1	161	27	21	26	25	1.99
532595--532709	61	1.9	61	88	0	176	24	20	26	28	1.99
532819--533023	47	4.4	47	90	2	292	37	8	20	34	1.83
535884--535964	20	4.4	17	76	18	65	77	0	13	8	0.98
535888--535947	18	3.2	19	80	17	72	78	0	13	8	0.96
535897--535964	11	6.2	11	74	20	54	77	0	13	8	0.98
535884--535964	38	2.2	39	80	15	107	77	0	13	8	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535883--535953	26	2.7	27	83	12	85	77	0	14	8	0.98
535900--535967	17	3.7	18	81	16	86	76	0	13	10	1.02
539718--539876	47	3.5	47	87	3	227	36	9	20	33	1.85
542858--542898	21	2.0	21	85	0	55	39	2	9	48	1.49
543857--543901	21	2.1	22	87	4	65	26	17	11	44	1.82
545949--546440	81	6.1	81	90	0	743	36	9	21	32	1.86
550654--551351	350	2.0	347	97	1	1328	36	15	21	27	1.93
552184--552254	19	3.5	19	80	12	79	30	15	19	33	1.93
552184--552242	22	2.9	21	85	7	77	32	15	16	35	1.90
552579--552927	55	6.4	54	88	2	491	39	17	18	24	1.91
554572--554757	28	6.7	27	74	13	155	38	22	6	32	1.80
554611--554757	55	2.7	53	79	9	161	37	22	6	33	1.81
554757--554801	17	2.6	17	86	10	65	11	17	48	22	1.78
560885--560950	26	2.5	26	97	0	123	46	15	7	30	1.73
561985--562134	29	5.3	28	76	10	146	39	22	6	32	1.78
562129--562179	17	2.9	18	85	2	68	9	23	45	21	1.82
562178--562223	19	2.4	19	88	0	74	17	36	28	17	1.92
565444--565493	21	2.4	22	90	6	77	36	6	26	32	1.81
568779--569023	95	2.7	90	86	10	344	30	20	19	30	1.97
570014--570155	77	1.9	75	88	11	218	20	20	32	26	1.97
570014--570155	76	1.9	76	88	11	220	20	20	32	26	1.97
572764--572824	23	2.7	23	92	2	97	18	26	32	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
576864--576981	47	2.6	44	83	7	146	39	8	21	30	1.83
583972--584089	47	2.6	44	83	7	146	41	8	19	30	1.81
584422--584495	23	3.4	23	64	21	68	31	0	17	51	1.46
584424--584508	42	2.0	42	100	0	170	28	0	18	52	1.45
584607--584654	25	1.9	25	82	0	60	25	31	6	37	1.81
590369--590864	36	14.1	36	76	11	415	26	19	13	39	1.90
590414--590864	173	2.6	170	87	5	629	25	19	13	40	1.89
590781--590845	21	3.4	21	66	24	61	23	18	15	43	1.88
590897--591101	84	2.5	83	82	2	250	30	25	20	23	1.99
590901--591178	84	3.3	82	82	3	234	30	23	19	25	1.98
593090--593118	12	2.3	13	94	5	51	31	0	0	68	0.89
593431--593511	32	2.5	33	93	2	137	18	17	24	39	1.92
594808--594847	20	2.0	20	90	0	62	72	10	5	12	1.26
594838--594912	28	2.6	29	91	4	125	56	10	21	12	1.66
596100--596476	190	2.0	190	95	0	673	31	7	12	48	1.68
597242--597272	10	3.1	10	90	0	53	48	22	0	29	1.51
598850--598920	35	2.0	35	97	0	133	45	19	8	26	1.79
605033--605187	65	2.4	66	82	6	174	31	18	20	29	1.97
610419--610469	17	3.0	17	97	0	93	54	0	9	35	1.33
611402--611427	2	13.0	2	100	0	52	50	0	0	50	1.00
621583--621646	23	2.8	22	85	4	83	26	26	26	20	1.99
621648--621877	101	2.3	102	94	3	410	36	23	13	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
628019--628378	184	1.9	188	90	6	583	33	20	12	33	1.90
632454--632651	51	4.0	50	90	5	314	24	18	9	47	1.78
634592--634646	23	2.4	23	100	0	110	47	0	0	52	1.00
635780--635825	12	3.9	12	77	13	51	21	15	8	54	1.68
636768--636822	12	4.6	12	83	0	74	12	16	47	23	1.81
642310--642372	3	21.7	3	87	6	85	36	3	0	60	1.13
642310--642372	29	2.2	29	91	0	99	36	3	0	60	1.13
644413--644779	131	2.8	130	78	3	328	31	10	14	43	1.80
648505--648529	13	1.9	13	100	0	50	24	12	8	56	1.62
652851--653473	134	4.7	134	83	3	700	32	22	15	29	1.95
653597--653677	3	27.7	3	77	5	85	38	1	0	60	1.05
655302--655369	12	6.0	12	75	13	54	42	19	19	19	1.89
655302--655367	22	3.0	22	81	0	87	43	16	19	19	1.88
655302--655356	10	5.0	11	72	14	51	43	16	20	20	1.88
656035--656270	32	7.4	32	92	0	386	33	24	17	25	1.96
656423--656470	24	1.9	25	83	8	62	31	20	0	47	1.50
664647--664788	50	3.0	48	83	11	195	23	18	10	47	1.80
667155--667184	15	2.0	15	100	0	60	20	6	0	73	1.05
672330--672678	180	1.9	180	99	0	689	25	17	14	43	1.86
674360--674399	17	2.4	16	84	8	53	17	15	15	52	1.75
674368--674403	17	2.1	17	94	0	63	16	16	11	55	1.68
678716--678768	26	2.0	28	85	7	74	66	3	20	9	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
683398--683632	30	7.9	30	72	8	149	17	13	10	58	1.62
683532--683573	21	1.9	23	85	9	61	23	11	4	59	1.51
685466--685527	32	1.9	32	87	6	90	17	12	12	56	1.67
688997--689105	48	2.3	48	80	3	121	42	19	15	22	1.89
688997--689095	24	4.1	24	82	0	108	41	20	15	23	1.89
693174--693202	13	2.3	13	94	5	51	48	0	0	51	1.00
693370--693468	24	4.1	24	82	0	99	38	18	15	28	1.91
693390--693468	24	3.3	24	89	0	104	36	18	16	27	1.93
698098--698280	42	4.3	41	70	16	120	25	33	17	23	1.96
698186--698280	40	2.3	40	87	10	131	24	36	15	23	1.94
698039--698506	130	3.6	130	83	3	512	25	32	17	24	1.97
698732--698766	18	1.9	18	94	0	61	34	0	0	65	0.93
698723--698773	9	5.3	10	79	13	54	37	0	0	62	0.95
700321--700395	29	2.6	29	72	8	71	18	16	10	54	1.70
701597--701648	26	2.0	27	88	3	79	65	3	0	30	1.10
703181--703465	88	3.1	88	79	16	272	49	1	7	42	1.38
703269--703470	99	2.0	101	88	10	308	48	0	5	45	1.32
703446--703490	7	6.9	7	80	10	51	42	0	0	57	0.98
703445--703484	18	2.2	19	86	4	55	42	0	0	57	0.98
705682--705727	22	2.1	22	100	0	92	30	13	32	23	1.93
705972--706044	21	3.7	20	73	14	62	41	2	4	52	1.35
705981--706039	21	2.7	23	75	20	70	42	1	5	50	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
707874--708079	94	2.2	96	87	3	292	29	17	25	26	1.98
708425--708717	107	2.7	108	85	1	401	29	18	19	32	1.96
708416--708742	54	6.1	54	87	1	397	29	19	20	31	1.97
708416--708742	161	2.0	162	85	2	435	29	19	20	31	1.97
712337--712498	83	2.0	83	89	0	252	32	17	19	30	1.95
712477--712511	13	2.7	13	95	0	61	37	20	17	25	1.94
713142--713198	26	2.2	26	87	0	78	21	28	12	38	1.89
716885--716941	25	2.2	26	87	3	80	35	19	8	36	1.83
720802--720989	78	2.4	78	83	2	218	44	14	21	19	1.86
722385--722449	21	3.1	20	86	6	85	30	29	16	23	1.96

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