genome.fa.s4.2.7.7.80.10.50.1000.118.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  118  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)
37819564--37819637	38	1.9	38	88	0	112	25	27	24	22	2.00
37824796--37824935	39	3.6	39	93	0	226	29	27	21	22	1.99
37825261--37825289	13	2.2	13	100	0	58	31	24	6	37	1.82
37839289--37839543	55	4.8	54	78	7	238	35	17	25	21	1.95
37839299--37839496	108	1.8	110	86	4	294	33	17	25	23	1.96
37839612--37839656	23	1.9	24	90	4	74	42	11	22	24	1.86
37839735--37839765	16	1.9	16	93	0	53	41	0	22	35	1.54
37844063--37844094	13	2.5	13	100	0	64	40	40	18	0	1.51
37852303--37852478	31	5.7	31	95	1	275	28	23	16	31	1.96
37852670--37852768	25	4.0	24	79	9	83	24	21	23	31	1.98
37853669--37853776	27	3.9	27	77	13	85	32	7	17	42	1.77
37853733--37853878	27	5.4	26	82	4	166	27	8	21	42	1.81
37853756--37853878	54	2.3	54	88	2	185	27	9	22	39	1.86
37853756--37853915	54	3.0	54	83	3	171	28	11	19	40	1.86
37853914--37854073	54	3.0	54	87	0	221	38	6	22	31	1.81
37853914--37854059	27	5.4	27	83	0	184	40	6	23	29	1.80
37853904--37854084	81	2.2	80	79	6	202	37	8	23	30	1.84
37854273--37854302	8	3.6	8	95	4	51	10	40	36	13	1.78
37856329--37856379	24	2.2	23	92	3	84	25	27	17	29	1.98
37856351--37856435	31	2.8	31	96	1	154	28	27	15	29	1.96
37856642--37856700	25	2.4	25	88	5	84	22	22	23	32	1.98
37856656--37856725	25	2.8	25	84	0	86	21	22	27	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37863112--37863213	45	2.2	47	79	8	113	28	19	13	38	1.90
37865548--37865589	22	2.1	19	86	13	57	45	2	0	52	1.13
37868682--37868708	13	2.1	13	100	0	54	14	37	33	14	1.88
37870608--37870731	43	2.9	43	76	0	122	22	16	28	32	1.96
37871033--37871063	14	2.2	14	94	0	53	58	3	29	9	1.46
37872872--37872911	21	2.0	20	85	5	53	45	7	10	37	1.66
37876588--37876766	85	2.1	85	98	0	349	37	8	27	26	1.85
37878032--37878726	47	14.6	47	92	3	1061	33	8	29	28	1.87
37878032--37878726	96	7.3	94	93	2	1061	33	8	29	28	1.87
37878032--37878726	143	4.9	143	91	4	1082	33	8	29	28	1.87
37881284--37881524	40	6.1	40	89	0	322	25	21	27	25	1.99
37882781--37882959	85	2.1	85	97	0	340	37	8	27	25	1.85
37884225--37884917	47	14.6	47	92	3	1057	33	8	29	28	1.87
37884225--37884917	143	4.9	143	91	3	1087	33	8	29	28	1.87
37884225--37884917	190	3.6	188	92	2	1084	33	8	29	28	1.87
37903011--37903144	42	3.2	42	96	0	250	33	19	14	32	1.92
37903301--37903348	25	2.0	24	84	12	62	33	22	22	20	1.97
37904171--37904247	26	2.9	26	75	11	75	22	16	20	40	1.91
37904265--37904474	27	7.7	27	76	4	127	30	8	20	40	1.82
37904294--37904474	54	3.3	53	82	4	184	30	7	19	42	1.78
37904294--37904516	54	4.1	54	78	7	159	30	9	20	40	1.84
37904372--37904514	27	5.3	26	69	15	85	29	11	21	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37904506--37904703	27	7.3	27	86	2	263	38	7	25	28	1.83
37904506--37904703	81	2.4	81	90	3	310	38	7	25	28	1.83
37913925--37914109	40	4.7	40	80	6	207	26	26	22	24	2.00
37913926--37914106	79	2.3	80	80	7	199	26	26	22	24	2.00
37919520--37919688	91	1.9	91	88	3	252	26	17	22	33	1.96
37919589--37920088	132	3.8	132	90	1	745	25	16	25	33	1.95
37920397--37920426	15	2.0	15	93	0	51	6	0	36	56	1.26
37920383--37920460	37	2.1	37	80	4	86	16	0	29	53	1.43
37920411--37920476	22	3.0	22	82	4	71	13	0	34	51	1.41
37920397--37920475	37	2.1	37	81	4	88	12	0	32	54	1.38
37920567--37920608	22	1.9	22	85	9	59	14	0	35	50	1.43
37920589--37920632	15	2.9	15	82	0	61	25	0	25	50	1.50
37921092--37921264	47	3.7	47	94	0	292	34	16	16	32	1.91
37923924--37923962	6	6.2	6	85	5	51	33	0	2	64	1.08
37924112--37924503	37	10.7	35	77	10	304	25	21	15	37	1.93
37924073--37924503	73	5.9	72	77	6	382	25	21	14	38	1.92
37924102--37924508	147	2.8	145	81	4	451	26	21	14	37	1.92
37924073--37924503	220	2.0	221	82	5	534	25	21	14	38	1.92
37924782--37924814	16	2.0	17	88	5	50	21	6	3	69	1.24
37935041--37935160	56	2.1	56	98	0	231	45	9	23	22	1.81
37936613--37937211	47	12.6	47	93	2	848	33	9	29	28	1.88
37960881--37960937	17	3.3	17	78	4	51	31	3	0	64	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37965390--37965422	17	2.0	17	88	5	50	69	3	6	21	1.24
37965698--37966088	38	10.7	34	77	11	298	37	15	21	25	1.93
37965698--37966127	73	5.9	73	79	5	397	38	14	21	25	1.92
37965698--37966127	146	2.9	145	80	6	465	38	14	21	25	1.92
37966238--37966276	6	6.2	6	85	8	51	64	2	0	33	1.08
37968931--37969102	47	3.7	47	92	1	283	31	16	16	34	1.92
37968931--37969102	93	1.8	94	91	1	283	31	16	16	34	1.92
37969323--37969379	30	1.9	30	82	13	73	26	5	5	63	1.37
37969552--37969594	14	2.9	15	75	6	52	51	23	0	25	1.49
37970078--37970565	132	3.8	130	88	3	698	32	25	16	25	1.96
37970074--37970565	130	3.8	129	87	5	663	32	25	16	25	1.96
37975885--37976086	40	5.1	40	80	9	211	25	22	27	25	2.00
37975939--37976092	76	2.0	76	81	8	177	26	20	25	26	1.99
37994959--37995174	40	5.5	40	86	4	289	25	23	26	24	2.00
37997112--37997223	54	2.1	55	81	8	131	16	28	30	24	1.97
38001475--38001513	20	1.9	20	84	5	51	10	25	15	48	1.76
38004445--38004627	79	2.3	81	83	7	223	24	22	27	24	2.00
38004446--38004629	40	4.6	40	82	9	207	24	22	28	24	2.00
38004498--38004652	79	2.0	79	83	7	199	25	21	27	25	1.99
38007716--38007833	62	1.9	62	87	1	175	29	20	22	27	1.98
38010719--38010779	20	3.1	19	78	4	59	32	34	18	14	1.91
38036238--38036329	45	2.0	45	89	0	139	52	7	6	33	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38044304--38044497	47	4.1	47	88	0	271	34	10	28	26	1.90
38044467--38044648	48	3.8	48	90	4	294	35	7	25	31	1.84
38044468--38044651	98	1.9	96	93	4	316	35	7	25	30	1.84
38044797--38044868	37	1.9	37	91	0	117	22	18	30	29	1.97
38048880--38049103	48	4.7	48	74	8	188	29	18	28	23	1.98
38056357--38056420	25	2.4	27	79	10	69	31	1	23	43	1.63
38056499--38056695	48	4.1	48	80	8	213	28	19	27	23	1.98
38056496--38056672	96	1.8	96	85	4	250	28	19	28	24	1.98
38057184--38057275	48	1.9	48	84	4	123	28	31	14	26	1.94
38057083--38057450	196	1.9	195	89	0	574	31	23	17	27	1.97
38059443--38059546	39	2.6	40	93	1	174	25	27	21	25	1.99
38059443--38059599	79	2.0	80	83	6	203	25	26	22	24	2.00
38059396--38059599	40	5.1	40	77	12	181	25	25	22	25	2.00
38067432--38067563	40	3.3	40	89	3	169	26	27	21	25	1.99
38067460--38067613	79	1.9	80	84	6	206	25	27	20	25	1.99
38067460--38067563	39	2.6	40	92	1	165	26	27	20	25	1.99
38070684--38070751	33	2.1	33	97	0	127	33	8	13	44	1.74
38084830--38084861	12	2.4	14	90	10	50	78	3	3	15	1.01
38089361--38089387	13	2.1	13	100	0	54	33	0	14	51	1.43
38089679--38089710	9	3.8	9	84	16	50	31	0	0	68	0.90
38094402--38094434	6	5.5	6	96	0	57	15	3	0	81	0.80
38094402--38094441	18	2.2	18	86	0	53	17	5	0	77	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38100207--38100438	50	4.7	50	78	8	253	25	21	31	21	1.98
38100213--38100440	95	2.3	98	84	5	275	25	21	31	21	1.98
38101802--38101832	7	4.4	7	91	0	53	41	0	9	48	1.36
38105275--38105316	9	4.3	10	82	14	52	54	2	0	42	1.13
38105276--38105317	20	2.1	20	95	0	75	52	2	0	45	1.13
38114567--38114606	20	2.0	20	100	0	80	40	10	5	45	1.60
38115641--38115834	31	6.3	30	84	3	181	22	31	30	14	1.94
38115663--38115719	18	3.5	17	68	22	50	22	36	29	10	1.88
38115641--38115834	62	3.1	62	82	0	253	22	31	30	14	1.94
38115643--38115823	93	1.9	93	87	0	263	24	33	28	14	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