genome.fa.s9.2.7.7.80.10.50.1000.134.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  134  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)
39739080--39739298	80	2.7	79	77	10	214	24	23	27	24	2.00
39741463--39741509	9	4.7	10	78	17	53	76	8	14	0	1.01
39741470--39741524	16	3.5	16	80	14	69	78	5	14	1	1.02
39741578--39741605	12	2.3	12	100	0	56	50	14	14	21	1.78
39741607--39741631	12	2.1	12	100	0	50	76	0	16	8	1.02
39741598--39741651	18	3.0	18	80	0	63	66	1	18	12	1.33
39741607--39741688	30	2.7	30	75	0	83	63	1	23	12	1.35
39743806--39743894	30	3.0	30	79	11	94	30	21	16	31	1.96
39749689--39749859	43	4.0	43	76	8	161	25	14	25	33	1.94
39750716--39750755	21	1.9	21	85	10	55	27	30	20	22	1.98
39752351--39752395	23	1.9	24	86	4	65	26	51	2	20	1.59
39752726--39752828	27	3.8	27	79	7	84	25	17	18	38	1.92
39752721--39752916	54	3.6	53	80	6	214	23	16	18	40	1.90
39752753--39752916	27	6.1	27	83	7	183	22	15	19	42	1.88
39752753--39752912	81	2.0	81	86	7	227	22	15	19	43	1.88
39755954--39755990	18	2.1	18	94	0	65	45	18	16	18	1.85
39756404--39756463	26	2.3	26	85	0	75	23	21	11	43	1.85
39760415--39760471	27	2.2	25	78	6	60	17	17	21	43	1.88
39761052--39761099	16	3.0	16	87	6	62	12	20	20	45	1.83
39761056--39761099	8	5.5	8	80	0	52	11	20	20	47	1.80
39765088--39765205	29	4.1	29	89	3	150	30	28	12	27	1.93
39765426--39765461	16	2.2	16	95	0	63	25	13	5	55	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39767089--39767250	27	6.1	27	81	9	174	20	17	19	41	1.91
39767088--39767245	53	3.0	54	85	2	187	20	17	19	41	1.90
39775555--39775707	40	3.8	40	90	2	229	22	24	28	24	2.00
39791095--39791135	2	20.5	2	100	0	82	48	0	0	51	1.00
39799981--39800093	43	2.7	43	84	5	133	23	15	26	34	1.95
39799970--39800116	42	3.5	42	73	9	111	27	14	24	32	1.95
39806209--39806264	27	2.1	27	86	0	76	30	16	21	32	1.95
39806281--39806615	27	12.4	27	79	5	273	41	18	8	31	1.82
39806246--39806530	80	3.5	80	79	5	270	42	18	8	31	1.79
39806246--39806588	27	12.7	27	80	6	167	41	18	8	31	1.81
39806853--39806975	41	3.0	41	92	0	201	21	21	30	26	1.98
39807117--39807181	22	3.0	22	80	8	78	21	23	23	32	1.98
39809669--39809800	29	4.5	29	97	1	246	24	24	14	37	1.92
39809669--39809800	59	2.3	59	97	1	248	24	24	14	37	1.92
39810305--39810742	143	3.1	143	98	0	858	39	28	10	21	1.86
39817564--39817694	29	4.5	29	96	2	237	24	24	14	36	1.93
39817564--39817694	59	2.3	59	95	2	239	24	24	14	36	1.93
39817564--39817724	59	2.7	59	89	3	182	26	24	13	35	1.93
39818199--39818636	143	3.1	143	98	0	840	39	29	9	21	1.86
39820535--39820633	27	3.7	27	84	0	135	45	20	6	28	1.74
39820535--39820649	27	4.3	27	84	0	131	45	18	7	28	1.77
39820535--39820655	54	2.2	55	83	4	156	45	17	8	28	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39821502--39821977	27	17.7	27	85	2	598	39	19	8	32	1.82
39821502--39822030	27	19.6	27	83	4	500	38	20	8	32	1.83
39821493--39822048	108	5.2	107	87	3	652	38	20	8	32	1.83
39822026--39822101	27	2.8	28	88	4	86	31	25	5	38	1.78
39822103--39822367	27	9.9	27	87	1	318	36	19	20	22	1.95
39822096--39822372	81	3.4	81	86	1	369	37	19	19	23	1.95
39822829--39822895	25	2.7	25	85	0	89	22	19	10	47	1.79
39822829--39822988	62	2.6	62	86	0	212	20	18	13	47	1.82
39822893--39822955	25	2.5	24	85	7	81	20	17	15	46	1.85
39822920--39823000	37	2.2	37	84	0	108	18	14	16	50	1.78
39824046--39824125	41	2.0	41	92	0	133	21	21	28	28	1.98
39824270--39824334	22	3.0	22	77	8	78	18	26	23	32	1.97
39827140--39827194	28	1.9	29	88	3	85	21	45	20	12	1.84
39834878--39835115	50	4.8	50	81	4	248	30	27	17	24	1.97
39842316--39842553	50	4.8	50	83	4	284	30	26	18	24	1.98
39843852--39843876	13	1.9	13	100	0	50	0	48	28	24	1.52
39852316--39852356	18	2.2	19	86	4	57	46	0	2	51	1.14
39858719--39858768	26	1.9	25	84	15	66	38	4	26	32	1.75
39859268--39859382	42	2.7	42	76	5	117	27	13	26	33	1.93
39867349--39867490	47	3.0	47	95	1	250	30	12	13	43	1.81
39868300--39868426	45	2.9	43	86	9	161	24	22	29	23	1.99
39878528--39878651	42	2.9	41	76	13	117	33	25	17	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39886527--39886604	11	7.6	11	76	16	87	35	8	19	35	1.83
39886528--39886604	20	3.8	20	96	0	145	35	9	19	36	1.84
39886540--39886596	9	5.9	9	80	15	69	35	5	21	38	1.76
39886654--39886726	26	2.8	26	97	0	137	27	27	23	21	1.99
39892908--39893019	6	18.0	6	68	17	68	48	14	17	19	1.81
39892907--39893019	31	3.6	31	91	1	154	48	14	17	19	1.81
39892951--39893008	19	3.4	19	65	30	58	46	17	17	18	1.84
39893156--39893257	27	3.8	26	85	5	123	36	20	23	19	1.95
39893416--39893480	22	3.0	22	80	8	87	35	21	23	20	1.96
39893922--39894416	27	18.6	27	85	5	657	23	20	21	35	1.96
39894398--39894579	27	6.7	27	84	0	229	30	7	21	40	1.80
39894398--39894579	54	3.4	54	89	0	274	30	7	21	40	1.80
39897188--39897355	40	4.2	40	77	6	169	24	21	29	25	1.99
39905173--39905340	40	4.2	40	77	6	169	24	21	29	25	1.99
39913512--39913709	71	2.8	70	92	3	294	33	17	28	20	1.95
39913578--39913695	41	3.1	41	60	28	98	32	17	28	21	1.96
39913546--39913709	71	2.3	71	100	0	328	35	17	28	18	1.94
39917563--39917770	40	5.2	40	85	0	227	26	21	25	25	2.00
39919135--39919608	44	10.8	44	88	2	659	26	27	16	29	1.97
39931395--39931432	16	2.4	16	86	4	51	68	5	0	26	1.11
39931701--39931810	12	9.7	11	71	20	59	56	0	7	35	1.33
39934121--39934300	46	3.9	47	78	8	206	22	31	17	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39934119--39934345	94	2.4	93	79	4	242	22	30	18	28	1.97
39939289--39939338	17	2.9	17	84	0	55	40	8	14	38	1.75
39940969--39941037	30	2.3	31	85	5	88	50	4	2	42	1.37
39943291--39943340	3	16.7	3	91	0	82	68	0	0	32	0.90
39947325--39947459	69	1.9	71	82	5	168	30	9	17	42	1.81
39951996--39952397	45	8.9	45	87	0	572	29	29	19	22	1.98
39954147--39954190	2	22.0	2	100	0	88	50	0	0	50	1.00
39960726--39960760	2	17.5	2	87	0	52	42	0	5	51	1.25
39964937--39965275	123	2.8	123	95	0	597	30	10	25	33	1.90
39965244--39965487	40	6.1	40	88	1	301	24	21	26	27	1.99
39966529--39966572	22	2.0	22	100	0	88	31	22	18	27	1.97
39968952--39969175	91	2.5	93	83	4	278	40	14	10	34	1.81
39970342--39970542	99	2.0	99	95	0	357	40	13	22	23	1.90
39972051--39972143	45	2.1	45	100	0	186	49	4	33	12	1.61
39973396--39973459	27	2.4	27	91	0	101	25	25	26	23	2.00
39973551--39973577	14	1.9	14	100	0	54	74	0	25	0	0.83
39973542--39973579	18	2.1	19	90	5	60	71	0	28	0	0.87
39976285--39976427	39	3.6	39	86	0	178	23	23	30	22	1.99
39984209--39984351	39	3.6	39	88	0	187	23	23	31	22	1.98
39987661--39987816	64	2.5	64	93	2	262	41	6	7	44	1.58
39988184--39988345	33	4.9	32	70	8	119	22	16	39	21	1.92
39988184--39988345	66	2.5	66	83	2	209	22	16	39	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39990732--39990767	17	2.1	17	89	0	54	69	2	2	25	1.15
39993658--39993740	42	2.0	42	100	0	166	26	26	21	25	2.00
39994079--39994167	36	2.5	36	96	1	162	48	26	3	21	1.66
39998986--39999100	49	2.3	49	82	2	133	38	21	18	21	1.94
40002311--40002441	66	2.0	66	95	0	235	50	9	11	28	1.70
40010357--40010437	40	2.0	40	90	0	126	20	12	30	35	1.90
40014409--40014461	27	2.0	27	92	0	88	15	24	41	18	1.89
40016169--40016370	40	5.1	40	75	9	148	23	24	27	24	2.00
40016168--40016319	78	1.9	79	84	5	200	25	23	26	24	2.00
40023401--40023602	40	5.1	40	75	9	148	23	24	27	24	2.00

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