genome.fa.s250.2.7.7.80.10.50.1000.3.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: VEPZ01000250.1 Hibiscus syriacus cultivar Beakdansim tig00000452_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2850692

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  3  of  12  ( 1407 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)
469199--469297	2	49.5	2	87	0	144	52	44	0	3	1.16
471436--471466	12	2.6	12	100	0	62	51	16	16	16	1.77
472891--472941	23	2.3	23	87	9	72	49	1	0	49	1.12
482387--482485	31	3.2	30	75	16	103	45	5	6	43	1.50
484634--484672	21	1.9	20	85	15	53	43	0	2	53	1.14
486595--486638	22	2.0	21	86	4	61	31	18	9	40	1.81
487420--487484	25	2.8	22	76	13	67	15	9	16	58	1.62
493690--493889	95	2.1	95	83	1	240	39	14	20	26	1.90
494234--494576	54	6.4	54	89	2	510	31	20	19	29	1.97
494378--494517	27	5.2	27	61	24	71	31	20	21	27	1.98
502036--502171	71	1.9	71	95	0	245	36	15	8	39	1.78
502414--502464	25	2.0	25	96	0	93	56	5	0	37	1.23
504274--504321	18	2.7	18	86	0	69	41	6	4	47	1.48
506178--507665	8	186.2	8	96	0	2053	25	6	24	43	1.78
507663--507721	23	2.5	24	83	5	75	44	16	3	35	1.65
508222--508281	31	2.0	31	90	3	95	28	10	13	48	1.74
509907--509932	5	5.2	5	100	0	52	61	0	0	38	0.96
516119--516190	17	4.2	17	77	7	56	41	6	11	40	1.67
528563--528607	20	2.2	20	96	0	81	35	13	24	26	1.92
528859--528913	22	2.5	22	93	0	92	41	14	14	29	1.85
529059--529097	20	2.0	20	94	0	69	30	20	25	23	1.98
534167--534505	54	6.3	54	91	0	534	38	16	12	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538477--538910	42	9.9	42	69	14	200	32	20	16	30	1.95
538477--539048	177	3.2	177	84	2	716	32	20	16	30	1.95
538828--539455	135	4.6	136	86	4	851	30	22	17	29	1.97
538965--539050	45	2.0	44	86	6	122	32	19	19	27	1.97
539038--539062	13	1.9	13	100	0	50	24	20	24	32	1.98
539233--539496	42	6.0	43	71	17	166	29	22	19	28	1.98
539305--539329	13	1.9	13	100	0	50	24	20	24	32	1.98
539275--539587	93	3.4	91	69	12	266	29	22	18	30	1.97
539368--539479	45	2.6	42	86	8	161	31	24	17	26	1.97
539246--539587	180	1.9	180	90	0	549	29	21	19	29	1.97
539462--539714	127	2.0	127	90	1	400	29	21	16	32	1.95
539833--540331	42	11.2	42	66	19	170	30	21	18	29	1.97
539844--539912	25	3.0	24	69	14	65	31	24	17	26	1.97
539985--540044	22	2.9	21	71	14	61	31	23	18	26	1.97
540041--540065	13	1.9	13	100	0	50	24	20	24	32	1.98
539807--540323	135	3.8	135	91	0	773	30	21	17	29	1.96
540252--540316	20	3.1	21	65	30	57	33	23	15	27	1.95
541817--542053	125	1.9	125	92	3	397	25	24	15	34	1.95
550906--550953	22	2.3	20	86	10	69	75	12	12	0	1.06
561197--561378	93	2.0	90	88	5	267	29	9	22	39	1.85
563993--564219	111	2.0	111	90	0	355	30	16	17	35	1.92
565298--565710	205	2.0	204	98	1	801	27	15	25	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
571017--571243	112	2.0	112	90	3	359	30	16	18	33	1.94
573452--573485	17	1.9	18	88	5	52	44	5	11	38	1.65
583068--583182	40	2.9	40	88	0	176	21	16	27	33	1.95
585769--585803	18	1.9	18	88	11	54	71	5	0	22	1.07
586614--586672	28	2.1	28	84	9	75	0	13	11	74	1.07
587042--587158	3	38.7	3	91	1	189	63	2	0	33	1.14
587455--588054	113	5.3	113	94	0	1002	28	19	14	37	1.91
588645--589466	52	15.7	52	95	2	1382	38	22	15	24	1.92
590407--590523	1	117.0	1	72	0	81	0	14	0	85	0.60
590407--590520	9	12.7	9	76	14	103	0	14	0	85	0.61
590410--590526	6	20.3	6	77	18	92	0	15	0	84	0.62
590407--590522	25	4.9	23	80	15	121	0	14	0	85	0.60
590407--590525	36	3.5	33	82	15	122	0	15	0	84	0.61
590406--590523	15	7.5	15	80	12	114	0	15	0	84	0.62
601059--601100	18	2.4	17	88	11	59	69	2	0	28	1.01
601858--601893	19	1.9	19	94	5	65	72	5	0	22	1.05
602702--602761	30	2.0	30	83	9	77	0	13	11	75	1.06
603131--603266	3	44.7	3	89	2	209	63	2	0	33	1.12
605001--605052	9	6.1	9	76	13	56	32	1	1	63	1.16
605000--605049	17	3.0	17	91	2	75	34	2	4	60	1.27
605009--605054	16	2.9	16	87	6	58	30	2	2	65	1.16
606601--606657	27	2.1	27	83	0	69	17	47	14	21	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
606973--607005	9	3.7	9	95	0	57	48	27	24	0	1.51
607247--607331	35	2.5	33	76	14	82	27	8	9	55	1.60
616051--616095	22	2.0	22	82	0	54	46	17	4	31	1.68
617318--617368	20	2.5	20	87	6	68	35	31	3	29	1.76
624865--624928	30	2.2	29	80	5	74	34	18	7	39	1.80
625677--625706	15	1.9	15	93	6	51	3	13	0	83	0.77
629272--629426	68	2.2	68	88	2	229	25	20	23	30	1.98
632332--632383	24	2.1	25	82	3	61	38	5	11	44	1.65
634523--634556	16	2.1	16	88	0	50	82	0	11	5	0.83
635173--635219	17	2.9	17	87	6	62	57	4	2	36	1.30
636184--636219	2	18.5	2	94	5	65	50	0	0	50	1.00
638307--638354	18	2.7	18	93	0	78	29	31	20	18	1.97
639378--639506	59	2.2	59	88	0	186	27	26	18	27	1.98
643040--643109	19	3.9	17	76	14	70	5	17	0	77	0.96
643052--643157	12	8.4	12	72	20	58	3	17	0	77	0.97
643059--643157	22	4.5	21	73	17	85	3	17	1	78	0.93
643041--643158	38	3.2	35	76	16	114	4	16	0	77	0.97
643069--643145	28	2.7	27	83	15	102	3	18	1	76	1.01
652590--652638	24	2.0	24	96	0	89	53	20	12	14	1.73
655007--655054	2	24.0	2	100	0	96	50	0	0	50	1.00
656158--656203	23	2.0	24	86	4	67	32	13	21	32	1.92
656101--656479	118	3.3	115	72	15	365	37	13	17	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
655886--656588	226	3.1	226	89	1	1054	38	12	16	32	1.87
659411--659459	21	2.3	21	100	0	98	18	28	22	30	1.97
662207--662364	66	2.4	63	84	9	187	31	22	17	28	1.96
662207--662386	64	2.8	63	81	9	195	31	22	17	28	1.97
670195--670252	28	2.0	27	81	15	64	20	3	20	55	1.58
670995--671026	16	2.1	16	94	5	57	28	31	18	21	1.97
670927--671087	82	2.0	79	82	8	191	29	23	18	27	1.98
673987--674234	129	1.9	129	88	1	372	35	20	15	29	1.93
675306--675356	20	2.5	20	100	0	102	21	15	21	41	1.90
674857--675798	462	2.0	467	87	1	1345	29	13	14	42	1.84
677309--677362	12	4.5	12	75	6	56	57	5	9	27	1.52
677309--677362	24	2.2	24	83	0	72	57	5	9	27	1.52
677310--677385	36	2.1	37	87	2	109	55	7	9	27	1.59
677948--678031	12	7.2	12	78	8	93	1	42	0	55	1.07
677956--678033	21	3.6	21	70	16	59	1	42	0	56	1.07
677955--678033	33	2.4	33	79	8	97	1	41	0	56	1.07
679612--680026	230	1.8	230	87	2	618	37	20	6	36	1.78
680329--680438	32	3.4	32	93	0	193	45	8	11	34	1.71
680488--680807	174	1.8	174	89	1	498	34	13	10	41	1.79
681052--681155	42	2.5	42	93	1	172	51	19	3	25	1.63
690539--690673	66	2.0	66	95	0	243	46	14	9	29	1.76
691258--691979	365	2.0	358	83	5	909	32	22	10	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
692183--692221	10	3.7	10	93	6	60	12	2	76	7	1.09
692559--692598	21	2.0	20	90	5	62	57	2	0	40	1.12
692634--692687	27	2.0	28	85	10	76	42	1	5	50	1.36
692864--692888	2	12.5	2	100	0	50	48	0	0	52	1.00
692956--693021	30	2.2	29	89	5	105	33	7	0	59	1.26
694975--695070	26	3.6	25	73	21	65	42	3	2	52	1.29
695082--695171	24	3.7	24	67	19	62	42	2	0	55	1.12
696104--696174	17	4.0	18	77	12	58	52	1	1	45	1.18
696134--696193	14	4.4	14	70	19	54	56	0	3	40	1.16
696725--697322	299	2.0	297	87	4	873	35	20	15	28	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12