genome.fa.s7.2.7.7.80.10.50.1000.114.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   

This is table  114  of  290  ( 34714 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)
38785746--38785989	122	2.0	122	93	0	416	25	21	11	42	1.86
38787730--38787837	26	4.2	26	92	0	180	32	6	24	37	1.81
38794829--38794936	26	4.2	26	91	0	171	31	6	24	37	1.81
38803663--38803699	18	2.1	18	89	0	56	2	13	0	83	0.74
38806393--38806569	51	3.6	51	81	9	240	32	48	5	13	1.66
38806466--38806567	45	2.3	44	91	0	132	32	51	4	10	1.58
38806540--38806608	36	1.9	36	90	0	111	27	43	7	21	1.79
38806523--38806734	87	2.4	87	99	0	415	28	46	8	17	1.76
38806627--38806695	36	1.9	36	90	0	111	27	43	7	21	1.79
38806663--38806788	51	2.5	49	85	2	117	30	43	7	17	1.78
38810826--38810888	27	2.3	27	83	5	74	49	1	0	49	1.10
38816130--38816174	18	2.5	19	78	10	58	71	6	0	22	1.09
38817963--38818027	31	2.1	32	82	2	78	56	1	1	40	1.18
38819567--38819591	11	2.3	11	100	0	50	20	0	8	72	1.10
38820867--38820954	20	4.3	20	72	7	61	12	22	19	45	1.84
38823365--38823441	38	2.0	38	94	0	136	23	18	10	48	1.78
38828518--38828551	18	1.9	18	94	5	61	29	11	5	52	1.61
38837662--38837701	17	2.4	17	82	0	53	22	15	30	32	1.94
38842869--38842906	14	2.9	13	81	11	51	57	10	13	18	1.63
38854556--38854597	21	2.0	21	95	0	75	47	11	23	16	1.80
38855702--38855740	19	2.1	18	85	4	51	25	0	2	71	0.98
38857745--38858314	51	11.6	48	79	13	574	30	48	6	14	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38857745--38858261	138	3.6	142	81	11	565	31	47	6	14	1.69
38857745--38858311	189	2.9	195	84	9	724	30	48	6	14	1.69
38858292--38858377	33	2.7	32	74	12	88	22	45	9	23	1.81
38857680--38858344	189	3.5	187	76	15	655	30	47	6	15	1.70
38858285--38858361	33	2.2	34	84	11	95	25	37	11	24	1.90
38859547--38859622	39	1.9	39	89	5	118	64	9	1	25	1.31
38863648--38863681	15	2.3	15	89	0	50	41	11	14	32	1.82
38864972--38865027	29	2.0	29	82	3	69	41	14	10	33	1.80
38869388--38869455	22	3.3	22	64	19	65	25	11	7	55	1.61
38869380--38869457	39	2.0	39	100	0	156	25	10	10	53	1.66
38869487--38869539	23	2.4	23	75	6	56	35	0	5	58	1.22
38869504--38869534	12	2.7	11	90	9	53	38	0	6	54	1.26
38871867--38871910	19	2.3	20	84	7	56	27	20	11	40	1.86
38876037--38876300	86	3.1	86	88	0	393	26	23	24	26	2.00
38877463--38877695	46	5.2	46	68	9	147	25	20	24	30	1.99
38877437--38877763	134	2.4	134	95	0	573	27	19	23	29	1.98
38877763--38877885	44	2.9	41	82	9	151	34	23	21	21	1.97
38877853--38878273	130	3.2	130	90	2	659	29	20	23	26	1.99
38878076--38878257	43	4.2	43	68	7	118	28	20	24	26	1.99
38890666--38890726	30	2.0	30	90	0	95	40	6	29	22	1.79
38898996--38899034	2	19.5	2	94	0	69	2	0	46	51	1.14
38901118--38901269	78	1.9	78	90	0	241	32	20	14	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38901234--38901371	40	3.5	40	86	0	195	36	21	12	29	1.90
38914821--38914992	46	3.7	46	78	11	165	23	30	17	28	1.97
38920352--38920407	19	2.9	19	75	0	58	66	3	1	28	1.19
38920406--38920457	9	5.6	9	78	15	52	36	1	3	57	1.28
38920420--38920457	20	2.0	20	89	5	60	34	2	2	60	1.24
38928744--38928827	42	2.0	41	95	2	150	27	9	26	35	1.87
38933221--38933258	9	4.3	9	93	6	69	21	0	0	78	0.74
38933221--38933258	13	2.9	13	85	14	60	21	0	0	78	0.74
38933663--38933789	28	4.6	27	81	7	141	27	27	15	29	1.96
38933663--38933789	54	2.3	56	80	11	147	27	27	15	29	1.96
38933665--38933814	82	1.8	81	91	1	246	27	25	17	30	1.97
38933665--38933814	28	5.5	27	77	11	135	27	25	17	30	1.97
38935294--38935343	25	2.0	25	96	0	91	42	4	14	40	1.64
38939752--38939795	20	2.1	21	83	8	54	25	4	2	68	1.20
38949050--38949082	13	2.6	13	90	4	50	48	12	0	39	1.40
38954943--38955003	6	10.2	6	77	7	61	14	9	0	75	1.04
38954943--38954989	24	1.9	25	91	4	78	17	8	0	74	1.05
38967746--38967857	56	2.0	55	96	1	206	44	7	6	41	1.57
38970517--38970542	13	2.0	13	100	0	52	38	7	23	30	1.83
38973949--38974025	38	2.0	38	97	0	145	23	15	41	19	1.89
38978977--38979062	42	2.0	42	100	0	172	29	33	23	13	1.93
38981491--38981535	6	7.5	6	87	0	63	15	4	2	77	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38981491--38981548	18	3.2	18	85	2	71	15	6	1	75	1.09
38985330--38985374	22	2.0	23	91	4	74	60	8	8	22	1.55
38986118--38986191	36	2.1	36	94	0	130	22	14	20	41	1.89
38987420--38987472	27	2.0	27	100	0	106	32	7	26	33	1.84
38994089--38994166	35	2.2	35	88	0	111	39	21	23	15	1.91
38996209--38996290	37	2.2	37	95	2	146	21	31	23	23	1.98
38997344--38997398	6	9.2	6	91	0	92	14	1	1	81	0.85
38999958--39000049	47	2.1	44	86	11	127	41	15	17	26	1.88
39000460--39000524	33	2.0	32	90	3	103	33	13	18	33	1.90
39002498--39002577	42	1.9	42	100	0	160	52	23	11	12	1.71
39004568--39004706	63	2.2	63	96	0	251	38	7	6	47	1.57
39014614--39014643	15	2.0	15	100	0	60	26	6	20	46	1.75
39018487--39018526	20	2.0	20	95	0	71	30	10	27	32	1.89
39019239--39019282	22	2.0	22	100	0	88	22	36	13	27	1.92
39022084--39022122	19	1.9	19	85	10	51	53	7	2	35	1.43
39022714--39022814	30	3.4	30	83	0	121	14	3	57	23	1.55
39025482--39025602	40	3.0	40	87	0	188	28	24	21	24	1.99
39026122--39026169	15	3.3	15	79	5	62	20	0	31	47	1.50
39026117--39026163	22	2.2	21	84	3	58	25	0	25	48	1.51
39026985--39027032	15	3.3	15	79	5	62	20	0	31	47	1.50
39026980--39027026	22	2.2	21	84	3	58	25	0	25	48	1.51
39025984--39027826	863	2.1	863	100	0	3686	35	8	16	39	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39030012--39030384	46	8.2	46	76	10	318	34	5	22	37	1.77
39030012--39030355	137	2.5	137	78	7	369	35	4	22	36	1.76
39030028--39030384	23	15.6	23	74	8	246	35	5	22	36	1.78
39031066--39031369	43	7.1	41	72	8	189	25	12	26	35	1.91
39031074--39031369	86	3.5	85	76	8	251	26	12	26	34	1.92
39034063--39034087	12	2.1	12	100	0	50	40	8	28	24	1.83
39035185--39035226	11	3.9	11	78	6	50	16	2	4	76	1.07
39038463--39038540	15	4.8	16	75	16	70	26	1	1	70	1.03
39038488--39038533	18	2.6	17	86	10	65	30	2	0	67	1.03
39038526--39038564	6	6.2	6	82	11	51	15	5	0	79	0.90
39038488--39038540	16	2.9	18	78	16	65	28	1	0	69	0.99
39038526--39038564	20	2.0	20	94	0	69	15	5	0	79	0.90
39038624--39038702	12	6.1	12	75	16	61	15	1	3	79	0.93
39056045--39056156	58	1.9	58	94	0	197	38	16	8	35	1.81
39059143--39059200	8	7.5	8	74	14	50	53	1	5	39	1.33
39060213--39060241	15	1.9	15	100	0	58	72	6	6	13	1.26
39070333--39070412	39	2.1	39	92	4	135	10	23	33	32	1.88
39082848--39082938	45	2.0	45	97	0	173	19	28	31	19	1.97
39083524--39083580	28	2.0	28	100	0	114	42	7	19	31	1.78
39093584--39093856	138	2.0	138	97	0	519	36	20	13	28	1.91
39098298--39098338	21	2.0	21	100	0	82	39	19	24	17	1.92
39100384--39100473	31	2.9	31	81	3	92	17	37	21	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39101024--39101082	31	1.9	31	92	0	100	38	11	11	37	1.79
39103406--39103441	13	2.8	13	95	0	63	30	0	8	61	1.26
39103522--39103566	24	1.9	24	86	4	65	37	4	2	55	1.32
39104467--39104519	28	1.9	27	88	3	79	32	15	20	32	1.93
39104567--39104626	7	8.7	7	74	3	50	18	3	35	43	1.67
39104555--39104620	21	3.2	20	80	6	78	19	4	31	43	1.71
39104583--39104634	27	1.9	27	84	0	68	19	7	32	40	1.80
39107690--39107722	16	2.0	17	88	5	50	51	3	0	45	1.16
39117677--39117728	19	2.7	19	77	11	61	46	7	11	34	1.69
39121106--39121137	14	2.3	14	100	0	64	53	15	12	18	1.73

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