genome.fa.s9.2.7.7.80.10.50.1000.20.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  20  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)
5316211--5316269	27	2.2	27	85	11	77	64	1	5	28	1.24
5317132--5317165	2	17.0	2	100	0	68	50	0	0	50	1.00
5319742--5319809	31	2.2	31	84	2	84	39	17	8	33	1.81
5321024--5321066	20	2.2	20	91	4	70	41	0	6	51	1.29
5321442--5321531	39	2.3	39	86	3	126	52	7	0	40	1.30
5330711--5330774	6	10.3	6	81	18	62	17	1	0	81	0.77
5330712--5330768	19	2.9	19	80	10	71	17	1	0	80	0.79
5330712--5330772	20	3.1	18	80	15	68	18	1	0	80	0.80
5331674--5331883	115	1.8	115	94	0	375	22	16	31	29	1.96
5334060--5334099	22	1.9	21	94	5	64	82	5	0	12	0.82
5336772--5336853	26	3.2	25	85	13	114	35	4	23	36	1.76
5338480--5338616	27	5.1	27	86	2	168	18	23	23	35	1.96
5338480--5338616	54	2.5	55	86	2	188	18	23	23	35	1.96
5339666--5339967	41	7.4	40	88	5	426	31	26	23	18	1.97
5341018--5341049	15	2.1	15	94	0	55	59	0	9	31	1.29
5341021--5341088	24	2.8	24	76	10	75	57	0	4	38	1.19
5342213--5342255	18	2.4	18	96	0	77	41	18	23	16	1.89
5344204--5344261	26	2.2	26	96	0	107	37	24	3	34	1.72
5348941--5349045	53	2.1	49	83	7	129	44	5	3	45	1.45
5353363--5353465	29	3.6	28	85	5	127	27	26	16	30	1.97
5358207--5358387	43	4.2	43	84	5	249	26	23	25	24	2.00
5358207--5358369	87	1.9	86	91	3	265	28	23	25	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5360376--5360400	12	2.1	12	100	0	50	32	0	24	44	1.54
5364538--5364562	12	2.1	12	100	0	50	84	0	8	8	0.79
5368581--5368624	14	3.2	13	79	20	54	81	2	9	6	0.94
5369772--5370013	64	3.8	64	89	2	342	29	16	14	38	1.89
5370590--5370675	44	2.0	44	84	13	115	32	13	26	26	1.94
5370736--5370822	44	2.0	44	84	4	113	29	12	28	28	1.93
5370543--5370962	146	2.9	146	90	1	635	31	16	25	26	1.97
5374877--5374906	13	2.3	13	94	0	51	36	26	6	30	1.82
5375821--5375853	2	16.5	2	100	0	66	51	0	0	48	1.00
5376293--5376325	16	2.1	16	94	0	57	33	9	6	51	1.58
5376507--5376531	2	12.5	2	100	0	50	48	0	0	52	1.00
5381517--5381604	20	4.6	20	75	10	67	59	7	0	32	1.27
5381609--5381634	10	2.6	10	100	0	52	65	7	0	26	1.20
5381953--5382008	2	28.5	2	96	3	105	48	0	0	51	1.00
5382158--5382182	5	5.0	5	100	0	50	40	0	0	60	0.97
5382158--5382191	15	2.3	15	89	0	50	38	5	0	55	1.24
5388260--5388351	18	5.1	18	86	0	112	33	14	21	30	1.93
5392919--5393010	18	5.1	18	86	0	112	33	14	21	30	1.93
5397581--5397672	18	5.1	18	86	0	112	33	14	21	30	1.93
5402247--5402338	18	5.1	18	86	0	112	33	14	21	30	1.93
5408262--5408369	26	4.2	26	95	0	189	36	25	6	32	1.81
5413534--5413741	40	5.2	39	84	1	218	25	25	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5413534--5413739	80	2.6	81	84	3	247	25	26	22	25	2.00
5421598--5421804	40	5.2	40	83	2	229	25	26	22	26	2.00
5426361--5426496	26	5.2	26	95	1	229	33	5	23	36	1.79
5429825--5429878	26	2.1	26	96	0	99	35	24	7	33	1.83
5432658--5432712	22	2.5	21	74	8	56	41	3	1	52	1.29
5433028--5433093	29	2.2	30	81	2	71	63	4	0	31	1.14
5436170--5436221	23	2.3	23	93	0	86	59	0	28	11	1.32
5436355--5436383	2	15.0	2	92	7	51	51	0	0	48	1.00
5437887--5437974	46	1.9	46	90	2	142	40	9	9	40	1.68
5442203--5442246	23	1.9	23	95	0	79	27	18	20	34	1.96
5445901--5445965	20	3.3	20	71	4	60	66	7	3	23	1.32
5445962--5446013	19	2.7	19	77	11	52	63	3	1	30	1.23
5447826--5448151	44	7.4	44	74	5	291	29	23	15	31	1.96
5447815--5448151	132	2.6	132	94	0	584	29	23	16	31	1.96
5449038--5449086	13	3.8	13	86	5	64	8	14	0	77	0.98
5449036--5449092	13	4.6	12	82	10	62	8	12	0	78	0.95
5451832--5451891	30	2.0	30	100	0	120	16	30	20	33	1.94
5456074--5456139	20	3.3	20	72	6	62	65	7	3	24	1.33
5457205--5457490	136	2.1	137	94	0	493	32	24	18	24	1.97
5459280--5459439	26	6.2	26	87	1	223	37	23	5	33	1.78
5459290--5459439	52	2.9	52	95	0	264	37	23	4	34	1.76
5460983--5461151	40	4.2	40	80	4	173	23	26	21	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5468985--5469153	40	4.2	40	80	4	173	23	26	21	28	1.99
5474181--5474215	2	17.5	2	87	0	52	48	2	2	45	1.32
5474375--5474428	2	28.0	2	81	7	58	51	7	0	40	1.30
5474375--5474427	15	3.7	15	76	19	51	52	7	0	39	1.30
5475074--5475116	16	2.6	16	81	3	50	13	0	2	83	0.74
5475244--5475279	14	2.5	15	95	4	65	16	5	13	63	1.47
5475242--5475316	30	2.4	30	82	6	96	12	6	18	62	1.50
5475243--5475281	15	2.6	16	84	16	64	15	5	15	64	1.46
5475242--5475316	32	2.4	31	82	10	98	12	6	18	62	1.50
5475243--5475310	15	4.5	15	72	24	63	13	5	19	61	1.51
5475718--5475823	35	3.0	35	95	0	194	22	12	49	16	1.78
5476532--5476678	54	2.9	50	80	12	183	34	19	16	29	1.94
5476735--5477323	147	4.1	140	92	4	980	31	20	15	32	1.94
5476834--5477323	70	6.9	70	94	3	863	31	20	15	32	1.94
5476735--5477323	217	2.7	217	97	2	1093	31	20	15	32	1.94
5489542--5489669	2	67.0	2	69	17	58	51	6	3	38	1.46
5490182--5490218	11	3.2	12	88	11	60	45	0	54	0	1.00
5490180--5490229	11	4.5	11	82	9	57	44	0	56	0	0.99
5490491--5490526	14	2.5	15	95	4	65	16	5	13	63	1.47
5490490--5490528	15	2.6	16	84	16	64	15	5	15	64	1.46
5490490--5490557	15	4.5	15	72	24	63	13	5	19	61	1.51
5490490--5490563	31	2.4	32	82	10	91	12	6	18	62	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5490963--5491068	35	3.0	35	95	0	194	22	12	49	16	1.78
5495020--5495061	18	2.3	18	80	15	50	30	2	0	66	1.04
5501760--5501978	110	2.0	110	99	0	429	33	15	20	31	1.93
5501871--5503279	144	9.8	144	97	0	2590	33	14	21	30	1.93
5504846--5504883	16	2.3	17	90	4	60	36	7	5	50	1.54
5505744--5505817	10	7.3	10	71	8	51	59	1	4	35	1.25
5506725--5506779	24	2.2	25	79	17	62	36	12	27	23	1.91
5508219--5508251	17	1.9	17	88	11	50	81	0	0	18	0.68
5509023--5509068	23	2.0	23	84	12	60	32	4	4	58	1.37
5509965--5510174	64	3.2	64	62	19	149	30	26	17	26	1.97
5509931--5510215	136	2.1	136	97	0	543	31	25	18	24	1.97
5510222--5510269	21	2.3	21	85	7	62	33	52	2	12	1.51
5512002--5512108	26	4.1	26	91	0	160	37	22	5	34	1.78
5512688--5512809	45	2.8	44	75	12	124	33	4	6	55	1.45
5512711--5512785	29	2.5	29	75	16	73	32	5	5	57	1.44
5512758--5512826	20	3.5	19	71	15	59	33	5	4	56	1.43
5512783--5512879	45	2.1	47	79	11	112	34	7	4	54	1.47
5524572--5524677	40	2.6	42	89	5	164	52	14	22	10	1.71
5526745--5526802	28	2.1	28	93	0	98	44	15	5	34	1.69
5532998--5533408	215	1.9	215	97	0	777	33	19	11	35	1.89
5533748--5533823	33	2.3	33	95	0	134	27	23	22	26	1.99
5537255--5537288	18	1.9	18	94	5	61	61	5	5	26	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5538012--5538061	10	5.0	10	86	13	68	70	2	8	20	1.23
5539228--5539261	13	2.8	12	86	8	50	50	8	11	29	1.69
5539928--5540056	42	3.0	42	79	2	159	30	26	13	29	1.94
5546509--5546772	144	1.8	144	95	0	474	32	15	24	27	1.95
5567002--5567196	72	2.7	72	84	3	241	29	25	13	31	1.94
5567029--5567216	72	2.6	72	85	1	243	29	26	14	30	1.95
5567412--5567690	144	1.9	144	81	5	332	32	17	14	35	1.90
5571600--5571634	17	2.1	17	100	0	70	28	17	17	37	1.92
5571919--5571963	21	2.1	21	87	0	63	20	17	22	40	1.92
5572130--5572184	18	2.8	18	77	17	65	27	20	20	32	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