genome.fa.s1.2.7.7.80.10.50.1000.121.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  121  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)
38266651--38266729	41	1.9	41	89	5	124	25	12	30	31	1.93
38273987--38274139	41	3.8	41	76	11	127	24	15	27	33	1.95
38273980--38274100	41	3.0	40	77	10	129	25	13	28	33	1.93
38280692--38280866	49	3.6	49	74	6	142	25	27	20	27	1.99
38281494--38281550	30	1.9	30	85	0	78	35	17	8	38	1.81
38283830--38284003	43	4.1	42	73	18	128	35	24	17	23	1.95
38289213--38289276	31	2.1	31	93	0	110	32	20	9	37	1.85
38291503--38291529	13	2.1	13	100	0	54	14	25	37	22	1.93
38295302--38295338	18	2.1	18	100	0	74	37	13	21	27	1.91
38295755--38295804	23	2.1	24	81	3	57	38	0	24	38	1.56
38304237--38304330	47	2.0	47	100	0	188	31	21	14	31	1.94
38310014--38310052	12	3.2	12	92	0	60	10	30	41	17	1.83
38310014--38310059	24	2.0	22	83	8	56	10	30	39	19	1.86
38310449--38310495	23	2.0	23	95	0	85	25	14	6	53	1.65
38317981--38318071	30	2.9	32	80	11	100	40	3	5	50	1.42
38319226--38319264	19	2.0	19	85	5	51	43	5	7	43	1.55
38319826--38319857	14	2.3	14	94	0	55	9	12	46	31	1.73
38324951--38324982	14	2.3	14	94	0	55	9	12	46	31	1.73
38346259--38346332	34	2.2	34	92	4	123	28	22	24	24	2.00
38346278--38346363	34	2.5	34	84	0	100	29	24	25	20	1.99
38354681--38354751	32	2.2	32	92	0	115	19	32	9	38	1.85
38355217--38355423	53	3.8	53	78	3	216	19	23	18	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38356358--38356433	37	2.1	37	97	0	143	31	18	7	42	1.79
38357222--38357458	124	1.9	123	95	0	429	38	15	11	34	1.83
38364431--38364640	28	7.5	28	93	1	323	28	11	25	33	1.91
38367539--38367568	15	2.0	15	93	0	51	3	13	33	50	1.58
38390116--38390159	21	2.1	22	84	16	58	25	6	15	52	1.68
38391066--38391117	27	1.9	27	84	0	68	42	21	19	17	1.89
38391261--38391488	27	8.5	26	80	4	213	28	20	17	34	1.95
38391282--38391486	80	2.5	81	82	7	247	26	20	18	34	1.95
38391281--38391485	107	1.9	107	84	2	277	26	20	18	35	1.95
38391527--38391785	132	2.0	132	95	0	464	29	28	20	21	1.98
38394912--38395040	39	3.3	39	92	0	204	23	26	20	30	1.98
38402467--38402691	80	2.8	80	84	6	296	25	20	27	27	1.99
38402521--38402691	40	4.3	40	95	1	290	25	19	27	28	1.99
38402467--38402724	80	3.2	80	83	6	260	26	20	27	26	1.99
38424508--38424557	25	2.0	25	88	7	75	22	32	18	28	1.97
38428772--38428821	25	2.0	25	88	7	75	22	32	18	28	1.97
38430435--38430475	16	2.6	16	84	0	55	31	17	7	43	1.76
38433545--38433693	27	5.6	27	92	4	230	30	29	12	26	1.93
38441531--38441682	27	5.6	27	91	3	223	30	29	12	26	1.93
38441531--38441707	55	3.2	55	88	0	246	31	29	12	25	1.93
38454391--38454452	23	2.7	22	85	5	70	41	17	17	22	1.90
38462796--38462840	20	2.2	20	88	0	63	37	13	0	48	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38465925--38466061	46	3.0	46	86	0	184	25	30	8	35	1.86
38466035--38466323	47	6.1	47	89	3	380	26	29	11	32	1.91
38466147--38466224	23	3.2	25	65	17	74	29	30	10	29	1.90
38467976--38468153	27	6.6	27	84	3	205	29	28	15	26	1.96
38467997--38468152	82	1.9	81	88	3	233	29	28	15	26	1.96
38476157--38476335	27	6.6	27	83	3	144	29	29	15	26	1.96
38476185--38476334	82	1.8	81	88	4	230	29	28	16	26	1.96
38481812--38481860	25	2.0	25	88	8	73	28	28	12	30	1.93
38482031--38482424	40	9.9	40	95	0	680	27	27	22	22	1.99
38482309--38482375	23	3.2	23	60	24	56	23	26	25	23	2.00
38483922--38484058	46	3.0	46	86	0	184	25	30	8	35	1.85
38484037--38484273	47	5.0	47	87	4	330	26	29	10	33	1.90
38488108--38488301	47	4.1	47	90	0	289	32	10	29	26	1.90
38488137--38488208	22	3.1	22	64	24	58	33	13	29	23	1.93
38488182--38488257	23	3.2	25	62	24	63	28	13	34	23	1.92
38488272--38488406	49	2.8	48	88	6	218	35	7	26	30	1.84
38488552--38488660	37	2.9	37	90	2	166	22	17	31	28	1.97
38489516--38489559	20	2.2	20	100	0	88	50	15	4	29	1.64
38496311--38496425	46	2.5	45	84	5	142	26	17	29	26	1.97
38500475--38500507	16	2.1	16	94	0	57	30	3	18	48	1.63
38503183--38503353	93	1.8	93	92	0	288	29	27	19	23	1.98
38503178--38503350	46	3.7	46	77	10	190	30	26	19	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38503773--38503832	30	2.0	30	90	0	93	30	25	8	36	1.85
38511695--38511909	40	5.4	40	83	5	242	22	21	27	27	1.99
38514394--38514503	37	3.0	37	91	0	175	28	29	19	23	1.98
38514798--38514873	22	3.3	22	65	28	59	25	31	13	30	1.93
38514706--38514945	47	5.1	47	89	2	331	26	28	11	33	1.91
38522773--38522803	9	3.3	9	91	8	53	19	0	0	80	0.71
38523948--38524165	40	5.5	40	86	4	257	22	23	28	25	1.99
38551116--38551286	46	3.7	46	79	10	195	22	19	28	29	1.98
38551111--38551281	93	1.8	93	89	0	270	22	19	28	29	1.98
38551511--38551548	19	2.0	20	85	15	53	36	0	23	39	1.55
38554538--38554588	24	2.0	25	82	14	61	13	9	11	64	1.49
38558908--38559170	132	2.0	132	95	0	472	20	20	28	30	1.98
38559207--38559411	27	7.6	27	84	1	241	35	19	20	25	1.96
38559207--38559412	54	3.8	54	86	1	279	35	19	19	25	1.95
38559208--38559412	107	1.9	107	87	2	304	35	19	19	25	1.95
38559814--38559881	33	2.0	34	85	2	93	27	22	26	23	1.99
38580087--38580124	13	2.9	13	100	0	76	21	39	23	15	1.92
38582100--38582346	122	2.0	122	91	1	397	33	11	15	39	1.83
38583404--38583461	30	1.9	30	89	0	89	36	8	25	29	1.86
38592797--38592867	34	2.1	34	89	5	108	23	26	22	26	2.00
38594691--38594867	40	4.4	40	84	4	225	25	27	23	23	2.00
38610373--38610457	26	3.2	26	88	3	125	37	15	24	22	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38617780--38617858	37	2.1	37	88	4	115	25	30	18	25	1.98
38617965--38618238	47	5.7	47	91	2	413	28	30	8	32	1.87
38624645--38624795	40	3.8	40	81	4	128	25	27	21	25	1.99
38624664--38624848	40	4.7	40	82	8	164	26	27	21	24	1.99
38624664--38624848	79	2.3	80	78	8	198	26	27	21	24	1.99
38629310--38629370	30	2.1	29	90	3	95	37	21	16	24	1.93
38630643--38630685	18	2.3	19	84	4	52	16	34	30	18	1.93
38637223--38637282	23	2.6	23	81	0	66	45	11	18	25	1.83
38645433--38645477	20	2.2	20	88	0	63	37	13	0	48	1.42
38646424--38646494	34	2.1	34	84	10	92	23	19	23	32	1.98
38651732--38651843	46	2.5	46	85	11	151	24	18	31	25	1.98
38666455--38666612	27	5.9	27	82	12	184	34	22	24	18	1.96
38666473--38666612	53	2.6	54	93	4	239	34	23	24	17	1.96
38667295--38667350	26	2.2	26	100	0	112	35	26	7	30	1.83
38672010--38672937	47	19.6	47	92	3	1531	29	28	8	33	1.87
38672010--38672937	143	6.5	142	94	1	1537	29	28	8	33	1.87
38672010--38672937	380	2.4	380	96	1	1693	29	28	8	33	1.87
38674842--38674866	13	1.9	13	100	0	50	36	16	16	32	1.90
38676674--38676985	40	7.8	40	92	1	464	25	27	21	25	1.99
38678253--38678354	37	2.8	37	93	0	168	27	29	18	24	1.98
38678473--38679163	47	14.6	47	92	3	1143	29	29	8	32	1.87
38678473--38679163	96	7.3	94	94	2	1143	29	29	8	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38678473--38679163	143	4.9	141	93	2	1143	29	29	8	32	1.87
38682180--38682247	29	2.3	29	85	5	93	27	30	13	27	1.94
38682069--38682396	174	1.9	174	95	0	593	31	24	14	29	1.95
38682349--38682427	29	2.7	30	82	13	110	30	30	13	25	1.94
38690314--38690381	29	2.3	29	85	5	93	27	30	13	27	1.94
38690203--38690529	174	1.9	173	95	0	591	30	24	14	29	1.95
38690483--38690560	28	2.7	30	78	17	101	30	29	14	25	1.94
38694946--38694984	13	3.1	13	92	7	71	15	10	0	74	1.07
38694950--38694982	12	2.8	12	100	0	66	12	6	0	81	0.85
38695298--38695360	21	3.0	21	83	2	81	31	3	31	33	1.74

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