genome.fa.s25.2.7.7.80.10.50.1000.158.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_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  101062743

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   

This is table  158  of  297  ( 35593 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)
53742159--53742226	11	5.8	11	72	13	55	16	5	29	48	1.69
53742130--53742235	24	4.4	24	86	0	131	19	7	26	46	1.77
53742385--53742586	32	6.4	32	81	3	185	22	17	19	40	1.91
53742578--53742639	22	2.8	21	78	4	70	17	17	19	45	1.86
53743656--53743705	24	2.1	24	85	7	66	20	22	12	46	1.83
53748002--53748040	3	13.0	3	84	10	53	33	2	0	64	1.08
53747998--53748036	12	3.2	12	86	13	62	33	5	0	61	1.18
53748049--53748113	25	2.6	25	82	0	76	33	7	4	53	1.50
53748126--53748159	17	2.0	17	94	0	59	38	5	2	52	1.41
53748182--53748241	28	2.3	26	86	11	86	36	8	0	55	1.30
53749412--53749502	45	2.0	46	82	6	114	26	12	8	52	1.67
53750055--53750536	45	10.8	44	71	12	238	31	18	20	29	1.96
53750214--53750315	40	2.5	40	83	1	132	30	16	21	31	1.96
53750202--53750315	41	2.8	41	81	4	142	29	17	19	33	1.95
53750202--53750499	91	3.4	86	75	11	223	31	18	20	29	1.96
53751307--53751475	90	1.8	90	89	10	263	36	8	18	36	1.83
53755839--53755914	23	3.3	23	92	0	134	22	21	26	30	1.99
53756451--53757131	337	2.0	338	95	1	1222	35	6	23	34	1.82
53762042--53762131	45	2.0	45	88	0	135	35	20	18	25	1.95
53764367--53764392	5	5.2	5	100	0	52	42	19	19	19	1.90
53765150--53765209	30	2.0	30	83	3	75	41	0	38	20	1.52
53765396--53765432	9	4.1	9	92	0	65	29	10	13	45	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53765486--53765516	9	3.4	9	90	0	53	38	22	12	25	1.90
53769692--53769738	21	2.2	22	92	3	78	21	19	38	21	1.94
53775594--53775635	11	3.8	11	75	12	50	71	0	26	2	0.98
53775941--53779252	829	4.0	830	93	1	5265	37	16	21	25	1.93
53779080--53779169	45	2.0	45	82	8	112	42	18	21	17	1.90
53780420--53781545	143	7.9	143	86	0	1491	30	19	21	28	1.97
53783017--53783095	22	3.5	24	76	11	85	35	6	2	55	1.39
53783035--53783123	22	4.1	22	80	12	87	33	4	4	57	1.39
53791373--53791405	16	2.1	16	88	11	50	33	3	0	63	1.10
53792934--53792987	25	2.2	25	82	0	63	42	12	11	33	1.79
53801592--53801788	42	4.7	41	85	4	243	33	19	20	26	1.96
53801594--53801788	84	2.3	83	89	2	284	32	19	20	27	1.97
53802208--53802275	21	3.2	21	76	0	64	7	36	17	38	1.78
53807095--53807148	28	1.9	28	82	14	67	48	31	0	20	1.50
53807399--53807460	21	3.0	21	70	0	52	48	24	1	25	1.60
53807930--53808224	114	2.6	114	86	3	421	28	23	21	26	1.99
53808279--53808460	73	2.5	73	81	4	188	31	24	20	23	1.98
53808633--53808745	57	2.0	57	98	0	217	30	8	22	38	1.85
53815185--53815227	22	1.9	23	85	4	61	34	2	6	55	1.39
53817144--53817185	20	2.0	21	86	4	59	21	7	4	66	1.35
53818444--53818481	4	9.5	4	100	0	76	50	23	0	26	1.50
53818569--53818609	4	10.2	4	100	0	82	51	24	0	24	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53818357--53818606	125	2.0	125	100	0	500	35	14	18	32	1.91
53819101--53819149	23	2.1	23	85	7	64	14	16	14	55	1.70
53819114--53819173	23	2.6	23	83	0	75	15	16	15	53	1.74
53824957--53825001	23	2.0	23	100	0	90	31	17	4	46	1.68
53838347--53838386	6	5.9	7	83	16	57	87	12	0	0	0.54
53838346--53838385	13	2.9	14	92	7	73	87	12	0	0	0.54
53839687--53840148	44	10.5	44	63	8	177	29	19	24	25	1.98
53839588--53840242	132	5.0	132	92	0	1067	30	19	24	25	1.98
53840355--53840999	89	7.4	87	77	11	567	27	20	25	26	1.99
53840229--53840693	217	2.1	217	93	1	790	27	21	23	27	1.99
53840355--53840999	306	2.1	306	96	0	1173	27	20	25	26	1.99
53840282--53840944	217	3.1	216	85	6	785	27	20	24	26	1.99
53843113--53843146	17	2.1	16	88	5	50	67	0	20	11	1.21
53847391--53848122	44	16.8	43	73	12	405	30	19	22	27	1.98
53847473--53847798	173	1.9	173	83	7	421	29	20	22	26	1.99
53847343--53848063	217	3.3	217	93	0	1190	29	20	22	27	1.98
53847344--53848123	133	6.0	131	69	16	383	30	20	22	27	1.98
53852178--53852249	37	1.9	37	88	5	110	38	8	29	23	1.84
53854522--53854574	26	2.1	26	92	3	90	32	20	1	45	1.62
53856247--53856293	21	2.2	22	92	3	78	21	38	19	21	1.94
53862142--53862196	30	2.0	28	82	13	69	56	3	0	40	1.17
53864738--53864976	42	5.7	41	85	3	246	35	19	19	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53864740--53864899	83	1.9	84	87	3	234	33	20	20	25	1.97
53864740--53864976	126	1.9	125	81	2	287	35	19	19	26	1.95
53865434--53865501	21	3.2	21	91	0	100	4	39	20	35	1.73
53870986--53871100	25	4.4	25	76	16	101	37	0	17	45	1.49
53871039--53871100	9	7.4	8	79	17	56	32	0	19	48	1.49
53871148--53871204	25	2.3	25	81	0	69	36	3	15	43	1.64
53871180--53872011	86	9.6	86	99	0	1610	34	1	15	48	1.53
53872026--53872140	25	4.4	25	76	16	101	37	0	17	45	1.49
53872079--53872140	9	7.4	8	79	17	56	32	0	19	48	1.49
53872188--53872296	25	4.3	25	75	11	96	34	3	19	42	1.69
53872329--53872379	19	2.8	19	85	5	70	54	1	0	43	1.11
53872419--53872477	9	6.8	9	76	5	59	30	1	18	49	1.58
53874590--53875056	115	4.1	115	96	0	767	34	21	17	26	1.96
53875734--53875771	20	1.9	20	88	0	58	47	34	0	18	1.49
53875816--53875875	21	2.9	21	74	0	57	48	23	1	26	1.60
53876332--53876773	114	3.9	114	97	0	812	29	23	19	26	1.98
53876674--53877023	73	4.8	73	78	4	310	29	24	21	24	1.99
53881292--53881334	22	1.9	23	85	4	61	34	2	6	55	1.39
53883246--53883293	21	2.3	21	89	7	71	22	4	4	68	1.24
53883258--53883304	21	2.2	21	85	7	60	27	2	4	65	1.22
53885821--53885893	23	3.2	23	84	3	85	12	19	16	52	1.75
53887501--53888126	109	5.8	109	93	1	981	34	19	15	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53888267--53888368	4	23.5	4	79	11	71	71	2	3	21	1.16
53888267--53888374	10	11.7	9	74	18	73	71	2	3	22	1.15
53888311--53888381	5	14.4	5	82	10	69	73	2	2	21	1.09
53889324--53889748	50	8.5	50	70	7	252	23	20	23	32	1.98
53889342--53889697	100	3.6	99	83	2	471	24	21	22	32	1.98
53889529--53889748	51	4.4	51	74	6	223	23	18	23	35	1.96
53889322--53889697	200	1.9	198	88	1	572	24	21	22	31	1.98
53889522--53889793	151	1.8	151	98	0	526	23	19	23	34	1.97
53901929--53901979	13	3.9	13	77	10	59	37	0	1	60	1.08
53902185--53902237	27	2.0	27	85	14	74	62	1	35	0	1.06
53904783--53905090	109	2.9	109	89	2	435	33	18	16	30	1.94
53907269--53907388	57	2.1	57	95	0	213	35	10	14	40	1.81
53910384--53910418	18	1.9	18	88	11	54	28	0	2	68	1.04
53917925--53918366	44	10.1	43	71	12	244	30	20	22	26	1.98
53917969--53918306	173	1.9	174	80	7	384	29	20	22	27	1.98
53917839--53918315	217	2.2	217	91	0	774	30	20	21	27	1.98
53926926--53926986	3	19.7	3	75	12	52	29	1	8	60	1.35
53926958--53926986	15	1.9	15	100	0	58	27	0	10	62	1.28
53927131--53927187	27	2.2	24	78	9	60	36	8	1	52	1.43
53929944--53929982	12	3.2	12	88	3	51	35	5	2	56	1.35
53929933--53929977	16	2.9	16	80	3	56	35	4	2	57	1.31
53930122--53930173	18	3.1	18	69	30	51	28	7	9	53	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53934766--53934821	23	2.5	22	82	5	67	76	8	5	8	1.14
53934850--53934911	28	2.1	28	82	11	72	70	3	12	12	1.27
53936170--53937262	44	24.9	44	80	0	1247	33	20	25	21	1.97
53938638--53938831	38	5.1	38	92	0	307	36	25	21	17	1.95
53945458--53945505	24	2.0	24	100	0	96	29	25	20	25	1.99
53945845--53945879	17	2.1	17	89	10	54	45	17	0	37	1.48
53954264--53954310	24	2.0	24	83	8	60	34	0	17	48	1.47
53955218--53955242	6	4.2	6	100	0	50	68	0	0	32	0.90
53955945--53955978	18	1.9	17	88	5	50	52	2	0	44	1.16
53968918--53968965	10	4.9	10	74	5	53	75	2	2	20	1.02

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