genome.fa.s24.2.7.7.80.10.50.1000.15.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: Gbar_D11
Parameters: 2 7 7 80 10 50 1000
Length:  68311261

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   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  15  of  226  ( 27070 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)
5377183--5377249	34	1.9	35	84	3	91	43	13	10	32	1.78
5380519--5380550	16	2.1	16	94	5	57	40	0	0	59	0.97
5380506--5380558	27	2.1	26	86	10	74	43	0	0	56	0.99
5383420--5383514	27	3.6	27	80	8	115	21	29	25	24	1.99
5383412--5383667	51	5.1	49	87	2	273	15	32	25	26	1.95
5383516--5383640	24	5.2	24	96	0	214	13	34	25	26	1.93
5383412--5383640	48	4.6	48	89	1	269	16	32	25	25	1.96
5383412--5383645	72	3.1	72	83	6	261	15	32	25	25	1.96
5383461--5383645	24	7.4	27	87	6	193	15	33	25	25	1.95
5383412--5383669	24	10.2	27	83	7	185	15	32	25	26	1.95
5393066--5393171	13	8.2	13	69	10	65	34	16	2	45	1.63
5393127--5393198	26	2.7	26	74	6	65	31	20	5	41	1.76
5394905--5394964	21	3.0	21	85	4	79	15	23	18	43	1.87
5396468--5396513	17	2.6	18	82	6	58	43	21	4	30	1.72
5398435--5398486	10	4.9	11	79	11	56	57	0	1	40	1.10
5401754--5401830	27	3.1	24	73	5	64	20	28	25	24	1.99
5401746--5402001	51	5.1	49	87	2	282	16	33	25	25	1.96
5401746--5402001	24	10.3	24	85	7	278	16	33	25	25	1.96
5401746--5402001	75	3.4	72	82	5	278	16	33	25	25	1.96
5401862--5401948	12	7.2	12	66	14	54	12	35	24	27	1.92
5412443--5412702	130	2.0	130	100	0	520	24	17	18	39	1.92
5414487--5414547	27	2.3	27	97	0	113	34	8	31	26	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5415241--5415287	16	2.9	16	78	6	51	31	4	4	59	1.36
5416548--5416579	16	2.0	16	93	0	55	25	0	3	71	1.00
5421938--5422050	33	3.4	32	74	6	84	23	25	18	32	1.97
5421990--5422181	102	1.9	100	88	6	289	27	24	16	31	1.96
5421958--5422157	33	6.0	33	67	10	100	26	24	17	32	1.97
5432992--5433036	23	2.0	23	86	4	65	40	2	17	40	1.62
5433002--5433046	23	2.0	23	82	4	56	35	2	15	46	1.58
5433209--5433247	19	2.0	21	85	10	55	15	10	5	69	1.34
5433453--5433490	15	2.6	15	83	4	51	26	0	2	71	1.00
5433455--5433505	12	4.0	12	82	12	50	29	0	1	68	1.00
5433469--5433506	12	2.8	13	88	11	51	34	0	0	65	0.93
5433766--5433881	51	2.3	52	80	7	132	31	6	5	56	1.45
5437961--5437994	2	17.0	2	93	0	59	47	0	0	52	1.00
5439981--5440059	29	2.7	29	96	2	140	58	22	5	13	1.55
5440020--5440074	24	2.3	23	75	9	56	60	25	1	12	1.43
5440023--5440081	25	2.4	24	82	2	64	62	23	3	10	1.42
5441544--5441601	30	1.9	30	96	0	107	31	10	12	46	1.74
5452957--5453020	26	2.5	26	84	2	76	50	1	3	45	1.27
5453355--5453425	33	2.2	33	85	5	92	45	4	0	50	1.21
5456439--5456492	13	4.2	13	82	0	72	31	9	24	35	1.87
5457134--5457240	51	2.1	51	92	0	178	28	23	14	33	1.94
5474144--5474172	14	2.1	14	100	0	58	51	6	13	27	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5478382--5478415	14	2.4	14	90	0	50	50	29	0	20	1.49
5489282--5489523	81	3.0	81	95	0	412	38	5	23	31	1.79
5493841--5493894	21	2.6	21	90	0	90	22	9	38	29	1.85
5496049--5496109	30	2.0	31	96	3	115	26	24	6	42	1.79
5496046--5496105	15	4.1	15	72	10	52	30	23	6	40	1.80
5498696--5498721	8	3.2	8	100	0	52	38	0	0	61	0.96
5499669--5499828	25	6.6	25	83	5	181	18	25	19	36	1.94
5502949--5503008	30	2.0	31	90	3	95	28	16	3	51	1.60
5512119--5512149	3	10.0	3	93	6	53	3	32	32	32	1.74
5515797--5515824	14	2.0	14	100	0	56	78	7	7	7	1.09
5516292--5516346	20	2.8	20	84	10	62	56	7	3	32	1.44
5522349--5522380	10	3.0	11	90	9	57	71	0	0	28	0.86
5523858--5523896	19	2.0	20	90	5	62	58	2	0	38	1.12
5524457--5524491	17	1.9	19	88	11	56	14	5	20	60	1.54
5535533--5535635	51	2.0	51	81	7	120	33	11	10	44	1.75
5536409--5536441	15	2.4	14	90	10	50	57	6	0	36	1.23
5536542--5536583	21	2.0	22	90	9	70	50	4	7	38	1.51
5538139--5538212	21	3.6	21	72	7	62	40	20	24	14	1.90
5538135--5538243	41	2.6	42	85	8	152	43	19	22	14	1.87
5541898--5541945	25	2.0	24	91	4	78	43	14	4	37	1.65
5545355--5545409	22	2.5	22	70	2	58	25	1	14	58	1.47
5545908--5545954	23	2.0	23	95	0	85	21	8	10	59	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5560229--5560259	16	1.9	16	93	0	53	61	9	0	29	1.28
5560445--5560494	16	3.2	16	78	10	50	56	6	6	32	1.48
5571632--5571687	22	2.5	22	80	8	60	44	16	3	35	1.65
5571645--5571687	23	1.9	23	85	4	61	41	13	4	39	1.66
5576740--5576784	23	2.0	23	86	4	65	46	15	4	33	1.66
5576737--5576792	22	2.5	22	83	8	69	44	16	3	35	1.65
5576750--5576792	23	1.9	23	90	4	70	41	13	4	39	1.66
5592073--5592124	21	2.5	20	76	17	52	34	0	5	59	1.21
5592526--5592572	17	2.5	19	86	10	62	68	0	0	31	0.90
5592614--5592661	17	2.8	17	81	9	53	64	0	0	35	0.94
5593128--5593168	19	2.2	18	86	4	55	39	2	0	58	1.11
5593136--5593216	21	4.0	20	80	10	94	35	0	1	62	1.03
5613192--5613219	14	2.0	14	100	0	56	28	57	0	14	1.38
5622132--5622156	6	4.2	6	100	0	50	20	0	0	80	0.72
5622362--5622418	15	3.5	15	73	17	60	49	5	0	45	1.24
5627556--5627669	49	2.3	50	92	4	189	30	7	13	48	1.70
5628329--5628370	21	2.1	20	91	8	59	52	0	7	40	1.29
5638725--5638768	18	2.4	18	85	7	54	15	2	40	40	1.60
5642873--5642942	25	2.8	25	75	10	72	48	0	1	50	1.09
5642870--5642922	21	2.6	21	78	3	63	47	0	1	50	1.12
5642898--5642952	14	3.8	15	76	21	55	49	0	1	49	1.11
5643952--5643986	3	11.7	3	100	0	70	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)
5644138--5644201	26	2.6	26	80	9	71	40	0	25	34	1.56
5648937--5648996	31	2.0	29	83	6	75	53	20	0	26	1.46
5651269--5651569	151	2.0	151	98	0	584	34	19	13	32	1.91
5660441--5660698	132	2.0	132	85	3	349	29	17	21	31	1.96
5660573--5660908	150	2.2	150	83	3	399	28	18	19	33	1.96
5665424--5665483	25	2.4	26	83	8	88	53	0	6	40	1.27
5668589--5668665	14	5.0	15	71	20	52	42	15	9	32	1.78
5668605--5668644	20	2.0	20	90	0	62	50	12	10	27	1.72
5668593--5668659	34	1.9	35	90	3	109	46	13	8	31	1.74
5668628--5668667	14	2.9	14	84	0	53	42	17	7	32	1.77
5669420--5669460	21	2.0	21	85	0	55	39	0	4	56	1.21
5669458--5669517	21	2.9	21	75	5	68	31	1	8	58	1.38
5672486--5672546	18	3.4	18	68	14	54	54	3	0	42	1.17
5672529--5672575	19	2.4	19	85	3	58	63	4	0	31	1.13
5672540--5672581	19	2.2	19	83	8	50	64	4	2	28	1.26
5681307--5681347	18	2.3	18	100	0	82	34	29	4	31	1.79
5682923--5682987	33	2.0	33	82	11	80	43	1	4	50	1.32
5693729--5693769	13	3.0	14	82	7	57	31	0	2	65	1.05
5693729--5693774	13	3.5	13	84	3	56	36	0	2	60	1.09
5704680--5704748	35	2.0	35	97	0	129	27	24	15	31	1.96
5705115--5705389	136	2.0	136	97	0	514	26	22	16	34	1.95
5716875--5716924	25	2.0	25	92	0	82	4	36	4	56	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5719149--5719181	12	2.8	12	90	4	50	42	33	18	6	1.75
5719824--5719879	21	2.7	21	82	0	76	30	30	7	32	1.84
5725007--5725200	96	2.0	96	87	0	280	23	15	36	24	1.94
5729176--5729216	17	2.6	16	85	11	57	12	7	4	75	1.16
5731659--5731712	25	2.1	26	82	3	65	46	9	1	42	1.46
5732427--5732452	5	5.2	5	100	0	52	80	0	19	0	0.71
5732814--5732859	24	1.9	24	90	0	74	26	13	10	50	1.74
5736164--5736248	29	2.9	29	72	10	82	57	3	1	37	1.23
5736227--5736304	39	2.0	39	100	0	156	43	15	7	33	1.75
5738305--5738343	11	3.5	11	83	13	53	10	7	17	64	1.48

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   214   215   216   217   218   219   220   221   222   223   224   
          225   226