genome.fa.s5.2.7.7.80.10.50.1000.28.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  28  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)
10441910--10442064	47	3.3	47	81	5	179	29	27	16	26	1.97
10441910--10442090	95	1.9	93	82	7	222	29	27	16	26	1.97
10444131--10444297	82	2.0	82	85	4	221	32	12	9	45	1.74
10446403--10446444	16	2.5	17	92	7	77	11	4	7	76	1.15
10455799--10455848	18	3.0	16	83	13	57	34	0	2	64	1.05
10456394--10456456	32	2.0	32	81	6	74	41	7	6	44	1.59
10458314--10458346	12	2.5	13	85	14	50	60	3	0	36	1.12
10462795--10462827	17	2.0	17	94	5	59	36	15	0	48	1.45
10463123--10463519	46	8.6	46	89	1	519	21	22	14	41	1.89
10464774--10464896	44	2.7	44	83	5	138	34	14	21	28	1.93
10471233--10471267	17	2.1	17	100	0	70	40	0	31	28	1.57
10472166--10472269	44	2.3	45	85	3	129	35	14	19	30	1.91
10475966--10476026	30	2.0	30	83	0	77	39	4	22	32	1.76
10476794--10476922	67	1.9	67	84	1	170	32	17	28	20	1.96
10487183--10487215	6	5.5	6	100	0	66	69	0	0	30	0.88
10504769--10504793	11	2.3	11	100	0	50	84	0	16	0	0.63
10516390--10516423	16	2.1	16	94	0	59	52	8	11	26	1.67
10519887--10519917	15	2.0	16	93	6	55	77	3	0	19	0.90
10523521--10523580	32	1.9	31	82	3	75	40	13	13	33	1.83
10526612--10526844	79	2.9	79	91	0	358	26	18	12	42	1.87
10527812--10527989	90	2.0	89	95	3	322	33	16	14	35	1.88
10532871--10532920	23	2.3	22	82	6	57	34	4	4	58	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10532905--10532956	28	1.9	26	84	7	68	36	5	1	55	1.35
10535307--10535491	43	4.3	43	85	5	232	30	30	16	22	1.96
10535765--10535855	43	2.1	43	86	6	123	45	9	9	35	1.71
10539222--10539297	40	1.9	40	83	0	98	21	22	18	38	1.94
10539432--10539459	6	4.7	6	100	0	56	85	14	0	0	0.59
10539550--10539576	13	2.1	13	100	0	54	29	7	7	55	1.55
10540040--10540091	7	7.4	7	84	0	59	32	44	0	23	1.54
10540027--10540091	21	3.1	21	78	8	69	33	41	0	24	1.55
10540360--10540431	9	7.1	10	75	12	67	38	1	0	59	1.06
10540336--10540432	43	2.3	42	90	1	149	40	3	0	56	1.15
10540811--10540863	21	2.5	20	79	11	52	33	39	0	26	1.57
10540831--10540882	21	2.5	21	84	6	61	34	40	0	25	1.56
10541103--10541131	14	2.0	15	93	6	51	34	34	0	31	1.58
10541554--10541714	41	4.0	41	91	1	261	27	30	24	18	1.97
10541554--10541714	81	2.0	82	91	1	261	27	30	24	18	1.97
10541749--10541882	40	3.4	39	83	6	164	21	19	20	38	1.94
10545537--10545603	30	2.2	31	81	7	75	46	5	5	41	1.53
10548587--10548617	4	7.8	4	100	0	62	25	0	22	51	1.48
10554791--10554838	24	2.0	25	83	4	62	52	0	6	41	1.27
10554786--10554841	25	2.2	25	78	6	60	55	0	5	39	1.23
10558117--10558185	30	2.3	29	83	11	88	53	5	11	28	1.60
10562613--10562672	27	2.2	27	96	0	111	35	15	23	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10564366--10564412	25	2.0	25	83	8	62	27	14	4	53	1.60
10567705--10567959	46	5.7	46	85	8	321	22	24	13	39	1.90
10567877--10567949	38	1.9	38	97	0	137	24	26	16	32	1.96
10573229--10573256	3	9.3	3	100	0	56	67	0	32	0	0.91
10574234--10574322	22	4.0	22	77	10	99	28	5	22	43	1.75
10574237--10574385	68	2.2	68	87	2	201	28	6	21	44	1.76
10574777--10574830	14	3.8	14	90	4	90	37	18	5	38	1.74
10576852--10576898	25	2.0	25	83	8	62	27	14	4	53	1.60
10577159--10577470	46	7.0	46	87	7	385	21	24	15	38	1.92
10577384--10577459	38	2.0	38	100	0	152	23	26	18	31	1.97
10592800--10593298	44	11.6	43	69	12	177	27	21	20	30	1.98
10592788--10592949	87	1.9	87	85	2	227	25	23	20	30	1.99
10592926--10593019	46	2.0	46	83	0	116	27	25	18	28	1.98
10592881--10593309	170	2.5	170	83	6	551	27	22	20	30	1.98
10593348--10594002	86	7.6	86	91	2	895	25	24	21	28	1.99
10593506--10593988	43	11.2	43	67	14	253	25	23	22	29	1.99
10595238--10595262	13	1.9	13	100	0	50	12	8	0	80	0.92
10612731--10612793	32	2.0	32	87	6	92	25	6	23	44	1.77
10612703--10612898	96	2.0	97	94	1	340	26	11	19	43	1.84
10612827--10612887	32	1.9	32	83	12	81	24	6	24	44	1.77
10614095--10614188	46	2.1	46	92	6	156	39	8	6	45	1.60
10630395--10630467	33	2.2	32	79	18	78	47	2	6	42	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10631608--10631640	15	2.2	15	89	10	50	6	6	45	42	1.53
10632226--10632387	87	1.9	87	84	2	218	25	24	20	29	1.99
10632205--10632654	214	2.1	214	89	3	670	26	22	20	30	1.98
10632238--10632650	44	9.5	44	73	12	248	26	22	20	30	1.98
10646100--10646145	19	2.6	17	81	18	58	78	0	10	10	0.97
10656046--10656108	32	2.0	32	87	6	92	25	6	23	44	1.77
10656018--10656213	96	2.0	97	94	1	340	26	11	19	43	1.84
10656142--10656202	32	1.9	32	83	12	81	24	6	24	44	1.77
10657413--10657506	46	2.1	46	95	2	172	39	8	6	45	1.60
10664393--10664464	22	3.5	22	68	14	71	56	4	2	36	1.33
10664391--10664475	40	2.1	40	97	0	161	52	5	3	37	1.43
10666609--10666718	54	2.0	54	100	0	220	35	20	7	36	1.81
10668686--10668745	16	3.8	16	69	18	54	20	0	28	51	1.47
10668835--10668885	16	2.8	19	77	22	65	35	0	21	43	1.53
10669417--10669661	126	1.9	126	90	0	391	33	18	18	28	1.95
10669606--10669721	61	1.9	61	89	1	180	32	20	15	31	1.94
10669480--10669850	187	2.0	186	90	1	582	34	19	16	29	1.94
10669666--10669984	126	2.5	126	88	2	462	36	18	16	28	1.93
10671586--10671769	46	4.0	46	94	0	296	22	23	14	39	1.91
10677537--10677574	17	2.2	18	90	9	62	5	15	0	78	0.91
10680396--10680438	18	2.4	18	92	0	68	41	9	27	20	1.83
10682060--10682193	48	2.8	46	85	7	162	52	5	8	32	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10682295--10682327	17	2.1	16	88	11	50	75	6	0	18	1.00
10684737--10684790	28	2.0	28	85	7	76	40	16	11	31	1.84
10688595--10688659	33	2.0	33	84	6	87	10	41	9	38	1.72
10696115--10696747	84	7.6	84	84	6	730	17	31	10	40	1.83
10697237--10697271	17	2.1	17	94	0	61	51	17	22	8	1.72
10698478--10698532	29	1.9	28	82	10	67	47	7	5	40	1.54
10698579--10698616	19	2.1	18	85	14	51	55	2	0	42	1.14
10706288--10706389	46	2.2	46	82	0	132	16	2	25	54	1.56
10706276--10706395	23	5.2	23	78	14	115	15	2	25	56	1.51
10706552--10706592	14	2.8	16	78	17	52	17	0	31	51	1.46
10706552--10706613	29	2.1	29	82	5	72	17	1	29	51	1.55
10706624--10706669	24	2.0	23	91	4	74	13	0	23	63	1.30
10706738--10706795	16	3.7	15	74	2	53	20	1	22	55	1.53
10706783--10706861	29	2.7	29	81	11	74	18	3	20	56	1.56
10706809--10706873	7	9.0	7	76	6	67	16	3	23	56	1.54
10706841--10706889	14	3.4	14	77	5	53	20	0	26	53	1.46
10707006--10707143	21	6.2	21	70	20	68	17	0	26	56	1.41
10707085--10707123	15	2.5	16	83	8	53	15	0	25	58	1.37
10707095--10707140	23	2.0	24	91	4	76	13	0	28	58	1.35
10707128--10707184	21	2.7	21	81	5	62	22	1	21	54	1.54
10707127--10707198	21	3.5	21	75	9	60	20	1	22	55	1.51
10707225--10707303	22	3.6	22	83	6	97	12	1	21	64	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10707397--10707447	23	2.3	23	86	10	70	21	3	23	50	1.65
10707536--10707581	14	3.2	14	81	6	56	10	0	17	71	1.13
10709705--10709760	29	2.0	29	89	3	87	32	14	14	39	1.86
10712478--10712526	25	2.0	25	92	4	82	55	2	0	42	1.11
10717810--10717866	22	2.5	22	80	2	60	33	0	0	66	0.92
10723611--10723663	27	1.9	28	92	3	90	30	11	7	50	1.65
10726572--10726617	21	2.2	21	84	0	56	17	4	41	36	1.69
10727135--10727164	15	2.0	15	93	0	51	23	20	23	33	1.97
10729489--10729514	12	2.2	12	100	0	52	50	7	23	19	1.73
10729603--10729635	15	2.2	15	100	0	66	39	6	12	42	1.67

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