genome.fa.s9.2.7.7.80.10.50.1000.179.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: Chr09 85040211 
Parameters: 2 7 7 80 10 50 1000
Length:  85040211

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   

This is table  179  of  292  ( 35004 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)
53425642--53425679	19	2.0	20	85	15	53	39	23	0	36	1.55
53425908--53426078	93	1.8	93	92	0	288	28	28	21	22	1.99
53425903--53426075	46	3.7	46	79	10	199	29	27	20	22	1.99
53426497--53426556	30	2.0	30	90	0	93	30	25	8	36	1.85
53429170--53429239	27	2.6	27	95	2	122	31	25	12	30	1.93
53436325--53436362	19	2.0	20	85	15	53	39	23	0	36	1.55
53436607--53436666	30	2.0	30	83	6	77	31	25	5	38	1.77
53438775--53438865	44	2.1	44	91	0	146	46	10	9	32	1.72
53448364--53448432	34	2.0	34	94	0	120	37	28	5	27	1.80
53448663--53448705	20	2.3	18	81	18	52	34	16	2	46	1.60
53450139--53450272	23	5.8	23	78	9	114	35	18	22	23	1.95
53450139--53450297	45	3.4	46	74	13	137	34	18	22	25	1.96
53450203--53450272	24	3.0	24	83	6	81	37	21	22	18	1.94
53451788--53451870	42	2.0	43	83	7	107	25	16	24	33	1.96
53454625--53454664	8	5.0	8	96	0	71	37	22	0	40	1.54
53463205--53463266	22	2.9	22	81	11	67	51	3	0	45	1.17
53463232--53463274	22	2.1	21	83	12	54	41	6	2	48	1.43
53467374--53467517	3	48.3	3	91	5	222	33	2	0	64	1.05
53467547--53467589	17	2.4	18	81	14	54	27	9	0	62	1.25
53469372--53469396	9	2.8	9	100	0	50	32	8	36	24	1.84
53479755--53479970	45	4.9	43	76	5	200	31	16	20	31	1.95
53479651--53479827	96	1.8	96	82	2	230	33	16	20	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53480374--53480408	16	2.2	16	89	0	52	51	31	11	5	1.61
53481308--53481371	3	21.3	3	79	17	71	34	0	1	64	1.03
53481329--53481375	15	3.1	15	100	0	94	31	0	0	68	0.90
53485158--53485196	19	2.1	19	95	0	69	23	30	7	38	1.83
53489977--53490023	20	2.3	20	92	0	85	23	25	31	19	1.98
53490388--53490415	14	2.0	14	100	0	56	21	7	14	57	1.61
53497757--53497825	29	2.5	28	76	9	70	30	18	26	24	1.98
53501436--53501481	23	2.0	23	86	0	65	56	17	8	17	1.65
53503347--53503383	5	7.6	5	93	6	67	40	0	0	59	0.97
53503356--53503409	12	4.5	12	76	19	51	40	0	1	57	1.09
53503863--53503907	23	1.9	23	82	13	56	46	0	4	48	1.22
53505000--53505024	12	2.1	12	100	0	50	16	24	20	40	1.91
53505002--53505097	45	2.1	45	86	3	131	20	17	20	40	1.91
53514582--53514702	24	5.0	24	86	7	165	29	21	19	28	1.98
53514573--53514702	49	2.6	48	83	9	165	29	21	18	30	1.97
53514751--53514817	20	3.3	20	89	0	107	31	20	13	34	1.92
53517206--53517230	11	2.3	11	100	0	50	36	0	28	36	1.58
53517467--53517543	40	1.9	40	83	2	100	23	18	27	31	1.97
53517824--53517851	6	4.7	6	100	0	56	14	0	0	85	0.59
53535851--53535881	7	4.4	7	91	0	53	35	25	12	25	1.92
53538886--53539055	68	2.5	68	82	1	189	35	15	22	25	1.94
53546205--53546248	3	14.7	3	85	0	61	34	34	0	31	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53547802--53547839	13	2.8	13	88	4	58	44	5	10	39	1.61
53548011--53548076	30	2.2	30	82	12	84	42	0	1	56	1.08
53552831--53552920	47	1.9	47	81	4	110	44	4	13	37	1.64
53553504--53553564	20	3.2	19	73	13	54	49	0	3	47	1.18
53553825--53553900	37	2.1	37	89	0	116	32	9	15	42	1.79
53557049--53557107	29	2.0	29	96	0	109	32	25	20	22	1.98
53562825--53562858	17	1.9	18	88	5	52	50	5	5	38	1.51
53563386--53563427	20	2.0	21	82	13	52	30	4	14	50	1.63
53570250--53570289	21	1.9	21	94	0	71	30	7	27	35	1.84
53573074--53573147	31	2.4	31	88	4	114	17	27	36	18	1.94
53581198--53581239	13	3.0	14	76	13	50	16	9	42	30	1.80
53581185--53581239	28	2.0	28	82	3	67	21	7	43	27	1.79
53582506--53582561	11	5.5	11	71	16	57	35	12	19	32	1.89
53582495--53582561	20	3.3	20	93	0	116	34	11	20	32	1.90
53582611--53582750	23	6.1	23	93	5	239	27	20	20	31	1.98
53582611--53582750	68	2.0	69	93	4	239	27	20	20	31	1.98
53582964--53583027	31	2.1	31	93	0	110	37	15	23	23	1.93
53590466--53590513	25	1.9	25	86	0	69	33	25	16	25	1.96
53590561--53590616	11	5.5	11	71	16	57	35	12	19	32	1.89
53590550--53590616	20	3.3	20	93	0	116	34	11	20	32	1.90
53590665--53590759	23	4.0	24	89	9	142	28	21	22	28	1.99
53590953--53591016	31	2.1	31	93	0	110	37	15	23	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53592888--53592912	5	5.0	5	100	0	50	20	0	0	80	0.72
53599413--53599518	21	5.0	21	87	0	131	35	16	29	18	1.93
53604378--53604494	62	1.9	62	85	0	162	27	28	19	24	1.99
53607650--53607695	20	2.3	20	82	14	60	28	28	17	26	1.98
53607662--53607705	19	2.2	20	84	4	54	34	25	18	22	1.96
53612682--53612732	25	2.0	25	85	7	68	60	0	0	39	0.97
53612859--53612921	25	2.8	24	81	18	73	60	0	36	3	1.13
53616037--53616074	20	1.9	20	94	0	67	26	5	13	55	1.59
53619419--53619685	126	2.1	125	82	6	326	39	18	14	27	1.89
53619784--53619837	23	2.5	23	82	8	60	61	5	0	33	1.19
53620015--53620081	21	3.0	23	76	21	72	64	0	5	29	1.17
53620048--53620093	15	2.9	15	90	6	65	67	0	6	26	1.15
53620063--53620164	14	7.2	13	72	25	59	64	1	7	25	1.31
53620058--53620179	29	4.2	30	69	16	76	63	2	7	26	1.33
53620936--53620983	23	2.1	22	81	11	53	35	6	2	56	1.36
53621263--53621292	3	10.0	3	100	0	60	33	0	33	33	1.58
53623590--53623624	2	17.5	2	100	0	70	0	0	48	51	1.00
53628776--53628917	35	4.0	35	88	6	214	38	11	13	37	1.80
53628784--53628917	18	7.6	18	91	3	202	38	11	12	37	1.81
53628784--53628917	70	1.9	71	95	1	243	38	11	12	37	1.81
53640401--53640446	19	2.4	19	85	7	58	43	13	23	19	1.86
53641934--53642233	126	2.4	126	83	4	358	38	21	14	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53642541--53642607	21	3.0	23	76	21	72	64	0	5	29	1.17
53642574--53642619	15	2.9	15	90	6	65	67	0	6	26	1.15
53642589--53642681	14	6.5	13	72	25	57	63	1	8	26	1.30
53642584--53642648	29	2.2	30	79	17	75	64	0	7	27	1.20
53643464--53643511	23	2.1	22	81	11	53	35	6	2	56	1.36
53645697--53645762	31	2.1	31	88	0	96	24	22	15	37	1.92
53645954--53646166	24	9.0	24	89	3	290	26	22	23	28	1.99
53645975--53646167	71	2.7	70	92	2	314	26	21	23	29	1.99
53646224--53646280	9	5.9	9	73	15	51	35	21	8	35	1.84
53646212--53646282	20	3.5	20	94	0	124	32	21	11	35	1.89
53646217--53646271	11	5.4	11	70	16	55	30	20	12	36	1.90
53646319--53646366	25	2.0	24	83	4	60	25	18	25	31	1.98
53649672--53649737	31	2.1	31	88	0	96	25	24	13	36	1.92
53649929--53650141	24	9.0	24	89	3	290	26	22	23	28	1.99
53649950--53650142	71	2.7	70	92	2	314	26	21	23	29	1.99
53650199--53650255	9	5.9	9	73	15	51	35	21	8	35	1.84
53650187--53650257	20	3.5	20	94	0	124	32	21	11	35	1.89
53650192--53650246	11	5.4	11	70	16	55	30	20	12	36	1.90
53650294--53650341	25	2.0	24	83	4	60	25	18	25	31	1.98
53652980--53653038	2	29.5	2	100	0	118	0	0	49	50	1.00
53658173--53658289	35	3.3	36	91	4	184	37	11	12	37	1.81
53658165--53658289	18	6.9	18	88	5	182	37	11	13	37	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53658165--53658289	53	2.3	54	94	2	225	37	11	13	37	1.81
53660441--53660536	46	2.1	46	100	0	192	36	10	10	42	1.73
53662724--53662773	24	2.1	24	96	0	91	32	10	8	50	1.65
53664051--53664085	13	2.8	12	86	4	52	2	34	0	62	1.10
53664954--53665030	38	2.0	38	82	5	93	33	19	15	31	1.93
53665162--53665332	91	1.9	91	88	2	263	29	25	13	32	1.94
53665548--53665585	18	2.1	18	85	9	51	21	5	13	60	1.52
53667283--53667307	12	2.1	12	100	0	50	48	0	0	52	1.00
53670193--53670254	32	1.9	32	96	0	115	20	24	24	30	1.99
53672659--53672706	20	2.3	20	75	3	51	31	12	6	50	1.65

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