genome.fa.s9.2.7.7.80.10.50.1000.18.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  18  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)
4822349--4822455	53	2.0	53	98	0	205	14	28	13	44	1.81
4824024--4824061	3	12.7	3	94	0	67	31	2	0	65	1.06
4824167--4824253	34	2.5	33	82	12	88	26	8	6	58	1.52
4835102--4835153	18	2.9	18	88	0	68	38	11	19	30	1.87
4835122--4835174	18	2.9	18	85	0	70	35	15	18	30	1.92
4844108--4844188	22	3.7	22	68	14	60	29	9	1	59	1.38
4844367--4844415	3	16.7	3	78	4	55	32	2	4	61	1.26
4844584--4844633	23	2.1	24	88	7	75	34	12	4	50	1.58
4844993--4845027	15	2.3	15	95	0	61	28	5	2	62	1.32
4849662--4849858	66	3.0	66	82	3	229	20	24	25	28	1.99
4855324--4855417	42	2.2	42	80	0	107	15	21	18	44	1.86
4858753--4858902	43	3.5	43	76	12	155	28	14	25	32	1.95
4863119--4863165	11	4.3	11	81	8	51	74	4	0	21	0.99
4863121--4863150	10	3.1	10	95	4	53	73	6	0	20	1.05
4864758--4864896	60	2.3	60	82	6	165	27	25	20	26	1.99
4864889--4864944	20	2.8	20	83	2	69	32	23	17	26	1.97
4867073--4867116	19	2.4	18	85	7	54	40	9	0	50	1.34
4867545--4867573	15	1.9	15	100	0	58	34	10	0	55	1.34
4873885--4873952	29	2.3	29	78	14	68	44	13	8	33	1.74
4878075--4878164	44	2.0	44	89	0	135	37	11	4	46	1.60
4879725--4879817	3	31.3	3	95	2	170	32	0	0	67	0.91
4879955--4879989	2	17.5	2	100	0	70	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4880215--4880256	20	2.0	21	90	4	68	33	0	7	59	1.25
4880215--4880253	18	2.1	19	85	9	53	33	0	7	58	1.26
4880878--4880903	10	2.6	10	100	0	52	30	7	19	42	1.79
4892024--4892145	44	2.8	43	75	10	115	50	13	22	14	1.77
4892917--4893068	74	2.1	72	87	3	223	26	16	23	33	1.96
4893052--4893086	14	2.5	14	85	0	52	22	11	2	62	1.41
4893255--4893477	74	3.0	74	85	5	326	27	19	20	32	1.97
4893385--4893609	84	2.6	86	85	8	307	25	18	19	36	1.94
4893556--4893677	53	2.3	53	94	1	208	26	15	16	41	1.88
4895575--4895645	3	24.3	3	91	5	119	32	0	0	67	0.91
4895873--4895928	3	19.3	3	85	14	82	32	0	0	67	0.91
4895873--4895928	17	3.4	17	90	4	89	32	0	0	67	0.91
4896052--4896093	20	2.0	21	90	4	68	33	0	7	59	1.25
4896052--4896100	20	2.5	19	80	12	55	32	0	8	59	1.27
4896709--4896734	10	2.6	10	100	0	52	30	7	19	42	1.79
4899852--4899880	5	5.8	5	100	0	58	17	0	0	82	0.66
4916782--4916822	2	20.5	2	100	0	82	48	0	0	51	1.00
4921504--4921543	20	2.0	20	90	0	62	35	10	25	30	1.88
4926606--4926642	13	2.9	12	92	8	56	35	0	8	56	1.29
4927126--4927182	28	2.0	28	89	0	87	33	26	5	35	1.79
4927307--4927347	14	3.1	14	76	20	52	17	36	0	46	1.48
4933035--4933109	6	12.3	6	75	13	73	48	14	20	17	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4933061--4933127	19	3.6	19	84	11	93	44	13	23	17	1.85
4933044--4933122	37	2.1	37	90	0	122	46	12	22	17	1.82
4933056--4933134	37	2.1	37	88	0	122	45	13	22	17	1.84
4933344--4933402	28	2.2	27	79	8	66	38	15	22	23	1.92
4933731--4933838	27	4.0	27	87	4	130	35	21	23	20	1.96
4933756--4933837	28	3.0	28	91	3	132	36	21	21	19	1.95
4934063--4934194	54	2.4	54	82	2	131	28	18	17	36	1.93
4934092--4934206	27	4.3	27	89	0	167	27	16	16	39	1.90
4934196--4934705	27	18.9	27	82	3	425	41	9	20	29	1.83
4934116--4934230	54	2.1	54	80	3	124	32	14	17	35	1.90
4934196--4934705	81	6.3	80	83	3	536	41	9	20	29	1.83
4934198--4934705	54	9.4	54	84	0	532	41	9	20	29	1.83
4937045--4937091	22	2.2	21	84	3	58	36	21	8	34	1.84
4937062--4937121	17	3.2	19	86	13	88	35	16	10	38	1.82
4937613--4937891	134	2.1	134	92	0	459	28	23	17	31	1.97
4938080--4938471	44	8.9	45	74	11	312	27	24	16	31	1.96
4938073--4938370	87	3.4	87	82	4	359	28	24	15	31	1.96
4938159--4938463	132	2.3	132	95	0	538	27	24	16	31	1.96
4939377--4939419	23	1.9	23	95	4	79	0	16	0	83	0.64
4939377--4939433	7	8.0	7	84	9	71	3	12	0	84	0.75
4945045--4945087	21	2.0	21	86	0	59	44	18	4	32	1.71
4945061--4945168	19	5.7	19	91	6	166	37	15	10	36	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4945061--4945168	36	2.8	37	88	8	155	37	15	10	36	1.82
4945495--4945557	28	2.2	28	88	0	90	31	28	6	33	1.82
4946540--4946593	27	2.1	26	86	6	74	48	5	14	31	1.67
4951227--4951307	30	2.7	29	82	1	108	43	9	22	24	1.83
4951287--4951368	30	2.7	30	84	3	112	39	12	21	26	1.89
4957661--4957697	12	3.0	13	80	11	51	54	0	5	40	1.24
4957804--4957837	12	2.8	12	95	0	59	61	0	14	23	1.33
4958711--4958758	20	2.5	20	82	3	62	62	2	4	31	1.26
4958745--4958788	17	2.4	18	77	14	54	56	9	0	34	1.31
4958758--4958818	15	4.1	15	77	16	56	50	13	0	36	1.41
4959352--4959559	30	7.0	29	77	8	168	36	13	24	26	1.92
4959336--4959559	59	3.7	58	77	8	216	36	12	25	25	1.91
4959336--4959559	89	2.5	89	78	11	242	36	12	25	25	1.91
4959690--4959719	2	15.0	2	100	0	60	50	0	0	50	1.00
4962920--4963029	26	4.2	26	95	2	177	36	24	4	34	1.76
4968402--4968453	25	2.0	26	85	3	70	25	13	23	38	1.91
4969932--4970041	26	4.2	26	97	0	184	36	24	5	33	1.79
4971682--4971738	25	2.2	25	79	17	64	31	17	5	45	1.71
4971690--4971741	25	2.1	25	86	13	72	30	15	7	46	1.74
4974327--4974370	22	2.0	22	90	0	70	43	25	9	22	1.82
4979675--4979699	13	1.9	13	100	0	50	44	16	24	16	1.86
4979689--4979782	49	1.9	49	84	0	125	35	13	21	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4985118--4985203	43	2.0	43	97	0	163	29	10	16	44	1.81
4992771--4992820	17	2.8	18	87	6	75	28	18	28	26	1.98
4994236--4994260	12	2.1	12	100	0	50	16	0	0	84	0.63
4998672--4998708	5	7.8	5	88	11	60	18	0	0	81	0.70
4998676--4998702	13	2.1	13	100	0	54	14	0	0	85	0.61
4998672--4998707	18	2.0	18	100	0	72	16	0	0	83	0.65
5002380--5002515	40	3.4	40	76	10	134	24	16	27	31	1.96
5002402--5002535	41	3.3	40	78	7	128	27	15	25	31	1.96
5004724--5004910	48	3.9	48	85	1	232	35	25	16	22	1.95
5004725--5004910	96	1.9	96	87	2	275	35	25	16	23	1.94
5007410--5007436	9	3.0	9	100	0	54	66	0	0	33	0.92
5007706--5007747	16	2.6	17	85	7	61	50	0	4	45	1.23
5007707--5007748	17	2.4	16	85	14	57	50	0	4	45	1.23
5009504--5009535	10	2.8	12	86	13	50	34	0	3	62	1.11
5010481--5010506	7	3.7	7	100	0	52	46	0	38	15	1.46
5016027--5016066	6	6.7	6	100	0	80	0	15	50	35	1.44
5017022--5017064	15	2.9	15	89	0	68	55	2	0	41	1.12
5027787--5027834	22	2.1	23	81	11	55	41	29	2	27	1.67
5029626--5029683	30	1.9	30	89	0	89	10	25	39	24	1.87
5031656--5031739	23	3.7	22	76	9	71	75	1	2	21	0.99
5031649--5031743	14	6.8	14	74	13	81	74	1	2	22	0.98
5038024--5038091	34	2.0	34	91	0	109	11	13	14	60	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5042285--5042354	7	10.0	7	86	6	61	37	0	32	30	1.58
5042285--5042354	21	3.3	21	82	7	70	37	0	32	30	1.58
5042286--5042354	14	4.9	14	87	0	84	36	0	33	30	1.58
5044851--5044908	2	29.0	2	100	0	116	50	0	0	50	1.00
5056509--5056598	20	4.5	20	72	6	67	46	10	11	32	1.72
5066422--5066459	17	2.2	17	86	9	51	68	7	0	23	1.16
5068360--5068394	5	6.6	5	93	6	52	82	0	0	17	0.66
5068360--5068394	11	3.2	11	88	11	54	82	0	0	17	0.66
5072815--5072850	18	2.1	17	94	5	63	83	0	0	16	0.65
5074013--5074043	16	1.9	16	93	0	53	35	6	9	48	1.62

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