genome.fa.s12.2.7.7.80.10.50.1000.99.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  99  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)
31750391--31750439	21	2.2	23	85	7	66	30	0	26	42	1.55
31754024--31754421	47	8.5	47	94	0	643	31	8	30	28	1.87
31754539--31754618	37	2.2	37	84	4	99	28	18	28	23	1.98
31756306--31756446	57	2.5	57	80	5	160	30	21	19	28	1.98
31766354--31766399	22	2.1	22	91	0	74	43	28	17	10	1.82
31766357--31766407	22	2.3	22	83	6	59	41	29	17	11	1.85
31766602--31766666	22	3.0	21	80	8	67	29	23	27	20	1.98
31766808--31766966	41	3.9	41	90	0	239	26	27	23	22	1.99
31767208--31767278	27	2.6	27	81	0	79	30	12	21	35	1.91
31767230--31767604	27	13.9	27	77	7	205	29	9	20	40	1.84
31767228--31767604	54	7.0	53	74	7	233	29	9	19	40	1.84
31767537--31767604	26	2.6	27	88	4	102	30	7	20	41	1.80
31767589--31767642	27	2.0	27	85	0	72	29	18	18	33	1.95
31788226--31788285	30	2.0	30	86	0	84	31	23	6	38	1.81
31796454--31796509	17	3.2	18	68	27	57	60	8	0	30	1.27
31796442--31796531	34	2.5	38	80	17	127	61	6	0	32	1.22
31797038--31797109	10	7.7	10	71	13	55	38	1	1	58	1.15
31797065--31797105	18	2.3	19	84	12	52	41	0	2	56	1.13
31797041--31797114	19	4.1	18	74	17	55	41	1	2	54	1.23
31799839--31800009	46	3.7	45	83	10	188	25	18	30	24	1.98
31807379--31807412	12	2.8	12	86	0	50	26	14	0	58	1.36
31809354--31809398	19	2.4	19	92	7	74	24	20	13	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31811962--31812130	43	3.9	42	75	16	148	29	27	19	23	1.98
31818215--31818391	40	4.5	40	87	4	227	25	28	22	24	1.99
31818248--31818395	40	3.7	40	89	5	228	25	28	22	24	1.99
31825396--31825583	40	4.7	40	90	3	290	26	28	21	24	1.99
31827013--31827052	13	3.1	13	77	0	53	15	32	30	22	1.94
31827626--31827683	19	2.9	19	76	19	64	79	0	17	3	0.87
31827627--31827684	6	10.0	6	76	14	50	77	0	18	3	0.91
31828492--31828688	46	4.3	46	90	1	261	35	12	25	26	1.92
31829085--31829435	143	2.5	143	90	1	535	30	21	21	27	1.98
31829374--31829568	45	4.4	44	77	7	162	29	21	19	29	1.98
31829417--31829917	90	5.6	90	69	9	288	32	20	16	30	1.95
31829371--31829756	44	8.7	44	67	11	151	31	21	18	28	1.97
31829512--31829802	88	3.3	88	68	11	250	32	21	17	28	1.96
31829463--31830012	179	3.1	178	86	4	725	33	20	16	29	1.94
31830982--31831023	17	2.5	17	92	0	66	28	45	23	2	1.66
31830999--31831024	12	2.2	12	100	0	52	26	46	26	0	1.53
31836882--31836961	40	2.0	40	97	0	151	28	7	16	47	1.73
31837056--31837226	46	3.7	45	78	12	170	26	18	31	23	1.97
31841379--31841430	22	2.3	23	81	15	65	40	5	0	53	1.25
31841765--31842054	152	1.9	154	88	5	444	41	4	11	43	1.61
31842195--31842227	7	4.7	7	88	11	50	0	12	3	84	0.72
31842196--31842228	13	2.4	14	90	10	59	0	12	6	81	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31844881--31845200	56	5.7	56	86	1	435	26	14	24	34	1.94
31849109--31849330	40	5.6	40	89	1	340	23	22	25	28	1.99
31850832--31850987	43	3.7	43	70	10	140	26	17	26	30	1.97
31857282--31857306	12	2.1	12	100	0	50	52	0	32	16	1.44
31859706--31859766	24	2.5	24	86	5	88	16	18	21	44	1.87
31859826--31859895	27	2.7	26	71	8	63	22	25	15	35	1.94
31869722--31869762	21	2.0	21	90	0	64	43	0	19	36	1.51
31876208--31876526	41	7.8	40	87	2	289	34	24	21	20	1.96
31876224--31876526	82	3.7	81	88	1	410	35	24	21	18	1.95
31876224--31876526	123	2.5	123	88	1	437	35	24	21	18	1.95
31877344--31877404	20	2.7	22	75	17	63	54	0	4	40	1.22
31886672--31886704	15	2.3	15	89	5	50	63	0	9	27	1.24
31892417--31892458	20	2.1	20	100	0	84	33	9	30	26	1.88
31897860--31897907	25	1.9	25	86	0	69	20	18	16	43	1.88
31899423--31899481	30	2.0	30	93	6	102	28	15	10	45	1.78
31902343--31902873	50	11.2	49	67	18	230	31	18	21	28	1.97
31902420--31902565	44	3.2	44	70	21	145	29	20	23	26	1.99
31902332--31903251	94	9.8	94	82	3	938	33	18	19	28	1.96
31903176--31903298	49	2.5	49	79	9	115	41	19	9	29	1.83
31911851--31911913	31	2.0	33	90	6	103	49	6	4	39	1.49
31911851--31911902	15	3.4	15	74	12	52	51	7	3	36	1.49
31913496--31913551	29	1.9	29	92	0	94	21	14	21	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31915256--31915281	8	3.2	8	100	0	52	76	0	0	23	0.78
31917292--31917472	100	1.8	100	81	2	229	29	20	14	35	1.92
31929276--31929322	20	2.3	20	92	0	76	31	10	23	34	1.89
31929371--31929477	24	4.4	24	92	4	180	29	19	22	28	1.98
31929371--31929477	49	2.2	47	93	5	178	29	19	22	28	1.98
31929685--31929747	31	2.0	31	84	0	81	36	14	23	25	1.93
31936453--31936634	49	3.7	49	85	2	256	26	19	25	28	1.99
31936455--31936647	100	1.9	100	94	0	341	26	19	24	28	1.99
31945781--31945834	27	2.0	28	88	3	83	40	11	14	33	1.82
31948566--31948619	28	1.9	28	88	0	81	27	11	27	33	1.91
31950175--31950296	22	5.3	22	64	31	60	25	27	12	34	1.92
31950172--31950417	47	5.2	47	94	0	429	25	27	11	34	1.91
31950220--31950391	22	7.4	22	66	26	88	25	28	12	33	1.92
31952456--31952841	40	9.6	40	94	0	673	25	28	22	23	1.99
31954296--31954539	47	5.2	47	92	2	411	25	27	12	34	1.92
31954296--31954539	92	2.6	93	93	1	409	25	27	12	34	1.92
31954296--31954567	139	2.0	135	85	7	361	27	26	11	34	1.91
31956836--31956861	13	2.0	13	100	0	52	61	7	0	30	1.24
31957617--31957720	51	2.0	51	90	0	163	21	27	24	26	1.99
31964311--31964489	96	1.9	96	89	2	279	43	17	12	26	1.84
31968407--31968442	18	2.1	17	89	5	54	41	19	22	16	1.90
31976951--31977126	48	3.7	48	88	1	237	25	28	18	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31987173--31987450	50	5.5	50	79	3	254	32	25	16	25	1.96
31987222--31987403	101	1.8	101	86	0	265	30	24	18	26	1.98
31987172--31987450	151	1.8	151	86	3	409	32	25	16	25	1.96
31990084--31990114	16	1.9	16	93	0	53	32	25	0	41	1.56
31990354--31990552	108	1.8	110	88	4	305	22	25	18	34	1.96
31990306--31990560	55	4.8	51	77	11	223	20	24	18	36	1.95
31997333--31997388	28	2.0	28	82	0	67	50	12	14	23	1.77
32000357--32000466	42	2.6	41	76	8	114	29	26	17	27	1.97
32000801--32000856	29	2.0	28	89	3	85	32	23	1	42	1.64
32004597--32004810	49	4.5	47	77	9	152	25	29	19	25	1.99
32004639--32004769	49	2.7	49	84	7	167	22	29	21	26	1.99
32006832--32006891	30	2.0	30	90	0	93	31	23	1	43	1.64
32009284--32009386	37	2.8	37	84	0	134	29	26	16	28	1.97
32012182--32012243	32	1.9	32	90	0	97	30	32	14	22	1.94
32012214--32012398	48	3.9	48	93	0	316	26	29	18	24	1.98
32013708--32013765	27	2.1	27	96	0	107	34	13	10	41	1.79
32015326--32015400	37	2.0	37	100	0	150	26	21	5	46	1.72
32024668--32025077	49	8.5	49	94	2	706	33	7	30	28	1.85
32024668--32025077	146	2.8	147	93	2	706	33	7	30	28	1.85
32024668--32025077	195	2.1	192	94	3	707	33	7	30	28	1.85
32027902--32027953	27	2.0	26	88	3	77	36	21	25	17	1.94
32028604--32028856	27	9.4	27	85	0	328	26	20	18	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32029685--32029992	47	6.7	44	74	11	226	23	28	20	27	1.99
32029685--32029991	94	3.3	94	82	5	315	23	28	20	27	1.99
32031535--32031706	40	4.3	40	81	5	206	27	26	21	25	1.99
32031535--32031706	80	2.2	79	87	5	240	27	26	21	25	1.99
32038002--32038044	23	1.9	22	90	4	68	25	13	13	46	1.81
32043344--32043537	49	3.9	49	83	2	244	25	18	26	29	1.98
32043345--32043532	100	1.9	100	93	0	322	24	19	26	30	1.98
32056391--32056442	16	3.2	16	88	0	59	40	5	25	28	1.78
32056428--32056517	44	2.0	46	89	4	139	31	6	27	34	1.83
32056902--32057012	57	1.9	57	85	3	152	51	3	1	43	1.29

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