genome.fa.s9.2.7.7.80.10.50.1000.135.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: Chr09 85040211 
Parameters: 2 7 7 80 10 50 1000
Length:  85040211

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   

This is table  135  of  292  ( 35004 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)
40023400--40023551	78	1.9	79	84	5	200	25	23	26	24	2.00
40025356--40025481	51	2.7	48	77	9	127	24	16	27	30	1.97
40028625--40028831	53	3.8	53	78	3	198	20	23	16	39	1.92
40032742--40032905	29	5.7	29	94	0	283	30	22	14	32	1.94
40032743--40032932	87	2.2	87	88	1	274	29	25	14	30	1.95
40040788--40040951	29	5.7	29	94	0	283	30	22	14	32	1.94
40040789--40040978	87	2.2	87	88	1	274	29	25	14	30	1.95
40048827--40048990	29	5.7	29	94	0	283	30	22	14	32	1.94
40048828--40049017	87	2.2	87	88	1	274	29	25	14	30	1.95
40056872--40057033	29	5.6	29	89	2	211	29	26	14	29	1.95
40061676--40061765	44	2.0	45	89	2	137	38	12	21	27	1.89
40063400--40063528	49	2.6	50	83	3	163	22	31	20	25	1.98
40063396--40063709	46	6.7	45	72	16	149	24	29	18	27	1.98
40064780--40064891	55	2.1	54	96	1	206	44	20	2	32	1.65
40064787--40064902	54	2.1	55	90	4	182	47	17	2	32	1.61
40070365--40070512	40	3.8	38	74	8	111	28	22	27	22	1.99
40077121--40077250	40	3.3	39	84	4	172	23	24	28	23	2.00
40085231--40085338	38	2.8	37	86	9	146	22	26	28	22	1.99
40086738--40086920	40	4.6	40	77	6	167	25	24	26	23	2.00
40086738--40086922	79	2.3	81	81	7	209	25	24	26	23	2.00
40115640--40116208	190	3.0	190	97	0	1066	29	12	26	31	1.93
40116887--40117002	43	2.7	43	82	2	135	31	26	16	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40135816--40135999	40	4.6	39	75	6	138	26	23	27	22	2.00
40135856--40136044	80	2.4	81	77	4	186	23	24	29	22	1.99
40143933--40144116	40	4.6	39	75	6	138	26	23	27	22	2.00
40143973--40144161	80	2.4	81	77	4	186	23	24	29	22	1.99
40145873--40146020	40	3.7	40	80	5	133	20	25	24	29	1.99
40145902--40146041	40	3.5	39	77	6	131	22	26	22	28	1.99
40152838--40153062	47	4.7	47	74	10	183	27	20	28	24	1.99
40156584--40156813	39	5.9	39	95	0	388	24	23	31	20	1.98
40156590--40156882	78	3.7	78	88	4	297	24	23	30	20	1.99
40171255--40171286	14	2.4	13	90	10	55	18	6	12	62	1.50
40180022--40180151	40	3.2	40	82	4	165	23	28	24	23	2.00
40180022--40180185	40	4.1	40	78	4	145	21	28	25	25	1.99
40187003--40187153	40	3.8	40	83	6	139	23	27	24	25	2.00
40187022--40187204	79	2.3	81	83	7	223	23	27	24	24	2.00
40191986--40192065	42	1.9	42	92	0	133	23	30	20	26	1.98
40200410--40200770	194	1.9	195	81	5	444	39	14	9	37	1.78
40206558--40206745	100	1.9	100	89	2	297	25	18	26	29	1.98
40206563--40206750	49	3.8	49	76	6	209	26	17	26	29	1.97
40217519--40217726	40	5.2	39	82	3	202	25	25	23	25	2.00
40217519--40217725	80	2.6	80	82	3	238	25	26	23	25	2.00
40225570--40225777	40	5.2	39	82	3	202	25	25	23	25	2.00
40225570--40225776	80	2.6	80	82	3	238	25	26	23	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40228210--40228427	122	1.8	120	83	6	287	32	11	23	33	1.90
40228386--40228536	40	3.8	40	78	6	155	27	23	27	21	1.99
40228423--40228552	40	3.2	40	79	2	154	23	23	28	23	2.00
40228386--40228552	80	2.1	79	82	7	205	26	23	27	22	2.00
40236677--40236751	28	2.6	28	78	2	87	21	36	20	22	1.96
40236735--40236808	29	2.6	29	95	0	139	27	31	14	27	1.95
40239768--40239813	23	2.0	23	83	4	58	26	28	17	28	1.98
40241639--40241844	40	5.2	40	92	1	317	22	21	28	28	1.99
40243194--40243241	20	2.4	20	96	0	87	35	14	18	31	1.91
40243194--40243241	9	4.7	11	70	19	50	35	14	18	31	1.91
40246220--40246327	51	2.1	51	86	5	146	42	7	21	28	1.79
40259424--40259638	104	2.1	104	98	0	414	32	9	13	45	1.75
40260396--40260423	13	2.2	13	100	0	56	14	32	35	17	1.90
40264021--40264055	16	2.2	17	90	10	56	45	20	2	31	1.65
40278190--40278305	27	4.3	26	85	9	99	35	24	21	18	1.96
40278214--40278303	28	3.3	28	87	7	123	34	24	22	18	1.96
40284386--40284438	20	2.5	21	81	6	63	37	20	18	22	1.94
40285844--40285939	32	3.0	32	78	0	93	32	19	20	27	1.97
40286442--40286623	54	3.4	54	86	3	233	31	10	18	39	1.85
40286442--40286626	27	6.9	27	89	2	205	32	11	17	38	1.86
40289392--40289479	28	3.1	29	79	10	94	35	21	22	20	1.96
40289593--40289697	28	3.8	28	100	0	210	31	7	24	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40297257--40297345	27	3.2	27	85	6	117	32	23	23	20	1.98
40297232--40297345	55	2.1	55	82	9	135	35	21	23	19	1.96
40297451--40297570	28	4.3	28	94	2	206	30	8	26	34	1.86
40297451--40297570	55	2.2	56	93	1	206	30	8	26	34	1.86
40303213--40303260	17	2.8	17	75	9	53	18	2	8	70	1.22
40306008--40306240	40	5.8	40	94	1	403	24	28	22	24	2.00
40306008--40306240	81	2.9	81	93	0	405	24	28	22	24	2.00
40306008--40306240	121	1.9	120	93	0	403	24	28	22	24	2.00
40307510--40307618	37	2.9	37	93	0	173	26	29	19	24	1.98
40307767--40307864	50	2.0	50	91	4	162	30	25	7	36	1.83
40307822--40308014	47	4.1	47	89	2	246	26	30	10	32	1.90
40307914--40307985	22	3.1	22	64	24	58	23	29	13	33	1.93
40315911--40315992	29	2.8	29	96	0	146	29	14	31	24	1.95
40323903--40324004	30	3.5	30	83	5	127	31	13	26	28	1.94
40327475--40327542	27	2.5	28	84	11	81	41	22	20	16	1.90
40331469--40331497	14	2.1	14	100	0	58	17	0	20	62	1.33
40334440--40334541	29	3.5	29	90	0	150	27	15	33	23	1.95
40340378--40340491	43	2.7	42	75	12	117	29	14	27	28	1.96
40345471--40345651	39	4.6	39	93	1	274	22	22	29	25	1.99
40353498--40353600	40	2.6	40	80	4	129	38	35	8	16	1.80
40357050--40357109	16	3.7	16	76	10	59	26	0	3	70	1.03
40359715--40359773	21	2.8	22	85	7	70	25	0	5	69	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40359744--40359803	26	2.4	25	86	10	88	31	0	1	66	1.01
40364188--40364220	16	2.1	16	94	0	57	30	9	18	42	1.81
40367117--40367150	16	2.1	16	100	0	68	64	5	11	17	1.45
40368194--40368328	54	2.5	54	93	0	234	20	19	27	33	1.96
40370193--40370246	27	2.0	28	81	3	65	61	3	5	29	1.36
40373720--40374019	146	2.0	149	90	6	473	44	14	15	26	1.84
40374907--40374959	24	2.1	26	86	10	74	22	9	0	67	1.19
40375045--40375117	8	8.9	8	79	11	76	32	0	4	63	1.14
40375357--40375397	21	2.0	21	85	0	55	17	2	43	36	1.62
40375396--40375490	21	4.4	22	70	18	83	22	1	30	46	1.59
40375452--40375576	66	1.9	66	93	0	214	24	1	28	44	1.63
40375462--40375590	66	1.9	66	85	3	159	26	1	29	42	1.64
40376262--40376533	41	6.7	40	85	4	355	23	25	19	30	1.98
40376255--40376564	81	3.8	82	86	2	401	26	24	18	30	1.98
40376252--40376564	164	1.9	163	85	0	428	26	24	18	30	1.98
40376262--40376564	40	7.4	40	84	5	320	25	25	18	30	1.98
40386407--40386456	25	2.0	25	100	0	100	32	24	24	20	1.98
40389414--40389585	93	1.8	93	93	0	299	29	28	20	21	1.98
40389407--40389582	46	3.8	46	76	12	189	30	28	20	21	1.98
40389456--40389594	47	3.0	46	74	16	126	30	28	18	23	1.98
40390004--40390060	30	1.9	30	88	0	87	26	22	7	43	1.78
40391903--40391971	28	2.5	28	95	2	122	18	10	27	43	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40393784--40393827	19	2.4	18	85	7	54	40	9	0	50	1.34
40396207--40396274	27	2.5	28	92	4	113	19	8	27	44	1.80
40398081--40398124	19	2.4	18	85	7	54	40	9	0	50	1.34
40398420--40398573	68	2.3	64	79	11	168	27	25	14	31	1.95
40399042--40399098	30	1.9	30	88	0	87	26	24	7	42	1.80
40409733--40409804	29	2.5	29	91	6	112	29	26	13	30	1.94
40409732--40409833	28	3.5	28	84	6	89	29	28	13	28	1.94
40411122--40411165	17	2.5	17	81	3	52	9	13	0	77	0.99
40413082--40413165	43	2.0	43	90	4	134	21	17	33	27	1.96
40413127--40413226	51	2.0	51	84	4	130	24	16	26	34	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