genome.fa.s12.2.7.7.80.10.50.1000.120.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  120  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)
39300475--39300613	46	2.9	49	78	14	175	23	19	28	29	1.98
39312740--39312911	40	4.3	40	85	2	204	26	28	21	23	1.99
39312896--39312973	40	1.9	41	82	10	97	26	28	20	24	1.99
39320921--39321044	41	3.0	42	86	2	178	31	17	21	29	1.96
39330733--39330773	21	2.0	21	85	4	57	7	31	12	48	1.68
39332580--39332752	46	3.7	46	72	14	167	23	20	26	29	1.99
39332577--39332747	93	1.8	93	89	2	272	22	21	27	28	1.99
39340159--39340330	46	3.8	45	73	13	163	23	20	25	29	1.99
39374285--39374345	30	2.0	30	87	3	86	37	19	8	34	1.82
39375989--39376111	60	2.0	60	95	0	219	34	26	4	34	1.78
39376213--39376301	44	2.0	44	97	0	169	34	15	7	41	1.76
39376838--39376870	13	2.6	13	90	4	50	48	12	0	39	1.40
39379779--39379883	6	19.8	5	78	16	74	77	0	2	20	0.90
39379807--39379884	6	12.5	6	80	15	79	79	0	2	17	0.84
39379812--39379884	23	2.9	25	78	15	80	80	0	1	17	0.78
39379812--39379891	8	11.3	7	84	12	78	80	0	2	17	0.83
39383285--39383420	46	3.0	43	76	14	123	30	27	19	22	1.98
39388780--39388950	93	1.8	93	93	2	299	28	28	21	22	1.99
39388775--39388947	46	3.7	46	77	14	194	28	27	20	22	1.99
39390756--39390906	28	5.4	28	90	1	205	25	11	29	33	1.92
39396025--39396057	13	2.6	13	90	4	50	48	12	0	39	1.40
39403927--39404475	48	11.3	48	91	2	855	36	6	25	30	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39403927--39404475	146	3.8	145	94	1	904	36	6	25	30	1.82
39403927--39404475	98	5.7	96	92	1	855	36	6	25	30	1.82
39411253--39411352	40	2.5	40	85	1	130	30	26	21	23	1.99
39413604--39413823	40	5.6	40	81	7	236	24	22	26	26	2.00
39414050--39414094	22	2.0	22	83	8	56	31	11	13	44	1.78
39430113--39430259	53	2.7	53	81	10	149	23	21	19	35	1.96
39430181--39430321	54	2.6	55	86	3	178	21	23	19	35	1.96
39430406--39430453	24	2.0	24	100	0	96	29	20	20	29	1.98
39431161--39431218	30	1.9	30	85	3	80	25	25	13	34	1.93
39432160--39432245	40	2.2	40	95	0	154	32	27	16	23	1.96
39434877--39435130	39	6.5	39	91	1	384	30	29	21	18	1.97
39435211--39435292	28	2.9	27	80	7	92	30	21	9	37	1.86
39441417--39441678	39	6.7	39	92	1	418	29	29	22	18	1.98
39443683--39443850	40	4.2	40	80	1	149	25	26	24	24	2.00
39443706--39443850	40	3.6	39	83	4	155	23	24	25	26	2.00
39445037--39445150	38	3.0	38	100	0	228	31	23	13	31	1.93
39447383--39447434	24	2.2	24	86	6	70	50	26	3	19	1.65
39449389--39449466	24	3.3	24	89	3	113	30	20	16	32	1.95
39449393--39449465	23	3.1	23	92	2	110	32	19	17	30	1.95
39449516--39449582	20	3.3	20	89	0	107	32	20	13	32	1.92
39453297--39453519	79	2.8	79	84	9	269	24	27	22	26	2.00
39453297--39453519	39	5.7	40	86	8	266	24	27	22	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39454597--39454623	14	1.9	14	100	0	54	0	7	3	88	0.61
39460364--39460427	31	2.1	31	93	0	110	23	23	15	37	1.93
39460642--39460737	23	4.1	23	91	1	138	31	20	18	29	1.97
39460788--39460854	20	3.3	20	89	0	107	32	20	13	32	1.92
39468006--39468041	17	2.1	17	100	0	72	38	27	0	33	1.57
39468464--39468524	30	2.0	30	87	0	86	31	24	4	39	1.77
39476835--39476874	16	2.5	16	100	0	80	12	7	10	70	1.35
39484009--39484070	31	2.0	31	96	0	115	30	3	4	61	1.33
39487639--39487819	40	4.6	40	88	4	224	25	22	25	25	2.00
39499071--39499142	23	3.0	23	81	8	72	34	2	4	58	1.32
39502137--39502185	24	2.1	23	82	17	57	20	22	12	44	1.84
39505276--39505451	46	3.8	44	77	11	176	22	19	28	29	1.98
39505272--39505443	93	1.8	93	90	2	274	22	20	29	28	1.98
39508918--39509005	28	3.1	29	85	8	119	23	13	30	31	1.93
39510123--39510159	18	2.1	19	85	10	51	45	10	16	27	1.80
39516590--39516624	17	2.1	17	94	0	61	25	22	31	20	1.98
39516693--39516780	28	3.1	29	81	4	99	25	13	31	29	1.94
39519514--39519696	48	3.9	48	76	11	209	24	20	25	29	1.99
39519514--39519689	91	1.9	90	88	3	264	25	20	25	29	1.99
39520373--39520534	80	2.0	81	96	3	301	38	6	26	29	1.80
39525320--39525492	46	3.7	47	81	9	203	29	19	28	23	1.98
39525320--39525536	46	4.7	47	79	13	200	29	18	28	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39529020--39529289	46	5.7	49	77	11	201	28	18	29	24	1.98
39539502--39539581	37	2.2	37	86	4	108	27	31	17	23	1.97
39539700--39540104	47	8.6	47	90	1	562	25	30	10	33	1.89
39544716--39545167	40	11.6	40	88	7	646	25	27	22	25	2.00
39546844--39546923	37	2.2	37	86	4	108	27	31	17	23	1.97
39547042--39547446	47	8.6	47	90	1	562	25	30	10	33	1.89
39556503--39556672	46	3.7	46	74	10	175	22	20	28	28	1.99
39559618--39559697	15	5.4	15	77	7	83	10	16	13	60	1.59
39559613--39559697	45	1.9	44	87	2	125	9	15	16	58	1.61
39559609--39559688	30	2.7	30	78	7	90	11	16	15	57	1.65
39562079--39562254	46	3.8	45	78	10	194	21	19	29	30	1.97
39562075--39562246	93	1.8	93	91	0	281	20	19	30	29	1.97
39564703--39564750	18	2.4	19	80	16	53	50	4	2	43	1.33
39567832--39567987	82	1.9	81	85	3	215	26	15	30	28	1.96
39567832--39567983	55	2.8	54	85	3	207	26	15	30	27	1.96
39567832--39567987	27	5.7	27	84	4	188	26	15	30	28	1.96
39567832--39568008	27	6.5	27	78	8	144	25	15	29	28	1.96
39567830--39568008	82	2.2	80	81	6	200	26	16	29	27	1.97
39572723--39572899	27	6.5	27	83	3	149	28	29	15	25	1.96
39572748--39572899	54	2.8	55	84	4	209	27	30	15	26	1.96
39572744--39572899	82	1.9	81	85	3	215	28	30	15	26	1.96
39588850--39589027	27	6.6	27	84	3	205	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)
39588871--39589026	82	1.9	81	88	3	233	29	28	15	26	1.96
39589507--39589533	12	2.2	12	100	0	54	40	0	7	51	1.30
39596875--39597052	27	6.6	27	83	3	196	30	28	14	26	1.95
39596896--39597051	82	1.9	81	86	3	224	30	28	14	26	1.95
39597391--39597451	28	2.2	28	100	0	122	32	21	6	39	1.79
39597564--39597590	12	2.2	12	100	0	54	40	0	7	51	1.30
39604324--39604527	100	2.0	100	98	0	390	26	28	18	25	1.98
39608181--39608231	25	2.0	26	92	7	88	35	19	19	25	1.95
39608187--39608238	24	2.2	24	89	6	79	34	17	17	30	1.93
39608194--39608253	25	2.4	25	83	5	68	33	16	25	25	1.96
39608311--39608357	20	2.3	20	92	7	78	34	19	10	36	1.86
39615601--39615684	26	3.4	25	79	8	91	28	23	21	26	1.99
39615740--39615781	5	8.6	5	80	15	52	38	19	4	38	1.73
39615745--39615783	20	2.0	20	90	10	62	35	17	7	38	1.79
39619331--39619454	27	4.6	27	86	4	151	41	21	7	29	1.80
39619331--39619472	54	2.6	54	83	4	162	41	21	7	29	1.80
39619331--39619472	27	5.3	27	82	3	133	41	21	7	29	1.80
39619493--39619632	27	5.2	27	83	3	165	33	16	21	28	1.95
39620022--39620086	22	3.0	22	82	8	87	20	24	23	32	1.98
39620286--39620352	27	2.5	26	85	4	89	22	22	17	37	1.94
39622002--39622088	34	2.6	34	81	3	86	25	26	21	26	2.00
39640787--39640900	48	2.4	49	83	2	133	21	14	30	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39643878--39643957	25	3.2	25	87	0	106	33	20	17	28	1.95
39646979--39647010	16	2.0	16	100	0	64	18	6	25	50	1.70
39648016--39648084	34	2.0	34	97	0	129	24	11	17	46	1.81
39653971--39654052	25	3.3	25	82	0	92	32	18	19	29	1.95
39653966--39654065	50	2.0	50	80	0	110	36	17	17	30	1.92
39659482--39659558	29	2.6	29	81	2	91	24	14	31	29	1.94
39659511--39659838	174	1.9	174	96	0	611	29	14	25	31	1.94
39663219--39663293	23	3.3	23	73	14	75	36	17	22	24	1.95
39665572--39665704	51	2.6	51	80	2	171	25	18	26	29	1.98
39665572--39665717	49	2.9	51	80	2	188	26	19	26	28	1.98

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