genome.fa.s4.2.7.7.80.10.50.1000.163.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   

This is table  163  of  255  ( 30512 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)
53444121--53444159	19	2.1	19	95	0	69	51	5	12	30	1.62
53444365--53444403	19	2.1	19	85	9	53	61	7	0	30	1.24
53444553--53444690	3	46.0	3	71	11	86	61	2	5	30	1.32
53444650--53444712	27	2.2	29	80	8	76	61	3	6	28	1.36
53445751--53445819	34	2.0	35	94	2	122	31	14	26	27	1.95
53457869--53457924	5	11.2	5	84	7	60	73	0	0	26	0.84
53458823--53458847	10	2.5	10	100	0	50	52	48	0	0	1.00
53459292--53459337	23	2.0	23	100	0	92	39	8	13	39	1.75
53463648--53463767	47	2.5	46	81	2	141	33	6	30	30	1.83
53478364--53478458	39	2.5	39	77	1	102	43	21	6	29	1.77
53480883--53481150	40	6.7	40	93	0	455	22	26	19	31	1.98
53494901--53495027	42	3.0	42	85	6	161	29	25	13	30	1.94
53494986--53495109	47	2.7	46	84	2	158	29	26	16	28	1.97
53495134--53495251	31	3.8	31	84	10	161	24	28	21	25	1.99
53495227--53495355	50	2.5	51	88	7	192	25	23	16	34	1.95
53499607--53499716	42	2.6	42	87	7	154	29	26	13	30	1.94
53499675--53499798	47	2.7	46	84	2	158	29	26	16	28	1.97
53499827--53499940	31	3.7	31	85	2	149	25	28	18	27	1.98
53499931--53500044	50	2.3	51	89	6	187	24	21	14	38	1.92
53505228--53505352	58	2.2	58	97	1	234	26	29	8	36	1.85
53512121--53512167	6	7.5	6	86	9	58	76	6	0	17	0.98
53512187--53512272	9	9.6	9	85	0	118	26	10	19	43	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53533104--53533148	20	2.3	19	81	7	54	22	20	15	42	1.89
53542656--53542687	12	2.4	14	85	15	50	34	0	3	62	1.11
53542658--53542689	13	2.5	13	95	5	57	37	0	3	59	1.13
53542845--53542869	12	2.1	12	100	0	50	52	8	0	40	1.31
53544359--53544402	22	2.0	22	95	0	79	43	18	11	27	1.84
53544965--53544998	13	2.8	12	82	8	50	2	29	0	67	1.05
53547462--53547637	46	3.8	46	80	10	205	22	20	27	29	1.98
53547459--53547629	93	1.8	93	93	0	297	22	21	28	28	1.99
53550309--53550343	18	1.9	18	94	0	61	25	17	20	37	1.94
53550525--53550586	18	3.4	18	84	4	79	30	17	19	32	1.95
53553213--53553269	29	2.0	29	82	6	71	17	17	14	50	1.77
53564931--53564963	9	3.7	9	95	0	57	39	12	18	30	1.87
53564931--53564976	9	5.0	9	89	2	56	39	15	15	30	1.88
53567048--53567114	30	2.2	30	97	0	125	34	5	4	55	1.45
53571720--53571744	7	3.6	7	100	0	50	0	12	0	88	0.53
53575637--53575684	25	1.9	25	100	0	96	20	25	16	37	1.93
53576464--53576640	50	3.5	50	89	0	273	35	16	22	25	1.94
53576616--53576764	31	4.8	31	89	0	226	27	19	26	26	1.99
53576782--53576903	47	2.6	46	81	2	145	29	15	25	29	1.96
53576978--53577086	31	3.5	31	88	0	155	25	22	25	26	2.00
53577104--53577318	47	4.7	46	80	10	145	29	14	25	29	1.95
53576656--53577300	322	2.0	322	98	0	1245	29	16	25	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53577186--53577358	42	3.9	44	84	9	178	29	13	26	30	1.94
53577234--53577361	42	3.0	42	88	3	186	30	13	26	29	1.94
53583590--53583650	30	2.0	30	90	0	95	29	24	6	39	1.80
53589158--53589267	26	4.2	26	95	0	166	34	6	23	35	1.80
53593259--53593436	41	4.4	41	92	0	295	19	21	23	35	1.96
53597429--53597635	100	2.1	101	97	1	391	44	16	13	25	1.84
53600817--53600941	38	3.3	38	86	1	169	35	20	13	31	1.91
53602703--53602834	45	3.0	43	80	12	142	22	18	30	28	1.97
53602719--53602834	43	2.6	44	81	10	139	24	18	31	26	1.97
53606792--53606857	32	2.1	32	100	0	132	27	3	9	60	1.42
53608222--53608258	18	2.1	18	94	0	65	37	21	8	32	1.83
53611208--53611292	41	2.0	42	95	2	154	31	17	14	36	1.90
53614548--53614594	21	2.2	22	92	3	78	21	19	38	21	1.94
53618816--53618847	14	2.3	14	94	0	55	46	15	6	31	1.71
53620976--53621051	36	2.1	36	100	0	152	27	25	13	34	1.93
53623872--53624044	93	1.9	93	97	0	328	27	31	21	19	1.98
53623867--53624040	46	3.8	46	79	13	221	28	29	21	19	1.98
53625920--53625949	13	2.2	14	94	5	53	46	0	6	46	1.29
53626954--53627009	19	2.9	19	81	0	67	16	23	32	28	1.96
53626957--53627024	19	3.6	18	76	4	55	19	20	27	32	1.97
53638455--53638554	21	4.8	21	71	14	80	32	19	0	49	1.49
53638455--53638554	42	2.4	42	81	8	114	32	19	0	49	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53640929--53640957	13	2.2	13	100	0	58	62	13	6	17	1.52
53640994--53641035	19	2.2	19	86	4	57	35	11	14	38	1.83
53641072--53641113	10	4.2	10	81	9	50	69	4	0	26	1.08
53641072--53641105	10	3.5	10	88	8	52	67	5	0	26	1.13
53641066--53641116	19	2.7	19	76	11	59	60	5	1	31	1.31
53641545--53641604	29	2.1	29	87	0	84	35	8	31	25	1.85
53642004--53642222	112	2.0	110	96	1	402	33	21	17	28	1.96
53644354--53644571	40	5.5	40	91	2	316	25	28	23	22	1.99
53645818--53645942	53	2.4	52	90	2	187	17	21	8	52	1.72
53647308--53647354	26	1.9	24	83	12	60	74	2	12	10	1.16
53647479--53647552	31	2.5	28	78	10	76	45	14	13	25	1.82
53651336--53651396	30	2.0	30	90	0	95	39	6	24	29	1.80
53651888--53652240	67	5.4	66	82	6	242	31	15	28	24	1.95
53651928--53652240	67	4.8	64	82	5	299	30	15	29	23	1.96
53651959--53652198	131	1.8	132	83	5	324	32	15	29	22	1.95
53651959--53652198	67	3.6	67	88	2	317	32	15	29	22	1.95
53657183--53657390	67	3.2	64	78	8	213	31	16	29	22	1.96
53657461--53657510	25	2.0	25	100	0	100	20	12	32	36	1.89
53661713--53661963	39	6.5	39	89	1	335	31	28	21	18	1.97
53662036--53662117	28	2.9	28	81	0	92	29	24	9	36	1.87
53666796--53666853	30	1.9	30	82	6	73	13	25	37	22	1.91
53670219--53670306	32	2.8	32	78	11	87	67	3	5	23	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53670219--53670277	3	19.3	3	79	10	66	66	3	3	27	1.24
53671302--53671340	18	2.2	18	86	9	53	71	2	2	23	1.10
53679505--53679572	30	2.3	30	100	0	136	54	20	0	25	1.45
53680158--53680243	43	2.0	43	83	0	109	25	24	20	29	1.99
53680273--53680395	40	3.1	40	84	4	158	34	21	16	27	1.94
53683026--53683075	20	2.5	20	81	9	59	74	2	16	8	1.15
53683026--53683080	19	2.8	20	78	13	60	72	1	18	7	1.16
53694794--53694853	31	2.0	30	90	3	93	36	3	10	50	1.53
53696695--53696737	22	2.0	22	100	0	86	32	13	23	30	1.93
53699924--53699976	20	2.5	22	84	6	74	24	16	18	39	1.91
53700725--53700756	10	3.2	10	90	0	55	53	21	0	25	1.46
53705180--53705230	26	1.9	27	84	4	68	45	0	3	50	1.20
53705414--53705448	17	2.1	17	88	0	52	51	11	8	28	1.67
53707594--53707656	31	2.0	31	82	17	78	22	17	7	52	1.70
53713457--53713501	23	2.0	23	82	8	56	15	37	2	44	1.59
53721776--53721834	24	2.4	25	77	11	68	20	23	16	38	1.92
53722888--53722917	12	2.5	12	94	0	51	26	10	43	20	1.83
53743705--53743779	31	2.4	31	97	0	141	26	28	17	28	1.98
53743803--53743894	42	2.2	42	92	0	148	34	21	14	29	1.93
53744031--53744086	25	2.2	26	84	6	71	23	21	21	33	1.97
53745007--53745062	27	2.1	26	83	9	69	37	10	10	41	1.75
53745071--53745167	27	3.6	26	83	2	104	26	6	21	45	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53745199--53745290	27	3.4	27	80	5	114	40	8	23	27	1.84
53746902--53747124	94	2.4	92	84	9	265	26	17	29	26	1.97
53755748--53755794	20	2.3	20	92	0	76	12	36	25	25	1.92
53755748--53755800	20	2.7	20	87	0	61	13	37	24	24	1.91
53775479--53775743	40	6.7	40	89	4	360	26	26	21	26	1.99
53777585--53777729	40	3.6	40	89	1	193	24	22	27	24	2.00
53777585--53777756	80	2.2	80	82	3	204	23	21	27	27	1.99
53781786--53781954	46	3.7	46	75	13	166	30	30	19	18	1.96
53781793--53781965	93	1.9	93	90	0	274	29	30	20	19	1.97
53785056--53785281	50	4.5	50	78	8	217	25	17	26	30	1.97

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