genome.fa.s12.2.7.7.80.10.50.1000.167.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: A12
Parameters: 2 7 7 80 10 50 1000
Length:  103038859

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   

This is table  167  of  320  ( 38372 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)
55237851--55238054	107	1.9	105	81	5	241	25	20	28	25	1.99
55239307--55239346	21	2.0	21	85	5	55	20	40	20	20	1.92
55243342--55243566	40	5.6	40	83	2	263	23	27	24	25	2.00
55243306--55243566	80	3.3	79	80	5	267	24	26	23	26	2.00
55251429--55251646	38	5.6	40	79	10	211	24	26	23	25	2.00
55251429--55251646	77	2.8	80	79	10	236	24	26	23	25	2.00
55264628--55264676	18	2.8	18	96	3	91	18	22	42	16	1.88
55264782--55264882	27	3.7	27	89	2	150	31	17	15	34	1.92
55264899--55264965	27	2.5	27	97	0	125	35	16	22	25	1.94
55264795--55264909	54	2.1	54	82	6	135	35	17	14	32	1.90
55269336--55269362	10	2.7	10	100	0	54	29	37	0	33	1.58
55269869--55269908	20	2.0	20	85	9	55	37	7	17	37	1.78
55271622--55271908	143	2.0	143	100	0	574	34	14	9	40	1.79
55278101--55278131	15	2.1	15	100	0	62	38	12	6	41	1.69
55280279--55280335	29	2.0	29	96	0	105	28	29	15	26	1.96
55280398--55280431	18	1.9	18	88	5	52	14	38	26	20	1.91
55287633--55287708	29	2.6	28	87	2	98	28	28	15	26	1.96
55287644--55287708	29	2.2	29	91	0	112	30	27	15	26	1.96
55290782--55290927	72	2.0	72	83	0	184	25	21	32	21	1.98
55296584--55296949	47	7.7	47	96	0	633	31	8	29	30	1.87
55297067--55297145	37	2.1	37	90	0	122	24	18	31	25	1.98
55299067--55299106	20	2.0	20	100	0	80	25	15	35	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55299024--55299149	63	2.0	63	100	0	252	23	14	34	26	1.93
55299087--55299176	43	2.1	43	100	0	180	22	14	36	26	1.92
55299158--55299231	29	2.6	29	84	4	96	25	17	32	24	1.97
55299543--55299898	40	8.9	40	83	2	369	24	22	27	25	2.00
55303409--55303727	47	6.7	47	97	1	557	31	9	30	29	1.88
55303845--55303923	37	2.1	37	90	0	122	24	18	31	25	1.98
55310806--55311111	40	7.7	40	95	0	551	22	27	19	30	1.98
55316015--55316087	28	2.6	28	82	6	94	23	13	32	30	1.93
55316377--55316451	27	2.8	27	80	8	89	38	25	10	25	1.88
55319239--55319263	13	1.9	13	100	0	50	52	0	8	40	1.31
55319371--55319407	18	2.1	18	100	0	74	32	10	10	45	1.74
55325061--55325188	45	2.8	45	81	6	161	34	17	22	25	1.96
55325063--55325213	23	6.7	22	75	11	128	34	17	21	25	1.96
55325063--55325214	45	3.4	44	81	8	157	34	17	21	26	1.96
55325055--55325213	68	2.3	68	80	4	185	33	17	22	25	1.96
55334690--55334814	36	3.4	36	74	19	100	42	2	3	52	1.30
55334749--55334816	5	11.7	6	71	22	56	44	1	2	51	1.25
55334690--55334816	11	11.6	11	68	24	58	41	2	3	52	1.30
55337519--55337697	49	3.6	49	90	0	259	30	29	16	23	1.96
55337519--55337697	99	1.8	98	87	1	268	30	29	16	23	1.96
55348729--55348841	32	3.5	32	79	6	111	44	11	8	35	1.72
55350253--55350312	11	5.7	10	75	21	52	76	1	16	5	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55350253--55350312	5	11.4	5	78	16	52	76	1	16	5	1.04
55350262--55350312	21	2.4	22	81	15	54	76	1	15	5	1.07
55350253--55350311	31	1.9	30	83	13	75	76	1	16	5	1.05
55350363--55350393	12	2.6	12	100	0	62	45	12	16	25	1.83
55350396--55350420	12	2.1	12	100	0	50	76	0	16	8	1.02
55350390--55350432	18	2.3	18	84	4	50	69	2	18	9	1.26
55350396--55350477	30	2.7	31	81	5	105	65	1	20	12	1.32
55352711--55352807	30	3.2	30	77	2	106	28	26	15	28	1.96
55364274--55364358	41	2.1	41	100	0	170	52	2	2	42	1.27
55365034--55365064	16	1.9	16	93	0	53	58	0	0	41	0.98
55365036--55365110	26	2.9	26	74	9	73	54	1	0	44	1.08
55366166--55366254	41	2.1	42	83	2	108	65	8	2	23	1.33
55366233--55366287	20	2.8	20	75	8	58	61	0	3	34	1.13
55366234--55366305	29	2.5	29	80	11	76	62	0	2	34	1.10
55366264--55366305	6	7.2	6	86	5	50	66	0	0	33	0.92
55366269--55366303	17	2.1	16	89	5	52	65	0	0	34	0.93
55366264--55366309	23	2.0	23	86	0	65	67	0	0	32	0.91
55368075--55368117	13	3.2	13	75	18	52	46	0	0	53	1.00
55369646--55369692	19	2.3	20	82	10	60	36	0	14	48	1.44
55370045--55370384	50	6.7	51	73	9	277	27	17	25	30	1.97
55370039--55370329	151	1.9	151	91	0	474	26	16	25	31	1.97
55370192--55370373	101	1.8	101	93	0	319	28	18	23	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55370046--55370384	151	2.2	151	86	0	462	27	17	24	30	1.97
55370584--55370615	16	2.0	16	93	0	55	46	0	18	34	1.49
55377451--55377591	75	1.9	75	83	2	185	44	10	14	30	1.79
55379334--55379381	24	2.0	25	87	4	71	22	22	16	37	1.94
55381174--55381242	25	2.8	25	84	0	75	13	21	21	43	1.86
55381197--55381245	25	2.0	25	91	0	80	12	22	22	42	1.86
55387123--55387180	23	2.5	23	75	8	64	70	0	6	22	1.10
55387343--55387639	3	100.0	3	65	20	74	62	3	8	25	1.39
55387570--55387633	23	2.9	23	79	6	71	65	0	6	28	1.16
55387343--55387639	17	17.0	17	64	19	78	62	3	8	25	1.39
55387596--55387642	20	2.3	20	85	7	60	72	0	4	23	1.02
55388018--55388070	25	2.1	26	86	6	74	13	18	9	58	1.61
55388160--55388206	24	2.0	24	95	0	85	25	4	44	25	1.72
55389462--55389524	31	2.0	32	84	9	85	30	6	4	58	1.43
55392958--55393013	25	2.2	26	81	15	64	32	8	7	51	1.60
55393196--55393342	3	49.7	3	73	11	72	26	6	4	62	1.38
55393416--55393454	17	2.2	17	86	9	51	17	15	5	61	1.51
55393810--55393835	4	6.5	4	100	0	52	26	0	0	73	0.84
55399542--55399585	15	2.9	15	83	13	54	38	9	0	52	1.33
55401026--55401074	20	2.5	20	87	12	66	34	0	8	57	1.29
55412931--55412966	18	2.0	18	100	0	72	16	22	33	27	1.95
55421982--55422127	42	3.5	42	80	2	168	30	23	15	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55424562--55424731	88	1.9	88	90	2	270	20	27	11	40	1.87
55424550--55424743	29	6.7	29	88	2	248	20	25	12	41	1.88
55428100--55428190	22	4.0	22	79	12	94	37	20	20	20	1.95
55428072--55428208	24	5.7	24	75	13	104	34	21	21	22	1.97
55429834--55429866	12	2.6	13	90	9	59	75	15	0	9	1.03
55444756--55444809	27	2.0	27	96	0	99	33	24	18	24	1.97
55454107--55454225	29	4.0	30	71	4	96	41	17	15	26	1.89
55459049--55459084	18	2.0	18	94	0	63	41	16	16	25	1.89
55466897--55466975	36	2.2	35	84	6	97	29	17	22	30	1.97
55466926--55466975	17	2.8	18	71	17	50	30	18	22	30	1.97
55467106--55467158	15	3.5	15	79	5	63	24	24	30	20	1.99
55468565--55468618	24	2.3	23	84	15	67	31	3	0	64	1.11
55471424--55471532	24	4.4	23	73	10	74	34	22	25	17	1.95
55471426--55471666	25	9.7	24	70	18	97	36	21	22	19	1.95
55471426--55471532	49	2.2	49	83	8	128	35	22	25	16	1.95
55471452--55471633	74	2.5	73	77	10	181	36	21	22	19	1.95
55471587--55471644	26	2.2	26	81	6	73	36	22	20	20	1.95
55475901--55475939	21	1.9	20	84	5	51	56	0	12	30	1.37
55476239--55476309	8	9.1	8	84	3	92	57	0	0	42	0.98
55476494--55476573	39	2.1	39	100	0	160	43	5	12	38	1.64
55482294--55482374	40	2.0	40	95	0	144	29	7	35	27	1.84
55485994--55486075	27	3.1	27	82	1	76	18	36	20	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55486011--55486063	27	2.0	27	96	0	97	15	32	22	30	1.94
55486016--55486075	27	2.2	27	84	0	84	18	35	18	28	1.94
55487823--55487884	30	2.1	30	96	0	115	40	20	9	29	1.84
55493425--55493454	15	2.0	15	93	0	51	16	3	0	80	0.85
55502254--55502329	27	2.8	27	81	0	80	43	19	15	21	1.88
55502367--55502424	22	2.6	22	100	0	116	29	15	25	29	1.96
55502367--55502437	22	3.5	20	92	7	92	28	16	28	26	1.97
55502761--55503055	27	11.0	26	81	5	261	32	6	19	41	1.78
55502764--55503055	54	5.4	52	81	8	302	32	6	19	41	1.78
55502766--55503055	81	3.6	79	78	8	289	32	6	19	41	1.78

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