genome.fa.s9.2.7.7.80.10.50.1000.98.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  98  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)
31892942--31892985	23	2.0	22	86	4	61	52	27	4	15	1.63
31908714--31908925	40	5.3	40	86	4	234	25	21	27	25	1.99
31908661--31908925	80	3.3	80	81	6	263	25	21	27	24	1.99
31908781--31908958	79	2.2	80	81	2	198	24	21	28	24	1.99
31922159--31922415	40	6.4	40	82	5	308	28	27	21	22	1.99
31922159--31922415	80	3.2	80	91	3	387	28	27	21	22	1.99
31926706--31926801	27	3.6	27	82	10	124	33	18	8	39	1.81
31926686--31926801	54	2.1	54	80	3	135	34	20	7	37	1.82
31926707--31926828	54	2.3	54	85	0	154	35	18	7	38	1.79
31926780--31927057	55	5.1	54	76	6	213	40	20	7	31	1.81
31926794--31926999	27	7.6	27	80	4	193	41	20	8	29	1.81
31926788--31926999	82	2.6	80	77	7	214	41	20	8	30	1.81
31926761--31927055	54	5.4	54	77	6	141	40	19	8	31	1.81
31928340--31928387	25	1.9	25	82	0	60	37	22	12	27	1.90
31928501--31928669	25	7.0	24	88	6	220	27	21	23	27	1.99
31928500--31928669	49	3.5	47	84	8	218	27	21	23	27	1.99
31928862--31928925	31	2.1	31	88	5	94	37	12	23	26	1.90
31934204--31934588	190	2.0	190	99	0	761	38	11	13	36	1.81
31935655--31935706	23	2.3	23	83	6	70	44	5	0	50	1.26
31940697--31940743	4	11.8	4	100	0	94	25	0	23	51	1.49
31945021--31945045	10	2.5	10	100	0	50	80	0	0	20	0.72
31945030--31945073	22	2.0	22	82	8	54	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31945983--31946092	42	2.6	42	81	9	109	22	28	20	29	1.98
31946025--31946286	45	5.9	45	86	4	329	27	27	20	25	1.99
31947095--31947238	47	3.0	47	89	1	225	44	14	13	27	1.83
31953742--31953983	45	5.5	44	89	3	344	27	28	21	22	1.99
31954794--31954905	48	2.4	48	90	1	172	43	14	14	27	1.84
31954874--31954941	35	1.9	35	96	0	127	38	16	13	32	1.87
31957728--31957824	50	1.9	50	89	0	149	30	26	16	25	1.97
31979964--31979997	13	2.6	13	95	0	59	29	11	29	29	1.92
31987989--31988206	27	8.1	27	86	0	175	34	24	5	34	1.80
31987989--31988169	54	3.4	54	88	0	254	33	24	6	35	1.80
31988000--31988180	81	2.2	81	88	0	281	34	24	5	34	1.79
31988148--31988369	54	4.1	55	74	10	161	40	19	8	31	1.82
31988000--31988206	81	2.6	81	84	0	216	35	24	5	33	1.80
31988157--31988314	27	5.9	27	79	5	133	41	20	8	30	1.81
31988148--31988369	27	8.1	27	77	7	128	40	19	8	31	1.82
31989305--31989373	25	2.8	24	93	2	111	26	26	23	24	2.00
31989305--31989386	24	3.4	24	89	5	112	29	23	23	24	1.99
31991265--31991356	42	2.2	43	84	5	116	28	20	20	30	1.98
31991644--31991745	50	2.0	50	98	0	195	32	21	5	40	1.77
31997063--31997101	15	2.6	15	87	0	60	58	10	17	12	1.61
31997063--31997110	15	3.2	15	79	5	53	56	14	16	12	1.68
32006891--32006928	19	2.0	19	85	10	51	42	21	15	21	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32015940--32015982	16	2.7	16	96	0	77	20	6	23	48	1.73
32031726--32032033	40	7.7	40	96	0	535	30	20	26	21	1.98
32034183--32034254	24	3.0	24	86	10	94	34	15	22	27	1.94
32034569--32034650	43	1.9	43	85	5	112	29	23	17	30	1.97
32040080--32040214	40	3.4	40	94	0	243	28	28	20	22	1.98
32048583--32048717	40	3.4	40	93	0	234	30	29	19	20	1.97
32058374--32058448	28	2.7	28	82	0	105	25	16	33	25	1.95
32061227--32061266	21	1.9	21	100	0	80	45	20	0	35	1.51
32061781--32061836	28	2.0	28	85	0	76	30	25	16	28	1.96
32061848--32061968	40	3.0	40	81	0	143	34	23	19	23	1.96
32062298--32062568	135	2.0	135	97	0	506	32	24	7	36	1.82
32067948--32067988	20	2.0	20	100	0	82	29	24	21	24	1.99
32069507--32069611	40	2.6	40	82	8	124	38	23	16	21	1.93
32073979--32074090	28	4.0	27	77	11	109	26	31	15	26	1.96
32074305--32074355	16	3.2	16	88	0	75	7	13	23	54	1.65
32074469--32074524	28	2.0	28	92	0	94	37	33	5	23	1.78
32081843--32081954	28	4.0	28	81	2	109	26	28	16	28	1.97
32098332--32098503	93	1.8	93	90	2	274	29	29	19	22	1.98
32098325--32098500	46	3.8	46	75	14	173	30	28	19	21	1.97
32105854--32106028	46	3.8	46	79	13	214	28	28	21	21	1.99
32105862--32106032	93	1.8	93	94	0	306	28	28	21	22	1.99
32114749--32114826	37	2.1	37	87	0	111	26	32	16	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32114945--32115265	47	6.7	47	94	2	509	29	28	8	33	1.86
32114945--32115265	96	3.4	94	91	4	509	29	28	8	33	1.86
32117285--32117455	85	2.0	85	100	0	342	26	26	8	38	1.84
32119081--32119430	40	8.8	40	92	1	587	25	28	22	24	1.99
32119081--32119430	158	2.2	159	92	2	578	25	28	22	24	1.99
32120648--32120725	37	2.1	37	87	0	111	26	32	16	24	1.96
32120843--32121259	47	8.7	47	95	1	692	29	29	7	33	1.86
32123104--32123282	85	2.1	85	97	0	340	26	27	8	37	1.85
32125201--32125305	53	2.0	53	84	0	138	19	23	20	37	1.94
32130091--32130330	129	1.9	128	88	0	363	40	17	10	31	1.83
32133620--32133720	38	2.7	38	85	0	130	22	19	26	30	1.98
32133718--32134001	43	6.6	43	93	0	469	11	25	31	31	1.92
32136503--32136536	9	3.7	9	88	4	50	52	0	11	35	1.38
32154834--32155063	40	5.8	40	92	1	336	25	21	28	24	1.99
32163361--32163550	40	4.8	40	90	1	247	25	22	28	24	1.99
32163361--32163570	80	2.6	80	86	3	280	24	21	28	25	1.99
32169692--32169770	39	2.0	39	100	0	158	31	7	22	37	1.82
32174397--32174453	27	2.1	27	96	0	105	19	24	17	38	1.93
32179650--32179793	27	5.3	27	83	1	146	30	22	7	39	1.82
32179792--32179965	27	6.4	27	76	6	138	40	20	9	29	1.84
32179925--32179992	28	2.5	27	77	13	75	42	13	10	33	1.78
32179904--32180006	27	3.8	27	73	16	95	43	18	7	30	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32180062--32180128	27	2.5	26	81	11	82	37	16	22	23	1.94
32180928--32181025	26	3.8	26	89	1	144	28	22	21	27	1.99
32181170--32181261	42	2.2	42	88	3	132	30	13	20	35	1.91
32183600--32183745	27	5.4	27	89	0	202	28	21	8	42	1.81
32183779--32183900	27	4.5	27	75	8	106	40	22	9	27	1.84
32183912--32183963	27	1.9	27	88	7	79	38	13	13	34	1.84
32186083--32186393	39	8.0	39	92	0	487	22	25	28	23	1.99
32188723--32188753	16	1.9	16	93	0	53	29	22	12	35	1.91
32188977--32189068	42	2.2	42	88	0	139	28	15	21	34	1.94
32189092--32189170	31	2.5	31	93	0	131	30	17	24	27	1.97
32191438--32191583	27	5.4	27	92	0	211	27	21	8	42	1.82
32191615--32191713	27	3.7	27	80	4	128	40	22	8	29	1.82
32191573--32191714	54	2.7	53	76	10	137	36	21	11	29	1.90
32191635--32191739	54	1.9	54	84	3	140	40	20	9	30	1.84
32191750--32191801	27	1.9	27	88	7	79	38	13	13	34	1.84
32192720--32192817	26	3.8	26	90	1	153	27	23	22	26	1.99
32192720--32192829	52	2.2	51	88	4	170	29	21	22	26	1.99
32192962--32193053	42	2.2	42	90	0	139	28	14	22	34	1.93
32193077--32193155	31	2.5	31	91	0	122	31	17	22	27	1.97
32195081--32195225	27	5.4	27	84	0	184	27	21	7	43	1.79
32195217--32195359	27	5.3	26	70	13	85	38	21	10	29	1.87
32195257--32195394	27	5.1	27	75	11	113	40	21	7	30	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32195392--32195443	27	1.9	27	88	0	77	36	11	15	36	1.84
32196363--32196510	26	5.8	26	89	1	221	27	23	22	27	1.99
32196363--32196510	52	2.9	52	94	3	257	27	23	22	27	1.99
32196655--32196746	42	2.2	42	90	0	139	29	15	21	33	1.94
32196770--32196846	31	2.5	31	93	0	136	29	18	24	27	1.98
32199892--32200053	43	3.8	43	85	0	209	20	24	22	32	1.98
32212991--32213051	30	2.0	30	83	0	77	31	22	8	37	1.84
32216002--32216179	27	6.6	27	82	3	187	30	27	14	26	1.95
32216023--32216178	82	1.9	81	85	3	215	30	27	14	26	1.95
32223905--32224082	27	6.6	27	84	3	205	29	28	15	26	1.96

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