genome.fa.s4.2.7.7.80.10.50.1000.122.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   

This is table  122  of  255  ( 30512 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)
38956300--38956372	29	2.6	29	84	6	87	24	15	32	27	1.95
38961007--38961046	21	1.9	21	85	10	55	60	5	15	20	1.53
38962923--38963103	40	4.6	40	90	2	260	23	20	27	28	1.99
38975011--38975147	50	2.7	50	85	2	166	40	14	14	30	1.86
38983033--38983104	37	1.9	37	91	0	117	29	29	19	22	1.98
38983250--38983434	48	3.8	48	92	4	309	30	26	7	35	1.83
38983250--38983433	98	1.9	97	93	4	318	30	26	7	35	1.83
38983404--38983597	47	4.1	47	89	0	280	26	28	10	33	1.90
38983357--38983597	94	2.6	94	84	5	283	27	28	9	33	1.89
38989405--38989456	27	1.9	27	88	0	77	26	17	21	34	1.95
38989410--38989468	27	2.2	27	81	0	64	27	15	23	33	1.95
38991302--38991475	46	3.8	46	75	13	187	27	21	28	22	1.99
38991302--38991515	94	2.3	94	86	4	299	27	20	28	23	1.99
38991535--38991713	49	3.7	49	78	3	166	26	20	27	24	1.99
38994560--38994654	27	3.5	28	88	2	140	18	24	22	34	1.96
38994560--38994672	27	4.2	27	85	3	122	19	22	21	37	1.95
39000853--39000978	46	2.8	45	85	4	164	27	19	30	23	1.98
39002821--39002998	27	6.6	27	83	3	205	26	15	28	29	1.96
39002822--39002977	82	1.9	81	88	3	233	26	15	28	29	1.96
39002818--39002998	82	2.2	81	83	2	229	27	15	27	29	1.96
39004389--39004493	27	4.0	26	77	3	93	30	10	20	38	1.87
39015584--39015768	79	2.3	82	84	7	238	25	27	22	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39015565--39015768	40	5.1	40	82	8	238	25	27	22	25	2.00
39023547--39023731	79	2.3	82	84	7	238	25	27	22	24	2.00
39023528--39023731	40	5.1	40	82	8	238	25	27	22	25	2.00
39029471--39029553	34	2.4	34	91	0	130	46	14	6	32	1.69
39031997--39032096	27	3.7	27	86	0	128	31	23	7	39	1.81
39034225--39034303	37	2.1	37	90	0	122	25	31	18	24	1.98
39034466--39034992	47	11.1	47	94	0	820	28	30	9	31	1.89
39038455--39038690	40	5.9	40	89	0	319	25	28	22	23	1.99
39038991--39039069	29	2.7	29	86	5	106	27	32	15	24	1.95
39039051--39039196	43	3.4	43	96	0	256	28	33	14	23	1.94
39041045--39041123	37	2.1	37	90	0	122	25	31	18	24	1.98
39041285--39041809	47	11.1	47	93	0	800	28	30	10	31	1.90
39055009--39055203	49	3.9	49	84	2	246	26	19	26	28	1.99
39061187--39061243	30	1.9	30	96	0	105	33	14	28	24	1.94
39061441--39061472	15	2.0	17	88	11	50	31	3	18	46	1.65
39061687--39061722	18	2.0	18	89	10	56	22	22	27	27	1.99
39061736--39061914	47	3.9	45	73	13	143	29	20	28	21	1.98
39064898--39065412	256	2.0	256	100	0	1030	37	7	20	33	1.82
39066576--39067101	47	11.1	47	94	0	836	31	9	30	28	1.89
39067264--39067343	37	2.2	37	88	0	115	23	17	31	27	1.97
39069196--39069338	43	3.3	43	97	0	268	24	13	33	27	1.94
39069323--39069396	29	2.6	29	89	4	105	25	16	32	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39069704--39069933	40	5.8	40	88	0	316	23	21	29	26	1.99
39069704--39069946	120	2.0	120	89	0	369	23	20	29	26	1.99
39071987--39072501	256	2.0	256	99	0	1021	37	7	20	33	1.82
39073665--39074190	47	11.1	47	94	0	845	31	10	30	28	1.90
39074353--39074431	37	2.1	37	90	0	122	24	18	31	25	1.98
39076284--39076426	43	3.3	43	97	0	268	24	13	33	27	1.94
39076411--39076484	29	2.6	29	89	4	105	25	16	32	25	1.96
39076790--39077019	40	5.8	40	88	0	316	23	21	29	26	1.99
39076790--39077032	120	2.0	120	89	0	369	23	20	29	26	1.99
39079074--39079588	256	2.0	256	99	0	1021	37	7	20	33	1.82
39080752--39081277	47	11.1	47	94	0	845	31	10	30	28	1.90
39081440--39081518	37	2.1	37	90	0	122	24	18	31	25	1.98
39083598--39083860	47	5.6	47	90	3	393	29	29	8	32	1.87
39087455--39087636	40	4.6	40	88	0	265	26	27	21	24	1.99
39087455--39087636	80	2.3	80	92	0	292	26	27	21	24	1.99
39087621--39087652	16	2.0	16	100	0	64	18	25	31	25	1.98
39087541--39087732	96	2.0	96	97	0	366	26	25	22	25	2.00
39087637--39087858	40	5.6	40	89	0	338	26	27	21	24	1.99
39087473--39087812	176	1.9	176	92	0	563	27	26	21	24	1.99
39087913--39087986	38	1.9	38	86	5	105	24	25	18	31	1.98
39099818--39099866	12	3.8	13	76	13	57	77	0	6	16	0.96
39102813--39102851	21	1.9	21	84	5	53	64	7	2	25	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39103181--39103212	7	4.6	7	100	0	64	75	0	0	25	0.81
39109947--39109972	6	4.3	6	100	0	52	19	0	0	80	0.71
39119878--39119923	24	1.9	24	100	0	92	30	23	23	21	1.99
39120626--39120841	47	4.7	44	76	12	152	26	20	30	22	1.98
39127302--39127326	6	4.2	6	100	0	50	84	0	16	0	0.63
39127700--39127971	47	5.8	45	76	13	230	27	20	30	22	1.98
39127700--39127971	94	2.9	93	81	9	331	27	20	30	22	1.98
39132998--39133175	27	6.6	27	84	3	205	29	28	15	26	1.96
39133019--39133174	82	1.9	81	88	3	233	29	28	15	26	1.96
39149896--39150261	49	7.7	49	71	11	219	25	29	19	25	1.98
39150894--39150944	20	2.7	18	82	14	59	37	21	0	41	1.54
39154454--39154488	7	5.0	7	96	0	61	74	0	25	0	0.82
39154658--39154713	28	2.0	28	96	0	103	39	1	28	30	1.67
39162397--39162422	13	2.0	13	100	0	52	23	0	30	46	1.53
39168952--39168995	17	2.6	17	89	3	63	13	27	38	20	1.90
39179126--39179190	30	2.2	30	88	0	94	38	18	13	29	1.89
39182602--39182638	18	2.1	19	90	10	60	16	24	37	21	1.93
39190526--39190613	27	3.3	26	75	1	86	30	30	9	29	1.88
39190515--39190621	27	4.0	26	73	6	81	29	29	9	30	1.88
39190739--39190806	27	2.5	27	85	0	91	32	23	14	29	1.94
39190730--39190808	27	3.0	26	80	9	88	27	25	13	32	1.94
39190924--39191023	50	2.0	50	84	3	130	27	24	12	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39197148--39197226	37	2.1	37	88	4	115	25	30	18	25	1.98
39197345--39197679	47	7.1	47	91	1	481	27	30	9	31	1.89
39197360--39197679	143	2.3	143	90	1	500	27	31	10	30	1.89
39204537--39204568	7	4.6	7	96	0	55	50	15	3	31	1.60
39204709--39204828	20	6.0	20	70	1	89	38	18	31	11	1.87
39213815--39213840	13	2.0	13	100	0	52	23	46	0	30	1.53
39217428--39217542	41	2.8	42	76	6	126	24	15	26	33	1.95
39220573--39220640	27	2.5	27	82	0	82	36	20	16	26	1.93
39220630--39220936	27	11.4	27	80	8	250	42	18	8	30	1.79
39220630--39220928	54	5.5	54	80	5	284	42	18	8	31	1.79
39221912--39221990	27	3.0	26	88	5	113	41	22	20	15	1.89
39222409--39222438	16	1.9	15	93	6	51	3	20	23	53	1.60
39223423--39223475	24	2.2	24	93	0	88	20	41	3	33	1.70
39224084--39224205	41	3.0	41	87	2	174	22	19	27	29	1.98
39224362--39224409	22	2.2	22	85	7	62	27	25	18	29	1.98
39224612--39224658	22	2.1	22	84	0	58	14	19	21	44	1.86
39224747--39224793	21	2.2	22	85	11	62	4	4	51	40	1.41
39229171--39229261	44	2.1	44	95	0	164	28	19	19	31	1.97
39239798--39239876	24	3.3	24	87	0	104	36	26	8	27	1.86
39242328--39242356	2	14.5	2	100	0	58	48	51	0	0	1.00
39244511--39244626	31	3.7	31	82	4	144	28	18	28	24	1.98
39244649--39244806	41	3.7	43	80	8	153	31	13	27	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39244690--39244804	41	2.7	43	86	6	164	30	13	26	28	1.94
39252036--39252065	14	2.1	14	93	0	51	43	0	6	50	1.28
39256105--39256338	41	5.8	41	87	3	298	28	27	21	22	1.99
39258140--39258296	43	3.7	42	87	4	208	29	24	19	26	1.98
39260858--39260922	28	2.3	28	84	5	78	27	18	9	44	1.80
39263428--39263549	43	2.9	41	80	7	154	27	25	18	28	1.98
39264577--39264601	13	1.9	13	100	0	50	52	16	0	32	1.44
39269457--39269555	43	2.3	42	84	1	126	35	26	14	24	1.93
39270372--39270443	37	1.9	37	91	0	117	27	29	19	23	1.98
39270589--39270773	48	3.8	48	92	4	309	30	26	7	35	1.83

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