genome.fa.s5.2.7.7.80.10.50.1000.109.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: A05
Parameters: 2 7 7 80 10 50 1000
Length:  100714657

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   

This is table  109  of  318  ( 38109 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)
35006456--35006979	134	3.9	134	93	1	865	29	22	19	28	1.98
35006930--35007125	44	4.5	44	73	5	162	32	25	16	26	1.96
35009869--35010052	62	3.0	62	93	1	298	33	4	19	41	1.73
35016824--35016852	14	2.0	15	93	6	51	48	6	13	31	1.69
35020487--35020551	30	2.1	30	83	13	80	63	7	1	27	1.31
35020526--35020559	11	3.0	11	83	8	50	70	5	0	23	1.09
35021745--35021811	27	2.4	27	95	5	116	44	2	38	13	1.59
35025376--35025426	21	2.4	21	90	6	77	27	1	29	41	1.67
35027424--35027455	10	3.3	10	95	4	57	62	0	6	31	1.20
35027451--35027513	27	2.3	26	76	10	63	50	11	0	38	1.38
35027480--35027509	15	2.0	15	93	0	51	40	10	0	50	1.36
35030828--35030931	42	2.5	42	80	0	109	43	18	25	13	1.86
35030853--35030905	21	2.5	21	78	0	61	37	20	28	13	1.90
35031055--35031095	19	2.2	19	95	0	73	31	12	7	48	1.68
35035628--35035669	22	1.9	22	85	0	57	2	14	2	80	0.90
35045240--35045299	3	21.0	3	76	10	63	65	0	35	0	0.93
35046335--35046394	15	4.2	14	74	17	61	71	3	1	23	1.10
35045888--35046396	149	3.3	149	85	4	678	58	6	7	27	1.50
35046335--35046396	13	4.5	13	72	21	54	70	3	1	24	1.10
35047479--35047514	18	2.1	17	89	5	54	30	0	0	69	0.89
35047481--35047556	20	3.9	19	73	13	57	32	2	0	64	1.07
35047542--35047622	40	2.0	40	82	0	99	24	2	8	64	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35048802--35048940	72	1.9	72	83	2	181	24	25	15	35	1.94
35049477--35049515	17	2.3	17	91	8	62	46	10	10	33	1.72
35052715--35052750	15	2.3	16	90	9	65	16	19	16	47	1.83
35053689--35053767	39	1.9	39	85	7	104	70	13	1	13	1.22
35055340--35055420	38	2.1	38	84	4	101	28	17	4	49	1.67
35055724--35055758	17	1.9	17	88	11	52	34	0	0	65	0.93
35055724--35055763	19	2.0	19	85	9	53	37	0	0	62	0.95
35065838--35065889	23	2.3	22	75	21	54	9	23	1	65	1.32
35065883--35065921	18	2.2	18	85	0	51	12	23	2	61	1.43
35068804--35068834	14	2.2	14	94	0	53	38	9	19	32	1.84
35069245--35069343	27	3.6	27	71	10	101	12	13	21	53	1.71
35071411--35071468	26	2.2	26	93	0	98	34	13	10	41	1.79
35071806--35071845	20	2.0	20	90	0	62	50	12	10	27	1.72
35071794--35071860	34	1.9	35	84	3	91	46	10	8	34	1.70
35076513--35076581	32	2.2	32	81	5	77	43	2	5	47	1.42
35080138--35080186	23	2.1	24	84	3	64	53	8	8	30	1.60
35081371--35081471	49	2.1	49	100	0	202	52	11	22	12	1.72
35084845--35084900	26	2.1	28	86	6	80	57	0	1	41	1.09
35084859--35084902	13	3.4	13	80	0	52	54	0	2	43	1.12
35086074--35086114	20	2.2	19	83	16	50	41	0	2	56	1.13
35094328--35094503	19	9.3	19	69	12	76	64	2	3	28	1.25
35094309--35094370	29	2.1	30	84	3	81	72	3	3	20	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35094309--35094445	10	14.2	10	72	15	67	66	2	3	27	1.20
35094397--35094481	28	3.1	27	75	12	93	65	2	4	27	1.24
35094330--35094481	37	4.1	37	78	12	116	64	2	4	28	1.27
35094399--35094492	26	3.5	25	71	22	66	63	3	4	28	1.28
35094383--35094507	37	3.3	37	80	10	121	63	3	4	29	1.28
35094307--35094507	9	21.2	9	68	18	88	64	2	3	28	1.26
35094398--35094504	28	3.9	27	71	20	80	64	2	3	28	1.25
35094640--35094692	26	2.1	25	86	6	72	35	1	5	56	1.34
35094779--35094945	84	2.0	84	80	2	192	29	9	21	39	1.85
35097672--35097710	16	2.4	16	91	0	60	28	23	7	41	1.82
35098338--35098387	23	2.1	24	85	3	66	58	2	2	38	1.21
35099680--35099706	3	9.0	3	100	0	54	66	0	0	33	0.92
35103794--35103864	20	3.6	19	70	12	63	64	1	1	32	1.11
35110554--35110622	35	2.0	35	88	5	104	63	2	1	31	1.18
35118575--35118608	16	2.1	17	88	5	52	38	8	14	38	1.78
35120973--35121044	23	3.1	23	66	18	67	47	12	6	33	1.68
35122250--35122310	32	1.9	32	96	0	113	31	9	19	39	1.84
35127295--35127331	15	2.5	15	87	12	51	62	8	0	29	1.24
35128402--35128428	13	2.1	13	100	0	54	48	7	7	37	1.59
35128490--35128535	19	2.3	20	92	3	76	28	13	13	45	1.80
35131064--35131111	25	1.9	25	86	0	69	33	25	16	25	1.96
35131155--35131213	20	3.0	20	97	0	109	35	11	20	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35131159--35131213	11	5.4	11	70	16	55	36	12	20	30	1.90
35131264--35131479	24	9.0	24	89	1	299	27	21	21	29	1.99
35133968--35133997	12	2.5	12	94	0	51	43	0	56	0	0.99
35134650--35134800	59	2.5	60	80	9	139	42	15	5	35	1.72
35137419--35137473	24	2.3	23	81	3	56	30	16	29	23	1.96
35148587--35148621	17	2.1	17	94	0	61	20	22	2	54	1.58
35151645--35152014	43	8.6	43	83	1	429	31	28	15	24	1.95
35155919--35155953	16	2.1	17	94	5	63	31	0	0	68	0.90
35156610--35156651	21	2.0	21	90	0	66	40	30	4	23	1.75
35157003--35157058	15	3.9	14	77	13	60	32	46	0	21	1.52
35157128--35157176	14	3.4	14	80	5	53	44	32	2	20	1.63
35157542--35157727	40	4.7	40	85	4	223	27	22	20	29	1.98
35157568--35157726	80	2.0	80	91	0	255	27	22	21	28	1.99
35157774--35157882	40	2.7	40	79	0	128	30	23	18	27	1.98
35157618--35158346	155	4.7	155	85	0	967	29	21	19	28	1.98
35157930--35158025	40	2.4	40	91	0	147	27	16	23	32	1.96
35158088--35158191	40	2.6	40	86	3	129	29	22	19	28	1.98
35157620--35158347	309	2.4	310	89	0	1125	29	21	19	29	1.98
35158239--35158367	40	3.2	40	86	2	170	25	21	20	31	1.98
35158725--35158760	14	2.6	14	100	0	72	36	8	5	50	1.56
35161695--35161878	41	4.5	42	77	8	168	32	26	14	26	1.95
35161698--35161875	40	4.4	41	77	11	152	32	25	15	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35161699--35161884	81	2.3	81	83	8	243	33	25	15	25	1.95
35169097--35169234	40	3.4	40	80	9	147	30	28	15	25	1.96
35180825--35180858	14	2.3	15	90	5	52	29	5	2	61	1.34
35180934--35180978	23	2.0	23	90	0	72	33	4	8	53	1.52
35183929--35184186	129	2.0	129	99	0	507	30	17	17	34	1.93
35188063--35188103	21	2.0	21	90	0	64	29	21	29	19	1.98
35190941--35190971	6	5.2	6	96	0	53	51	45	0	3	1.17
35194010--35194063	20	2.7	21	78	13	60	40	0	1	57	1.09
35201951--35201978	14	2.0	14	100	0	56	78	0	7	14	0.95
35202028--35202071	11	4.3	10	80	13	54	63	0	0	36	0.95
35202030--35202071	10	4.0	11	81	9	52	61	0	0	38	0.96
35202028--35202088	20	3.0	20	85	4	70	65	1	1	31	1.12
35202456--35202650	87	2.2	87	80	8	209	29	9	23	37	1.86
35204189--35204253	26	2.5	26	84	0	85	46	3	4	46	1.39
35206731--35206769	20	1.9	21	89	5	62	25	28	17	28	1.98
35210927--35211064	64	2.2	64	94	0	240	39	16	21	22	1.92
35215725--35215851	42	3.0	42	85	6	161	29	26	14	29	1.95
35215810--35215933	47	2.7	46	83	2	149	29	26	15	29	1.96
35215959--35216068	31	3.5	31	96	0	193	27	28	18	26	1.98
35216044--35216220	50	3.5	50	89	3	266	25	23	16	34	1.95
35220018--35220069	26	2.0	26	92	0	86	57	0	3	38	1.17
35220023--35220076	26	2.2	26	86	6	76	61	0	3	35	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35220032--35220095	32	2.0	32	84	0	83	57	0	4	37	1.19
35220080--35220138	25	2.4	25	86	8	77	66	1	1	30	1.12
35220147--35220202	24	2.3	24	87	6	78	55	3	7	33	1.45
35224958--35225001	18	2.4	18	96	0	79	25	34	20	20	1.97
35231179--35231235	24	2.3	25	87	3	80	43	0	3	52	1.18
35231173--35231233	25	2.4	25	76	13	79	44	0	3	52	1.17
35251033--35251089	28	2.0	28	96	0	105	52	12	17	17	1.74
35252303--35252331	2	14.5	2	100	0	58	51	0	0	48	1.00
35253078--35253111	18	1.9	17	94	5	59	50	2	0	47	1.16
35254803--35254891	44	2.0	44	97	0	169	47	15	5	31	1.69

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