genome.fa.s14.2.7.7.80.10.50.1000.135.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: D01
Parameters: 2 7 7 80 10 50 1000
Length:  64473564

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   

This is table  135  of  213  ( 25468 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)
39895690--39895748	20	3.0	20	76	0	64	42	16	5	35	1.71
39895932--39896055	23	5.3	22	72	14	81	33	18	25	22	1.97
39896000--39896055	26	2.2	26	84	6	71	32	17	26	23	1.97
39896202--39896718	67	7.8	67	88	1	770	42	18	2	36	1.63
39896202--39896718	133	3.9	134	93	1	851	42	18	2	36	1.63
39896202--39896723	200	2.6	201	88	1	771	42	18	2	36	1.63
39899573--39899704	28	4.8	28	87	0	194	28	24	22	24	1.99
39899815--39899915	26	3.9	26	89	0	148	36	24	20	17	1.94
39900085--39900362	27	10.3	27	73	10	185	21	17	19	40	1.91
39900085--39900362	54	5.2	53	72	15	212	21	17	19	40	1.91
39924817--39925001	40	4.7	40	81	6	198	24	22	27	26	2.00
39924870--39925034	79	2.1	79	80	6	183	26	20	27	26	1.99
39932782--39932966	79	2.3	81	84	7	236	24	22	27	25	2.00
39932783--39932966	40	4.6	40	83	9	216	24	22	27	25	2.00
39932835--39932999	79	2.1	79	84	6	210	26	21	27	25	1.99
39947641--39947670	11	2.7	11	94	0	51	66	10	20	3	1.35
39951779--39951910	65	2.0	65	98	0	255	31	18	5	45	1.71
39954889--39954916	12	2.3	12	100	0	56	35	25	14	25	1.93
39957169--39957222	27	1.9	27	88	7	81	68	5	9	16	1.35
39957186--39957261	16	4.9	16	73	15	61	71	5	11	11	1.30
39964491--39964547	25	2.2	26	84	6	89	40	22	14	22	1.90
39966878--39967192	157	2.0	157	94	0	558	33	21	12	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39968007--39968035	14	2.0	15	93	6	51	55	6	0	37	1.27
39971269--39971308	16	2.5	16	91	0	62	47	5	5	42	1.47
39972775--39972834	25	2.4	26	86	5	88	53	20	8	18	1.70
39973298--39973331	16	2.1	16	94	0	59	38	2	52	5	1.41
39974038--39974095	28	2.1	28	83	0	71	58	3	3	34	1.32
39974530--39974607	24	3.3	23	74	13	70	35	5	1	57	1.29
39976418--39976452	17	2.1	17	89	5	54	42	8	5	42	1.59
39980784--39981162	188	2.0	187	96	0	704	31	13	19	35	1.91
39992927--39993015	28	3.2	28	83	0	88	31	24	21	22	1.98
39993121--39993196	26	2.9	26	86	0	89	35	22	23	18	1.96
39993363--39993450	27	3.3	27	78	0	95	17	18	23	40	1.90
39993462--39993512	23	2.2	23	89	0	75	41	21	7	29	1.81
40004252--40004276	6	4.2	6	100	0	50	84	0	0	16	0.63
40006195--40006314	56	2.2	56	84	11	151	23	19	32	25	1.97
40023302--40023358	6	9.2	6	80	14	53	22	3	0	73	0.98
40025754--40026223	50	9.4	50	84	0	575	25	21	30	21	1.98
40027898--40027961	30	2.1	30	82	5	76	45	7	20	26	1.78
40033225--40033259	16	2.1	17	89	5	54	31	40	0	28	1.57
40058067--40058095	12	2.3	13	94	5	51	20	6	6	65	1.40
40063471--40063690	40	5.6	38	76	10	156	25	20	26	27	1.99
40070211--40070254	22	2.0	21	83	12	54	40	0	0	59	0.98
40074548--40074724	50	3.4	51	82	6	205	22	28	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40089865--40089896	16	2.0	16	100	0	64	43	6	18	31	1.75
40112667--40112783	32	3.7	32	87	4	157	17	18	25	37	1.93
40112667--40112847	32	5.7	31	81	5	150	17	19	24	37	1.94
40118904--40119024	54	2.2	53	81	8	138	18	25	24	31	1.97
40124873--40125057	29	6.4	29	76	5	115	38	10	24	25	1.88
40124930--40125072	58	2.5	58	78	4	146	39	13	23	23	1.90
40142157--40142202	23	2.0	23	91	0	74	84	4	2	8	0.83
40142157--40142202	24	2.0	24	91	4	76	84	4	2	8	0.83
40149977--40150013	19	1.9	19	100	0	74	37	10	10	40	1.75
40159701--40159846	39	3.7	39	87	1	204	29	17	24	28	1.98
40159714--40159875	79	2.1	78	85	3	218	29	17	24	28	1.97
40166390--40166418	11	2.5	12	88	11	51	44	13	0	41	1.44
40167383--40167598	39	5.5	39	84	1	254	27	15	25	31	1.95
40167378--40167591	78	2.8	78	87	2	297	28	14	24	32	1.95
40171060--40171222	81	2.0	81	91	4	267	37	21	14	26	1.92
40181994--40182046	27	2.0	27	85	3	72	28	11	20	39	1.87
40187458--40187669	40	5.3	40	80	2	248	24	20	27	27	1.99
40187462--40187678	80	2.7	79	88	3	310	24	21	27	26	1.99
40195286--40195347	1	62.0	1	100	0	124	0	0	0	100	0.00
40196992--40197141	55	2.8	54	80	4	149	26	15	29	28	1.96
40196965--40197141	27	6.6	27	78	5	153	25	15	28	30	1.96
40196962--40197143	82	2.2	81	79	3	197	25	15	28	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40204904--40205053	55	2.8	54	80	4	149	26	15	29	28	1.96
40204876--40205053	27	6.6	27	77	6	146	25	15	28	30	1.96
40204877--40205032	82	1.9	81	81	6	190	25	16	28	30	1.96
40206755--40207016	79	3.3	79	83	7	286	26	20	27	25	1.99
40206755--40207016	39	6.6	39	86	6	293	26	20	27	25	1.99
40206756--40207049	79	3.7	76	78	12	258	27	20	27	24	1.99
40213596--40213620	13	1.9	13	100	0	50	88	4	8	0	0.64
40214700--40214925	39	5.7	39	89	5	178	26	21	27	24	1.99
40214700--40214962	40	6.6	39	87	6	286	26	21	26	25	2.00
40214738--40214962	79	2.8	79	84	7	280	27	21	26	25	1.99
40214752--40214995	79	3.1	79	81	9	216	27	20	26	25	1.99
40228585--40228748	50	3.3	50	86	0	229	26	25	28	18	1.98
40228591--40228771	100	1.8	100	82	0	236	27	24	28	19	1.99
40230648--40230930	50	5.7	50	81	2	293	21	28	22	27	1.99
40235238--40235803	50	11.4	50	88	1	789	22	32	20	24	1.98
40235173--40235803	100	6.4	100	84	4	769	22	31	20	25	1.98
40238281--40238305	8	3.1	8	100	0	50	76	0	0	24	0.80
40244817--40245012	50	3.8	53	82	9	194	27	19	30	22	1.98
40244875--40245048	50	3.5	50	86	1	233	28	21	29	20	1.98
40245315--40245353	12	3.2	12	85	0	51	51	5	23	20	1.67
40253484--40253521	20	1.9	19	94	5	67	31	15	18	34	1.92
40256331--40256462	37	3.6	37	76	2	95	38	31	15	15	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40258325--40258355	16	1.9	16	100	0	62	38	0	0	61	0.96
40258346--40258462	59	2.0	58	85	11	159	52	0	0	45	1.12
40258370--40258447	21	3.9	20	72	23	58	51	1	0	47	1.09
40258374--40258459	19	4.4	18	68	20	57	52	1	0	46	1.08
40260751--40260853	51	2.0	51	100	0	206	32	13	13	40	1.84
40261683--40261955	40	6.8	40	89	1	375	24	29	21	24	1.99
40261683--40261955	122	2.3	120	86	1	384	24	29	21	24	1.99
40270336--40270608	40	6.8	40	91	1	411	23	29	21	24	1.99
40274234--40274481	60	4.2	60	81	0	210	35	19	29	14	1.92
40274233--40274500	120	2.2	119	79	2	277	36	19	30	13	1.91
40274316--40274500	60	3.1	59	80	6	165	36	20	29	13	1.91
40278370--40278399	16	1.9	16	93	6	53	50	20	0	30	1.49
40279533--40279587	25	2.2	26	81	15	71	27	18	27	27	1.98
40279549--40279609	25	2.5	24	81	7	61	27	22	26	22	1.99
40281966--40282025	27	2.2	27	94	5	104	50	20	13	16	1.78
40282263--40282554	81	3.6	81	82	1	311	34	20	20	25	1.96
40282263--40282551	27	10.8	27	78	2	271	34	20	20	24	1.97
40282596--40282654	24	2.5	24	86	5	84	22	10	22	45	1.81
40282758--40282826	26	2.7	26	82	8	95	13	21	26	39	1.90
40282744--40282835	26	3.5	26	76	2	69	17	21	25	35	1.95
40282826--40282914	32	2.8	32	92	0	151	21	21	22	34	1.97
40282826--40282979	64	2.4	64	80	4	159	21	19	22	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40282909--40282983	32	2.4	33	80	8	84	24	18	20	37	1.94
40282932--40283067	32	4.2	32	77	9	143	19	19	22	38	1.93
40282856--40283067	96	2.2	96	80	6	241	20	18	23	38	1.93
40283142--40283194	26	2.0	26	88	0	79	18	28	20	32	1.97
40286429--40286479	24	2.0	27	88	11	81	52	13	0	33	1.41
40299130--40299275	74	2.0	75	90	2	233	44	9	15	30	1.78
40299253--40299525	138	2.0	138	89	4	417	41	8	5	44	1.59
40299588--40299636	25	2.0	25	100	0	98	44	8	2	44	1.45
40303801--40303830	15	2.0	15	100	0	60	33	26	6	33	1.83
40309521--40309589	20	3.4	20	93	2	111	46	5	7	40	1.55

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213