genome.fa.s7.2.7.7.80.10.50.1000.139.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   

This is table  139  of  290  ( 34714 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)
47210232--47210272	21	2.0	21	90	0	64	29	21	29	19	1.98
47215943--47215974	9	3.6	9	95	0	55	59	0	6	34	1.23
47224244--47224286	14	2.9	15	80	13	54	34	2	2	60	1.22
47224372--47224427	28	2.0	28	86	6	78	53	7	0	39	1.28
47224558--47224629	34	2.0	38	86	13	107	47	1	0	51	1.09
47224666--47224705	21	2.0	20	85	5	53	57	5	0	37	1.21
47224924--47224972	19	2.6	19	86	0	71	32	10	4	53	1.54
47226103--47226144	13	2.9	14	82	13	50	42	0	2	54	1.13
47226155--47226197	22	2.0	21	81	4	50	53	0	0	46	1.00
47227221--47227254	14	2.5	13	86	9	50	47	0	8	44	1.34
47228560--47228710	75	2.0	75	94	2	268	24	24	16	34	1.95
47238555--47238618	33	2.0	33	84	9	87	28	26	20	25	1.99
47238935--47238991	26	2.2	26	80	3	60	26	17	19	36	1.94
47246278--47246334	26	2.2	26	81	9	62	28	19	17	35	1.94
47249246--47249300	20	2.8	20	88	0	83	41	12	10	34	1.78
47250921--47250951	16	1.9	16	93	0	53	19	12	3	64	1.41
47258554--47258601	24	2.0	24	100	0	96	25	12	37	25	1.91
47258556--47258608	24	2.2	24	93	0	88	33	11	33	20	1.88
47269352--47269377	13	2.0	13	100	0	52	23	30	23	23	1.99
47270303--47270665	47	7.7	47	71	14	207	22	30	20	26	1.99
47270304--47270662	94	3.8	93	77	8	286	22	30	20	27	1.98
47277944--47278305	47	7.7	45	73	15	256	22	27	21	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47277945--47278302	94	3.8	93	80	9	381	22	27	21	28	1.99
47280387--47280487	27	3.7	27	81	0	112	27	9	24	37	1.87
47284318--47284572	55	4.8	54	80	9	278	36	17	25	21	1.95
47284325--47284525	108	1.8	110	90	4	327	34	17	25	22	1.96
47284764--47284794	16	1.9	16	93	0	53	41	0	22	35	1.54
47289260--47289313	25	2.2	25	86	0	72	37	18	18	25	1.94
47293846--47293892	23	2.0	23	100	0	94	38	12	17	31	1.87
47311142--47311199	29	2.0	29	96	0	107	31	15	13	39	1.86
47312370--47312431	28	2.3	27	83	8	72	32	3	24	40	1.71
47324008--47324092	40	2.1	40	88	0	125	23	18	8	49	1.74
47329587--47329633	14	3.5	13	82	5	58	21	2	27	48	1.61
47329594--47329690	45	2.1	45	90	1	149	20	5	21	52	1.66
47329904--47329936	14	2.2	16	89	10	52	15	18	3	63	1.43
47330507--47330620	56	2.0	56	89	0	174	28	8	12	50	1.69
47335197--47335233	13	2.8	13	91	0	56	24	8	8	59	1.53
47337328--47337352	11	2.3	11	100	0	50	0	20	0	80	0.72
47343728--47343782	23	2.3	23	81	6	56	52	5	7	34	1.52
47343785--47343826	21	2.0	21	86	4	59	23	2	7	66	1.28
47348709--47348777	34	2.0	34	97	0	129	27	8	10	53	1.64
47353404--47353458	26	2.1	26	89	3	83	41	7	7	43	1.60
47354878--47354921	22	2.0	22	90	0	70	34	11	25	29	1.91
47357964--47358032	16	4.2	16	96	3	129	24	0	37	37	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47357964--47358032	33	2.1	32	97	2	129	24	0	37	37	1.56
47358013--47358126	45	2.6	45	80	10	114	31	6	27	35	1.81
47358268--47358302	18	2.0	17	88	5	52	54	0	0	45	0.99
47358251--47358759	120	4.2	120	98	0	975	48	5	2	44	1.37
47358508--47358542	18	2.0	17	88	5	52	54	0	0	45	0.99
47358628--47358662	18	2.0	17	88	5	52	54	0	0	45	0.99
47367231--47367265	9	4.0	9	92	7	63	65	0	0	34	0.93
47367231--47367265	17	2.0	17	94	5	61	65	0	0	34	0.93
47373922--47373981	30	2.0	30	93	0	102	58	15	1	25	1.46
47374586--47374636	26	2.0	26	92	0	84	43	21	3	31	1.71
47379907--47380044	66	2.1	66	88	0	213	17	26	19	36	1.94
47381788--47381846	27	2.2	27	96	0	109	38	6	10	44	1.65
47382171--47382195	2	12.5	2	100	0	50	0	48	0	52	1.00
47382725--47382759	10	3.5	10	88	11	54	40	0	5	54	1.24
47384545--47384647	48	2.1	48	80	8	120	8	49	0	40	1.40
47385521--47385589	30	2.3	30	87	0	93	31	14	26	27	1.95
47389700--47389753	26	2.1	26	96	0	99	46	20	0	33	1.51
47392275--47392459	40	4.7	40	83	5	205	24	20	27	28	1.99
47400198--47400407	40	5.3	39	89	4	242	25	21	27	25	1.99
47400145--47400407	120	2.2	120	82	4	309	25	21	27	25	1.99
47400146--47400442	80	3.7	80	81	6	230	26	21	27	24	1.99
47401212--47402278	547	2.0	545	89	2	1658	35	14	21	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47402783--47403051	48	5.6	47	82	3	288	26	17	30	25	1.98
47402770--47403056	144	2.0	144	84	4	373	25	17	30	26	1.98
47402783--47403056	96	2.9	95	83	3	327	26	17	30	25	1.98
47411158--47411333	46	3.8	46	79	12	216	20	21	29	28	1.98
47411155--47411326	93	1.8	93	96	0	317	20	21	29	27	1.98
47413283--47413604	48	6.7	48	75	7	267	26	19	29	23	1.99
47413273--47413606	144	2.3	143	80	6	370	26	19	29	24	1.98
47416458--47416556	39	2.6	38	88	1	135	14	22	23	40	1.90
47416470--47416556	38	2.3	39	85	2	113	13	21	22	41	1.89
47428312--47428546	27	8.5	28	85	4	230	30	28	14	26	1.95
47428312--47428546	56	4.3	55	81	4	249	30	28	14	26	1.95
47430493--47430534	20	2.1	20	86	8	59	30	7	4	57	1.47
47434159--47434185	9	3.0	9	100	0	54	11	22	0	66	1.22
47434183--47434225	9	4.8	9	79	0	50	4	32	0	62	1.15
47444211--47444373	43	3.8	43	81	11	174	23	15	26	33	1.95
47451316--47451366	27	1.9	26	88	4	75	31	7	19	41	1.80
47457852--47457960	43	2.6	42	79	7	114	25	18	24	31	1.98
47464880--47464927	23	2.1	23	100	0	96	29	29	12	29	1.93
47477788--47477882	41	2.3	41	90	0	145	23	18	28	29	1.98
47480605--47480700	40	2.5	38	78	9	95	34	37	12	15	1.85
47487292--47487318	13	2.1	13	100	0	54	29	14	14	40	1.86
47489488--47489533	17	2.7	17	80	6	58	19	19	21	39	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47492588--47492634	24	2.0	24	100	0	94	34	19	21	25	1.96
47499121--47499249	46	2.8	46	92	0	213	20	20	28	31	1.97
47502537--47502606	34	2.1	34	91	0	113	31	38	10	20	1.85
47506378--47506460	24	3.4	24	86	6	105	26	24	21	27	1.99
47506505--47506543	10	3.8	10	93	6	69	30	17	17	33	1.94
47506505--47506544	21	1.9	21	100	0	80	30	17	17	35	1.93
47513305--47513390	31	2.7	31	81	3	91	56	20	6	15	1.61
47513623--47513684	21	3.0	21	82	0	79	6	43	16	33	1.73
47514109--47514137	13	2.1	14	93	6	51	55	10	0	34	1.34
47519265--47519473	9	24.1	9	72	11	116	34	0	17	46	1.55
47519354--47519421	33	2.1	33	85	0	91	32	2	11	52	1.53
47519274--47519487	42	5.0	43	83	5	220	34	0	16	47	1.53
47523505--47523536	15	2.1	15	94	0	55	28	6	0	65	1.16
47524219--47524262	22	2.0	23	86	8	65	47	25	2	25	1.63
47524367--47524607	75	3.1	75	65	16	186	26	26	17	30	1.97
47524312--47524780	155	3.0	154	88	2	692	26	23	18	31	1.97
47527176--47527235	28	2.2	26	77	11	66	26	26	11	35	1.91
47527190--47527261	28	2.6	28	88	0	99	29	27	12	30	1.93
47531120--47531402	143	2.0	143	97	1	485	34	20	6	37	1.79
47534040--47534085	23	2.0	23	100	0	92	13	13	17	56	1.67
47549413--47549633	47	4.7	49	75	8	158	22	27	19	31	1.98
47549465--47549675	46	4.5	45	75	9	183	20	28	20	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47549508--47549678	94	1.8	92	82	7	220	20	28	21	29	1.98
47551587--47551629	14	3.0	14	80	6	50	48	4	9	37	1.56
47551622--47551662	21	2.0	21	85	0	55	46	9	9	34	1.70
47555839--47555968	63	2.0	64	88	4	192	50	6	16	26	1.68
47569186--47569350	43	3.9	42	75	10	147	31	24	18	26	1.97
47569186--47569342	86	1.8	85	81	6	192	31	24	18	26	1.98
47571400--47571461	30	2.1	30	96	0	115	41	8	16	33	1.77
47573387--47573439	18	2.9	18	77	0	61	45	15	15	24	1.84
47573769--47573982	27	8.0	27	77	7	202	40	19	13	26	1.89
47573775--47573982	80	2.6	80	80	5	231	40	19	12	26	1.88

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