genome.fa.s5.2.7.7.80.10.50.1000.180.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  180  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)
56474509--56474621	31	3.6	31	66	9	93	35	14	29	21	1.92
56477792--56477963	93	1.8	93	91	0	281	27	27	22	22	1.99
56477784--56477959	46	3.8	46	78	10	196	28	27	21	22	1.99
56480342--56480430	30	3.0	30	77	8	92	56	15	17	10	1.67
56480342--56480421	15	5.4	15	77	7	83	57	13	18	10	1.64
56480353--56480430	15	5.2	15	75	9	70	55	15	17	11	1.69
56483732--56483795	10	6.7	10	75	21	50	29	3	0	67	1.06
56483734--56483816	9	8.8	9	74	17	62	28	2	3	65	1.22
56485985--56486016	10	3.3	10	95	4	57	46	0	9	43	1.35
56494778--56494825	20	2.3	21	92	3	80	35	10	18	35	1.85
56494872--56494935	23	2.7	23	83	7	74	29	25	20	25	1.99
56494886--56494935	23	2.1	24	88	3	75	28	26	20	26	1.99
56494873--56494937	24	2.6	25	80	9	80	30	24	20	24	1.98
56494898--56494952	23	2.4	22	79	11	58	34	18	20	27	1.95
56495186--56495250	31	2.1	32	85	5	89	29	13	24	32	1.94
56505028--56505084	20	2.8	20	86	0	78	45	0	28	26	1.54
56508881--56509065	79	2.3	82	82	7	229	25	27	22	24	2.00
56508881--56509065	40	4.7	40	82	7	225	25	27	22	24	2.00
56513741--56513926	40	4.7	40	84	7	211	25	26	22	26	2.00
56523954--56524139	40	4.7	40	84	7	211	25	26	22	26	2.00
56530073--56530255	79	2.3	81	82	8	223	25	27	21	24	1.99
56530073--56530255	40	4.6	39	81	8	201	25	27	21	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56531166--56531222	20	2.8	20	86	0	78	45	0	28	26	1.54
56535023--56535207	79	2.3	82	82	7	229	25	27	22	24	2.00
56535023--56535207	40	4.7	40	82	7	225	25	27	22	24	2.00
56546783--56546844	22	2.7	23	71	16	58	38	11	22	27	1.88
56550923--56551100	40	4.5	40	88	4	218	23	29	25	21	1.99
56562793--56562889	30	3.2	30	75	2	106	28	15	26	28	1.96
56565167--56565434	27	9.9	27	75	6	195	38	21	9	30	1.86
56565167--56565428	54	4.8	54	77	6	253	38	21	9	30	1.85
56565167--56565445	81	3.4	79	77	4	263	38	21	9	30	1.86
56565160--56565373	108	2.0	108	88	3	324	37	21	9	30	1.85
56565221--56565481	27	9.6	27	73	7	98	38	22	8	30	1.84
56565473--56565607	27	5.0	27	88	0	198	35	20	20	24	1.96
56565812--56565878	25	2.7	25	90	0	98	28	25	20	25	1.99
56574057--56574130	26	3.0	26	60	25	61	27	18	22	31	1.98
56574057--56574158	47	2.2	47	92	0	168	26	18	25	29	1.98
56575477--56575520	21	2.3	18	84	11	52	70	0	6	22	1.11
56575470--56575525	29	2.0	28	82	10	69	67	0	5	26	1.11
56575469--56575531	29	2.2	29	77	11	67	65	0	6	28	1.17
56575603--56575750	79	1.9	76	82	9	183	59	2	6	31	1.35
56578559--56578735	92	1.9	95	90	3	288	25	11	23	38	1.89
56585147--56585196	23	2.1	24	81	3	57	34	0	28	38	1.57
56586141--56586226	27	3.2	27	66	21	81	37	4	23	34	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56586120--56586228	53	2.1	53	100	0	218	38	5	20	35	1.76
56588519--56588568	26	2.0	24	81	14	57	16	4	8	72	1.24
56590863--56590955	46	2.0	46	91	0	150	23	5	11	59	1.53
56593093--56593164	19	3.7	19	82	14	76	55	2	0	41	1.14
56593098--56593162	20	3.4	19	85	6	87	53	3	0	43	1.16
56593102--56593162	18	3.2	19	84	9	63	55	3	0	40	1.16
56594645--56594684	20	2.0	20	85	9	55	47	0	2	50	1.14
56597073--56597126	19	2.7	19	91	5	81	42	0	14	42	1.46
56597719--56597784	32	2.1	32	88	0	96	25	22	12	39	1.89
56597794--56597903	42	2.6	42	79	2	105	17	25	14	42	1.87
56597843--56597903	21	2.9	21	83	11	81	16	22	14	45	1.84
56601511--56601554	16	2.7	16	78	3	52	59	9	0	31	1.29
56601519--56601548	8	3.8	8	95	0	51	56	10	0	33	1.32
56601726--56601763	20	1.9	20	88	0	58	36	2	18	42	1.64
56602377--56602484	20	5.3	21	71	17	68	58	11	12	17	1.63
56602380--56602442	20	3.2	20	76	14	69	57	11	12	19	1.65
56602555--56602597	20	2.2	20	91	0	68	58	6	16	18	1.60
56602676--56602732	20	2.9	19	77	12	62	54	8	22	14	1.67
56602652--56602864	106	2.0	106	97	0	399	47	9	16	25	1.77
56603069--56603124	20	2.7	22	78	15	66	58	1	16	23	1.47
56605597--56605685	43	2.1	43	82	0	106	29	26	17	25	1.98
56612686--56612770	43	2.0	43	88	0	125	28	31	18	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56617271--56617558	47	6.1	47	87	0	414	32	11	28	27	1.91
56617298--56617373	23	3.2	25	62	24	63	28	13	34	23	1.92
56617270--56617558	141	2.0	141	93	0	488	32	11	28	27	1.91
56617291--56617614	94	3.4	93	85	4	366	33	10	27	27	1.90
56617763--56617907	37	3.9	37	94	0	245	22	18	32	26	1.97
56623919--56623976	20	2.9	20	70	10	55	48	10	18	22	1.78
56624009--56624154	20	7.3	20	68	13	77	56	8	16	18	1.66
56623902--56624158	118	2.1	120	86	5	360	54	9	15	19	1.68
56624010--56624155	40	3.7	41	68	13	90	56	8	16	18	1.66
56623928--56624155	60	3.8	57	74	12	183	53	10	15	20	1.71
56624637--56624670	17	2.0	17	100	0	68	41	17	23	17	1.90
56624661--56624713	20	2.7	20	87	0	70	58	13	5	22	1.56
56625019--56625193	20	8.8	21	68	15	79	57	8	14	20	1.63
56625118--56625193	21	3.9	19	78	15	75	57	9	10	22	1.60
56625488--56625536	23	2.1	24	84	3	64	69	2	4	24	1.17
56625497--56625556	18	3.4	18	73	13	54	68	1	5	25	1.19
56625580--56625633	19	2.8	20	80	2	65	53	1	3	40	1.29
56627030--56627056	6	4.5	6	100	0	54	51	14	0	33	1.43
56627448--56627629	71	2.5	71	80	3	195	34	19	22	24	1.97
56628025--56628227	107	1.9	107	93	0	352	45	16	5	32	1.72
56628166--56628268	18	5.4	18	68	23	59	44	14	2	37	1.60
56631907--56632006	36	2.8	36	71	6	94	35	22	23	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56631907--56632070	72	2.3	72	80	2	168	36	20	20	21	1.95
56632455--56632673	107	2.1	105	91	1	348	44	16	6	32	1.73
56632702--56632763	22	2.8	22	79	16	65	38	14	11	35	1.82
56646949--56646980	15	2.1	15	100	0	64	37	6	12	43	1.68
56647595--56647619	5	5.0	5	100	0	50	40	0	0	60	0.97
56648391--56648458	34	2.0	34	97	0	127	39	2	23	33	1.70
56648881--56648936	28	2.0	29	89	3	87	44	0	1	53	1.11
56651155--56651331	40	4.4	40	82	4	216	27	27	21	23	1.99
56653867--56653931	25	2.6	24	83	9	69	27	6	7	58	1.50
56654095--56654155	26	2.3	26	83	5	70	32	3	3	60	1.29
56654113--56654176	26	2.5	26	85	10	69	25	6	6	62	1.42
56661635--56661745	24	4.6	24	82	0	114	29	36	18	15	1.92
56661633--56661746	48	2.4	48	79	5	140	28	35	20	15	1.93
56672034--56672063	15	1.9	16	93	6	53	53	0	3	43	1.17
56675878--56676098	40	5.6	40	83	2	250	25	23	25	24	2.00
56683879--56684075	40	4.9	40	82	1	234	24	23	26	24	2.00
56690490--56690549	30	2.0	30	86	0	84	38	6	25	30	1.81
56692959--56692998	21	1.9	21	90	10	64	47	20	0	32	1.50
56699334--56699386	26	2.0	26	85	3	70	26	20	24	28	1.99
56701003--56701135	37	3.4	39	72	13	112	32	24	17	26	1.97
56701963--56701991	6	4.8	6	100	0	58	0	48	0	51	1.00
56714201--56714269	28	2.5	28	76	2	68	34	23	20	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56714423--56714488	27	2.4	27	79	0	69	43	22	16	16	1.87
56714609--56714694	27	3.3	27	85	6	70	29	20	17	32	1.96
56714625--56714740	27	4.3	27	84	2	117	26	16	18	37	1.92
56714625--56714728	54	1.9	54	82	3	129	25	17	20	36	1.94
56718978--56719074	30	3.2	30	71	8	90	27	15	28	27	1.96
56721186--56721268	30	2.7	30	81	9	89	13	21	1	63	1.35
56721219--56721274	18	3.1	18	76	5	51	7	19	3	69	1.27
56721244--56721268	12	2.1	12	100	0	50	8	16	0	76	1.02
56721271--56721301	12	2.6	12	100	0	62	25	16	12	45	1.83
56727111--56727288	52	3.5	50	88	4	250	29	13	29	27	1.94

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