genome.fa.s5.2.7.7.80.10.50.1000.134.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  134  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)
41496366--41496399	16	2.1	16	100	0	68	50	26	5	17	1.69
41497631--41497680	20	2.8	17	77	16	55	52	2	4	42	1.31
41497671--41497741	36	2.0	35	81	13	83	53	5	2	38	1.39
41501668--41501711	13	3.3	13	83	3	52	47	0	6	45	1.29
41504271--41504347	33	2.2	35	86	9	104	28	6	2	62	1.33
41506014--41506066	20	2.7	21	80	11	60	60	1	1	35	1.19
41507706--41507739	16	2.1	16	94	0	59	61	0	2	35	1.11
41509545--41509598	5	11.4	5	88	11	87	40	0	0	59	0.98
41510730--41510833	47	2.2	48	81	5	122	19	17	21	42	1.89
41511037--41511141	18	5.9	18	73	2	95	35	6	15	42	1.73
41516407--41516480	23	3.3	22	74	24	66	52	0	10	36	1.36
41516436--41516469	16	2.1	16	89	10	52	55	0	8	35	1.31
41516654--41516760	47	2.3	47	85	0	133	18	20	19	41	1.91
41516964--41517069	18	5.9	18	74	5	81	33	7	15	43	1.74
41516964--41517069	36	3.0	36	81	1	106	33	7	15	43	1.74
41516993--41517069	35	2.2	36	83	2	93	35	7	16	40	1.78
41523735--41523779	21	2.1	21	100	0	90	40	20	13	26	1.89
41526174--41526280	41	2.5	42	76	11	112	28	19	24	27	1.99
41530300--41530483	27	6.9	27	73	4	122	31	10	19	38	1.86
41537976--41538145	45	3.9	45	75	9	147	25	17	27	30	1.97
41550554--41550593	16	2.6	16	88	4	55	22	2	2	72	1.09
41563863--41563897	19	1.9	17	88	11	52	22	0	25	51	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41566112--41566179	29	2.3	29	85	5	93	27	30	13	27	1.94
41566001--41566328	174	1.9	174	96	0	611	31	24	14	29	1.94
41566281--41566356	29	2.6	28	85	10	100	28	28	15	26	1.96
41570031--41570461	40	10.8	40	93	1	713	27	20	28	24	1.99
41581743--41581812	26	2.7	27	86	8	108	35	20	15	28	1.93
41583533--41583600	29	2.3	29	85	5	93	27	30	13	27	1.94
41583423--41583748	173	1.9	173	90	1	528	30	24	14	29	1.95
41583702--41583779	29	2.7	30	80	15	101	29	30	15	24	1.95
41585624--41585795	40	4.3	40	88	2	204	25	27	20	25	1.99
41585780--41585857	40	1.9	41	82	10	97	26	28	20	24	1.99
41594402--41594469	29	2.3	29	85	5	93	27	30	13	27	1.94
41594291--41594618	174	1.9	174	97	0	620	30	24	14	29	1.95
41594571--41594649	29	2.7	30	82	13	110	29	30	15	25	1.96
41598322--41598913	40	14.8	40	94	0	1033	27	20	28	24	1.99
41606809--41606876	29	2.3	29	85	5	93	27	30	13	27	1.94
41606698--41607025	174	1.9	174	97	0	620	30	24	14	29	1.95
41606978--41607056	29	2.7	30	82	13	110	29	30	15	25	1.96
41610081--41610135	23	2.5	22	80	16	60	38	14	7	40	1.74
41613743--41613806	31	2.1	29	85	5	83	50	0	0	50	1.00
41628356--41628408	25	2.1	25	93	6	90	32	9	5	52	1.57
41642188--41642284	47	2.1	47	100	0	194	35	10	12	42	1.77
41646263--41646337	12	6.2	12	83	13	93	32	8	1	58	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41646270--41646346	3	25.7	3	72	15	61	32	7	1	58	1.35
41646263--41646317	15	4.1	13	84	15	60	32	9	0	58	1.30
41646267--41646344	27	3.2	25	80	15	92	32	7	1	58	1.34
41646267--41646346	12	7.0	11	78	18	76	32	7	1	58	1.34
41646057--41646112	3	18.3	3	88	3	85	32	3	0	64	1.11
41646405--41646452	20	2.5	19	82	3	51	27	12	0	60	1.32
41652765--41652825	30	2.0	30	100	0	122	37	22	6	32	1.80
41658576--41658609	14	2.4	14	100	0	68	11	11	52	23	1.70
41659902--41659998	36	2.7	35	80	6	104	43	25	12	18	1.85
41666836--41666924	43	2.1	43	85	6	119	26	17	22	32	1.97
41668789--41668824	13	2.9	12	84	8	54	22	13	22	41	1.89
41673728--41673946	39	5.6	40	85	9	258	26	21	27	24	2.00
41673728--41673946	79	2.8	80	82	11	263	26	21	27	24	2.00
41673776--41673979	79	2.6	79	83	8	213	26	21	27	24	1.99
41680994--41681255	39	6.7	40	87	7	310	26	22	26	24	2.00
41682642--41682720	29	2.7	30	82	13	110	29	30	15	25	1.96
41692488--41692586	43	2.3	41	78	10	108	29	12	23	35	1.91
41696269--41696336	35	1.9	35	96	0	127	48	22	4	25	1.69
41700100--41700249	27	5.5	27	77	10	108	42	20	12	24	1.86
41700114--41700249	55	2.5	55	87	4	186	41	20	13	24	1.88
41706919--41707088	39	4.3	39	85	0	232	21	25	20	32	1.97
41714843--41715011	39	4.3	39	89	2	250	21	25	21	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41714843--41715012	77	2.2	77	89	2	250	21	25	21	31	1.98
41718594--41718671	29	2.7	28	84	11	104	25	15	30	28	1.96
41718624--41718950	173	1.9	174	92	0	557	29	14	24	31	1.95
41755008--41755071	21	3.1	21	81	2	67	39	20	12	28	1.89
41770026--41770344	47	6.7	47	93	1	521	31	8	30	29	1.86
41770026--41770344	143	2.2	141	92	1	530	31	8	30	29	1.86
41780983--41781061	37	2.1	37	90	0	122	25	31	18	24	1.98
41781180--41781477	47	6.1	49	88	6	403	29	29	8	31	1.87
41781884--41781934	23	2.3	23	83	10	61	23	27	7	41	1.82
41784559--41784715	40	3.9	40	88	0	224	24	28	21	24	1.99
41784572--41784833	40	6.6	41	80	6	168	24	28	22	25	1.99
41784572--41784753	80	2.3	80	83	2	215	23	29	22	24	1.99
41785139--41785217	29	2.7	29	86	5	106	27	32	15	24	1.95
41787120--41787198	37	2.1	37	88	0	113	26	31	17	24	1.97
41787316--41787707	49	8.1	49	92	3	634	29	29	8	32	1.88
41787316--41787707	145	2.7	146	92	3	632	29	29	8	32	1.88
41791962--41792025	28	2.3	28	91	0	101	31	28	7	32	1.85
41792142--41792205	28	2.2	28	86	2	83	25	25	18	31	1.98
41792649--41792687	19	2.1	19	85	0	51	15	5	7	71	1.26
41796184--41796524	47	7.2	47	90	2	520	31	8	30	29	1.87
41796642--41796720	37	2.1	37	90	0	122	24	18	31	25	1.98
41803892--41803956	28	2.3	28	86	0	94	32	26	9	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41804062--41804116	28	2.0	28	89	7	85	23	21	21	32	1.98
41804578--41804616	19	2.1	19	85	0	51	15	5	7	71	1.26
41805800--41805860	30	2.0	30	83	0	77	31	22	8	37	1.84
41806890--41807041	18	8.6	18	88	5	229	36	13	12	37	1.82
41806890--41807076	35	5.3	35	93	1	293	35	13	12	38	1.82
41807066--41807737	205	3.3	205	91	0	1092	30	20	17	31	1.96
41807728--41807822	44	2.2	44	88	0	145	23	27	17	31	1.97
41807827--41808336	44	11.6	43	69	14	310	26	24	18	29	1.98
41807766--41808341	132	4.4	132	91	1	895	26	24	18	30	1.98
41809232--41809287	22	2.6	21	85	5	67	8	8	0	82	0.86
41809248--41809287	12	3.2	12	89	3	62	10	2	0	87	0.63
41809232--41809302	21	3.3	21	75	16	65	7	11	0	81	0.86
41809242--41809302	15	4.2	15	77	12	56	6	9	0	83	0.80
41814981--41815025	23	2.0	23	82	8	56	37	8	13	40	1.76
41823146--41823214	30	2.3	30	97	0	129	31	31	20	15	1.94
41823167--41823214	17	3.1	17	65	22	50	29	33	20	16	1.95
41824079--41824210	48	2.8	48	83	4	160	33	25	18	23	1.97
41830186--41830235	26	1.9	26	100	0	100	42	16	22	20	1.89
41838414--41838466	25	2.1	25	92	0	88	43	9	15	32	1.78
41839001--41839126	43	3.0	42	88	2	180	30	26	19	23	1.98
41839424--41839488	21	3.1	21	95	0	112	1	53	20	24	1.54
41844812--41844840	15	1.9	15	100	0	58	48	20	6	24	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41846264--41846325	20	3.2	19	68	18	56	50	1	14	33	1.53
41849116--41849147	15	2.1	15	94	0	55	31	9	0	59	1.29
41849253--41849303	19	2.7	19	84	3	59	47	39	3	9	1.55
41850165--41850259	41	2.4	39	83	3	127	21	20	21	37	1.94
41850231--41850330	42	2.5	41	82	8	116	22	19	16	43	1.88
41853622--41853712	39	2.3	39	90	3	139	32	19	21	25	1.97
41859412--41859504	39	2.4	39	89	3	134	30	19	24	25	1.98
41859486--41859673	39	4.8	39	88	1	268	21	23	27	27	1.99
41859448--41859672	78	2.9	78	83	5	222	23	23	26	26	2.00
41862638--41862687	21	2.4	21	96	0	91	44	16	16	24	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   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