genome.fa.s1.2.7.7.80.10.50.1000.168.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: A01
Parameters: 2 7 7 80 10 50 1000
Length:  104050246

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   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   

This is table  168  of  316  ( 37835 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)
53618682--53618731	23	2.2	23	86	13	68	26	14	18	42	1.87
53619595--53619654	30	2.0	30	96	0	111	33	21	20	25	1.97
53629093--53629245	52	3.0	50	80	10	148	24	18	27	29	1.98
53629201--53629295	46	2.0	47	84	6	122	25	15	28	30	1.96
53637853--53637920	34	2.0	34	82	5	84	20	25	25	29	1.99
53643195--53643263	9	8.0	9	69	26	51	55	20	0	24	1.44
53643195--53643248	10	4.9	11	74	17	58	55	18	0	25	1.43
53643195--53643248	23	2.5	22	87	6	74	55	18	0	25	1.43
53643217--53643256	21	2.1	19	86	13	55	50	20	0	30	1.49
53647341--53647555	45	4.9	45	83	4	253	27	27	20	24	1.99
53652145--53652406	39	6.6	39	87	5	309	25	22	27	24	2.00
53652197--53652431	78	3.0	79	84	7	241	26	21	27	25	1.99
53660161--53660383	39	5.7	40	85	8	266	25	22	27	24	2.00
53660161--53660383	79	2.8	81	84	9	282	25	22	27	24	2.00
53660161--53660416	79	3.3	79	81	10	217	26	21	27	24	1.99
53662158--53662383	40	5.7	40	88	4	280	26	22	26	25	2.00
53670084--53670309	40	5.7	40	86	6	266	26	22	26	25	2.00
53670137--53670342	80	2.6	79	82	9	215	27	20	26	24	1.99
53672483--53672700	40	5.5	40	92	2	343	23	23	27	24	2.00
53676266--53676436	46	3.7	46	78	10	204	22	21	27	28	1.99
53676263--53676433	93	1.8	93	94	0	306	22	21	28	28	1.99
53683412--53683626	39	5.5	40	89	6	316	23	22	28	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53683408--53683626	79	2.8	80	88	6	324	24	22	27	25	2.00
53688161--53688205	23	2.0	23	95	0	81	33	13	22	31	1.92
53693436--53693561	43	2.9	43	82	2	137	32	26	16	24	1.96
53697316--53697410	24	4.0	24	82	5	113	40	16	18	24	1.91
53697315--53697421	22	4.7	22	79	8	124	38	17	18	25	1.93
53697316--53697421	48	2.3	47	82	6	128	38	17	18	24	1.93
53704835--53705052	40	5.5	40	88	2	289	23	22	27	25	2.00
53712949--53713125	40	4.5	40	89	4	245	23	23	28	24	2.00
53717743--53717802	28	2.1	29	87	3	86	20	20	35	25	1.96
53719699--53719886	49	3.8	48	81	6	232	29	25	17	27	1.97
53719704--53719891	100	1.9	100	94	0	331	29	25	18	26	1.98
53721988--53722109	43	2.9	42	85	2	154	30	24	14	30	1.95
53727140--53727177	19	2.0	20	85	15	53	36	0	23	39	1.55
53733813--53733937	46	2.7	46	84	0	160	23	20	24	32	1.98
53734162--53734199	19	2.0	20	85	15	53	36	0	23	39	1.55
53736927--53737101	46	3.8	46	75	10	169	20	17	29	33	1.95
53736923--53737094	92	1.9	92	88	2	265	20	17	29	31	1.96
53739330--53739457	65	2.0	65	95	0	229	42	16	16	25	1.88
53739460--53739516	26	2.2	26	83	3	69	26	19	19	35	1.95
53743487--53743614	65	2.0	65	98	0	247	42	17	15	25	1.88
53750971--53751091	46	2.6	46	94	0	215	18	21	30	29	1.97
53753960--53754104	43	3.4	43	83	11	172	29	26	18	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53754622--53754684	28	2.2	30	82	5	76	28	14	6	50	1.67
53764815--53764863	23	2.1	23	96	0	89	38	38	4	18	1.70
53769783--53769950	44	3.7	44	77	10	169	23	28	20	27	1.99
53769749--53770047	47	6.4	45	71	15	171	22	27	21	28	1.99
53778573--53778671	27	3.7	27	90	0	144	28	12	15	44	1.82
53778573--53778684	54	2.0	56	88	6	167	25	13	16	44	1.84
53778587--53778684	27	3.5	29	85	12	134	23	14	15	46	1.82
53780909--53781012	27	3.9	26	83	3	109	25	17	20	37	1.93
53780909--53781012	54	1.9	54	84	3	138	25	17	20	37	1.93
53782673--53782740	24	2.8	24	86	0	91	38	23	17	20	1.93
53786081--53786253	43	4.0	44	72	10	142	24	16	23	35	1.94
53793702--53794091	40	9.8	40	96	0	681	24	27	21	27	1.99
53801954--53802294	40	8.8	40	93	2	538	24	28	20	26	1.99
53812818--53813031	40	5.4	40	89	3	310	24	21	28	26	1.99
53818804--53819029	48	4.7	47	76	8	168	29	19	29	22	1.98
53818846--53819029	96	1.9	96	84	4	246	29	17	29	22	1.97
53820220--53820259	21	2.0	20	85	5	53	12	37	27	22	1.90
53822134--53822198	22	3.0	22	82	8	78	32	21	24	21	1.98
53822340--53822462	41	3.0	41	91	0	192	26	29	21	21	1.99
53822722--53822774	27	2.0	27	92	0	88	35	15	11	37	1.83
53822728--53822883	27	5.7	27	80	8	138	30	6	18	44	1.75
53822822--53823061	54	4.4	54	80	9	240	28	7	22	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53822841--53823061	27	8.2	26	80	11	173	27	7	22	42	1.80
53822703--53823061	81	4.4	81	75	7	255	29	7	21	42	1.80
53823081--53823149	27	2.6	27	85	0	102	27	17	18	36	1.94
53825806--53825906	32	3.2	32	78	0	94	32	22	19	24	1.97
53826372--53826458	27	3.2	27	85	6	131	29	13	18	37	1.89
53826385--53826549	27	6.2	26	75	8	102	30	10	21	36	1.87
53831919--53832102	67	2.8	64	75	11	178	28	17	30	23	1.97
53831811--53833453	820	2.0	820	99	0	3241	32	12	25	29	1.92
53837206--53837377	46	3.7	46	79	16	201	21	19	29	29	1.98
53840969--53840993	13	1.9	13	100	0	50	56	0	20	24	1.43
53841414--53841644	48	4.9	48	75	13	217	27	20	24	27	1.99
53844326--53844418	24	3.9	24	73	9	84	35	19	23	21	1.96
53848391--53848504	35	3.3	35	79	9	133	27	9	22	40	1.85
53851133--53851370	47	5.1	47	93	0	359	31	10	30	26	1.91
53851228--53851305	25	3.2	25	63	23	67	28	10	32	29	1.90
53851344--53851434	46	2.0	46	86	0	128	32	8	31	26	1.87
53859429--53859459	15	2.1	15	100	0	62	12	12	25	48	1.77
53859553--53859663	35	3.2	33	80	10	123	26	9	22	42	1.83
53862275--53862433	40	4.0	40	93	2	259	23	22	27	27	1.99
53866344--53866495	68	2.3	68	81	8	172	26	30	14	28	1.95
53866958--53867018	30	2.0	30	83	0	77	31	22	4	40	1.75
53872791--53872865	36	2.1	36	92	0	123	42	12	12	33	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53886105--53886224	43	2.8	43	72	5	116	27	17	25	30	1.97
53891661--53891716	28	2.0	28	100	0	112	32	10	14	42	1.80
53896468--53896523	30	1.9	29	85	7	78	39	8	25	26	1.85
53898150--53898205	28	2.0	28	96	0	103	32	12	14	41	1.83
53904141--53904168	11	2.5	11	100	0	56	32	0	0	67	0.91
53915910--53915957	14	3.5	13	78	21	53	41	6	12	39	1.68
53916105--53916186	43	1.9	43	82	9	105	28	20	24	26	1.99
53919157--53919244	29	3.1	29	83	1	115	26	14	29	29	1.95
53920347--53920381	18	2.0	18	88	5	54	34	20	14	31	1.92
53926935--53927006	38	1.9	37	94	2	126	38	18	20	22	1.93
53927798--53927823	12	2.2	12	100	0	52	34	0	7	57	1.27
53933676--53933706	5	6.2	5	100	0	62	77	0	22	0	0.77
53939023--53939264	47	5.1	47	87	4	331	33	9	29	27	1.89
53939097--53939172	24	3.2	24	62	23	61	28	13	32	25	1.93
53939238--53939328	46	2.0	46	84	0	119	32	7	31	27	1.85
53942900--53943051	40	3.8	41	89	3	211	24	21	28	25	1.99
53942900--53943071	80	2.2	80	84	3	213	23	20	27	27	1.99
53950958--53951109	40	3.8	41	89	3	211	24	21	28	25	1.99
53950958--53951129	80	2.2	80	84	3	213	23	20	27	27	1.99
53954566--53954595	10	3.0	10	95	0	51	76	0	13	10	1.01
53956706--53956736	12	2.6	12	100	0	62	58	0	0	41	0.98
53973974--53974029	26	2.2	26	100	0	112	30	7	26	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53980953--53981052	26	3.8	26	97	0	191	30	7	27	36	1.83
53982539--53982591	26	2.0	26	82	7	63	37	20	15	26	1.92
53988732--53988763	14	2.3	14	100	0	64	6	15	46	31	1.71
53993857--53993888	14	2.3	14	94	0	55	9	15	43	31	1.78
54006255--54006393	43	3.3	42	75	9	129	20	25	31	22	1.98
54006234--54006360	43	3.0	41	73	10	121	22	27	29	20	1.98
54006234--54006393	85	1.9	86	85	6	227	21	26	31	20	1.98
54008458--54008569	39	2.9	39	83	0	152	23	20	29	26	1.99
54009650--54009751	52	2.0	52	94	0	177	31	3	22	42	1.72
54017176--54017353	27	6.6	27	79	5	162	29	27	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   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316