genome.fa.s1.2.7.7.80.10.50.1000.13.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: A01
Parameters: 2 7 7 80 10 50 1000
Length:  104050246

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   

This is table  13  of  316  ( 37835 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)
4032332--4032660	92	3.6	91	87	1	273	39	15	23	20	1.91
4042396--4042483	45	2.0	45	95	0	158	48	14	21	14	1.80
4042396--4042505	45	2.5	44	88	2	150	47	14	23	14	1.81
4043282--4043429	77	1.9	77	93	1	253	28	17	22	31	1.97
4043364--4043483	64	1.9	64	92	0	204	24	18	27	30	1.98
4043561--4043820	64	3.9	64	82	13	333	26	18	24	31	1.97
4043352--4043727	197	1.9	196	96	0	689	28	16	22	32	1.96
4043547--4043874	140	2.3	140	94	1	566	28	17	22	32	1.96
4043625--4043874	76	3.4	76	78	14	301	28	17	22	31	1.96
4043288--4043953	337	2.0	337	92	1	1104	27	17	21	32	1.96
4045647--4046217	130	4.1	136	84	10	741	29	4	5	60	1.40
4045866--4046085	32	6.9	31	64	15	83	29	5	3	62	1.31
4046101--4046140	10	4.1	10	83	3	55	37	0	10	52	1.35
4046090--4046136	16	3.0	16	75	3	51	36	0	6	57	1.24
4045698--4046252	145	4.0	144	80	10	568	29	5	5	59	1.42
4045652--4046345	275	2.5	275	83	7	670	30	5	5	58	1.43
4050357--4050418	27	2.3	26	79	15	65	35	6	1	56	1.35
4050404--4050443	20	1.9	21	90	10	64	42	5	0	52	1.23
4050423--4050461	18	2.2	18	86	4	53	35	2	0	61	1.10
4051255--4051279	11	2.3	11	100	0	50	24	0	8	68	1.16
4051299--4051341	19	2.3	19	92	4	70	39	0	4	55	1.20
4051426--4051455	9	3.3	9	90	0	51	30	10	13	46	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4063015--4063071	28	2.0	28	90	6	89	33	0	7	59	1.24
4065730--4065803	31	2.4	32	86	8	93	24	10	14	50	1.75
4066963--4067005	18	2.4	18	88	7	61	53	0	0	46	1.00
4068646--4068703	26	2.2	26	90	0	89	34	6	24	34	1.82
4074413--4074502	18	5.2	18	72	12	64	62	6	1	30	1.28
4074406--4074456	17	3.1	17	78	13	61	62	7	1	27	1.33
4074473--4074515	22	2.0	21	86	9	59	65	0	0	34	0.93
4075044--4075069	13	2.0	13	100	0	52	15	0	46	38	1.46
4075087--4075121	17	2.1	17	100	0	70	17	0	54	28	1.43
4075570--4075835	134	2.0	134	89	1	408	31	21	17	29	1.96
4075693--4076367	178	3.8	178	90	1	1050	29	22	18	29	1.98
4075368--4076014	312	2.1	311	88	1	956	29	22	19	29	1.98
4075368--4076100	312	2.4	310	84	4	782	29	21	19	29	1.98
4075693--4076367	355	1.9	356	91	0	1118	29	22	18	29	1.98
4076291--4076456	89	1.9	89	93	0	287	31	19	18	30	1.96
4076119--4076603	267	1.8	266	88	2	688	29	22	18	29	1.97
4076704--4076828	64	2.0	64	93	0	214	36	17	17	28	1.93
4078425--4078474	10	4.8	10	78	9	55	0	6	10	84	0.79
4079660--4079736	22	3.6	21	78	5	75	51	35	0	12	1.40
4080412--4080448	11	3.6	11	79	20	53	0	32	0	67	0.91
4081147--4081194	22	2.3	20	89	7	69	39	4	8	47	1.53
4081377--4081404	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4082176--4082220	17	2.4	18	82	17	56	31	6	6	55	1.52
4082682--4082728	24	2.0	24	86	0	67	36	0	6	57	1.24
4082976--4083002	9	3.0	9	100	0	54	33	11	0	55	1.35
4087564--4087673	26	4.2	26	96	0	175	32	5	24	37	1.78
4098218--4098620	75	5.5	72	82	5	493	31	16	20	31	1.95
4099208--4099260	20	2.5	21	75	9	63	54	33	0	11	1.36
4100616--4100657	22	2.0	21	90	4	66	38	4	9	47	1.57
4101621--4101665	17	2.4	18	82	17	56	31	6	6	55	1.52
4102121--4102167	24	2.0	24	86	0	67	36	0	6	57	1.24
4102415--4102441	9	3.0	9	100	0	54	33	11	0	55	1.35
4106994--4107037	23	2.0	22	86	4	61	65	0	0	34	0.93
4107049--4107106	15	3.9	14	73	10	53	72	6	5	15	1.24
4107581--4107626	24	1.9	24	95	0	83	26	2	45	26	1.65
4113999--4114049	25	2.0	25	100	0	102	52	19	11	15	1.73
4121242--4121281	21	1.9	21	84	0	53	30	17	5	47	1.69
4123039--4123073	15	2.3	15	90	9	54	11	5	5	77	1.12
4123061--4123090	9	3.3	9	95	0	51	10	3	0	86	0.67
4130056--4130108	26	2.0	27	85	7	74	24	15	22	37	1.92
4132669--4132722	21	2.5	21	87	3	81	33	5	0	61	1.19
4132669--4132759	21	4.0	21	69	27	53	30	7	0	61	1.24
4132781--4132827	23	2.0	23	87	0	67	38	8	0	53	1.32
4133061--4133112	28	2.0	27	85	11	72	26	11	3	57	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4133058--4133123	28	2.4	28	74	23	68	28	12	3	56	1.51
4134705--4134729	12	2.1	12	100	0	50	12	24	0	64	1.27
4139699--4139777	37	2.1	37	97	0	149	35	2	29	32	1.71
4139700--4139759	18	3.3	18	68	13	59	40	1	26	31	1.66
4144337--4144384	21	2.3	22	82	10	64	39	2	0	58	1.10
4144349--4144401	7	7.7	7	91	2	72	37	0	0	62	0.96
4145472--4145508	11	3.5	11	85	7	58	27	8	45	18	1.77
4149576--4149611	18	2.0	18	100	0	72	33	16	22	27	1.95
4150149--4150201	11	4.9	11	83	2	54	30	3	45	20	1.69
4156907--4156938	13	2.5	13	95	5	57	31	9	0	59	1.29
4157102--4157140	21	1.9	21	89	5	62	30	2	12	53	1.52
4157368--4157410	20	2.2	19	84	12	52	32	2	2	62	1.20
4157427--4157482	23	2.6	22	81	15	64	33	3	8	53	1.49
4157798--4157829	9	3.6	9	95	0	55	31	9	0	59	1.29
4159590--4159790	100	2.0	100	100	0	402	37	9	19	32	1.85
4160736--4160773	16	2.3	17	86	4	51	78	7	0	13	0.94
4160866--4160899	11	3.1	11	95	0	59	0	50	0	50	1.00
4161383--4161416	6	5.5	6	93	6	59	32	0	14	52	1.42
4161530--4161555	12	2.2	12	100	0	52	30	7	0	61	1.24
4161772--4161903	64	2.1	64	83	11	164	37	4	2	56	1.33
4161834--4161893	20	3.0	18	76	21	57	35	5	1	58	1.30
4162253--4162347	38	2.5	37	78	13	97	36	12	1	49	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4163982--4164038	30	1.9	30	89	7	89	31	3	7	57	1.42
4164403--4164452	25	2.1	24	85	7	66	70	24	2	4	1.15
4164462--4164486	8	3.1	8	100	0	50	24	52	12	12	1.72
4164681--4164717	17	2.2	17	90	0	56	16	5	0	78	0.93
4164757--4164807	13	3.8	13	80	12	59	74	3	0	21	0.98
4165231--4165260	11	2.7	11	89	0	51	40	0	0	60	0.97
4165649--4165683	16	2.3	15	90	5	52	31	2	2	62	1.24
4169269--4169296	12	2.3	12	100	0	56	25	25	7	42	1.80
4190518--4190561	17	2.5	17	92	3	70	18	9	13	59	1.60
4196480--4196760	43	6.5	42	83	3	231	26	19	27	26	1.99
4196476--4196760	86	3.3	86	82	7	355	26	19	28	25	1.99
4196476--4196760	129	2.2	130	84	4	380	26	19	28	25	1.99
4197659--4197702	22	2.0	22	100	0	88	31	27	9	31	1.88
4202729--4202835	9	11.6	9	77	5	106	31	0	20	46	1.57
4202744--4202829	18	4.8	18	86	0	118	31	1	20	46	1.59
4202745--4202835	27	3.4	27	87	0	128	31	1	19	47	1.57
4202950--4203557	204	3.0	205	97	0	1155	32	14	19	33	1.92
4203690--4203739	23	2.2	23	100	0	100	34	16	16	34	1.90
4209450--4209483	17	1.9	17	88	5	50	73	2	0	23	0.97
4209615--4209658	16	2.6	17	78	7	54	47	2	6	43	1.42
4209811--4209866	21	2.6	21	77	11	60	48	28	0	23	1.51
4209813--4209966	79	1.9	80	85	1	211	39	34	1	24	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4210216--4210252	16	2.5	14	91	8	56	48	32	0	18	1.49
4211050--4211150	41	2.4	43	83	8	129	28	22	14	33	1.94
4212280--4212327	7	6.7	7	76	4	51	43	2	0	54	1.12
4212281--4212319	15	2.6	14	88	8	51	43	0	0	56	0.99
4212280--4212324	22	2.0	22	86	0	63	46	2	0	51	1.13
4237453--4237535	42	2.0	43	82	2	105	50	1	7	40	1.38
4246484--4246513	14	2.1	15	93	6	53	23	6	13	56	1.60
4249035--4249073	10	3.8	10	93	6	69	33	17	17	30	1.94
4249034--4249073	21	1.9	21	100	0	80	35	17	17	30	1.93
4254855--4255155	3	99.3	3	69	9	110	59	1	10	28	1.41

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