genome.fa.s12.2.7.7.80.10.50.1000.168.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_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  91551117

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   

This is table  168  of  276  ( 33102 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)
55011222--55012451	447	2.8	446	80	3	1307	25	16	23	34	1.95
55012115--55012477	71	5.1	70	74	3	251	24	17	24	33	1.96
55012115--55012477	142	2.5	140	73	4	314	24	17	24	33	1.96
55014353--55014391	16	2.5	16	91	4	62	64	5	10	20	1.44
55014368--55014411	18	2.4	18	85	7	54	68	2	4	25	1.20
55015276--55015320	21	2.1	21	83	0	54	64	0	24	11	1.26
55015285--55015330	21	2.2	20	81	7	56	65	0	21	13	1.26
55015941--55015965	13	1.9	13	100	0	50	16	4	16	64	1.44
55016670--55016980	47	6.6	47	74	15	240	27	18	30	23	1.97
55016674--55016933	140	1.8	141	83	8	350	28	18	29	23	1.98
55021356--55021485	50	2.6	49	88	1	179	26	17	26	30	1.98
55027226--55027366	75	1.9	75	85	2	194	29	14	12	44	1.81
55032937--55033011	40	1.9	40	83	8	100	32	8	16	44	1.76
55032952--55033011	20	3.0	20	80	0	75	31	8	16	43	1.78
55033070--55033126	28	2.0	28	100	0	114	38	14	0	47	1.44
55034660--55034726	33	2.0	33	94	5	118	37	0	31	31	1.58
55038234--55038288	20	2.8	20	85	0	65	32	10	10	45	1.74
55051191--55051260	27	2.6	26	95	2	95	31	28	12	27	1.93
55051191--55051288	28	3.5	28	90	2	135	31	28	13	26	1.94
55051739--55051768	2	15.0	2	100	0	60	50	0	0	50	1.00
55058994--55059301	153	2.0	153	98	0	589	39	11	17	31	1.85
55065067--55065151	20	4.2	20	80	4	100	30	4	14	50	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55065067--55065172	40	2.6	41	80	5	126	32	4	12	50	1.60
55069423--55069464	16	2.7	15	85	7	57	71	14	7	7	1.29
55070697--55070738	13	3.1	14	83	10	52	73	4	0	21	1.01
55072876--55073216	185	1.8	185	89	1	540	43	16	12	28	1.83
55073590--55073839	123	2.0	124	85	6	339	38	6	5	49	1.51
55086433--55086565	50	2.7	50	85	1	187	29	29	17	24	1.97
55096398--55096446	25	2.0	25	87	0	71	36	22	14	26	1.92
55096486--55096562	21	3.7	20	80	1	73	33	14	15	36	1.88
55096486--55096560	11	7.1	11	76	7	66	34	14	14	36	1.87
55096491--55096546	10	5.4	10	77	8	58	33	12	17	35	1.88
55096593--55096661	25	2.8	25	86	0	93	24	21	23	30	1.99
55096618--55096690	25	3.0	25	76	13	71	27	19	21	31	1.97
55097708--55097760	26	2.0	26	92	0	88	28	13	5	52	1.62
55105586--55105700	44	2.6	44	92	0	194	26	15	23	33	1.95
55105658--55105784	56	2.3	56	88	2	193	22	13	28	36	1.92
55108824--55109049	40	5.6	41	87	5	268	27	26	20	24	1.99
55108981--55109058	40	1.9	41	82	10	97	26	28	20	24	1.99
55129882--55130084	45	4.6	45	84	7	235	28	23	22	26	1.99
55131613--55131638	13	2.0	13	100	0	52	15	0	0	84	0.62
55140380--55140414	16	2.2	16	89	0	52	51	0	2	45	1.16
55141067--55141100	14	2.3	15	90	5	52	61	0	2	35	1.11
55158566--55158618	22	2.4	22	87	0	61	52	5	1	39	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55164009--55164047	19	2.1	18	85	4	51	79	2	5	12	1.00
55165535--55165661	28	4.6	27	83	5	141	28	15	27	28	1.96
55165536--55165661	54	2.3	57	82	9	154	28	15	26	28	1.96
55168129--55168177	19	2.5	20	83	6	57	46	10	20	22	1.80
55170531--55170600	35	2.0	35	91	0	113	22	28	10	38	1.87
55174674--55174806	40	3.3	40	92	2	205	28	26	20	24	1.99
55187851--55187890	20	2.0	20	85	0	53	37	12	40	10	1.77
55194223--55194380	39	4.1	39	90	3	255	26	24	22	26	2.00
55198559--55198737	27	6.6	27	85	3	216	30	27	14	27	1.95
55198581--55198736	82	1.9	81	88	3	233	30	28	14	26	1.95
55212919--55213092	46	3.8	46	78	13	203	22	20	27	29	1.98
55212916--55213086	93	1.8	93	94	0	306	22	21	28	28	1.99
55222059--55222138	39	2.1	38	92	0	115	25	27	23	23	2.00
55227563--55227640	38	2.1	38	100	0	156	30	15	12	41	1.85
55227563--55227624	21	3.1	21	60	17	51	33	16	11	38	1.84
55232589--55232684	37	2.6	37	93	0	156	22	14	28	34	1.94
55235895--55236083	100	1.9	100	93	2	326	26	17	26	29	1.97
55235896--55236083	49	3.8	49	82	4	234	26	17	26	29	1.97
55235895--55236116	100	2.2	100	86	4	279	26	17	26	29	1.98
55236951--55237020	35	2.0	35	100	0	140	22	31	11	34	1.90
55240011--55240188	27	6.6	27	84	3	205	29	28	15	26	1.96
55240032--55240187	82	1.9	81	88	3	233	29	28	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55254689--55254885	55	3.6	54	79	4	220	23	23	17	35	1.95
55254865--55254985	47	2.6	47	93	0	197	25	23	14	37	1.92
55255122--55255208	44	2.0	44	86	4	122	24	26	13	35	1.93
55265529--55265719	46	4.2	46	89	1	258	39	15	24	20	1.91
55271607--55271635	14	2.0	15	93	6	51	51	41	0	6	1.28
55272914--55273052	69	2.0	69	100	0	278	38	12	14	34	1.84
55273146--55273193	22	2.2	22	84	0	60	47	31	2	18	1.60
55274754--55274794	11	3.7	11	83	0	55	24	0	0	75	0.80
55275618--55275679	21	2.9	21	73	2	61	12	29	24	33	1.92
55288482--55288606	47	2.7	48	83	12	154	28	19	28	23	1.98
55299435--55299517	41	2.0	41	90	0	130	27	12	12	48	1.76
55300453--55300518	33	2.0	33	100	0	132	30	27	0	42	1.56
55302739--55302826	46	1.9	46	88	0	122	27	30	22	19	1.98
55310678--55310722	23	2.0	23	86	8	65	46	2	0	51	1.13
55312111--55312162	19	2.7	19	77	8	52	65	0	0	34	0.93
55312944--55312976	3	11.0	3	100	0	66	0	33	0	66	0.92
55314336--55314411	29	2.6	29	84	14	102	43	1	0	55	1.08
55315033--55315100	28	2.5	28	90	2	111	36	7	0	55	1.28
55320332--55320365	17	1.9	18	88	5	52	20	44	23	11	1.84
55324128--55324160	17	1.9	17	100	0	66	30	30	21	18	1.97
55332209--55332384	46	3.8	46	79	12	216	20	21	29	28	1.98
55332206--55332377	93	1.8	93	96	0	317	20	21	29	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55339272--55339304	15	2.2	15	100	0	66	27	6	15	51	1.66
55340909--55340990	26	3.2	26	96	0	146	31	4	25	37	1.77
55349599--55349658	27	2.2	28	82	8	79	35	23	23	18	1.96
55349902--55350085	27	6.9	27	86	3	228	26	20	15	38	1.92
55350079--55350472	27	14.6	27	77	5	251	30	9	21	38	1.84
55350129--55350341	81	2.6	81	95	0	372	29	11	21	37	1.89
55350129--55350472	54	6.4	54	81	2	316	30	9	20	38	1.85
55350129--55350472	81	4.2	81	87	3	338	30	9	20	38	1.85
55350132--55350472	27	12.6	27	81	0	286	30	9	20	39	1.84
55352510--55352551	23	1.9	23	85	9	61	42	14	9	33	1.78
55355781--55355862	8	9.9	8	83	10	94	31	0	3	64	1.11
55355774--55355836	15	4.1	15	81	4	72	33	0	1	65	1.03
55355774--55355823	23	2.2	23	88	0	73	38	0	2	60	1.09
55355781--55355836	23	2.4	23	93	0	94	30	0	1	67	1.01
55356004--55356057	28	1.9	28	88	0	81	24	0	22	53	1.46
55356168--55356202	14	2.5	14	100	0	70	22	0	40	37	1.55
55356208--55356331	66	1.9	66	93	0	212	28	2	25	43	1.67
55356968--55357015	24	2.0	25	87	4	71	14	22	18	43	1.87
55356993--55357081	41	2.2	40	88	4	133	25	25	16	31	1.97
55358013--55358125	56	2.0	56	100	0	226	41	17	15	24	1.89
55360013--55360055	14	3.1	14	93	0	77	39	0	37	23	1.55
55360811--55360839	8	3.6	8	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55361126--55361196	21	3.3	21	94	4	115	38	39	4	18	1.70
55361470--55361676	80	2.6	78	80	4	234	28	21	17	31	1.96
55361469--55361665	40	4.9	40	74	0	187	28	22	18	29	1.97
55362238--55362373	66	2.0	67	94	1	238	38	13	10	36	1.79
55366975--55367042	33	2.1	33	97	0	127	22	8	32	36	1.85
55368034--55368064	6	5.2	6	100	0	62	32	32	16	19	1.94
55377789--55377831	18	2.4	18	84	7	52	55	6	0	37	1.27
55377925--55377966	18	2.4	17	84	7	57	73	0	9	16	1.08
55379882--55380004	45	2.8	44	77	4	86	29	20	18	31	1.96
55380012--55380653	45	14.0	44	69	14	304	28	20	17	34	1.95

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