genome.fa.s12.2.7.7.80.10.50.1000.177.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: A12
Parameters: 2 7 7 80 10 50 1000
Length:  103038859

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   

This is table  177  of  320  ( 38372 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)
58566334--58566394	20	3.0	21	71	11	63	42	9	13	34	1.77
58566380--58566446	33	2.1	32	88	2	98	28	11	14	44	1.81
58576021--58576151	49	2.7	49	81	1	156	28	32	16	23	1.96
58581648--58581775	49	2.7	47	79	4	132	26	30	17	25	1.98
58581717--58582046	90	3.6	91	75	10	334	25	27	15	30	1.96
58583503--58583544	20	2.2	20	91	4	68	42	4	14	38	1.66
58583594--58583717	20	6.2	20	68	10	74	39	8	8	42	1.67
58583590--58583717	40	3.2	39	76	8	123	39	8	9	42	1.68
58583590--58583717	60	2.1	61	80	8	138	39	8	9	42	1.68
58584322--58584355	16	2.1	16	88	0	50	44	2	0	52	1.16
58584391--58584433	21	2.0	21	86	0	59	39	2	4	53	1.34
58591833--58592005	95	1.8	95	94	0	310	26	15	23	34	1.94
58606610--58606703	18	5.4	18	89	3	122	36	24	9	29	1.87
58609066--58609154	21	4.1	21	84	5	90	53	10	23	12	1.68
58609066--58609134	21	3.3	21	87	2	95	55	8	24	11	1.64
58613294--58613320	14	1.9	14	100	0	54	51	7	11	29	1.64
58617198--58617231	13	2.6	13	100	0	68	38	0	0	61	0.96
58617202--58617244	18	2.6	16	83	16	61	34	0	0	65	0.93
58622216--58622240	2	12.5	2	100	0	50	52	48	0	0	1.00
58628006--58628183	27	6.6	27	80	3	160	29	26	15	27	1.96
58636105--58636282	27	6.6	27	84	3	205	29	28	15	26	1.96
58636126--58636281	82	1.9	81	88	3	233	29	28	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58636105--58636306	82	2.5	83	78	11	227	29	28	15	26	1.96
58636105--58636306	27	7.4	25	75	17	122	29	28	15	26	1.96
58639827--58639886	23	2.6	23	86	0	75	16	10	28	45	1.80
58643023--58643064	5	8.2	5	86	5	57	73	2	19	4	1.12
58643023--58643064	16	2.7	15	85	3	57	73	2	19	4	1.12
58645975--58646017	22	2.0	21	81	4	50	37	6	13	41	1.72
58646712--58646893	40	4.6	40	78	6	174	25	19	27	26	1.99
58662444--58662619	46	3.8	46	79	12	216	20	21	29	28	1.98
58662441--58662612	93	1.8	93	96	0	317	20	21	29	27	1.98
58667817--58667927	57	1.9	58	85	5	154	27	28	18	24	1.98
58668093--58668302	43	4.9	43	91	0	330	31	32	23	11	1.91
58669900--58670040	38	3.7	37	90	3	210	29	24	23	21	1.99
58669862--58670056	76	2.5	78	82	6	236	31	25	21	22	1.98
58678671--58678839	45	3.6	47	78	16	167	22	30	19	27	1.98
58683754--58683785	15	2.0	17	88	11	50	43	31	0	25	1.55
58684820--58684868	24	1.9	26	88	12	75	48	10	4	36	1.56
58690592--58690816	40	5.6	40	85	5	292	24	22	27	26	2.00
58690596--58690816	83	2.7	80	86	6	286	23	22	27	26	2.00
58705535--58705660	44	2.9	42	85	3	135	34	28	16	20	1.95
58705548--58705660	44	2.6	44	87	5	151	32	29	17	20	1.96
58710380--58710519	58	2.4	58	96	0	253	30	18	15	35	1.92
58714767--58714831	29	2.2	29	97	0	121	33	9	20	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58717611--58717766	45	3.4	46	80	10	178	21	21	19	37	1.95
58717613--58717769	22	7.0	22	71	15	106	21	20	20	37	1.94
58717611--58717793	92	2.0	93	83	5	237	21	21	21	34	1.96
58721814--58721932	22	5.1	22	62	28	59	33	14	28	23	1.94
58721789--58722119	141	2.4	142	88	4	474	33	12	29	24	1.92
58721789--58722116	94	3.5	94	87	4	439	33	12	28	25	1.92
58721789--58722076	47	6.1	47	95	0	495	34	12	28	25	1.92
58722100--58722277	46	3.9	46	93	0	284	35	8	31	24	1.86
58725731--58725815	29	3.0	29	84	1	109	30	10	27	31	1.90
58729368--58729392	9	2.8	9	100	0	50	60	0	0	40	0.97
58733048--58733301	55	4.8	54	79	9	242	22	25	16	35	1.94
58733637--58733692	29	1.9	29	85	0	76	30	26	1	41	1.66
58740790--58740997	55	3.8	53	81	6	213	23	25	16	35	1.95
58746520--58746567	24	2.0	23	88	4	69	47	16	22	12	1.80
58746781--58746892	29	4.0	27	71	10	89	28	13	32	25	1.94
58747755--58747803	26	1.9	26	87	4	73	48	18	14	18	1.80
58752479--58752531	25	2.2	25	82	3	63	32	1	20	45	1.62
58752485--58752565	40	2.1	39	90	2	126	34	1	19	44	1.59
58752518--58752568	15	3.8	15	69	28	51	37	0	17	45	1.49
58752835--58752949	25	4.6	25	84	4	142	20	21	21	36	1.95
58752823--58752965	25	5.7	26	77	12	138	17	22	23	37	1.94
58752961--58753120	24	6.4	25	69	11	105	22	25	20	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58758487--58758528	21	2.0	22	85	4	59	19	28	35	16	1.93
58765860--58766213	40	8.9	40	96	0	636	24	29	20	24	1.99
58771772--58771885	29	4.0	29	83	1	140	28	30	14	26	1.95
58774909--58775085	27	6.5	27	79	3	158	25	16	29	28	1.97
58774909--58775064	82	1.9	81	82	3	197	25	17	29	27	1.97
58774905--58775085	82	2.2	81	79	2	193	25	17	28	28	1.97
58793918--58794011	18	5.4	18	92	3	131	36	25	9	28	1.87
58793918--58793998	9	9.0	9	70	0	54	34	27	9	28	1.89
58796371--58796459	21	4.1	21	84	5	90	53	10	23	12	1.68
58796371--58796439	21	3.3	21	87	2	95	55	8	24	11	1.64
58800602--58800630	14	2.1	14	100	0	58	51	6	13	27	1.66
58803397--58803436	13	2.8	15	85	14	66	65	0	0	35	0.93
58818050--58818227	27	6.6	27	77	6	137	30	28	15	25	1.96
58818050--58818227	54	3.3	54	78	7	164	30	28	15	25	1.96
58822136--58822313	27	6.6	27	82	3	178	29	28	15	26	1.96
58826050--58826100	25	2.0	26	84	3	68	43	3	3	49	1.39
58826417--58826470	27	2.0	27	92	0	90	55	22	1	20	1.53
58826682--58826723	19	2.3	18	84	12	50	42	19	14	23	1.87
58828673--58828845	51	3.4	50	76	4	195	27	20	21	30	1.98
58828613--58828945	101	3.3	101	85	2	429	26	18	24	30	1.98
58828618--58828956	50	6.7	50	75	6	317	25	18	25	30	1.98
58829156--58829187	16	2.0	16	93	0	55	46	0	18	34	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58832605--58832651	20	2.3	20	85	0	67	21	12	36	29	1.91
58834323--58834428	48	2.2	48	85	9	137	14	24	1	59	1.45
58835456--58835491	10	3.8	9	89	10	54	2	8	2	86	0.77
58835447--58835511	22	3.0	21	82	6	69	4	13	3	78	1.03
58837024--58837070	20	2.3	20	85	0	67	21	12	36	29	1.91
58852329--58852393	29	2.2	29	94	0	112	30	13	29	26	1.94
58854518--58854602	33	2.5	33	77	7	82	15	9	37	37	1.80
58861139--58861204	33	2.0	33	100	0	132	21	24	6	48	1.72
58873783--58873846	26	2.5	26	84	2	76	39	17	18	25	1.92
58874277--58874396	59	2.0	59	96	0	222	25	20	10	44	1.82
58885745--58885808	20	3.2	20	93	0	110	10	26	34	28	1.90
58886198--58886264	32	2.1	32	100	0	134	19	23	17	38	1.93
58887672--58887747	31	2.5	31	97	0	143	26	27	19	26	1.99
58887778--58887865	42	2.1	42	84	0	113	37	17	12	32	1.87
58888011--58888108	26	3.8	26	93	1	162	26	22	24	26	2.00
58888785--58888835	20	2.7	19	82	14	54	41	0	21	37	1.54
58890693--58890870	27	6.6	27	81	5	162	29	27	15	27	1.96
58890693--58890870	54	3.3	55	80	7	193	29	27	15	27	1.96
58892854--58892957	49	2.2	48	83	8	124	28	19	27	24	1.98
58892977--58893091	49	2.3	49	83	2	142	26	22	28	21	1.99
58901184--58901248	28	2.3	28	91	0	103	32	27	7	32	1.85
58901354--58901416	28	2.2	29	88	8	94	22	22	23	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58901364--58901427	28	2.2	28	86	2	83	25	25	18	31	1.98
58904596--58904715	46	2.6	47	84	11	167	28	21	28	21	1.99
58911281--58911344	25	2.7	23	77	15	67	39	39	6	15	1.73
58915171--58915357	101	1.9	99	87	4	277	27	30	18	24	1.98
58920560--58920689	50	2.6	49	90	3	190	30	28	16	24	1.97
58920552--58920734	50	3.7	50	79	10	187	28	27	18	25	1.98
58940129--58940172	18	2.4	18	88	0	61	18	45	22	13	1.84
58943226--58943403	27	6.6	27	83	3	196	27	15	27	29	1.96
58943227--58943382	82	1.9	81	86	3	224	27	15	27	29	1.96
58943223--58943403	82	2.2	81	82	2	220	27	15	27	29	1.96

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