genome.fa.s1.2.7.7.80.10.50.1000.15.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: Chr01 113035596 
Parameters: 2 7 7 80 10 50 1000
Length:  113035596

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   357   358   359   360   361   362   363   364   365   366   367   368   
          369   370   371   372   373   374   375   376   377   378   

This is table  15  of  378  ( 45343 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)
4167139--4167201	13	4.8	13	80	16	69	87	0	11	1	0.62
4167139--4167202	20	3.2	20	86	6	94	87	0	10	1	0.61
4168202--4168591	41	9.3	41	62	18	133	30	24	22	22	1.99
4168149--4168767	84	7.3	84	91	3	877	31	23	21	23	1.98
4168918--4169405	44	11.1	44	85	7	553	28	14	27	28	1.95
4169299--4169400	45	2.4	42	85	10	152	30	14	30	24	1.95
4169313--4169405	45	2.1	45	95	0	168	29	15	31	24	1.95
4169750--4169856	17	5.9	19	84	11	154	36	11	14	37	1.83
4169758--4169856	35	2.8	35	93	1	171	36	12	14	37	1.83
4169801--4169866	18	3.5	21	76	17	65	37	9	15	37	1.79
4172508--4172544	14	2.6	15	83	12	51	37	5	0	56	1.22
4174665--4174707	20	2.2	20	83	8	52	62	18	0	18	1.32
4175876--4176018	3	48.0	3	76	12	116	32	6	0	59	1.29
4176082--4176139	23	2.4	25	77	13	68	37	1	5	55	1.33
4176275--4176336	23	2.7	23	80	7	74	37	4	4	53	1.44
4176294--4176341	23	2.0	23	84	8	60	33	2	4	60	1.27
4176409--4176475	18	3.6	18	82	9	73	19	2	1	76	1.00
4176440--4176484	20	2.2	21	88	4	65	26	4	2	66	1.22
4176480--4176513	8	4.5	8	96	3	54	29	0	5	64	1.17
4176480--4176513	15	2.3	15	90	10	52	29	0	5	64	1.17
4179939--4179965	6	4.5	6	100	0	54	66	0	0	33	0.92
4180593--4180649	30	1.9	30	96	0	105	24	19	14	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4182980--4183010	15	2.1	15	93	0	53	58	0	9	32	1.31
4184604--4184747	44	3.3	44	70	14	136	19	23	21	35	1.96
4184513--4184795	86	3.3	86	86	3	293	20	22	20	37	1.95
4185085--4185282	43	4.6	42	77	7	200	18	24	21	35	1.95
4185121--4185283	86	1.9	85	86	3	229	18	23	22	35	1.95
4186147--4186177	1	31.0	1	93	0	53	0	3	0	96	0.21
4197718--4197942	41	5.6	40	76	10	201	19	24	20	36	1.95
4197718--4197941	79	2.8	80	77	10	233	19	24	20	35	1.95
4198753--4198777	1	25.0	1	100	0	50	0	0	0	100	0.00
4210546--4210576	15	2.1	15	93	0	53	58	0	9	32	1.31
4211257--4211294	11	3.2	12	85	11	51	81	0	15	2	0.80
4215703--4215750	21	2.3	21	96	3	89	43	8	16	31	1.78
4219773--4219820	21	2.3	21	96	0	87	31	14	16	37	1.89
4222284--4222354	32	2.2	32	80	9	83	46	0	1	52	1.09
4222648--4222706	29	2.0	29	100	0	118	27	6	13	52	1.65
4224900--4224932	14	2.4	14	85	14	50	54	6	0	39	1.25
4225215--4225261	2	23.5	2	95	0	85	51	2	0	46	1.13
4227114--4227631	44	11.6	45	70	13	164	28	22	18	30	1.97
4227881--4228008	64	2.0	64	96	0	238	35	14	17	31	1.91
4229794--4229827	16	2.2	16	89	5	52	32	11	5	50	1.63
4230371--4230406	15	2.5	14	95	4	63	13	5	16	63	1.47
4230644--4230714	30	2.4	30	85	0	106	40	2	23	32	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4230972--4232981	72	25.8	79	75	13	911	33	18	16	31	1.93
4230972--4232973	154	12.9	156	78	12	837	33	18	16	31	1.93
4231228--4231866	162	3.8	163	84	9	724	34	18	17	29	1.94
4231526--4231919	90	5.0	75	76	13	278	33	19	18	28	1.96
4231843--4232009	89	1.9	89	82	5	212	32	19	20	27	1.96
4231564--4232560	227	4.3	240	80	10	706	33	17	16	31	1.93
4231936--4232975	227	4.6	221	85	7	1205	33	17	16	32	1.92
4231969--4232992	72	13.7	72	84	9	1184	33	17	16	33	1.92
4231969--4232985	299	3.4	295	86	8	1292	32	17	16	33	1.92
4232539--4232985	230	2.0	228	93	1	770	34	17	16	32	1.92
4233802--4233877	39	2.0	39	94	2	136	13	17	15	53	1.72
4239424--4239520	32	3.0	32	96	0	185	31	6	23	38	1.80
4240127--4240179	26	2.0	26	85	7	72	37	22	15	24	1.92
4241784--4241814	12	2.6	12	100	0	62	9	25	51	12	1.70
4246646--4246742	32	3.0	32	96	0	185	31	6	23	38	1.80
4252332--4252379	19	2.5	19	76	6	53	54	2	6	37	1.38
4252582--4252611	12	2.5	12	88	0	51	10	0	0	90	0.47
4252603--4252637	16	2.2	16	90	10	54	31	11	5	51	1.61
4253184--4253221	15	2.5	15	91	0	67	13	5	15	65	1.43
4263086--4263129	3	15.0	3	95	4	81	31	0	0	68	0.90
4263336--4263398	3	21.0	3	100	0	126	33	0	0	66	0.92
4270034--4270524	177	2.8	177	88	3	693	30	17	23	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4270475--4271066	44	13.7	43	71	7	374	29	20	23	26	1.99
4270608--4270991	86	4.4	87	73	6	323	29	20	22	26	1.98
4270526--4271075	130	4.2	130	92	0	830	30	20	23	26	1.98
4271116--4271259	44	3.3	44	67	7	112	29	25	18	26	1.98
4271080--4271523	88	5.0	88	86	2	588	28	21	19	30	1.97
4271586--4271625	21	1.9	21	94	0	71	30	15	35	20	1.93
4271542--4271671	65	2.0	65	95	0	233	28	16	28	26	1.97
4271607--4271756	44	3.4	44	83	9	198	29	16	25	28	1.97
4273031--4273060	13	2.2	14	94	5	53	16	13	0	70	1.18
4273629--4273670	3	14.0	3	100	0	84	33	0	0	66	0.92
4276511--4276551	20	2.1	20	86	4	57	63	14	14	7	1.50
4276528--4276673	29	4.8	30	83	13	158	58	19	7	15	1.60
4276541--4276670	44	2.9	43	86	8	165	56	20	7	15	1.63
4276527--4276671	15	9.5	15	80	14	172	57	19	7	15	1.61
4277100--4277172	36	2.1	34	82	10	85	16	0	34	49	1.46
4277817--4277874	17	3.5	17	80	4	64	29	10	12	48	1.73
4281510--4281565	12	4.4	12	81	16	60	85	1	10	1	0.74
4283758--4284567	217	3.7	217	96	0	1480	32	16	17	33	1.92
4283758--4284567	289	2.8	288	93	1	1390	32	16	17	33	1.92
4283758--4284567	72	11.2	72	94	1	1390	32	16	17	33	1.92
4284635--4284664	13	2.3	13	94	0	51	16	6	6	70	1.31
4284475--4284704	89	2.6	87	82	6	286	32	14	16	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4284659--4285028	54	6.8	54	95	0	641	28	15	18	37	1.92
4284973--4285202	89	2.6	86	78	10	241	29	15	18	36	1.92
4285612--4285659	25	1.9	25	91	0	78	29	29	10	31	1.90
4286070--4286235	15	10.5	16	85	7	200	59	19	7	14	1.58
4286087--4286246	31	5.2	30	84	10	139	60	19	6	13	1.54
4287376--4287433	17	3.5	17	80	4	64	29	10	12	48	1.73
4288262--4288342	3	27.0	3	92	0	135	33	3	0	62	1.12
4289845--4289901	29	2.0	30	86	6	82	40	3	3	52	1.35
4289892--4289916	10	2.5	10	100	0	50	36	0	0	64	0.94
4293977--4294017	21	2.0	21	90	0	64	29	21	29	19	1.98
4302557--4302613	30	1.9	30	92	0	96	24	17	14	43	1.86
4303065--4303123	30	2.0	30	100	0	118	47	37	0	15	1.45
4307153--4307200	21	2.3	21	96	3	89	43	8	16	31	1.78
4308805--4308861	30	1.9	30	92	0	96	24	17	14	43	1.86
4309312--4309370	30	2.0	30	100	0	118	47	37	0	15	1.45
4313400--4313447	21	2.3	21	96	3	89	43	8	16	31	1.78
4317082--4317111	15	2.0	15	93	0	51	66	3	0	30	1.07
4320607--4320666	23	2.8	20	74	16	57	68	1	5	25	1.19
4320850--4320929	23	3.5	22	71	18	67	61	1	5	32	1.26
4322474--4322508	14	2.6	13	86	8	52	91	2	5	0	0.50
4322474--4322507	10	3.5	10	88	4	52	91	2	5	0	0.51
4322501--4322540	16	2.5	16	87	0	62	65	27	0	7	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4332239--4332372	71	1.9	71	90	0	214	30	16	23	29	1.96
4332148--4332529	159	2.4	160	95	0	669	29	17	21	31	1.96
4332687--4332829	47	2.8	52	75	17	147	27	16	20	34	1.94
4333513--4333549	17	2.2	17	90	4	58	89	2	8	0	0.58
4333516--4333549	12	2.9	11	91	8	50	88	2	8	0	0.62
4339072--4339100	3	9.7	3	100	0	58	65	0	0	34	0.93
4344692--4344797	54	2.0	54	96	0	194	43	16	20	18	1.88
4350238--4350333	48	2.0	48	100	0	192	41	10	16	31	1.82
4357668--4357706	6	6.5	6	93	0	60	43	38	17	0	1.50
4357672--4357709	18	2.1	18	95	0	67	42	42	15	0	1.47

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   357   358   359   360   361   362   363   364   365   366   367   368   
          369   370   371   372   373   374   375   376   377   378