genome.fa.s5.2.7.7.80.10.50.1000.294.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  294  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)
93675777--93675995	40	5.5	40	86	2	264	27	27	21	24	1.99
93694146--93694195	25	2.0	25	100	0	100	28	20	12	40	1.87
93701944--93701968	9	2.8	9	100	0	50	24	12	12	52	1.72
93706457--93706627	57	3.0	57	94	0	315	52	9	13	24	1.69
93712203--93712249	25	1.9	24	86	4	67	34	8	6	51	1.58
93717282--93717335	21	2.6	21	78	16	58	24	1	1	72	1.05
93721149--93721205	27	2.2	26	82	14	66	22	22	10	43	1.84
93730273--93730366	5	17.8	5	73	20	68	17	4	1	77	0.98
93730269--93730366	49	2.0	47	86	7	135	17	4	1	77	0.98
93730273--93730341	17	4.2	16	77	15	70	14	2	1	81	0.88
93740346--93740387	21	2.0	21	86	9	59	69	0	9	21	1.17
93740333--93740419	8	10.6	8	71	15	54	68	1	6	22	1.20
93741336--93741396	30	2.0	30	87	0	86	13	22	36	27	1.92
93747281--93747505	46	4.9	46	93	1	353	23	24	14	38	1.92
93747882--93747965	26	3.2	26	96	0	150	34	5	23	35	1.80
93752987--93753054	30	2.3	30	84	5	84	27	19	4	48	1.68
93754018--93754089	19	3.9	19	85	10	105	38	11	12	37	1.79
93754018--93754096	35	2.2	37	84	13	112	39	10	13	36	1.79
93754396--93754429	12	2.9	11	87	12	50	35	0	0	64	0.94
93754394--93754424	16	2.0	16	93	6	55	35	0	0	64	0.94
93754452--93754506	21	2.8	19	79	15	58	32	3	0	63	1.12
93757909--93757937	2	14.5	2	100	0	58	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93760440--93760498	18	3.3	18	81	11	77	86	0	10	3	0.68
93760440--93760498	23	2.7	22	82	7	68	86	0	10	3	0.68
93761376--93761555	44	4.1	44	76	8	195	30	16	26	27	1.96
93761547--93762140	119	5.0	119	96	0	1044	33	18	18	29	1.95
93762064--93762333	83	3.2	83	93	1	450	32	21	19	27	1.97
93763067--93763123	26	2.2	26	93	0	96	33	5	24	36	1.78
93764632--93764771	27	5.2	27	88	2	183	17	24	22	35	1.96
93764632--93764771	54	2.6	55	89	2	203	17	24	22	35	1.96
93765679--93765740	18	3.4	18	91	4	99	38	11	12	37	1.80
93766048--93766081	12	2.9	11	87	12	50	35	0	0	64	0.94
93766049--93766160	21	5.5	21	67	19	67	36	2	0	59	1.17
93766046--93766076	16	2.0	16	93	6	55	35	0	0	64	0.94
93766097--93766203	7	15.7	7	71	18	59	38	3	0	57	1.16
93766101--93766165	21	3.1	21	80	8	71	33	3	0	63	1.10
93766538--93766570	3	11.0	3	100	0	66	33	0	0	66	0.92
93776332--93776508	27	6.5	26	83	6	167	25	15	29	28	1.96
93776332--93776487	82	1.9	81	86	3	224	26	15	30	28	1.96
93776328--93776508	82	2.2	81	82	2	220	26	15	29	28	1.96
93778591--93778818	46	5.0	46	90	1	314	22	24	15	37	1.93
93781223--93781290	30	2.3	30	84	5	84	27	19	4	48	1.68
93790181--93790212	5	6.6	5	92	7	57	18	0	0	81	0.70
93790181--93790211	9	3.3	9	91	8	53	19	0	0	80	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93794829--93795006	27	6.6	27	84	3	205	29	28	15	26	1.96
93794850--93795005	82	1.9	81	88	3	233	29	28	15	26	1.96
93807232--93807289	30	1.9	31	92	3	100	24	5	20	50	1.69
93808859--93808921	6	10.7	6	94	1	110	19	0	33	47	1.49
93809661--93809761	51	2.0	51	98	0	193	32	13	8	44	1.75
93818131--93818155	12	2.1	12	100	0	50	24	0	0	76	0.80
93820425--93820502	36	2.1	37	90	2	122	25	30	19	24	1.98
93820624--93820967	192	1.8	190	92	1	589	29	29	8	32	1.87
93820624--93820967	47	7.2	47	93	1	553	29	29	8	32	1.87
93824841--93825072	40	5.8	40	89	1	358	24	26	21	26	2.00
93826277--93826355	37	2.1	37	90	0	122	25	31	18	24	1.98
93826477--93826839	47	7.7	47	94	1	593	29	30	8	31	1.87
93826477--93826818	143	2.4	143	94	0	589	29	29	8	32	1.87
93833442--93833489	25	2.0	24	95	4	87	25	8	6	60	1.49
93833442--93833489	24	2.0	25	91	4	80	25	8	6	60	1.49
93833443--93833496	25	2.2	25	90	3	83	24	5	5	64	1.36
93833486--93833581	36	2.7	36	73	15	92	33	3	5	58	1.36
93848486--93848513	5	5.6	5	100	0	56	17	42	0	39	1.50
93860822--93860869	24	2.0	24	95	0	87	58	10	10	20	1.60
93860880--93860938	26	2.3	25	80	8	64	62	1	10	25	1.36
93861230--93861335	30	3.3	30	78	13	113	27	49	5	17	1.69
93861236--93861310	37	2.0	37	92	0	123	26	49	5	18	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93861866--93861925	25	2.4	26	80	8	79	36	5	1	56	1.31
93861883--93861992	29	4.0	28	73	15	97	30	6	4	58	1.43
93861865--93862015	80	1.9	81	81	4	189	31	7	4	56	1.47
93861943--93862005	25	2.5	24	84	7	72	30	4	6	58	1.43
93862087--93862137	18	2.7	19	75	22	54	43	5	1	49	1.38
93873226--93873257	12	2.7	12	90	0	55	78	0	21	0	0.76
93874270--93874314	13	3.4	13	87	6	72	13	11	6	68	1.37
93874182--93874576	100	4.1	101	81	11	432	25	16	17	40	1.91
93874483--93875160	73	9.3	74	85	5	837	30	16	19	33	1.94
93874500--93875160	293	2.3	293	87	5	939	31	16	20	32	1.94
93875230--93875262	14	2.4	14	94	0	57	18	12	6	63	1.48
93875068--93875641	91	6.5	87	79	10	467	27	16	18	38	1.91
93876283--93876399	27	4.2	28	89	9	163	25	47	6	19	1.74
93876280--93876399	57	2.1	56	86	10	165	25	48	6	19	1.73
93876862--93876994	22	5.7	23	65	17	69	34	5	3	57	1.37
93876868--93877068	25	8.2	25	70	15	80	32	6	4	56	1.45
93876953--93877060	27	4.0	28	70	15	86	29	6	4	59	1.43
93877160--93877205	16	2.7	17	78	18	51	41	6	2	50	1.40
93880806--93880838	16	2.1	16	94	0	57	51	3	0	45	1.16
93880817--93880860	22	2.0	22	86	0	61	52	0	0	47	1.00
93880887--93880920	15	2.1	16	89	10	52	58	0	0	41	0.98
93883779--93883809	2	15.5	2	93	0	53	54	0	45	0	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93888622--93888698	40	1.9	41	84	12	106	54	1	5	38	1.31
93892995--93893037	21	2.0	21	100	0	86	27	27	13	30	1.95
93906769--93907035	145	1.8	145	82	1	347	39	8	9	41	1.69
93907274--93907307	17	2.1	16	94	5	59	50	11	5	32	1.63
93909784--93909847	30	2.1	31	88	5	96	42	1	4	51	1.32
93909785--93909858	29	2.5	29	84	8	87	43	1	4	51	1.29
93916057--93916114	31	1.9	31	96	3	109	39	13	5	41	1.67
93917486--93917575	21	4.5	21	75	19	86	50	3	2	44	1.31
93917483--93917567	17	4.6	17	75	23	82	50	2	2	44	1.27
93920173--93920199	8	3.4	8	100	0	54	74	0	0	25	0.83
93920936--93920993	19	3.2	19	79	15	54	6	17	3	72	1.21
93934971--93935010	21	1.9	21	84	0	53	37	2	0	60	1.11
93938106--93938150	12	3.8	12	81	0	54	46	8	17	26	1.78
93938069--93938163	36	2.6	36	80	6	104	43	12	17	26	1.85
93938105--93938164	24	2.5	24	80	0	75	43	13	18	25	1.86
93938133--93938189	24	2.4	25	82	11	66	40	19	21	19	1.92
93938146--93938223	24	3.2	24	74	3	68	46	21	14	17	1.84
93939181--93939206	13	2.0	13	100	0	52	38	53	0	7	1.30
93939593--93939621	3	9.7	3	100	0	58	31	0	0	68	0.89
93939688--93939745	23	2.5	24	83	5	66	29	10	0	60	1.30
93939705--93939756	23	2.3	23	82	0	59	34	5	1	57	1.33
93939900--93939925	3	8.7	3	100	0	52	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93943475--93943598	45	2.7	46	83	3	144	31	13	14	40	1.85
93947598--93947686	26	3.5	25	70	14	83	43	2	1	52	1.20
93956617--93956647	15	2.1	15	100	0	62	35	19	12	32	1.90
93971361--93971409	25	1.9	26	84	12	66	71	2	16	10	1.22
93972927--93973045	21	5.4	23	90	7	169	13	23	26	36	1.92
93979250--93979298	25	1.9	26	84	12	66	71	2	16	10	1.22
93990886--93990931	20	2.2	21	84	7	67	71	2	15	10	1.23
93992429--93992523	23	4.3	23	94	5	155	12	25	28	33	1.92
93992416--93992532	41	2.8	41	84	10	137	15	24	26	33	1.95
93992429--93992545	20	5.5	21	89	6	148	13	23	27	35	1.92

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