genome.fa.s25.2.7.7.80.10.50.1000.112.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  112  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)
40232804--40232875	25	2.8	26	78	4	74	25	19	23	31	1.98
40240865--40240931	20	3.3	20	91	4	109	34	10	20	34	1.87
40240876--40240931	11	5.5	11	71	16	57	33	10	21	33	1.88
40240981--40241104	26	4.8	26	92	2	189	27	20	22	29	1.99
40248280--40248381	27	3.8	27	74	10	82	37	20	19	22	1.95
40248306--40248381	27	2.8	29	78	15	90	35	19	21	23	1.96
40249975--40250003	14	2.0	15	93	6	51	10	48	0	41	1.37
40250052--40250084	16	2.1	16	88	5	50	6	45	0	48	1.27
40252746--40253012	54	4.9	53	78	7	236	28	14	25	31	1.95
40252746--40253012	27	9.9	26	82	4	214	28	14	25	31	1.95
40258333--40258369	15	2.5	15	91	8	58	45	0	0	54	1.00
40260287--40260332	21	2.2	21	92	0	74	15	19	32	32	1.93
40267072--40267108	15	2.5	15	91	8	58	45	0	0	54	1.00
40269026--40269071	21	2.2	21	92	0	74	15	19	32	32	1.93
40273357--40274251	47	19.0	47	99	0	1772	31	29	12	25	1.93
40274671--40274741	28	2.5	28	83	0	97	22	18	19	39	1.92
40283729--40283782	20	2.7	20	91	0	90	20	24	31	24	1.98
40285918--40285948	6	5.2	6	100	0	62	16	0	0	83	0.64
40289595--40289649	22	2.4	21	82	14	65	65	0	5	29	1.15
40290673--40290929	95	2.7	95	84	0	336	24	17	23	34	1.96
40292152--40292193	20	2.2	19	83	12	50	23	0	26	50	1.50
40292312--40292346	17	2.0	18	88	5	54	28	0	5	65	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40293363--40293398	17	2.1	17	94	0	63	41	2	19	36	1.66
40300904--40300976	14	4.9	16	66	23	52	46	0	35	17	1.49
40300890--40300982	29	3.2	29	75	13	109	49	0	34	16	1.46
40301335--40301381	16	2.9	16	81	6	51	36	0	2	61	1.08
40314404--40314443	20	2.0	20	100	0	80	25	5	30	40	1.77
40317172--40317204	7	4.7	7	92	0	57	69	0	0	30	0.88
40327198--40327238	21	2.0	21	90	0	64	19	29	21	29	1.98
40330094--40330158	27	2.4	27	78	0	76	30	29	13	26	1.94
40333991--40334103	43	2.7	43	78	12	135	27	18	24	29	1.98
40338509--40338590	43	1.9	43	97	0	155	34	8	12	45	1.72
40341274--40341401	38	3.3	38	84	2	157	35	25	19	19	1.95
40345042--40345233	29	6.6	30	68	13	123	29	29	18	22	1.98
40345007--40345233	58	3.9	58	90	0	366	29	29	19	22	1.98
40345387--40345488	43	2.3	43	89	1	150	31	30	24	13	1.94
40345449--40345505	28	2.0	28	96	0	105	35	31	21	12	1.90
40345406--40345548	71	2.0	71	95	0	259	32	32	23	11	1.90
40350876--40351048	43	4.0	43	77	11	176	33	27	17	21	1.96
40352911--40352956	15	3.2	15	76	17	53	54	0	10	34	1.36
40362235--40362264	12	2.5	12	100	0	60	20	0	26	53	1.46
40368674--40368940	46	5.8	46	76	6	279	22	19	28	28	1.98
40368672--40368936	93	2.8	93	95	1	469	22	19	29	28	1.98
40368923--40368958	18	2.0	18	100	0	72	16	16	22	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40368877--40369004	64	2.0	64	90	0	202	19	20	27	32	1.97
40373470--40373501	8	4.0	8	91	0	55	46	25	25	3	1.67
40373745--40373812	28	2.4	28	92	0	109	33	27	7	30	1.84
40373918--40374007	28	3.2	26	80	10	99	20	23	24	32	1.98
40373918--40374007	27	3.2	28	81	7	112	20	23	24	32	1.98
40376220--40376395	48	3.7	48	90	1	257	35	27	17	18	1.94
40380556--40380668	42	2.7	43	80	2	129	25	14	25	34	1.94
40389585--40389641	18	3.2	18	85	9	89	22	19	17	40	1.91
40389632--40389719	34	2.6	34	83	0	104	29	18	21	30	1.97
40395142--40395173	8	4.0	8	91	0	55	46	25	25	3	1.67
40395417--40395484	28	2.4	28	92	0	109	33	27	7	30	1.84
40395590--40395679	28	3.2	26	80	10	99	20	23	24	32	1.98
40395590--40395679	27	3.2	28	81	7	112	20	23	24	32	1.98
40397892--40398787	48	18.7	48	98	0	1679	35	28	18	17	1.93
40402948--40403060	42	2.7	43	80	2	129	25	14	25	34	1.94
40413255--40413366	57	2.0	55	96	3	206	50	10	21	17	1.77
40415063--40415240	27	6.6	27	82	3	196	27	15	27	29	1.96
40415064--40415219	82	1.9	81	86	3	224	27	15	27	29	1.96
40415060--40415240	82	2.2	81	82	2	220	27	15	27	29	1.96
40423485--40423662	40	4.5	40	87	2	252	24	22	26	25	2.00
40433709--40433803	43	2.2	43	81	3	111	35	25	11	27	1.90
40446114--40446233	56	2.1	56	98	0	231	45	9	23	22	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40447363--40447587	40	5.6	39	82	7	231	24	20	27	27	1.99
40457505--40457687	79	2.3	80	83	7	221	24	27	22	24	2.00
40457503--40457687	40	4.7	40	82	7	225	24	28	22	24	2.00
40471910--40471967	30	1.9	30	82	6	73	18	27	31	22	1.97
40479962--40479991	16	1.9	15	93	6	51	33	23	0	43	1.54
40480197--40480372	51	3.5	49	77	3	181	30	26	17	25	1.97
40480178--40480327	49	3.0	50	78	2	167	30	25	20	24	1.99
40480197--40480382	50	3.7	50	77	5	187	30	26	17	25	1.97
40483394--40483453	15	4.0	15	80	0	66	56	13	16	13	1.67
40483395--40483453	30	2.0	30	82	0	73	55	13	16	13	1.68
40487349--40487491	56	2.6	56	94	0	250	23	19	28	27	1.98
40487397--40487561	56	3.0	54	84	3	177	20	16	32	30	1.95
40490821--40491109	50	5.7	50	77	2	265	31	26	16	25	1.96
40490821--40491065	101	2.5	100	85	1	312	29	26	17	26	1.98
40491845--40491937	33	2.8	33	81	0	96	27	16	25	30	1.96
40496127--40496208	39	2.1	39	93	0	137	34	6	18	41	1.75
40497711--40497795	26	3.4	24	75	10	73	24	20	16	38	1.92
40502354--40502585	39	6.0	39	90	1	358	24	28	24	21	1.99
40502354--40502585	116	2.0	117	89	0	358	24	28	24	21	1.99
40502354--40502585	77	3.0	78	89	2	351	24	28	24	21	1.99
40506205--40506256	27	2.0	26	84	3	68	17	26	21	34	1.95
40507518--40507814	149	2.0	149	97	0	567	34	22	11	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40507938--40508122	79	2.3	82	84	7	238	24	27	23	24	2.00
40507938--40508122	40	4.7	39	83	9	223	24	27	23	24	2.00
40509710--40510589	293	3.0	293	99	0	1744	23	19	20	36	1.95
40512200--40512431	27	8.8	27	75	10	140	30	27	14	27	1.95
40512189--40512281	47	2.0	47	95	0	168	30	30	13	25	1.94
40512267--40512423	82	1.9	81	87	3	226	29	28	14	27	1.95
40519693--40519870	27	6.6	27	84	3	205	29	28	15	26	1.96
40519714--40519869	82	1.9	81	88	3	233	29	28	15	26	1.96
40524742--40524792	26	2.0	26	88	0	75	23	29	17	29	1.97
40533786--40534055	48	5.6	47	79	3	261	26	18	30	24	1.98
40534825--40534854	15	2.0	15	100	0	60	20	0	20	60	1.37
40537499--40537592	40	2.3	40	90	0	143	20	18	29	31	1.96
40537598--40537691	28	3.4	28	77	11	111	27	10	30	30	1.90
40537579--40537686	56	1.9	56	92	0	180	26	12	31	29	1.92
40550986--40551147	45	3.6	45	85	3	204	27	27	21	23	1.99
40554947--40555027	27	3.0	27	77	0	81	38	18	17	25	1.92
40565007--40565040	16	2.2	15	89	5	50	58	11	0	29	1.33
40568440--40568591	27	5.6	27	93	3	241	30	28	13	26	1.94
40568440--40568591	55	2.8	55	94	0	259	30	28	13	26	1.94
40572548--40572605	28	2.2	26	84	6	71	43	1	3	51	1.28
40579416--40579498	26	3.2	26	82	5	87	36	21	10	31	1.88
40579452--40579512	27	2.3	27	85	0	77	40	18	14	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40579932--40580094	43	3.8	41	78	4	137	27	16	24	31	1.96
40579940--40580062	42	2.8	45	80	8	137	26	17	24	32	1.96
40579983--40580081	42	2.3	43	77	6	103	27	18	23	31	1.97
40580947--40581005	26	2.4	25	78	16	70	32	5	23	38	1.77
40585117--40585179	33	1.9	33	90	0	99	26	26	20	25	1.99
40590111--40590535	48	8.9	47	73	9	317	26	29	17	27	1.97
40590109--40590526	96	4.4	96	86	3	531	26	28	17	27	1.98
40607797--40607973	55	3.2	55	87	0	237	31	29	12	25	1.93
40607797--40607948	27	5.6	27	91	3	223	30	29	13	26	1.94
40610946--40611373	48	8.9	48	75	10	320	25	27	17	29	1.98

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