genome.fa.s5.2.7.7.80.10.50.1000.114.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  114  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)
36283469--36283566	36	2.7	36	82	3	126	41	13	9	35	1.76
36284413--36284443	4	7.5	4	92	7	53	0	29	0	70	0.87
36284482--36284511	14	2.2	13	94	5	51	13	13	0	73	1.10
36293283--36293332	18	2.6	19	78	12	57	34	0	6	60	1.21
36294733--36294934	46	4.4	47	92	3	306	19	23	13	43	1.86
36297021--36297077	11	5.2	11	76	16	64	66	0	0	33	0.92
36297015--36297113	33	3.1	32	74	8	96	60	3	0	36	1.12
36297033--36297105	27	2.7	26	72	16	60	60	1	0	38	1.06
36297979--36298007	13	2.2	13	100	0	58	58	13	13	13	1.63
36300296--36300381	29	3.0	28	83	8	84	27	30	16	25	1.97
36300317--36300408	29	3.1	28	80	12	87	31	29	15	23	1.95
36300343--36300408	16	4.4	14	76	14	51	34	27	13	24	1.93
36301818--36301855	17	2.2	17	86	9	51	21	0	2	76	0.91
36303925--36304007	29	3.0	27	74	17	82	21	2	1	74	1.00
36303924--36304041	6	18.0	6	71	17	51	24	3	0	71	1.07
36304116--36304159	23	2.0	22	83	12	56	22	2	2	72	1.07
36304119--36304156	17	2.3	17	90	4	60	21	2	2	73	1.07
36305152--36305198	13	3.4	14	86	11	62	82	0	8	8	0.83
36308920--36308962	21	2.1	20	86	4	59	11	9	0	79	0.95
36308954--36309013	15	3.9	15	74	25	54	38	3	0	58	1.15
36310355--36310533	42	4.3	42	90	0	259	30	17	24	27	1.97
36311525--36311570	24	1.9	24	90	0	74	26	2	26	45	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36312985--36313039	23	2.4	23	87	0	74	36	27	10	25	1.89
36313104--36313152	15	3.3	15	88	0	62	34	18	20	26	1.95
36313150--36313199	15	3.3	15	83	8	57	34	32	16	18	1.92
36316791--36316838	10	4.8	10	82	7	53	37	0	2	60	1.09
36317352--36317412	16	3.7	16	68	23	54	55	1	3	39	1.26
36317355--36317414	17	3.5	17	68	19	52	56	1	3	38	1.26
36325176--36325371	73	2.7	73	100	0	392	41	23	6	28	1.78
36325367--36325395	3	9.7	3	100	0	58	68	0	0	31	0.89
36329612--36329807	73	2.7	73	100	0	392	41	23	6	28	1.78
36329803--36329834	3	10.7	3	100	0	64	68	0	0	31	0.90
36330638--36330691	26	2.1	26	96	0	99	25	14	20	38	1.91
36334277--36334411	58	2.3	59	82	6	150	24	16	19	40	1.91
36334380--36334462	31	2.7	31	82	0	103	18	15	20	45	1.85
36336166--36336197	3	10.7	3	100	0	64	31	0	0	68	0.90
36350537--36350580	21	2.0	23	86	8	65	54	2	0	43	1.12
36350786--36350853	36	2.0	33	85	8	91	48	2	1	47	1.26
36352856--36352900	22	2.0	22	82	4	54	46	0	0	53	1.00
36352978--36353036	23	2.5	22	76	15	57	47	1	0	50	1.11
36353022--36353078	15	3.6	15	74	21	62	50	1	0	47	1.11
36352996--36353076	14	5.5	14	69	23	51	50	1	0	48	1.08
36357084--36357109	13	2.0	13	100	0	52	38	0	7	53	1.30
36358533--36358567	18	2.0	17	94	5	61	20	5	17	57	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36360449--36360528	41	2.0	41	87	0	115	21	17	25	36	1.95
36360493--36360553	25	2.4	25	83	8	79	21	13	26	39	1.90
36360451--36360584	66	2.0	66	87	5	191	20	14	25	38	1.91
36361961--36363148	591	2.0	592	91	0	1930	40	9	15	33	1.81
36372190--36372280	44	2.1	44	91	4	148	50	9	9	29	1.68
36374023--36374149	42	3.0	42	85	6	161	29	25	14	30	1.95
36374066--36374233	88	1.9	89	82	8	214	29	26	15	28	1.96
36374108--36374233	47	2.7	46	85	2	171	30	26	15	26	1.96
36374256--36374466	31	6.8	31	86	4	300	28	26	18	27	1.98
36374442--36374570	50	2.5	51	87	5	190	25	21	16	36	1.94
36381951--36382038	46	1.9	46	95	0	158	32	10	35	21	1.87
36393552--36393640	40	2.3	38	90	3	133	13	14	34	37	1.86
36397771--36398881	555	2.0	555	97	0	2078	25	16	26	30	1.97
36401249--36401325	40	1.9	40	89	0	118	14	16	32	36	1.89
36403442--36403488	23	2.0	24	87	4	69	70	2	23	4	1.16
36404621--36404661	18	2.3	18	87	8	57	48	0	21	29	1.50
36409128--36409169	20	2.0	21	90	4	68	50	0	19	30	1.48
36409858--36410040	32	5.7	32	75	8	147	32	11	23	32	1.90
36409873--36410031	65	2.4	65	95	1	282	31	11	24	32	1.91
36409903--36410014	33	3.4	33	78	7	147	33	9	23	33	1.87
36409877--36410033	33	4.8	33	73	14	146	32	10	24	32	1.90
36413042--36413078	17	2.2	17	90	4	58	27	0	5	67	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36414849--36414885	15	2.5	15	86	0	56	32	8	0	59	1.27
36426356--36426445	45	2.0	45	88	0	135	25	12	13	48	1.77
36427015--36427634	44	13.9	44	79	5	474	31	17	21	29	1.96
36427018--36427542	177	3.0	176	80	3	518	31	17	21	29	1.96
36427015--36427525	133	3.9	132	79	3	461	30	17	21	30	1.96
36428108--36428151	23	1.9	23	90	0	70	50	18	15	15	1.79
36429153--36429189	15	2.5	15	86	0	56	32	8	0	59	1.27
36429170--36429199	12	2.5	12	88	0	51	26	6	0	66	1.16
36429349--36429437	44	2.0	44	97	0	169	34	2	6	56	1.38
36439749--36439781	16	2.1	16	88	5	50	45	9	6	39	1.61
36439953--36439978	9	2.9	9	100	0	52	34	19	11	34	1.88
36441033--36441068	17	2.1	17	100	0	72	16	0	36	47	1.47
36443035--36443121	17	5.0	17	72	10	70	68	3	22	4	1.23
36443096--36443120	13	1.9	13	100	0	50	76	0	24	0	0.80
36445627--36445655	14	2.1	14	100	0	58	37	0	20	41	1.53
36448041--36448083	21	2.0	21	95	0	77	37	4	6	51	1.50
36449468--36449507	3	13.3	3	100	0	80	32	0	0	67	0.91
36450528--36450555	6	4.7	6	100	0	56	14	0	85	0	0.59
36450775--36450830	26	2.2	25	81	6	67	53	0	0	46	1.00
36450850--36450940	39	2.3	40	81	7	98	54	2	1	41	1.19
36454165--36454208	22	2.0	22	100	0	88	45	13	4	36	1.64
36458077--36458104	13	2.2	13	100	0	56	21	7	25	46	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36458908--36458933	5	5.2	5	100	0	52	80	0	0	19	0.71
36459037--36459106	22	3.6	19	77	19	65	44	0	4	51	1.21
36459065--36459100	19	1.9	19	88	5	56	36	0	8	55	1.30
36459054--36459106	22	2.6	21	82	11	67	45	0	5	49	1.26
36460287--36460323	3	12.3	3	100	0	74	67	0	0	32	0.91
36467005--36467045	21	2.0	21	85	0	55	53	19	12	14	1.72
36467059--36467183	21	6.0	21	68	5	83	41	19	20	19	1.91
36467019--36467148	42	3.1	42	82	2	136	42	19	19	19	1.90
36468739--36468801	22	2.9	22	76	2	56	26	17	28	26	1.98
36470145--36470245	25	4.0	25	86	0	130	21	24	17	35	1.95
36470136--36470243	50	2.2	50	84	0	144	23	25	16	34	1.95
36471862--36471895	17	2.0	17	100	0	68	29	11	17	41	1.85
36479621--36479709	32	2.8	32	83	6	117	25	25	17	30	1.98
36487603--36487662	29	2.1	29	81	12	70	40	1	1	56	1.19
36487698--36487732	17	2.0	18	88	5	54	40	0	0	60	0.97
36487698--36487733	9	4.0	9	88	0	54	38	0	0	61	0.96
36490752--36490956	46	4.5	46	88	1	277	20	22	12	44	1.85
36490940--36491051	45	2.5	45	89	2	163	22	24	15	38	1.92
36491063--36491218	33	4.7	33	72	9	120	24	27	18	29	1.98
36492804--36492828	11	2.3	11	100	0	50	64	8	0	28	1.22
36498261--36498330	30	2.3	30	85	9	90	38	1	10	50	1.45
36498384--36498408	13	1.9	13	100	0	50	32	0	4	64	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36501699--36501727	2	14.5	2	100	0	58	0	48	0	51	1.00
36505139--36505182	17	2.6	18	85	7	56	2	9	9	79	1.02
36508929--36508962	3	11.7	3	93	6	61	29	0	0	70	0.87
36511304--36511342	21	2.0	20	85	10	53	41	10	0	48	1.37
36513867--36513956	22	4.1	22	75	5	92	41	16	21	21	1.91
36513853--36513956	44	2.4	44	80	0	109	44	16	20	19	1.87
36514530--36514630	42	2.4	42	77	1	103	25	24	27	21	1.99
36515165--36515206	22	1.9	22	85	9	59	78	4	16	0	0.91
36527337--36527396	29	2.0	31	80	6	70	60	8	5	26	1.47
36532141--36532176	10	3.6	10	92	0	63	61	0	8	30	1.26

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