genome.fa.s12.2.7.7.80.10.50.1000.242.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  242  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)
79433074--79433124	19	2.6	21	84	9	63	9	9	15	64	1.48
79434552--79434597	22	2.1	22	100	0	92	21	19	21	36	1.95
79439990--79440015	11	2.4	11	100	0	52	57	19	15	7	1.62
79441444--79441542	40	2.5	39	76	14	112	41	7	12	39	1.70
79441420--79441567	20	7.3	20	66	12	61	39	6	12	41	1.68
79441623--79441796	60	2.9	59	76	5	152	40	5	13	39	1.69
79441623--79441764	20	7.1	20	75	3	81	40	5	16	38	1.72
79441754--79441850	20	4.8	20	72	5	70	42	9	7	41	1.64
79441902--79441943	20	2.1	20	86	8	59	45	2	16	35	1.61
79441968--79442303	20	16.8	20	70	10	105	38	6	14	40	1.72
79441968--79442082	59	1.9	59	82	3	142	40	5	13	40	1.67
79442112--79442173	22	2.9	22	78	4	74	37	8	16	38	1.78
79442080--79442264	102	1.8	100	83	4	246	38	7	14	39	1.74
79441968--79442303	40	8.4	40	75	9	202	38	6	14	40	1.72
79442339--79442470	20	6.6	20	71	10	65	40	5	15	38	1.69
79443239--79443278	16	2.5	16	87	0	62	35	12	15	37	1.85
79446046--79446136	23	3.8	24	76	12	89	14	20	21	42	1.88
79446046--79446208	24	6.8	23	70	14	98	15	23	22	38	1.93
79454656--79454788	69	1.9	70	90	1	214	32	14	16	36	1.89
79456175--79456497	47	6.6	47	85	9	421	32	8	30	29	1.86
79456303--79456423	59	2.1	59	96	0	224	29	9	31	29	1.88
79456207--79456497	155	1.9	153	91	1	474	31	8	30	28	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
79456254--79456453	106	1.9	107	94	2	357	31	8	30	30	1.87
79460597--79460672	29	2.6	29	97	0	143	23	22	15	38	1.93
79477404--79477720	48	6.6	48	77	5	291	23	29	19	27	1.98
79477404--79477735	144	2.3	144	79	3	355	24	28	18	28	1.98
79485155--79485180	5	5.2	5	100	0	52	76	0	0	23	0.78
79489476--79489540	31	2.1	31	94	0	112	27	13	29	29	1.95
79491786--79491825	17	2.4	17	95	0	71	5	17	12	65	1.44
79503519--79503559	17	2.5	17	85	14	59	56	2	12	29	1.49
79505118--79505278	80	2.0	80	100	0	322	52	11	11	24	1.69
79505539--79505851	154	2.0	154	98	0	599	41	19	8	30	1.81
79506362--79506406	23	2.0	23	90	0	72	28	26	8	35	1.87
79506757--79506835	27	3.0	27	92	5	126	58	0	0	41	0.98
79509614--79509669	11	4.7	12	80	12	53	69	3	7	19	1.27
79513811--79513923	49	2.3	48	83	7	122	27	32	18	21	1.97
79518324--79518359	13	2.8	13	95	0	63	16	41	30	11	1.83
79522038--79522142	48	2.2	49	84	5	133	29	34	15	20	1.94
79523580--79523664	37	2.3	37	83	4	100	29	18	25	25	1.98
79523668--79523865	48	4.1	48	87	2	290	27	19	25	27	1.99
79523818--79523908	42	2.2	42	88	4	130	25	17	26	30	1.97
79530421--79530495	12	6.2	12	77	11	64	52	14	16	17	1.76
79530430--79530551	6	19.8	6	72	14	97	49	13	18	18	1.80
79530442--79530551	31	3.4	31	78	14	121	48	13	19	19	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
79530430--79530551	37	3.5	37	79	13	148	49	13	18	18	1.80
79530670--79530729	27	2.3	26	85	2	75	35	20	23	21	1.96
79530697--79530838	67	2.1	67	85	5	185	30	21	28	19	1.97
79530768--79530819	27	2.0	26	84	3	68	34	21	26	17	1.95
79531056--79531248	27	7.2	27	85	0	226	39	7	22	30	1.82
79531255--79531319	27	2.4	27	86	0	94	32	12	20	35	1.89
79531244--79531503	81	3.2	81	86	2	281	30	8	21	38	1.84
79531298--79531503	27	7.6	27	90	0	295	31	8	20	39	1.82
79532371--79532468	21	4.5	21	66	18	58	68	0	17	14	1.21
79532370--79532437	19	3.5	18	79	15	73	70	0	19	10	1.15
79535941--79536103	48	3.5	48	73	10	140	28	15	23	33	1.95
79536195--79536321	38	3.3	38	77	3	121	34	15	18	31	1.92
79539064--79539156	47	2.0	48	89	6	145	52	4	7	35	1.49
79539817--79539865	24	2.0	24	100	0	98	46	16	4	32	1.65
79541278--79541333	28	2.0	28	83	10	71	51	10	0	37	1.37
79542740--79542809	31	2.3	31	85	5	88	47	8	15	28	1.75
79547424--79547994	38	15.6	37	70	11	216	35	15	20	28	1.93
79547755--79548064	35	8.7	35	72	10	153	37	15	20	26	1.93
79547458--79548023	35	15.5	36	66	16	154	35	15	19	28	1.93
79548258--79548409	74	2.0	75	83	8	195	43	19	10	26	1.83
79549085--79549295	104	2.0	104	100	0	422	25	26	18	30	1.98
79560723--79560843	35	3.5	35	90	0	179	22	23	42	12	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
79561425--79561488	22	2.9	21	74	6	56	18	4	1	75	1.06
79561528--79561578	10	5.9	8	78	17	50	35	0	3	60	1.15
79562153--79562225	7	10.3	7	79	2	74	47	31	0	20	1.50
79562153--79562225	21	3.4	21	81	3	83	47	31	0	20	1.50
79562460--79563249	131	6.0	131	84	5	932	32	24	17	25	1.97
79562470--79563249	260	2.9	259	84	4	972	33	24	17	25	1.97
79562993--79563311	140	2.3	140	91	2	509	30	23	18	27	1.97
79564148--79564206	28	2.1	28	81	9	68	32	1	8	57	1.39
79564203--79564268	29	2.2	28	84	10	87	45	4	0	50	1.22
79566655--79566702	3	16.0	3	100	0	96	66	0	0	33	0.92
79566922--79567000	40	2.0	40	90	2	124	58	7	7	26	1.53
79577198--79577257	29	2.0	30	90	3	95	56	6	1	35	1.35
79579501--79579525	3	8.3	3	100	0	50	32	0	0	68	0.90
79582376--79582427	15	3.3	15	73	21	52	36	0	0	63	0.95
79589995--79590027	13	2.4	14	90	5	50	27	0	0	72	0.85
79598053--79598096	22	2.0	22	86	0	61	22	11	6	59	1.55
79598785--79598856	29	2.4	30	76	2	74	38	4	11	45	1.59
79601726--79601750	11	2.3	11	100	0	50	16	0	0	84	0.63
79601757--79601855	31	3.3	31	66	16	80	39	8	17	35	1.79
79604890--79604997	26	4.2	26	91	0	180	36	23	7	33	1.83
79609871--79609901	12	2.6	12	100	0	62	12	51	25	9	1.70
79611505--79611557	26	2.0	26	82	7	63	24	15	20	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
79613042--79613123	26	3.2	26	89	0	137	36	24	6	32	1.80
79618131--79618161	14	2.2	14	100	0	62	54	12	6	25	1.62
79619604--79619651	19	2.6	19	80	9	55	35	2	14	47	1.56
79619673--79619757	43	2.0	43	95	0	152	28	7	15	49	1.70
79624334--79624381	19	2.6	19	83	3	62	37	2	12	47	1.53
79624395--79624487	43	2.2	43	90	3	143	29	6	12	51	1.65
79629850--79629913	32	2.0	32	90	0	101	40	10	25	23	1.87
79638740--79638921	46	4.0	46	86	4	242	40	15	23	20	1.91
79641183--79641230	21	2.2	23	85	7	64	10	12	14	62	1.54
79644219--79644264	24	1.9	24	86	0	65	52	2	0	45	1.13
79650002--79650061	18	3.4	18	77	11	61	55	1	3	40	1.27
79651194--79651244	13	3.8	14	79	7	52	9	1	35	52	1.46
79652533--79652593	29	2.0	31	87	6	90	40	14	14	29	1.86
79652414--79652682	91	3.0	89	79	8	265	40	15	13	30	1.85
79655474--79655516	18	2.4	18	92	0	68	20	27	9	41	1.83
79659006--79659384	126	3.0	126	92	1	618	26	21	18	32	1.97
79659485--79659572	26	3.3	26	68	12	70	40	15	5	37	1.72
79659837--79659889	21	2.4	22	90	6	81	52	30	0	16	1.44
79664053--79664111	29	2.0	29	100	0	118	30	16	27	25	1.97
79665592--79665628	16	2.4	15	91	8	65	24	0	16	59	1.37
79665637--79665671	12	2.9	12	91	0	52	28	0	11	60	1.32
79666348--79666379	5	6.8	5	96	3	50	87	0	12	0	0.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
79669023--79669073	23	2.2	23	79	6	59	70	1	0	27	0.98
79679211--79679251	19	2.2	19	86	0	55	26	2	0	70	0.99
79680634--79680853	106	2.1	105	88	5	322	28	18	18	34	1.95
79691329--79691356	10	2.8	10	100	0	56	53	0	39	7	1.28
79696915--79696955	19	2.1	19	86	4	55	39	7	4	48	1.52
79696964--79696996	14	2.4	14	94	0	57	48	12	9	30	1.71
79698892--79698951	30	2.0	30	96	0	111	45	15	10	30	1.78
79707896--79707933	20	1.9	20	84	10	51	42	10	0	47	1.38
79708421--79708459	18	2.2	18	86	9	53	30	20	0	48	1.50
79708561--79708654	39	2.4	38	80	5	100	25	27	22	24	2.00

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