genome.fa.s9.2.7.7.80.10.50.1000.142.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  142  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)
46253127--46253191	24	2.7	23	84	11	78	33	12	24	29	1.92
46284940--46284969	15	2.0	15	100	0	60	46	20	20	13	1.83
46287885--46287977	34	2.7	34	93	0	150	23	25	23	26	2.00
46287981--46288048	18	3.8	18	79	14	86	41	17	17	23	1.90
46288389--46288447	27	2.2	27	87	0	82	23	22	16	37	1.94
46288407--46288511	27	4.1	27	75	13	96	24	20	17	37	1.94
46291173--46291246	25	2.9	25	81	2	76	36	16	5	41	1.71
46312650--46312751	31	3.3	31	98	0	195	27	25	16	30	1.97
46312957--46313092	26	5.3	26	83	3	163	28	22	20	28	1.98
46312963--46313092	52	2.6	51	90	4	194	29	20	20	29	1.98
46313142--46313228	20	4.3	20	92	2	140	31	18	10	40	1.84
46313934--46314065	54	2.4	54	85	7	187	20	23	21	34	1.97
46313934--46314044	27	4.1	27	94	2	179	19	26	22	31	1.98
46314091--46314415	27	12.0	27	78	6	214	30	9	20	40	1.83
46314168--46314400	81	2.9	79	82	6	238	29	8	21	41	1.81
46314194--46314401	80	2.6	81	83	5	242	29	8	21	40	1.83
46314091--46314415	54	6.0	54	76	9	243	30	9	20	40	1.83
46314393--46314496	27	3.9	27	88	0	145	41	8	22	27	1.83
46314367--46314487	54	2.2	54	82	0	143	41	8	19	31	1.80
46319343--46319635	146	2.0	146	97	0	559	40	9	17	32	1.81
46323082--46323115	16	2.1	16	94	0	59	29	23	23	23	1.99
46326004--46326044	20	2.0	20	95	0	73	39	24	26	9	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46326010--46326064	19	2.8	20	86	8	69	40	20	27	12	1.88
46331854--46332073	40	5.6	40	82	4	241	25	26	22	25	2.00
46334752--46334815	27	2.4	26	84	7	76	20	28	18	32	1.96
46334952--46335003	24	2.2	23	83	10	61	21	21	21	36	1.95
46345170--46345344	48	3.6	48	76	6	165	31	20	26	21	1.98
46345162--46345338	96	1.8	96	87	0	264	29	20	27	22	1.98
46345674--46345734	16	3.2	21	61	29	55	27	16	8	47	1.75
46345678--46345736	19	3.3	19	64	22	54	27	18	10	44	1.82
46345667--46345738	35	2.0	36	97	2	137	25	16	8	50	1.73
46346412--46346451	19	2.1	19	90	0	62	22	27	40	10	1.86
46348809--46348850	22	1.9	22	95	0	75	35	7	9	47	1.64
46351060--46351092	13	2.3	15	90	10	52	54	6	3	36	1.41
46354705--46354734	15	2.0	15	93	0	51	23	13	6	56	1.60
46355447--46355510	29	2.2	30	85	2	85	28	18	23	29	1.98
46362960--46363078	58	2.1	58	84	6	152	33	21	10	34	1.88
46369862--46369912	6	8.2	6	75	16	50	60	5	0	33	1.21
46369897--46369931	17	2.0	18	88	5	54	51	0	5	42	1.25
46370527--46370567	21	2.0	21	85	0	55	65	2	2	29	1.18
46374506--46374560	28	2.0	28	85	0	74	27	23	18	30	1.97
46393659--46393692	10	3.3	10	84	8	50	58	14	20	5	1.57
46393661--46393700	21	1.9	21	89	0	62	57	15	22	5	1.57
46399493--46399544	21	2.3	23	81	15	65	61	5	1	30	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46399498--46399542	22	2.1	22	88	8	67	60	6	0	33	1.23
46409678--46409823	73	2.0	74	93	1	249	50	15	12	21	1.76
46410150--46410225	1	76.0	1	81	0	89	90	7	1	0	0.50
46410144--46410225	33	2.5	33	89	2	119	89	8	1	1	0.61
46417566--46417751	59	3.1	56	69	19	144	43	2	3	51	1.32
46417612--46417799	61	3.1	61	68	17	165	43	2	5	48	1.41
46417559--46417849	120	2.4	122	88	4	453	44	2	4	49	1.34
46417793--46417829	19	2.0	19	85	15	51	45	0	0	54	1.00
46417994--46418084	45	2.0	45	85	2	121	37	28	6	27	1.82
46418065--46418117	16	3.2	16	94	5	97	37	37	0	24	1.56
46418309--46418352	22	1.9	24	81	9	56	45	0	4	50	1.22
46418464--46418508	19	2.4	19	81	3	56	26	2	4	66	1.22
46419204--46419250	24	2.0	24	87	8	69	42	0	0	57	0.98
46419267--46419333	30	2.2	31	91	5	118	43	4	26	25	1.74
46421990--46422022	7	4.7	7	92	0	57	27	3	12	57	1.49
46422494--46422584	30	3.1	29	80	4	103	30	41	16	10	1.83
46422921--46422968	21	2.3	21	82	7	62	29	39	22	8	1.83
46423102--46423227	54	2.3	55	82	8	141	43	2	6	47	1.41
46426229--46426598	125	3.0	126	90	1	566	27	16	15	39	1.89
46429494--46429570	38	2.0	38	94	0	136	19	28	11	40	1.87
46429502--46429569	22	3.4	22	64	29	60	19	29	8	42	1.81
46437670--46437716	20	2.3	20	100	0	94	25	38	27	8	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46440913--46440967	20	2.8	19	78	8	56	70	3	1	23	1.12
46440913--46440961	20	2.5	20	80	12	64	75	2	2	20	1.00
46448740--46448848	37	2.9	37	93	0	173	26	32	18	22	1.97
46448990--46449374	48	8.0	48	96	0	680	29	27	6	35	1.82
46454657--46454699	13	3.5	13	78	18	56	48	11	0	39	1.40
46454657--46454708	23	2.3	23	96	0	95	48	11	0	40	1.40
46454657--46454721	23	2.8	23	86	4	60	50	10	0	38	1.37
46455398--46455440	22	2.0	22	85	0	59	53	2	6	37	1.41
46455690--46455749	30	2.0	30	90	0	93	36	8	18	36	1.81
46461125--46461260	56	2.4	56	97	0	254	36	25	13	25	1.92
46462580--46462633	15	3.7	15	69	16	51	59	14	1	24	1.46
46463641--46463684	21	2.1	21	95	0	79	47	2	20	29	1.62
46465946--46466430	241	2.0	241	98	0	934	34	14	20	30	1.93
46472507--46472537	15	2.1	15	93	0	53	54	16	16	12	1.71
46472743--46472815	36	2.0	36	86	5	103	24	20	16	38	1.93
46473924--46474071	74	2.0	74	98	0	287	25	14	25	35	1.94
46476301--46476364	28	2.3	27	76	5	74	18	21	26	32	1.97
46476325--46476387	33	1.9	33	86	0	90	26	22	25	25	2.00
46477547--46477572	12	2.2	12	100	0	52	42	7	7	42	1.62
46477627--46477753	68	1.9	67	85	9	177	49	3	3	42	1.39
46479929--46480026	48	2.0	48	100	0	196	30	12	6	51	1.64
46482550--46482735	40	4.6	40	79	6	187	33	24	13	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46482548--46482706	81	1.9	82	85	7	216	32	25	15	27	1.95
46483916--46483982	35	1.9	35	93	0	116	25	10	22	41	1.85
46489152--46489177	12	2.2	12	100	0	52	7	23	42	26	1.81
46489281--46489353	32	2.3	32	92	0	128	27	34	23	15	1.94
46489281--46489371	32	2.8	32	81	6	96	26	34	24	15	1.95
46490225--46490368	40	3.6	40	81	2	173	31	25	16	26	1.97
46491562--46491789	90	2.5	90	87	3	307	30	10	11	46	1.75
46499718--46499869	27	5.6	27	92	3	232	30	28	13	26	1.94
46499718--46499869	55	2.8	55	93	0	250	30	28	13	26	1.94
46503600--46503640	21	2.0	21	95	0	73	26	19	29	24	1.98
46508766--46508813	18	2.7	18	96	0	87	43	6	16	33	1.73
46508769--46508848	36	2.2	36	82	12	94	43	5	15	36	1.68
46508769--46508848	18	4.4	18	79	16	85	43	5	15	36	1.68
46511711--46511780	20	3.6	19	84	9	79	57	7	0	35	1.26
46511711--46511795	19	4.2	19	79	14	82	55	5	0	38	1.24
46511760--46511808	25	2.0	25	88	4	73	55	2	0	42	1.11
46522600--46522735	55	2.5	55	80	7	141	27	30	25	16	1.97
46529204--46529229	13	2.0	13	100	0	52	15	0	0	84	0.62
46533498--46533566	31	2.3	31	84	2	86	30	23	14	31	1.94
46533872--46533908	10	3.7	10	92	7	58	32	18	10	37	1.86
46533852--46533902	21	2.4	21	86	0	66	29	19	13	37	1.90
46548713--46548842	40	3.3	39	85	3	170	23	21	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46548713--46548877	79	2.1	79	80	2	179	25	21	28	24	1.99
46552084--46552513	47	9.1	47	91	2	617	31	11	30	26	1.91
46552182--46552256	23	3.2	23	66	23	66	29	9	32	29	1.88
46552194--46552265	22	3.0	25	62	25	64	29	11	31	27	1.91
46552487--46552668	46	4.0	46	90	0	265	35	8	30	25	1.85
46558877--46558955	37	2.1	37	88	4	115	25	30	18	25	1.98
46559076--46559209	47	2.9	47	87	0	187	26	32	9	30	1.89
46559172--46559227	16	3.4	16	68	18	51	33	30	3	32	1.75
46559173--46559240	34	2.0	34	100	0	136	32	32	5	29	1.81
46559126--46559287	81	2.0	81	98	0	315	30	30	7	31	1.85

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