genome.fa.s9.2.7.7.80.10.50.1000.145.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  145  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)
43112028--43112063	18	2.0	18	100	0	72	33	0	16	50	1.46
43119466--43119501	18	2.0	18	100	0	72	33	0	16	50	1.46
43125491--43125571	42	1.9	42	92	0	135	19	23	34	22	1.96
43125496--43125583	42	2.1	42	85	4	115	22	21	32	22	1.98
43130118--43130172	28	2.0	28	85	0	74	58	3	1	36	1.26
43130155--43130196	21	2.0	22	85	4	59	64	2	4	28	1.26
43130492--43130612	20	6.4	19	72	13	63	35	2	1	60	1.20
43130500--43130593	20	4.8	19	74	12	66	35	3	1	60	1.20
43130557--43130622	18	3.7	18	80	11	73	39	0	1	59	1.07
43132518--43132564	24	1.9	25	82	4	60	38	4	8	48	1.53
43135247--43135281	18	1.9	18	100	0	70	22	5	0	71	1.07
43135996--43136024	2	14.5	2	100	0	58	48	0	0	51	1.00
43136977--43137073	46	2.1	46	80	3	106	43	13	20	22	1.87
43138474--43138504	2	15.5	2	93	0	53	48	0	3	48	1.17
43139782--43140342	138	4.1	138	91	0	906	44	5	8	41	1.58
43140016--43140232	71	3.1	71	64	21	177	45	5	10	38	1.63
43139949--43140300	71	5.1	67	63	20	170	43	5	8	41	1.59
43140062--43140275	71	3.1	71	64	19	187	43	5	8	42	1.58
43140319--43140466	76	2.0	76	91	1	244	33	13	7	45	1.71
43141023--43141054	11	2.9	11	100	0	64	9	18	6	65	1.42
43143813--43144295	239	2.0	239	99	0	950	37	19	12	30	1.89
43150215--43150374	41	3.9	41	76	12	168	22	23	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43155214--43155434	40	5.6	40	87	3	277	24	25	24	24	2.00
43165534--43165601	34	2.0	34	82	5	84	29	20	27	22	1.98
43166404--43166436	17	1.9	17	100	0	66	42	12	21	24	1.86
43170833--43171008	46	3.8	46	80	12	225	21	21	28	28	1.98
43170829--43171000	93	1.8	93	96	0	317	20	21	29	27	1.98
43175963--43176004	21	2.0	20	90	4	66	61	2	19	16	1.44
43175963--43176004	10	4.1	10	90	6	66	61	2	19	16	1.44
43177514--43177571	29	2.0	30	82	3	73	41	0	37	20	1.53
43177612--43177642	9	3.4	9	95	0	53	29	9	9	51	1.66
43177699--43177731	9	3.7	9	91	0	57	39	24	12	24	1.89
43177699--43177733	18	1.9	18	100	0	70	37	22	11	28	1.89
43180731--43180781	24	2.1	24	96	0	93	35	25	17	21	1.95
43182108--43182181	34	2.1	35	97	2	141	32	20	6	40	1.78
43182413--43182473	30	2.0	30	87	0	86	31	22	6	39	1.80
43184233--43184309	40	1.9	40	86	0	109	37	16	29	15	1.90
43188650--43188865	47	4.6	46	74	9	150	27	18	28	24	1.98
43191643--43191667	12	2.1	12	100	0	50	60	16	8	16	1.58
43192321--43192374	25	2.1	26	83	10	67	37	3	9	50	1.52
43195482--43195528	20	2.3	20	92	0	67	23	27	0	48	1.51
43196323--43196503	40	4.5	39	80	5	157	37	13	29	19	1.90
43196358--43196432	20	3.8	20	75	16	75	40	9	33	17	1.81
43196350--43196501	80	1.9	80	81	0	187	38	11	30	19	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43204862--43204955	45	2.1	45	97	0	179	21	13	13	51	1.76
43212121--43212182	19	3.5	19	65	26	55	37	8	9	45	1.67
43212112--43212176	32	2.0	33	93	3	114	33	9	10	46	1.71
43213670--43213924	87	2.9	86	80	4	262	36	10	27	25	1.89
43213670--43213934	29	9.1	29	77	6	207	36	11	26	25	1.90
43213664--43213934	58	4.7	57	77	7	258	36	11	26	25	1.90
43214023--43214086	31	2.1	31	96	0	119	32	0	20	46	1.51
43221600--43221766	40	4.2	40	82	2	185	25	27	21	25	1.99
43221600--43221766	80	2.1	79	83	7	205	25	27	21	25	1.99
43222592--43222637	17	2.5	19	74	22	53	34	23	17	23	1.96
43229622--43229788	40	4.2	40	82	2	185	25	27	21	25	1.99
43229622--43229788	80	2.1	79	83	7	205	25	27	21	25	1.99
43230614--43230659	17	2.5	19	74	22	53	34	23	17	23	1.96
43234468--43234515	25	1.9	25	86	0	69	35	22	14	27	1.93
43234563--43234618	11	5.5	11	71	16	57	35	12	19	32	1.89
43234552--43234618	20	3.3	20	93	0	116	34	11	20	32	1.90
43234667--43234840	24	7.2	24	96	0	276	29	24	20	25	1.99
43236672--43236823	30	5.1	30	89	1	182	32	12	29	25	1.92
43243411--43243455	22	2.0	22	87	8	65	53	17	0	28	1.44
43243507--43243543	18	2.0	19	89	5	58	43	8	10	37	1.69
43254970--43255177	40	5.2	40	84	0	218	25	22	25	25	2.00
43254971--43255177	80	2.6	80	83	4	247	25	22	26	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43264830--43265042	118	1.8	118	89	0	336	27	11	27	33	1.92
43268945--43269129	79	2.3	82	85	7	256	24	21	27	27	1.99
43268945--43269129	40	4.7	40	89	5	252	24	21	27	27	1.99
43268945--43269162	79	2.7	79	79	14	252	25	21	27	26	1.99
43268945--43269162	119	1.8	119	82	7	282	25	21	27	26	1.99
43277075--43277259	40	4.7	40	86	5	234	24	21	26	27	1.99
43277075--43277292	119	1.8	119	82	7	282	26	21	26	26	2.00
43277075--43277292	79	2.7	78	78	12	239	26	21	26	26	2.00
43279206--43279376	44	3.9	44	89	2	263	22	22	29	25	1.99
43279973--43280021	24	2.0	24	100	0	98	34	0	20	44	1.52
43287224--43287448	111	2.0	111	99	0	441	32	18	16	33	1.93
43288085--43288182	48	2.0	48	84	7	128	40	2	4	53	1.32
43291301--43291346	18	2.5	18	86	10	58	17	43	2	36	1.61
43298449--43298482	17	2.0	17	94	0	59	20	44	11	23	1.84
43304716--43304919	40	5.1	40	84	1	239	26	28	21	23	1.99
43304712--43304923	80	2.7	80	87	0	300	26	27	21	24	1.99
43312169--43312309	20	7.0	21	70	21	81	31	1	1	65	1.09
43312240--43312464	7	32.1	7	67	22	100	34	3	0	62	1.15
43312233--43312517	3	90.0	3	67	25	112	32	3	1	62	1.19
43312242--43312488	49	5.1	46	72	21	166	33	3	0	62	1.17
43312233--43312516	20	14.6	20	68	22	121	32	3	1	63	1.19
43312678--43312716	20	2.0	20	85	10	53	43	2	0	53	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43312769--43312827	17	3.7	15	77	20	57	33	1	0	64	1.04
43312662--43312827	87	1.9	84	81	14	198	35	6	0	57	1.28
43312803--43312852	26	1.9	26	83	0	64	36	4	0	60	1.16
43313666--43313697	3	10.7	3	100	0	64	65	0	0	34	0.93
43314467--43314533	27	2.6	26	92	4	109	4	2	20	71	1.17
43317318--43317352	18	1.9	18	94	0	61	34	14	17	34	1.90
43317402--43317438	9	4.1	9	85	0	56	48	13	8	29	1.71
43317577--43317607	14	2.2	14	94	0	53	32	29	0	38	1.57
43328777--43328883	42	2.5	42	95	0	187	29	14	32	22	1.94
43328891--43328960	27	2.5	28	86	2	97	27	14	25	32	1.94
43343061--43343115	28	2.0	28	92	0	92	27	14	18	40	1.89
43347033--43347164	49	2.7	50	79	8	153	26	18	29	25	1.98
43349734--43349777	21	2.1	21	86	0	61	40	0	25	34	1.56
43350218--43350272	25	2.2	25	80	9	67	18	16	23	41	1.89
43359047--43359102	29	1.9	29	82	7	69	53	7	1	37	1.39
43361005--43361040	17	2.1	18	89	5	56	27	0	19	52	1.46
43362222--43362254	18	1.9	17	88	11	50	51	0	0	48	1.00
43363338--43363369	17	1.9	17	93	6	57	53	0	0	46	1.00
43363419--43363481	26	2.5	25	82	7	74	46	1	3	49	1.27
43364609--43364646	21	2.0	21	85	15	55	63	2	0	34	1.09
43370734--43370765	5	6.4	5	96	0	55	0	0	15	84	0.63
43372880--43372922	19	2.2	19	83	4	50	51	0	2	46	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43372729--43373035	141	2.1	144	87	6	435	42	4	9	43	1.56
43373000--43373042	20	2.2	20	83	8	52	37	0	11	51	1.39
43375606--43375653	20	2.3	21	82	10	55	8	6	8	77	1.14
43381790--43381971	40	4.6	39	81	8	183	28	21	24	25	1.99
43381790--43381970	80	2.3	80	80	12	210	28	21	24	25	1.99
43391046--43391178	47	2.8	47	94	0	221	30	28	18	23	1.97
43391046--43391218	94	1.8	94	83	2	231	30	28	16	23	1.96
43391048--43391218	47	3.6	47	88	0	180	30	29	16	23	1.96
43392498--43392533	11	3.0	12	84	15	56	27	33	16	22	1.95
43395645--43395828	49	3.7	49	85	2	260	25	16	26	30	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