genome.fa.s4.2.7.7.80.10.50.1000.120.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  120  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)
38357138--38357170	13	2.4	14	90	5	50	54	9	9	27	1.62
38357767--38357846	37	2.3	32	82	14	97	63	3	5	27	1.32
38358825--38358859	14	2.5	14	90	0	61	71	0	14	14	1.15
38359719--38359811	45	2.1	44	82	6	107	29	24	13	32	1.94
38359744--38359831	44	2.0	45	82	6	108	31	26	12	29	1.93
38359771--38360103	177	1.9	177	84	3	456	28	23	17	31	1.96
38373561--38373668	50	2.2	50	93	0	180	25	8	20	46	1.78
38377048--38377123	33	2.3	33	93	2	127	64	3	5	26	1.32
38377381--38377434	22	2.4	22	84	9	65	70	9	5	14	1.31
38379331--38379362	3	10.7	3	100	0	64	31	0	0	68	0.90
38382382--38382446	27	2.6	26	82	17	84	20	35	0	44	1.51
38396484--38396513	12	2.5	12	100	0	60	33	13	16	36	1.88
38400474--38400537	32	2.0	32	93	0	110	48	14	21	15	1.80
38404380--38404495	59	2.0	58	85	8	155	63	1	6	28	1.28
38404377--38404516	57	2.5	54	76	15	140	63	2	5	28	1.29
38404515--38404549	17	2.1	17	100	0	70	60	17	0	22	1.37
38404704--38404748	20	2.1	22	84	8	58	28	0	6	64	1.19
38408797--38408835	16	2.4	17	83	12	55	66	2	0	30	1.05
38409029--38409080	27	1.9	27	88	7	79	55	3	7	32	1.46
38412849--38413012	42	3.9	42	82	1	202	29	24	15	31	1.95
38419445--38419659	46	4.7	44	77	14	168	26	17	29	26	1.98
38424451--38424595	40	3.6	40	85	4	184	23	26	24	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38437995--38438112	59	2.0	59	100	0	236	20	15	28	35	1.93
38440538--38440580	15	2.9	15	86	6	52	13	11	20	53	1.71
38440555--38440598	15	2.9	15	83	10	54	9	15	18	56	1.65
38441118--38441164	23	2.0	23	100	0	94	36	12	17	34	1.87
38443644--38443808	43	3.9	43	82	1	152	21	16	30	31	1.96
38443640--38443795	85	1.8	85	84	0	213	19	18	29	32	1.96
38444841--38445046	27	7.6	27	83	0	250	38	18	9	33	1.83
38444845--38445030	81	2.3	81	90	0	282	39	19	8	32	1.81
38445025--38445099	27	2.8	27	87	0	105	30	18	8	42	1.79
38445162--38445292	27	4.9	27	84	3	140	38	22	9	29	1.85
38445343--38445473	27	4.9	26	90	3	172	38	18	19	23	1.93
38445343--38445894	54	10.3	54	80	9	556	35	17	20	26	1.95
38445343--38445893	81	6.9	81	81	8	579	35	17	20	26	1.95
38445432--38445506	35	2.1	35	87	0	105	45	14	14	25	1.83
38445484--38445713	27	8.6	27	86	2	320	34	16	20	27	1.95
38445673--38445757	44	1.9	44	95	0	152	36	10	23	29	1.88
38445718--38445893	27	6.6	27	86	0	228	34	19	21	25	1.96
38445647--38445785	71	2.0	71	91	0	224	35	15	21	27	1.93
38445620--38445811	98	2.0	98	88	4	289	34	16	22	26	1.95
38445596--38445838	125	1.9	125	89	0	378	34	17	22	25	1.96
38445566--38445865	152	2.0	152	91	0	492	35	18	21	25	1.95
38446317--38446383	22	3.0	22	78	8	73	22	22	22	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38446540--38446641	27	3.8	27	84	5	125	19	23	20	36	1.95
38446807--38446866	6	9.8	6	76	16	61	15	20	18	46	1.84
38446778--38446857	31	2.5	31	87	2	106	17	18	15	48	1.81
38458199--38458413	47	4.6	47	92	0	340	28	29	8	33	1.86
38458619--38458778	40	4.0	40	79	11	168	24	27	22	25	2.00
38467317--38467419	37	2.8	37	98	0	197	24	33	20	22	1.97
38467592--38467993	48	8.4	48	92	1	648	29	27	8	33	1.87
38471529--38471626	29	3.4	29	85	4	119	33	29	14	22	1.93
38472954--38473123	93	1.8	92	89	5	270	29	27	21	21	1.99
38472949--38473126	46	3.8	46	76	8	182	29	26	21	22	1.99
38473547--38473606	30	2.0	30	90	0	93	30	25	8	36	1.85
38474458--38474738	40	6.9	40	89	4	350	27	28	22	22	1.99
38474458--38474738	80	3.5	80	87	3	386	27	28	22	22	1.99
38476012--38476114	37	2.8	37	92	0	170	23	31	21	24	1.99
38476284--38477020	48	15.4	48	96	0	1240	28	28	9	33	1.89
38483900--38484023	28	4.4	28	92	1	185	33	27	12	26	1.93
38491533--38491699	46	3.6	46	79	7	144	28	18	29	23	1.98
38498833--38499058	48	4.8	47	83	1	281	31	16	20	30	1.95
38498837--38499058	95	2.3	95	93	0	372	31	16	20	31	1.95
38499022--38499098	38	2.0	38	89	0	118	27	18	25	28	1.98
38504525--38504550	11	2.4	11	100	0	52	69	7	0	23	1.14
38504530--38504583	20	2.8	19	78	15	58	68	3	3	24	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38517796--38517840	13	3.7	13	80	17	60	51	13	0	35	1.41
38517796--38517845	23	2.2	23	92	3	84	52	12	0	36	1.39
38521921--38521967	16	2.9	16	75	12	51	63	12	14	8	1.50
38521925--38521993	31	2.2	32	92	2	113	59	15	15	8	1.60
38525817--38526039	40	5.6	40	82	6	204	24	20	27	27	1.99
38525817--38526041	80	2.8	79	80	7	233	24	20	27	27	1.99
38543279--38543400	47	2.6	47	93	0	199	36	14	22	25	1.93
38543387--38543575	55	3.5	54	80	6	213	35	17	23	22	1.95
38543373--38543575	54	3.8	53	79	4	192	37	16	23	23	1.93
38548495--38548710	40	5.4	40	89	2	312	26	28	22	22	1.99
38550851--38550908	30	2.0	30	86	3	82	48	8	8	34	1.65
38560565--38560742	27	6.6	27	82	3	178	29	28	15	26	1.96
38568665--38568842	27	6.6	27	81	3	160	29	27	15	27	1.96
38570914--38570951	18	2.1	18	95	0	67	26	7	15	50	1.72
38571341--38571504	40	4.1	40	85	3	195	23	22	28	25	1.99
38571341--38571504	80	2.0	80	89	2	249	23	22	28	25	1.99
38574392--38574456	27	2.5	25	78	12	69	30	24	16	27	1.97
38577217--38577286	27	2.7	26	84	8	81	30	27	12	30	1.93
38586545--38586868	48	6.6	48	73	10	246	27	18	29	24	1.98
38586685--38586868	102	1.8	102	86	2	271	26	19	29	25	1.99
38590583--38590643	30	2.0	30	87	0	86	29	22	8	39	1.83
38592182--38592224	18	2.4	18	96	0	77	34	18	11	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38594864--38594997	43	3.1	43	84	3	180	26	14	23	34	1.94
38596863--38596928	33	2.0	34	90	3	107	28	18	21	31	1.96
38598357--38598396	19	2.1	19	100	0	80	42	5	10	42	1.60
38604867--38604927	28	2.2	28	97	2	115	47	6	22	22	1.74
38610138--38610378	47	5.1	47	97	0	455	29	30	8	31	1.87
38611762--38611786	13	1.9	13	100	0	50	36	16	16	32	1.90
38613860--38614044	80	2.3	81	82	3	223	24	28	23	23	2.00
38613860--38614042	40	4.6	39	82	4	197	24	27	24	23	2.00
38614348--38614426	29	2.7	29	86	5	106	27	32	15	24	1.95
38614408--38614510	43	2.4	43	100	0	206	26	35	15	22	1.94
38616409--38616487	37	2.1	37	88	4	115	25	30	18	25	1.98
38616606--38617094	47	10.4	47	94	0	789	29	30	8	31	1.87
38618478--38618502	13	1.9	13	100	0	50	36	16	16	32	1.90
38621219--38621347	47	2.8	46	80	9	127	27	32	15	24	1.95
38627123--38627267	40	3.6	40	83	4	166	26	24	24	24	2.00
38641560--38641810	80	3.2	80	91	0	396	24	20	27	27	1.99
38641559--38641810	40	6.3	40	79	0	281	25	20	27	26	1.99
38649234--38649641	203	2.0	203	100	0	816	37	13	19	30	1.90
38649838--38650049	40	5.3	40	78	2	230	24	20	27	27	1.99
38649842--38650058	80	2.7	79	87	3	301	24	20	27	27	1.99
38653526--38653689	43	3.8	42	78	7	161	31	26	18	23	1.97
38655911--38655989	37	2.1	37	85	0	104	26	29	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38656108--38656499	47	8.1	49	90	5	593	29	29	8	32	1.87
38656108--38656499	96	4.0	96	91	4	608	29	29	8	32	1.87
38659583--38659739	40	3.9	40	90	0	233	24	28	22	24	1.99
38659596--38659857	40	6.6	41	82	6	179	24	28	22	24	2.00
38659596--38659777	80	2.3	80	84	2	224	23	29	23	24	1.99
38660172--38660245	29	2.6	28	87	8	96	25	31	16	27	1.96
38662151--38662228	36	2.1	37	88	2	113	24	32	20	23	1.98
38662347--38662738	47	8.1	49	92	3	593	29	29	8	32	1.87
38671173--38671307	48	2.8	48	82	2	155	28	16	28	27	1.97
38671283--38671334	27	1.9	27	96	0	95	30	19	25	25	1.98

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