genome.fa.s20.2.7.7.80.10.50.1000.2.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   

This is table  2  of  199  ( 23844 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)
312531--312566	9	4.1	9	89	3	56	0	25	0	75	0.81
312531--312563	13	2.5	13	95	0	57	0	24	0	75	0.80
312601--312658	22	2.7	21	84	12	66	27	5	0	67	1.12
312600--312648	13	3.6	14	78	10	50	24	8	0	67	1.18
312619--312667	17	2.9	17	75	22	57	30	2	0	67	1.02
314758--314793	18	1.9	18	88	5	54	58	2	0	38	1.13
317731--317803	32	2.3	32	95	0	128	41	26	21	10	1.86
348047--348085	5	7.6	5	88	5	60	79	15	2	2	0.95
358258--358300	22	2.0	22	90	0	68	69	2	0	27	1.00
375081--375140	18	3.3	18	79	4	59	40	0	3	56	1.16
382435--382459	5	5.0	5	100	0	50	20	0	0	80	0.72
389589--389637	18	2.8	17	78	9	53	44	4	0	51	1.20
401555--401586	13	2.3	15	89	10	50	6	15	6	71	1.26
403069--403139	29	2.4	31	80	20	80	53	8	12	25	1.66
408008--408143	70	1.9	70	89	5	213	36	11	11	41	1.77
412236--412320	29	3.0	28	85	13	120	32	3	1	62	1.20
412217--412287	19	3.7	18	70	15	61	35	2	1	60	1.20
412285--412324	21	2.0	21	95	5	73	35	2	0	62	1.09
412287--412331	20	2.2	20	84	7	56	35	2	0	62	1.08
412285--412376	21	4.4	20	70	17	71	32	1	2	64	1.13
420396--420441	22	2.0	23	87	4	67	13	13	4	69	1.33
423103--423128	5	5.2	5	100	0	52	42	19	19	19	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
424047--424107	30	2.0	31	90	3	97	39	0	40	19	1.52
424156--424183	9	3.1	9	100	0	56	32	10	10	46	1.73
433309--433352	3	14.7	3	100	0	88	34	0	65	0	0.93
445588--445655	33	2.0	34	91	2	111	52	8	8	29	1.62
449667--449720	21	2.5	22	85	11	67	57	1	1	38	1.20
449713--449778	16	4.3	16	69	23	52	66	1	0	31	1.01
449710--449774	28	2.4	27	84	5	94	64	1	0	33	1.03
450528--450592	30	2.2	30	94	0	112	60	13	3	23	1.48
467378--467430	26	2.0	26	82	7	63	37	0	3	58	1.16
480458--480485	3	9.3	3	100	0	56	67	0	32	0	0.91
485051--485096	21	2.2	21	92	3	76	41	8	28	21	1.83
491988--492021	17	1.9	18	94	5	61	17	5	5	70	1.28
498862--498904	19	2.1	21	87	8	63	53	0	2	44	1.13
500220--500337	45	2.6	45	76	10	114	16	0	56	27	1.40
500265--500347	21	4.0	21	69	17	55	13	0	60	26	1.33
500691--500835	39	3.7	38	73	12	98	15	2	60	22	1.45
500679--500835	24	6.4	24	66	16	54	15	1	61	21	1.44
500858--500956	48	2.1	45	83	5	117	19	10	58	12	1.61
510680--510705	12	2.2	12	100	0	52	46	15	7	30	1.74
511714--511744	7	4.6	7	96	4	55	90	0	9	0	0.46
512187--512226	20	2.0	20	85	9	55	30	2	0	67	1.04
515787--515889	27	3.8	27	91	5	156	19	21	36	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
519519--519560	16	2.7	15	76	20	50	54	2	2	40	1.26
519673--519744	37	1.9	37	97	0	135	40	2	4	52	1.35
519940--520152	27	8.8	25	72	21	179	54	13	0	31	1.43
519887--520176	95	3.1	90	83	9	343	54	14	0	30	1.44
519887--520161	48	5.7	48	84	6	362	53	14	0	31	1.44
520110--520295	41	4.5	41	73	17	170	55	12	0	32	1.37
520015--520232	68	3.3	68	76	15	190	55	13	0	31	1.39
520056--520296	83	2.8	85	75	15	255	55	12	0	31	1.38
527630--527698	33	2.1	33	91	5	113	42	11	8	37	1.72
529885--530280	132	3.0	131	82	3	472	23	20	25	30	1.98
531244--531271	4	7.0	4	100	0	56	25	0	25	50	1.50
533136--533174	2	20.5	2	84	10	55	53	0	0	46	1.00
533382--533456	15	5.6	13	73	17	57	61	1	6	30	1.30
534839--535171	43	7.8	41	70	12	134	27	22	21	29	1.99
534873--535176	87	3.5	87	72	5	301	26	21	20	30	1.98
535335--535817	85	5.7	85	93	1	767	24	21	21	32	1.98
535542--535675	41	3.2	41	64	15	112	23	15	26	35	1.94
535335--535820	253	1.9	253	93	1	830	24	21	21	32	1.98
537946--537974	9	3.3	9	95	4	51	10	0	10	79	0.94
540508--540556	19	2.5	20	80	6	57	42	12	18	26	1.85
542433--542471	11	3.7	10	86	10	51	56	0	2	41	1.13
542675--542749	15	5.6	13	73	17	57	61	1	6	30	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546169--546234	13	4.6	14	72	24	50	12	15	1	71	1.22
546208--546242	18	1.9	18	88	11	54	5	20	5	68	1.31
546421--546475	16	3.2	17	77	15	60	61	0	34	3	1.13
546466--546515	22	2.4	22	80	16	61	72	2	18	8	1.19
551921--552234	146	2.1	148	85	7	433	43	4	10	41	1.59
571699--571739	14	2.9	14	77	0	55	68	0	4	26	1.10
571756--571795	18	2.2	19	86	4	55	75	10	0	15	1.05
572174--572264	29	3.0	31	76	15	100	30	3	2	63	1.22
574340--574464	63	2.0	61	86	6	171	28	14	14	42	1.85
579532--579581	22	2.3	22	83	10	66	48	2	4	46	1.32
579532--579581	23	2.3	23	86	6	68	48	2	4	46	1.32
579541--579588	23	2.2	20	82	14	51	50	0	6	43	1.27
582110--582151	13	3.1	14	90	6	61	59	0	0	40	0.97
582115--582151	18	2.1	18	94	0	65	59	0	0	40	0.97
584632--584681	3	16.3	3	87	4	73	62	0	4	34	1.14
584683--584709	3	9.0	3	100	0	54	33	0	33	33	1.58
604184--604219	3	11.7	3	94	5	63	66	0	0	33	0.92
604428--604478	19	2.8	19	80	8	63	54	0	3	41	1.19
613764--613803	16	2.4	16	83	4	53	25	0	0	75	0.81
615752--615802	26	1.9	27	84	4	68	45	1	7	45	1.44
618075--618671	149	4.0	149	92	1	941	34	17	20	28	1.95
624297--624353	18	3.3	18	75	18	50	54	1	7	36	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
625489--625545	20	2.7	20	78	13	53	28	1	3	66	1.18
626765--626798	18	1.9	17	88	5	50	17	2	17	61	1.46
626771--626817	22	2.1	23	84	11	62	19	2	12	65	1.35
630503--630536	14	2.4	14	90	9	52	44	0	8	47	1.34
645019--645047	7	4.1	7	100	0	58	27	13	13	44	1.82
646242--646277	18	2.0	18	89	10	56	44	0	5	50	1.25
649275--649687	185	2.2	191	89	3	631	36	20	14	28	1.91
651408--651455	21	2.3	21	74	0	51	39	12	2	45	1.54
654000--654033	10	3.4	10	91	0	50	41	32	0	26	1.56
654000--654033	15	2.3	15	89	0	50	41	32	0	26	1.56
657931--657957	14	1.9	14	100	0	54	18	0	7	74	1.05
665605--665716	45	2.4	45	91	4	170	27	50	12	8	1.70
671965--671991	14	1.9	14	100	0	54	44	3	7	44	1.49
680212--680243	16	2.0	16	93	0	55	43	9	18	28	1.81
683678--683760	41	2.0	41	100	0	166	42	19	12	26	1.86
688183--688242	30	2.0	31	83	9	79	21	36	1	40	1.64
691580--691604	12	2.1	12	100	0	50	0	0	16	84	0.63
691924--692480	199	2.8	197	83	5	663	28	23	9	38	1.86
711125--711179	20	2.8	20	80	0	65	38	0	0	61	0.96
713494--713578	27	3.2	26	80	12	102	37	0	0	62	0.96
713491--713577	5	17.2	5	85	11	106	36	0	0	63	0.95
720945--721315	130	2.9	128	83	5	460	28	14	13	43	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
724128--724161	14	2.5	13	85	4	50	70	0	0	29	0.87
728964--729012	16	3.1	16	84	0	62	53	22	6	18	1.66
731390--731434	15	3.1	15	77	22	51	31	2	4	62	1.27
739853--739904	24	2.2	24	89	0	77	55	5	1	36	1.35
755139--755177	21	1.9	20	94	5	69	56	5	12	25	1.57
760487--760610	62	2.0	63	82	4	153	38	16	3	41	1.64
764829--764861	3	11.0	3	100	0	66	33	0	33	33	1.58
765381--765411	16	1.9	16	93	0	53	54	3	3	38	1.32
769044--769099	28	1.9	29	82	7	69	48	5	1	44	1.36
769506--769578	25	2.7	26	79	8	76	42	0	9	47	1.36

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   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199