genome.fa.s4.2.7.7.80.10.50.1000.116.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  116  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)
37082485--37082530	22	2.1	22	100	0	92	50	4	4	41	1.42
37083444--37083478	16	2.3	15	90	5	52	0	20	0	80	0.72
37100211--37100381	93	1.8	93	92	0	288	29	28	20	22	1.98
37100206--37100378	46	3.7	46	76	13	183	30	27	20	22	1.98
37100204--37100397	46	4.2	46	71	14	148	29	27	20	22	1.98
37104325--37104350	13	2.0	13	100	0	52	30	0	7	61	1.24
37105866--37106042	40	4.4	40	85	4	196	24	21	26	27	1.99
37111329--37111499	93	1.8	93	94	0	306	27	28	21	22	1.99
37111324--37111496	46	3.7	46	77	13	201	28	27	21	22	1.99
37119899--37120020	46	2.5	48	84	5	149	25	22	14	36	1.93
37138037--37138065	14	2.0	15	93	6	51	48	20	0	31	1.50
37141201--37141599	47	8.4	47	90	2	555	32	9	29	28	1.89
37143692--37143765	29	2.6	29	86	4	96	24	16	33	25	1.95
37144080--37144395	40	7.9	40	83	1	305	25	22	26	25	2.00
37147576--37147931	47	7.4	47	88	3	469	33	8	28	28	1.88
37148050--37148128	37	2.1	37	90	0	122	24	18	31	25	1.98
37154116--37154155	19	2.1	19	95	0	71	37	22	5	35	1.76
37159975--37160145	93	1.8	93	88	0	261	30	28	18	22	1.97
37159970--37160139	46	3.7	46	74	13	159	31	27	17	22	1.97
37160563--37160621	30	2.0	30	86	6	84	30	25	6	37	1.82
37164899--37164946	24	2.0	24	100	0	96	29	29	12	29	1.93
37164917--37165181	55	4.9	53	80	8	284	23	25	16	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37164917--37165180	110	2.4	108	89	1	393	23	25	15	34	1.95
37164981--37165196	54	4.0	54	75	11	188	24	25	14	35	1.93
37195549--37195661	53	2.1	55	81	6	133	31	18	26	23	1.97
37206302--37206477	46	3.8	46	79	10	196	21	20	28	29	1.98
37206299--37206468	93	1.8	93	92	0	286	21	21	28	28	1.99
37209318--37209410	40	2.3	41	85	3	118	32	12	23	31	1.92
37210544--37210586	21	2.1	21	86	4	61	25	2	23	48	1.62
37216386--37216484	28	3.6	27	72	15	94	28	17	26	28	1.97
37216387--37216521	56	2.4	56	92	2	216	26	15	28	29	1.96
37216414--37216509	28	3.4	28	71	16	99	22	15	33	28	1.95
37217514--37217620	51	2.1	51	96	0	196	22	19	32	25	1.97
37221406--37221670	93	2.8	93	97	0	494	28	29	20	21	1.98
37221399--37221667	46	5.8	46	78	14	302	28	29	20	21	1.98
37224459--37224634	46	3.8	46	76	14	191	21	19	28	30	1.98
37224456--37224627	93	1.8	93	92	2	292	21	20	29	29	1.98
37232921--37232953	16	2.0	17	94	5	59	51	12	12	24	1.73
37234833--37234875	21	2.0	21	82	8	52	39	25	0	34	1.56
37235305--37235377	30	2.5	28	85	10	76	35	20	2	41	1.67
37235319--37235377	30	2.0	29	96	3	109	33	20	3	42	1.69
37235322--37235387	29	2.2	30	89	7	100	34	21	3	40	1.68
37242481--37242655	39	4.5	39	86	2	208	25	18	28	28	1.98
37256368--37256701	47	7.1	47	91	2	517	31	8	30	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37256368--37256701	93	3.5	95	90	1	496	31	8	30	29	1.88
37256369--37256701	140	2.4	142	90	1	517	31	9	30	29	1.88
37256820--37256898	37	2.1	37	88	4	115	25	18	30	25	1.98
37259573--37259726	27	5.7	27	89	0	236	37	18	19	25	1.94
37262579--37262777	27	7.4	27	82	2	211	36	19	19	25	1.95
37262579--37262778	81	2.5	80	85	4	249	36	19	19	25	1.95
37263430--37263480	27	1.9	26	84	4	66	17	27	19	35	1.94
37268848--37269208	47	7.6	47	92	1	533	29	29	8	32	1.86
37268848--37269208	49	7.6	49	91	2	544	29	29	8	32	1.86
37277086--37277185	50	2.0	50	96	0	182	33	19	21	27	1.97
37278339--37278760	48	8.8	48	78	8	412	28	18	27	25	1.98
37278339--37278717	144	2.6	143	89	3	530	27	18	28	25	1.98
37278352--37278760	144	2.8	141	82	11	488	28	18	27	25	1.98
37281123--37281179	30	1.9	30	89	3	89	31	14	24	29	1.94
37281510--37281683	46	3.7	46	82	7	185	25	20	31	22	1.98
37284113--37284284	46	3.7	46	77	14	192	28	27	22	21	1.99
37284118--37284288	93	1.8	93	92	2	290	28	28	22	21	1.99
37284708--37284767	30	2.0	30	90	0	93	30	25	8	36	1.85
37287857--37287915	30	2.0	30	86	0	82	32	15	25	27	1.95
37288257--37288422	46	3.6	44	77	11	156	27	19	28	24	1.98
37290203--37290281	34	2.3	35	84	6	99	48	15	6	30	1.70
37291060--37291124	29	2.2	29	81	13	71	24	15	4	55	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37296213--37296268	19	3.1	19	72	15	64	32	7	17	42	1.77
37296211--37296277	35	2.0	35	88	5	102	31	5	14	47	1.69
37297030--37297236	40	5.2	40	94	0	351	23	22	24	29	1.99
37303962--37304017	19	3.1	19	72	15	64	32	7	17	42	1.77
37303961--37304026	35	1.9	35	87	6	100	31	6	15	46	1.70
37304778--37304984	40	5.2	40	97	0	378	22	23	26	28	1.99
37311671--37311726	19	3.1	19	72	15	64	32	7	17	42	1.77
37311670--37311735	35	1.9	35	87	6	100	31	6	15	46	1.70
37312487--37312692	40	5.2	40	96	0	376	22	23	25	28	1.99
37319412--37319467	19	3.1	19	72	15	64	32	7	17	42	1.77
37319411--37319476	35	1.9	35	87	6	100	31	6	15	46	1.70
37320228--37320433	40	5.2	40	95	0	358	23	22	24	28	1.99
37323960--37324057	44	2.3	43	83	5	126	28	18	25	27	1.98
37342195--37342241	19	2.4	21	80	16	57	44	14	4	36	1.65
37358872--37359088	39	5.6	40	86	6	286	23	20	25	29	1.99
37358872--37359088	77	2.8	79	87	6	309	23	20	25	29	1.99
37372774--37373039	48	5.6	48	77	15	193	23	30	18	27	1.98
37372774--37373045	92	2.9	93	76	15	247	23	30	18	27	1.98
37372782--37373039	140	1.8	139	81	8	317	23	29	17	28	1.97
37383187--37383285	28	3.5	29	76	12	116	28	18	28	25	1.98
37383238--37383307	28	2.5	27	79	6	77	28	18	28	24	1.98
37404766--37404904	41	3.4	40	87	4	181	36	22	21	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37404806--37404905	41	2.5	41	96	1	184	37	24	22	17	1.94
37405067--37405100	14	2.4	15	85	14	54	32	0	23	44	1.54
37405962--37405993	15	2.1	15	94	0	55	59	0	9	31	1.29
37408769--37409021	134	1.9	133	97	0	479	19	10	18	51	1.74
37410678--37411573	370	2.5	359	95	3	1600	36	15	10	38	1.82
37411661--37411728	24	2.8	24	86	8	102	27	19	7	45	1.76
37411905--37411960	15	3.8	15	80	20	73	46	0	0	53	1.00
37412065--37412281	9	23.6	9	74	9	125	47	13	0	37	1.50
37412065--37412281	18	12.3	18	73	10	153	47	13	0	37	1.50
37412075--37412294	123	1.9	114	80	12	246	47	13	0	38	1.49
37418372--37418577	43	4.8	43	95	0	358	23	31	19	25	1.98
37424108--37424145	13	2.7	14	88	8	51	21	5	5	68	1.29
37431121--37431145	12	2.1	12	100	0	50	16	0	32	52	1.44
37431201--37431259	28	2.1	29	81	9	68	44	1	22	32	1.63
37435107--37435167	30	2.0	30	83	0	77	29	24	6	39	1.80
37437193--37437249	25	2.3	25	85	8	73	63	1	0	35	1.05
37437194--37437252	8	7.2	8	81	9	66	62	1	0	35	1.05
37437941--37437987	22	2.2	20	85	14	60	53	0	2	44	1.12
37447120--37447179	30	2.0	30	93	0	102	26	26	16	30	1.97
37455397--37455613	39	5.6	39	89	1	303	22	22	27	28	1.99
37458234--37458267	16	2.1	16	89	10	52	26	5	0	67	1.13
37461221--37461340	54	2.2	55	84	1	161	25	29	25	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37468244--37468274	15	2.1	15	100	0	62	38	12	25	22	1.90
37471033--37471065	13	2.4	14	85	5	50	45	15	24	15	1.84
37472474--37473225	47	15.6	47	87	5	1074	28	28	8	33	1.86
37472474--37473225	145	5.2	143	90	4	1136	28	28	8	33	1.86
37472474--37473225	243	3.1	241	93	3	1261	28	28	8	33	1.86
37474503--37474681	85	2.1	85	98	0	349	26	27	8	37	1.85
37476367--37476752	40	9.6	40	91	1	621	25	29	21	23	1.99
37476512--37476578	23	3.2	23	60	24	56	23	28	23	23	2.00
37478181--37478982	47	16.6	47	86	5	1100	29	29	8	33	1.86
37478186--37478982	145	5.5	143	91	3	1143	29	29	8	33	1.86

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