genome.fa.s25.2.7.7.80.10.50.1000.155.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  155  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)
52961476--52961501	6	4.3	6	100	0	52	19	0	0	80	0.71
52962325--52962352	11	2.5	11	100	0	56	21	14	35	28	1.92
52965290--52965329	8	4.8	8	82	11	53	87	2	0	10	0.63
52965292--52965330	13	3.0	13	82	10	53	84	2	0	12	0.72
52965914--52965968	13	4.5	13	77	13	71	40	0	10	49	1.38
52965928--52965980	23	2.3	23	86	3	70	45	0	11	43	1.40
52970342--52970412	36	2.0	36	100	0	142	50	5	9	33	1.59
52973788--52973893	53	2.0	53	96	0	194	39	16	9	34	1.80
52978746--52978787	14	2.9	14	89	3	57	47	0	4	47	1.23
52979381--52979563	34	5.4	34	71	7	158	46	18	8	27	1.77
52979414--52979592	33	5.4	33	70	7	155	44	17	8	29	1.78
52979381--52979592	67	3.2	67	98	0	406	45	18	8	28	1.77
52984465--52984506	21	2.0	20	86	4	57	66	0	4	28	1.12
52984479--52984516	15	2.5	15	87	8	51	73	0	0	26	0.83
52989726--52989751	12	2.2	12	100	0	52	7	15	30	46	1.74
52989832--52990038	41	5.1	41	82	2	265	35	23	21	19	1.96
52990531--52990588	14	4.1	14	75	4	55	18	0	46	34	1.50
52990746--52990772	14	1.9	14	100	0	54	22	0	33	44	1.53
52990795--52990837	15	3.0	15	80	10	54	20	0	32	46	1.51
52990790--52990832	22	2.0	22	81	9	52	23	0	30	46	1.52
52991422--52991477	7	7.2	8	82	8	55	73	1	0	25	0.93
52991432--52991464	7	4.7	7	96	0	57	84	0	0	15	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52993106--52993377	138	2.0	138	94	1	483	26	9	14	49	1.74
52994421--52994503	43	1.9	43	95	0	148	20	22	33	22	1.97
52996406--52996452	23	2.0	23	84	12	60	31	2	4	61	1.27
52996631--52996687	17	3.3	17	97	2	105	66	26	0	7	1.17
52996737--52996761	8	3.1	8	100	0	50	24	52	12	12	1.72
52997019--52997072	21	2.5	22	93	6	101	0	5	11	83	0.80
52999255--52999290	12	3.0	12	95	0	63	27	25	5	41	1.77
53007735--53007972	72	3.3	71	92	2	361	22	15	20	41	1.89
53008103--53008759	126	5.1	126	91	6	1055	24	16	21	36	1.94
53007963--53008759	392	2.0	394	94	1	1411	24	16	21	36	1.94
53008482--53008515	13	2.5	13	90	4	50	20	11	8	58	1.59
53008230--53008770	266	2.0	266	95	2	969	24	16	21	37	1.94
53008690--53008915	72	3.0	72	82	11	267	30	15	19	34	1.93
53008775--53008915	72	2.0	72	98	0	273	33	15	18	32	1.92
53008869--53008964	49	2.0	49	95	0	174	30	15	20	33	1.94
53008797--53009036	121	2.0	121	94	0	426	30	16	18	34	1.93
53009013--53010186	77	14.9	76	82	9	1175	28	17	20	34	1.95
53009013--53010186	154	7.4	154	85	8	1382	28	17	20	34	1.95
53008940--53010186	231	5.3	232	85	8	1422	28	17	19	34	1.95
53009824--53010028	79	2.6	77	83	4	250	32	17	19	31	1.95
53009983--53010144	88	1.8	88	85	2	227	26	16	20	37	1.93
53009581--53010399	253	3.3	243	83	8	937	28	16	19	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53011053--53011119	29	2.2	30	89	10	102	76	14	4	4	1.11
53011100--53011125	7	3.7	7	100	0	52	88	0	11	0	0.52
53013085--53013134	15	3.3	15	83	13	66	66	0	0	34	0.92
53012997--53013141	23	6.2	23	70	25	101	61	0	1	37	1.05
53013014--53013157	77	1.9	78	82	10	188	62	0	1	36	1.04
53013131--53013155	11	2.3	11	100	0	50	76	0	0	24	0.80
53012999--53013142	8	17.4	8	73	17	100	61	0	1	36	1.05
53012999--53013154	9	17.3	9	75	16	105	62	0	1	35	1.03
53022472--53022532	29	2.2	29	85	5	81	32	3	0	63	1.10
53022961--53022985	13	1.9	13	100	0	50	20	8	16	56	1.65
53028104--53028164	8	6.3	10	82	16	51	75	11	0	13	1.05
53028114--53028166	17	3.1	17	82	17	65	77	11	0	11	1.00
53028129--53028166	8	4.6	8	96	3	67	78	10	0	10	0.95
53028098--53028143	12	4.0	12	77	8	51	78	8	0	13	0.97
53029393--53029496	44	2.3	45	75	6	104	30	17	23	28	1.97
53029928--53030033	44	2.4	44	80	4	115	30	16	21	32	1.95
53029413--53030115	177	4.0	177	86	0	931	30	17	24	28	1.97
53031542--53031602	29	2.2	29	85	5	81	32	3	0	63	1.10
53031760--53031840	40	2.0	40	95	0	144	34	14	4	45	1.67
53037325--53037385	8	6.3	10	82	16	51	75	11	0	13	1.05
53037335--53037387	17	3.1	17	82	17	65	77	11	0	11	1.00
53037350--53037387	8	4.6	8	96	3	67	78	10	0	10	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53037319--53037364	12	4.0	12	77	8	51	78	8	0	13	0.97
53038614--53038717	44	2.3	45	75	6	104	30	17	23	28	1.97
53039149--53039254	44	2.4	44	80	4	115	30	16	21	32	1.95
53038634--53039336	177	4.0	177	86	0	931	30	17	24	28	1.97
53040966--53041000	15	2.3	15	85	0	52	40	2	0	57	1.14
53043382--53043551	25	6.9	24	71	14	116	34	7	4	53	1.50
53043427--53043688	26	10.0	26	69	16	123	34	5	5	54	1.47
53043610--53043649	21	2.0	21	90	5	64	35	10	2	52	1.48
53048624--53048677	22	2.4	23	81	6	74	24	22	3	50	1.65
53048656--53048680	4	6.2	4	100	0	50	24	24	0	52	1.48
53052093--53052278	50	3.7	50	88	0	273	20	30	22	26	1.98
53052373--53052403	13	2.4	13	94	0	53	54	12	0	32	1.38
53059585--53059974	73	5.1	75	80	11	416	29	15	20	34	1.93
53059754--53060017	73	3.5	75	84	4	316	30	14	19	35	1.92
53067149--53067222	16	4.6	15	72	20	51	62	5	4	28	1.36
53068114--53068155	22	1.9	22	85	0	57	59	9	7	23	1.53
53073253--53073311	29	2.0	29	90	0	91	37	11	6	44	1.68
53077293--53077326	14	2.4	14	95	5	59	32	0	0	67	0.91
53082637--53082702	13	5.1	13	81	0	78	34	22	9	33	1.86
53090320--53090351	16	2.0	16	100	0	64	18	0	12	68	1.20
53090730--53090811	36	2.3	36	82	4	94	25	7	21	45	1.78
53090732--53090811	18	4.4	18	76	6	81	26	7	21	45	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53091446--53091519	17	4.4	17	75	0	67	28	10	17	43	1.83
53091448--53091556	51	2.1	51	86	3	148	31	9	16	43	1.79
53093678--53093742	31	2.1	31	97	0	121	26	9	16	47	1.77
53100717--53100782	14	4.6	14	83	10	80	27	6	1	65	1.25
53100709--53100770	30	2.1	29	93	3	106	29	4	3	62	1.31
53100705--53100769	29	2.3	28	87	10	96	30	4	3	61	1.31
53100884--53100914	16	1.9	16	93	0	53	48	6	0	45	1.28
53111506--53111546	17	2.3	18	91	4	66	46	2	2	48	1.28
53112919--53112958	21	2.0	20	85	5	53	50	12	5	32	1.62
53116036--53116117	40	2.1	39	95	2	146	23	25	7	42	1.79
53120850--53120894	14	3.3	14	77	22	51	73	4	0	22	1.01
53120850--53120901	27	2.0	26	88	11	79	73	3	0	23	1.00
53120924--53120964	21	1.9	22	90	5	66	29	14	4	51	1.63
53123547--53123631	35	2.4	35	92	0	143	18	22	24	34	1.96
53128300--53128326	5	5.4	5	100	0	54	40	0	0	59	0.98
53133098--53133140	22	2.0	22	100	0	86	34	23	9	32	1.87
53136431--53136480	11	4.7	11	78	9	59	32	2	0	66	1.03
53140065--53140144	29	2.6	30	86	5	99	52	11	1	35	1.45
53142987--53143084	39	2.5	39	91	0	151	41	22	22	13	1.88
53146806--53146849	23	1.9	23	86	9	63	45	0	6	47	1.29
53150998--53151054	15	3.9	15	88	2	89	35	0	12	52	1.39
53151420--53151494	21	3.4	23	76	14	86	13	20	26	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53155125--53155172	23	2.1	22	84	3	60	58	4	4	33	1.36
53155217--53155289	36	2.0	38	89	7	116	58	2	0	38	1.12
53155235--53155275	14	2.9	14	88	3	55	60	2	0	36	1.10
53155222--53155282	18	3.3	19	79	9	72	59	3	0	37	1.14
53155220--53155286	13	5.6	12	76	18	68	58	2	0	38	1.14
53155430--53155467	16	2.4	17	82	13	53	65	0	2	31	1.06
53155439--53155470	16	2.0	16	100	0	64	62	0	6	31	1.20
53158226--53158273	6	7.8	6	90	2	60	64	0	18	16	1.29
53164987--53165064	30	2.5	31	83	10	97	41	0	5	53	1.23
53165857--53165882	13	2.0	13	100	0	52	15	0	0	84	0.62

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