genome.fa.s4080.2.7.7.80.10.50.1000.2.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: scaffold232
Parameters: 2 7 7 80 10 50 1000
Length:  1304497

Tables:   1   2   3   4   

This is table  2  of  4  ( 418 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)
352242--352281	21	1.9	21	84	0	53	40	20	20	20	1.92
352546--352700	65	2.4	65	90	1	238	28	13	11	46	1.78
352626--352672	19	2.5	19	82	0	58	19	8	12	59	1.58
353190--353261	35	2.1	35	83	0	90	27	20	19	31	1.97
355238--355389	65	2.3	64	90	3	232	28	13	14	42	1.84
358845--358882	20	1.9	20	88	0	58	21	23	2	52	1.59
358844--358889	20	2.3	19	82	10	56	21	23	2	52	1.58
362288--362590	20	15.3	20	68	13	126	36	16	30	15	1.91
362287--362606	40	8.1	40	86	2	421	36	17	30	16	1.91
363560--363603	21	2.1	21	91	0	70	40	13	9	36	1.76
363565--363615	21	2.4	21	90	0	75	43	13	9	33	1.77
364645--364786	41	3.5	41	85	0	187	33	16	30	19	1.94
370575--370716	46	3.1	46	87	0	203	24	17	24	33	1.97
370575--370716	23	6.2	23	81	0	149	24	17	24	33	1.97
371889--372021	49	2.7	49	85	0	185	27	12	25	35	1.91
372879--372936	29	2.0	29	93	0	98	32	15	5	46	1.68
374463--374576	33	3.4	33	82	2	138	40	33	9	16	1.81
376411--376525	40	2.9	39	83	5	149	38	19	26	16	1.92
376457--376518	20	3.1	20	72	9	63	38	17	25	17	1.92
376710--376752	14	2.9	14	77	12	50	44	13	0	41	1.44
383894--384219	164	2.0	163	86	4	451	39	17	9	33	1.82
389105--389987	50	17.7	50	71	5	604	22	20	24	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
389029--389997	100	9.7	100	88	2	1266	22	21	24	31	1.98
390036--390408	44	8.0	44	68	19	204	27	22	18	31	1.97
390036--390406	142	2.6	142	92	0	609	27	22	18	31	1.97
396466--396520	10	5.6	10	75	12	51	60	1	5	32	1.30
396456--396539	29	2.9	29	77	8	93	58	1	7	33	1.33
397539--397584	21	2.3	20	78	14	51	45	17	6	30	1.73
406780--406841	30	2.1	30	84	6	81	45	8	11	35	1.70
413335--413360	9	2.9	9	100	0	52	46	0	0	53	1.00
421359--421391	10	3.3	10	95	0	57	63	9	0	27	1.24
425412--425789	27	14.1	27	82	3	334	43	19	15	21	1.87
428121--428167	23	2.0	23	100	0	94	40	12	4	42	1.63
431620--431806	50	3.7	50	79	4	189	26	20	29	22	1.99
431626--431806	100	1.8	100	82	2	238	26	19	30	22	1.98
438891--439219	49	6.8	49	73	12	243	28	20	27	23	1.99
438835--439121	99	3.0	95	77	8	258	27	20	28	23	1.99
438899--439220	148	2.2	146	92	4	553	27	21	27	23	1.99
451019--451149	25	5.3	25	80	1	147	22	17	24	35	1.95
450999--451149	49	3.1	49	81	2	169	23	17	21	37	1.94
457309--457393	25	3.4	24	75	16	75	31	15	28	24	1.95
460732--460780	26	2.0	26	84	8	66	53	8	12	26	1.66
469517--469611	45	2.1	45	86	0	136	27	18	24	29	1.98
473039--473704	353	1.9	353	93	0	1152	40	9	17	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474020--474047	2	14.0	2	100	0	56	50	0	0	50	1.00
475448--475635	51	3.7	51	89	2	288	23	17	28	30	1.97
475535--475615	25	3.2	25	63	27	62	23	13	30	32	1.93
475558--475639	26	3.2	26	63	27	66	23	14	29	32	1.94
475641--475735	45	2.1	45	82	3	120	27	18	21	32	1.97
478485--478670	50	3.7	50	79	5	205	30	27	18	23	1.97
478483--478666	101	1.8	100	87	4	271	30	27	18	23	1.97
481321--481403	42	2.0	42	88	4	123	32	24	13	30	1.93
482549--482675	61	2.1	61	98	0	245	26	23	6	43	1.77
483770--483816	23	2.0	24	83	8	60	34	19	4	42	1.70
484126--484312	51	3.7	50	77	4	205	30	25	17	26	1.97
484123--484311	101	1.9	99	82	5	236	31	25	17	25	1.97
498402--498497	41	2.3	41	85	3	122	19	19	22	37	1.94
498432--498512	41	2.0	41	87	0	117	18	22	24	34	1.96
498635--498734	46	2.2	46	96	1	184	43	8	12	37	1.71
499569--499672	41	2.5	41	80	0	109	19	23	25	32	1.97
499615--499703	41	2.2	42	85	4	119	20	17	23	38	1.93
499615--499715	41	2.5	41	83	3	105	20	16	23	38	1.93
499812--499911	46	2.2	46	96	1	184	43	8	12	37	1.71
507386--507438	25	2.1	25	83	13	65	56	0	3	39	1.17
507999--508045	22	2.2	20	85	14	60	53	0	2	44	1.12
515849--515937	27	3.3	27	91	0	142	21	15	20	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516076--516386	32	9.7	32	76	6	220	36	22	20	19	1.95
516076--516271	64	3.1	64	85	4	261	37	23	19	18	1.94
516430--516489	27	2.2	27	85	11	79	31	18	26	23	1.97
516564--516616	24	2.2	23	80	9	70	43	26	9	20	1.82
516680--516859	27	6.7	27	79	6	168	26	23	15	34	1.95
516675--516807	54	2.4	54	88	1	203	27	24	15	32	1.96
516680--516859	81	2.2	81	81	5	204	26	23	15	34	1.95
516675--516832	54	2.9	54	85	2	201	27	24	15	32	1.95
516794--516884	27	3.4	27	85	8	107	24	21	15	38	1.92
516867--516902	18	2.0	18	89	10	56	22	16	11	50	1.77
519157--519385	27	8.5	27	77	3	194	26	15	15	41	1.87
519157--519385	54	4.2	54	81	6	250	26	15	15	41	1.87
519157--519371	81	2.7	81	80	5	240	25	14	16	42	1.87
523236--523407	43	4.0	43	100	0	344	23	18	11	46	1.82
537902--538207	153	2.0	153	94	0	531	34	21	16	27	1.95
548118--548177	20	3.0	20	82	0	66	38	20	30	11	1.88
550090--550121	12	2.6	12	95	5	55	43	15	12	28	1.83
562984--563025	23	1.9	21	90	9	66	23	9	14	52	1.71
565541--565601	20	3.0	19	78	9	50	42	19	27	9	1.83
565563--565601	20	1.9	20	84	5	51	46	20	25	7	1.77
571927--571966	21	1.9	21	100	0	80	42	12	20	25	1.86
575000--575046	22	2.1	22	84	0	58	42	19	14	23	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
575287--575323	18	2.0	19	89	5	58	45	29	0	24	1.53
586269--586300	15	2.2	15	94	5	57	31	3	0	65	1.08
599341--599393	17	3.2	17	70	5	54	30	20	15	33	1.93
611021--611562	273	2.0	271	91	2	874	30	17	19	32	1.96
616471--616660	102	1.9	102	92	2	319	31	13	12	43	1.81
619137--619551	138	3.0	138	95	2	714	39	6	6	46	1.58
625417--625506	34	2.7	35	81	5	96	32	2	4	61	1.28
625448--625500	24	2.2	24	86	0	70	33	1	5	58	1.32
627556--627614	22	2.6	22	76	10	57	28	0	5	66	1.13
635033--635062	15	2.0	15	100	0	60	26	13	40	20	1.89
636882--636929	21	2.3	21	86	13	64	66	0	18	14	1.25
636881--636912	13	2.4	14	94	5	57	68	0	18	12	1.20
636882--636929	7	6.9	7	79	15	55	66	0	18	14	1.25
638170--638389	44	5.0	44	67	7	151	27	19	26	26	1.99
638162--638399	88	2.7	88	90	1	361	26	20	25	26	1.99
638618--638896	50	5.6	50	70	5	226	30	19	23	26	1.98
638621--638922	99	3.1	99	88	0	453	30	19	22	27	1.98
639014--639393	45	8.7	44	74	9	285	28	21	24	25	1.99
638929--639219	128	2.3	130	84	3	356	28	21	23	26	1.99
639142--639393	89	2.8	90	83	4	314	28	21	25	24	1.99
639142--639391	134	1.9	134	84	1	340	28	22	25	24	1.99
641019--641080	2	31.5	2	78	3	54	37	1	4	56	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
640992--641085	37	2.7	36	81	6	104	34	2	4	59	1.29
641105--641147	23	1.9	23	81	13	54	39	2	9	48	1.48
645445--645554	44	2.5	44	86	0	166	35	25	20	18	1.95
645543--645673	43	3.0	43	85	2	192	35	26	16	21	1.95
647398--647427	15	2.0	15	100	0	60	33	20	6	40	1.78
649887--649994	44	2.5	44	85	8	157	37	24	18	20	1.94
649985--650114	43	3.0	42	80	4	154	33	23	18	23	1.97
653885--653923	20	2.0	20	94	0	69	48	0	2	48	1.15
656994--657080	45	1.9	45	90	4	140	33	22	16	27	1.95
657091--657226	50	2.7	52	88	5	215	30	29	16	23	1.97

Tables:   1   2   3   4