genome.fa.s3053.2.7.7.80.10.50.1000.3.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: VEPZ01003053.1 Hibiscus syriacus cultivar Beakdansim tig00006365_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  776842

Tables:   1   2   3   

This is table  3  of  3  ( 335 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)
579439--579481	16	2.7	16	85	0	59	30	11	6	51	1.65
579557--579637	29	2.8	29	72	18	80	61	1	2	34	1.17
586773--586827	21	2.6	21	91	0	83	43	25	7	23	1.79
594226--594304	26	3.0	26	75	10	72	43	21	15	20	1.88
595157--595190	17	2.0	17	100	0	68	23	29	11	35	1.90
599069--599665	5	120.2	5	95	3	1082	60	20	0	19	1.37
599663--599696	5	6.8	5	93	0	59	44	0	14	41	1.45
602079--602382	159	1.9	159	99	0	590	31	19	9	38	1.85
607511--607541	12	2.6	12	89	0	53	51	0	0	48	1.00
610434--610497	22	3.2	19	76	10	65	34	15	21	28	1.94
610533--610574	22	2.0	21	85	4	57	33	11	30	23	1.91
610539--610592	22	2.6	19	76	18	54	31	11	29	27	1.91
610993--611156	79	2.1	79	85	0	220	39	10	22	26	1.87
611081--611402	45	7.2	44	82	6	290	38	9	22	29	1.86
611113--611402	90	3.2	90	83	4	388	38	9	21	30	1.85
611113--611402	135	2.1	135	85	3	388	38	9	21	30	1.85
612086--612119	2	17.0	2	100	0	68	50	0	0	50	1.00
618973--619025	17	3.1	17	80	0	52	28	39	13	18	1.88
618979--619029	17	3.0	17	82	0	57	31	43	11	13	1.80
619622--619698	30	2.6	30	87	0	100	18	28	23	29	1.97
619906--619936	2	15.5	2	100	0	62	48	0	0	51	1.00
626696--627167	59	8.0	59	89	2	680	34	19	11	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
626696--627167	178	2.7	177	88	2	689	34	19	11	33	1.89
627490--627662	94	1.8	94	81	3	213	28	23	13	34	1.93
633842--634245	59	6.8	59	91	2	605	36	19	10	34	1.86
633836--634245	178	2.3	178	91	0	669	36	19	10	33	1.86
634087--634245	31	5.3	31	62	12	98	35	18	10	35	1.84
638363--638642	106	2.6	106	91	2	447	26	25	17	30	1.97
638822--638899	39	2.0	40	85	9	108	53	0	11	34	1.37
639924--639963	18	2.2	19	86	13	57	42	17	17	22	1.89
639959--640006	22	2.3	22	89	7	73	27	14	29	29	1.95
640332--640663	56	5.9	56	86	4	431	37	17	19	25	1.93
640335--640663	112	2.9	112	88	2	484	38	17	19	25	1.93
644888--645064	93	1.9	92	86	7	252	35	16	23	25	1.95
645446--645707	56	4.7	56	87	1	357	37	17	20	24	1.93
645457--645707	111	2.2	112	90	0	387	37	17	19	25	1.93
648017--648261	56	4.4	55	91	2	382	23	20	18	36	1.95
649021--649082	25	2.4	26	86	2	81	38	14	11	35	1.82
649439--649486	21	2.3	21	81	0	51	25	0	10	64	1.25
649631--649922	145	2.0	145	97	0	548	31	17	22	28	1.96
652177--652406	59	3.9	59	93	0	379	36	22	17	23	1.95
657174--657217	7	6.3	7	100	0	88	40	0	43	15	1.47
658596--658622	10	2.7	10	100	0	54	37	0	0	62	0.95
660073--660110	19	2.0	19	100	0	76	42	5	5	47	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
660076--660119	19	2.3	19	92	0	70	45	4	2	47	1.35
661538--661601	32	1.9	34	84	9	87	31	34	12	21	1.91
661534--661613	34	2.3	35	77	14	85	30	41	10	18	1.83
662608--662936	45	7.3	45	89	0	478	31	20	9	38	1.85
662591--662976	90	4.3	90	86	2	508	31	21	9	37	1.85
662591--662976	135	2.9	134	85	3	488	31	21	9	37	1.85
669646--669896	45	5.6	45	86	2	308	29	21	11	37	1.88
672253--672308	16	3.7	15	83	4	60	37	1	7	53	1.39
673414--673460	6	7.8	6	79	9	51	6	0	8	85	0.75
673414--673463	20	2.5	20	83	3	66	6	0	8	86	0.72
673422--673461	10	3.9	11	78	15	50	7	0	7	85	0.76
673415--673462	24	2.0	25	87	4	71	6	0	8	85	0.74
682425--682479	26	2.1	26	93	0	92	40	12	18	29	1.87
682431--682490	26	2.3	26	85	0	75	46	10	15	28	1.77
683419--683544	67	1.9	67	86	3	182	54	10	21	13	1.68
684023--684062	21	1.9	21	100	0	80	32	25	22	20	1.98
690280--690312	12	2.6	13	90	4	50	36	9	3	51	1.49
691874--691898	7	3.6	7	100	0	50	44	32	0	24	1.54
692055--692115	12	4.8	13	78	8	72	39	11	8	40	1.71
692055--692115	25	2.4	25	100	0	122	39	11	8	40	1.71
692156--692189	12	2.7	13	86	9	52	44	8	5	41	1.60
698058--698116	29	2.0	29	83	0	73	27	16	30	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
705034--705092	29	2.0	29	83	0	73	27	16	30	25	1.97
712007--712065	29	2.0	29	83	0	73	27	16	30	25	1.97
716675--716720	3	15.3	3	100	0	92	32	0	0	67	0.91
717693--717732	19	2.1	19	90	4	62	60	2	0	37	1.11
718880--718945	29	2.3	29	84	5	80	50	3	0	46	1.16
718888--718969	29	3.0	27	75	20	73	47	2	1	48	1.22
719298--719362	29	2.2	29	86	5	87	49	3	0	47	1.17
729154--730240	138	7.9	138	90	0	1577	25	21	16	37	1.93
731091--731138	14	3.6	13	78	13	53	2	16	0	81	0.79
731096--731204	9	11.6	9	74	19	55	7	14	0	77	0.96
731094--731209	37	3.3	35	78	17	125	6	15	0	77	0.97
731093--731183	39	2.3	40	82	15	111	6	15	0	78	0.95
731092--731209	8	15.6	7	74	15	78	6	16	0	77	0.98
734600--734761	7	23.3	7	99	0	317	58	0	27	14	1.37
738616--738738	64	1.9	65	86	5	178	37	19	8	34	1.82
746113--746238	32	4.1	30	75	12	105	56	0	1	41	1.14
746142--746240	44	2.4	42	80	13	107	56	1	1	41	1.13
746121--746212	14	6.1	15	70	19	66	55	1	0	43	1.07
749817--749887	36	2.0	36	85	0	97	12	15	25	46	1.81
750228--750273	16	2.9	16	80	0	65	39	15	28	17	1.90
751798--751897	28	3.4	28	76	9	92	39	11	11	39	1.76
757440--757510	24	3.0	24	91	0	124	38	16	23	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
764514--764543	15	2.0	15	93	0	51	60	0	23	16	1.36
768404--768445	6	6.8	6	86	10	50	0	11	2	85	0.68
768403--768445	13	3.4	13	81	15	54	0	11	2	86	0.67
768410--768439	7	4.4	7	95	4	53	0	13	0	86	0.57
768625--768671	20	2.3	20	86	13	62	63	0	19	17	1.30
768633--768672	10	4.3	9	82	17	55	62	0	22	15	1.32
772707--772744	20	1.9	20	84	10	51	39	21	13	26	1.89

Tables:   1   2   3

The End!