genome.fa.s5.2.7.7.80.10.50.1000.295.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: A05
Parameters: 2 7 7 80 10 50 1000
Length:  100714657

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   

This is table  295  of  318  ( 38109 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)
93992429--93992545	41	2.7	41	87	9	137	13	23	27	35	1.92
93998742--93998790	25	1.9	26	84	12	66	71	2	16	10	1.22
94000299--94000385	21	4.0	23	80	10	92	14	21	25	37	1.92
94005395--94005520	8	15.4	8	71	15	62	34	2	1	61	1.19
94005421--94005475	18	3.1	18	82	7	60	34	1	1	61	1.17
94005394--94005495	43	2.4	43	87	7	140	34	2	0	61	1.17
94005394--94005510	43	2.7	43	84	6	112	35	2	1	60	1.20
94005559--94005606	16	3.0	15	75	16	51	37	0	4	58	1.18
94012891--94012950	22	2.8	21	80	7	66	40	0	0	60	0.97
94013005--94013058	27	2.0	27	85	7	74	51	0	1	46	1.11
94013218--94013278	28	2.2	28	83	16	74	37	0	6	55	1.26
94016282--94016421	46	3.0	47	86	2	178	21	23	14	40	1.90
94019819--94019947	42	3.0	42	89	2	204	28	13	26	31	1.94
94019827--94019947	43	2.9	42	88	2	188	28	14	26	29	1.95
94020125--94020149	11	2.3	11	100	0	50	20	16	28	36	1.93
94022007--94022093	21	4.0	23	80	10	92	37	25	21	14	1.92
94026821--94026849	3	9.7	3	100	0	58	31	0	0	68	0.89
94027260--94027343	26	3.2	26	96	0	150	33	4	25	36	1.77
94033038--94033121	26	3.2	26	96	0	150	33	4	25	36	1.77
94035814--94035851	20	1.9	20	89	10	60	15	5	5	73	1.19
94035813--94035856	20	2.3	19	80	11	54	15	9	4	70	1.30
94036933--94036991	20	3.1	20	74	18	63	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94045026--94045192	24	7.0	24	94	0	253	18	30	30	20	1.96
94066048--94066094	16	2.9	17	87	6	62	40	4	27	27	1.75
94069285--94069364	10	7.8	10	79	10	90	68	2	8	20	1.28
94069987--94070019	8	4.1	8	85	14	50	0	15	0	84	0.61
94071665--94071744	26	3.1	25	71	18	74	28	2	2	66	1.18
94072385--94072410	2	13.0	2	100	0	52	50	50	0	0	1.00
94072668--94072772	39	2.7	39	95	0	183	23	24	20	30	1.99
94075204--94075348	27	5.5	25	77	11	139	30	4	3	61	1.33
94075193--94075308	52	2.2	53	82	4	135	31	6	1	60	1.33
94075205--94075564	26	13.5	26	71	14	175	29	4	5	60	1.38
94075513--94075579	15	4.6	16	69	23	58	31	1	2	64	1.18
94075629--94075686	22	2.5	25	81	10	61	27	3	5	63	1.31
94078135--94078266	39	3.4	39	86	0	201	36	12	10	40	1.78
94078195--94078258	18	3.4	18	73	12	65	39	14	4	42	1.66
94078158--94078261	18	5.4	18	68	13	64	37	12	9	40	1.76
94078413--94078504	44	2.1	44	89	0	139	35	23	19	20	1.95
94079292--94079317	13	2.0	13	100	0	52	0	15	0	84	0.62
94079754--94079805	22	2.3	23	90	6	79	50	3	0	46	1.20
94080539--94080597	6	9.0	7	85	14	58	76	0	1	22	0.88
94080537--94080597	22	2.8	20	83	14	68	77	0	1	21	0.86
94080537--94080594	16	3.5	16	78	21	66	77	0	1	20	0.86
94084685--94084792	21	5.0	22	85	5	123	36	25	23	15	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94084685--94084793	42	2.5	42	83	2	146	35	24	22	16	1.95
94085164--94085221	15	3.8	15	83	2	80	51	10	0	37	1.36
94086492--94086523	5	6.4	5	100	0	64	59	0	0	40	0.97
94088803--94088841	18	2.2	17	86	13	53	33	0	20	46	1.51
94089067--94089164	23	4.3	23	90	2	162	20	21	26	31	1.98
94089069--94089157	45	2.0	45	95	0	160	19	22	26	31	1.97
94091763--94091792	14	2.1	14	100	0	60	6	36	26	30	1.82
94092406--94092463	10	5.8	10	84	8	73	65	1	10	22	1.32
94092406--94092463	30	1.9	30	86	6	82	65	1	10	22	1.32
94101389--94101422	11	3.2	11	91	4	52	29	0	5	64	1.17
94101393--94101422	11	2.6	12	89	10	53	33	0	6	60	1.23
94102052--94102100	21	2.3	21	78	0	53	8	36	22	32	1.84
94108965--94109209	120	2.0	120	100	0	490	50	11	13	24	1.74
94113619--94113666	24	2.0	24	100	0	96	20	12	20	45	1.83
94115174--94115211	20	1.9	19	89	5	58	39	0	2	57	1.12
94116798--94116895	48	2.0	48	98	0	187	23	6	21	48	1.72
94118568--94118592	3	8.3	3	100	0	50	32	0	0	68	0.90
94121707--94121876	89	1.9	89	86	4	245	35	14	23	25	1.93
94124550--94124628	26	3.0	27	83	7	99	34	17	12	35	1.88
94124765--94124810	6	7.7	6	90	0	74	17	26	0	56	1.41
94129266--94129307	21	2.0	21	95	0	75	30	4	21	42	1.73
94129932--94129966	17	2.1	17	100	0	70	28	5	25	40	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94136999--94137070	23	3.3	23	77	15	98	25	8	13	52	1.68
94136990--94137075	42	2.0	42	100	0	172	25	9	13	51	1.71
94136990--94137075	22	4.1	22	73	18	76	25	9	13	51	1.71
94138436--94138483	24	2.0	24	100	0	96	37	25	4	33	1.75
94138437--94138496	24	2.5	24	86	5	68	40	26	3	30	1.72
94139566--94139682	34	3.5	33	81	5	137	41	38	6	13	1.71
94142778--94142826	6	8.2	6	84	8	64	79	0	20	0	0.73
94143562--94143586	13	1.9	13	100	0	50	44	0	8	48	1.32
94149017--94149058	15	2.8	15	79	10	50	28	2	9	59	1.41
94152121--94152358	54	4.3	54	78	9	264	34	19	17	28	1.94
94151999--94152358	166	2.2	165	83	5	431	33	20	18	28	1.96
94153502--94153569	29	2.3	29	100	0	136	35	11	2	50	1.54
94155197--94155223	8	3.4	8	100	0	54	11	11	0	77	0.99
94155190--94155244	20	2.7	19	78	13	65	9	14	3	72	1.23
94155241--94155278	17	2.2	18	85	4	51	26	2	0	71	1.00
94155275--94155326	23	2.2	24	79	3	61	42	0	3	53	1.19
94155285--94155343	26	2.3	25	77	13	66	38	1	5	54	1.33
94155320--94155376	22	2.6	23	83	10	75	36	1	1	59	1.18
94155434--94155466	14	2.3	15	94	5	59	42	0	0	57	0.98
94155689--94155724	17	2.1	17	89	0	54	16	2	0	80	0.83
94155966--94156018	12	4.6	12	76	19	51	81	0	3	15	0.83
94155957--94156019	23	2.8	22	77	15	67	77	0	3	19	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94155969--94156014	18	2.6	17	83	6	65	80	0	4	15	0.86
94155969--94156017	8	5.8	8	77	13	53	81	0	4	14	0.83
94156064--94156118	21	2.6	22	80	5	60	56	1	1	40	1.21
94156104--94156140	12	3.1	13	92	7	53	59	0	0	40	0.97
94156514--94156670	31	4.8	31	74	16	108	57	0	1	40	1.14
94156529--94156574	22	2.1	22	84	8	58	58	0	0	41	0.98
94156593--94156647	22	2.5	22	85	8	69	60	1	1	36	1.18
94156644--94156692	22	2.1	23	85	7	64	51	0	0	48	1.00
94158646--94158676	16	2.0	16	93	6	55	25	19	9	45	1.81
94160137--94160205	31	2.3	30	80	9	77	52	5	2	39	1.41
94160619--94160683	30	2.1	32	85	8	89	64	3	0	32	1.09
94165912--94166023	49	2.3	49	76	7	120	23	14	27	34	1.93
94167498--94167553	6	9.5	6	83	9	53	5	16	0	78	0.92
94178282--94178313	5	6.4	5	100	0	64	81	0	18	0	0.70
94178287--94178330	14	3.1	14	83	3	52	75	6	15	2	1.12
94183986--94184036	18	2.8	18	80	11	59	33	15	15	35	1.90
94193124--94193199	31	2.4	31	82	6	91	60	3	0	35	1.15
94193130--94193189	23	2.7	23	71	16	56	63	1	0	35	1.05
94196805--94197052	42	5.9	42	92	1	399	33	20	20	24	1.97
94197121--94197154	14	2.4	14	95	0	59	52	20	8	17	1.71
94197378--94197448	21	3.4	21	80	0	79	2	45	18	33	1.64
94198196--94198704	230	2.2	231	89	1	772	33	19	18	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94199156--94199192	7	5.3	7	90	0	56	43	54	0	2	1.14
94199484--94199514	15	2.0	16	93	6	55	38	45	0	16	1.47
94199780--94199828	18	2.5	21	80	9	59	26	2	10	61	1.39
94200380--94200478	39	2.5	38	80	9	101	14	19	23	43	1.87
94200927--94200980	17	3.2	17	73	19	51	59	1	3	35	1.26
94201174--94201224	23	2.2	24	86	10	70	35	1	7	54	1.40
94201429--94201472	22	2.0	22	100	0	88	45	0	13	40	1.44
94201630--94201695	21	3.0	22	80	13	73	36	1	4	57	1.28
94201595--94201698	51	2.0	52	81	5	122	37	2	4	54	1.36
94202049--94202107	14	4.4	14	81	8	52	57	1	3	37	1.25

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