genome.fa.s9.2.7.7.80.10.50.1000.177.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  177  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)
52764686--52764869	40	4.6	40	78	4	147	22	24	29	23	1.99
52767741--52767852	34	3.3	34	81	1	109	39	17	16	25	1.91
52769021--52769056	2	18.0	2	94	0	63	50	0	2	47	1.15
52777395--52777557	47	3.5	46	75	19	153	25	18	31	24	1.98
52777393--52777607	94	2.3	93	83	5	263	26	18	31	24	1.97
52777440--52777666	49	4.7	49	75	12	159	25	17	29	27	1.97
52779793--52779844	23	2.3	23	86	0	77	26	26	17	28	1.97
52781283--52781345	25	2.5	25	82	5	83	42	15	7	33	1.76
52785540--52785746	46	4.5	46	91	1	308	39	14	24	21	1.91
52785491--52785746	138	1.9	130	86	7	361	38	14	24	21	1.92
52787550--52787773	40	5.6	40	86	4	281	23	23	26	25	2.00
52787554--52787773	83	2.7	80	86	6	277	23	24	27	25	2.00
52789808--52789983	40	4.5	41	85	8	224	24	23	28	23	2.00
52789808--52789983	79	2.2	79	86	8	236	24	23	28	23	2.00
52798852--52799075	40	5.6	40	87	3	306	24	23	26	25	2.00
52798856--52799075	83	2.7	80	88	5	302	23	24	27	25	2.00
52806780--52806810	16	1.9	16	93	0	53	22	0	6	70	1.09
52806777--52806826	26	2.0	25	84	4	64	28	0	6	66	1.15
52808147--52808275	19	6.6	19	68	19	70	32	1	6	59	1.31
52808146--52808289	9	14.8	10	70	13	70	34	1	6	57	1.32
52808212--52808289	30	2.6	30	78	6	79	33	1	7	57	1.35
52810685--52810725	17	2.3	18	80	20	50	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52812439--52812482	20	2.3	19	84	4	52	54	6	0	38	1.27
52812643--52812668	2	13.0	2	100	0	52	50	0	0	50	1.00
52826968--52827077	40	2.8	40	85	0	148	26	23	26	23	2.00
52826968--52827117	40	3.8	39	80	7	133	26	22	26	24	2.00
52830418--52830553	29	4.7	29	86	3	157	24	30	15	29	1.95
52830393--52830552	58	2.8	58	81	0	176	23	33	15	27	1.95
52838756--52838865	40	2.8	40	85	0	148	26	23	26	23	2.00
52838756--52838905	40	3.8	39	80	7	133	26	22	26	24	2.00
52841076--52841105	14	2.1	15	93	6	53	20	16	6	56	1.62
52841053--52841109	23	2.4	23	88	2	78	24	15	8	50	1.72
52843854--52843956	29	3.6	29	81	0	116	15	21	36	26	1.93
52848270--52848493	40	5.6	40	87	3	306	24	23	26	25	2.00
52848274--52848493	83	2.7	80	88	5	302	23	24	27	25	2.00
52856510--52856733	40	5.6	40	87	3	306	24	23	26	25	2.00
52856514--52856733	83	2.7	80	88	5	302	23	24	27	25	2.00
52859829--52859930	34	3.0	34	80	0	123	21	21	20	36	1.95
52861142--52861182	21	2.0	20	85	4	55	53	0	26	19	1.45
52864204--52864381	40	4.5	40	87	2	234	24	23	26	25	2.00
52866201--52866245	20	2.2	20	96	0	81	20	37	20	22	1.94
52872156--52872191	18	2.0	19	89	10	58	25	44	19	11	1.83
52873015--52873061	23	2.0	23	100	0	94	44	21	8	25	1.80
52879023--52879056	10	3.3	11	88	12	54	44	8	0	47	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52879957--52880004	21	2.3	21	82	13	71	45	12	2	39	1.54
52889129--52889222	39	2.4	39	89	1	136	22	30	23	23	1.99
52889868--52889908	21	2.0	21	95	0	73	41	14	2	41	1.59
52899472--52899504	14	2.3	15	89	5	50	27	0	0	72	0.85
52905792--52905831	21	1.9	21	85	10	55	30	5	20	45	1.72
52907123--52907161	20	1.9	20	84	5	51	38	0	17	43	1.50
52910581--52910635	24	2.3	24	81	3	58	20	0	25	54	1.44
52912847--52912879	16	2.1	16	100	0	66	12	51	18	18	1.76
52921713--52921744	12	2.6	13	90	9	50	50	25	6	18	1.70
52922309--52922427	44	2.8	42	79	11	134	30	25	19	25	1.98
52922265--52922423	44	3.7	42	74	12	128	29	25	17	27	1.98
52928872--52928903	12	2.6	13	90	9	50	50	25	6	18	1.70
52929465--52929585	44	2.8	42	81	10	147	29	25	19	24	1.99
52929423--52929581	44	3.7	42	76	14	139	28	25	19	26	1.99
52931771--52931796	13	2.0	13	100	0	52	15	38	30	15	1.88
52933313--52933341	2	14.5	2	100	0	58	48	0	0	51	1.00
52933899--52934109	49	4.6	46	80	12	170	29	26	14	29	1.95
52933940--52934109	47	3.6	47	85	6	200	30	25	15	28	1.96
52934132--52934280	31	4.8	31	85	3	201	24	27	19	28	1.98
52934132--52934280	62	2.4	62	89	2	228	24	27	19	28	1.98
52934256--52934380	50	2.5	51	90	3	191	26	23	16	34	1.95
52951170--52951210	19	2.2	19	86	4	57	51	4	4	39	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52951166--52951205	19	2.1	19	95	0	71	45	2	5	47	1.38
52957912--52958088	48	3.7	48	86	1	221	33	27	17	20	1.95
52957943--52958019	24	3.2	24	63	26	63	36	24	14	24	1.93
52957912--52958085	96	1.8	96	86	2	251	33	27	17	21	1.96
52964900--52964927	13	2.2	13	100	0	56	50	14	14	21	1.78
52965183--52965311	48	2.7	48	81	4	154	36	27	16	20	1.93
52965791--52965852	29	2.2	27	82	5	70	29	25	3	41	1.71
52969890--52969949	29	2.1	29	100	0	120	30	3	16	50	1.62
52970310--52970811	46	11.0	46	89	1	704	40	13	23	22	1.89
52972848--52972879	16	1.9	17	93	6	57	81	3	9	6	0.97
52977982--52978100	60	2.0	61	83	5	152	26	26	19	27	1.99
52983177--52983207	16	1.9	16	93	0	53	35	0	22	41	1.54
52988480--52988505	12	2.2	12	100	0	52	38	15	0	46	1.46
52993099--52993213	55	2.1	56	83	8	146	34	21	24	19	1.96
52993124--52993213	27	3.2	27	85	7	119	32	23	24	20	1.98
52993600--52993631	8	4.0	8	91	0	55	3	25	25	46	1.67
53000940--53001029	27	3.2	27	81	7	101	32	24	23	20	1.98
53001419--53001448	16	1.9	15	93	6	51	3	20	23	53	1.60
53001815--53001864	25	2.0	25	100	0	100	36	8	28	28	1.85
53008123--53008174	23	2.2	23	96	3	95	63	7	0	28	1.22
53008502--53008543	19	2.2	20	83	8	52	45	4	4	45	1.45
53010834--53010972	40	3.5	40	97	0	260	25	29	23	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53019150--53019180	2	15.5	2	100	0	62	48	0	0	51	1.00
53019267--53019309	15	2.9	15	92	0	68	51	13	13	20	1.76
53032211--53032260	23	2.2	23	85	0	64	38	20	18	24	1.93
53032251--53032336	44	2.0	44	83	4	111	39	19	23	17	1.92
53032252--53032371	22	5.5	22	69	5	82	39	18	24	18	1.92
53032310--53032403	44	2.1	44	82	7	111	42	15	24	17	1.88
53033964--53034016	27	2.0	27	84	0	70	28	13	20	37	1.90
53034358--53034391	9	3.8	9	92	7	52	14	41	35	8	1.77
53037300--53037352	27	2.0	27	84	0	70	30	13	16	39	1.87
53044536--53044584	17	2.8	18	74	22	50	24	18	22	34	1.96
53045407--53045573	40	4.2	40	79	6	169	25	21	27	25	1.99
53052527--53052575	17	2.8	18	74	22	50	24	18	22	34	1.96
53053395--53053561	40	4.2	40	79	6	169	25	21	27	25	1.99
53060888--53061059	46	3.7	47	74	14	169	22	18	28	30	1.97
53060882--53061054	93	1.9	92	90	4	276	21	19	29	29	1.98
53063749--53063805	28	2.0	28	89	0	87	38	8	10	42	1.71
53066877--53066935	30	1.9	30	82	3	73	49	3	20	27	1.65
53070361--53070424	26	2.5	26	82	5	76	18	18	21	40	1.91
53086139--53086186	24	2.0	24	100	0	96	37	20	12	29	1.90
53092455--53092540	43	2.0	43	81	4	102	26	25	19	27	1.99
53093250--53093365	6	18.8	6	66	15	58	48	13	18	18	1.81
53093267--53093337	19	3.8	19	75	3	81	45	16	19	18	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53093250--53093343	37	2.5	37	82	0	125	46	14	19	19	1.84
53093485--53093590	27	4.0	26	86	6	140	38	20	23	16	1.93
53093485--53093590	54	2.0	53	90	1	167	38	20	23	16	1.93
53093485--53093608	54	2.4	54	84	4	128	38	20	23	17	1.93
53093749--53093813	22	3.0	22	77	8	69	32	23	24	20	1.98
53094202--53094282	27	3.0	27	89	3	92	27	20	17	34	1.95
53096081--53096115	17	2.0	18	88	5	54	42	2	5	48	1.41
53096349--53096383	17	2.1	17	100	0	70	60	22	0	17	1.37
53102445--53102520	39	1.9	40	86	5	109	30	15	23	30	1.96
53113756--53113827	9	8.0	9	71	10	58	36	1	0	62	1.04

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