genome.fa.s8594.2.7.7.80.10.50.1000.3.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: VEPZ01008594.1 Hibiscus syriacus cultivar Beakdansim tig00111543_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1173925

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 631 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)
498047--498090	18	2.4	18	100	0	88	9	20	52	18	1.72
501418--501531	20	5.7	20	81	6	104	32	25	17	24	1.97
501415--501531	61	1.9	61	83	0	153	34	24	17	23	1.96
502110--502269	19	9.1	19	68	21	98	11	23	20	43	1.85
502132--502220	14	5.6	14	69	23	61	10	23	23	42	1.84
502115--502244	33	3.9	33	94	1	206	10	23	22	43	1.85
504407--504557	21	7.2	21	64	8	65	22	36	19	21	1.95
504385--504557	42	4.1	42	80	3	188	22	36	19	21	1.95
504352--504527	84	2.1	84	97	0	334	21	37	17	23	1.94
504352--504557	84	2.5	84	91	1	306	22	36	17	23	1.95
506041--506107	19	3.8	19	69	18	63	46	22	20	10	1.81
506116--506242	33	3.9	32	87	8	193	14	22	19	42	1.88
506109--506241	66	2.0	66	97	0	248	16	21	19	42	1.89
508523--508547	12	2.1	12	100	0	50	0	28	0	72	0.86
508721--508774	24	2.2	24	90	0	81	40	20	16	22	1.91
509826--509908	20	4.2	20	74	10	91	40	24	20	14	1.89
509934--509996	19	3.8	18	80	19	75	14	22	19	44	1.86
509952--509997	18	2.5	19	93	6	78	15	19	17	47	1.82
509996--510035	19	2.2	19	90	4	64	12	15	27	45	1.82
511898--511944	20	2.3	20	92	0	76	36	25	23	14	1.93
511895--512060	19	9.5	19	69	20	87	45	20	19	14	1.85
511954--512076	14	7.9	14	70	24	86	47	21	17	12	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
511938--512081	33	4.4	33	93	2	247	47	20	18	13	1.82
512110--512167	14	3.9	14	79	16	71	10	17	24	48	1.78
512093--512183	32	2.8	33	94	3	166	12	18	21	47	1.81
512156--512222	20	3.4	19	76	13	64	14	20	23	40	1.90
512699--512743	18	2.5	18	85	0	63	15	15	42	26	1.87
514056--514114	20	3.0	20	87	0	73	42	22	18	16	1.89
514370--514418	22	2.3	21	80	10	55	24	14	40	20	1.89
514377--514420	22	2.0	22	90	0	70	20	15	43	20	1.88
514605--514699	20	4.7	20	82	7	111	21	18	25	34	1.96
514585--514679	41	2.3	41	88	0	154	21	17	24	36	1.94
514605--514720	61	1.9	61	83	3	153	19	20	24	35	1.96
514770--514810	21	2.0	21	85	0	55	34	29	17	19	1.94
523442--523495	21	2.6	20	74	8	54	24	20	18	37	1.94
523481--523557	20	3.8	20	92	0	127	41	19	18	20	1.90
523544--523609	20	3.3	20	93	0	114	28	28	19	22	1.98
524452--524505	24	2.2	24	90	0	81	22	18	18	40	1.91
527000--527137	19	7.7	19	73	18	116	44	18	21	15	1.87
527000--527133	33	3.8	33	82	12	169	44	18	21	15	1.87
526993--527133	73	1.9	72	91	1	228	43	18	21	17	1.88
527133--527175	19	2.3	19	95	0	77	13	16	27	41	1.86
529255--529298	19	2.3	19	92	0	70	11	15	29	43	1.82
529264--529301	19	2.0	19	100	0	76	5	15	31	47	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
529284--529329	14	3.3	14	84	0	65	6	21	23	47	1.74
529432--529811	94	4.1	94	96	1	674	47	18	12	21	1.82
531516--531583	20	3.5	19	88	6	91	39	23	23	13	1.90
531556--531647	33	2.8	33	89	0	148	47	21	18	11	1.80
531507--531652	19	8.1	19	73	17	114	45	20	21	13	1.84
531679--531749	20	3.5	20	82	5	81	12	15	19	52	1.75
532331--532522	40	4.8	40	79	8	192	17	18	23	40	1.91
532308--532522	60	3.5	61	75	10	183	17	18	23	40	1.91
532310--532461	20	7.4	20	76	10	130	17	17	23	41	1.90
532470--532522	20	2.7	20	91	5	81	13	18	24	43	1.86
532867--532941	21	3.6	21	72	15	66	50	2	1	45	1.24
532867--532965	42	2.5	40	84	11	130	52	2	1	44	1.19
532883--532960	21	3.8	20	69	15	61	55	2	1	41	1.22
532949--532985	15	2.6	14	87	8	56	48	0	2	48	1.15
534746--534859	59	2.0	59	84	10	155	37	11	8	42	1.72
534990--535081	29	3.1	30	67	11	73	36	13	13	36	1.83
536927--536961	2	17.5	2	100	0	70	51	0	0	48	1.00
545435--545476	14	2.9	15	82	7	50	78	4	7	9	1.08
547144--547169	9	2.9	9	100	0	52	42	0	0	57	0.98
547750--547789	21	1.9	21	84	0	53	27	0	17	55	1.43
548549--548617	32	2.2	32	86	5	95	24	8	14	52	1.70
548832--548898	29	2.3	31	75	17	79	50	10	2	35	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
549070--549138	32	2.2	32	83	0	84	23	10	14	52	1.72
549352--549418	30	2.2	30	79	12	75	50	10	1	37	1.46
548453--549501	521	2.0	521	95	0	1893	40	10	11	38	1.75
549856--549893	6	6.2	6	96	3	67	50	0	2	47	1.15
553643--553779	60	2.3	59	89	1	220	56	10	10	22	1.64
556046--556095	21	2.4	21	93	0	91	34	12	20	34	1.89
559082--559179	36	2.8	35	81	3	115	43	24	1	30	1.61
560082--560123	19	2.2	19	100	0	84	33	0	26	40	1.56
572823--572851	14	2.1	14	100	0	58	55	0	0	44	0.99
575508--575554	24	1.9	24	86	4	67	25	21	10	42	1.85
578599--578628	5	6.0	5	100	0	60	0	60	0	40	0.97
583171--583281	31	3.6	31	91	0	186	42	22	16	18	1.89
583344--583368	12	2.1	12	100	0	50	20	16	24	40	1.91
585692--585768	7	11.3	7	72	10	52	16	1	33	48	1.55
585715--585768	20	2.6	21	73	23	60	20	0	27	51	1.47
586892--586917	12	2.2	12	100	0	52	50	0	7	42	1.31
595940--595999	21	2.9	21	97	0	111	35	21	20	23	1.96
597361--597444	22	3.8	21	73	20	73	44	1	2	52	1.21
597439--597488	23	2.2	22	85	3	64	38	2	2	58	1.21
597647--597709	22	2.8	22	71	22	58	41	1	3	53	1.26
598763--598820	21	2.8	21	89	2	82	53	20	3	22	1.60
599209--599434	113	2.0	113	100	0	452	46	9	8	35	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
601547--601583	2	18.5	2	100	0	74	51	0	0	48	1.00
609619--609712	41	2.3	41	83	5	109	35	14	17	32	1.90
610800--610863	27	2.4	27	97	0	119	29	14	14	42	1.84
618476--618506	16	1.9	16	93	0	53	16	12	0	70	1.16
619622--619664	2	22.0	2	95	4	79	51	0	0	48	1.00
621308--621406	49	2.0	49	94	0	171	49	4	32	14	1.61
621506--621564	23	2.6	23	97	0	109	38	8	23	28	1.84
624293--624367	21	3.7	21	83	13	86	34	30	14	20	1.92
624331--624385	21	2.6	21	88	0	83	36	29	16	18	1.92
624481--624521	15	2.8	15	81	3	57	17	21	60	0	1.35
630739--630769	15	2.1	15	100	0	62	12	19	35	32	1.90
638184--638240	9	6.7	9	76	11	57	31	1	1	64	1.13
638183--638232	17	3.0	17	91	2	75	34	2	4	60	1.27
638192--638237	16	2.9	16	87	6	58	30	2	2	65	1.16
642492--642527	15	2.4	15	95	0	63	25	5	30	38	1.78
646398--646423	3	8.7	3	100	0	52	30	0	0	69	0.89
646770--646835	31	2.1	31	100	0	132	18	9	12	60	1.57
648622--648672	23	2.2	23	80	16	61	62	9	1	25	1.36
649145--649205	21	2.9	21	92	0	104	26	29	21	22	1.99
649266--649319	28	1.9	28	81	7	65	38	22	1	37	1.65
650992--651160	82	2.1	82	93	0	284	34	21	15	27	1.94
652415--652481	17	3.8	17	70	14	55	44	1	1	52	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
652797--652848	22	2.3	22	90	3	77	53	0	0	46	1.00
652810--652853	22	2.0	22	86	8	63	56	0	0	43	0.99
652805--652861	22	2.5	22	83	8	62	56	0	1	42	1.10
653159--653808	185	3.5	186	79	6	590	38	11	16	33	1.85
654068--654300	73	3.2	70	75	7	200	44	6	13	36	1.68
654087--654294	70	2.9	73	76	7	203	44	6	13	35	1.70
657071--657403	38	8.9	37	82	8	345	45	3	5	45	1.42
659616--659649	10	3.1	11	87	12	52	17	8	0	73	1.08
662842--662887	24	1.9	24	100	0	92	50	6	4	39	1.48
663064--663192	53	2.4	54	94	2	224	55	10	4	30	1.54

Tables:   1   2   3   4   5   6