genome.fa.s7.2.7.7.80.10.50.1000.181.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  181  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)
61898862--61898926	33	2.0	33	96	0	121	41	10	27	20	1.85
61918606--61918815	40	5.3	39	89	4	242	25	21	27	25	1.99
61918553--61918815	120	2.2	120	82	4	309	25	21	27	25	1.99
61918554--61918850	80	3.7	80	81	6	230	26	21	27	24	1.99
61924412--61924713	27	11.3	27	78	5	244	39	21	9	29	1.85
61924475--61924711	81	3.0	80	81	3	271	39	21	8	29	1.84
61924426--61924766	27	12.7	27	72	11	91	39	21	9	29	1.85
61924753--61924839	27	3.2	27	81	0	102	33	20	22	22	1.97
61925462--61925602	71	2.1	66	85	6	183	19	27	21	31	1.98
61925570--61925628	27	2.2	26	84	3	73	22	23	18	35	1.96
61948287--61948440	46	3.4	43	78	15	152	26	31	18	23	1.98
61948322--61948542	46	4.8	45	75	11	184	23	29	19	27	1.98
61951313--61951369	30	1.9	30	85	7	80	24	26	5	43	1.75
61952657--61952785	44	3.0	43	81	3	170	34	24	16	25	1.95
61953843--61953867	13	1.9	13	100	0	50	48	20	0	32	1.50
61960845--61960954	44	2.6	43	82	7	143	33	27	14	24	1.94
61962260--61962326	29	2.3	30	84	7	84	47	0	22	29	1.51
61966688--61966712	10	2.5	10	100	0	50	44	0	20	36	1.52
61967751--61967810	27	2.2	27	90	0	93	23	23	21	31	1.98
61974118--61974148	14	2.2	14	94	0	53	32	0	6	61	1.21
61980501--61980766	46	5.7	47	77	16	259	26	21	29	22	1.99
61980502--61980765	94	2.8	94	88	5	367	26	21	29	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61980552--61980817	46	5.7	45	75	15	202	27	20	28	22	1.99
61980552--61980813	140	1.9	141	82	7	336	27	20	29	22	1.98
61992300--61992449	47	3.3	48	75	18	165	26	20	29	24	1.99
61992300--61992493	90	2.1	93	88	5	288	27	19	29	24	1.98
61992329--61992493	47	3.6	45	76	18	155	26	18	30	23	1.98
61995695--61995828	40	3.3	40	87	0	160	32	25	17	24	1.96
62000217--62000334	46	2.6	46	97	0	218	30	27	19	22	1.98
62009313--62009490	27	6.6	26	83	6	178	26	15	28	29	1.96
62009314--62009469	82	1.9	81	88	3	233	26	15	28	29	1.96
62009310--62009490	82	2.2	81	83	2	229	26	15	28	29	1.96
62010936--62010978	21	2.0	21	95	0	77	11	18	34	34	1.87
62013494--62013606	42	2.7	43	84	4	149	32	15	24	26	1.96
62014288--62014339	26	2.1	26	83	16	67	46	0	23	30	1.53
62016215--62016349	40	3.4	40	87	2	146	33	26	17	22	1.96
62019319--62019447	51	2.5	51	93	0	213	20	21	30	27	1.98
62027152--62027239	29	3.1	29	95	1	151	29	13	26	30	1.94
62034180--62034252	29	2.5	28	84	10	94	27	13	30	28	1.94
62034210--62034571	174	2.1	174	97	0	688	29	14	25	30	1.95
62034409--62034682	145	1.9	145	93	0	476	29	15	23	31	1.95
62042122--62042154	13	2.4	14	90	5	50	63	12	0	24	1.28
62046491--62046775	47	6.1	47	89	0	410	32	9	30	27	1.88
62046894--62046972	37	2.1	37	90	0	122	24	18	31	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62049172--62049359	56	3.4	56	88	2	281	34	25	13	26	1.94
62049366--62049454	43	2.1	41	87	4	124	30	24	17	26	1.98
62049377--62049491	41	2.7	43	80	8	119	32	24	16	26	1.96
62050607--62050653	15	3.2	15	81	6	51	63	14	0	21	1.30
62058124--62058190	34	2.0	34	88	5	100	25	20	23	29	1.99
62058397--62058440	19	2.5	17	82	13	54	20	2	13	63	1.40
62065142--62065259	48	2.5	48	95	0	209	33	3	30	32	1.74
62065400--62065502	37	2.8	37	95	0	179	23	19	32	25	1.98
62071479--62071673	40	4.9	40	90	0	300	34	28	18	17	1.94
62071457--62071673	80	2.7	80	89	0	308	33	28	19	18	1.96
62075512--62075575	26	2.4	26	78	14	69	48	17	7	26	1.74
62076182--62076268	33	2.6	33	88	0	120	33	20	20	25	1.97
62080409--62080462	27	2.0	27	85	0	72	38	7	14	38	1.75
62080696--62080882	49	3.8	48	77	9	173	27	16	27	29	1.97
62080688--62080871	99	1.9	99	89	2	289	26	15	28	29	1.96
62084841--62084898	21	2.7	21	86	2	80	34	5	36	24	1.78
62088243--62088281	16	2.5	15	83	8	51	43	0	2	53	1.14
62101305--62101474	40	4.3	40	87	3	218	23	21	28	26	1.99
62101252--62101476	80	2.8	79	81	4	247	24	21	28	26	1.99
62101327--62101509	79	2.3	80	83	1	226	25	21	27	25	1.99
62103662--62103858	44	4.5	44	81	8	217	30	25	18	24	1.98
62111738--62111883	41	3.6	41	83	1	204	19	23	28	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62113697--62113805	43	2.6	43	84	7	134	26	20	23	29	1.99
62114741--62114808	28	2.4	28	90	4	102	26	17	27	27	1.98
62116926--62117054	66	2.0	66	81	3	152	49	13	17	19	1.79
62126370--62126443	29	2.6	29	86	4	96	25	31	16	27	1.96
62129181--62129238	27	2.2	27	81	9	66	43	3	0	53	1.17
62133223--62133266	18	2.4	18	96	0	79	40	11	25	22	1.87
62136827--62137022	43	4.6	43	84	6	211	31	27	15	25	1.96
62136819--62137022	86	2.4	86	85	3	268	31	27	15	25	1.95
62140483--62140614	23	5.8	24	74	16	86	25	21	16	35	1.95
62140597--62140646	26	2.0	25	88	4	73	30	22	20	28	1.98
62140787--62140845	20	3.0	20	74	18	59	33	10	11	44	1.75
62144404--62144442	20	2.0	20	89	0	60	48	2	12	35	1.55
62145681--62145715	16	2.2	16	89	0	52	57	22	5	14	1.59
62151320--62151361	19	2.3	19	87	4	59	26	16	38	19	1.92
62151443--62151513	29	2.5	28	84	6	81	25	18	30	25	1.98
62160506--62160591	31	2.8	31	87	1	129	23	24	18	33	1.97
62160809--62160878	25	2.8	25	95	0	122	27	22	25	24	2.00
62160926--62160974	11	4.7	11	75	12	50	30	20	12	36	1.89
62162943--62163049	24	4.4	24	92	1	178	35	5	38	20	1.76
62164623--62164703	33	2.4	34	77	8	94	28	18	23	29	1.98
62164623--62164716	32	2.9	30	73	12	71	26	20	25	27	1.99
62166695--62166878	79	2.3	81	82	11	222	25	27	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62166695--62166878	40	4.6	41	83	12	199	25	27	22	25	2.00
62169064--62169091	3	9.3	3	100	0	56	64	0	0	35	0.94
62173820--62173887	29	2.3	29	82	5	84	27	29	13	29	1.94
62173709--62174036	174	1.9	174	96	0	611	31	25	14	29	1.94
62173996--62174067	29	2.5	29	81	0	90	30	30	12	26	1.93
62179260--62179322	32	2.0	33	87	6	94	42	28	15	12	1.84
62180105--62180231	27	4.7	27	76	5	132	25	24	20	29	1.99
62180113--62180231	53	2.2	54	83	4	152	25	22	21	30	1.99
62180221--62180324	27	3.9	27	81	5	120	33	10	18	37	1.85
62180221--62180324	54	1.9	54	84	0	136	33	10	18	37	1.85
62181993--62182115	61	2.0	61	96	0	228	41	19	9	29	1.83
62184201--62184265	26	2.5	26	82	2	87	32	23	13	30	1.93
62184270--62184359	27	3.4	26	73	8	83	25	22	18	33	1.97
62184261--62184328	27	2.5	27	78	0	82	27	26	17	27	1.98
62184353--62184482	54	2.4	54	82	5	147	35	11	15	37	1.84
62184353--62184487	27	5.0	27	78	3	119	34	11	17	36	1.87
62192415--62192445	14	2.2	14	100	0	62	19	25	12	41	1.87
62194300--62194711	205	2.0	205	97	0	772	32	25	12	28	1.93
62198510--62198695	50	3.7	50	78	1	201	26	18	23	31	1.98
62201639--62201722	25	3.4	25	93	1	134	28	11	11	47	1.76
62201639--62201737	25	4.0	25	92	1	119	27	15	10	47	1.77
62202565--62202739	45	4.0	45	86	5	225	22	22	26	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62202826--62203428	300	2.0	300	99	0	1188	34	10	19	35	1.85
62209521--62209678	25	6.4	25	88	0	237	29	12	10	47	1.74
62209521--62209677	75	2.1	74	92	3	262	29	12	10	47	1.75
62210517--62210649	45	3.0	45	88	0	203	23	20	25	30	1.98
62210517--62210677	45	3.6	44	84	8	184	22	20	26	30	1.98
62231306--62231338	17	1.9	17	100	0	66	6	24	0	69	1.10
62232419--62232506	28	3.2	28	83	3	117	17	25	21	36	1.94
62239219--62239251	17	1.9	17	100	0	66	6	24	0	69	1.10
62240169--62240226	26	2.2	27	78	12	66	34	27	12	25	1.91
62245854--62245890	14	2.6	14	91	0	56	29	8	32	29	1.86

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