genome.fa.s106.2.7.7.80.10.50.1000.4.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: Scaffold106
Parameters: 2 7 7 80 10 50 1000
Length:  4928209

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   

This is table  4  of  27  ( 3135 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)
451656--451684	2	14.5	2	100	0	58	51	0	0	48	1.00
453325--453408	20	4.7	20	66	28	62	42	1	0	55	1.07
453330--453404	32	2.2	33	88	9	116	41	1	0	57	1.07
453348--453421	16	4.5	16	70	11	51	39	1	1	58	1.15
453784--453819	19	1.9	18	88	5	54	47	2	5	44	1.41
455852--455900	2	25.5	2	83	8	66	0	46	0	53	1.00
455852--455899	10	4.8	10	89	0	78	0	45	0	54	0.99
456578--456676	27	3.6	27	71	19	71	58	3	0	38	1.14
456577--456632	16	3.4	16	79	11	60	60	0	0	39	0.97
458927--458970	10	4.2	10	85	14	54	36	0	0	63	0.95
459893--459919	2	13.5	2	100	0	54	48	0	0	51	1.00
460604--460639	2	18.0	2	100	0	72	50	0	0	50	1.00
461035--461068	16	2.2	15	89	5	50	35	0	0	64	0.94
464390--464441	18	2.8	19	72	13	54	59	0	1	38	1.08
464375--464457	37	2.2	37	79	8	89	55	0	2	42	1.13
464609--464660	26	2.0	27	88	11	81	30	3	5	59	1.39
466435--466578	38	3.8	38	85	0	189	31	11	26	31	1.91
466435--466576	76	1.9	76	87	0	212	31	11	25	31	1.91
474010--474074	26	2.5	26	82	7	71	52	1	0	46	1.10
474065--474107	20	2.2	20	82	0	50	46	2	2	48	1.27
479979--480059	23	3.7	22	69	27	66	45	0	0	54	0.99
481028--481076	21	2.2	24	85	10	68	32	4	0	63	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
482330--482370	20	2.0	21	85	4	57	31	0	0	68	0.90
482447--482541	14	7.5	13	66	28	53	38	0	1	60	1.04
482447--482500	21	2.9	18	89	10	74	37	0	1	61	1.07
482447--482541	23	4.3	22	75	17	90	38	0	1	60	1.04
482463--482529	29	2.3	29	84	7	82	40	0	0	59	0.97
482511--482556	18	2.5	19	82	10	60	34	0	0	65	0.93
483802--483844	16	2.7	16	82	10	52	53	0	0	46	1.00
484356--484385	15	1.9	16	93	6	53	0	23	0	76	0.78
484754--484836	19	4.4	18	72	25	73	68	4	2	24	1.21
484754--484837	20	4.3	21	72	24	69	67	4	2	25	1.22
484979--485047	11	5.7	11	72	21	50	62	1	1	34	1.13
485083--485128	19	2.3	19	85	7	56	65	0	0	34	0.93
485073--485143	32	2.2	31	78	11	72	64	0	0	35	0.94
485182--485230	13	3.8	12	81	13	53	0	22	0	77	0.77
485193--485232	16	2.5	15	84	11	53	0	22	0	77	0.77
485176--485232	26	2.2	25	87	3	78	0	24	0	75	0.80
486049--486098	11	4.2	12	75	12	50	46	0	0	54	1.00
486048--486099	24	2.1	26	89	7	81	46	0	0	53	1.00
487123--487182	25	2.4	25	76	13	70	45	0	0	55	0.99
487118--487198	30	2.7	29	75	16	76	49	1	0	49	1.08
487305--487384	30	2.7	30	84	1	99	58	2	2	36	1.25
487740--487781	21	2.1	20	82	8	50	54	2	0	42	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
487715--487786	23	3.2	22	70	7	56	48	2	0	48	1.16
487989--488016	5	5.6	5	100	0	56	0	17	0	82	0.68
489629--489671	21	2.0	21	100	0	86	34	18	13	32	1.90
493296--493320	1	25.0	1	100	0	50	0	0	0	100	0.00
493625--493672	15	2.6	20	66	33	52	37	0	0	62	0.95
493635--493663	15	1.9	15	100	0	58	37	0	0	62	0.96
494014--494076	20	3.0	20	75	13	65	49	0	0	50	1.00
494051--494088	19	2.0	19	90	10	60	50	0	0	50	1.00
494040--494097	28	2.1	28	84	9	75	50	0	0	50	1.00
495426--495503	22	3.8	22	77	16	94	61	1	1	35	1.12
495464--495515	5	10.2	5	76	12	52	59	0	0	40	0.97
507291--507324	17	2.0	17	94	0	59	38	17	8	35	1.81
511736--511767	14	2.3	14	94	0	55	31	0	9	59	1.29
512336--512365	10	3.0	10	95	0	51	26	0	0	73	0.84
512884--512939	25	2.2	24	77	17	60	57	0	0	42	0.99
513102--513170	35	2.0	33	83	10	86	37	0	1	60	1.06
513124--513220	18	5.8	18	69	20	68	42	0	0	57	0.98
516109--516137	14	2.1	14	93	6	51	34	0	10	55	1.34
519900--519944	2	22.5	2	95	0	81	46	0	2	51	1.13
521000--521034	18	1.9	18	88	11	54	31	2	0	65	1.07
521085--521124	18	2.2	18	100	0	80	35	0	30	35	1.58
523288--523341	11	5.0	11	75	18	51	70	5	3	20	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
527886--527920	16	2.2	16	89	0	52	85	0	14	0	0.59
528633--528718	15	5.9	15	81	8	106	48	31	19	0	1.49
528644--528710	27	2.5	27	100	0	134	52	29	17	0	1.45
529977--530035	21	2.8	21	73	0	64	27	25	22	25	2.00
535202--535235	2	17.0	2	100	0	68	0	50	0	50	1.00
546364--546400	2	19.5	2	83	10	51	48	0	2	48	1.15
547959--547986	2	14.0	2	100	0	56	50	0	50	0	1.00
548261--548305	2	22.5	2	100	0	90	51	0	48	0	1.00
550075--550132	20	2.9	21	76	7	66	39	3	17	39	1.66
551842--551885	20	2.2	20	95	0	79	43	6	15	34	1.74
553423--553476	20	2.7	20	73	2	54	40	1	18	38	1.61
554303--554361	19	3.0	20	78	7	68	47	10	0	42	1.37
554885--554947	20	3.3	19	78	10	74	52	4	0	42	1.22
554865--555013	75	2.0	76	85	6	205	48	5	2	43	1.37
554885--555013	40	3.4	39	74	12	115	49	6	0	43	1.33
554970--555015	22	2.0	23	83	4	58	47	10	2	39	1.51
556590--556635	2	23.0	2	95	0	83	50	2	0	47	1.13
560286--560325	11	3.6	12	77	16	50	32	0	0	67	0.91
560283--560322	21	1.9	21	85	10	55	32	0	0	67	0.91
561942--561986	13	3.5	13	81	0	54	55	6	26	11	1.59
562083--562155	27	2.7	27	82	0	92	47	17	8	26	1.75
563036--563110	27	2.8	28	80	10	84	48	13	8	30	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565577--565624	21	2.3	21	79	17	55	35	2	0	62	1.07
569742--569774	17	1.9	17	93	0	57	6	15	9	69	1.34
570960--571064	52	2.0	52	98	0	201	50	10	20	19	1.76
576108--576176	30	2.3	30	80	12	79	43	10	2	43	1.53
576478--576532	24	2.3	24	81	6	58	49	7	0	43	1.30
577473--577515	2	21.0	2	95	4	77	48	0	2	48	1.14
580752--580803	27	1.9	27	92	0	86	34	9	9	46	1.69
580866--580909	22	2.0	21	87	12	63	36	0	4	59	1.18
580866--580909	21	2.0	22	87	12	65	36	0	4	59	1.18
580960--581009	20	2.4	21	83	12	68	50	0	0	50	1.00
580960--581017	20	2.8	20	69	27	50	50	0	0	50	1.00
581494--581523	15	1.9	16	93	6	53	60	0	0	40	0.97
581982--582023	11	4.0	11	81	9	52	28	0	0	71	0.86
582178--582250	17	4.4	17	75	14	64	56	1	0	42	1.08
583106--583144	3	13.0	3	100	0	78	0	33	0	66	0.92
584139--584199	16	3.4	16	74	23	59	63	0	0	36	0.94
584337--584376	18	2.2	18	86	0	53	67	5	0	27	1.11
589330--589369	2	20.0	2	94	0	71	47	0	2	50	1.14
589551--589587	2	18.5	2	100	0	74	48	0	0	51	1.00
592145--592177	5	6.4	5	93	6	57	0	39	0	60	0.97
592145--592175	11	2.9	11	95	4	55	0	41	0	58	0.98
592649--592704	27	2.0	28	89	3	87	67	0	1	30	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
600812--600905	45	2.2	42	79	12	102	47	1	0	51	1.07
600826--600917	44	2.1	45	80	13	102	48	0	0	51	1.00
600917--600960	23	2.0	20	83	12	52	47	4	0	47	1.22
602615--602649	17	2.1	16	89	5	52	34	2	0	62	1.10
608016--608056	16	2.6	16	81	18	50	53	7	9	29	1.60
608261--608305	5	9.4	5	81	13	51	33	0	0	66	0.92
608236--608313	30	2.7	29	78	11	79	37	0	0	62	0.95
608260--608334	20	3.5	22	81	9	82	32	0	1	66	1.00
608257--608335	28	2.9	28	80	10	92	32	0	1	65	1.00
608277--608317	15	2.8	14	82	10	55	26	0	0	73	0.84

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27