genome.fa.s114.2.7.7.80.10.50.1000.3.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: VEPZ01000114.1 Hibiscus syriacus cultivar Beakdansim tig00000205_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  799156

Tables:   1   2   3   4   

This is table  3  of  4  ( 434 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)
459359--459415	19	3.0	19	80	16	73	26	33	28	12	1.92
459359--459475	9	12.3	9	70	20	78	32	29	24	13	1.94
459389--459471	27	3.0	28	89	7	116	38	28	19	13	1.89
459365--459476	20	5.8	19	71	18	72	33	29	23	14	1.94
465929--465986	5	11.8	5	88	3	91	3	18	56	20	1.56
465928--465986	29	2.0	29	93	0	100	3	20	55	20	1.57
465929--465978	19	2.6	19	93	3	82	4	18	58	20	1.55
465983--466052	10	7.3	9	78	9	68	27	30	28	14	1.95
467568--467654	31	2.8	31	74	10	79	12	27	33	26	1.93
469021--469086	33	2.0	33	82	5	80	30	1	33	34	1.67
469071--469167	13	8.0	12	72	22	62	28	3	37	30	1.73
469040--469168	36	3.7	35	87	6	172	29	3	35	31	1.73
473476--473624	3	48.0	3	66	20	58	60	2	6	31	1.32
473476--473624	10	14.3	10	66	22	60	60	2	6	31	1.32
475557--475650	39	2.4	40	85	3	113	36	25	15	22	1.94
476414--476575	79	2.1	79	96	2	299	36	12	8	42	1.73
480106--480224	24	5.0	24	85	4	150	25	15	18	40	1.90
485991--486095	50	2.1	50	83	1	131	54	10	11	23	1.67
486033--486177	74	2.0	70	93	5	245	46	9	11	33	1.72
488368--488668	128	2.3	127	88	3	442	46	9	8	34	1.68
488907--488990	3	28.0	3	85	4	98	61	1	0	36	1.04
489327--489766	116	3.8	112	81	8	449	26	18	14	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
491266--491317	20	2.7	20	88	8	72	3	13	0	82	0.80
491265--491320	13	4.6	12	79	16	53	3	14	0	82	0.81
499794--499865	24	3.0	24	85	0	99	50	19	11	19	1.77
499797--499904	24	4.5	24	70	11	87	47	17	14	20	1.83
502387--502428	18	2.3	18	87	0	66	11	19	50	19	1.78
502396--502435	18	2.2	18	90	0	62	12	20	47	20	1.81
503467--503628	77	2.1	75	93	4	279	36	12	8	42	1.73
505398--505440	18	2.4	18	96	0	77	11	18	48	20	1.79
511304--511523	73	3.0	74	94	3	392	46	10	10	31	1.74
511331--511451	38	3.3	38	63	27	89	43	11	11	33	1.77
515028--515189	79	2.1	79	97	0	306	37	12	8	41	1.73
517048--517090	18	2.4	18	96	0	77	11	18	48	20	1.79
523002--523125	39	3.3	39	64	28	104	44	11	11	33	1.76
522975--523197	74	3.0	74	97	0	419	46	10	10	31	1.73
523003--523114	35	3.1	35	65	27	81	46	12	10	30	1.76
523036--523153	39	3.1	39	63	30	101	46	8	10	34	1.68
526707--526868	79	2.1	79	97	0	306	37	12	8	41	1.73
529848--529878	11	2.9	11	95	4	55	70	0	9	19	1.14
532046--532150	50	2.1	49	82	5	122	53	10	12	23	1.69
549475--549517	18	2.4	18	96	0	77	11	18	48	20	1.79
555426--555549	39	3.3	39	64	28	104	44	11	11	33	1.76
555399--555620	74	3.0	74	97	0	410	46	10	10	31	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
555427--555538	35	3.1	35	65	27	81	46	12	10	30	1.76
555460--555577	39	3.1	39	63	30	101	46	8	10	34	1.68
559125--559285	79	2.0	79	97	0	304	36	12	8	42	1.74
563944--563972	15	1.9	15	100	0	58	41	17	27	13	1.87
563968--564074	24	4.5	24	74	0	97	47	16	14	21	1.82
563968--564076	48	2.3	48	77	0	119	47	16	14	21	1.82
566029--566071	13	3.3	13	90	9	70	18	23	39	18	1.92
573659--573704	21	2.1	21	84	4	56	23	26	17	32	1.97
575974--575999	6	4.3	6	100	0	52	15	0	0	84	0.62
576654--576694	21	1.9	22	85	5	57	58	2	2	36	1.24
577967--578004	20	1.9	20	88	0	58	21	13	39	26	1.89
585604--585638	2	17.5	2	100	0	70	48	0	0	51	1.00
586174--586216	22	2.0	22	86	9	61	67	2	0	30	1.03
586190--586254	16	4.4	14	74	16	53	70	1	0	27	0.96
586273--586301	14	2.1	14	93	6	51	37	0	6	55	1.27
586991--587049	2	29.5	2	100	0	118	49	0	0	50	1.00
587183--587436	36	7.1	36	80	12	233	47	3	4	44	1.40
587183--587436	38	7.1	37	78	14	205	47	3	4	44	1.40
587199--587436	69	3.3	70	80	14	240	47	2	5	44	1.40
587437--587478	15	2.8	15	89	7	59	26	2	0	71	0.98
588819--588876	30	1.9	30	96	0	107	31	3	18	46	1.66
588960--589067	8	15.0	8	69	23	71	25	34	15	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
588967--589066	21	4.8	21	82	11	125	25	34	16	25	1.95
588960--589063	13	7.9	13	66	24	51	25	33	16	25	1.96
589105--589152	20	2.3	21	89	3	71	20	33	18	27	1.96
592379--592438	30	2.0	30	96	0	111	30	5	20	45	1.72
592522--592629	8	15.0	8	69	23	71	25	34	15	25	1.95
592522--592625	13	7.9	13	66	24	51	25	33	16	25	1.96
592529--592723	21	9.8	20	77	13	127	26	30	16	26	1.97
598686--598747	23	2.7	23	92	2	99	22	32	25	19	1.97
602970--603062	11	8.1	11	71	20	50	19	4	2	74	1.09
607964--607996	13	2.5	13	81	18	50	39	9	0	51	1.34
608788--608857	31	2.3	31	89	0	113	31	20	10	38	1.85
609462--609510	16	3.1	16	76	8	55	24	6	16	53	1.66
612236--612260	5	5.0	5	100	0	50	40	0	0	60	0.97
612433--612519	43	2.0	43	93	0	147	31	16	8	44	1.76
613472--613529	30	1.9	30	85	0	80	34	18	31	15	1.93
613751--613806	24	2.3	24	93	0	94	39	14	16	30	1.88
615137--615169	7	4.7	7	96	0	57	42	12	0	45	1.41
618167--618513	48	7.3	48	75	6	262	26	25	14	32	1.95
618174--618505	95	3.5	95	77	7	321	27	24	15	32	1.95
618945--619140	37	5.3	37	69	16	129	40	13	17	28	1.87
619145--619213	23	3.0	23	86	0	93	39	10	20	30	1.85
619185--619279	39	2.4	39	85	3	120	37	13	24	24	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
619291--619318	14	2.0	14	100	0	56	28	14	28	28	1.95
619309--619433	37	3.3	38	78	8	105	42	12	19	26	1.86
619336--619538	39	5.3	39	80	5	193	40	10	22	26	1.87
619355--619418	21	3.2	20	70	30	57	43	9	18	28	1.81
621573--621608	16	2.2	16	95	0	63	52	5	13	27	1.63
621781--622057	127	2.2	128	83	4	353	43	11	18	26	1.84
622023--622081	29	2.0	29	87	6	84	47	3	18	30	1.65
623189--623387	91	2.2	91	88	0	299	25	22	14	38	1.91
623305--623458	75	2.1	74	90	1	236	24	22	15	37	1.93
623211--623541	166	2.0	166	89	1	502	25	21	16	36	1.93
623376--623619	91	2.7	91	86	2	346	25	20	16	38	1.93
624171--624214	21	2.1	21	84	16	56	43	4	22	29	1.73
624455--624606	58	2.6	56	78	8	162	39	18	11	30	1.86
627641--627743	11	9.4	11	72	21	67	1	14	2	80	0.91
627641--627714	14	5.5	13	84	9	78	1	16	0	82	0.74
627653--627729	7	9.8	8	82	12	81	0	14	2	83	0.76
627653--627709	30	1.9	29	89	10	89	0	15	0	84	0.63
627641--627728	8	11.6	7	84	8	86	1	14	2	81	0.84
627641--627761	54	2.1	59	82	10	146	4	14	3	78	1.02
627644--627742	44	2.2	47	81	5	114	2	15	3	79	0.94
629058--629091	13	2.6	13	95	0	59	52	14	17	14	1.74
631482--631536	17	3.2	17	80	12	60	72	7	5	14	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
631958--632254	112	2.6	112	86	4	375	39	18	18	23	1.92
631979--632288	112	2.7	113	82	8	339	44	17	16	21	1.86
633779--633842	29	2.2	29	97	0	119	31	14	3	51	1.57
633846--633875	4	7.5	4	92	0	51	26	0	0	73	0.84
633891--634176	104	2.7	106	84	7	364	23	21	15	38	1.92
634322--634361	17	2.4	17	87	8	55	20	10	10	60	1.57
634602--634641	16	2.5	17	84	11	50	15	2	10	72	1.21
638010--638085	30	2.5	31	82	2	82	46	3	7	42	1.51
642229--642327	2	50.0	2	97	2	191	50	0	0	49	1.00
644786--645025	119	2.0	120	95	0	428	25	18	16	39	1.91

Tables:   1   2   3   4