genome.fa.s7.2.7.7.80.10.50.1000.158.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  158  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)
53897308--53897414	43	2.5	41	79	7	124	28	24	17	29	1.97
53897327--53897407	42	1.9	43	87	2	119	27	28	17	27	1.97
53915478--53915512	18	1.9	18	94	0	61	54	2	2	40	1.30
53919207--53919303	38	2.6	38	84	0	113	21	20	27	29	1.98
53919307--53919554	43	5.8	43	96	0	415	11	24	32	31	1.91
53930152--53930296	40	3.7	40	82	7	179	24	27	22	24	2.00
53931463--53931576	55	2.0	56	96	3	212	26	20	21	32	1.97
53938250--53938434	40	4.6	39	80	6	194	24	21	28	25	1.99
53938250--53938432	79	2.3	81	82	7	214	24	21	27	25	1.99
53938280--53938457	79	2.2	78	77	9	182	26	20	27	25	1.99
53940655--53940995	24	14.2	23	71	10	177	35	26	12	26	1.91
53940682--53941033	48	7.3	48	77	7	392	35	25	11	26	1.91
53941000--53941065	24	2.8	24	78	0	60	36	22	13	27	1.92
53940683--53941041	96	3.7	96	99	0	700	36	25	11	26	1.90
53944347--53944402	27	2.1	27	82	0	67	25	23	19	32	1.98
53944775--53944817	20	2.2	19	83	4	50	20	32	23	23	1.98
53946717--53946754	15	2.5	15	100	0	76	28	34	15	21	1.94
53960272--53960309	19	2.0	20	90	10	62	10	21	44	23	1.83
53961460--53961597	50	2.7	50	82	1	168	26	18	26	28	1.98
53962262--53962354	32	2.9	34	76	15	106	27	25	20	25	1.99
53971627--53971674	22	2.2	22	85	7	62	14	18	20	45	1.85
53971740--53971769	15	2.0	15	93	0	51	3	0	53	43	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53971809--53971861	28	1.9	28	92	3	90	16	22	26	33	1.96
53974710--53974998	105	2.8	105	97	0	533	24	19	27	28	1.98
53977183--53977225	15	2.9	15	80	10	52	16	13	18	51	1.77
53977184--53977231	15	3.2	14	80	11	51	16	14	14	54	1.72
53989918--53990050	48	2.8	48	88	0	194	26	18	25	30	1.98
54000265--54000299	15	2.3	15	90	0	61	34	40	22	2	1.69
54014380--54014560	40	4.6	40	87	2	249	24	24	26	24	2.00
54021203--54021244	21	2.0	21	86	4	59	42	4	21	30	1.73
54023679--54023715	18	2.1	18	100	0	74	54	16	10	18	1.71
54024020--54024148	27	4.8	27	79	3	116	36	20	17	26	1.94
54024020--54024176	54	2.9	54	78	0	170	34	18	17	29	1.94
54024137--54024253	27	4.3	27	84	7	148	17	14	22	45	1.85
54045129--54045278	43	3.6	42	79	9	180	29	14	26	30	1.94
54049757--54049851	43	2.2	43	86	0	127	26	30	20	23	1.98
54050669--54050800	70	1.9	70	90	0	210	36	21	12	30	1.90
54055370--54055431	28	2.2	29	88	2	90	29	30	12	27	1.93
54066528--54066680	42	3.7	41	81	6	173	31	15	22	30	1.95
54066528--54066665	43	3.3	42	85	4	154	32	16	21	28	1.95
54069248--54069354	29	3.7	29	86	3	128	25	14	32	27	1.95
54069244--54069354	58	1.9	57	85	5	152	26	14	32	27	1.95
54075738--54075900	81	2.0	81	97	0	308	34	24	12	27	1.92
54080352--54080411	27	2.2	27	82	14	79	18	16	21	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54089109--54089216	54	2.0	54	98	0	207	36	12	13	37	1.84
54090836--54091224	214	1.8	214	97	0	742	31	13	16	38	1.88
54092941--54092994	27	2.0	27	85	0	72	38	14	7	38	1.75
54093982--54094014	11	2.8	12	90	9	50	36	15	12	36	1.84
54095429--54095472	15	2.9	15	89	0	70	56	13	13	15	1.67
54095817--54095993	43	4.1	42	88	0	174	32	28	16	22	1.96
54100677--54100752	29	2.6	29	81	8	100	27	15	27	28	1.96
54103687--54103910	41	5.5	41	77	3	193	25	21	16	36	1.94
54103687--54103910	122	1.8	122	79	1	261	25	21	16	36	1.94
54104296--54104495	41	4.9	41	79	1	206	22	20	18	38	1.93
54104296--54104519	122	1.8	122	81	1	279	23	21	17	37	1.94
54108588--54108642	28	2.0	28	85	7	76	27	34	14	23	1.94
54108863--54108895	16	2.1	16	94	0	57	12	21	21	45	1.84
54114834--54115009	46	3.8	46	79	12	216	21	21	28	28	1.98
54114831--54115001	93	1.8	93	94	0	306	21	22	29	27	1.99
54117934--54118002	15	4.6	15	83	0	84	11	17	13	57	1.64
54117925--54118012	30	3.0	30	81	8	99	10	17	15	56	1.66
54120404--54120579	46	3.8	45	81	10	212	21	21	29	28	1.98
54120401--54120571	93	1.8	93	94	0	306	21	21	29	27	1.98
54125392--54125428	13	2.8	13	95	0	65	13	29	40	16	1.86
54127557--54127631	28	2.7	28	83	6	107	29	32	13	25	1.93
54127847--54127880	16	2.1	16	94	0	59	8	11	26	52	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54129767--54129820	27	2.0	27	85	0	72	38	14	5	40	1.70
54139093--54139356	40	6.7	40	89	5	360	25	21	27	25	1.99
54139093--54139389	119	2.5	118	81	9	338	26	21	27	25	1.99
54158997--54159029	16	1.9	18	88	11	52	24	15	12	48	1.78
54162980--54163094	42	2.7	43	80	10	119	23	20	29	26	1.98
54163195--54163224	15	1.9	16	93	6	53	46	0	16	36	1.47
54164487--54164516	9	3.3	9	100	0	60	53	20	0	26	1.46
54165706--54165937	49	4.7	48	80	6	266	30	27	17	25	1.97
54165701--54165944	100	2.5	98	82	5	294	29	27	17	25	1.97
54168708--54168757	15	3.3	15	83	8	57	58	18	10	14	1.63
54172241--54172300	30	2.0	30	86	0	84	23	28	10	38	1.87
54174003--54174226	40	5.5	39	84	9	258	27	26	21	24	1.99
54174003--54174226	83	2.8	80	87	6	294	27	26	21	24	1.99
54175756--54175831	38	2.0	38	100	0	152	31	13	23	31	1.93
54177019--54177163	40	3.6	40	85	4	193	25	24	26	23	2.00
54177136--54177256	61	2.0	61	98	0	233	23	27	26	22	2.00
54192516--54192547	11	2.9	11	95	0	55	3	18	21	56	1.56
54199724--54199788	33	2.0	32	93	0	103	33	21	16	26	1.95
54201347--54201401	25	2.2	26	86	3	76	36	20	3	40	1.70
54201583--54201610	14	2.0	14	100	0	56	35	42	14	7	1.73
54202902--54202947	22	2.1	22	84	11	60	47	6	4	41	1.49
54206073--54206106	10	3.4	10	91	0	59	20	11	0	67	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54213542--54213569	5	5.6	5	100	0	56	17	0	0	82	0.68
54214797--54214821	13	1.9	13	100	0	50	8	44	32	16	1.76
54216755--54216779	6	4.2	6	100	0	50	80	0	0	20	0.72
54223047--54223093	6	7.5	6	90	9	76	80	2	0	17	0.80
54223047--54223096	26	2.0	25	92	4	82	80	2	0	18	0.82
54223120--54223162	9	4.8	9	94	0	77	25	9	18	46	1.79
54227974--54227999	12	2.2	12	100	0	52	34	15	23	26	1.94
54229485--54229615	63	2.1	63	82	0	154	25	23	27	23	2.00
54232671--54232717	21	2.3	21	82	10	53	44	21	8	25	1.80
54234670--54234831	43	3.8	43	78	8	168	23	15	27	33	1.95
54250720--54250908	68	2.8	68	83	0	236	43	13	11	31	1.80
54250720--54250908	34	5.6	34	79	1	209	43	13	11	31	1.80
54251802--54251851	19	2.5	21	75	15	52	70	0	10	20	1.16
54253588--54253678	47	2.0	46	93	2	155	54	8	7	28	1.58
54254258--54254284	5	5.4	5	100	0	54	81	0	0	18	0.69
54255279--54255369	30	3.0	29	73	19	80	30	8	3	57	1.46
54259574--54259609	18	2.0	18	94	0	63	16	16	30	36	1.91
54263589--54263628	6	6.3	6	83	11	53	77	2	5	15	1.04
54263609--54263675	17	4.0	17	79	11	59	71	0	2	25	1.00
54267646--54267680	17	2.1	17	88	0	52	48	5	17	28	1.69
54272475--54272505	16	1.9	16	93	0	53	9	9	9	70	1.33
54275243--54275278	4	9.0	4	100	0	72	25	0	25	50	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54276809--54276920	37	3.2	37	68	20	105	41	3	1	53	1.29
54279194--54279398	45	4.6	43	82	10	209	22	17	15	45	1.85
54279196--54279398	89	2.3	90	84	9	272	22	16	14	45	1.84
54281423--54281464	22	1.9	22	90	0	66	30	4	0	64	1.14
54281427--54281459	17	1.9	17	93	0	57	30	6	0	63	1.18
54284633--54284679	22	2.2	21	84	3	58	36	21	8	34	1.84
54284650--54284728	19	4.2	19	90	9	126	35	16	10	37	1.82
54284650--54284722	36	2.0	38	94	5	132	35	15	10	38	1.82
54284651--54284738	36	2.4	35	85	14	117	35	15	10	38	1.82
54285469--54285570	44	2.3	44	86	1	143	27	19	21	31	1.97

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