genome.fa.s12.2.7.7.80.10.50.1000.143.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  143  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)
46866133--46866208	34	2.2	34	86	4	100	22	22	25	30	1.99
46868245--46868427	67	2.8	64	76	8	174	30	17	29	22	1.97
46877156--46877283	66	1.9	65	84	6	168	32	17	30	20	1.95
46877127--46877305	63	2.8	63	78	9	193	30	17	30	22	1.96
46908263--46908435	46	3.7	46	79	10	199	22	20	27	29	1.99
46908260--46908430	93	1.8	93	92	0	288	22	21	28	28	1.99
46921955--46921979	4	6.2	4	100	0	50	76	0	24	0	0.80
46921984--46922024	20	2.0	20	100	0	82	19	24	9	46	1.80
46926700--46926808	37	2.9	37	93	0	182	27	31	18	22	1.97
46926959--46927055	50	1.9	50	87	4	142	28	24	9	37	1.86
46927013--46927205	47	4.1	47	91	2	255	26	29	10	33	1.90
46927058--46927176	23	5.1	22	62	28	59	24	30	13	31	1.93
46930653--46930686	12	2.7	13	81	9	52	26	14	26	32	1.95
46933584--46933636	26	2.0	26	96	0	97	30	16	24	28	1.97
46944653--46944704	21	2.9	17	72	22	52	51	0	0	48	1.00
46944659--46944701	21	2.0	21	90	0	68	46	0	0	53	1.00
46945974--46946024	24	2.1	24	100	0	102	35	23	7	33	1.84
46947475--46947502	12	2.3	12	100	0	56	14	25	25	35	1.93
46949906--46950100	93	2.1	92	88	4	286	44	4	4	47	1.41
46950133--46950166	17	2.0	17	94	0	59	44	5	0	50	1.26
46950133--46950171	17	2.4	16	87	8	53	43	5	0	51	1.24
46950137--46950176	17	2.3	18	83	12	57	47	5	0	47	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46950256--46950307	15	3.6	15	80	12	56	44	0	1	53	1.11
46950132--46950423	120	2.4	120	91	5	459	41	2	5	50	1.40
46950205--46950388	59	3.1	59	65	21	148	41	2	7	49	1.42
46950385--46950426	15	2.7	16	82	14	52	45	0	2	52	1.13
46950376--46950417	15	2.9	15	82	10	52	47	0	0	52	1.00
46950360--46950673	154	2.0	156	95	1	569	46	5	3	44	1.41
46950526--46950560	18	2.0	17	88	5	52	45	0	0	54	0.99
46950361--46950596	75	3.1	75	65	16	203	46	2	3	47	1.34
46950793--46950831	16	2.4	16	86	0	51	28	33	2	35	1.71
46950806--46950862	16	3.6	16	95	0	87	33	36	0	29	1.58
46953088--46953120	4	8.2	4	100	0	66	24	0	24	51	1.48
46959087--46959274	40	4.7	40	94	0	304	30	20	26	22	1.98
46961973--46962124	27	5.6	27	91	2	232	30	28	14	26	1.95
46961973--46962124	55	2.8	54	89	2	232	30	28	14	26	1.95
46961973--46962124	82	1.9	82	91	0	250	30	28	14	26	1.95
46964696--46964841	27	5.3	27	91	2	229	30	27	14	28	1.95
46964696--46964841	55	2.7	54	90	2	229	30	27	14	28	1.95
46971166--46971221	27	2.1	27	86	6	78	25	14	21	39	1.91
46972632--46972818	96	1.9	96	91	2	304	27	16	28	27	1.97
46972643--46972821	48	3.7	48	76	8	202	28	17	28	25	1.97
46975277--46975339	16	4.1	15	79	6	72	41	7	25	25	1.82
46975551--46975675	57	2.2	57	80	11	132	53	4	0	41	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46981329--46981621	122	2.4	122	85	0	390	28	25	13	32	1.94
46981329--46981621	61	4.8	61	80	2	275	28	25	13	32	1.94
46984893--46984961	29	2.4	28	87	2	84	26	33	15	24	1.95
46984905--46984968	29	2.2	29	91	2	103	26	29	14	29	1.95
46989918--46989957	18	2.2	19	90	4	64	22	27	25	25	2.00
46992508--46992626	29	4.2	28	82	10	118	25	31	14	28	1.94
46994857--46994933	33	2.3	33	93	4	129	15	6	32	45	1.72
46994857--46994966	33	3.3	32	85	8	123	15	7	34	42	1.75
46995394--46995427	11	3.2	11	83	8	52	52	0	26	20	1.46
46997652--46997732	26	3.2	25	72	6	74	22	20	17	39	1.92
46997761--46997828	26	2.6	26	97	0	127	16	23	22	38	1.93
47001271--47001502	103	2.3	103	94	1	412	23	22	19	34	1.96
47001456--47001542	44	2.0	44	82	8	106	25	26	14	33	1.95
47001353--47001738	148	2.6	147	87	4	555	24	23	17	33	1.96
47001604--47002007	180	2.3	177	87	5	562	27	24	17	30	1.97
47001906--47002008	45	2.3	44	83	8	127	30	24	17	28	1.97
47002185--47002440	64	4.0	64	90	0	359	37	15	17	29	1.90
47002492--47002522	7	4.4	7	91	0	53	0	16	0	83	0.64
47004998--47005034	19	1.9	19	88	0	56	64	2	13	18	1.39
47006834--47006893	28	2.1	28	96	0	111	30	18	28	23	1.98
47013158--47013269	27	4.2	26	78	7	107	37	23	23	16	1.93
47014700--47014773	24	3.1	24	94	0	121	21	41	5	31	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47016067--47016109	22	2.0	22	95	0	77	39	20	23	16	1.92
47016060--47016171	25	4.6	25	81	8	126	42	18	19	18	1.89
47017425--47017487	3	21.3	3	76	15	60	61	4	0	33	1.17
47017430--47017490	19	3.2	19	75	11	54	62	4	0	32	1.17
47017595--47017631	18	1.9	18	89	10	56	40	5	0	54	1.24
47023667--47023709	21	2.0	21	95	0	77	27	0	37	34	1.57
47023690--47023722	16	2.1	16	94	0	57	33	0	36	30	1.58
47023701--47023795	45	2.1	44	88	1	136	34	5	27	32	1.79
47023957--47023991	18	2.0	17	88	5	52	54	0	0	45	0.99
47023915--47023987	27	2.7	27	76	8	76	52	2	0	45	1.15
47024093--47024134	17	2.5	17	85	14	52	54	0	0	45	0.99
47024100--47024134	18	2.0	17	88	5	52	54	0	0	45	0.99
47023876--47024146	143	1.9	147	93	4	478	46	3	2	46	1.34
47023888--47024276	129	2.8	142	81	12	384	49	4	2	43	1.36
47024084--47024316	129	1.8	129	94	1	414	49	6	2	42	1.39
47024229--47024263	18	2.0	17	88	5	52	60	0	0	40	0.97
47024304--47024350	17	2.9	16	78	18	53	46	2	6	44	1.40
47024323--47024356	17	2.0	17	94	0	59	50	0	5	44	1.26
47024389--47024582	92	2.1	91	88	5	284	46	4	4	44	1.41
47025981--47026007	11	2.5	11	100	0	54	51	18	7	22	1.70
47037202--47037234	13	2.6	13	90	4	50	48	12	0	39	1.40
47038310--47038350	22	1.9	22	85	5	57	48	19	7	24	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47040087--47040178	5	17.8	5	73	18	66	77	1	4	17	0.99
47045169--47046379	604	2.0	604	99	0	2386	33	14	22	29	1.94
47050122--47050208	25	3.5	25	87	0	120	40	17	21	20	1.92
47065527--47065563	15	2.4	16	86	13	51	35	13	2	48	1.57
47074405--47074431	13	2.1	13	100	0	54	18	7	22	51	1.70
47075577--47075609	17	2.0	16	94	5	57	36	3	0	60	1.12
47076450--47076505	25	2.2	25	100	0	112	41	0	14	44	1.45
47079144--47079287	46	3.1	44	68	21	98	29	27	20	22	1.98
47082129--47082177	22	2.3	23	79	13	59	24	4	18	53	1.62
47083167--47083438	40	6.8	40	78	5	253	18	27	17	36	1.93
47083189--47083295	20	5.3	20	65	14	60	19	29	13	37	1.90
47083260--47083306	20	2.3	21	75	10	53	19	31	12	36	1.89
47083314--47083375	20	3.1	20	71	17	65	14	33	19	32	1.92
47083167--47083444	120	2.3	120	76	6	285	18	28	17	35	1.94
47089149--47089192	19	2.2	20	84	4	54	34	25	18	22	1.96
47097773--47097960	40	4.7	40	92	0	313	21	26	20	31	1.98
47101971--47102122	27	5.6	27	93	3	241	26	13	28	30	1.94
47101971--47102122	55	2.8	55	94	0	259	26	13	28	30	1.94
47119632--47119903	40	6.8	40	92	1	237	28	25	20	25	1.99
47119612--47119902	80	3.6	79	86	3	343	29	25	20	24	1.99
47119676--47119902	120	1.9	120	90	1	366	29	25	20	25	1.99
47128355--47128405	23	2.2	23	96	0	93	21	9	33	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47130575--47130687	43	2.6	43	80	5	122	24	16	25	32	1.96
47131041--47131098	28	2.1	28	96	0	107	36	18	8	36	1.82
47137592--47137679	20	4.4	20	71	8	63	39	15	29	14	1.88
47137584--47137860	40	6.9	40	84	0	320	37	18	28	14	1.91
47137584--47137762	20	8.9	20	62	9	60	39	17	27	15	1.90
47137757--47137860	20	5.2	20	69	9	77	37	21	27	13	1.91
47137584--47137902	120	2.7	118	80	2	350	38	18	26	16	1.92
47137584--47137902	80	4.0	80	80	4	331	38	18	26	16	1.92
47137951--47137993	21	2.0	21	100	0	86	46	18	4	30	1.69
47139543--47139619	38	2.0	38	100	0	154	29	18	10	41	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   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