genome.fa.s5.2.7.7.80.10.50.1000.175.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  175  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)
55070668--55070816	81	1.9	80	88	1	226	30	7	18	43	1.77
55079756--55079788	14	2.4	14	94	0	57	36	9	12	42	1.74
55080005--55080063	6	10.2	6	80	10	61	67	3	1	27	1.16
55080027--55080065	19	2.1	19	95	0	69	66	0	5	28	1.12
55080014--55080094	24	3.3	24	77	13	76	70	2	4	22	1.19
55102073--55102113	21	2.0	21	90	0	64	31	4	4	58	1.40
55102815--55103036	123	1.8	123	82	2	284	30	17	16	36	1.91
55112756--55114120	178	7.7	179	85	3	1587	29	17	25	27	1.98
55112846--55113996	44	26.0	44	66	11	294	30	17	25	27	1.97
55114047--55114142	45	2.2	44	84	1	120	26	20	21	31	1.98
55115804--55115846	21	2.0	21	90	0	68	32	4	4	58	1.39
55116535--55116756	123	1.8	123	82	2	284	30	16	16	36	1.91
55118166--55118282	43	2.8	42	76	7	128	23	17	25	32	1.97
55118166--55118259	42	2.2	42	84	5	127	24	19	25	30	1.98
55129522--55129563	21	2.0	21	85	0	57	33	19	7	40	1.78
55132291--55132327	18	2.1	18	100	0	74	37	16	18	27	1.92
55145404--55145600	40	4.9	40	92	0	322	26	21	28	23	1.99
55147846--55147999	31	5.0	31	95	0	274	29	24	15	30	1.96
55148023--55148114	42	2.2	42	96	0	166	31	21	15	31	1.94
55148262--55148331	25	2.8	25	91	4	106	24	24	27	24	2.00
55149166--55149344	85	2.1	85	98	0	349	37	8	27	26	1.85
55150610--55151496	47	18.6	47	90	4	1232	33	9	29	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55150610--55151496	96	9.3	96	88	5	1257	33	9	29	28	1.88
55150610--55151496	143	6.2	142	91	3	1313	33	9	29	28	1.88
55150888--55150970	27	3.3	27	61	22	70	34	4	26	33	1.78
55151298--55151419	22	5.3	22	62	21	61	33	11	29	25	1.91
55154061--55154408	40	8.7	40	89	0	498	24	21	27	26	1.99
55155669--55155847	85	2.1	85	97	0	340	37	7	27	26	1.84
55157111--55157688	47	12.3	47	90	3	844	32	9	30	27	1.89
55157111--55157696	189	3.1	188	88	5	862	32	9	30	27	1.89
55157111--55157684	236	2.4	234	92	3	929	32	9	30	27	1.89
55159397--55159475	29	2.7	30	82	13	110	29	30	15	25	1.96
55167517--55167595	29	2.7	30	82	13	110	29	30	15	25	1.96
55169181--55169292	47	2.4	46	91	2	179	34	8	31	25	1.87
55171393--55171457	27	2.4	27	82	5	78	21	24	18	35	1.96
55171501--55171553	27	2.0	27	84	0	70	35	13	15	35	1.86
55171516--55171696	27	6.7	27	74	12	120	30	7	19	41	1.79
55171627--55171736	27	4.1	27	75	9	98	30	13	20	35	1.92
55171728--55171925	27	7.3	27	84	2	236	39	8	23	28	1.83
55171728--55171903	54	3.3	54	90	0	271	40	7	23	28	1.82
55171733--55171925	81	2.4	81	88	1	271	39	7	24	28	1.83
55183708--55183808	24	4.2	24	85	0	139	19	40	3	35	1.71
55185433--55185500	34	2.0	34	88	0	100	30	16	23	29	1.96
55189330--55189408	33	2.4	32	87	2	113	41	12	20	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55189350--55189432	32	2.5	32	82	3	85	38	13	20	27	1.90
55189425--55189631	31	6.5	31	83	5	247	28	15	28	28	1.97
55189695--55189746	27	1.9	27	92	0	86	38	13	25	23	1.91
55189699--55189759	27	2.3	27	85	0	77	42	14	21	21	1.88
55193252--55193387	56	2.4	56	91	0	227	28	15	24	31	1.95
55197990--55198108	43	2.8	43	88	2	159	28	28	17	25	1.98
55215903--55215963	30	2.1	30	87	3	88	31	22	3	42	1.70
55216508--55216566	30	2.0	30	100	0	118	37	6	20	35	1.79
55217701--55217875	46	3.8	46	75	14	180	21	20	29	29	1.98
55217697--55217867	92	1.8	93	89	1	272	21	21	29	28	1.98
55221596--55221628	13	2.6	13	90	4	50	21	9	6	63	1.45
55223607--55223662	11	5.5	11	75	16	66	35	10	19	33	1.87
55223606--55223662	20	2.8	20	100	0	114	35	10	19	35	1.86
55223713--55223809	25	3.8	25	78	5	79	24	21	23	29	1.99
55241204--55241449	40	6.2	40	90	2	361	23	19	27	30	1.98
55245309--55245439	47	2.7	48	78	13	144	27	18	28	25	1.98
55249625--55249711	20	4.3	20	95	0	156	34	11	20	33	1.89
55249636--55249711	11	7.5	11	71	16	74	35	11	19	32	1.88
55249631--55249703	9	7.4	9	71	17	56	34	9	20	35	1.85
55249761--55249898	24	5.9	23	87	2	186	28	23	21	26	1.99
55249761--55249898	71	1.9	71	91	0	222	28	23	21	26	1.99
55249761--55249898	47	2.9	47	88	2	188	28	23	21	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55250067--55250130	31	2.1	31	85	5	85	39	15	21	23	1.92
55257654--55257700	24	2.0	24	86	0	67	31	25	17	25	1.97
55257742--55257804	19	3.3	19	89	6	101	33	9	20	36	1.85
55257746--55257800	11	5.5	11	75	20	57	34	10	20	34	1.87
55257735--55257800	20	3.3	20	89	4	107	33	10	21	34	1.88
55257741--55257792	9	5.4	9	75	20	52	32	7	21	38	1.82
55257850--55258014	23	7.3	22	85	8	208	30	20	20	27	1.98
55257850--55258031	22	8.0	23	82	9	216	30	21	20	28	1.98
55257850--55258031	45	4.0	44	85	7	249	30	21	20	28	1.98
55271014--55271297	40	7.1	40	89	3	405	21	21	29	27	1.99
55278994--55279211	40	5.5	40	90	4	311	22	23	28	25	1.99
55285783--55285825	16	2.7	16	85	0	59	58	18	13	9	1.62
55285923--55285959	19	1.9	19	94	0	65	32	18	35	13	1.90
55286041--55286266	28	8.0	29	75	4	192	26	15	33	25	1.95
55286044--55286272	86	2.7	86	91	2	356	25	15	33	25	1.95
55289874--55290286	46	8.7	46	75	11	236	27	19	29	23	1.98
55289878--55290238	48	7.6	47	72	15	189	27	18	28	24	1.98
55291688--55291859	46	3.7	45	75	11	136	30	28	18	22	1.97
55291695--55291867	93	1.9	93	85	2	240	29	28	19	21	1.98
55291739--55291882	46	3.1	46	72	11	132	31	27	18	22	1.97
55306802--55306847	20	2.3	20	100	0	92	39	10	30	19	1.86
55308792--55309014	119	1.9	120	83	6	292	25	27	22	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55308790--55309011	79	2.8	80	85	6	274	25	28	21	24	1.99
55308771--55309014	40	6.1	40	83	6	282	25	27	22	24	2.00
55316875--55317055	79	2.3	80	80	8	199	24	27	23	24	2.00
55316854--55317057	40	5.1	40	79	8	211	25	27	23	24	2.00
55326775--55326882	43	2.5	43	80	4	121	30	22	18	28	1.97
55330170--55330212	21	2.1	21	86	4	61	48	20	4	25	1.69
55341199--55341274	37	2.1	37	83	14	95	43	23	7	25	1.80
55342263--55342306	22	2.0	22	100	0	88	50	13	4	31	1.62
55352895--55352941	24	2.0	24	87	8	69	8	36	34	21	1.84
55352896--55352949	24	2.2	24	83	6	65	9	38	33	18	1.83
55353371--55354236	43	20.7	43	82	6	870	18	34	31	16	1.93
55353323--55354024	85	8.2	86	88	3	841	18	34	31	16	1.93
55353368--55354236	170	5.2	171	82	7	994	18	34	31	16	1.93
55354039--55354236	42	4.7	43	76	9	190	19	31	31	17	1.95
55356456--55356639	40	4.6	41	81	8	209	26	24	25	24	2.00
55356456--55356639	80	2.3	80	85	5	239	26	24	25	24	2.00
55367243--55367494	27	9.3	27	86	1	299	27	23	9	39	1.85
55367243--55367494	81	3.1	81	86	1	335	27	23	9	39	1.85
55367493--55367649	27	5.8	27	79	4	156	40	19	11	29	1.86
55367493--55367649	54	2.9	54	80	3	174	40	19	11	29	1.86
55367526--55367677	27	5.7	26	82	6	144	41	19	9	29	1.83
55367526--55367762	54	4.4	53	75	9	158	39	18	10	31	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55367526--55367762	110	2.2	109	81	6	257	39	18	10	31	1.84
55367534--55367740	27	7.6	27	78	8	141	39	17	10	31	1.84
55367756--55367857	27	3.8	27	72	10	73	38	19	19	22	1.94
55368667--55368736	25	2.8	24	91	4	104	24	24	24	27	2.00
55368666--55368749	25	3.4	24	83	8	98	27	21	23	27	1.99
55368884--55368975	42	2.2	42	98	0	175	31	15	20	32	1.94
55368999--55369082	31	2.7	31	96	1	152	27	17	27	27	1.98
55374297--55374414	40	3.0	40	94	0	200	27	29	21	22	1.99
55398627--55398744	40	3.0	40	92	0	191	27	28	21	22	1.99
55403916--55404012	44	2.2	45	80	10	110	28	26	17	26	1.98

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