genome.fa.s9233.2.7.7.80.10.50.1000.2.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: VEPZ01009233.1 Hibiscus syriacus cultivar Beakdansim tig00112852_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  663203

Tables:   1   2   3   

This is table  2  of  3  ( 300 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)
341085--341232	29	5.0	30	78	9	117	22	18	10	48	1.78
342401--342447	23	2.0	23	84	8	60	31	17	0	51	1.46
342727--342778	18	2.9	18	82	0	68	30	28	19	21	1.97
344872--344918	23	2.0	23	84	8	60	29	19	0	51	1.47
345198--345249	18	2.9	18	82	0	68	30	28	19	21	1.97
346842--346868	8	3.4	8	100	0	54	55	11	0	33	1.35
347144--347179	17	2.1	17	100	0	72	16	25	27	30	1.97
349921--349953	16	2.1	16	94	0	57	30	15	27	27	1.96
352503--352545	21	2.0	21	81	4	50	46	18	2	32	1.62
352794--352820	14	1.9	14	100	0	54	51	0	0	48	1.00
354566--354859	4	73.5	4	99	0	570	49	24	0	25	1.55
365364--365410	3	16.0	3	82	4	60	29	4	31	34	1.77
371985--372019	2	17.5	2	100	0	70	48	0	51	0	1.00
372383--372408	2	13.0	2	100	0	52	50	0	0	50	1.00
376613--376663	24	2.2	23	82	10	59	23	13	15	47	1.82
376690--376731	21	2.0	21	90	0	66	23	9	9	57	1.60
381200--381551	180	2.0	181	82	5	444	25	24	17	32	1.97
382380--382408	13	2.2	13	100	0	58	44	6	10	37	1.65
389363--389402	21	1.9	21	89	0	62	25	40	25	10	1.86
391333--391380	17	2.9	17	80	17	57	14	0	27	58	1.37
391614--391686	30	2.3	31	88	6	112	39	4	17	38	1.69
391995--392201	75	2.7	75	89	2	299	24	32	23	19	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
392239--392278	21	1.9	21	89	0	62	25	35	25	15	1.94
393483--393520	19	2.0	19	100	0	76	21	15	26	36	1.93
398374--398419	5	9.2	5	95	0	74	54	0	26	19	1.44
400588--400930	180	1.9	180	81	4	415	26	24	17	31	1.97
408148--408191	23	2.0	23	86	8	65	18	29	15	36	1.92
408812--408889	35	2.2	35	90	0	120	46	17	11	24	1.82
411098--411207	42	2.5	46	73	13	120	24	13	18	43	1.86
413547--413578	15	2.1	15	94	0	55	53	15	25	6	1.65
415782--415824	22	2.0	22	86	4	61	18	16	27	37	1.92
417480--417509	15	2.0	15	93	0	51	26	20	3	50	1.64
425165--425201	18	2.1	18	89	0	56	29	13	2	54	1.53
425723--426158	122	3.6	121	92	2	678	39	15	20	25	1.91
426461--426502	16	2.6	16	88	0	66	47	16	19	16	1.83
427037--427075	17	2.4	16	83	8	51	69	0	7	23	1.14
427500--427609	2	55.5	2	98	1	213	50	50	0	0	1.00
435384--435446	33	1.9	33	90	0	99	20	22	34	22	1.96
440957--440992	5	7.2	5	90	0	54	58	2	19	19	1.52
444725--445065	173	2.0	173	94	1	594	30	16	18	34	1.93
445119--445159	19	2.2	18	87	12	57	29	4	9	56	1.53
452371--452408	20	1.9	20	94	0	67	31	18	23	26	1.97
453154--453255	30	3.4	30	91	1	152	21	19	26	32	1.97
455250--455304	23	2.4	23	90	0	83	25	29	3	41	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
456988--457058	34	2.2	32	87	5	97	22	30	15	30	1.95
457272--457311	21	1.9	22	90	10	66	12	10	40	37	1.77
457458--457502	21	2.1	22	88	12	67	15	26	33	24	1.95
457734--457791	19	3.1	18	76	11	62	48	8	13	29	1.73
458806--458853	19	2.5	20	82	3	62	31	10	6	52	1.60
459565--459634	34	2.1	34	84	5	90	24	30	14	31	1.94
459919--459960	21	2.0	21	95	0	75	21	28	21	28	1.99
459991--460041	17	3.0	17	91	0	84	25	13	35	25	1.93
460067--460106	21	1.9	21	90	10	64	17	22	37	22	1.94
460156--460226	30	2.4	29	81	6	88	47	12	4	35	1.61
461656--461714	21	2.8	22	72	15	61	25	6	1	66	1.26
463297--463590	146	2.0	148	97	2	556	47	10	17	24	1.78
467371--467403	15	2.2	15	94	0	57	18	12	30	39	1.87
469919--470264	180	1.9	180	80	5	405	26	23	16	33	1.96
473429--473522	28	3.4	28	66	20	79	42	19	8	29	1.80
474253--474676	225	1.9	225	89	3	667	29	19	24	27	1.98
483604--483628	5	5.0	5	100	0	50	60	0	20	20	1.37
486872--486919	22	2.1	23	88	11	73	54	0	2	43	1.12
487137--487175	20	2.0	20	84	0	51	41	12	20	25	1.88
487234--488070	211	4.0	208	95	2	1443	23	18	24	33	1.97
487424--488070	105	6.2	105	97	1	1208	23	18	24	33	1.97
501072--501119	22	2.1	23	88	11	73	54	0	2	43	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
505939--505970	16	1.9	17	93	6	57	31	0	12	56	1.37
511012--511169	21	7.8	20	72	7	95	38	25	16	18	1.92
511012--511186	20	8.6	20	70	11	90	39	26	16	18	1.91
511175--511445	20	13.6	20	87	4	332	34	25	18	22	1.96
512127--512173	24	2.0	24	87	8	69	25	14	21	38	1.92
514654--514798	33	4.2	34	81	11	161	45	18	21	14	1.85
514668--514804	19	7.7	19	76	17	150	44	18	21	16	1.87
514668--514804	72	1.9	71	88	4	204	44	18	21	16	1.87
514813--514910	19	5.4	19	83	13	134	15	21	17	45	1.84
514794--514910	53	2.2	53	95	1	209	14	23	17	43	1.87
515016--515051	13	2.6	14	86	4	56	47	22	0	30	1.52
517030--517086	14	3.7	14	77	20	60	45	22	21	10	1.82
517011--517103	33	2.8	33	93	0	159	48	21	19	10	1.79
516974--517108	19	7.6	19	75	16	119	46	23	18	11	1.81
517104--517232	19	7.3	19	74	17	116	9	17	27	45	1.78
517104--517195	33	2.8	33	91	3	141	8	18	27	45	1.78
517280--517746	93	5.1	93	97	1	886	45	18	12	22	1.83
517280--517746	185	2.5	186	97	1	886	45	18	12	22	1.83
519445--519558	33	3.5	33	93	2	203	46	19	22	11	1.82
519499--519563	19	3.7	19	74	19	77	44	21	23	10	1.83
519453--519541	14	5.7	14	69	21	61	43	21	23	11	1.84
519575--519631	14	3.7	14	75	20	60	10	24	22	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
519572--519636	33	2.0	33	100	0	130	10	24	21	43	1.84
519615--519692	41	1.9	41	97	0	147	12	25	16	44	1.83
519616--519691	21	3.7	21	83	3	109	11	25	17	46	1.82
519771--519841	33	2.2	33	92	0	115	47	18	22	11	1.80
520023--520077	22	2.5	22	81	0	74	20	16	40	23	1.91
520224--520316	20	4.7	20	89	2	134	18	19	29	33	1.95
520284--520460	20	8.8	20	70	11	94	18	16	26	38	1.91
520303--520405	21	5.0	21	76	5	84	23	16	24	35	1.95
520303--520460	42	3.9	41	69	15	112	18	16	25	38	1.92
526164--526321	21	7.8	20	72	7	95	38	25	16	18	1.92
526164--526338	20	8.6	20	70	11	90	39	26	16	18	1.91
526327--526597	20	13.6	20	87	4	332	34	25	18	22	1.96
527279--527325	24	2.0	24	87	8	69	25	14	21	38	1.92
529806--529950	33	4.2	34	81	11	161	45	18	21	14	1.85
529820--529956	19	7.7	19	76	17	150	44	18	21	16	1.87
529820--529956	72	1.9	71	88	4	204	44	18	21	16	1.87
529965--530062	19	5.4	19	83	13	134	15	21	17	45	1.84
529946--530062	53	2.2	53	95	1	209	14	23	17	43	1.87
530169--530205	14	2.6	14	91	0	65	45	21	0	32	1.52
532185--532241	14	3.7	14	77	20	60	45	22	21	10	1.82
532166--532258	33	2.8	33	93	0	159	48	21	19	10	1.79
532129--532263	19	7.6	19	75	16	119	46	23	18	11	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
532259--532387	19	7.3	19	75	17	125	8	17	28	45	1.77
532259--532350	33	2.8	33	93	3	150	7	18	28	45	1.76
532435--532903	93	5.1	93	98	0	913	46	19	12	21	1.83
534610--534699	14	5.7	14	69	23	63	44	22	23	10	1.82
534602--534716	33	3.5	33	97	0	221	46	20	22	10	1.80
534624--534721	19	5.7	19	69	22	90	44	21	22	11	1.83
534733--534789	14	3.7	14	75	20	60	10	24	22	42	1.85
534730--534794	33	2.0	33	100	0	130	10	24	21	43	1.84
534773--534850	41	1.9	41	97	0	147	12	25	16	44	1.83
534774--534849	21	3.7	21	83	3	109	11	25	17	46	1.82

Tables:   1   2   3