genome.fa.s5.2.7.7.80.10.50.1000.140.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: A05
Parameters: 2 7 7 80 10 50 1000
Length:  100714657

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   317   318   

This is table  140  of  318  ( 38109 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)
43425517--43425595	29	2.7	30	82	13	110	29	30	15	25	1.96
43429258--43429519	47	5.6	47	71	12	225	31	27	17	24	1.97
43429211--43429561	93	3.8	93	89	0	551	30	27	17	24	1.97
43429204--43429561	46	7.7	46	70	16	238	30	27	17	24	1.97
43429219--43429558	186	1.8	186	94	1	610	30	27	17	24	1.97
43451944--43451973	4	7.5	4	100	0	60	23	23	53	0	1.46
43456931--43457016	43	2.0	43	97	0	163	43	23	13	19	1.87
43458893--43459057	46	3.5	45	75	8	159	23	18	22	35	1.95
43458893--43459117	94	2.4	94	85	1	281	26	16	20	36	1.94
43458934--43459115	48	3.8	48	75	5	163	26	15	20	36	1.93
43461610--43461659	24	2.1	24	88	0	73	30	26	8	36	1.85
43469155--43469313	43	3.7	43	80	9	164	31	25	18	24	1.98
43473999--43474087	43	2.1	42	85	6	117	25	16	25	31	1.97
43481667--43481704	13	2.8	13	96	4	67	31	0	0	68	0.90
43481652--43481716	3	21.7	3	77	14	64	33	0	1	64	1.03
43494148--43494662	78	6.5	75	74	13	261	31	16	20	31	1.95
43494434--43494461	12	2.3	12	100	0	56	28	7	0	64	1.20
43494379--43495037	90	7.6	86	75	12	446	29	17	19	33	1.95
43494298--43494781	250	1.9	251	84	6	651	29	17	20	32	1.95
43494627--43494933	92	3.4	89	81	9	340	28	17	19	34	1.95
43494627--43495033	88	4.6	87	77	10	337	28	17	19	34	1.94
43496151--43496213	28	2.2	28	94	0	108	31	4	30	33	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43501567--43501629	28	2.2	28	88	0	90	31	7	30	30	1.86
43502818--43502981	42	3.9	42	77	9	136	25	16	24	34	1.95
43502821--43502956	42	3.2	42	84	7	141	27	15	23	33	1.95
43506447--43506557	40	2.8	40	86	2	143	37	11	18	32	1.87
43510279--43510410	47	2.8	47	82	2	158	36	28	12	23	1.90
43527059--43527265	40	5.2	40	88	2	303	23	22	27	26	2.00
43527055--43527265	79	2.7	80	88	3	311	24	22	27	26	2.00
43535250--43535467	40	5.5	40	91	1	323	23	23	27	24	2.00
43545847--43545923	33	2.3	33	82	4	93	18	15	36	29	1.92
43546017--43546052	17	2.1	18	89	5	56	13	30	44	11	1.79
43551478--43551626	29	5.1	28	82	1	172	38	14	24	22	1.91
43551473--43551626	58	2.7	58	91	0	245	38	14	24	22	1.92
43551478--43551655	87	2.0	88	83	3	225	40	13	23	23	1.89
43557529--43557588	27	2.2	27	85	5	77	50	3	1	45	1.28
43561560--43561600	9	4.6	9	84	9	57	34	2	19	43	1.64
43561806--43561851	21	2.2	20	84	3	56	41	4	2	52	1.33
43562841--43562880	21	2.0	21	85	5	55	75	7	5	12	1.18
43565857--43565958	46	2.1	48	83	5	127	31	28	14	25	1.95
43566952--43567055	25	4.4	24	83	8	110	39	20	23	17	1.92
43566994--43567055	25	2.5	25	100	0	124	40	20	20	17	1.92
43570187--43570406	110	2.0	115	83	4	288	34	23	13	28	1.93
43574507--43574554	24	2.0	24	83	0	60	45	16	18	18	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43579765--43579797	11	3.0	11	91	8	50	27	24	12	36	1.91
43581453--43581573	46	2.6	46	85	5	172	20	22	13	43	1.86
43581448--43581758	45	6.9	45	75	7	166	22	19	14	43	1.87
43581687--43581804	46	2.6	45	89	4	166	18	16	17	46	1.84
43581774--43581842	34	2.0	34	100	0	138	20	20	11	47	1.80
43586903--43586968	30	2.2	30	91	2	105	45	4	21	28	1.71
43586903--43586990	30	2.9	29	85	10	88	46	4	18	30	1.69
43587456--43587561	25	4.2	25	80	2	88	31	21	18	28	1.97
43587476--43587573	25	3.9	25	76	10	92	32	19	18	29	1.96
43588660--43588698	20	2.0	20	90	10	62	12	5	30	51	1.62
43590735--43590800	27	2.6	25	79	9	78	22	27	15	34	1.94
43590784--43590872	24	3.7	24	76	5	90	13	26	24	34	1.93
43598480--43598544	25	2.7	25	80	4	62	21	26	12	40	1.88
43598498--43598545	25	2.0	25	91	4	80	20	22	14	41	1.89
43598620--43598686	27	2.6	26	81	9	84	16	25	23	34	1.95
43602048--43602090	20	2.1	21	91	4	70	18	0	9	72	1.11
43604773--43604963	43	4.4	44	78	7	205	29	15	24	30	1.95
43608367--43608479	37	3.1	37	94	0	190	26	30	20	22	1.98
43608626--43608836	50	4.3	49	86	7	295	30	25	7	36	1.84
43608626--43608836	98	2.2	98	97	0	395	30	25	7	36	1.84
43622096--43622149	25	2.2	25	100	0	108	25	29	7	37	1.83
43629546--43629659	27	4.2	26	83	8	129	36	21	23	18	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43629546--43629659	55	2.1	54	85	4	149	36	21	23	18	1.95
43639745--43640080	43	7.8	43	83	2	345	27	13	27	30	1.94
43639752--43639989	86	2.8	86	95	0	413	27	12	28	31	1.93
43639745--43640063	129	2.5	129	86	3	428	28	14	27	30	1.95
43639752--43640063	86	3.6	85	86	5	398	27	14	27	30	1.95
43643721--43643898	27	6.6	27	83	3	196	29	28	15	26	1.96
43643742--43643897	82	1.9	81	86	3	224	28	28	16	26	1.97
43643721--43643910	82	2.3	83	77	12	212	30	27	15	27	1.96
43651789--43651966	27	6.6	27	83	3	196	29	28	14	26	1.95
43653830--43653860	14	2.2	14	100	0	62	41	6	12	38	1.69
43672280--43672352	27	2.7	27	79	10	78	41	23	21	13	1.89
43685416--43685554	39	3.6	38	91	1	215	29	27	20	23	1.98
43693702--43693840	39	3.6	39	93	0	233	28	25	20	24	1.99
43697238--43697299	30	2.1	30	87	0	88	22	6	12	58	1.58
43719925--43719949	5	5.0	5	100	0	50	60	0	0	40	0.97
43723646--43723915	27	10.1	27	81	3	267	31	21	17	30	1.96
43723646--43723915	81	3.4	81	79	3	294	31	21	17	30	1.96
43731079--43731129	21	2.4	21	90	0	84	41	9	17	31	1.82
43738411--43738508	27	3.5	28	90	2	135	26	13	28	31	1.94
43738439--43738521	27	3.0	27	87	5	96	30	12	25	32	1.92
43738411--43738522	28	4.0	27	83	6	98	28	12	25	33	1.92
43746438--43746537	27	3.6	28	89	2	139	27	13	28	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43746468--43746550	27	3.0	27	87	5	96	30	12	25	32	1.92
43746438--43746551	28	4.0	27	82	6	102	28	12	25	33	1.92
43749507--43749558	25	2.1	25	100	0	104	38	3	17	40	1.68
43749511--43749567	25	2.3	25	90	6	89	40	3	15	40	1.65
43749770--43749808	16	2.4	16	91	0	60	48	2	2	46	1.29
43755549--43755587	17	2.3	17	90	0	60	20	20	15	43	1.88
43755687--43755765	35	2.3	35	93	2	133	34	27	21	16	1.95
43756446--43756512	35	1.9	35	81	6	82	26	25	20	26	1.99
43766657--43766717	29	2.0	32	84	12	83	26	9	4	59	1.50
43768909--43769286	189	2.0	187	80	9	419	49	6	10	33	1.63
43769263--43769301	17	2.3	17	86	8	53	71	0	2	25	0.98
43769261--43769303	18	2.4	18	82	14	54	69	0	2	27	1.00
43773097--43773135	20	2.0	20	84	0	51	38	23	0	38	1.55
43773315--43773367	14	3.8	13	78	9	52	39	5	1	52	1.36
43774648--43774689	22	1.9	22	100	0	84	23	14	16	45	1.84
43779504--43779555	22	2.3	23	78	21	58	32	5	0	61	1.20
43782574--43782796	40	5.6	40	88	2	297	25	22	26	25	2.00
43782574--43782833	80	3.3	80	83	6	323	24	22	26	26	2.00
43782574--43782824	120	2.1	119	85	5	330	24	22	27	26	2.00
43790069--43790139	35	2.0	35	94	0	124	25	2	19	52	1.60
43790870--43791052	40	4.6	40	83	8	230	25	22	26	25	2.00
43797706--43797800	47	2.0	47	89	0	145	37	21	14	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43799222--43799264	22	2.0	22	85	0	59	30	16	37	16	1.91
43808607--43808636	14	2.1	15	93	6	53	83	3	0	13	0.77
43812956--43813137	40	4.6	40	90	2	278	23	23	26	26	2.00
43817531--43817698	40	4.2	40	82	8	148	27	27	20	24	1.99
43817568--43817698	40	3.3	40	89	2	201	28	27	20	23	1.99
43817531--43817751	80	2.8	80	79	11	229	26	27	21	24	1.99
43832187--43832295	42	2.6	42	81	11	134	17	26	34	21	1.95
43832514--43832559	23	2.0	23	100	0	92	21	13	43	21	1.86
43833451--43833520	34	2.1	34	100	0	140	38	14	5	41	1.69
43835593--43835652	29	2.1	29	96	0	111	23	31	5	40	1.76

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   317   318