genome.fa.s7.2.7.7.80.10.50.1000.103.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  103  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)
35393014--35393217	40	5.1	40	81	8	229	24	27	22	25	2.00
35400219--35400490	140	1.9	140	99	0	535	39	16	16	27	1.90
35400726--35400910	40	4.7	40	82	6	216	25	27	22	24	2.00
35400726--35400908	79	2.3	81	82	7	214	25	27	21	25	1.99
35402844--35402941	49	2.0	49	97	0	187	24	27	27	20	1.99
35408893--35408960	29	2.3	29	85	5	93	27	30	13	27	1.94
35409065--35409143	29	2.7	30	82	13	110	29	30	15	25	1.96
35416500--35416761	39	6.7	40	88	7	337	24	27	22	25	2.00
35417840--35417864	13	1.9	13	100	0	50	0	8	4	88	0.64
35420035--35420080	20	2.3	20	96	0	83	10	30	36	21	1.88
35420043--35420086	20	2.2	20	87	0	61	11	34	31	22	1.90
35428569--35428663	42	2.2	43	83	5	113	23	18	26	31	1.98
35431058--35431096	19	2.1	19	90	9	62	56	0	12	30	1.37
35440601--35440661	30	2.0	30	83	0	77	31	22	8	37	1.84
35452665--35452707	17	2.5	17	100	0	86	37	9	4	48	1.56
35452695--35452762	27	2.5	28	88	7	104	35	8	0	55	1.31
35452914--35452938	12	2.1	12	100	0	50	24	0	0	76	0.80
35455681--35455738	22	2.6	22	91	0	89	60	24	10	5	1.49
35456583--35456653	34	2.1	34	100	0	142	25	16	15	42	1.88
35458267--35458297	12	2.6	12	100	0	62	74	0	19	6	1.03
35460828--35460886	24	2.5	24	80	0	64	44	0	0	55	0.99
35463740--35463810	35	2.0	35	97	0	133	56	5	4	33	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35464390--35464454	31	2.1	31	97	0	121	36	16	15	30	1.90
35470252--35470403	40	3.8	40	87	2	207	25	27	21	25	1.99
35475466--35475511	25	1.9	24	82	8	58	30	13	15	41	1.85
35477510--35477575	33	2.0	33	100	0	132	27	21	21	30	1.98
35479711--35479748	19	2.0	20	85	15	53	39	23	0	36	1.55
35483731--35483908	27	6.6	27	84	3	205	29	28	15	26	1.96
35483752--35483907	82	1.9	81	88	3	233	29	28	15	26	1.96
35491794--35491971	27	6.6	27	84	3	205	29	28	15	26	1.96
35491815--35491970	82	1.9	81	88	3	233	29	28	15	26	1.96
35501190--35501232	20	2.2	20	88	8	63	11	30	34	23	1.90
35510103--35510259	43	3.6	42	77	13	133	30	24	18	26	1.98
35511269--35511796	263	2.0	263	94	0	921	35	18	14	31	1.91
35515732--35515785	26	2.1	26	85	0	72	46	20	3	29	1.68
35519529--35519619	44	2.1	44	87	0	128	46	10	13	29	1.77
35520469--35520547	26	3.0	27	81	9	108	41	0	13	44	1.44
35521295--35521788	103	4.7	103	89	1	655	33	16	14	34	1.90
35521295--35521788	208	2.4	208	86	1	686	33	16	14	34	1.90
35521698--35521847	68	2.2	68	80	0	165	34	16	14	34	1.90
35540671--35540767	36	2.7	36	93	0	158	24	18	12	44	1.84
35542350--35542381	15	2.0	17	88	11	50	43	31	0	25	1.55
35551205--35551352	40	3.7	40	86	7	203	24	20	28	26	1.99
35551205--35551352	79	1.9	79	87	7	219	24	20	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35551205--35551385	79	2.3	78	82	7	206	25	20	27	25	1.99
35555141--35555173	9	3.6	9	95	4	57	9	9	0	81	0.87
35555734--35555777	18	2.4	18	84	3	52	36	2	2	59	1.23
35555914--35555980	29	2.3	30	86	2	91	34	4	2	58	1.34
35556081--35556131	17	3.1	17	75	11	52	35	3	1	58	1.28
35558272--35558414	53	2.8	50	79	10	141	31	28	14	25	1.95
35558315--35558414	53	1.9	52	87	2	146	32	26	15	27	1.95
35562986--35563064	39	2.0	39	95	0	140	21	21	15	41	1.89
35565136--35565287	52	2.9	52	76	8	155	32	26	15	25	1.95
35577415--35577505	41	2.2	41	88	4	128	18	24	31	25	1.97
35577749--35577791	19	2.3	19	87	0	68	25	27	30	16	1.97
35581952--35582888	50	18.8	50	98	0	1783	35	5	24	33	1.80
35583037--35583145	37	2.9	37	94	0	182	23	19	30	26	1.98
35584787--35584812	13	2.0	13	100	0	52	15	30	38	15	1.88
35591193--35591252	30	2.0	30	87	3	86	30	23	6	40	1.80
35592661--35592794	60	2.2	63	81	9	170	27	27	18	26	1.98
35592675--35592823	60	2.5	60	81	7	160	25	25	20	28	1.99
35592816--35592861	20	2.3	20	85	14	69	28	30	17	23	1.97
35592828--35592871	19	2.2	20	84	4	54	34	27	18	20	1.96
35596080--35596117	18	2.1	18	100	0	76	21	31	10	36	1.87
35598750--35598783	12	2.7	13	86	9	52	82	0	0	17	0.67
35601003--35601046	20	2.3	19	88	7	63	50	11	6	31	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35603113--35603172	25	2.4	25	82	0	75	30	16	26	26	1.97
35603200--35603265	25	2.7	25	78	2	71	33	19	25	21	1.97
35603441--35603545	54	1.9	54	90	3	167	31	23	10	34	1.89
35610886--35610993	25	4.3	24	72	9	72	31	22	24	22	1.98
35611069--35611174	26	4.2	26	75	8	94	36	24	21	16	1.94
35617984--35618111	65	2.0	65	90	3	204	34	17	10	36	1.85
35623721--35623766	24	1.9	24	100	0	92	43	28	2	26	1.66
35623931--35623977	20	2.3	20	85	0	67	12	31	36	19	1.89
35625796--35625831	8	4.4	8	89	3	54	41	0	0	58	0.98
35631967--35632035	28	2.5	28	92	2	113	34	20	17	27	1.95
35633034--35633156	7	17.7	7	94	1	158	6	22	0	70	1.10
35633034--35633170	21	6.6	21	89	5	136	8	21	0	70	1.13
35633537--35633561	7	3.6	7	100	0	50	28	12	0	60	1.32
35633809--35633910	52	2.0	52	90	0	159	18	10	19	50	1.75
35638721--35638843	49	2.5	49	86	5	169	23	26	19	30	1.98
35638861--35639023	46	3.5	46	82	2	157	22	29	19	28	1.98
35647085--35647124	21	2.0	21	90	5	64	20	27	40	12	1.88
35650627--35650679	26	2.0	26	92	0	88	45	5	13	35	1.67
35650768--35650796	9	3.2	9	100	0	58	48	31	0	20	1.50
35655165--35655214	24	2.1	24	100	0	100	40	12	16	32	1.84
35667846--35667885	20	1.9	21	85	10	55	25	0	17	57	1.40
35668103--35668156	26	2.0	27	86	10	76	48	3	12	35	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35674029--35674213	79	2.3	81	84	7	236	24	22	27	25	2.00
35674030--35674213	40	4.6	40	83	9	216	24	22	27	25	2.00
35674082--35674246	79	2.1	79	84	6	210	26	21	27	25	1.99
35677202--35677243	20	2.1	20	100	0	84	19	4	19	57	1.58
35677203--35677254	20	2.4	22	78	18	63	23	3	17	55	1.58
35677913--35678037	36	3.4	36	89	1	178	16	12	32	39	1.85
35690353--35690399	24	2.0	23	87	4	67	38	2	2	57	1.23
35690505--35690538	16	2.2	16	89	5	52	23	0	0	76	0.79
35695170--35695201	16	2.1	15	94	5	55	81	0	18	0	0.70
35695167--35695204	12	3.1	12	92	3	58	78	0	21	0	0.74
35696310--35696396	21	4.0	23	80	10	92	37	25	21	14	1.92
35696767--35696824	15	3.8	15	88	2	89	51	12	0	36	1.39
35697126--35697154	15	1.9	15	100	0	58	34	27	3	34	1.74
35697606--35697647	5	8.4	5	94	0	75	59	2	0	38	1.10
35699755--35699797	21	2.2	19	87	8	59	16	4	20	58	1.56
35706427--35706512	43	2.0	43	88	0	127	23	17	29	30	1.97
35709455--35709514	28	2.1	28	90	9	95	18	40	20	21	1.92
35709751--35710018	94	2.8	93	77	8	267	24	29	17	28	1.98
35725070--35725152	43	1.9	43	100	0	166	38	18	16	26	1.92
35731132--35731169	19	2.0	19	94	0	67	36	7	15	39	1.77
35739532--35739592	30	2.0	30	90	6	97	22	11	19	45	1.82
35741311--35741388	35	2.2	35	90	2	120	42	11	10	35	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35741463--35741514	27	1.9	27	100	0	104	40	11	21	26	1.87
35750290--35750338	25	2.0	25	87	0	71	38	2	0	59	1.09
35750408--35750460	15	3.9	14	88	11	76	33	3	0	62	1.13
35750406--35750508	13	7.9	14	74	19	82	33	2	0	63	1.10
35750408--35750481	27	2.8	26	82	15	82	32	4	0	63	1.13
35750412--35750508	7	13.9	7	72	16	67	34	3	0	62	1.11
35750450--35750510	22	2.8	21	80	9	77	34	1	0	63	1.04
35750406--35750503	25	3.8	24	77	21	92	33	3	0	63	1.10
35750410--35750508	29	3.6	28	76	19	84	33	3	0	63	1.10
35750451--35750511	10	5.7	10	76	17	52	34	1	0	63	1.04

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