genome.fa.s21.2.7.7.80.10.50.1000.39.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: Dt_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  55873576

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   

This is table  39  of  182  ( 21791 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)
12350644--12350678	18	2.0	17	88	5	52	45	0	0	54	0.99
12350843--12350933	45	2.0	45	85	2	121	37	28	6	27	1.82
12350914--12350982	16	4.2	16	92	3	120	36	37	1	24	1.65
12350914--12350982	33	2.1	32	94	2	120	36	37	1	24	1.65
12357841--12357882	21	2.0	21	100	0	84	38	33	0	28	1.58
12360743--12360807	31	2.1	32	82	8	80	43	4	16	35	1.69
12365566--12365613	25	1.9	25	87	8	71	35	2	10	52	1.48
12368727--12368779	21	2.5	20	84	6	61	58	3	5	32	1.39
12375513--12375553	20	2.0	20	100	0	82	12	34	14	39	1.84
12378607--12378639	13	2.4	14	90	10	50	33	3	0	63	1.10
12389014--12389092	3	25.7	3	78	5	68	55	1	2	40	1.21
12393089--12393123	17	1.9	19	88	11	56	25	0	5	68	1.11
12396301--12396490	95	2.0	95	97	0	362	40	13	14	32	1.85
12397304--12397331	14	2.0	14	100	0	56	35	28	7	28	1.84
12405615--12405700	26	3.3	26	86	3	84	18	16	23	41	1.89
12405635--12405706	26	2.8	26	91	0	108	16	20	23	38	1.92
12405817--12405879	25	2.6	25	82	2	74	22	28	19	30	1.98
12424386--12424434	22	2.2	22	88	0	71	51	2	8	38	1.43
12424429--12424481	17	3.0	16	81	15	52	60	5	0	33	1.20
12425455--12425518	22	2.9	22	82	15	78	57	1	0	40	1.08
12428923--12428954	16	2.0	16	100	0	64	31	12	18	37	1.88
12431864--12431895	16	2.0	16	100	0	64	31	12	18	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12433151--12433185	13	2.8	13	91	4	54	42	2	2	51	1.31
12449142--12449384	132	1.8	134	82	7	314	32	20	10	36	1.87
12456626--12456683	19	3.0	19	92	2	89	17	5	8	68	1.33
12468597--12468657	26	2.3	26	83	5	70	60	3	0	36	1.13
12468683--12468746	25	2.7	24	81	13	78	59	3	0	37	1.13
12468822--12468878	23	2.5	24	77	13	66	28	3	3	64	1.26
12468820--12468872	21	2.5	21	82	14	65	28	3	3	64	1.28
12471195--12471253	25	2.3	26	80	14	68	33	23	25	16	1.96
12471415--12471534	64	1.9	64	83	0	159	33	21	21	23	1.97
12475869--12475934	33	2.0	33	90	0	105	18	10	18	53	1.72
12476490--12476765	138	2.0	138	99	0	543	27	18	19	33	1.96
12477829--12477854	6	4.3	6	100	0	52	15	30	15	38	1.88
12480221--12480283	31	2.0	31	100	0	126	12	12	15	58	1.63
12485127--12485326	103	2.0	99	86	8	280	37	15	17	30	1.90
12485193--12485463	137	2.0	137	94	0	481	39	13	15	31	1.87
12485332--12485687	107	3.4	100	86	7	398	39	14	15	30	1.87
12485422--12485687	108	2.5	108	91	1	426	39	13	14	32	1.85
12485772--12486209	99	4.1	107	85	10	601	29	15	14	40	1.87
12490066--12490117	24	2.2	24	89	0	77	50	9	3	36	1.54
12490650--12491060	205	2.0	205	100	0	822	32	23	12	32	1.91
12497232--12497281	24	2.1	23	85	3	64	46	12	4	38	1.60
12500350--12500421	36	2.0	36	100	0	144	27	11	22	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12500621--12500654	16	2.1	16	100	0	68	23	11	17	47	1.81
12502029--12502101	36	2.0	36	91	0	119	30	16	13	39	1.87
12520784--12520830	21	2.2	22	92	3	78	21	19	38	21	1.94
12528223--12528264	22	1.9	22	90	0	66	57	0	2	40	1.12
12528628--12528677	17	2.7	20	78	18	70	10	0	44	46	1.37
12533267--12533316	17	2.7	20	78	18	70	10	0	44	46	1.37
12533837--12533975	5	27.6	5	99	0	269	39	0	0	59	1.02
12538703--12538735	10	3.3	10	91	0	57	0	9	3	87	0.63
12538706--12538744	20	2.0	20	84	0	51	7	7	2	82	0.94
12540367--12540404	20	1.9	20	88	0	58	36	28	10	23	1.88
12542983--12543007	5	5.0	5	100	0	50	40	0	0	60	0.97
12543879--12544002	55	2.3	55	87	2	169	25	8	16	49	1.75
12543962--12544036	34	2.2	34	87	0	105	21	10	20	48	1.79
12543984--12544037	18	3.1	18	70	20	60	18	7	18	55	1.65
12543992--12544168	55	3.2	55	90	1	266	23	7	18	50	1.72
12543903--12544091	89	2.1	89	90	1	290	23	8	18	49	1.75
12543879--12544146	144	1.9	144	86	1	385	23	8	18	50	1.74
12551924--12551957	17	2.0	17	94	0	59	44	50	0	5	1.26
12556564--12556597	17	2.0	17	94	0	59	44	50	0	5	1.26
12557376--12557480	54	1.9	54	90	0	165	29	22	24	22	1.99
12559536--12559602	35	1.9	35	96	0	125	17	49	11	20	1.79
12560904--12560929	3	8.7	3	100	0	52	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12563982--12564472	78	6.3	78	71	8	284	31	21	18	28	1.97
12564803--12564835	16	2.1	16	100	0	66	36	6	36	21	1.78
12564817--12564911	44	2.1	45	86	5	131	33	5	28	32	1.80
12565122--12565173	22	2.4	21	79	17	54	55	5	0	38	1.24
12574265--12574338	29	2.5	30	82	10	89	33	5	13	47	1.66
12580616--12580678	24	2.7	24	82	2	83	34	0	3	61	1.12
12580661--12580703	19	2.3	18	80	4	50	34	0	2	62	1.08
12584971--12585006	14	2.6	14	100	0	72	75	0	5	19	1.00
12591055--12591083	5	5.8	5	100	0	58	20	0	37	41	1.53
12596433--12596505	13	6.1	13	66	18	50	36	1	2	58	1.21
12596439--12596501	23	2.7	23	75	4	65	36	1	3	58	1.23
12599073--12599191	59	2.0	59	93	0	202	39	10	10	39	1.74
12611075--12611103	3	9.7	3	100	0	58	34	0	0	65	0.93
12612479--12612520	19	2.2	19	83	8	50	21	4	28	45	1.72
12617951--12618332	188	2.0	185	86	4	534	42	14	10	32	1.80
12623389--12623440	4	13.0	4	85	0	59	23	7	1	67	1.27
12623631--12623657	7	3.9	7	100	0	54	25	0	0	74	0.83
12632681--12632755	33	2.4	31	78	10	80	37	1	1	60	1.14
12649532--12649572	19	2.3	18	84	12	57	34	0	4	60	1.18
12655519--12655652	65	2.1	65	97	0	250	37	19	8	35	1.82
12673409--12673453	20	2.2	20	88	0	63	31	15	2	51	1.56
12674120--12674153	13	2.5	13	90	4	50	79	2	14	2	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12675053--12675078	6	4.3	6	100	0	52	15	15	34	34	1.89
12679608--12679632	12	2.1	12	100	0	50	28	24	8	40	1.83
12681730--12681784	29	2.0	28	89	7	85	63	7	0	29	1.21
12685910--12686564	210	3.1	211	95	1	1183	33	19	17	29	1.95
12689346--12689424	39	2.0	39	100	0	158	27	30	17	24	1.97
12691473--12691519	19	2.6	19	83	12	55	40	0	0	59	0.97
12692759--12692897	46	3.0	46	87	0	197	28	23	11	36	1.90
12695188--12695254	31	2.2	31	86	0	98	37	13	7	41	1.73
12696017--12696054	17	2.4	16	86	8	51	50	13	7	28	1.69
12698413--12699020	144	4.2	144	99	0	1198	29	23	20	26	1.99
12699174--12700330	210	5.5	210	93	1	1959	33	19	17	29	1.94
12699174--12700330	417	2.8	419	94	1	2063	33	19	17	29	1.94
12700246--12700432	102	1.8	102	95	0	338	32	19	17	29	1.95
12704262--12704308	21	2.2	22	77	11	53	57	0	2	40	1.11
12704314--12704360	17	2.8	17	80	6	51	55	0	0	44	0.99
12706078--12706140	31	2.0	31	93	0	108	38	11	7	42	1.70
12707411--12707525	54	2.1	56	90	4	180	21	14	13	49	1.78
12708464--12708523	9	6.6	9	83	9	68	31	3	0	65	1.09
12708583--12708607	13	1.9	13	100	0	50	44	8	8	40	1.63
12709326--12709360	6	5.8	6	100	0	70	31	17	34	17	1.93
12710558--12710742	46	4.0	46	86	2	264	29	23	9	37	1.86
12713025--12713092	31	2.2	31	89	0	109	36	14	7	41	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12713865--12713905	6	6.8	6	100	0	82	31	17	34	17	1.93
12714335--12714388	22	2.3	25	72	24	62	57	1	0	40	1.09
12715192--12715263	31	2.1	34	82	12	87	36	13	30	19	1.91
12715354--12715379	11	2.4	11	100	0	52	38	0	0	61	0.96
12716708--12716745	17	2.4	16	86	8	51	50	13	7	28	1.69
12719667--12719742	25	3.0	25	96	0	134	25	18	6	50	1.71
12724325--12724432	15	7.2	15	69	12	87	25	23	7	43	1.79
12724315--12724438	30	4.1	30	95	1	212	25	25	6	42	1.78
12729018--12729125	15	7.2	15	69	12	87	25	23	7	43	1.79
12729008--12729131	30	4.1	30	95	1	212	25	25	6	42	1.78

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