genome.fa.s3.2.7.7.80.10.50.1000.122.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: A03
Parameters: 2 7 7 80 10 50 1000
Length:  108673976

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   323   324   325   326   327   328   329   330   331   332   333   

This is table  122  of  333  ( 39894 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)
39441660--39441726	10	6.9	10	78	13	68	17	4	2	74	1.11
39441660--39441726	9	7.0	9	78	11	71	17	4	2	74	1.11
39441660--39441726	19	3.5	19	80	11	82	17	4	2	74	1.11
39442839--39442962	67	1.9	65	80	12	148	41	14	8	35	1.75
39455048--39455102	24	2.3	24	90	0	83	38	23	9	29	1.85
39457169--39457226	20	2.9	19	76	19	55	43	15	17	24	1.87
39471048--39471127	27	3.0	27	80	10	92	33	16	21	28	1.95
39471137--39471201	27	2.4	27	78	0	67	40	16	23	20	1.92
39477795--39477837	6	7.2	6	91	0	68	18	2	0	79	0.85
39478584--39478641	20	3.0	20	87	7	66	39	3	20	36	1.70
39478596--39478641	20	2.3	20	96	0	83	36	2	21	39	1.66
39478630--39478703	20	3.7	19	83	7	76	36	10	14	37	1.82
39478622--39478711	40	2.2	39	79	13	94	38	8	16	35	1.80
39482241--39482319	37	2.1	37	88	4	115	25	29	18	26	1.98
39482438--39482958	47	11.1	47	94	0	880	28	30	8	31	1.87
39491989--39492013	11	2.3	11	100	0	50	8	28	0	64	1.22
39493958--39493985	10	2.8	10	100	0	56	10	10	7	71	1.31
39494642--39494733	44	2.1	44	86	8	125	19	22	25	32	1.97
39495012--39495106	21	4.5	22	84	7	108	14	21	26	37	1.92
39495975--39496044	22	3.2	22	76	8	79	20	22	17	40	1.92
39497959--39497983	11	2.3	11	100	0	50	8	28	0	64	1.22
39499237--39499288	25	2.1	25	85	0	68	36	9	15	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39501767--39501813	24	2.0	24	84	16	62	31	0	14	53	1.42
39501973--39502108	40	3.5	39	77	10	152	26	18	25	30	1.98
39507975--39508073	48	2.1	48	98	0	189	42	18	9	30	1.81
39512025--39512073	18	2.6	19	83	3	73	51	24	0	24	1.49
39518176--39518221	24	1.9	24	95	0	83	50	13	10	26	1.74
39519431--39519483	27	2.0	27	100	0	106	26	15	16	41	1.88
39531250--39531419	61	2.9	61	76	13	174	52	2	3	41	1.31
39531287--39531410	55	2.2	57	81	5	164	53	2	2	41	1.27
39534587--39534613	14	1.9	14	100	0	54	37	0	37	25	1.57
39539297--39539355	20	3.0	20	69	11	52	49	3	1	45	1.28
39543155--39543219	21	3.2	21	72	12	73	41	21	24	12	1.87
39543137--39543237	39	2.6	39	93	0	166	40	23	22	12	1.89
39546551--39546668	31	3.8	31	87	0	173	27	28	17	25	1.98
39546551--39546668	62	1.9	62	91	0	191	27	28	17	25	1.98
39546644--39546772	50	2.5	51	86	2	179	24	20	17	37	1.94
39548025--39548125	39	2.6	39	90	0	148	39	22	23	13	1.90
39554825--39554997	93	1.9	93	96	0	319	27	31	21	20	1.98
39554819--39554993	46	3.8	46	80	10	212	28	30	21	20	1.98
39554826--39555012	46	4.0	46	75	14	170	28	29	20	20	1.98
39557135--39557175	18	2.3	18	100	0	82	26	17	17	39	1.91
39562350--39562850	28	17.6	28	66	15	172	26	21	16	35	1.95
39562340--39562850	57	9.0	57	82	1	535	26	22	16	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39562340--39562850	171	3.0	170	82	2	621	26	22	16	35	1.95
39562970--39563072	53	1.9	53	92	3	172	26	24	15	33	1.95
39564616--39564676	20	3.3	18	74	17	54	40	3	6	49	1.45
39564846--39564879	5	6.8	5	96	0	50	61	5	0	32	1.20
39579873--39579906	17	2.0	17	88	0	50	64	2	8	23	1.36
39582102--39582313	43	4.9	44	85	3	254	29	12	24	33	1.92
39585164--39585330	35	4.6	35	81	8	165	31	11	23	33	1.90
39585164--39585334	75	2.4	75	82	7	203	32	11	22	33	1.90
39592653--39592819	35	4.6	35	83	8	192	31	11	23	33	1.90
39592653--39592823	75	2.4	75	84	7	212	31	11	23	33	1.91
39597710--39597739	12	2.5	12	94	0	51	36	10	0	53	1.35
39600532--39600598	28	2.4	28	77	7	73	44	23	11	19	1.84
39601706--39601745	19	2.0	20	85	4	55	45	0	27	27	1.54
39604626--39604655	11	2.9	10	90	9	51	10	6	13	70	1.34
39606755--39606831	38	2.0	38	89	0	118	31	15	24	28	1.96
39615516--39615560	17	2.6	17	96	0	81	26	15	11	46	1.79
39616906--39616961	22	2.5	22	85	5	78	21	25	17	35	1.95
39617559--39617657	43	2.3	43	87	0	144	27	31	21	20	1.98
39617855--39617901	19	2.5	19	76	10	51	72	4	2	21	1.12
39620227--39620436	40	5.3	39	89	4	242	25	21	27	25	1.99
39620174--39620436	120	2.2	120	82	4	309	25	21	27	25	1.99
39620175--39620471	80	3.7	80	81	6	230	26	21	27	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39637266--39637299	16	2.1	16	89	10	52	35	0	5	58	1.22
39637772--39637849	13	5.8	13	72	13	68	39	1	23	35	1.63
39637744--39637848	41	2.6	41	87	0	147	42	1	20	34	1.63
39642391--39642541	38	4.2	38	83	14	178	25	21	29	24	1.99
39647737--39647837	41	2.4	41	87	11	152	21	31	20	25	1.98
39651191--39651215	3	8.3	3	100	0	50	32	36	0	32	1.58
39654179--39654243	3	22.0	3	74	14	55	61	4	4	29	1.36
39655920--39656167	89	2.8	90	75	11	276	29	19	18	32	1.96
39655992--39656566	45	12.9	42	71	13	298	28	20	18	33	1.96
39655902--39656469	89	6.4	84	70	14	267	27	20	18	33	1.96
39655902--39656252	178	2.0	178	87	2	508	28	20	17	33	1.96
39656087--39656430	135	2.5	135	90	1	528	27	20	19	32	1.97
39656261--39656565	94	3.3	94	76	9	351	27	20	18	32	1.97
39656221--39656564	179	1.9	179	90	0	553	27	21	19	31	1.98
39656587--39657529	68	13.9	68	90	1	1354	28	23	22	25	2.00
39665033--39665169	63	2.1	65	95	2	251	66	3	9	20	1.36
39665060--39665165	33	3.3	33	67	21	98	66	3	8	21	1.35
39665304--39665365	3	21.0	3	75	18	51	62	3	4	29	1.31
39665316--39665365	21	2.4	21	83	12	59	64	4	4	28	1.30
39667374--39667423	3	16.7	3	100	0	100	32	0	0	68	0.90
39668418--39668457	15	2.8	14	81	7	53	50	27	2	20	1.61
39668580--39668636	14	3.8	15	74	6	53	15	0	31	52	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39668588--39668678	37	2.4	39	88	5	141	19	0	30	49	1.49
39668718--39668891	41	4.3	40	92	2	267	18	20	23	37	1.94
39668697--39668891	81	2.4	82	86	7	272	17	20	23	38	1.93
39674907--39675178	56	4.9	56	72	1	204	36	24	14	24	1.93
39674938--39675173	84	2.8	84	80	1	231	36	24	15	23	1.93
39674913--39675182	28	9.6	29	74	6	166	35	24	14	25	1.93
39675300--39675447	53	2.8	53	78	0	152	31	24	10	34	1.88
39678101--39678152	25	2.1	24	89	3	77	15	23	21	40	1.91
39681932--39682060	54	2.4	54	82	7	147	37	3	3	55	1.37
39682409--39682449	19	2.2	19	95	0	73	36	19	19	24	1.95
39690047--39690093	23	2.0	23	100	0	94	12	12	21	53	1.72
39691016--39691160	43	3.3	44	85	3	179	31	27	15	24	1.96
39695860--39695903	18	2.3	19	84	7	63	20	0	2	77	0.88
39695858--39695898	12	3.4	12	87	9	57	19	0	2	78	0.87
39696730--39696770	14	2.9	14	85	3	55	19	0	29	51	1.47
39696731--39696847	54	2.2	53	81	6	137	22	0	28	49	1.50
39696731--39696833	54	1.9	54	84	5	138	23	0	26	50	1.49
39696863--39697006	41	3.5	40	92	2	227	22	23	22	31	1.99
39698607--39698666	29	2.1	29	81	12	70	51	8	8	31	1.62
39711209--39711301	18	5.2	18	88	0	141	31	15	24	29	1.95
39711209--39711301	36	2.6	36	92	0	159	31	15	24	29	1.95
39713414--39713449	19	1.9	18	88	5	54	80	0	0	19	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39713483--39713533	22	2.4	22	78	21	63	58	0	3	37	1.16
39714317--39714370	26	2.1	26	92	0	90	46	27	11	14	1.79
39724842--39724957	51	2.3	49	80	11	121	29	13	18	37	1.90
39724942--39725037	50	1.9	50	85	4	131	34	16	14	34	1.90
39725032--39725099	19	3.3	20	85	8	75	25	23	16	35	1.95
39725049--39725116	19	3.5	19	81	2	73	25	25	14	35	1.94
39726301--39726480	88	2.0	88	97	0	342	40	19	8	32	1.81
39728549--39728579	14	2.2	14	94	0	53	61	6	6	25	1.45
39728807--39728862	19	3.3	19	63	31	54	32	17	10	39	1.84
39728808--39728872	31	2.1	31	97	0	121	32	18	12	36	1.88

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   323   324   325   326   327   328   329   330   331   332   333