genome.fa.s4.2.7.7.80.10.50.1000.140.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  140  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)
42674433--42674468	17	2.1	17	94	0	63	27	44	16	11	1.82
42678711--42678749	20	2.0	20	89	0	60	35	0	2	61	1.10
42689840--42689867	12	2.3	12	100	0	56	64	0	0	35	0.94
42690907--42690955	21	2.4	21	89	3	82	42	6	4	46	1.47
42692917--42693103	71	2.7	68	93	5	281	18	28	18	34	1.95
42692940--42693103	71	2.3	71	100	0	328	18	28	17	35	1.94
42692940--42693137	71	2.8	70	92	3	276	20	28	17	33	1.95
42700483--42700669	71	2.7	68	93	5	281	18	28	18	34	1.95
42700506--42700669	71	2.3	71	100	0	328	18	28	17	35	1.94
42700506--42700703	71	2.8	70	92	3	276	20	28	17	33	1.95
42703200--42703325	52	2.5	52	85	7	186	27	13	29	29	1.94
42705502--42705674	44	3.8	44	79	14	208	28	29	20	20	1.98
42705510--42705678	93	1.8	91	94	2	302	28	29	21	20	1.98
42708162--42708334	46	3.8	46	79	14	214	28	29	21	20	1.98
42708170--42708339	91	1.8	92	94	2	306	27	30	21	20	1.98
42710704--42710791	29	3.0	29	80	8	97	56	15	17	10	1.66
42710704--42710782	15	5.4	15	77	10	83	58	13	17	10	1.63
42710715--42710791	15	5.2	15	75	9	77	55	15	16	11	1.68
42713729--42713901	46	3.8	46	79	14	214	28	29	21	20	1.98
42713737--42713906	91	1.8	92	94	2	306	27	30	21	20	1.98
42716615--42716673	24	2.5	24	82	0	73	38	6	42	11	1.68
42721236--42721349	39	2.9	39	86	1	156	23	31	21	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42725505--42725546	21	2.0	21	90	0	66	42	16	7	33	1.75
42729960--42729984	13	1.9	13	100	0	50	16	24	40	20	1.91
42741472--42741647	46	3.8	46	75	15	173	21	19	29	29	1.98
42741468--42741640	93	1.9	93	90	0	274	21	19	30	28	1.98
42742248--42742335	44	2.0	44	100	0	176	50	13	11	25	1.75
42744617--42744687	15	4.7	15	78	5	81	12	18	12	56	1.67
42744608--42744687	30	2.6	31	81	11	94	12	17	15	55	1.70
42747071--42747244	46	3.8	46	79	8	201	21	20	29	28	1.98
42748595--42748629	18	2.0	17	88	5	52	48	0	20	31	1.50
42750613--42750663	20	2.7	19	82	14	54	41	0	21	37	1.54
42751414--42751441	11	2.5	11	100	0	56	28	10	35	25	1.89
42751461--42751593	48	2.7	49	79	4	144	29	20	28	21	1.98
42756804--42756842	15	2.7	15	84	4	53	53	0	0	46	1.00
42763979--42764162	40	4.6	39	75	6	138	26	23	27	22	2.00
42764019--42764207	80	2.4	81	77	4	186	23	24	29	22	1.99
42772094--42772277	40	4.6	39	75	6	138	26	23	27	22	2.00
42772134--42772322	80	2.4	81	77	4	186	23	24	29	22	1.99
42775188--42775228	21	1.9	22	90	5	66	36	24	2	36	1.69
42775688--42775809	43	2.8	44	75	4	142	32	21	16	29	1.95
42780528--42780573	23	2.0	23	100	0	92	17	21	21	39	1.93
42780996--42781061	26	2.5	27	80	7	82	31	19	13	34	1.91
42781675--42781722	20	2.4	20	100	0	96	18	0	12	68	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42782055--42782190	43	3.2	42	80	11	125	25	18	24	32	1.97
42782055--42782150	44	2.2	44	85	10	128	20	17	28	33	1.96
42786039--42786139	40	2.5	40	86	0	130	27	23	26	21	1.99
42796129--42796177	26	2.0	23	88	8	62	38	20	14	26	1.91
42796134--42796188	26	2.1	26	96	0	101	38	21	10	29	1.88
42796768--42796909	44	3.3	42	78	8	126	30	26	16	26	1.96
42796750--42796909	43	3.7	42	75	11	119	30	27	16	25	1.96
42798714--42798884	93	1.8	93	93	0	297	28	28	21	22	1.99
42798709--42798881	46	3.7	46	77	13	201	29	27	20	22	1.99
42801348--42802210	48	18.0	48	91	0	1330	31	26	6	35	1.82
42803398--42803425	2	14.0	2	100	0	56	50	0	0	50	1.00
42805050--42805124	19	4.1	19	70	18	59	44	0	2	53	1.14
42808767--42808917	43	3.5	43	77	8	155	27	20	23	29	1.99
42823894--42824057	40	4.1	40	81	3	195	24	21	28	25	1.99
42827885--42827938	24	2.2	24	90	0	90	35	3	40	20	1.70
42829362--42829472	27	4.2	26	89	5	150	16	24	22	36	1.94
42831901--42832031	30	4.5	30	86	8	171	32	13	25	28	1.94
42831901--42832031	58	2.2	58	86	4	174	32	13	25	28	1.94
42834203--42834332	40	3.3	39	76	8	136	23	27	23	24	2.00
42834219--42834370	40	3.8	40	78	6	148	22	26	23	27	1.99
42834219--42834368	80	1.9	80	83	8	198	22	26	24	27	1.99
42842896--42843026	30	4.5	30	87	6	162	32	13	25	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42842896--42843026	58	2.2	59	85	6	169	32	13	25	28	1.94
42845257--42845485	24	9.6	24	94	1	363	34	25	19	21	1.96
42845257--42845485	47	4.8	48	94	0	363	34	25	19	21	1.96
42845935--42845962	2	14.0	2	100	0	56	50	0	0	50	1.00
42852370--42852528	40	4.1	39	79	8	153	25	27	20	25	1.99
42852357--42852528	79	2.2	78	79	6	186	25	27	20	26	1.99
42860409--42860572	40	4.1	40	81	4	170	25	28	21	25	1.99
42860409--42860572	80	2.0	80	82	2	195	25	28	21	25	1.99
42865438--42865604	40	4.2	40	77	5	178	25	21	26	25	2.00
42865438--42865604	80	2.1	80	82	4	196	25	21	26	25	2.00
42870465--42870493	14	2.0	15	93	6	51	17	6	0	75	1.01
42880222--42880259	19	2.0	19	89	0	58	23	39	18	18	1.92
42881616--42881771	40	3.9	40	90	3	242	25	28	21	24	1.99
42881590--42881767	80	2.2	80	87	4	254	25	28	22	23	1.99
42887737--42887913	40	4.5	40	90	4	254	24	28	23	23	1.99
42887737--42887913	79	2.2	80	89	4	261	24	28	23	23	1.99
42890955--42891118	40	4.1	40	84	5	208	27	27	21	23	1.99
42890971--42891126	80	2.0	80	88	2	233	29	26	19	23	1.98
42892919--42892988	15	4.7	15	72	10	54	52	15	20	11	1.73
42900360--42900494	68	2.0	69	88	1	200	50	4	3	41	1.40
42900369--42900510	68	2.1	69	81	4	162	52	4	3	39	1.38
42900909--42900948	19	2.1	19	86	9	55	32	2	7	57	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42903773--42904036	49	5.4	49	94	0	438	29	9	31	29	1.88
42904138--42904221	37	2.3	37	91	2	134	23	19	35	21	1.96
42913111--42913281	40	4.3	39	77	10	159	28	21	26	23	1.99
42917254--42917298	20	2.2	20	88	0	63	48	2	13	35	1.54
42924246--42924432	71	2.7	68	93	5	281	18	28	18	34	1.95
42924269--42924432	71	2.3	71	100	0	328	18	28	17	35	1.94
42924269--42924466	71	2.8	70	92	3	276	20	28	17	33	1.95
42930175--42930341	40	4.2	40	82	2	185	24	26	22	26	2.00
42942388--42942517	40	3.3	39	83	4	163	23	28	25	23	1.99
42950435--42950564	40	3.3	39	83	4	163	23	28	25	23	1.99
42957307--42957337	16	1.9	16	93	0	53	35	22	0	41	1.54
42957304--42957343	20	2.0	20	85	0	53	37	22	0	40	1.54
42957588--42957780	55	3.5	55	82	9	227	20	24	16	37	1.93
42960231--42960281	21	2.4	21	93	0	84	21	15	23	39	1.92
42972585--42973017	217	2.0	217	95	0	776	27	17	15	39	1.90
42982451--42982673	46	4.7	46	75	10	159	25	20	30	23	1.98
42984518--42984630	23	4.8	23	77	9	95	29	21	23	25	1.99
42984532--42984656	23	5.3	23	75	11	94	33	17	23	25	1.96
42984952--42986341	694	2.0	694	98	0	2681	37	14	10	36	1.82
42988745--42989162	139	3.0	140	97	0	784	33	13	21	31	1.92
42994774--42994856	37	2.2	37	91	0	130	28	30	16	24	1.97
42994992--42995236	48	5.1	48	96	0	436	31	26	5	36	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42997715--42997956	87	2.8	87	84	0	295	39	15	25	19	1.91
42997715--42997957	29	8.4	29	75	5	213	39	15	25	19	1.91
42999476--42999537	23	2.7	23	84	0	70	48	17	27	6	1.72
43007359--43007596	49	4.8	49	81	4	271	25	17	26	30	1.97
43016516--43016763	125	2.0	125	91	1	399	25	22	14	37	1.93
43017595--43017622	9	3.1	9	100	0	56	75	25	0	0	0.81
43018833--43018901	21	3.1	21	67	18	59	17	10	28	43	1.81
43023143--43023318	40	4.4	40	90	3	259	25	22	27	24	2.00
43028619--43028676	27	2.1	27	80	0	62	32	15	20	31	1.94
43029355--43029390	18	1.9	19	88	5	56	50	8	11	30	1.67

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