genome.fa.s12.2.7.7.80.10.50.1000.100.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  100  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)
32080241--32080327	42	2.1	42	100	0	174	50	8	18	22	1.73
32083085--32083127	21	2.0	21	82	8	52	32	20	0	46	1.51
32085183--32085252	27	2.6	26	95	2	95	31	28	12	27	1.93
32085183--32085280	28	3.5	28	90	2	135	31	28	13	26	1.94
32085727--32085753	12	2.2	12	100	0	54	40	0	7	51	1.30
32093146--32093215	27	2.6	26	95	2	95	31	28	12	27	1.93
32093146--32093243	28	3.5	28	90	2	135	31	28	13	26	1.94
32096900--32096929	15	1.9	16	93	6	53	46	0	16	36	1.47
32100568--32100641	28	2.7	27	85	6	94	32	13	24	29	1.93
32100584--32100645	28	2.2	28	88	0	97	37	11	22	29	1.89
32100818--32100961	41	3.5	41	73	8	132	27	18	28	25	1.98
32103557--32103603	15	3.1	15	87	0	67	21	8	4	65	1.37
32104916--32104959	21	2.1	21	100	0	88	31	22	27	18	1.97
32109187--32109251	23	2.7	24	76	7	69	49	3	6	41	1.43
32110503--32110529	12	2.2	12	100	0	54	33	7	14	44	1.73
32124023--32124204	46	4.0	46	89	1	249	21	22	14	41	1.89
32126340--32126388	3	17.3	3	76	19	52	69	0	2	28	1.00
32126346--32126384	11	3.5	11	92	0	69	69	0	2	28	1.02
32126347--32126388	19	2.2	19	87	8	59	71	0	2	26	0.98
32126358--32126422	19	3.3	21	81	8	66	60	4	1	33	1.27
32131381--32131422	16	2.4	17	84	11	50	69	0	2	28	1.01
32131613--32131651	18	2.2	17	86	4	51	74	0	5	20	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32131639--32131673	18	1.9	18	88	0	52	62	0	8	28	1.24
32131647--32131731	41	2.1	41	84	4	109	63	0	5	30	1.18
32131709--32131741	10	3.4	10	91	4	50	63	0	6	30	1.18
32131657--32131746	41	2.2	41	82	4	101	63	0	5	31	1.17
32131733--32131784	17	2.9	17	75	8	50	59	0	5	34	1.21
32132249--32132290	22	1.9	22	95	0	75	28	4	0	66	1.12
32132197--32132291	50	1.9	50	86	4	138	31	4	0	64	1.13
32132196--32132315	49	2.5	46	78	15	125	29	4	0	65	1.16
32133132--32133297	90	1.8	90	84	0	224	34	13	22	29	1.93
32133139--32133324	90	2.1	90	79	0	192	36	13	20	29	1.91
32137732--32137787	29	2.0	29	85	3	78	39	1	25	33	1.66
32141094--32141120	12	2.2	12	100	0	54	7	22	44	25	1.79
32161274--32161336	16	4.0	16	73	10	58	63	4	1	30	1.24
32164520--32164568	24	2.0	24	88	0	71	40	16	2	40	1.60
32168452--32168599	42	3.5	42	73	7	129	31	19	20	28	1.97
32168449--32168607	87	1.9	84	85	6	221	30	19	21	28	1.98
32174168--32174417	40	6.3	40	94	0	385	24	20	28	26	1.99
32174115--32174417	120	2.5	119	86	2	383	24	21	28	26	1.99
32176236--32176381	55	2.7	55	76	0	157	28	28	27	15	1.96
32187627--32187685	23	2.6	23	94	0	100	38	22	20	18	1.93
32188545--32188592	19	2.5	18	80	10	51	22	41	22	12	1.88
32192747--32192918	79	2.2	79	81	3	202	23	21	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32192694--32192916	40	5.6	39	81	7	189	24	21	27	26	1.99
32192774--32192951	79	2.2	80	81	2	198	24	21	28	24	1.99
32199723--32199892	40	4.3	39	84	6	173	24	21	27	26	1.99
32199773--32199927	79	2.0	78	80	1	175	25	20	28	25	1.99
32203480--32203520	22	1.9	22	85	5	57	21	31	26	19	1.97
32205200--32205261	30	2.1	30	96	0	115	24	14	12	48	1.79
32213565--32213616	22	2.4	22	87	6	79	50	7	21	21	1.73
32214168--32214206	15	2.6	14	84	11	51	15	5	20	58	1.55
32219409--32219686	46	6.0	46	90	2	378	39	14	23	22	1.90
32223105--32223135	15	2.1	15	93	0	53	12	58	6	22	1.58
32228394--32228453	30	2.0	30	83	0	75	36	8	25	30	1.85
32233784--32233827	20	2.2	20	95	0	79	15	31	29	22	1.95
32238249--32238429	45	4.0	45	82	2	238	24	21	24	28	1.99
32238249--32238426	90	2.0	90	90	4	279	24	21	25	28	1.99
32238956--32238988	16	1.9	18	88	11	52	24	15	12	48	1.78
32242311--32242372	30	2.1	30	84	0	79	32	22	4	40	1.75
32247477--32247562	43	2.0	43	100	0	172	32	9	20	37	1.85
32255120--32255234	29	4.0	29	82	6	128	29	29	13	26	1.95
32261724--32261765	22	1.9	22	85	9	59	42	4	0	52	1.22
32275906--32276014	28	3.9	29	75	9	91	25	29	13	31	1.94
32277436--32277466	16	1.9	16	100	0	62	16	6	25	51	1.68
32282867--32282967	29	3.6	29	82	2	116	30	25	17	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32282971--32283013	18	2.5	17	84	3	50	41	27	2	27	1.68
32287899--32287983	21	3.9	21	73	11	80	45	14	1	38	1.52
32287889--32287981	46	2.0	46	97	0	177	46	12	1	39	1.50
32288766--32288857	34	2.8	33	77	8	96	29	21	25	23	1.99
32292141--32292306	46	3.6	46	75	13	169	21	18	29	31	1.96
32292048--32292298	93	2.7	93	84	0	322	23	17	27	31	1.97
32292086--32292245	47	3.4	46	72	14	148	23	16	28	31	1.96
32297911--32298038	46	2.8	46	89	2	195	19	21	30	28	1.97
32298384--32298434	25	2.0	25	96	0	93	27	13	27	31	1.94
32318686--32318783	34	2.9	33	78	11	101	29	23	23	23	1.99
32330714--32330916	104	2.0	102	81	3	237	32	15	23	29	1.95
32331196--32331280	42	2.0	42	100	0	170	34	16	28	21	1.95
32335090--32335173	43	2.0	43	83	4	107	27	15	27	29	1.96
32335364--32335389	13	2.0	13	100	0	52	46	0	23	30	1.53
32336492--32336539	25	1.9	25	83	8	62	41	2	6	50	1.39
32339149--32339185	18	2.1	18	100	0	74	21	21	10	45	1.82
32342353--32342536	41	4.5	41	82	1	199	33	27	20	19	1.96
32344180--32344347	27	6.2	27	89	2	239	34	17	21	26	1.96
32344178--32344348	81	2.1	81	89	2	263	35	18	21	25	1.95
32344862--32344915	22	2.5	22	76	11	65	22	24	20	33	1.97
32345011--32345092	27	3.1	26	81	11	94	17	21	21	39	1.93
32345208--32345273	6	10.8	6	77	9	71	19	19	10	50	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32348855--32348974	41	2.9	40	81	2	141	29	30	18	21	1.97
32349211--32349634	27	15.7	27	80	4	327	30	10	19	39	1.85
32349618--32349698	26	3.1	26	82	3	99	28	18	18	34	1.95
32349619--32349698	27	3.0	26	81	5	90	27	18	18	35	1.95
32350295--32350326	17	2.0	17	88	11	50	59	6	3	31	1.38
32350527--32350577	21	2.6	19	77	14	59	64	1	3	29	1.22
32351208--32351281	33	2.2	34	74	18	82	43	4	0	52	1.20
32351214--32351316	31	3.2	33	78	10	115	48	4	0	46	1.23
32351280--32351350	26	2.6	28	75	22	78	61	8	0	29	1.25
32351312--32351350	11	3.5	11	96	0	69	64	10	0	25	1.25
32352177--32352215	19	2.1	19	100	0	78	43	5	15	35	1.69
32352436--32352473	19	2.0	20	85	15	53	39	23	0	36	1.55
32354828--32355167	47	7.2	47	95	0	572	33	8	29	28	1.87
32354914--32354989	24	3.2	24	64	23	61	30	9	32	27	1.88
32356517--32356694	27	6.6	27	81	5	171	28	28	16	26	1.97
32356538--32356693	82	1.9	81	86	3	224	28	28	16	26	1.97
32358401--32358538	46	3.0	47	83	2	179	31	10	31	26	1.89
32361034--32361085	23	2.3	22	75	21	54	9	23	1	65	1.32
32364957--32365078	46	2.7	46	89	0	181	29	27	21	21	1.98
32366374--32366411	13	2.8	13	88	11	51	68	0	2	28	1.03
32366371--32366417	15	3.2	16	77	19	50	68	0	2	29	1.02
32366389--32366483	20	4.7	19	71	15	59	61	2	5	31	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32366378--32366421	15	3.1	15	87	12	58	63	0	4	31	1.14
32366660--32366698	17	2.3	17	86	8	53	23	2	5	69	1.21
32366828--32366859	15	2.0	17	88	11	50	31	3	6	59	1.38
32366957--32367013	27	2.1	28	90	3	89	43	5	7	43	1.54
32369076--32369135	27	2.3	26	82	2	66	33	20	25	21	1.97
32374789--32374848	27	2.3	26	85	2	75	38	20	20	21	1.94
32377105--32377165	30	2.1	29	90	3	95	37	24	13	24	1.91
32384314--32384374	30	2.1	29	90	3	95	37	22	14	24	1.92
32387214--32387309	29	3.3	29	92	1	158	30	31	13	25	1.94
32398017--32398172	82	1.9	81	85	3	215	26	16	28	28	1.97

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