genome.fa.s1.2.7.7.80.10.50.1000.170.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  170  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)
49418706--49418768	3	21.3	3	96	3	119	31	0	0	68	0.90
49421207--49421253	17	2.8	17	75	18	53	38	0	8	53	1.32
49427492--49427539	22	2.2	22	96	3	89	50	20	14	14	1.78
49428565--49428602	18	2.2	16	90	9	58	71	0	7	21	1.11
49428712--49428794	41	2.0	41	100	0	166	42	16	9	31	1.81
49430756--49430795	18	2.2	19	86	13	57	37	0	12	50	1.41
49431424--49431454	14	2.2	14	100	0	62	48	19	6	25	1.72
49433014--49433228	46	4.7	44	74	14	157	29	19	27	23	1.98
49436385--49436478	47	2.0	49	85	4	129	35	25	8	30	1.86
49441316--49441348	3	11.0	3	100	0	66	33	0	0	66	0.92
49453224--49453257	15	2.3	15	89	0	50	55	0	5	38	1.24
49454489--49454534	21	2.3	20	81	7	58	41	6	0	52	1.27
49454500--49454542	21	2.0	21	81	0	50	44	6	2	46	1.43
49455232--49455333	53	1.9	52	84	5	134	50	2	1	44	1.28
49455296--49455364	20	3.3	21	78	9	70	49	1	1	47	1.19
49455304--49455374	11	6.5	11	70	23	53	47	1	0	50	1.09
49457005--49457051	16	2.9	16	78	15	53	65	2	8	23	1.31
49458739--49458803	21	3.1	21	86	2	78	69	1	4	24	1.16
49458754--49458815	20	3.0	21	81	11	67	74	0	6	19	1.03
49462479--49462525	16	2.9	16	78	15	53	65	2	8	23	1.31
49464261--49464309	21	2.3	21	85	0	71	65	2	4	28	1.22
49467277--49467310	18	1.9	18	94	5	61	55	5	11	26	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49468020--49468072	26	2.0	26	82	13	65	66	3	7	22	1.34
49471181--49471237	28	2.0	28	100	0	114	38	7	28	26	1.82
49473371--49473530	61	2.7	60	85	10	202	54	1	0	43	1.15
49477288--49477333	19	2.4	19	77	0	56	63	2	4	30	1.26
49478917--49478951	16	2.2	16	95	5	63	45	22	5	25	1.74
49485224--49485321	28	3.5	28	84	4	108	29	16	24	29	1.96
49492904--49493001	28	3.5	28	84	4	108	29	16	24	29	1.96
49495033--49495086	16	3.2	18	70	20	53	35	1	0	62	1.06
49495025--49495086	32	1.9	32	87	6	90	32	1	0	66	1.02
49496383--49496437	24	2.3	23	76	11	58	54	0	1	43	1.10
49499301--49499339	18	2.1	19	85	4	53	58	2	7	30	1.39
49499294--49499339	19	2.3	20	85	10	60	58	2	8	30	1.40
49499739--49499764	2	13.0	2	100	0	52	50	0	0	50	1.00
49506478--49506510	17	2.0	17	94	5	59	36	15	0	48	1.45
49506796--49507251	46	10.0	46	91	1	639	21	24	14	39	1.91
49509386--49509445	13	4.8	12	75	13	50	63	3	0	33	1.11
49514480--49514522	22	2.0	22	95	0	77	30	16	11	41	1.83
49517706--49517740	5	6.6	5	93	6	52	82	0	0	17	0.66
49517706--49517740	11	3.2	11	88	11	54	82	0	0	17	0.66
49520097--49520128	6	5.2	6	96	3	55	81	0	15	3	0.82
49531330--49531396	28	2.4	28	92	2	109	20	8	25	44	1.80
49533023--49533060	20	1.9	20	88	0	58	52	10	2	34	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49533332--49533389	28	2.1	28	93	0	98	34	10	20	34	1.87
49536866--49536919	26	2.1	25	82	3	63	33	7	3	55	1.45
49539844--49540311	49	9.7	49	92	2	727	33	8	29	27	1.87
49545007--49545044	19	2.0	19	100	0	76	5	21	42	31	1.75
49546396--49546562	43	3.9	44	77	4	189	29	13	22	34	1.93
49552263--49552296	16	2.2	15	89	5	50	44	0	0	55	0.99
49553011--49553069	25	2.4	24	82	5	73	40	0	1	57	1.09
49553932--49553963	12	2.7	12	100	0	64	12	25	37	25	1.91
49555295--49555347	20	2.6	19	80	11	61	39	18	9	32	1.83
49555505--49555660	23	6.7	23	83	7	176	30	16	25	26	1.97
49557584--49557922	24	14.1	24	96	0	588	35	25	18	20	1.95
49565685--49566022	24	14.1	24	96	0	588	36	24	18	20	1.95
49571652--49571698	23	2.0	23	95	0	85	25	14	25	34	1.94
49571917--49571964	25	2.0	23	84	8	60	75	0	16	8	1.04
49573251--49573410	29	5.5	29	81	4	171	26	16	30	26	1.97
49576621--49576661	22	1.9	21	85	5	55	17	26	0	56	1.41
49587523--49587566	23	1.9	23	85	0	61	25	22	18	34	1.96
49589565--49589731	47	3.5	46	79	5	190	27	22	29	20	1.98
49590639--49590745	54	2.0	55	88	1	162	21	23	29	25	1.99
49594926--49595025	27	3.7	28	80	9	100	40	19	10	31	1.84
49595021--49595284	27	9.8	27	83	4	293	28	20	8	42	1.82
49595021--49595283	54	4.9	54	87	0	339	28	20	8	41	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49595021--49595284	81	3.3	81	89	2	370	28	20	8	42	1.82
49595263--49595457	27	7.1	27	73	10	101	41	19	7	31	1.80
49595304--49595507	54	3.7	55	73	8	175	41	17	9	31	1.81
49595359--49595492	27	4.9	27	70	13	87	41	17	8	33	1.79
49595545--49595637	27	3.4	27	82	2	107	34	21	24	19	1.96
49596884--49596940	9	5.9	9	73	15	51	35	8	21	35	1.84
49596882--49596944	20	3.2	20	95	0	117	36	12	19	31	1.89
49596999--49597189	24	8.0	23	88	5	258	30	21	21	26	1.99
49596999--49597189	47	4.0	47	88	4	260	30	21	21	26	1.99
49596998--49597189	71	2.7	71	90	3	296	30	21	21	26	1.98
49597380--49597443	31	2.1	31	90	0	101	35	15	23	25	1.94
49600217--49600377	29	5.6	29	81	4	83	25	32	16	26	1.96
49600216--49600377	58	2.8	59	85	3	195	25	32	16	26	1.96
49606460--49606557	28	3.5	28	84	4	108	29	16	24	29	1.96
49614126--49614223	28	3.5	28	84	4	108	29	16	24	29	1.96
49619531--49619681	40	3.8	40	77	13	134	27	23	26	22	2.00
49619568--49619697	40	3.2	40	77	4	138	24	23	27	23	2.00
49621657--49621820	71	2.3	71	96	0	301	19	28	17	34	1.95
49621657--49621854	71	2.8	70	89	3	240	21	28	17	32	1.96
49626412--49626513	22	4.5	22	75	12	84	41	17	22	18	1.90
49626450--49626524	23	3.3	23	77	7	73	38	16	26	18	1.91
49629647--49629814	40	4.2	40	78	3	178	25	21	25	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49630051--49630092	22	1.9	22	85	9	59	33	9	14	42	1.78
49641862--49642015	39	3.9	39	86	0	191	23	31	22	22	1.98
49641892--49642015	39	3.2	39	90	1	194	25	32	20	22	1.98
49646132--49646191	30	2.0	30	86	0	84	38	6	25	30	1.81
49653694--49653750	30	1.9	30	88	0	87	38	8	24	28	1.85
49657478--49657503	13	2.0	13	100	0	52	53	0	15	30	1.42
49662560--49662608	23	2.1	23	100	0	98	36	8	20	34	1.82
49663589--49663782	47	4.1	47	90	0	289	32	10	29	26	1.90
49663636--49663714	25	3.3	25	65	22	69	32	10	27	29	1.89
49663618--49663689	22	3.1	22	64	24	58	33	13	29	23	1.93
49663753--49663950	98	2.0	96	91	3	317	34	7	27	30	1.85
49663752--49663936	48	3.8	48	90	5	309	35	7	26	30	1.83
49664083--49664191	37	2.9	37	93	0	173	22	19	31	26	1.98
49680233--49680393	42	3.8	42	80	8	175	31	24	14	30	1.94
49685516--49685675	29	5.5	30	86	8	213	33	14	25	27	1.94
49685516--49685675	59	2.8	57	88	4	214	33	14	25	27	1.94
49687369--49687528	29	5.5	29	82	4	180	26	16	31	25	1.97
49695460--49695590	29	4.5	29	78	5	122	25	17	32	25	1.97
49700722--49700770	17	2.8	18	74	22	50	24	18	22	34	1.96
49701593--49701759	40	4.2	40	79	6	169	25	21	27	25	1.99
49708718--49708766	17	2.8	18	74	22	50	24	18	22	34	1.96
49709586--49709751	40	4.2	39	77	9	158	25	21	27	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49711905--49712002	28	3.5	28	84	4	108	29	16	24	29	1.96
49719567--49719664	28	3.5	28	84	4	108	29	16	24	29	1.96
49727235--49727332	28	3.5	28	84	4	108	29	16	24	29	1.96
49731160--49731320	29	5.6	29	81	4	83	25	32	16	26	1.96
49731159--49731320	58	2.8	59	85	3	195	25	32	16	26	1.96
49734216--49734271	27	2.0	27	82	3	67	39	19	8	32	1.83
49734320--49734584	27	9.8	27	85	0	251	29	21	7	40	1.81
49734320--49734584	54	4.9	54	85	0	314	29	21	7	40	1.81
49734320--49734583	81	3.3	81	88	2	350	29	21	7	40	1.81
49734320--49734613	81	3.6	80	85	2	336	31	21	7	39	1.81

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