genome.fa.s1.2.7.7.80.10.50.1000.138.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: A01
Parameters: 2 7 7 80 10 50 1000
Length:  104050246

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   

This is table  138  of  316  ( 37835 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)
44095187--44095311	29	4.3	29	90	1	180	28	33	14	24	1.94
44095521--44095558	16	2.4	16	90	0	67	10	23	21	44	1.83
44099149--44099190	11	3.8	11	81	9	50	33	0	21	45	1.52
44099633--44099685	21	2.3	23	75	21	58	43	0	3	52	1.19
44099804--44099850	16	2.9	16	80	3	58	38	2	2	57	1.23
44099808--44099852	12	3.8	12	83	16	51	40	2	2	55	1.24
44106467--44106513	16	2.9	16	78	15	60	40	0	2	57	1.11
44106465--44106515	22	2.5	21	78	9	61	43	0	1	54	1.11
44108273--44108514	50	4.8	50	79	4	229	29	26	18	25	1.98
44117341--44117513	93	1.9	93	95	0	310	27	29	21	20	1.98
44117335--44117510	46	3.8	46	79	12	207	28	29	21	20	1.98
44117386--44117529	46	3.1	45	76	12	150	28	28	20	22	1.99
44124418--44124589	93	1.8	93	96	0	317	27	29	21	20	1.98
44124411--44124586	46	3.8	46	79	12	216	28	29	21	20	1.98
44136085--44136245	86	1.9	85	85	11	222	21	18	26	33	1.96
44136136--44136245	42	2.6	42	78	4	123	23	18	27	30	1.97
44136097--44136253	43	3.7	42	74	9	149	22	18	27	31	1.97
44157725--44158285	131	4.3	131	81	4	543	40	11	9	38	1.74
44157752--44158285	130	4.1	130	81	6	437	40	11	10	38	1.75
44157764--44158278	255	2.0	260	81	6	609	40	11	9	38	1.74
44159757--44159842	45	1.9	45	88	4	129	54	19	22	3	1.59
44159763--44159842	25	3.4	24	67	19	62	56	18	21	3	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44161036--44161501	131	3.6	131	82	6	541	42	10	9	37	1.73
44161864--44161913	21	2.4	21	75	0	55	36	14	14	36	1.86
44163335--44163390	27	2.1	27	96	0	103	28	14	23	33	1.94
44171304--44171343	21	1.9	21	84	0	53	47	2	15	35	1.58
44175380--44175445	32	2.1	32	97	0	123	48	15	21	15	1.81
44176799--44176863	34	1.9	34	100	0	130	36	21	24	16	1.94
44177733--44177769	5	7.4	5	93	0	65	78	0	2	18	0.87
44178881--44178945	22	3.0	21	86	4	94	18	21	27	32	1.97
44178911--44178993	38	2.2	38	86	4	114	22	22	26	27	1.99
44178881--44178983	22	5.0	22	74	13	92	21	21	26	31	1.98
44182060--44182085	10	2.6	10	100	0	52	23	0	26	50	1.50
44195666--44195914	125	2.0	124	96	0	462	30	8	21	39	1.82
44196246--44196307	29	2.1	30	79	8	74	35	8	16	40	1.78
44196258--44196314	29	2.0	29	100	0	114	31	12	21	35	1.90
44198365--44198681	48	6.7	47	75	13	235	29	17	28	24	1.98
44198551--44198687	49	2.8	49	82	10	165	29	19	27	23	1.98
44199429--44199551	55	2.2	55	84	2	149	21	20	29	28	1.98
44201068--44201093	2	13.0	2	100	0	52	50	0	50	0	1.00
44203716--44203768	21	2.5	20	79	8	61	26	7	33	32	1.84
44205786--44205932	32	4.6	32	89	0	231	44	9	12	33	1.75
44205783--44205932	64	2.3	64	93	0	255	44	9	14	32	1.76
44207023--44207048	13	2.0	13	100	0	52	38	38	0	23	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44214578--44214686	55	2.0	55	85	7	150	22	27	27	22	1.99
44218473--44218510	11	3.4	11	88	3	58	34	7	0	57	1.28
44221171--44221291	47	2.6	45	79	6	127	32	10	29	27	1.90
44221366--44221450	40	2.2	40	84	2	109	17	20	31	30	1.95
44249079--44249256	27	6.6	26	82	6	169	26	15	28	28	1.96
44249080--44249235	82	1.9	81	85	3	215	26	16	28	28	1.97
44249076--44249256	82	2.2	81	81	2	211	27	16	28	28	1.97
44249161--44249267	27	3.9	27	85	1	70	26	14	28	30	1.95
44251519--44251553	13	2.7	13	95	0	61	5	17	48	28	1.69
44253032--44253078	23	2.0	23	87	0	67	27	14	14	42	1.86
44260584--44260667	28	3.0	28	87	1	114	46	28	3	21	1.68
44260570--44260640	28	2.9	23	77	18	79	45	33	4	16	1.67
44260708--44260737	13	2.2	14	94	5	53	36	36	3	23	1.71
44260713--44260751	13	3.0	13	88	0	51	33	41	0	25	1.56
44260825--44260863	17	2.3	17	90	0	60	30	23	0	46	1.53
44260822--44260870	23	2.1	24	88	3	73	34	20	0	44	1.52
44260851--44260896	16	2.8	17	77	12	51	39	23	0	36	1.55
44262468--44262728	40	6.6	40	82	5	289	23	26	24	25	2.00
44262468--44262728	80	3.3	80	84	3	321	23	26	24	25	2.00
44262468--44262728	120	2.2	121	83	7	329	23	26	24	25	2.00
44269657--44269704	25	1.9	25	95	0	87	29	25	18	27	1.98
44269741--44269787	20	2.3	20	96	0	85	34	10	21	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44269837--44269931	23	4.1	23	89	5	147	28	17	21	32	1.96
44269837--44269931	46	2.1	46	94	4	165	28	17	21	32	1.96
44269836--44269952	23	5.0	24	85	7	125	28	18	22	30	1.97
44274091--44274123	16	2.1	16	94	0	57	45	3	9	42	1.51
44274487--44274526	17	2.4	17	87	8	55	50	0	10	40	1.36
44274592--44274617	13	2.0	13	100	0	52	61	0	0	38	0.96
44292868--44293077	45	4.7	45	70	8	144	29	20	23	26	1.99
44292874--44293690	132	6.2	130	89	2	1080	28	18	24	28	1.98
44293274--44293465	45	4.3	44	67	10	131	26	18	28	26	1.98
44296251--44296508	131	2.0	131	84	1	338	27	20	19	31	1.97
44300731--44300857	45	2.9	45	83	8	138	23	27	24	24	2.00
44301174--44301362	43	4.4	43	87	2	249	30	33	22	13	1.93
44301181--44301341	86	1.9	86	94	0	286	31	32	22	13	1.92
44305704--44305968	53	5.0	53	82	0	296	35	12	24	27	1.92
44306084--44306249	61	2.7	60	79	1	170	30	13	27	28	1.94
44309539--44309593	16	3.4	16	92	5	85	38	7	23	30	1.82
44309575--44309668	44	2.1	46	86	4	129	31	7	25	35	1.84
44309755--44309799	25	1.9	24	86	13	67	53	0	0	46	1.00
44309764--44309802	13	3.1	13	81	7	53	56	0	0	43	0.99
44309760--44309896	57	2.4	56	86	2	193	53	3	0	43	1.18
44313660--44313710	26	2.0	26	84	0	66	31	25	11	31	1.92
44313715--44313807	23	4.0	23	74	10	75	41	20	17	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44313713--44313805	46	2.0	46	81	4	107	41	19	17	21	1.90
44317127--44317199	35	2.1	35	97	0	137	42	15	10	31	1.81
44320110--44320147	18	2.1	19	85	5	51	50	0	2	47	1.15
44320270--44320335	22	3.0	22	100	0	132	27	18	18	36	1.94
44320250--44320335	44	2.0	44	88	4	129	27	18	19	33	1.96
44326696--44326730	14	2.5	14	95	0	61	22	34	34	8	1.85
44328948--44329132	40	4.7	40	79	7	191	24	21	27	26	1.99
44328949--44329167	79	2.8	78	77	12	214	26	21	26	26	1.99
44336601--44336785	40	4.7	40	82	7	218	23	22	28	25	2.00
44336601--44336783	79	2.3	81	85	7	241	24	22	27	25	2.00
44336602--44336818	79	2.7	78	79	12	237	25	22	27	24	2.00
44337771--44337811	16	2.6	16	88	0	55	17	9	2	70	1.25
44339409--44339443	5	6.8	5	93	6	61	17	0	0	82	0.66
44339409--44339444	16	2.2	16	100	0	72	16	0	0	83	0.65
44346387--44346443	6	9.3	6	79	11	53	71	0	12	15	1.13
44346385--44346440	18	3.1	18	82	12	69	71	0	10	17	1.14
44346592--44346661	26	2.7	26	88	0	104	35	10	18	35	1.84
44379198--44379495	40	7.5	40	91	1	449	24	27	25	23	2.00
44387439--44387703	40	6.6	40	92	1	426	25	27	25	21	2.00
44399000--44399039	21	2.0	20	85	14	55	25	37	22	15	1.93
44409665--44409701	16	2.2	17	90	4	58	16	2	8	72	1.19
44411318--44411684	47	7.8	46	73	12	225	27	20	29	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44411319--44411684	94	3.9	93	79	9	386	27	20	30	21	1.98
44411321--44411684	141	2.6	138	80	9	389	27	20	29	21	1.98
44419108--44419152	22	2.0	22	91	0	72	28	11	15	44	1.81
44422112--44422162	25	2.0	25	84	0	66	43	0	0	56	0.99
44422105--44422215	59	1.9	55	89	7	168	46	0	0	52	1.06
44422148--44422200	23	2.3	22	78	9	61	49	0	1	49	1.12
44422407--44422444	16	2.4	16	95	0	67	34	26	0	39	1.57
44423666--44423700	11	3.1	11	84	8	52	28	0	2	68	1.04
44435385--44435449	29	2.2	31	83	5	80	58	0	0	41	0.98
44437702--44437813	15	7.8	15	67	16	58	25	8	1	63	1.34

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