genome.fa.s3.2.7.7.80.10.50.1000.107.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: A03
Parameters: 2 7 7 80 10 50 1000
Length:  108673976

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   

This is table  107  of  333  ( 39894 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)
34376149--34376180	11	3.0	11	95	4	57	75	6	0	18	1.01
34378766--34378810	14	3.3	14	78	6	56	35	0	15	48	1.45
34379787--34379844	29	2.0	29	93	0	98	43	29	0	27	1.55
34379793--34379840	15	3.3	15	73	5	53	43	27	0	29	1.55
34381183--34381263	39	2.1	39	88	0	117	46	16	9	27	1.78
34386511--34386664	45	3.4	45	87	1	211	30	27	18	23	1.98
34390990--34391041	27	2.0	26	84	3	68	34	21	26	17	1.95
34391180--34391296	27	4.3	27	85	4	146	26	23	16	34	1.95
34391180--34391296	54	2.2	54	87	0	162	26	23	16	34	1.95
34393642--34393915	49	5.7	49	74	8	215	27	29	17	25	1.97
34393599--34393919	96	3.4	96	83	4	375	26	29	17	26	1.97
34395725--34395757	16	1.9	18	88	11	52	18	12	18	51	1.76
34400266--34400302	19	1.9	19	94	0	65	35	5	0	59	1.20
34414710--34415013	47	6.4	47	91	1	428	34	8	29	27	1.86
34418491--34418613	43	2.9	43	83	1	131	24	18	25	31	1.98
34422243--34422341	42	2.3	43	81	6	112	29	23	19	28	1.98
34422371--34422464	47	2.0	47	93	0	161	34	20	12	32	1.90
34438606--34438633	13	2.2	13	100	0	56	46	25	0	28	1.53
34438951--34438975	12	2.1	12	100	0	50	24	16	8	52	1.70
34439089--34439230	40	3.6	39	91	1	221	33	25	18	23	1.97
34440848--34440900	26	2.0	27	85	7	74	24	15	22	37	1.92
34442392--34442447	26	2.2	26	96	0	103	35	25	7	32	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34443709--34443764	9	5.9	9	78	12	58	73	1	12	12	1.18
34445708--34445954	48	5.1	48	93	1	422	36	4	26	31	1.78
34445708--34445951	98	2.5	98	93	1	420	36	4	26	31	1.78
34446101--34446209	37	2.9	37	93	0	173	23	18	30	27	1.98
34447463--34447781	40	8.0	40	85	0	413	23	20	27	28	1.99
34447945--34447995	25	2.0	25	81	7	59	33	13	31	21	1.92
34451233--34451479	48	5.1	48	92	1	413	36	5	26	31	1.80
34451233--34451476	98	2.5	96	92	1	407	36	5	26	31	1.80
34451626--34451734	37	2.9	37	93	0	173	24	19	29	26	1.98
34458103--34458155	26	2.0	26	82	7	63	26	15	20	37	1.92
34459646--34459701	26	2.2	26	100	0	112	35	26	7	30	1.83
34462955--34463020	34	2.0	33	84	3	87	27	22	25	24	2.00
34466234--34466266	2	16.5	2	100	0	66	0	0	48	51	1.00
34474140--34474394	55	4.8	54	76	9	233	36	17	24	21	1.95
34481016--34481193	27	6.6	27	82	3	196	26	15	28	29	1.96
34481017--34481172	82	1.9	81	86	3	224	26	16	28	28	1.97
34481013--34481193	82	2.2	81	82	2	220	27	16	27	29	1.97
34496349--34496421	35	2.1	35	97	0	137	38	17	10	32	1.85
34496780--34496840	30	2.0	30	87	0	86	31	22	6	39	1.80
34504280--34504510	40	5.8	39	90	1	302	22	23	29	25	1.99
34504280--34504498	120	1.8	120	90	3	352	21	23	29	25	1.99
34508090--34508134	20	2.2	20	88	0	63	48	2	13	35	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34510208--34510247	21	2.0	20	90	5	62	20	20	40	20	1.92
34510589--34510645	20	2.9	21	87	10	77	38	8	19	33	1.82
34510695--34510765	25	2.8	25	91	2	106	25	23	22	28	2.00
34512841--34512925	42	2.0	41	82	6	100	15	23	36	24	1.93
34517433--34517621	27	7.1	26	77	7	148	41	21	12	24	1.87
34517469--34517617	54	2.8	53	80	7	165	40	20	12	26	1.88
34517435--34517621	80	2.3	78	82	7	230	41	20	12	25	1.87
34524638--34524894	98	2.7	96	92	4	446	32	7	28	31	1.85
34524638--34524949	47	6.6	47	91	2	464	32	8	30	29	1.86
34527084--34527158	38	2.0	38	86	5	107	30	18	26	24	1.98
34527212--34527532	40	8.1	40	90	0	464	24	21	28	25	1.99
34530949--34531358	49	8.6	49	91	4	626	32	8	29	29	1.87
34531401--34531480	39	2.1	39	100	0	160	25	22	20	32	1.98
34537031--34537081	15	3.4	14	80	20	59	80	0	19	0	0.71
34537031--34537079	22	2.3	20	78	21	64	81	0	18	0	0.69
34537032--34537075	4	11.8	4	77	22	51	81	0	18	0	0.68
34537032--34537079	23	2.1	23	92	7	80	81	0	18	0	0.70
34541261--34541303	22	1.9	23	85	4	61	30	4	25	39	1.76
34551818--34551998	40	4.6	40	84	6	226	25	28	22	24	1.99
34551820--34551998	79	2.2	80	83	7	222	25	27	22	24	2.00
34559997--34560179	79	2.3	80	82	9	205	26	27	21	24	1.99
34559995--34560179	40	4.6	41	81	9	213	27	28	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34568172--34568354	79	2.3	81	84	7	232	25	27	22	24	2.00
34568171--34568354	40	4.6	40	83	8	232	25	27	22	23	2.00
34572710--34572886	52	3.5	52	84	6	213	28	15	27	27	1.96
34572705--34572886	51	3.6	51	79	8	196	28	15	27	28	1.96
34574920--34575079	39	4.1	39	95	0	284	20	25	31	23	1.98
34580616--34580772	38	4.1	39	94	3	266	20	24	31	23	1.98
34580617--34580765	77	1.9	76	94	1	262	21	24	30	23	1.99
34587893--34588194	27	11.2	27	85	1	358	37	19	18	24	1.94
34588417--34588499	27	3.1	26	84	5	103	19	20	21	38	1.93
34588543--34588590	20	2.4	20	82	0	69	10	18	33	37	1.85
34588607--34588665	22	2.7	22	81	0	64	20	25	22	32	1.98
34588823--34588930	27	4.0	27	78	5	112	17	21	22	38	1.93
34591009--34591242	27	8.7	27	85	0	270	34	19	20	25	1.96
34591465--34591547	27	3.1	26	84	5	103	20	21	21	36	1.96
34591664--34591713	22	2.3	22	78	0	55	24	28	18	30	1.97
34591887--34591972	27	3.2	26	86	4	118	18	20	22	38	1.94
34615137--34615242	38	2.7	39	91	2	169	18	24	33	23	1.97
34617883--34618051	27	6.3	27	89	2	250	22	19	20	37	1.95
34618049--34618110	27	2.3	27	86	5	81	38	12	12	35	1.82
34624465--34624511	23	2.0	23	100	0	94	23	8	17	51	1.72
34628883--34628932	12	3.8	14	79	17	54	24	42	0	34	1.55
34628894--34628932	12	3.2	12	96	0	69	23	46	0	30	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34630044--34630090	23	2.0	23	91	0	76	46	14	17	21	1.83
34637798--34638116	47	6.7	47	92	3	498	32	8	30	29	1.86
34637845--34637923	25	3.3	25	64	10	74	34	5	27	32	1.79
34637819--34638116	143	2.1	143	93	2	503	32	8	29	29	1.86
34638238--34638310	37	2.0	37	88	0	110	21	19	30	28	1.98
34639528--34639798	119	2.3	120	86	3	386	26	21	26	26	1.99
34639528--34639798	40	6.8	40	86	2	393	26	21	26	26	1.99
34643449--34643906	47	9.7	47	93	2	742	32	8	29	29	1.87
34644032--34644110	37	2.1	37	90	0	122	24	18	31	25	1.98
34650518--34650550	10	3.0	11	91	8	50	36	0	27	36	1.57
34655959--34656021	27	2.4	27	78	5	76	31	7	14	46	1.73
34655959--34656022	26	2.5	25	75	7	65	31	7	15	45	1.75
34665599--34665727	34	3.8	34	84	2	123	28	20	18	31	1.97
34665626--34665731	35	3.1	35	84	1	133	29	19	16	34	1.93
34666171--34666298	27	4.7	27	87	0	175	33	16	16	33	1.91
34670560--34670735	50	3.5	49	86	1	235	25	18	26	29	1.98
34670560--34670747	99	1.9	101	86	2	272	25	19	26	29	1.98
34673458--34673496	15	2.5	15	91	4	60	15	12	15	56	1.68
34682584--34682649	20	3.3	20	95	0	114	13	27	37	21	1.91
34682593--34682657	20	3.3	19	87	8	85	12	21	40	26	1.88
34688816--34688855	19	2.1	19	85	0	53	12	10	0	77	0.99
34699849--34700022	49	3.5	49	91	0	258	31	28	16	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34701664--34701689	13	2.0	13	100	0	52	15	30	38	15	1.88
34704089--34704184	25	3.8	25	94	0	156	22	17	11	47	1.80
34705002--34705311	45	7.0	45	90	1	412	24	20	26	28	1.99
34711761--34711831	25	2.8	25	86	0	97	23	15	11	49	1.77
34712644--34712954	45	7.0	45	88	2	414	25	20	26	27	1.99
34715950--34716010	31	2.0	31	96	0	113	18	14	19	47	1.82
34725982--34726022	21	2.0	20	86	9	57	48	21	2	26	1.63
34729695--34729921	40	5.7	40	90	0	337	34	28	18	18	1.95
34740663--34740813	27	5.6	27	94	1	239	27	13	29	29	1.94
34740663--34740813	82	1.9	81	91	1	248	27	13	29	29	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