genome.fa.s2.2.7.7.80.10.50.1000.146.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_chr1
Parameters: 2 7 7 80 10 50 1000
Length:  106989029

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   

This is table  146  of  322  ( 38559 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)
47985754--47985783	15	1.9	16	93	6	53	60	0	0	40	0.97
47989541--47989742	101	2.0	101	100	0	404	37	20	14	26	1.92
47995888--47995938	21	2.4	21	86	0	75	25	7	35	31	1.85
47996200--47996251	22	2.3	22	77	9	52	50	5	1	42	1.37
48000222--48000253	15	2.1	15	94	0	55	53	0	15	31	1.43
48000237--48000981	379	2.0	379	99	0	1463	24	16	17	41	1.89
48003279--48003322	21	2.1	21	100	0	88	9	15	31	43	1.79
48008961--48008996	18	1.9	19	94	5	65	50	0	16	33	1.46
48009066--48009177	48	2.3	49	80	4	147	26	14	16	41	1.87
48017120--48017200	27	3.0	28	74	13	82	62	7	1	28	1.29
48017181--48017218	17	2.2	17	95	0	67	78	2	0	18	0.86
48017304--48017360	26	2.3	24	77	11	60	68	1	5	24	1.20
48018601--48018872	89	3.1	89	65	13	218	26	22	18	32	1.97
48018964--48019104	44	3.2	44	74	12	112	20	27	20	31	1.98
48018952--48019512	88	6.4	88	87	2	718	21	24	20	33	1.97
48018929--48019512	175	3.3	176	85	3	743	22	24	20	33	1.97
48019184--48019324	44	3.2	43	66	19	112	22	22	18	36	1.95
48019266--48019414	44	3.4	44	66	14	117	22	23	19	34	1.97
48019581--48019708	64	2.0	64	90	3	204	35	14	18	32	1.91
48024116--48024161	19	2.4	19	85	7	58	45	15	19	19	1.85
48026428--48026468	19	2.2	19	90	0	64	78	2	0	19	0.87
48026833--48026872	20	2.0	20	85	0	53	25	10	15	50	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48028082--48028115	11	3.1	11	100	0	68	44	8	11	35	1.72
48028983--48029016	16	2.1	16	94	0	59	52	0	35	11	1.38
48031728--48031835	44	2.4	44	85	3	135	30	23	12	33	1.92
48036498--48036664	46	3.6	46	91	1	255	19	22	13	44	1.85
48036684--48036736	26	2.0	26	100	0	106	26	24	11	37	1.89
48036646--48036781	71	1.9	71	90	3	220	25	23	13	37	1.92
48042971--48043015	21	2.1	21	84	8	56	26	2	22	48	1.62
48044871--48044916	20	2.3	20	85	7	58	21	17	8	52	1.71
48046479--48046518	6	6.7	6	94	0	71	2	0	30	67	1.04
48046560--48046658	43	2.3	43	92	1	162	40	16	10	33	1.82
48048972--48049063	34	2.7	34	83	8	116	44	0	15	40	1.46
48049154--48049499	125	2.8	124	84	6	411	39	17	14	28	1.89
48060165--48060221	25	2.3	23	78	18	62	52	5	0	42	1.24
48062396--48062460	30	2.2	30	82	0	76	41	3	27	27	1.71
48070102--48070143	21	2.0	21	100	0	84	23	23	14	38	1.92
48072846--48072919	27	2.7	27	79	4	87	36	0	20	43	1.52
48079285--48079432	43	3.4	43	86	1	190	28	14	24	32	1.95
48100406--48100492	27	3.2	27	87	9	124	35	22	24	17	1.95
48102114--48102221	26	4.2	26	88	4	164	36	24	7	32	1.83
48102800--48102908	34	3.1	34	63	19	80	25	22	21	30	1.99
48102738--48102978	70	3.4	70	89	0	338	24	21	22	31	1.98
48102877--48102986	34	3.2	33	67	12	78	24	23	24	27	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48102844--48103025	36	5.2	36	66	10	97	25	20	22	31	1.98
48102738--48103025	70	4.1	70	86	1	335	24	20	22	31	1.98
48114480--48114546	26	2.5	26	82	2	71	26	29	20	22	1.99
48119098--48119268	33	5.2	33	87	0	175	35	23	9	30	1.88
48119109--48119274	32	5.1	32	88	0	152	35	22	10	30	1.89
48130619--48130665	17	2.8	17	80	9	51	4	31	0	63	1.13
48136914--48136949	17	2.1	17	89	0	54	47	2	8	41	1.48
48143275--48143446	40	4.3	40	81	0	191	30	20	22	26	1.98
48143878--48143916	15	2.6	14	84	11	51	17	0	43	38	1.50
48148918--48149063	69	2.1	69	80	2	168	31	16	18	33	1.93
48148949--48149186	121	2.0	121	83	3	300	29	18	18	33	1.95
48149070--48149355	69	4.1	69	80	3	326	28	17	19	34	1.95
48151338--48151427	40	2.2	40	84	5	110	31	21	24	23	1.98
48151356--48151433	40	1.9	41	89	7	124	30	21	20	26	1.98
48151649--48151749	40	2.5	39	78	13	107	29	19	14	35	1.92
48152788--48152822	17	2.0	18	88	5	54	37	11	0	51	1.38
48153718--48153781	29	2.5	26	77	20	71	25	20	15	37	1.92
48155878--48155921	22	2.0	22	86	0	61	43	0	0	56	0.99
48157102--48157292	43	4.4	43	83	0	211	26	14	28	30	1.95
48157102--48157292	86	2.2	86	85	0	247	26	14	28	30	1.95
48180753--48180810	29	2.0	29	100	0	116	24	13	24	37	1.91
48181985--48182015	6	5.2	6	100	0	62	83	0	0	16	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48197565--48197603	18	2.1	19	90	4	62	33	10	17	38	1.84
48200736--48200935	80	2.5	82	80	8	203	30	23	16	30	1.96
48200780--48200956	40	4.4	40	82	7	189	28	23	16	30	1.97
48202488--48202528	14	3.0	14	75	17	50	70	9	14	4	1.30
48203441--48203575	40	3.4	40	76	9	143	26	18	23	31	1.98
48206729--48206910	46	4.0	46	84	1	213	40	14	24	20	1.90
48206739--48206910	92	1.9	92	85	2	238	40	15	23	20	1.90
48219659--48219692	16	2.0	17	88	11	52	17	29	17	35	1.93
48221608--48221667	30	2.0	30	96	0	111	35	13	21	30	1.92
48223178--48223211	12	2.8	12	90	0	50	67	0	0	32	0.91
48224637--48224679	23	2.0	23	86	9	63	51	0	2	46	1.13
48240069--48240120	27	1.9	27	84	7	70	67	0	1	30	1.02
48240081--48240165	38	2.6	32	74	24	86	63	1	4	30	1.22
48240089--48240158	38	1.9	38	88	8	110	61	1	5	31	1.28
48240068--48240132	24	2.6	25	76	16	71	63	1	4	30	1.24
48240187--48240586	3	133.7	3	64	16	64	59	3	7	29	1.42
48240490--48240539	13	3.8	13	79	12	57	64	0	4	32	1.12
48241216--48241262	22	2.1	22	84	7	60	74	2	6	17	1.12
48242135--48242583	44	10.2	43	66	13	173	24	24	20	30	1.99
48242003--48242586	132	4.4	132	85	1	724	25	25	20	29	1.99
48246903--48246928	11	2.4	11	100	0	52	42	30	11	15	1.82
48250443--48250487	23	2.0	23	86	8	65	37	8	11	42	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48254429--48254458	15	2.0	15	93	0	51	26	3	0	70	1.03
48254596--48254657	25	2.5	24	75	17	63	32	9	1	56	1.41
48262228--48262287	30	2.0	30	90	0	93	38	8	25	28	1.84
48272249--48272657	227	1.8	227	91	0	683	27	11	17	43	1.83
48272706--48272736	16	1.9	16	93	0	53	9	9	6	74	1.23
48276461--48276508	14	3.5	13	75	13	51	33	6	6	54	1.51
48277346--48277385	21	1.9	21	85	10	55	40	2	2	55	1.27
48281372--48281415	22	2.0	22	81	0	52	54	18	9	18	1.69
48281465--48281531	31	2.1	32	97	2	127	55	2	8	32	1.46
48282176--48282232	14	4.1	14	97	2	107	57	7	0	35	1.26
48282340--48282374	9	3.8	9	85	7	52	17	0	0	82	0.66
48283297--48283691	48	8.2	48	93	0	655	29	26	8	36	1.85
48287439--48287603	9	17.9	9	71	17	90	35	3	14	46	1.62
48287430--48287612	74	2.5	74	100	0	366	35	3	14	46	1.62
48287801--48287842	14	3.4	13	81	18	54	66	0	0	33	0.92
48287801--48287852	12	4.3	12	77	15	54	63	1	0	34	1.06
48287826--48287974	48	3.2	48	67	12	139	55	3	4	36	1.37
48287870--48288015	43	3.3	43	69	16	125	56	4	6	32	1.43
48287747--48288056	105	3.1	104	82	12	421	54	3	5	36	1.43
48287826--48288015	91	2.1	91	93	0	326	55	3	5	35	1.42
48287847--48287990	48	3.1	47	66	23	124	54	3	6	36	1.43
48291662--48292083	206	2.0	210	91	5	683	37	10	27	24	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48292936--48293009	22	3.4	21	76	9	60	31	37	4	27	1.75
48292908--48293033	7	17.3	7	71	12	67	30	38	3	27	1.75
48292958--48292996	15	2.7	14	84	7	51	25	41	5	28	1.77
48292960--48293033	29	2.5	28	78	8	76	28	37	4	29	1.75
48293093--48293132	15	2.7	14	84	7	53	47	35	0	17	1.48
48293090--48293147	22	2.6	22	77	0	62	46	31	0	22	1.52
48293162--48293212	14	3.7	14	81	5	68	50	23	0	25	1.49
48293493--48293825	41	8.1	41	85	2	409	28	19	22	29	1.98
48295111--48295189	39	2.0	40	97	2	151	40	10	10	39	1.73
48296482--48296537	26	2.2	26	96	0	103	25	23	14	37	1.92

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