genome.fa.s1.2.7.7.80.10.50.1000.157.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: A01
Parameters: 2 7 7 80 10 50 1000
Length:  104050246

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   

This is table  157  of  316  ( 37835 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)
49753954--49754090	6	22.3	6	71	15	93	18	16	14	50	1.78
49753977--49754088	43	2.6	43	89	0	170	18	16	15	50	1.79
49758173--49758413	47	5.1	47	88	3	340	31	9	31	27	1.89
49758532--49758610	37	2.1	37	88	0	113	25	18	30	25	1.98
49760473--49760575	43	2.4	43	98	0	197	23	15	34	26	1.94
49760557--49760630	29	2.6	29	89	4	105	25	16	32	25	1.96
49760941--49761083	40	3.6	40	85	3	171	24	21	27	26	1.99
49761260--49761310	25	2.0	25	85	7	68	29	7	33	29	1.85
49764795--49765419	47	13.1	47	91	3	964	31	8	30	28	1.87
49764795--49765419	96	6.5	94	91	3	964	31	8	30	28	1.87
49764795--49765419	239	2.6	238	91	3	974	31	8	30	28	1.87
49765538--49765616	37	2.1	37	90	0	122	24	18	31	25	1.98
49772523--49772647	45	2.9	42	82	10	121	24	26	23	25	2.00
49773043--49773239	38	5.1	38	84	4	243	31	24	20	22	1.98
49778768--49778840	37	2.0	37	100	0	146	43	19	5	31	1.73
49779410--49779521	43	2.6	42	81	5	136	28	22	16	32	1.96
49780800--49780865	29	2.3	29	83	0	87	22	22	18	36	1.95
49780842--49780999	29	5.4	29	73	8	115	29	25	10	35	1.88
49780813--49781013	87	2.3	87	84	3	269	26	24	12	35	1.91
49783783--49783825	21	2.0	21	95	0	77	25	16	13	44	1.85
49785188--49785251	33	2.0	32	84	3	83	37	18	20	23	1.94
49785151--49785416	98	2.7	99	95	2	473	33	21	24	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49792664--49792773	27	4.0	27	71	10	87	35	20	22	21	1.96
49792682--49792772	27	3.2	28	75	11	89	35	21	23	19	1.96
49806875--49806943	29	2.4	29	95	0	120	18	28	11	40	1.86
49806863--49807003	29	4.9	29	79	3	113	25	24	12	36	1.91
49807911--49807937	14	1.9	14	100	0	54	37	14	11	37	1.82
49812738--49812788	26	2.0	26	84	7	68	33	19	17	29	1.95
49820236--49820300	34	1.9	34	84	6	87	24	23	23	29	1.99
49822989--49823068	28	2.8	28	83	7	99	28	33	15	22	1.94
49823134--49823168	17	2.0	18	88	5	54	20	34	22	22	1.97
49823288--49823338	16	3.2	16	82	0	66	7	21	23	47	1.77
49825399--49825570	40	4.3	40	94	2	267	26	27	21	23	1.99
49825399--49825623	80	2.8	80	85	4	276	26	27	22	24	2.00
49825399--49825623	119	1.9	120	82	6	287	26	27	22	24	2.00
49826087--49826259	56	3.1	56	99	0	337	22	24	8	44	1.81
49832615--49832872	40	6.5	40	84	5	274	26	26	21	25	1.99
49832615--49832872	119	2.2	120	81	5	292	26	26	21	25	1.99
49833338--49833457	56	2.1	56	96	0	222	22	22	10	45	1.82
49848951--49848991	21	2.0	21	85	4	57	48	26	0	24	1.51
49852120--49852184	32	2.0	32	96	0	121	30	9	15	44	1.78
49856090--49856378	157	1.8	157	87	1	436	37	19	11	31	1.88
49862136--49862167	16	2.0	16	93	0	55	50	21	6	21	1.71
49863525--49863632	29	3.8	29	85	6	148	27	16	27	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49864702--49864735	18	1.9	18	88	5	52	41	20	8	29	1.82
49866523--49866579	8	7.1	8	79	0	69	54	28	3	14	1.56
49866523--49866588	16	4.1	16	90	0	96	51	28	4	15	1.63
49867946--49868053	29	3.8	29	84	6	139	27	16	26	28	1.97
49867946--49868056	58	1.9	57	85	8	154	27	16	27	28	1.97
49870017--49870076	27	2.3	26	85	2	75	35	20	23	21	1.96
49882531--49882603	27	2.7	27	76	0	74	30	20	15	34	1.93
49882884--49882930	14	3.2	14	81	6	58	42	25	6	25	1.78
49886153--49886251	34	2.9	34	80	7	103	28	22	21	28	1.99
49890065--49890430	46	8.0	46	92	0	554	23	24	15	37	1.93
49892794--49892861	30	2.3	30	84	5	84	27	19	5	47	1.72
49894278--49894345	29	2.3	30	87	5	93	29	17	5	47	1.71
49898738--49898791	26	2.1	26	85	0	72	37	24	24	14	1.93
49898846--49898915	32	2.2	32	81	0	77	31	20	24	24	1.98
49898965--49899073	43	2.5	43	83	0	137	28	31	20	20	1.97
49899370--49899475	27	4.0	27	79	7	108	31	11	19	37	1.87
49905686--49905738	22	2.5	20	74	11	52	73	9	5	11	1.24
49906549--49906596	19	2.4	21	86	6	64	66	6	4	22	1.32
49906635--49906678	18	2.4	19	81	14	56	68	0	4	27	1.09
49923210--49923476	38	6.3	38	69	21	156	29	16	24	29	1.96
49923244--49923455	47	4.7	47	79	10	244	30	16	23	30	1.96
49923287--49923476	85	2.2	85	95	0	344	30	16	23	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49925887--49925928	15	2.8	15	88	0	66	16	16	14	52	1.75
49928420--49928747	38	7.9	38	71	17	224	30	15	24	29	1.96
49928446--49928539	48	2.0	48	91	0	152	34	15	21	28	1.94
49928420--49928740	85	3.8	85	88	0	471	30	15	24	29	1.96
49940496--49940536	21	2.0	21	90	4	66	58	0	7	34	1.26
49940998--49941035	20	2.0	20	89	5	60	42	5	10	42	1.62
49949378--49949402	13	1.9	13	100	0	50	28	0	0	72	0.86
49950220--49950257	19	2.0	20	85	15	53	39	23	0	36	1.55
49950480--49950654	46	3.8	45	77	10	183	29	28	20	22	1.98
49950487--49950657	93	1.8	93	89	0	270	28	28	20	22	1.98
49952599--49952648	17	2.9	17	72	0	55	22	18	20	40	1.92
49954239--49954318	27	3.0	27	86	0	115	22	21	13	42	1.88
49954242--49954333	27	3.4	27	83	0	112	20	20	13	45	1.84
49954239--49954350	54	2.1	54	81	0	125	21	20	14	43	1.87
49954383--49954452	27	2.6	27	79	2	79	24	28	7	40	1.81
49957720--49957868	7	21.9	7	64	21	50	57	0	4	38	1.23
49957770--49957814	21	2.1	21	84	8	56	60	0	4	35	1.17
49958174--49958271	18	5.5	18	89	4	146	36	13	11	38	1.80
49958174--49958280	35	3.0	35	94	4	178	37	14	10	38	1.80
49967167--49967254	44	2.0	44	86	0	122	32	29	18	19	1.95
49970545--49970726	40	4.6	40	93	2	287	22	27	23	26	1.99
49978602--49978783	40	4.6	40	93	2	278	23	27	22	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49986373--49986458	44	2.0	44	86	4	120	31	31	17	19	1.95
49987948--49988189	49	4.9	50	79	3	220	29	25	19	26	1.98
49994977--49995151	49	3.5	49	85	6	244	29	25	18	26	1.98
49994964--49995158	49	3.9	49	83	5	239	29	25	18	26	1.98
49994970--49995152	100	1.8	100	95	0	330	29	25	19	25	1.98
49999515--49999552	14	2.9	13	81	11	51	57	10	13	18	1.63
49999548--49999586	20	2.0	20	84	0	51	53	10	5	30	1.56
50008265--50008329	31	2.1	31	97	0	121	24	20	18	36	1.94
50017265--50017342	29	2.7	28	80	11	95	26	14	29	29	1.95
50017295--50017622	174	1.9	174	96	0	602	30	14	24	30	1.95
50025324--50025396	29	2.5	30	80	13	98	27	13	30	28	1.94
50025359--50025682	174	1.9	174	95	0	585	30	13	24	31	1.94
50028148--50028193	21	2.1	22	84	11	60	21	15	0	63	1.31
50034871--50034937	30	2.2	30	86	5	91	32	11	1	53	1.47
50036627--50036745	61	1.9	62	83	8	154	33	8	6	51	1.58
50043283--50043420	43	3.2	43	76	6	127	34	22	15	27	1.94
50052090--50052223	43	3.1	43	80	10	150	33	26	14	25	1.95
50061725--50061773	25	2.0	25	83	0	62	36	6	14	42	1.70
50061996--50062092	40	2.4	40	94	0	167	23	18	24	32	1.97
50062522--50062877	171	2.1	171	95	0	631	18	30	23	27	1.98
50067644--50067831	40	4.7	40	95	0	331	21	27	20	30	1.98
50074306--50074457	40	3.8	40	85	1	180	26	25	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50074306--50074457	80	1.9	80	84	0	205	26	25	22	25	2.00
50082373--50082490	46	2.6	44	84	8	148	22	27	21	28	1.99
50082422--50082592	94	1.8	92	82	5	218	23	28	19	28	1.98
50098357--50098486	27	4.8	27	79	1	127	38	17	16	27	1.91
50098350--50098486	54	2.5	54	77	4	143	38	18	16	26	1.92
50101217--50101338	46	2.7	46	82	10	151	30	19	27	22	1.98
50101215--50101570	49	7.5	49	72	10	199	28	19	28	23	1.99
50101265--50101570	142	2.2	145	81	9	355	27	19	28	23	1.99
50102913--50102994	42	2.0	42	85	0	110	28	14	21	35	1.93
50111990--50112069	42	1.9	42	81	0	97	30	17	20	32	1.95

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