genome.fa.s11.2.7.7.80.10.50.1000.307.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: A11
Parameters: 2 7 7 80 10 50 1000
Length:  114316535

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   
          321   322   323   324   325   326   327   328   329   330   331   332   333   334   335   336   
          337   338   339   340   341   342   343   344   345   346   347   348   349   350   351   352   
          353   354   355   356   

This is table  307  of  356  ( 42641 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)
99844725--99844763	19	2.1	19	95	0	69	15	5	28	51	1.64
99848871--99848908	20	1.9	20	88	0	58	50	2	0	47	1.15
99855630--99855707	24	3.2	24	83	0	102	39	3	37	19	1.70
99857135--99857245	27	4.1	27	88	1	143	15	23	21	39	1.91
99863048--99863225	27	6.6	27	84	3	205	29	28	15	26	1.96
99863069--99863224	82	1.9	81	88	3	233	29	28	15	26	1.96
99865847--99865877	11	2.8	11	95	0	53	45	0	9	45	1.36
99877141--99877294	43	3.6	41	74	6	137	27	14	24	33	1.95
99880139--99880198	29	2.1	29	96	0	111	30	1	20	48	1.59
99880303--99880337	18	1.9	18	100	0	70	45	14	17	22	1.84
99880553--99880659	34	3.1	34	84	0	142	32	18	20	28	1.96
99883491--99883534	21	2.1	21	91	0	70	54	11	15	18	1.70
99886374--99886684	170	1.8	172	80	2	385	26	13	22	37	1.91
99888764--99888803	21	1.9	21	84	0	53	32	25	22	20	1.98
99896624--99896691	34	2.0	34	100	0	136	32	14	20	32	1.93
99901407--99901449	22	2.0	21	86	4	59	27	6	0	65	1.18
99902107--99902205	52	1.9	52	95	0	180	36	8	8	47	1.63
99907820--99907957	54	2.5	53	91	4	215	30	19	20	29	1.97
99909316--99909416	38	2.7	37	74	18	95	38	1	2	56	1.26
99909386--99909435	23	2.3	22	90	10	77	44	0	2	54	1.11
99909398--99909440	23	1.9	23	85	4	61	46	0	2	51	1.13
99909724--99909762	13	2.9	14	80	3	53	76	0	7	15	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
99910802--99910830	6	5.0	6	91	8	51	17	17	17	48	1.82
99910802--99910830	11	2.5	12	94	5	51	17	17	17	48	1.82
99910811--99910920	45	2.5	45	88	4	152	20	17	19	42	1.89
99912585--99912633	22	2.2	22	96	0	89	30	26	12	30	1.92
99915306--99915405	51	2.0	51	83	0	128	31	25	19	25	1.98
99917757--99917800	7	6.4	7	87	12	65	27	0	0	72	0.85
99919637--99919711	29	2.5	30	76	8	73	58	8	12	21	1.59
99936735--99936777	20	2.2	20	95	0	77	37	0	30	32	1.58
99938945--99938998	20	2.7	21	88	8	85	35	31	5	27	1.80
99941153--99941192	21	2.0	20	90	5	62	35	0	22	42	1.54
99941158--99941200	21	2.1	21	83	12	54	32	2	20	44	1.65
99944583--99945026	35	12.6	35	84	2	408	31	24	13	30	1.94
99944581--99945026	173	2.5	172	81	4	498	31	24	14	30	1.94
99950145--99950366	79	2.8	76	81	10	248	24	27	22	25	2.00
99950145--99950368	40	5.7	40	84	8	264	25	27	22	25	2.00
99956263--99956290	12	2.3	12	100	0	56	14	7	0	78	0.95
99956235--99956312	41	1.9	41	84	7	106	12	12	2	71	1.24
99956234--99956322	41	2.2	39	79	15	99	13	11	2	73	1.20
99956355--99956424	24	3.1	23	80	15	67	40	0	1	58	1.07
99956364--99956524	20	7.7	21	67	21	81	40	0	3	55	1.20
99956373--99956432	21	2.9	21	82	9	70	43	0	0	56	0.99
99956490--99956531	18	2.2	18	87	8	57	42	0	2	54	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
99956476--99956578	52	1.9	54	84	9	140	40	0	4	54	1.22
99956510--99956583	23	3.2	23	81	9	80	40	0	4	55	1.19
99956615--99956699	23	3.7	22	74	13	73	47	3	0	49	1.18
99956783--99956807	10	2.5	10	100	0	50	76	0	8	16	1.02
99957535--99957631	43	2.3	44	89	5	146	49	13	6	30	1.66
99960953--99961087	40	3.4	40	88	4	202	24	22	28	25	1.99
99960953--99961120	79	2.1	79	83	6	207	26	21	27	25	1.99
99968973--99969196	40	5.7	40	85	7	264	25	22	27	24	2.00
99969026--99969196	78	2.2	78	87	6	238	25	22	28	24	2.00
99969026--99969229	79	2.6	79	83	5	218	26	21	27	24	1.99
99973483--99973574	43	2.1	43	90	4	141	52	14	5	28	1.63
99975773--99975814	22	1.9	21	85	9	57	35	0	0	64	0.94
99984991--99985020	2	15.0	2	100	0	60	50	0	0	50	1.00
99988786--99988871	43	2.0	43	88	0	127	55	0	23	20	1.43
99988813--99988856	15	2.8	17	74	19	51	54	0	22	22	1.45
99990200--99990304	49	2.2	49	86	5	151	43	5	26	23	1.76
99991108--99991156	22	2.2	22	77	0	53	16	16	10	57	1.65
99992392--99992537	27	5.4	27	88	0	211	26	24	9	39	1.86
99992569--99992777	27	7.7	27	70	8	136	40	18	8	33	1.80
99992569--99992770	54	3.7	54	75	5	199	41	17	8	33	1.79
99992577--99992775	110	1.8	108	82	2	254	40	18	8	32	1.81
99992772--99992873	27	3.8	27	70	10	73	38	19	19	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
99993566--99993632	20	3.3	20	89	4	100	40	10	17	31	1.84
99993682--99993782	26	3.9	26	90	0	166	28	21	20	28	1.98
99993682--99993868	64	3.4	52	80	17	234	28	22	21	27	1.99
99993789--99993868	25	3.2	25	89	1	124	26	23	22	27	2.00
99994086--99994217	31	4.3	31	90	0	210	34	15	21	29	1.94
99994086--99994260	93	1.9	92	85	8	223	32	17	22	27	1.96
99999118--99999210	29	3.2	30	77	8	86	24	32	15	27	1.95
100000675--100000707	16	2.1	16	94	0	57	15	6	30	48	1.69
100006429--100006540	29	3.9	29	70	1	73	27	29	13	29	1.94
100040857--100040994	24	5.7	24	80	12	158	23	30	15	29	1.96
100040833--100040993	49	3.3	49	90	6	231	24	29	15	30	1.96
100040857--100040994	73	1.9	73	87	3	206	23	30	15	29	1.96
100040857--100041017	49	3.3	48	84	8	177	24	30	16	28	1.96
100040857--100041017	73	2.2	73	84	2	198	24	30	16	28	1.96
100042069--100042107	20	1.9	21	89	5	62	20	7	0	71	1.10
100043999--100044038	21	1.9	21	85	10	55	50	22	2	25	1.62
100045798--100045878	42	1.9	42	85	5	110	35	22	11	30	1.89
100047417--100047466	24	2.1	24	96	0	91	42	24	4	30	1.73
100049830--100049958	50	2.5	51	88	5	190	35	17	22	24	1.95
100049947--100049995	24	2.0	24	92	0	80	30	24	18	26	1.98
100049936--100050087	62	2.6	56	83	9	189	28	19	25	26	1.99
100049971--100050106	31	4.4	31	91	0	218	25	20	26	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
100050225--100050318	42	2.2	42	86	3	127	32	13	25	27	1.94
100050301--100050336	18	2.0	18	100	0	72	33	11	33	22	1.89
100052003--100052037	14	2.6	13	95	4	61	5	17	0	77	0.96
100054590--100054660	22	3.1	22	71	18	65	40	5	0	53	1.24
100055861--100055920	27	2.1	30	87	12	90	70	5	0	25	1.08
100056983--100057024	21	2.0	21	86	4	59	28	2	30	38	1.70
100066640--100066733	46	2.0	46	89	4	145	55	8	0	36	1.31
100068926--100069043	25	4.3	27	77	14	116	17	15	16	50	1.79
100071124--100071150	14	1.9	14	100	0	54	44	7	22	25	1.79
100076417--100076466	6	8.5	6	95	2	84	14	0	36	50	1.43
100082610--100082649	20	2.0	20	100	0	80	40	20	0	40	1.52
100091671--100091895	122	1.9	120	90	3	362	40	10	19	29	1.85
100095944--100096241	40	7.5	40	91	1	440	22	23	27	26	1.99
100104148--100104405	40	6.5	40	91	2	378	22	22	27	26	1.99
100112508--100112731	122	1.9	122	85	3	319	39	11	19	29	1.86
100114616--100114652	18	2.1	18	100	0	74	37	5	16	40	1.71
100117270--100117311	9	4.7	9	85	8	50	0	19	2	78	0.86
100117270--100117308	13	2.9	14	85	14	55	0	17	2	79	0.84
100117427--100117468	21	2.0	21	95	0	75	40	9	16	33	1.81
100120652--100120707	28	2.0	27	82	3	67	21	25	23	30	1.99
100121651--100121714	34	1.9	33	81	15	78	29	23	20	26	1.99
100128278--100128331	26	2.1	26	100	0	108	31	33	25	9	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
100142078--100142215	33	4.2	32	76	5	116	35	21	10	31	1.88
100142085--100142212	65	2.0	66	90	1	204	36	21	11	29	1.89
100142094--100142210	33	3.6	33	81	2	146	39	20	11	29	1.87
100142215--100142313	29	3.4	29	95	0	180	23	29	12	35	1.91
100145727--100145769	22	2.0	21	81	4	50	58	4	2	34	1.32
100147739--100147776	3	12.7	3	94	0	67	0	31	0	68	0.90
100148308--100148340	15	2.1	16	94	5	59	57	0	0	42	0.98
100148379--100148420	22	2.1	19	86	13	57	52	2	0	45	1.13
100149987--100150013	13	2.1	13	100	0	54	14	37	33	14	1.88
100157144--100157201	30	1.9	30	92	0	98	32	13	25	27	1.94

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   
          321   322   323   324   325   326   327   328   329   330   331   332   333   334   335   336   
          337   338   339   340   341   342   343   344   345   346   347   348   349   350   351   352   
          353   354   355   356