genome.fa.s12.2.7.7.80.10.50.1000.123.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  123  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)
40027312--40027408	30	3.2	30	71	8	90	27	15	28	27	1.96
40030678--40030709	10	3.2	10	95	0	55	71	0	3	25	1.00
40032043--40032124	30	2.8	30	79	5	87	28	23	15	32	1.95
40039699--40039746	20	2.3	21	85	3	62	16	18	20	43	1.88
40039708--40039750	21	2.1	20	91	4	68	13	13	23	48	1.79
40039980--40040004	13	1.9	13	100	0	50	28	0	8	64	1.22
40042885--40042931	20	2.3	20	85	0	67	21	12	36	29	1.91
40044599--40044704	48	2.2	48	85	9	137	14	24	1	59	1.45
40047298--40047344	20	2.3	20	85	0	67	21	12	36	29	1.91
40049014--40049119	48	2.2	48	85	9	137	14	24	1	59	1.45
40051718--40051764	20	2.3	20	85	0	67	21	12	36	29	1.91
40054438--40054471	4	8.0	4	90	9	50	23	0	2	73	0.97
40054421--40054480	22	2.7	22	73	19	61	26	0	6	66	1.16
40056987--40057025	4	9.0	4	86	13	51	74	2	0	23	0.94
40057452--40057491	21	1.9	21	89	0	62	20	22	15	42	1.88
40057715--40057739	13	1.9	13	100	0	50	28	0	8	64	1.22
40060533--40060578	20	2.3	20	84	0	56	23	19	17	39	1.92
40060525--40060598	30	2.5	30	84	8	80	22	20	18	37	1.94
40062287--40062333	20	2.3	20	81	0	58	23	12	34	29	1.92
40065122--40065169	14	3.4	14	85	8	62	18	29	6	45	1.74
40066960--40067013	11	4.7	11	93	4	72	74	3	9	12	1.20
40073614--40073648	10	3.5	10	88	0	52	37	22	25	14	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40073611--40073658	20	2.4	20	75	0	60	31	18	29	20	1.97
40075241--40075289	17	2.8	18	81	6	64	14	28	0	57	1.38
40075321--40075386	21	3.2	20	65	6	51	18	25	3	53	1.59
40075300--40075387	42	2.1	42	91	2	142	14	23	4	56	1.57
40078631--40078686	29	2.0	28	92	3	94	44	30	0	25	1.54
40078905--40078942	11	3.6	11	79	13	53	84	5	7	2	0.86
40078905--40078943	20	2.0	20	100	0	78	82	5	7	5	0.96
40082000--40082177	27	6.5	28	82	6	179	30	28	13	27	1.94
40082021--40082176	82	1.9	81	88	3	233	30	28	13	27	1.94
40082659--40082684	12	2.2	12	100	0	52	42	0	7	50	1.31
40088484--40088508	13	1.9	13	100	0	50	36	16	32	16	1.90
40091762--40091794	1	33.0	1	100	0	66	0	0	0	100	0.00
40091835--40091865	15	2.1	15	100	0	62	12	6	6	74	1.21
40091839--40091926	15	6.1	14	72	15	63	11	11	5	71	1.29
40092770--40092794	13	1.9	13	100	0	50	36	16	32	16	1.90
40094880--40095057	27	6.6	27	85	3	214	30	28	14	26	1.95
40094901--40095056	82	1.9	81	89	3	242	30	28	14	26	1.95
40095539--40095564	12	2.2	12	100	0	52	42	0	7	50	1.31
40101130--40101177	20	2.4	20	67	0	51	33	18	27	20	1.96
40102818--40102849	12	2.7	12	95	0	55	18	21	0	59	1.38
40102831--40102892	27	2.3	27	83	10	74	9	19	1	69	1.25
40102853--40102942	6	14.7	6	69	11	58	5	17	3	73	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40102833--40102891	14	4.3	14	74	16	52	10	16	1	71	1.22
40104019--40104045	10	2.7	10	100	0	54	14	0	7	77	0.97
40105549--40105596	20	2.4	20	67	0	51	33	18	27	20	1.96
40107400--40107477	21	3.4	23	74	8	70	26	2	30	39	1.70
40107436--40107502	21	3.1	21	82	4	80	29	2	32	34	1.73
40111736--40111791	17	3.2	17	74	18	51	8	12	3	75	1.17
40114010--40114042	13	2.5	13	100	0	66	12	6	0	81	0.85
40114305--40114382	21	3.4	23	74	8	70	26	2	30	39	1.70
40114341--40114407	21	3.1	21	82	4	80	29	2	32	34	1.73
40123780--40123819	20	2.0	20	85	5	53	32	7	0	60	1.25
40130337--40130491	39	4.0	39	96	0	274	27	30	20	21	1.98
40133957--40134014	31	1.9	29	86	6	80	51	3	29	15	1.60
40137995--40138040	20	2.3	20	80	0	56	30	32	13	23	1.93
40139686--40139782	30	3.2	30	75	2	106	27	26	16	28	1.97
40141479--40141532	19	2.9	19	80	2	65	79	3	9	7	1.03
40141477--40141532	18	2.9	19	81	7	60	80	3	8	7	1.01
40142459--40142530	5	14.0	5	74	21	60	77	2	18	1	0.96
40142459--40142528	21	3.4	19	79	13	68	78	2	17	1	0.94
40142459--40142530	26	2.8	25	81	12	83	77	2	18	1	0.96
40142469--40142517	6	8.2	6	81	18	50	77	2	20	0	0.87
40142578--40142608	12	2.6	12	100	0	62	45	12	16	25	1.83
40144787--40144883	30	3.2	30	75	2	106	27	26	16	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40149788--40149841	20	2.7	20	82	0	63	24	20	18	37	1.94
40149788--40149861	30	2.5	30	86	8	98	21	20	18	39	1.93
40149788--40149852	20	3.2	20	71	16	53	23	21	16	38	1.93
40151371--40151445	12	6.0	12	76	11	71	70	2	9	17	1.25
40151377--40151458	39	2.2	38	82	8	105	71	4	8	14	1.26
40151424--40151497	29	2.6	29	77	12	80	70	6	13	9	1.33
40152405--40152436	15	2.1	16	94	5	57	71	0	21	6	1.07
40152519--40152552	18	1.9	18	88	5	52	52	2	35	8	1.47
40153817--40153870	20	2.7	20	82	0	63	24	20	18	37	1.94
40153817--40153890	30	2.5	30	86	8	98	21	20	18	39	1.93
40153817--40153881	20	3.2	20	71	16	53	23	21	16	38	1.93
40155401--40155477	13	6.0	12	74	16	66	71	2	9	16	1.23
40155401--40155477	40	1.9	41	89	2	120	71	2	9	16	1.23
40155407--40155491	40	2.2	39	82	6	109	72	4	8	14	1.23
40155455--40155530	29	2.6	29	78	15	84	71	6	13	9	1.31
40156436--40156467	15	2.1	16	94	5	57	71	0	21	6	1.07
40156550--40156583	18	1.9	18	88	5	52	52	2	35	8	1.47
40157846--40157899	20	2.7	20	82	0	63	24	20	18	37	1.94
40157846--40157919	30	2.5	30	86	8	98	21	20	18	39	1.93
40157846--40157910	20	3.2	20	71	16	53	23	21	16	38	1.93
40168927--40169024	27	3.5	28	90	2	135	26	13	28	31	1.94
40168955--40169037	27	3.0	27	87	5	96	30	12	25	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40170963--40170999	18	2.1	18	90	5	58	40	0	10	48	1.38
40174262--40174289	11	2.5	11	100	0	56	78	7	0	14	0.95
40175239--40175279	18	2.3	18	87	4	57	73	2	17	7	1.17
40177081--40177117	18	2.1	18	90	5	58	40	0	10	48	1.38
40189520--40189697	27	6.6	27	85	3	214	30	28	14	26	1.95
40189541--40189696	82	1.9	81	89	3	242	30	28	14	26	1.95
40197570--40197747	27	6.6	27	85	3	214	30	28	14	26	1.95
40197591--40197746	82	1.9	81	89	3	242	30	28	14	26	1.95
40228197--40228286	44	2.0	44	82	0	108	35	17	20	26	1.95
40228203--40228743	94	5.8	94	80	2	541	33	18	18	29	1.95
40228298--40228555	44	5.6	43	70	18	103	32	19	18	28	1.96
40228116--40228369	138	1.8	138	83	3	341	31	18	22	28	1.97
40228203--40228745	188	2.9	189	83	3	619	33	18	18	29	1.95
40228447--40228618	50	3.6	50	72	16	182	30	18	20	30	1.96
40228203--40228739	282	1.9	282	79	3	605	33	18	18	29	1.95
40231125--40231343	40	5.5	40	92	2	345	22	22	28	26	1.99
40235706--40235732	14	1.9	14	100	0	54	44	7	0	48	1.31
40235705--40235739	14	2.4	14	85	4	52	54	5	0	40	1.24
40244835--40244870	14	2.6	14	100	0	72	50	16	5	27	1.68
40251818--40251985	90	1.8	93	87	8	256	21	19	29	29	1.98
40252497--40252549	28	1.9	27	96	3	97	24	7	20	47	1.76
40278938--40279153	46	4.6	47	75	13	164	27	17	30	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40283389--40283493	53	2.0	53	84	0	138	19	23	19	38	1.93
40283389--40283527	53	2.6	53	80	2	134	20	22	19	38	1.94
40284747--40284801	26	2.1	26	100	0	110	30	18	20	30	1.96
40287884--40287963	15	5.4	15	79	7	83	11	17	12	58	1.62
40287875--40287962	30	3.0	30	80	8	90	11	17	14	56	1.66
40296207--40296452	47	5.1	47	86	7	325	31	11	30	26	1.91
40296206--40296332	25	5.3	25	66	24	94	31	10	29	29	1.90
40296230--40296426	101	2.0	101	93	0	340	31	11	29	26	1.92
40296335--40296410	23	3.2	25	62	24	63	28	13	34	23	1.92
40296411--40296557	50	3.0	50	93	3	244	37	8	24	29	1.84

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