genome.fa.s989.2.7.7.80.10.50.1000.2.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: VEPZ01000989.1 Hibiscus syriacus cultivar Beakdansim tig00001980_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  949177

Tables:   1   2   3   

This is table  2  of  3  ( 308 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)
263724--263788	33	2.0	33	93	3	114	40	1	7	50	1.40
265782--265832	2	25.5	2	100	0	102	50	0	0	49	1.00
265903--266122	83	2.6	81	82	5	235	33	19	20	27	1.96
266078--266136	13	4.5	13	80	0	64	33	18	20	27	1.96
269504--269538	2	17.5	2	100	0	70	48	0	0	51	1.00
272242--272301	8	7.4	8	88	3	75	0	18	1	80	0.80
272245--272301	16	3.5	16	90	2	87	0	19	1	78	0.83
276619--276650	2	16.0	2	100	0	64	50	0	0	50	1.00
284766--284967	96	2.1	96	93	0	341	34	19	14	31	1.92
286387--286453	33	2.0	33	97	0	125	32	17	17	31	1.94
290343--290394	26	2.0	26	88	0	77	23	13	13	50	1.77
290962--291033	22	3.2	20	77	16	54	37	25	20	16	1.93
291986--292023	13	2.8	13	81	18	51	50	0	0	50	1.00
294612--294669	27	2.1	27	80	0	62	29	12	13	44	1.80
298115--298147	16	2.1	16	100	0	66	33	30	12	24	1.91
311938--311984	19	2.5	19	85	0	67	31	17	8	42	1.79
319720--319780	26	2.3	26	100	0	122	45	8	3	42	1.50
319805--319911	49	2.2	48	80	8	119	28	16	1	52	1.55
322634--322687	20	2.7	20	97	0	99	46	9	14	29	1.76
325231--325281	18	2.8	19	82	8	52	13	7	9	68	1.38
334791--334853	29	2.1	30	82	8	76	33	14	3	49	1.59
337160--337193	17	2.1	16	88	5	50	38	11	5	44	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
340817--340864	12	3.6	13	86	13	55	35	0	0	64	0.94
340824--340864	3	13.7	3	85	10	57	34	0	0	65	0.93
343395--343683	43	6.8	42	81	4	303	33	20	21	24	1.97
343395--343683	128	2.3	128	83	4	343	33	20	21	24	1.97
343403--343683	85	3.3	84	82	5	296	33	20	22	23	1.98
347235--347742	41	12.3	41	80	3	500	35	18	18	28	1.94
347235--347742	125	4.1	123	77	7	463	35	18	18	28	1.94
347218--347743	166	3.2	165	87	3	718	34	18	18	28	1.94
352942--353050	38	3.1	35	81	12	116	72	7	19	0	1.13
352993--353045	25	2.2	25	83	9	67	77	9	11	1	1.07
352977--353061	34	2.4	36	79	15	97	74	7	17	1	1.11
352942--353034	19	4.9	19	83	7	109	72	7	20	0	1.09
352958--353062	33	3.0	32	79	18	97	73	6	19	0	1.11
355710--355814	37	2.9	36	80	10	101	30	14	16	39	1.88
355758--355829	37	1.9	37	86	5	101	29	16	18	36	1.93
356073--356127	21	2.6	21	88	0	83	32	14	10	41	1.81
356099--356218	37	3.3	37	85	1	143	26	20	16	36	1.93
356286--356710	139	3.1	138	86	2	566	29	27	16	26	1.97
357453--357507	21	2.7	20	83	8	74	78	9	9	3	1.08
358568--358607	18	2.2	19	86	13	57	15	2	7	75	1.14
363292--363398	24	4.5	24	74	0	97	47	15	14	21	1.82
363292--363400	48	2.3	48	77	0	119	47	15	15	21	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
365877--365946	18	4.2	18	77	17	87	12	18	51	17	1.76
365881--365941	31	2.0	31	96	0	113	14	18	50	16	1.78
365889--365924	13	2.8	13	91	0	63	13	19	50	16	1.79
367292--367321	13	2.3	13	94	0	51	20	43	23	13	1.86
367323--367409	29	2.9	30	80	11	99	31	3	13	51	1.58
368330--368547	117	1.9	117	84	1	294	19	15	32	32	1.93
374560--374603	13	3.4	13	93	0	70	22	45	15	15	1.85
374612--374703	29	3.1	29	87	1	121	29	6	17	46	1.73
374611--374716	29	3.6	29	78	8	90	31	5	17	45	1.72
380205--380245	16	2.6	16	100	0	82	34	19	9	36	1.85
385860--385893	18	1.9	18	88	5	52	76	5	8	8	1.15
395528--395555	10	2.8	10	100	0	56	21	42	10	25	1.85
412305--412344	20	1.9	20	85	10	53	32	7	32	27	1.85
416570--416609	20	1.9	20	85	10	53	32	7	32	27	1.85
416824--416854	15	2.1	15	93	0	53	54	3	0	41	1.16
424641--424715	10	7.7	10	67	21	52	57	20	12	10	1.64
424645--424709	16	4.1	16	95	0	112	56	21	12	9	1.63
424637--424709	32	2.3	32	90	4	114	58	19	10	10	1.61
425462--425517	14	4.3	14	76	17	66	53	23	12	10	1.69
425455--425516	24	2.6	24	89	0	97	54	22	11	11	1.67
428216--428266	22	2.3	23	93	3	86	58	13	17	9	1.61
428256--428292	19	1.9	19	89	10	58	81	0	16	2	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429487--429529	23	1.9	21	81	13	50	32	18	11	37	1.87
431814--431851	5	8.0	5	82	11	53	78	0	21	0	0.74
433066--433108	23	1.9	21	81	13	50	32	18	13	34	1.90
439319--439348	13	2.4	13	94	5	53	43	0	30	26	1.55
442630--442692	32	2.0	32	100	0	126	28	28	31	11	1.91
443575--443600	11	2.4	11	100	0	52	38	7	38	15	1.76
443635--443677	5	9.0	5	82	10	54	79	2	18	0	0.85
443635--443677	9	4.5	10	85	5	54	79	2	18	0	0.85
443635--443677	14	3.0	14	83	12	52	79	2	18	0	0.85
450101--450149	25	2.0	25	84	8	64	46	20	16	16	1.83
451771--451816	24	2.0	23	83	12	58	36	6	4	52	1.47
463763--463815	5	11.2	5	86	9	76	0	20	0	79	0.74
463763--463820	14	4.2	13	87	10	80	0	20	0	79	0.74
463763--463815	19	2.8	19	94	5	90	0	20	0	79	0.74
467902--467952	19	2.6	20	81	3	59	43	5	13	37	1.69
472756--472824	20	3.5	20	74	18	72	30	15	27	26	1.96
473352--473380	15	1.9	15	100	0	58	55	0	27	17	1.42
473523--473602	35	2.2	37	91	4	128	27	3	37	31	1.74
476018--476122	36	2.9	36	94	1	176	28	5	36	29	1.80
480453--480538	13	7.2	12	72	22	58	29	3	37	30	1.74
480435--480539	36	2.9	36	95	1	185	28	4	36	30	1.78
483610--483689	35	2.2	37	91	4	128	27	3	37	31	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485016--485361	47	7.2	48	85	5	470	44	15	21	19	1.87
485023--485367	95	3.6	97	86	3	493	43	15	22	18	1.87
489179--489286	24	4.5	24	75	4	101	20	12	16	50	1.78
489181--489289	48	2.3	48	85	3	139	21	11	16	50	1.77
489221--489285	12	5.4	12	76	7	51	16	10	16	55	1.69
501589--501626	18	2.1	19	85	14	53	39	10	5	44	1.61
503378--503443	27	2.4	28	84	7	89	66	13	15	4	1.40
516553--516603	24	2.1	25	92	7	88	56	11	17	13	1.66
550018--550057	13	3.0	13	81	3	53	62	0	25	12	1.30
567618--567662	23	2.0	23	86	0	63	13	11	15	60	1.60
568881--568922	14	3.1	14	82	3	50	35	0	33	30	1.58
572222--572269	16	2.9	16	84	6	51	62	0	20	16	1.33
572891--572929	13	2.9	13	81	7	51	30	0	43	25	1.55
572891--572930	14	2.9	14	85	3	55	32	0	42	25	1.55
584041--584090	26	2.0	25	84	4	64	24	0	42	34	1.55
585345--585404	30	2.0	31	83	3	77	53	8	8	30	1.60
590943--590987	22	2.2	20	88	8	63	31	2	33	33	1.70
592247--592306	30	2.0	31	86	3	86	55	8	6	30	1.55
601271--601314	21	2.0	22	86	8	63	25	20	13	40	1.89
603273--603330	21	2.8	20	73	21	57	60	1	8	29	1.36
605427--605464	19	2.0	20	84	5	51	2	21	5	71	1.19
615399--615426	14	2.0	14	100	0	56	21	42	0	35	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
627895--627960	19	3.6	18	82	10	71	75	4	18	1	1.04
630582--630624	20	2.0	22	91	8	72	27	11	6	53	1.63
636485--636554	13	5.5	12	79	16	70	2	18	2	75	1.05
636484--636560	30	2.6	29	75	18	70	2	19	2	75	1.04
640991--641048	21	2.8	19	75	12	53	15	18	1	63	1.39
644879--644933	24	2.4	22	78	9	56	32	20	12	34	1.90
646111--646167	27	2.1	27	83	6	71	14	15	8	61	1.56
648118--648201	11	7.2	11	74	20	73	32	36	2	28	1.70
648140--648199	13	5.0	12	75	20	63	31	36	1	30	1.68
648116--648215	35	2.8	35	95	1	173	33	37	3	27	1.72

Tables:   1   2   3