genome.fa.s12.2.7.7.80.10.50.1000.159.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: A12
Parameters: 2 7 7 80 10 50 1000
Length:  103038859

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   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   

This is table  159  of  320  ( 38372 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)
52491841--52491880	12	3.3	12	85	0	53	57	0	25	17	1.40
52491811--52491891	24	3.4	24	78	0	81	69	1	20	8	1.22
52496078--52496208	46	2.8	46	88	0	190	20	19	28	31	1.97
52500380--52500417	20	2.0	20	89	5	60	23	21	18	36	1.95
52507833--52507884	27	1.9	27	84	0	68	65	1	25	7	1.30
52513986--52514021	17	2.1	17	100	0	72	58	5	5	30	1.44
52514751--52514827	22	3.3	23	75	5	66	28	3	29	37	1.75
52516578--52516634	18	3.2	17	71	11	51	10	24	1	63	1.36
52521668--52521715	25	1.9	25	82	0	60	81	2	4	12	0.93
52522102--52522147	10	4.5	10	78	5	56	15	19	21	43	1.87
52522099--52522147	21	2.4	20	86	3	62	14	18	22	44	1.85
52524825--52524866	16	2.7	15	76	20	50	7	11	11	69	1.37
52524858--52524923	15	4.6	14	80	10	71	13	7	3	75	1.13
52524858--52524933	13	5.6	12	74	21	53	13	6	3	76	1.12
52526535--52526599	20	3.3	19	73	16	51	38	16	21	23	1.93
52526990--52527037	21	2.3	21	92	3	80	47	22	16	12	1.80
52528670--52528716	20	2.3	20	85	0	67	21	12	36	29	1.91
52530386--52530491	48	2.2	48	85	9	137	14	24	1	59	1.45
52531705--52531801	30	3.2	30	75	2	106	28	26	15	28	1.96
52534899--52534945	20	2.3	20	85	0	67	21	12	36	29	1.91
52536813--52536987	95	1.9	94	87	3	262	25	28	20	25	1.99
52537984--52538051	30	2.3	30	89	2	102	35	25	16	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52538567--52538663	30	3.2	30	71	8	81	27	27	15	28	1.96
52540517--52540566	10	4.7	10	90	9	73	16	4	8	72	1.24
52540502--52540567	11	5.8	11	84	12	89	18	4	7	69	1.29
52542008--52542073	10	5.9	10	77	19	60	69	7	3	19	1.26
52542011--52542073	11	5.5	11	81	10	81	73	6	3	17	1.18
52542021--52542064	12	3.4	14	81	15	58	75	4	4	15	1.14
52542387--52542557	46	3.7	46	77	10	179	29	28	19	22	1.98
52542392--52542562	93	1.8	93	89	2	272	29	28	20	21	1.98
52547857--52547905	10	4.8	10	82	5	62	14	22	22	40	1.90
52547854--52547903	21	2.5	20	90	3	73	14	22	24	40	1.90
52552294--52552341	21	2.3	21	92	3	80	47	22	16	12	1.80
52553853--52553914	10	5.9	10	74	10	52	33	32	3	30	1.74
52553853--52553915	21	3.0	21	88	2	90	33	33	3	30	1.74
52555845--52556200	47	7.6	44	70	13	180	23	29	19	27	1.98
52556023--52556197	95	1.9	94	87	3	262	25	28	20	25	1.99
52559791--52559842	23	2.3	22	75	21	54	9	23	1	65	1.32
52564900--52564967	30	2.3	29	94	2	118	33	23	17	25	1.96
52565483--52565579	30	3.2	30	71	8	81	27	27	15	28	1.96
52567416--52567485	13	5.6	12	80	19	81	15	4	8	71	1.26
52567416--52567485	14	5.5	13	77	14	74	15	4	8	71	1.26
52569104--52569201	30	3.3	30	75	0	97	29	16	26	27	1.97
52570470--52570517	20	2.4	20	71	0	51	20	27	18	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52573011--52573091	24	3.4	23	73	11	83	62	0	24	12	1.29
52579171--52579233	33	1.9	33	84	12	85	12	26	6	53	1.62
52579231--52579286	21	2.7	21	72	5	51	8	17	1	71	1.21
52579230--52579286	14	4.1	14	75	16	57	8	17	1	71	1.19
52579228--52579367	41	3.5	39	77	14	124	7	19	3	69	1.28
52579248--52579354	6	17.7	6	66	7	56	6	18	3	71	1.24
52579302--52579386	39	2.1	41	81	14	99	7	18	4	69	1.30
52584487--52584540	23	2.2	25	78	15	60	62	3	22	11	1.43
52599526--52599832	47	6.5	46	75	11	216	25	28	18	27	1.98
52599526--52599837	94	3.3	93	74	13	298	25	28	18	27	1.98
52600554--52600578	12	2.1	12	100	0	50	60	16	8	16	1.58
52603805--52603978	48	3.5	48	89	4	233	25	18	27	28	1.98
52608529--52608558	9	3.3	9	100	0	60	10	0	76	13	1.01
52611414--52611439	3	8.7	3	100	0	52	65	0	0	34	0.93
52612883--52612979	44	2.3	43	85	7	126	30	25	19	23	1.98
52614525--52614611	27	3.2	27	80	15	108	37	24	19	18	1.94
52619013--52619090	27	2.9	26	88	7	104	32	21	25	20	1.98
52623778--52623836	21	2.8	22	80	14	63	40	0	3	55	1.16
52623802--52623966	58	2.9	57	85	5	190	44	1	1	52	1.19
52625043--52625069	8	3.4	8	100	0	54	11	0	0	88	0.50
52627759--52627801	20	2.1	21	83	12	54	37	6	9	46	1.63
52629795--52629837	20	2.2	20	91	0	68	32	6	23	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52629965--52630004	2	20.0	2	100	0	80	50	50	0	0	1.00
52633488--52633575	45	2.0	45	93	0	149	39	25	12	22	1.89
52633504--52633579	21	3.5	21	65	16	55	39	25	13	22	1.90
52638637--52638669	14	2.3	15	89	5	50	15	9	15	60	1.58
52648149--52648319	43	4.0	43	71	11	134	23	17	26	32	1.97
52648480--52648568	42	2.1	43	95	2	162	39	5	23	31	1.78
52648504--52648572	20	3.3	20	72	21	70	39	4	24	31	1.75
52652871--52652991	35	3.5	35	78	4	145	27	10	19	42	1.84
52652978--52653079	50	2.0	50	80	0	114	32	9	17	40	1.83
52654249--52654291	20	2.3	18	81	14	52	41	0	20	37	1.53
52658336--52658449	48	2.4	48	87	0	165	30	21	26	21	1.98
52658469--52658648	97	1.9	97	80	4	211	25	20	30	24	1.98
52671873--52672097	40	5.6	40	83	2	281	25	24	27	23	2.00
52671873--52672097	120	1.9	121	85	4	312	25	24	27	23	2.00
52680051--52680275	40	5.6	40	82	5	240	25	24	27	23	2.00
52680051--52680275	80	2.8	80	84	2	281	25	24	27	23	2.00
52680051--52680275	120	1.9	121	84	6	305	25	24	27	23	2.00
52686798--52686837	18	2.2	18	86	8	55	12	27	47	12	1.77
52686941--52687065	27	4.6	27	87	0	178	34	15	13	36	1.86
52687061--52687133	27	2.7	27	78	4	76	39	17	19	23	1.92
52694747--52694861	39	2.9	40	88	2	169	23	20	29	26	1.99
52712041--52712085	24	2.0	23	86	8	65	28	22	0	48	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52712337--52712379	15	2.9	15	79	6	52	62	4	0	32	1.15
52715150--52715227	34	2.3	35	86	8	108	24	2	25	47	1.65
52715396--52715773	126	3.0	126	88	2	528	37	16	15	29	1.90
52718819--52718875	25	2.3	23	78	18	62	49	5	0	45	1.24
52719892--52719925	7	4.9	7	86	13	52	58	11	0	29	1.33
52720855--52720944	25	3.4	25	70	15	74	61	4	3	31	1.32
52720857--52720977	54	2.2	54	95	2	217	61	4	2	31	1.27
52720855--52720945	26	3.5	25	69	19	69	61	4	3	30	1.31
52720874--52720955	25	3.2	25	67	20	69	62	3	3	30	1.30
52721133--52721182	21	2.4	21	86	0	64	40	2	24	34	1.66
52726655--52726706	22	2.3	22	86	6	68	34	5	1	57	1.33
52730193--52730217	2	12.5	2	100	0	50	52	0	0	48	1.00
52730500--52730533	16	2.1	16	89	10	52	58	0	5	35	1.22
52749290--52749497	51	4.1	51	89	1	319	29	22	14	33	1.94
52749285--52749486	101	2.0	102	92	0	334	30	21	14	33	1.93
52755113--52755175	30	2.1	30	93	0	108	57	9	1	31	1.40
52755213--52755260	22	2.2	22	84	0	60	64	4	12	18	1.43
52758484--52758565	25	3.3	25	81	1	94	28	20	18	32	1.96
52760210--52760344	40	3.4	38	86	8	189	30	23	21	24	1.99
52768337--52768430	40	2.4	38	87	8	143	30	24	21	23	1.99
52768348--52768432	40	2.1	40	95	0	152	32	23	20	23	1.97
52771079--52771116	14	2.6	15	79	8	51	42	7	10	39	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52773312--52773365	18	3.3	18	66	28	57	22	7	48	22	1.75
52773312--52773375	30	2.1	30	94	0	110	18	6	50	25	1.70
52774115--52774510	91	4.4	91	81	9	350	36	18	16	28	1.92
52774424--52774456	14	2.4	14	94	0	57	63	6	12	18	1.48
52774042--52774620	183	3.3	177	78	9	531	37	17	16	27	1.91
52774030--52774620	87	6.6	91	80	7	500	37	18	16	27	1.92
52774533--52774967	147	3.0	146	93	0	735	32	20	16	30	1.95
52775156--52775200	13	3.4	13	87	6	72	68	6	11	13	1.37
52774992--52775272	100	2.8	101	89	3	408	38	18	18	24	1.93
52775183--52775419	73	3.2	73	92	1	368	34	21	16	28	1.94

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   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320