genome.fa.s8.2.7.7.80.10.50.1000.142.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: At_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   

This is table  142  of  279  ( 33431 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)
46034312--46034362	14	3.6	14	89	5	66	15	15	5	62	1.50
46034313--46034359	15	3.3	15	88	5	71	12	12	6	68	1.39
46035110--46035224	30	3.8	30	92	0	194	25	49	3	21	1.65
46035780--46035838	25	2.4	25	85	0	82	35	3	0	61	1.13
46035769--46035840	25	2.7	26	76	8	74	36	4	1	58	1.26
46035782--46035848	16	4.1	17	75	18	70	35	2	0	61	1.12
46035864--46035949	25	3.6	25	80	7	83	31	6	5	55	1.50
46035866--46035956	23	3.9	24	75	11	73	32	6	5	54	1.49
46036077--46036124	16	3.1	15	90	6	69	31	2	2	64	1.16
46036077--46036128	8	6.5	8	82	8	61	30	1	1	65	1.14
46049883--46049909	5	5.4	5	100	0	54	77	0	0	22	0.76
46064643--46064793	53	2.8	53	89	4	214	29	27	16	25	1.97
46073990--46074050	30	2.0	30	83	0	77	31	22	8	37	1.84
46089952--46090033	42	2.0	42	97	0	155	37	0	9	52	1.35
46091355--46091459	50	2.1	50	98	1	203	40	21	7	30	1.81
46092856--46092908	24	2.2	24	96	0	97	22	1	43	32	1.64
46093856--46093898	18	2.6	16	79	13	50	48	0	0	51	1.00
46093861--46093903	18	2.4	18	88	0	68	48	0	2	48	1.14
46093979--46094025	19	2.4	20	89	3	69	44	17	14	23	1.85
46103372--46103593	41	5.4	41	91	0	338	31	24	24	19	1.98
46103372--46103593	123	1.8	122	94	1	390	31	24	24	19	1.98
46109086--46109115	12	2.5	12	94	0	51	50	3	0	46	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46112277--46112343	33	2.0	33	100	0	134	31	23	8	35	1.86
46114145--46114185	9	4.3	9	85	11	55	48	0	4	46	1.23
46121713--46121739	8	3.4	8	100	0	54	33	0	0	66	0.92
46124080--46124118	6	6.5	6	100	0	78	51	15	33	0	1.44
46131855--46131916	32	1.9	32	83	6	81	46	0	6	46	1.28
46138396--46138425	3	10.0	3	92	0	51	66	3	0	30	1.07
46143622--46143686	25	2.6	24	80	9	67	46	3	1	49	1.27
46143824--46143875	19	2.8	19	76	2	52	46	0	5	48	1.26
46143843--46143887	19	2.3	19	84	7	54	44	0	6	48	1.29
46145985--46146027	22	1.9	22	85	4	59	37	2	2	58	1.24
46147066--46147489	106	4.0	106	97	0	778	34	13	6	45	1.70
46148799--46148844	16	2.8	17	78	12	51	63	0	13	23	1.30
46151105--46151273	80	2.1	79	95	1	302	47	2	11	37	1.54
46153314--46153454	69	2.0	70	91	1	230	19	23	24	33	1.97
46153966--46154034	21	3.3	21	66	8	59	18	26	17	37	1.93
46153966--46154085	42	2.9	42	85	5	145	16	25	18	40	1.91
46155084--46155109	12	2.2	12	100	0	52	23	0	7	69	1.14
46155093--46155153	24	2.5	25	81	5	72	29	0	4	65	1.13
46161158--46162195	98	10.6	98	98	0	1986	34	15	22	28	1.94
46162102--46162317	37	5.3	44	86	9	190	37	14	21	26	1.92
46162170--46162315	37	4.0	37	93	1	242	36	16	21	24	1.94
46177697--46177725	3	9.7	3	100	0	58	0	31	0	68	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46185989--46186128	72	1.9	75	82	10	182	49	3	0	47	1.19
46186079--46186187	9	12.0	9	68	20	50	49	2	0	47	1.15
46186086--46186187	26	3.9	26	76	10	82	50	1	0	48	1.12
46186110--46186185	33	2.4	31	79	14	84	46	1	0	52	1.08
46190818--46190874	29	2.0	29	82	6	71	26	0	24	49	1.51
46200165--46200202	20	1.9	20	94	0	67	63	0	5	31	1.17
46200291--46200341	15	2.9	17	80	19	61	29	0	0	70	0.87
46200291--46200344	17	3.2	17	79	15	58	27	0	0	72	0.85
46203790--46203836	22	2.2	22	88	7	71	57	4	4	34	1.38
46205565--46205600	18	2.1	18	89	5	56	33	25	0	41	1.55
46206205--46206259	28	2.0	27	92	3	92	49	7	0	43	1.30
46206314--46206338	13	1.9	13	100	0	50	24	4	0	72	1.02
46225049--46225167	55	2.2	55	84	3	150	32	8	7	51	1.60
46225544--46225598	27	2.0	27	100	0	110	18	25	18	38	1.93
46228403--46228438	16	2.4	16	90	9	58	36	0	0	63	0.94
46229488--46229530	21	2.0	21	100	0	86	32	9	18	39	1.83
46230004--46230137	66	2.0	67	94	1	234	20	47	5	25	1.73
46239547--46239620	29	2.5	29	82	8	78	50	14	9	25	1.73
46248006--46248045	19	2.0	21	85	9	57	62	0	5	32	1.17
46253618--46253662	16	2.8	16	81	15	56	57	0	11	31	1.33
46263441--46263478	6	6.3	6	100	0	76	34	0	50	15	1.45
46276242--46276303	23	2.6	24	73	23	60	41	0	4	53	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46276401--46276527	40	3.2	40	62	26	95	33	11	14	40	1.82
46276366--46276527	81	2.0	81	98	0	315	33	12	15	38	1.85
46280843--46280878	16	2.2	16	90	0	54	50	11	8	30	1.67
46285674--46285766	18	5.2	18	88	0	141	32	16	23	27	1.96
46285674--46285766	36	2.6	36	92	0	159	32	16	23	27	1.96
46290384--46290440	18	3.2	18	92	0	96	31	17	24	26	1.97
46293473--46293553	38	2.1	39	97	2	155	40	11	17	30	1.84
46298337--46298459	24	4.8	24	68	24	81	30	9	32	27	1.89
46298355--46298422	32	2.1	32	94	0	118	29	10	33	26	1.89
46298406--46298438	4	8.2	4	100	0	66	24	0	51	24	1.48
46305009--46305161	47	3.2	47	84	2	182	23	16	28	31	1.96
46307885--46307939	21	2.6	21	94	0	92	52	14	20	12	1.73
46316061--46319152	626	4.9	625	94	1	5248	30	19	16	33	1.94
46320288--46320312	13	1.9	13	100	0	50	88	0	0	12	0.53
46326374--46326448	38	1.9	39	91	2	125	42	10	12	34	1.77
46327073--46327152	39	2.1	39	87	0	115	20	27	8	43	1.81
46328219--46328270	20	2.6	20	100	0	104	59	17	3	19	1.52
46328561--46328602	11	3.8	11	100	0	84	19	28	26	26	1.98
46336983--46337032	24	2.1	24	100	0	100	50	16	20	14	1.78
46337364--46337497	42	3.2	42	87	2	180	44	10	31	13	1.77
46337554--46337718	76	2.1	78	88	3	244	23	8	26	41	1.83
46342856--46342949	47	2.0	47	100	0	188	40	17	17	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46344698--46344831	42	3.2	42	87	2	180	44	11	30	13	1.80
46344888--46345052	76	2.1	78	89	3	253	24	7	26	41	1.81
46345851--46345910	21	2.8	23	80	9	65	21	0	8	70	1.14
46352002--46352046	20	2.1	22	88	8	67	33	0	4	62	1.15
46352690--46352771	24	3.4	24	74	11	60	56	1	3	39	1.25
46353717--46353798	42	2.0	42	82	4	103	37	1	23	37	1.63
46354469--46354566	49	2.0	49	87	0	142	23	26	24	25	2.00
46369254--46369410	33	4.8	33	97	0	296	29	42	9	17	1.81
46379644--46379769	65	1.9	65	91	0	207	47	11	3	36	1.59
46383361--46383564	102	2.0	102	97	0	381	43	8	6	41	1.61
46393843--46393993	76	2.0	75	98	1	293	17	15	22	44	1.86
46395303--46395345	17	2.4	19	80	7	54	58	34	2	4	1.32
46400443--46400504	32	1.9	32	93	0	106	41	12	24	20	1.87
46402878--46402909	17	1.9	16	93	6	55	68	9	0	21	1.17
46405249--46405400	75	2.0	75	97	2	288	32	22	17	28	1.96
46408191--46408396	105	2.0	105	89	0	313	49	16	17	16	1.81
46422028--46422238	115	1.8	115	92	2	361	21	17	11	49	1.78
46422131--46422162	6	5.3	6	100	0	64	0	15	0	84	0.63
46437490--46437551	23	2.7	22	83	13	81	27	0	3	69	1.04
46437926--46437952	5	5.4	5	100	0	54	22	0	0	77	0.76
46437972--46438011	17	2.3	18	86	4	55	37	2	0	60	1.11
46439061--46439112	15	3.6	15	80	12	56	53	1	0	44	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46445993--46446132	39	3.5	40	95	2	239	32	17	2	48	1.59
46446735--46446791	22	2.5	23	85	2	71	35	31	3	29	1.75
46447242--46447266	13	1.9	13	100	0	50	8	28	16	48	1.74
46447249--46447730	44	11.0	44	77	8	439	25	24	18	31	1.98
46447256--46447730	133	3.6	132	91	1	740	25	24	18	30	1.98
46447828--46448818	205	4.8	205	93	1	1607	29	22	17	29	1.97
46464856--46464904	25	2.0	24	92	4	80	42	0	2	55	1.11
46469801--46469846	15	3.1	15	84	3	58	71	17	0	10	1.13
46469935--46469985	23	2.3	23	86	10	70	50	23	3	21	1.65
46470079--46470157	22	3.6	22	81	6	97	64	21	1	12	1.34

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