genome.fa.s4.2.7.7.80.10.50.1000.107.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  107  of  235  ( 28198 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)
36820916--36820954	17	2.5	15	80	15	51	76	0	17	5	0.96
36820916--36820954	16	2.4	16	84	12	53	76	0	17	5	0.96
36824346--36824455	42	2.6	42	80	0	130	23	27	27	21	1.99
36834997--36835235	131	1.8	131	82	1	309	33	16	13	36	1.88
36835209--36835278	36	1.9	36	91	0	113	34	12	14	38	1.84
36835060--36835409	167	2.1	167	84	3	454	34	15	13	36	1.86
36835228--36835573	131	2.6	131	83	1	381	34	14	13	37	1.85
36837918--36837959	20	2.0	21	90	4	68	50	0	19	30	1.48
36838643--36838756	33	3.5	33	76	10	108	32	9	22	35	1.87
36838654--36838756	32	3.2	33	79	5	111	32	8	23	35	1.85
36849761--36849808	3	16.0	3	100	0	96	66	0	0	33	0.92
36850110--36850184	19	4.0	20	70	15	52	53	1	2	42	1.23
36852357--36852393	18	2.1	19	90	10	60	48	0	13	37	1.43
36854467--36854542	24	3.2	24	77	3	73	38	15	25	21	1.92
36862244--36862281	17	2.2	17	100	0	76	34	26	7	31	1.85
36872269--36872321	24	2.2	24	86	3	72	35	24	22	16	1.95
36876576--36876821	27	9.1	27	89	0	339	33	19	21	24	1.97
36889511--36889544	4	8.2	4	87	6	50	73	0	2	23	0.97
36890221--36890246	12	2.2	12	100	0	52	23	0	0	76	0.78
36892946--36892989	22	2.1	21	83	8	54	50	6	0	43	1.29
36893512--36893571	18	3.3	18	71	19	52	33	5	0	61	1.17
36893507--36893598	37	2.5	37	78	16	102	31	6	1	60	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36893507--36893705	19	10.3	18	69	23	70	31	6	2	60	1.32
36900645--36900711	33	2.0	33	100	0	134	46	17	11	23	1.82
36907418--36907455	19	2.1	18	85	9	51	63	0	0	36	0.95
36907556--36907605	26	2.0	25	84	11	66	50	6	0	44	1.26
36916577--36916633	25	2.3	25	78	0	60	19	21	17	42	1.90
36916659--36916722	25	2.6	25	79	0	74	25	26	15	32	1.95
36919533--36919634	43	2.4	43	83	6	118	35	4	12	47	1.63
36920117--36920159	6	7.0	6	84	5	50	30	6	2	60	1.35
36925108--36925330	39	5.7	40	83	8	248	26	21	26	25	2.00
36925108--36925336	79	2.9	81	81	9	267	26	21	27	24	1.99
36925108--36925363	79	3.3	77	79	11	213	26	21	26	24	1.99
36926874--36926908	15	2.2	16	90	5	54	5	45	0	48	1.26
36942293--36942568	26	10.4	27	78	10	268	39	20	9	30	1.84
36942293--36942578	27	10.8	27	79	9	286	39	21	9	30	1.84
36942293--36942566	53	5.2	53	78	11	287	39	20	9	31	1.83
36942318--36942628	133	2.3	132	79	10	330	38	20	10	29	1.87
36942478--36942628	27	5.7	26	78	5	90	38	21	11	27	1.89
36942786--36942870	27	3.2	27	80	6	86	20	22	23	34	1.97
36953208--36953451	48	5.1	48	75	11	232	26	19	26	27	1.99
36956002--36956055	17	3.1	17	78	10	56	50	7	18	24	1.72
36956859--36956898	16	2.4	16	87	4	53	0	20	5	75	0.99
36959538--36959567	14	2.1	14	93	0	51	20	16	30	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36968002--36968080	37	2.1	37	90	0	122	25	31	18	24	1.98
36968199--36968609	47	8.7	47	97	0	750	29	30	8	32	1.86
36969748--36969789	18	2.3	18	100	0	84	42	19	4	33	1.72
36975515--36975639	63	2.0	63	96	0	232	32	10	13	43	1.78
36977293--36977641	85	4.1	85	99	0	680	27	26	7	38	1.83
36978111--36978153	19	2.3	19	100	0	86	48	16	4	30	1.66
36981244--36981381	57	2.4	58	83	6	165	33	21	15	29	1.94
36988947--36989119	45	3.8	45	80	3	168	41	18	18	21	1.90
36989082--36989230	46	3.3	46	85	2	194	47	16	18	17	1.83
36990604--36990642	18	2.2	18	100	0	78	10	0	28	61	1.28
36990610--36990651	18	2.3	18	87	0	57	16	2	26	54	1.54
36993734--36993801	28	2.4	27	81	11	84	30	2	8	57	1.44
36995151--36995175	6	4.2	6	100	0	50	0	52	16	32	1.44
36995194--36995235	6	6.8	6	84	12	50	78	0	21	0	0.75
36995199--36995234	14	2.6	13	91	8	54	80	0	19	0	0.71
36995194--36995234	20	2.1	19	95	4	73	80	0	19	0	0.71
37003948--37004036	46	1.9	46	83	0	115	30	29	20	20	1.97
37008580--37008732	77	2.0	77	97	0	288	29	30	13	26	1.94
37011139--37011498	46	7.8	46	91	5	575	30	28	20	21	1.98
37030940--37031107	46	3.6	47	77	11	150	25	29	17	27	1.97
37038573--37038742	46	3.7	46	72	17	154	21	21	29	28	1.98
37038570--37038740	93	1.8	93	88	2	263	21	21	29	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37046161--37046331	93	1.8	93	92	0	288	21	21	28	28	1.99
37046165--37046336	46	3.7	45	78	13	188	22	21	27	28	1.99
37047713--37047835	46	2.7	44	83	9	142	26	30	17	26	1.98
37052400--37052722	160	2.0	160	100	0	646	32	8	21	38	1.83
37052706--37052867	48	3.4	48	87	0	234	35	5	26	32	1.80
37053098--37053315	48	4.5	48	90	0	337	34	6	27	30	1.83
37053087--37053315	96	2.4	96	97	0	431	34	6	27	31	1.82
37061712--37061806	48	2.0	47	89	0	136	40	20	3	35	1.68
37063661--37063824	80	2.0	80	97	0	310	31	21	15	30	1.95
37065499--37065618	43	2.8	42	77	7	134	29	25	15	30	1.95
37068559--37068932	48	7.8	48	96	0	658	31	27	6	34	1.82
37074897--37075016	43	2.8	41	76	16	136	27	25	16	30	1.97
37078024--37078049	13	2.0	13	100	0	52	15	30	7	46	1.74
37080227--37080302	38	2.0	38	97	0	143	30	14	23	31	1.94
37081491--37081635	40	3.6	40	85	4	193	25	24	26	23	2.00
37088927--37090112	49	24.6	49	96	1	2111	32	8	29	30	1.86
37110182--37110238	29	2.0	29	100	0	114	24	10	21	43	1.83
37115126--37115202	21	3.7	21	91	0	109	14	31	35	19	1.92
37116945--37117015	37	1.9	37	82	5	90	19	14	29	36	1.91
37121618--37121663	24	1.9	24	82	8	58	41	4	30	23	1.74
37126333--37126423	47	1.9	48	88	2	139	20	17	26	35	1.95
37127370--37127479	55	2.0	55	98	0	211	38	9	13	39	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37130748--37130801	27	2.0	27	85	7	74	29	20	18	31	1.96
37130954--37131003	26	1.9	26	91	0	82	18	20	24	38	1.93
37130968--37131032	26	2.5	26	87	0	85	20	18	26	35	1.95
37133420--37133473	29	1.9	29	88	7	85	20	1	29	48	1.60
37133816--37133874	26	2.3	25	80	8	66	49	0	22	28	1.50
37135903--37135966	29	2.1	31	83	11	80	35	0	3	60	1.12
37135944--37135968	8	3.1	8	100	0	50	24	0	0	76	0.80
37138082--37138241	72	2.2	72	100	0	320	9	30	8	51	1.64
37139493--37139568	26	2.9	26	92	0	125	18	15	28	36	1.92
37140762--37140863	52	2.0	52	90	0	159	18	35	21	24	1.96
37154907--37154935	15	1.9	15	100	0	58	48	27	13	10	1.75
37156526--37156551	13	2.0	13	100	0	52	23	7	23	46	1.78
37170701--37170726	2	13.0	2	100	0	52	50	0	50	0	1.00
37175223--37175265	22	2.0	22	81	9	52	32	2	18	46	1.62
37183195--37183317	38	3.3	38	91	1	194	22	28	22	26	1.99
37187411--37187457	19	2.5	19	86	6	60	27	19	8	44	1.79
37190249--37190275	6	4.5	6	100	0	54	55	14	29	0	1.40
37190277--37190305	8	3.6	8	100	0	58	79	20	0	0	0.74
37190276--37190315	8	4.7	9	90	6	57	82	17	0	0	0.67
37191459--37191585	66	1.9	66	95	0	227	33	20	11	35	1.88
37191649--37192634	43	22.6	43	74	9	535	35	21	22	20	1.96
37191690--37192154	129	3.6	129	81	6	605	34	21	24	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37191638--37192241	261	2.3	261	93	1	1025	35	22	22	19	1.96
37192048--37192418	175	2.1	177	88	4	556	36	22	21	19	1.95
37192172--37192550	132	2.9	132	93	0	632	36	23	19	19	1.95
37191638--37192634	175	5.7	174	73	9	554	35	21	22	20	1.96
37192129--37192653	132	4.0	131	84	4	507	36	22	20	21	1.95
37191647--37192650	87	11.5	86	71	10	502	35	21	22	20	1.96
37192663--37192853	68	2.8	68	91	1	294	29	22	22	25	1.99
37192965--37193868	44	20.6	44	94	1	1557	31	20	23	25	1.98
37192906--37193924	88	11.6	88	90	4	473	31	20	23	25	1.98
37194263--37194304	22	1.9	22	85	9	59	23	52	9	14	1.71

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