genome.fa.s4.2.7.7.80.10.50.1000.179.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: Chr04 98600468 
Parameters: 2 7 7 80 10 50 1000
Length:  98600468

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   
          321   322   323   324   325   

This is table  179  of  325  ( 38914 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)
55148726--55148889	71	2.3	71	100	0	328	35	17	28	18	1.94
55151208--55151232	8	3.1	8	100	0	50	36	0	12	52	1.39
55155076--55155109	17	2.1	16	88	5	50	29	17	0	52	1.45
55155897--55155966	27	2.5	28	88	2	106	31	25	14	28	1.95
55157002--55158250	634	2.0	629	80	8	1419	30	22	13	32	1.93
55158268--55158379	6	18.5	6	73	18	90	49	13	16	21	1.79
55158268--55158379	24	4.6	24	77	8	120	49	13	16	21	1.79
55158302--55158404	30	3.4	30	84	6	136	49	14	14	21	1.79
55158526--55158595	27	2.6	26	84	6	86	37	20	24	18	1.94
55158546--55158603	27	2.1	27	84	6	73	36	27	20	15	1.93
55158760--55158811	22	2.4	22	80	0	59	32	21	25	21	1.98
55158909--55158987	27	3.0	26	86	3	95	36	18	22	21	1.95
55159187--55159374	27	7.0	27	85	0	205	26	19	18	36	1.94
55159205--55159382	81	2.2	81	85	6	227	25	17	19	37	1.93
55159387--55159632	27	9.2	27	79	4	266	39	8	22	28	1.84
55161649--55161810	6	26.8	6	76	15	156	49	12	16	20	1.79
55161649--55161831	85	2.2	85	91	0	294	49	13	16	20	1.79
55161953--55162018	27	2.5	26	85	7	87	37	22	22	16	1.93
55161953--55162026	27	2.8	27	78	13	82	36	21	24	17	1.95
55161977--55162034	27	2.1	27	84	6	73	36	27	20	15	1.93
55165576--55165654	27	3.0	26	83	3	86	36	17	22	22	1.95
55165856--55166042	27	6.9	27	85	0	203	27	19	16	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55165872--55166050	81	2.2	81	86	0	250	26	17	17	37	1.93
55165856--55166049	54	3.6	54	82	0	226	27	18	16	37	1.92
55166054--55166302	27	9.3	27	80	4	288	40	9	22	27	1.84
55166080--55166331	81	3.1	80	82	7	294	38	9	23	28	1.85
55167696--55167745	25	2.0	25	92	0	82	34	16	10	40	1.81
55169040--55169108	7	9.3	7	84	6	57	18	0	33	47	1.49
55169047--55169108	8	8.2	8	84	10	78	17	0	32	50	1.47
55171349--55171555	40	5.2	40	84	4	249	25	21	27	26	2.00
55171349--55171555	79	2.6	79	83	6	240	25	21	27	26	2.00
55179388--55179600	40	5.4	40	81	3	234	25	20	26	26	1.99
55179388--55179600	79	2.7	79	81	6	234	25	20	26	26	1.99
55181023--55181072	25	2.0	25	92	0	82	34	16	10	40	1.81
55187711--55187767	29	2.0	29	82	0	69	42	12	10	35	1.77
55191876--55192083	40	5.2	40	86	0	236	25	22	26	25	2.00
55191878--55192083	80	2.6	80	85	1	261	25	22	26	25	2.00
55200005--55200211	40	5.2	40	86	1	236	25	22	26	25	2.00
55200007--55200211	79	2.6	80	85	3	261	25	22	26	25	2.00
55203478--55203703	39	5.8	39	85	4	280	24	19	27	27	1.99
55211757--55211910	79	2.0	78	88	3	229	24	19	27	27	1.99
55211757--55211910	39	3.9	40	88	1	215	24	19	27	27	1.99
55218633--55218678	18	2.4	18	82	7	56	30	4	2	63	1.26
55226581--55226866	50	5.7	50	81	2	286	33	26	14	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55226587--55226866	151	1.8	153	87	1	420	33	26	14	25	1.94
55234047--55234106	30	2.0	30	86	0	84	28	23	8	40	1.83
55238448--55238578	65	2.0	65	95	0	235	25	15	17	41	1.89
55240905--55240941	12	3.2	12	96	3	67	16	24	0	59	1.37
55242107--55242151	24	1.9	23	82	13	56	31	20	8	40	1.83
55247036--55247202	40	4.2	40	84	2	194	25	26	21	26	1.99
55248026--55248071	17	2.5	19	74	22	53	34	23	17	23	1.96
55255016--55255182	40	4.2	40	84	2	194	25	26	21	26	1.99
55256005--55256050	17	2.5	19	74	22	53	34	23	17	23	1.96
55259844--55259933	45	2.0	45	97	0	171	34	21	8	35	1.84
55264844--55264922	20	4.0	20	73	6	70	20	25	21	32	1.97
55264724--55264906	40	4.6	40	81	2	197	21	27	18	32	1.96
55265920--55266017	27	3.6	27	77	13	83	31	8	19	40	1.81
55265983--55266166	27	6.8	26	80	5	179	28	9	20	40	1.84
55266008--55266166	81	2.0	81	83	7	207	29	10	20	38	1.87
55266165--55266361	27	7.3	27	84	3	218	39	8	24	27	1.84
55266155--55266361	80	2.6	78	86	5	227	39	8	23	28	1.84
55266149--55266374	107	2.1	108	78	6	271	38	9	22	30	1.85
55269327--55269554	46	4.8	46	76	15	230	29	28	20	21	1.98
55269425--55269554	52	2.6	51	85	9	189	30	27	20	21	1.98
55281593--55281641	16	3.1	16	78	0	62	44	16	24	14	1.84
55283776--55283827	24	2.2	24	86	6	70	17	25	23	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55283943--55283990	25	1.9	25	91	0	78	25	25	20	29	1.99
55304200--55304383	50	3.7	49	81	2	199	26	18	27	28	1.98
55307639--55307669	2	15.5	2	100	0	62	51	0	0	48	1.00
55311429--55311691	112	2.3	112	87	2	368	27	16	25	30	1.97
55311429--55311660	56	4.1	56	91	0	365	27	16	25	30	1.97
55311901--55311928	2	14.0	2	100	0	56	50	0	0	50	1.00
55319981--55320067	46	1.9	44	84	9	113	5	25	2	66	1.25
55321922--55321947	13	2.0	13	100	0	52	46	23	7	23	1.78
55324203--55324303	28	3.5	28	83	6	105	28	26	14	29	1.95
55324291--55324421	29	4.5	29	85	1	165	25	30	16	28	1.96
55332291--55332391	28	3.5	28	86	6	114	29	26	13	29	1.94
55332379--55332509	29	4.5	29	87	1	174	25	31	16	27	1.96
55335252--55335321	35	2.0	35	94	0	122	30	17	8	44	1.78
55337843--55337911	28	2.5	28	95	2	122	18	10	27	43	1.82
55339512--55339549	20	1.9	20	88	0	58	52	10	2	34	1.50
55348576--55348699	47	2.6	47	87	0	167	12	19	18	49	1.79
55348575--55348654	25	3.3	25	66	16	69	10	20	22	47	1.79
55348696--55348747	22	2.4	21	83	6	59	15	15	25	44	1.85
55353170--55353339	40	4.2	40	81	1	198	25	25	22	25	2.00
55353170--55353371	40	5.1	40	78	3	192	25	25	22	27	2.00
55357198--55357339	57	2.5	56	80	6	153	26	27	17	28	1.98
55360899--55361061	46	3.6	45	77	9	143	27	17	21	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55364436--55364545	25	4.5	25	79	10	120	31	21	20	25	1.98
55364436--55364576	48	2.9	49	87	3	185	34	21	19	24	1.97
55364451--55364576	25	5.2	24	77	13	105	34	22	19	23	1.96
55368098--55368155	23	2.5	23	80	8	64	70	1	0	27	0.97
55376412--55376631	45	5.0	45	91	2	331	27	28	20	23	1.99
55377152--55377185	2	17.0	2	100	0	68	50	0	0	50	1.00
55377491--55377645	25	6.2	25	90	3	213	49	11	10	27	1.73
55377491--55377645	50	3.1	50	94	3	269	49	11	10	27	1.73
55377491--55377645	75	2.1	75	92	0	256	49	11	10	27	1.73
55378800--55378939	27	5.2	27	78	6	124	41	21	6	30	1.78
55378802--55378939	54	2.5	54	84	3	152	41	21	6	30	1.78
55378922--55378983	27	2.3	27	91	0	97	40	16	16	27	1.89
55378816--55378966	54	2.8	54	84	4	153	41	19	8	29	1.81
55378816--55378968	81	1.9	81	86	5	220	41	19	8	30	1.81
55379603--55379671	28	2.5	28	92	2	113	44	26	10	18	1.81
55380289--55380315	10	2.7	10	100	0	54	11	0	0	88	0.50
55385095--55385193	52	1.9	52	93	0	171	26	20	17	36	1.94
55387180--55387387	40	5.2	39	82	1	209	25	25	22	25	2.00
55397991--55398170	39	4.6	39	93	1	281	26	21	29	22	1.99
55397991--55398210	117	1.9	118	89	2	345	25	22	29	23	1.99
55406101--55406281	39	4.6	39	94	0	290	26	20	29	22	1.99
55406101--55406321	117	1.9	119	90	1	356	24	22	29	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55410556--55410690	48	2.8	48	84	5	168	31	26	20	20	1.98
55413344--55413501	40	4.0	40	77	4	133	33	16	27	22	1.95
55413507--55414049	40	13.6	40	82	0	521	30	15	30	23	1.95
55413407--55413589	100	1.8	100	87	4	271	32	15	30	21	1.95
55413867--55413931	20	3.2	20	63	16	53	27	12	35	24	1.91
55414510--55414765	46	5.5	45	76	10	214	22	29	19	28	1.98
55414510--55414765	47	5.5	47	76	11	199	22	29	19	28	1.98
55418683--55418723	20	2.0	20	100	0	82	34	9	24	31	1.88
55423663--55423703	18	2.2	19	83	12	50	14	26	39	19	1.90
55423914--55423966	27	2.0	27	88	7	81	37	20	13	28	1.90

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   
          321   322   323   324   325