genome.fa.s9.2.7.7.80.10.50.1000.144.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: At_chr10
Parameters: 2 7 7 80 10 50 1000
Length:  95480121

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   

This is table  144  of  284  ( 34012 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)
48226785--48227022	47	5.1	47	85	0	323	29	27	10	32	1.90
48232853--48232904	27	1.9	27	100	0	104	28	19	15	36	1.92
48237773--48238002	40	5.8	40	89	4	324	23	22	27	26	2.00
48237773--48238028	80	3.2	80	87	3	340	24	22	26	26	2.00
48237773--48238028	40	6.4	40	86	7	303	24	22	26	26	2.00
48242207--48242324	43	2.8	42	78	8	114	28	27	19	23	1.98
48242166--48242322	85	1.8	84	83	5	208	27	26	20	26	1.99
48244648--48244818	93	1.8	93	96	0	315	28	29	21	21	1.98
48244643--48244815	46	3.7	46	80	13	219	28	28	21	21	1.98
48245238--48245297	30	2.0	30	90	0	93	30	25	8	36	1.85
48246145--48246243	50	2.0	50	97	0	189	25	16	19	39	1.91
48252075--48252246	46	3.7	46	77	13	190	29	26	21	22	1.99
48252080--48252250	93	1.8	93	92	0	288	28	27	21	22	1.99
48262180--48262350	93	1.8	93	93	0	297	29	29	20	21	1.98
48262175--48262347	46	3.7	46	78	13	201	30	28	20	21	1.98
48262769--48262828	30	2.0	30	83	0	75	31	23	6	38	1.81
48263218--48263265	24	2.0	24	100	0	96	29	25	16	29	1.97
48272840--48272950	55	2.0	55	89	3	170	33	18	18	29	1.95
48281103--48281280	27	6.6	27	83	3	205	26	15	28	29	1.96
48281104--48281259	82	1.9	81	88	3	233	26	15	28	29	1.96
48281100--48281280	82	2.2	81	83	2	229	27	15	27	29	1.96
48281185--48281291	27	3.9	27	85	1	70	26	14	28	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48282692--48282806	23	5.0	23	73	16	112	33	13	26	25	1.94
48282652--48282833	69	2.6	69	100	0	364	35	14	25	24	1.93
48285523--48285631	56	1.9	56	96	0	200	31	23	16	28	1.96
48287713--48287944	49	4.7	49	80	3	266	30	25	17	26	1.97
48289317--48289346	13	2.3	13	94	0	51	20	3	13	63	1.43
48289364--48289388	13	1.9	13	100	0	50	20	16	16	48	1.82
48296444--48296513	19	3.7	19	96	0	122	37	14	21	27	1.92
48296776--48296895	46	2.6	46	90	1	161	27	27	19	25	1.99
48296790--48296895	46	2.3	46	95	1	187	29	24	18	27	1.98
48296811--48297015	52	4.1	51	77	12	135	30	25	18	25	1.98
48306921--48306991	37	1.9	37	91	5	117	18	7	25	49	1.72
48309393--48309427	18	1.9	18	100	0	70	11	28	11	48	1.74
48309585--48309625	3	13.7	3	100	0	82	34	0	34	31	1.58
48319055--48319207	42	3.7	41	77	8	148	30	15	24	29	1.96
48328816--48329927	40	27.8	40	92	0	1812	26	20	28	24	1.99
48349244--48349395	27	5.6	27	92	3	241	30	28	12	27	1.93
48349244--48349420	55	3.2	55	90	0	255	31	29	12	26	1.93
48354097--48355015	459	2.0	459	100	0	1838	26	20	16	35	1.94
48362218--48362273	15	3.7	15	78	7	69	12	16	12	58	1.62
48364967--48365142	46	3.8	46	75	4	174	22	20	27	29	1.98
48364963--48365135	93	1.9	93	93	0	301	22	20	28	28	1.99
48366779--48367097	137	2.3	138	89	2	489	43	5	8	42	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48369417--48369455	19	2.0	20	85	9	55	61	2	0	35	1.10
48371143--48371168	12	2.2	12	100	0	52	23	7	15	53	1.67
48373195--48373432	28	8.5	28	94	1	372	26	12	27	33	1.92
48383170--48383268	28	3.5	28	88	1	135	29	13	25	32	1.93
48387664--48387813	67	2.2	67	81	8	171	32	17	28	21	1.96
48387688--48387871	67	2.8	64	77	8	194	29	17	29	22	1.97
48391438--48391524	27	3.3	27	85	1	104	18	24	20	36	1.95
48391477--48391557	26	3.1	26	87	0	108	20	22	20	35	1.96
48395482--48395523	18	2.3	18	80	8	50	11	21	40	26	1.88
48395815--48395882	27	2.5	27	80	0	73	19	23	20	36	1.95
48395861--48395928	26	2.6	26	84	9	93	19	19	26	35	1.95
48399069--48399148	42	1.9	42	86	0	115	28	21	18	31	1.97
48399523--48399592	27	2.6	27	84	4	79	35	17	18	28	1.93
48399707--48399766	27	2.2	27	87	0	84	21	25	15	38	1.92
48399745--48399825	26	3.1	26	77	10	85	24	18	22	34	1.96
48399718--48399825	52	2.1	53	82	5	130	24	19	20	36	1.95
48400982--48401015	18	1.9	18	88	5	52	29	17	11	41	1.85
48402027--48402122	29	3.3	29	84	5	115	29	28	14	28	1.95
48403034--48403093	29	2.0	30	90	3	95	36	10	30	23	1.87
48408505--48408538	18	1.9	18	88	5	52	35	17	5	41	1.74
48409552--48409646	29	3.3	29	86	1	138	29	32	14	23	1.94
48409859--48409890	16	2.0	16	100	0	64	6	25	25	43	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48413860--48414167	40	7.7	40	97	0	562	22	27	20	30	1.98
48427163--48427277	29	4.0	29	83	6	128	26	29	16	26	1.97
48431155--48431229	39	1.9	39	91	0	123	32	30	16	21	1.95
48431657--48431769	29	4.0	29	82	6	124	29	28	15	27	1.96
48431980--48432022	8	5.4	8	80	0	50	11	23	23	41	1.87
48431980--48432018	16	2.4	16	91	8	62	10	25	25	38	1.87
48434387--48434448	27	2.3	27	82	0	79	30	20	19	29	1.97
48434430--48434543	27	4.2	27	89	0	165	39	20	9	30	1.84
48434430--48434543	54	2.1	54	91	0	183	39	20	9	30	1.84
48434430--48434597	54	3.1	53	84	1	174	39	22	8	29	1.83
48434430--48434598	27	6.3	27	80	5	153	39	23	8	28	1.83
48434619--48434838	27	8.1	27	90	3	329	34	18	20	26	1.96
48435699--48435752	6	8.8	6	84	11	74	14	18	14	51	1.76
48435652--48435716	25	2.6	25	85	9	80	20	15	15	49	1.80
48435677--48435750	37	2.0	37	91	0	121	16	17	14	51	1.77
48437599--48437705	27	4.0	27	88	0	151	33	19	20	26	1.97
48437600--48438102	54	9.3	54	74	8	342	35	18	17	29	1.93
48437691--48437786	27	3.6	27	86	0	129	41	19	8	30	1.81
48437691--48437832	27	5.3	27	80	1	124	38	20	9	30	1.85
48437853--48438102	27	9.2	27	85	0	302	36	16	20	27	1.94
48437853--48438089	82	2.9	80	86	3	321	35	16	19	27	1.94
48437853--48438102	109	2.3	108	88	0	347	36	16	20	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48438491--48438546	22	2.5	22	75	11	60	21	25	19	33	1.97
48438770--48438843	6	12.0	6	72	16	62	18	18	14	47	1.83
48438770--48438852	25	2.9	30	72	20	86	19	20	14	45	1.85
48438770--48438837	25	2.7	25	88	0	100	19	19	14	47	1.83
48438770--48438867	31	3.4	30	82	10	116	19	18	13	48	1.80
48439712--48439751	19	2.1	19	100	0	80	47	20	20	12	1.81
48442227--48442259	11	3.0	11	90	0	57	18	6	9	66	1.40
48448672--48448747	20	3.8	19	75	13	64	18	27	15	38	1.91
48450540--48450637	22	4.3	22	69	22	60	38	21	16	23	1.92
48453872--48453954	31	2.7	31	83	10	100	27	25	15	31	1.96
48454174--48454243	25	2.8	25	93	0	113	24	22	25	27	2.00
48458510--48458592	31	2.7	31	83	10	100	27	25	15	31	1.96
48458813--48458882	25	2.8	25	93	0	113	24	22	25	27	2.00
48459787--48459916	27	4.7	27	76	11	111	30	6	20	43	1.75
48459780--48459949	54	3.1	54	82	4	171	32	8	18	40	1.81
48459845--48459969	27	4.7	25	81	8	117	28	8	22	41	1.82
48459871--48459972	27	3.8	27	79	8	118	28	8	22	40	1.84
48459845--48459969	54	2.3	54	86	2	162	28	8	22	41	1.82
48459867--48460009	27	5.3	26	72	14	103	28	11	22	37	1.90
48460001--48460143	27	5.3	27	80	7	166	38	7	23	30	1.83
48460001--48460137	54	2.5	54	90	0	211	39	7	22	30	1.81
48460156--48460293	27	5.1	27	78	6	138	30	12	18	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48460123--48460299	80	2.2	80	88	3	257	31	12	19	36	1.89
48460156--48460293	54	2.6	53	77	10	156	30	12	18	38	1.88
48462551--48462629	31	2.5	31	100	0	158	26	26	18	27	1.98
48462653--48462744	42	2.2	42	92	0	148	34	21	14	29	1.93
48462890--48462959	25	2.8	25	93	0	113	24	22	25	27	2.00
48462990--48463572	284	2.0	294	91	4	945	33	21	12	32	1.90
48464107--48464309	54	3.8	53	80	6	194	30	9	20	39	1.85
48464107--48464284	27	6.6	27	81	2	196	30	8	20	40	1.82
48464316--48464458	27	5.3	27	84	7	184	39	6	24	29	1.81
48464316--48464452	54	2.5	54	91	0	220	40	6	23	29	1.80

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