genome.fa.s9.2.7.7.80.10.50.1000.165.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   

This is table  165  of  259  ( 31025 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)
53606519--53606553	4	8.8	4	100	0	70	77	0	0	22	0.78
53609665--53609704	21	1.9	21	89	0	62	12	22	12	52	1.72
53613786--53613865	39	2.1	39	92	0	133	33	15	20	31	1.93
53613832--53614017	94	2.0	94	89	0	282	34	12	20	31	1.90
53613911--53614248	130	2.6	130	84	0	435	36	13	18	31	1.89
53614625--53614751	63	2.0	63	96	0	236	17	25	17	39	1.91
53639737--53639777	15	2.5	17	80	11	59	65	0	0	34	0.93
53639767--53639811	22	2.0	22	82	4	54	44	6	0	48	1.29
53640425--53640450	13	2.0	13	100	0	52	38	0	30	30	1.58
53643041--53643133	49	1.9	49	95	2	170	44	2	16	37	1.60
53652659--53652688	5	6.0	5	92	0	51	3	0	36	60	1.14
53655311--53655442	27	4.9	27	85	8	173	34	22	24	18	1.96
53655312--53655442	54	2.4	54	94	1	228	34	22	24	18	1.96
53655833--53655862	8	3.8	8	90	0	51	3	26	26	43	1.70
53657046--53657120	26	2.9	26	97	0	141	37	28	4	30	1.75
53670523--53670569	17	2.8	17	75	15	53	40	14	0	44	1.46
53671026--53671089	32	2.0	32	96	0	119	40	17	17	25	1.90
53673697--53673903	80	2.6	79	92	1	335	23	21	28	26	1.99
53673693--53673903	40	5.3	40	85	4	293	24	20	27	27	1.99
53681740--53681950	40	5.3	40	85	2	273	24	19	27	28	1.99
53696794--53696823	14	2.1	14	93	0	51	40	16	13	30	1.87
53705196--53705250	20	2.8	20	80	5	58	41	12	12	32	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53708203--53708233	10	3.1	10	95	0	53	74	6	0	19	1.03
53708200--53708231	15	2.1	15	94	0	55	71	9	0	18	1.12
53709061--53709093	14	2.5	14	90	9	52	48	0	12	39	1.40
53709679--53709759	34	2.4	34	80	0	99	33	4	22	39	1.75
53718081--53718191	27	4.2	26	85	7	134	37	21	23	17	1.93
53719608--53719678	24	3.0	24	95	0	124	25	38	1	35	1.65
53721751--53721786	19	1.9	18	88	5	54	58	0	5	36	1.22
53722654--53722733	38	2.1	38	88	0	115	42	6	17	33	1.74
53726018--53726056	21	1.9	21	89	5	62	30	12	0	56	1.37
53735685--53735796	42	2.7	42	90	0	170	23	31	25	19	1.98
53741897--53741958	31	2.0	31	96	0	115	24	29	20	25	1.99
53744729--53744837	35	3.1	35	97	0	200	47	4	6	41	1.49
53748103--53748127	13	1.9	13	100	0	50	24	4	8	64	1.38
53758826--53758907	31	2.6	31	86	0	110	20	19	14	45	1.85
53771841--53771887	20	2.3	20	96	0	85	17	21	23	38	1.93
53779990--53780069	25	3.2	26	79	10	71	36	21	22	20	1.95
53780004--53780075	25	3.0	25	81	4	85	37	19	20	22	1.94
53783397--53783509	56	2.0	56	92	0	190	39	17	10	31	1.84
53788386--53788493	54	2.0	54	94	0	189	37	4	11	47	1.60
53790422--53790477	27	2.1	27	100	0	112	26	25	3	44	1.70
53793958--53794005	22	2.2	22	100	0	96	43	16	10	29	1.81
53797500--53797529	15	2.0	15	100	0	60	40	13	0	46	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53819994--53820032	19	2.1	19	85	0	51	23	2	5	69	1.21
53819992--53820065	27	2.6	28	74	4	78	27	1	5	66	1.22
53819975--53820072	36	2.7	37	83	10	107	26	2	5	66	1.23
53821102--53821127	11	2.4	11	100	0	52	73	7	0	19	1.07
53828098--53828136	3	13.0	3	100	0	78	33	0	0	66	0.92
53838888--53838929	19	2.2	19	86	4	57	57	0	0	42	0.99
53838898--53838973	26	2.9	27	79	15	95	61	0	0	38	0.96
53838904--53838970	27	2.5	26	81	13	75	62	0	0	37	0.95
53839250--53839278	13	2.1	14	93	6	51	27	0	0	72	0.85
53839868--53839935	35	1.9	35	84	0	91	35	7	11	45	1.69
53840851--53840880	15	1.9	16	93	6	53	83	3	6	6	0.90
53846043--53846102	30	2.0	30	100	0	120	30	13	6	50	1.67
53853875--53853908	15	2.3	15	90	5	52	70	0	5	23	1.09
53856526--53856612	37	2.4	37	94	0	147	59	1	2	36	1.17
53856564--53856605	16	2.6	16	78	10	50	59	0	2	38	1.10
53856527--53856622	18	5.3	18	75	5	77	62	1	3	33	1.18
53860801--53860862	5	12.6	5	83	10	74	19	0	3	77	0.90
53860813--53860868	29	1.9	29	92	7	96	25	0	0	75	0.81
53861700--53861751	16	3.1	16	73	15	52	28	3	5	61	1.37
53864397--53864430	14	2.4	14	90	9	52	0	11	0	88	0.52
53864556--53864789	118	2.0	118	91	1	380	30	30	15	23	1.95
53865568--53865690	42	2.9	42	84	3	140	27	12	29	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53865790--53865844	8	6.9	8	93	6	94	76	0	0	23	0.79
53865783--53865844	24	2.5	24	87	12	99	75	0	0	24	0.80
53865783--53865855	16	4.5	16	88	11	89	76	0	0	23	0.78
53873080--53873114	6	5.8	6	93	6	54	28	0	0	71	0.86
53877557--53877894	169	2.0	169	86	2	473	34	24	13	28	1.93
53878893--53878955	27	2.3	27	91	0	99	44	25	9	20	1.82
53885419--53885478	31	1.9	31	86	0	84	55	10	5	30	1.54
53895450--53895561	39	2.8	39	90	1	161	25	24	28	22	1.99
53897038--53897075	19	2.0	19	100	0	76	36	21	5	36	1.76
53897889--53898162	121	2.3	119	88	3	392	46	15	11	26	1.79
53903859--53903901	3	14.7	3	85	4	61	62	0	0	37	0.95
53903859--53903901	12	3.7	12	96	3	79	62	0	0	37	0.95
53903853--53903897	15	3.1	15	83	3	56	62	0	0	37	0.96
53903932--53903973	17	2.4	17	84	15	59	64	0	7	28	1.20
53904381--53904407	13	2.1	13	100	0	54	77	0	0	22	0.76
53906977--53907015	21	1.9	21	84	5	53	35	2	17	43	1.63
53907312--53907354	21	2.0	21	86	8	61	30	16	25	27	1.97
53907608--53907650	22	2.0	22	86	4	61	30	2	23	44	1.66
53907648--53907910	122	2.1	124	88	4	381	38	17	16	27	1.92
53911271--53911359	27	3.3	27	75	9	76	38	17	21	22	1.94
53911802--53911886	27	3.2	26	85	6	107	34	11	17	36	1.86
53912092--53912127	18	2.0	18	100	0	72	33	11	16	38	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53913226--53913289	24	2.7	24	72	13	60	29	29	3	37	1.73
53914365--53914395	14	2.2	14	94	0	53	61	12	0	25	1.32
53915312--53915357	18	2.5	19	75	10	51	63	4	0	32	1.14
53915544--53915597	21	2.6	21	84	0	63	37	3	24	35	1.73
53915868--53915930	29	2.1	30	80	13	69	34	15	15	33	1.90
53929624--53929653	15	2.0	15	100	0	60	20	0	26	53	1.46
53929756--53929798	17	2.5	17	85	7	52	37	4	2	55	1.33
53936801--53936846	17	2.7	18	77	12	53	34	0	10	54	1.36
53937864--53937888	13	1.9	13	100	0	50	40	20	8	32	1.81
53938594--53938631	15	2.4	17	82	13	53	47	7	0	44	1.32
53943745--53943854	33	3.3	33	77	6	80	24	23	18	33	1.97
53946844--53947023	46	3.8	49	79	13	191	29	28	20	21	1.98
53951803--53951867	22	2.8	23	76	17	62	50	7	3	38	1.47
53951913--53951956	21	2.1	21	83	8	54	50	6	4	38	1.50
53953977--53954563	78	7.7	74	87	7	707	32	21	18	27	1.97
53954406--53954550	75	1.9	75	88	5	222	31	19	17	31	1.95
53953976--53954550	232	2.5	225	84	7	728	31	21	18	28	1.97
53966614--53966644	15	2.1	14	94	5	53	41	3	6	48	1.45
53966899--53966944	21	2.1	23	84	8	60	50	6	4	39	1.48
53968508--53968532	9	2.8	9	100	0	50	12	0	16	72	1.13
53968966--53969538	73	7.5	73	85	8	680	32	21	17	28	1.96
53968966--53969538	229	2.5	228	86	5	773	32	21	17	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53968966--53969538	150	3.7	149	86	6	704	32	21	17	28	1.96
53969394--53969538	75	1.9	76	90	1	211	31	18	18	31	1.95
53973330--53973370	11	3.7	11	100	0	82	34	19	26	19	1.96
53977366--53977447	39	2.2	36	78	10	83	54	2	1	41	1.21
53977905--53977991	33	2.6	34	77	18	92	60	1	0	37	1.04
53980579--53980683	30	3.5	31	77	3	88	38	5	5	50	1.50
53981109--53981151	9	4.8	9	82	0	59	25	6	20	46	1.76
53981274--53981321	20	2.4	20	100	0	96	20	10	25	43	1.83
53982535--53982568	8	4.0	8	92	7	50	38	2	0	58	1.13
53984409--53984448	21	2.0	21	90	5	64	57	0	10	32	1.32

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