genome.fa.s5.2.7.7.80.10.50.1000.176.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  176  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)
55403847--55404415	180	3.2	176	88	3	820	28	24	18	29	1.98
55403847--55404501	180	3.7	176	81	7	684	27	24	18	29	1.98
55404614--55404792	63	2.8	64	82	3	218	37	13	17	30	1.89
55404830--55404854	13	1.9	13	100	0	50	28	8	8	56	1.57
55405941--55405965	8	3.1	8	100	0	50	24	0	0	76	0.80
55405916--55405978	18	3.2	20	78	17	69	19	0	1	79	0.82
55405917--55405943	6	4.5	6	100	0	54	14	0	0	85	0.61
55405916--55405978	7	8.6	7	76	13	56	19	0	1	79	0.82
55405916--55405981	13	5.1	13	78	14	64	19	0	3	77	0.90
55410146--55410183	20	1.9	20	88	0	58	28	13	10	47	1.76
55421425--55421461	19	1.9	18	89	10	56	29	40	13	16	1.86
55426305--55426350	23	2.0	22	84	12	58	60	0	34	4	1.16
55431815--55432084	40	6.8	40	79	0	261	18	28	16	36	1.93
55431815--55432072	120	2.2	120	84	0	327	18	29	16	35	1.93
55434193--55434372	31	5.8	31	87	0	261	26	18	27	27	1.98
55434193--55434372	93	1.9	93	95	0	324	26	18	27	27	1.98
55434397--55434610	47	4.6	47	81	7	190	28	14	26	30	1.95
55434401--55434654	42	5.6	48	82	9	207	29	14	25	29	1.95
55435984--55436037	26	2.1	25	82	3	63	22	5	3	68	1.26
55436110--55436174	21	2.9	22	79	9	69	36	0	3	60	1.13
55436126--55436174	25	2.0	25	84	8	64	36	0	4	59	1.17
55438037--55438126	28	3.2	27	84	7	110	22	24	21	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55438047--55438137	27	3.2	28	82	4	94	24	26	17	31	1.97
55439189--55439222	10	3.3	10	84	8	50	29	8	8	52	1.62
55444448--55444538	27	3.3	28	92	3	141	35	27	5	31	1.80
55444644--55444720	27	2.8	27	86	4	100	24	25	16	32	1.96
55444642--55444745	27	3.8	28	82	3	79	22	25	17	35	1.95
55445955--55446007	16	3.3	16	74	7	54	24	0	1	73	0.93
55445948--55446071	68	1.9	66	81	15	154	27	4	4	63	1.32
55446055--55446092	17	2.3	16	90	4	58	34	2	5	57	1.35
55446369--55446407	20	2.0	20	85	5	53	28	7	5	58	1.47
55446400--55446523	23	5.8	22	74	18	111	39	6	5	48	1.53
55447385--55447467	24	3.4	25	79	9	75	25	21	21	31	1.98
55447398--55447466	25	2.8	25	86	2	86	24	21	24	28	1.99
55447669--55447910	27	9.0	27	86	0	313	24	19	19	36	1.95
55447670--55447971	27	11.2	27	84	3	297	26	17	18	37	1.93
55447876--55448053	53	3.3	53	82	6	209	28	6	20	44	1.77
55447873--55448053	80	2.3	80	84	3	231	28	7	20	43	1.78
55447874--55448053	27	6.8	26	80	7	157	28	6	20	43	1.77
55447903--55448161	27	9.7	27	81	3	175	30	7	23	38	1.82
55448046--55448117	26	2.7	27	93	2	119	36	9	25	29	1.88
55462177--55462348	93	1.8	93	94	0	308	29	29	20	21	1.98
55462170--55462345	46	3.8	46	79	12	207	30	28	19	21	1.98
55463817--55464019	72	2.8	72	92	3	320	26	15	20	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55464684--55464846	6	26.8	6	75	16	149	49	14	17	18	1.80
55464684--55464839	85	1.8	85	94	2	278	49	14	17	18	1.80
55464964--55465029	27	2.5	26	82	7	78	37	21	22	18	1.94
55464983--55465037	27	2.0	27	86	6	76	36	20	25	18	1.94
55464988--55465045	27	2.1	27	84	6	73	36	27	20	15	1.93
55465202--55465260	22	2.7	22	78	0	64	33	20	23	22	1.97
55465348--55465430	27	3.1	26	86	5	103	37	20	21	20	1.95
55465629--55465762	27	5.0	27	83	0	160	27	20	17	34	1.95
55465631--55465770	54	2.6	54	87	2	183	28	19	16	35	1.93
55465779--55466176	27	14.8	28	83	9	438	41	9	21	27	1.84
55465779--55466176	54	7.4	55	88	3	533	41	9	21	27	1.84
55465783--55466175	81	4.9	81	85	2	493	41	9	20	28	1.84
55465779--55466176	108	3.7	108	90	0	591	41	9	21	27	1.84
55477737--55477813	9	8.6	9	88	0	109	41	20	11	25	1.86
55477838--55477876	20	2.0	20	89	0	60	20	0	7	71	1.10
55477833--55477879	6	7.5	6	81	9	58	17	0	6	76	0.98
55477904--55477928	13	1.9	13	100	0	50	12	0	48	40	1.40
55478996--55479039	18	2.5	17	82	7	52	18	22	40	18	1.91
55479458--55479498	13	3.1	14	75	10	50	19	19	17	43	1.88
55482570--55482731	45	3.6	45	84	4	188	26	25	22	24	2.00
55493619--55493656	20	1.9	20	88	0	58	34	18	5	42	1.73
55493813--55493900	45	2.0	45	90	0	140	27	28	22	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55496874--55497024	28	5.4	28	91	1	214	26	11	27	33	1.92
55502227--55502491	43	6.2	43	85	0	298	30	29	15	24	1.96
55502263--55502499	129	1.8	128	86	0	339	32	29	15	22	1.94
55504254--55504306	22	2.4	22	84	6	63	43	20	5	30	1.75
55506478--55506508	6	5.2	6	92	0	53	48	0	51	0	1.00
55506651--55506736	40	2.1	41	87	6	122	23	15	12	48	1.79
55506741--55506774	6	5.3	6	89	10	50	23	0	0	76	0.79
55506741--55506774	13	2.7	12	86	13	50	23	0	0	76	0.79
55506761--55506805	20	2.3	20	92	3	74	24	4	2	68	1.19
55506761--55506803	19	2.3	19	92	8	70	23	4	2	69	1.18
55507222--55507284	14	4.4	14	76	4	54	47	23	1	26	1.61
55507223--55507268	15	3.1	15	81	6	58	50	21	2	26	1.60
55507422--55507473	16	3.1	18	83	10	65	21	0	30	48	1.51
55507445--55507478	15	2.2	16	89	5	52	20	0	35	44	1.52
55507741--55507791	17	3.2	15	79	17	59	13	0	37	49	1.43
55507846--55508127	41	6.9	41	88	1	361	20	23	21	34	1.96
55508604--55508707	43	2.4	43	88	1	156	27	26	19	25	1.99
55517052--55517080	14	2.1	14	93	6	51	34	0	10	55	1.34
55517895--55518013	43	2.8	43	82	7	134	28	17	25	28	1.98
55524724--55524836	43	2.7	42	84	5	147	27	24	19	28	1.99
55524726--55524843	42	2.8	42	80	12	134	27	24	19	28	1.99
55531289--55531375	45	1.9	45	85	0	120	28	12	21	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55533594--55533782	38	4.9	38	81	4	157	22	20	23	32	1.98
55533594--55533782	76	2.4	76	79	7	184	22	20	23	32	1.98
55537247--55537322	21	3.5	21	68	16	64	22	13	26	38	1.91
55537244--55537341	45	2.2	45	90	3	155	25	13	24	36	1.92
55542336--55542607	48	5.6	49	81	7	225	29	27	17	25	1.97
55542453--55542526	24	3.2	24	61	24	59	32	33	13	20	1.91
55542456--55542528	22	3.3	22	68	24	71	31	32	15	20	1.93
55542379--55542541	45	3.4	46	89	6	188	29	30	16	23	1.96
55553925--55553973	14	3.4	14	72	10	53	34	8	12	44	1.71
55574916--55575031	27	4.3	27	88	1	144	40	21	15	22	1.91
55574938--55575067	54	2.4	54	77	2	127	38	20	17	23	1.93
55584983--55585016	17	1.9	18	94	5	61	11	32	32	23	1.91
55588406--55588854	47	9.5	47	96	0	790	32	8	29	29	1.87
55594691--55594953	37	7.0	37	77	3	222	28	16	17	37	1.92
55594719--55594950	112	2.1	112	87	1	331	29	16	16	37	1.90
55594684--55594953	75	3.6	74	77	5	229	28	16	17	37	1.92
55597009--55597051	18	2.4	18	96	0	77	65	0	18	16	1.28
55607752--55607776	13	1.9	13	100	0	50	84	0	16	0	0.63
55609076--55609110	17	2.1	17	100	0	70	45	11	22	20	1.82
55609424--55609500	13	5.9	13	83	6	93	32	7	22	37	1.83
55609660--55609707	8	5.6	9	75	24	50	43	0	0	56	0.99
55609660--55609718	19	3.1	19	90	7	84	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55610565--55610628	29	2.2	30	83	8	78	46	0	10	42	1.39
55611891--55612006	29	3.9	29	75	16	80	32	0	16	50	1.51
55611924--55612033	29	3.7	29	77	13	98	31	0	13	53	1.46
55615921--55616075	43	3.6	42	85	1	202	28	15	23	32	1.95
55626120--55626241	46	2.6	47	81	5	138	26	22	14	36	1.93
55630328--55630402	30	2.5	30	91	0	114	9	9	41	40	1.69
55632599--55632669	32	2.3	31	80	9	81	36	9	14	39	1.79
55633717--55633754	19	2.0	20	89	5	60	15	26	36	21	1.93
55643000--55643220	40	5.6	40	85	3	232	25	28	21	24	1.99
55643152--55643229	40	1.9	41	82	10	97	26	28	21	23	1.99

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