genome.fa.s9.2.7.7.80.10.50.1000.124.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   

This is table  124  of  259  ( 31025 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)
40177815--40177844	14	2.1	14	93	0	51	43	0	10	46	1.37
40179674--40179717	19	2.4	19	85	7	56	50	0	9	40	1.34
40186519--40186543	13	1.9	13	100	0	50	24	4	32	40	1.73
40185109--40186932	911	2.0	912	97	0	3425	31	12	19	37	1.88
40194029--40194099	34	2.1	34	97	0	133	36	12	23	26	1.91
40196481--40196519	20	2.0	20	100	0	78	25	12	20	41	1.88
40198997--40199056	30	2.0	30	93	0	102	18	25	31	25	1.97
40199000--40199065	30	2.2	30	86	0	87	19	19	31	28	1.97
40208138--40208329	50	3.9	49	76	6	172	28	28	18	25	1.98
40213574--40213653	26	3.2	26	64	25	62	30	33	13	22	1.93
40222496--40222668	46	3.7	46	77	13	201	29	30	19	20	1.97
40222503--40222674	93	1.8	93	93	0	299	29	29	20	20	1.98
40230079--40230250	93	1.8	93	96	0	317	27	29	21	20	1.98
40230072--40230247	46	3.8	46	79	12	216	28	29	21	20	1.98
40232112--40232289	27	6.6	27	82	3	196	26	15	28	29	1.96
40232113--40232268	82	1.9	81	86	3	224	26	16	28	28	1.97
40232109--40232289	82	2.2	81	82	2	220	27	16	27	29	1.97
40237992--40238484	47	10.3	47	87	4	700	28	29	8	33	1.87
40238202--40238318	57	2.0	60	91	5	195	29	29	7	33	1.85
40238061--40238458	198	2.0	201	92	1	658	28	28	9	33	1.88
40238027--40238484	245	1.9	245	94	0	810	28	29	9	32	1.89
40244646--40244823	27	6.6	27	83	3	205	26	15	28	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40244647--40244802	82	1.9	81	88	3	233	26	15	28	29	1.96
40244643--40244823	82	2.2	81	83	2	229	27	15	27	29	1.96
40262692--40262876	40	4.6	39	78	10	171	25	21	27	26	1.99
40262748--40262909	79	2.1	79	81	6	186	27	17	26	28	1.97
40266514--40266589	29	2.6	29	95	0	134	28	14	26	30	1.95
40268573--40268650	24	3.3	24	76	15	81	28	23	15	33	1.95
40276249--40276391	24	6.0	23	70	11	92	24	21	18	34	1.96
40276498--40276548	20	2.5	20	87	0	75	31	5	19	43	1.75
40280902--40280953	27	1.9	27	84	0	68	28	21	21	28	1.98
40282271--40282320	25	2.0	25	96	0	91	56	6	22	16	1.62
40293717--40293761	15	3.1	15	90	9	76	86	0	0	13	0.57
40293717--40293761	7	6.4	7	90	10	74	86	0	0	13	0.57
40299509--40299552	21	2.1	21	100	0	88	63	9	9	18	1.49
40304057--40304110	28	1.9	28	84	0	72	35	12	29	22	1.91
40305055--40305106	26	2.0	26	96	0	95	36	30	21	11	1.89
40307390--40307471	40	2.0	40	97	0	155	21	13	19	45	1.85
40315220--40315387	40	4.2	40	82	8	148	27	27	20	24	1.99
40315255--40315440	80	2.3	80	83	9	229	27	27	20	23	1.99
40315257--40315440	40	4.6	40	83	7	205	27	27	21	23	1.99
40322515--40322682	40	4.2	40	82	8	148	27	27	20	24	1.99
40322550--40322735	80	2.3	80	83	9	229	27	27	20	23	1.99
40322552--40322735	40	4.6	40	83	7	205	27	27	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40326368--40326540	46	3.7	46	77	10	190	22	19	27	30	1.98
40326365--40326535	93	1.8	93	91	0	279	22	19	28	29	1.98
40326765--40326802	19	2.0	20	85	15	53	36	0	23	39	1.55
40346785--40346891	23	4.6	23	70	3	70	23	21	15	39	1.92
40346789--40346891	47	2.2	47	82	3	118	24	20	15	39	1.91
40354175--40354279	27	3.9	26	83	8	104	36	21	23	18	1.95
40355887--40355996	26	4.2	26	97	0	184	36	24	5	33	1.79
40356826--40356944	38	3.1	38	85	9	152	23	22	24	29	1.99
40358431--40358550	60	2.0	60	98	0	231	44	5	19	31	1.72
40358621--40358742	43	2.8	43	92	0	199	11	22	33	31	1.90
40358884--40359073	58	3.4	58	91	3	291	23	19	28	27	1.98
40358911--40359069	29	5.5	28	71	10	124	22	20	28	28	1.98
40358940--40359094	29	5.4	27	70	11	78	22	18	30	27	1.97
40362680--40362816	38	3.6	38	80	3	157	18	17	27	36	1.93
40367147--40367258	43	2.6	44	81	5	113	26	18	23	31	1.98
40368281--40368444	40	4.1	40	89	0	247	32	25	18	23	1.97
40369829--40370001	46	3.7	46	77	11	183	23	20	26	30	1.98
40369826--40369996	93	1.8	93	89	2	272	22	20	27	29	1.99
40370226--40370263	19	2.0	20	85	15	53	36	0	23	39	1.55
40377173--40377345	46	3.7	46	77	11	183	23	20	26	30	1.98
40377170--40377340	93	1.8	93	89	2	272	22	20	27	29	1.99
40377570--40377607	19	2.0	20	85	15	53	36	0	23	39	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40384511--40384683	46	3.7	46	77	11	183	23	20	26	30	1.98
40384508--40384678	93	1.8	93	89	2	272	22	20	27	29	1.99
40384908--40384945	19	2.0	20	85	15	53	36	0	23	39	1.55
40391804--40391976	46	3.7	46	79	10	208	21	20	27	29	1.98
40391801--40391971	93	1.8	93	93	0	297	21	21	28	28	1.98
40392199--40392236	19	2.0	20	85	15	53	36	0	23	39	1.55
40413920--40413948	13	2.1	14	93	6	51	51	0	3	44	1.18
40414612--40414657	23	2.0	23	86	0	65	73	4	17	4	1.15
40415982--40416064	21	3.8	22	76	6	71	18	21	22	37	1.94
40420868--40420896	13	2.1	14	93	6	51	51	0	3	44	1.18
40421403--40421445	21	2.0	21	86	8	61	51	0	0	48	1.00
40421550--40421574	13	1.9	13	100	0	50	80	8	12	0	0.92
40421549--40421603	23	2.4	23	84	6	67	74	5	16	3	1.15
40422069--40422179	51	2.2	51	82	6	127	40	13	18	27	1.88
40422506--40422555	15	3.4	15	76	13	59	36	2	12	50	1.51
40425486--40425531	24	1.9	24	86	0	65	34	21	17	26	1.95
40425568--40425630	20	3.2	20	93	0	108	38	12	17	31	1.87
40425684--40425827	24	6.0	24	87	8	204	29	20	21	27	1.98
40428266--40428711	27	16.4	27	70	7	125	37	20	9	32	1.85
40428342--40428404	28	2.3	28	86	2	83	42	19	7	30	1.79
40428260--40428478	54	4.0	54	73	7	174	34	21	7	36	1.82
40428530--40428710	54	3.3	53	77	8	175	39	17	10	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40428758--40428809	27	1.9	27	88	7	79	30	19	25	25	1.98
40429523--40429587	20	3.2	20	97	0	121	41	9	18	30	1.82
40429633--40429768	26	5.3	26	92	3	208	27	19	23	28	1.99
40429900--40429989	43	2.1	42	85	2	117	32	12	18	36	1.88
40430016--40430094	31	2.5	31	89	0	131	30	17	25	26	1.97
40431018--40431109	40	2.3	41	87	7	127	27	26	15	31	1.95
40431620--40431650	7	4.4	7	91	0	53	16	25	0	58	1.38
40434127--40434312	80	2.3	80	83	11	222	28	27	20	23	1.99
40434129--40434312	40	4.6	40	82	8	198	28	27	20	23	1.99
40443891--40444011	47	2.6	45	87	11	167	23	32	19	25	1.97
40453204--40453242	21	1.9	21	94	5	71	17	30	41	10	1.83
40455858--40455944	29	3.1	29	88	3	133	32	13	24	29	1.94
40457175--40457209	16	2.2	16	94	0	61	51	17	22	8	1.72
40457435--40457548	28	4.0	29	78	6	101	28	14	29	28	1.95
40462519--40462792	145	1.9	145	96	0	512	31	23	15	29	1.95
40462777--40462848	29	2.5	30	82	13	96	30	29	12	27	1.93
40468622--40468797	68	2.6	68	77	13	159	21	27	16	34	1.95
40476781--40476824	22	2.0	22	83	12	56	56	6	6	29	1.51
40476960--40477014	15	3.7	15	75	20	53	60	1	5	32	1.30
40477026--40477057	13	2.4	14	85	15	50	68	0	0	31	0.90
40477076--40477194	25	5.0	24	77	19	90	60	0	4	34	1.22
40477114--40477185	18	4.2	17	78	13	60	62	1	1	34	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40477157--40477208	26	2.0	26	85	7	70	61	3	0	34	1.14
40477173--40477230	26	2.2	27	82	11	68	60	1	1	36	1.17
40478836--40479213	206	1.8	205	87	1	569	29	22	17	30	1.96
40480095--40480143	15	3.4	15	83	5	57	0	6	8	85	0.73
40480090--40480143	27	2.0	27	85	3	74	0	7	7	85	0.75
40488040--40488169	27	4.8	27	86	0	161	29	20	8	42	1.81
40488040--40488195	54	2.9	54	84	1	179	31	19	8	40	1.82
40488094--40488394	27	11.2	27	81	4	187	37	21	8	32	1.83
40488148--40488505	54	6.6	54	73	6	240	39	20	9	30	1.84
40487995--40488207	81	2.6	80	73	5	203	34	21	7	36	1.82

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