genome.fa.s9.2.7.7.80.10.50.1000.145.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   

This is table  145  of  259  ( 31025 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)
47269110--47269192	16	5.1	16	72	21	66	34	2	1	61	1.17
47269101--47269189	31	2.9	30	76	12	90	35	2	1	60	1.16
47269153--47269252	44	2.3	43	81	11	118	34	6	1	59	1.29
47269908--47269941	16	2.1	17	88	5	52	23	11	8	55	1.63
47273263--47273302	19	2.1	19	86	9	55	32	20	5	42	1.73
47281240--47281675	117	3.7	119	94	3	746	33	16	18	30	1.94
47281624--47281859	80	3.0	81	90	7	367	33	20	18	27	1.96
47283251--47283325	7	11.1	7	72	16	61	40	1	1	57	1.16
47283284--47283345	16	3.6	16	76	16	61	33	3	0	62	1.11
47283233--47283367	53	2.5	52	78	14	125	34	4	0	60	1.22
47283373--47283451	21	3.6	21	71	20	54	31	5	2	60	1.31
47283338--47283441	34	2.9	35	76	9	95	30	6	1	60	1.33
47284033--47284066	16	2.1	17	88	5	52	23	11	8	55	1.63
47287400--47287439	19	2.1	19	86	9	55	32	20	5	42	1.73
47290317--47290494	27	6.6	27	82	3	178	29	28	14	26	1.95
47290338--47290493	82	1.9	81	86	3	224	29	28	14	26	1.95
47292927--47293022	40	2.4	41	86	6	126	29	28	16	26	1.97
47298349--47298685	170	2.0	170	92	1	568	30	17	14	37	1.90
47301787--47301811	9	2.8	9	100	0	50	12	0	0	88	0.53
47304640--47304685	22	2.1	22	84	8	58	41	8	6	43	1.61
47306803--47306894	36	2.6	34	77	9	96	23	2	5	68	1.22
47306829--47306886	26	2.3	26	85	8	75	24	1	6	67	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47306843--47306899	26	2.2	26	90	6	89	22	0	5	71	1.05
47306853--47306899	16	2.8	17	76	23	55	23	0	4	72	1.02
47306881--47306920	20	2.0	21	85	14	57	20	2	5	72	1.15
47306797--47306906	36	3.1	36	69	17	95	22	2	5	69	1.22
47310461--47310508	23	2.0	23	84	12	60	35	8	10	45	1.68
47310456--47310501	21	2.2	22	84	7	60	36	8	8	45	1.66
47310650--47310704	25	2.2	26	83	9	69	25	9	7	58	1.55
47312590--47312650	19	3.2	19	71	28	58	31	0	3	65	1.09
47316584--47316654	23	3.1	23	95	0	133	40	4	9	45	1.57
47329508--47329567	17	3.5	17	74	21	63	65	0	1	33	1.03
47330048--47330180	18	7.5	18	86	5	182	36	12	10	39	1.78
47330048--47330189	35	4.0	35	93	2	221	37	13	9	39	1.78
47330574--47330926	83	4.2	83	94	0	589	27	20	20	32	1.97
47330850--47331444	119	5.0	119	93	0	949	29	18	16	34	1.94
47331436--47331615	44	4.1	44	73	8	168	28	23	15	32	1.95
47331443--47331610	88	1.9	87	81	3	203	28	23	16	31	1.96
47332483--47332529	20	2.4	20	86	10	62	4	10	0	85	0.74
47332491--47332528	16	2.4	16	90	0	58	2	10	0	86	0.66
47338036--47338096	17	3.5	17	71	24	56	65	0	1	32	1.02
47338574--47338706	18	7.5	18	86	5	182	36	12	10	39	1.78
47338574--47338715	35	4.0	35	93	2	221	37	13	9	39	1.78
47353213--47353242	14	2.1	14	93	0	51	16	0	36	46	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47389229--47389284	26	2.2	26	93	0	94	64	1	1	32	1.14
47391499--47391670	93	1.8	93	94	0	308	27	29	21	21	1.99
47391492--47391667	46	3.8	46	78	12	207	28	28	21	21	1.98
47392479--47392523	24	2.0	24	91	8	76	24	22	28	24	1.99
47404539--47404590	18	3.1	17	76	10	54	42	3	5	48	1.45
47404995--47405050	18	3.1	18	97	0	103	50	14	5	30	1.65
47412695--47412928	48	5.0	49	73	14	213	29	19	23	27	1.98
47412897--47412973	38	2.0	38	94	0	136	32	24	19	23	1.97
47415698--47415749	26	2.0	26	100	0	104	19	15	11	53	1.71
47417496--47417649	59	2.6	60	82	4	168	27	20	15	37	1.93
47435852--47435905	21	2.6	21	81	0	54	22	25	31	20	1.98
47439589--47439617	14	2.0	15	93	6	51	24	0	20	55	1.44
47440753--47440873	41	2.9	41	75	11	111	26	19	25	28	1.98
47447615--47447643	14	2.0	15	93	6	51	27	0	20	51	1.47
47448765--47448933	43	4.0	42	78	7	189	24	17	27	30	1.97
47448776--47448933	84	1.9	84	88	5	239	25	18	27	29	1.98
47467445--47467551	52	2.1	52	100	0	214	38	11	24	26	1.89
47468278--47468534	130	2.0	130	97	0	487	31	5	20	42	1.76
47469889--47469997	45	2.4	46	81	7	125	41	10	22	26	1.85
47469918--47470008	46	2.0	45	93	2	155	37	9	23	29	1.87
47473111--47473167	20	2.9	19	75	12	53	10	24	19	45	1.81
47474680--47474734	16	3.4	16	72	18	51	45	3	1	49	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47480931--47481313	48	7.9	47	76	4	271	26	25	18	28	1.98
47480933--47481313	96	3.9	96	84	2	460	26	25	18	28	1.98
47488824--47488869	23	2.0	23	95	0	83	36	6	21	34	1.80
47500913--47501142	96	2.4	96	95	0	406	26	28	18	26	1.98
47500915--47501145	48	4.8	48	85	0	309	26	29	18	26	1.98
47505059--47505126	34	2.0	34	97	0	127	32	16	23	27	1.96
47521341--47521419	37	2.1	37	88	0	113	26	31	17	24	1.97
47521540--47521694	49	3.2	49	95	1	260	30	30	8	30	1.87
47521965--47522022	24	2.5	23	81	16	66	32	5	0	62	1.18
47525350--47525465	37	3.1	37	91	2	180	25	29	18	25	1.98
47525584--47526028	47	9.5	47	94	0	737	28	30	8	32	1.87
47528600--47528756	42	3.7	42	72	14	115	30	24	18	26	1.98
47531102--47531266	45	3.7	44	83	3	195	33	28	16	21	1.95
47533851--47533988	49	2.8	49	83	6	181	29	22	28	19	1.98
47533851--47534037	49	3.8	49	82	2	180	27	19	29	22	1.98
47533958--47534049	48	1.9	48	93	0	157	23	13	31	31	1.93
47533956--47534066	48	2.3	48	85	3	143	26	17	27	29	1.97
47534028--47534129	48	2.1	48	79	0	114	31	16	21	30	1.96
47539300--47539451	27	5.6	27	90	2	223	26	14	28	30	1.95
47539300--47539451	55	2.8	55	89	2	234	26	14	28	30	1.95
47539300--47539451	82	1.9	82	91	0	250	26	14	28	30	1.95
47547241--47547392	27	5.6	27	90	2	223	26	14	28	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47547241--47547392	55	2.8	55	89	2	234	26	14	28	30	1.95
47547241--47547392	82	1.9	82	91	0	250	26	14	28	30	1.95
47553291--47553324	17	1.9	18	94	5	61	47	5	20	26	1.73
47554417--47554630	49	4.4	49	77	8	204	28	20	27	24	1.99
47561346--47561443	31	3.2	30	75	5	97	47	11	18	22	1.80
47561360--47561526	31	5.3	31	73	9	124	45	12	21	20	1.84
47561344--47561525	62	2.9	62	78	1	166	45	12	20	21	1.83
47567909--47568078	40	4.3	40	85	0	207	24	30	21	23	1.99
47580115--47580321	53	3.8	54	78	1	218	36	18	24	20	1.94
47594702--47594859	42	3.7	42	75	14	144	32	25	17	24	1.97
47596677--47596767	30	3.0	30	85	1	110	31	15	17	35	1.91
47597117--47597143	14	1.9	14	100	0	54	44	3	14	37	1.63
47599916--47600067	27	5.6	27	92	3	232	26	13	28	30	1.94
47599916--47600067	55	2.8	55	92	2	243	26	13	28	30	1.94
47607243--47607268	8	3.2	8	100	0	52	0	11	0	88	0.52
47607242--47607277	19	1.9	18	88	5	54	0	16	0	83	0.65
47607262--47607302	19	2.1	20	86	4	57	19	24	0	56	1.42
47616039--47616074	18	2.0	18	88	0	54	47	5	19	27	1.72
47621114--47621184	11	6.6	11	69	18	60	30	5	0	63	1.17
47621117--47621154	12	3.3	12	78	14	53	31	5	0	63	1.17
47621110--47621154	22	2.0	22	100	0	90	35	4	0	60	1.17
47621128--47621195	31	2.2	32	97	2	129	23	5	0	70	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47635726--47636104	48	7.9	48	80	5	356	25	29	19	25	1.98
47635731--47636104	143	2.6	143	83	5	461	25	29	19	25	1.98
47639626--47639677	27	1.9	27	92	0	86	44	11	19	25	1.84
47651077--47651101	13	1.9	13	100	0	50	52	0	0	48	1.00
47660640--47660750	52	2.1	51	91	3	177	17	18	16	47	1.83
47661950--47661995	23	2.0	23	86	0	65	34	6	0	58	1.24
47664407--47664445	18	2.2	18	100	0	78	43	15	10	30	1.80
47666427--47666531	27	3.9	27	83	5	115	21	23	19	35	1.96
47674684--47674798	31	3.7	31	88	3	171	28	23	17	30	1.97
47674822--47674956	42	3.2	42	92	0	234	34	20	14	31	1.92

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