genome.fa.s10.2.7.7.80.10.50.1000.101.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_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   

This is table  101  of  172  ( 20562 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)
34012144--34012225	30	2.7	30	81	9	87	10	21	2	64	1.37
34012176--34012231	18	3.1	18	76	5	51	7	19	3	69	1.27
34012201--34012225	12	2.1	12	100	0	50	8	16	0	76	1.02
34012296--34012356	16	3.9	15	75	14	61	8	14	0	77	0.99
34012294--34012339	15	3.1	14	84	12	56	6	17	0	76	1.00
34012294--34012363	31	2.3	31	85	9	90	8	17	0	74	1.06
34012311--34012362	9	5.1	10	76	19	54	9	15	0	75	1.05
34012312--34012361	21	2.4	20	83	12	57	6	16	0	78	0.95
34013282--34013329	11	3.8	12	81	13	53	16	4	8	70	1.27
34013294--34013327	12	2.8	12	100	0	68	17	0	5	76	0.98
34016300--34016332	11	3.1	11	86	8	50	51	18	0	30	1.46
34016683--34016712	15	1.9	16	93	6	53	60	3	0	36	1.14
34017428--34017476	24	2.0	24	100	0	98	32	24	14	28	1.94
34018343--34018376	15	2.3	15	89	0	50	11	17	0	70	1.16
34019258--34019311	22	2.4	22	81	3	63	12	14	3	68	1.34
34019366--34019400	17	2.1	17	88	0	52	8	2	0	88	0.61
34020097--34020146	21	2.2	21	82	10	55	46	18	12	24	1.82
34025574--34025618	20	2.2	20	88	0	63	22	31	17	28	1.97
34028032--34028166	56	2.4	56	91	2	209	28	20	22	28	1.98
34028035--34028195	56	2.9	56	85	9	190	27	19	23	29	1.98
34033348--34033428	39	2.1	39	92	0	135	48	14	8	28	1.74
34033960--34034030	36	2.1	34	82	12	83	8	21	1	69	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34034536--34034659	63	2.0	63	81	9	146	32	25	16	25	1.96
34035233--34035291	29	2.0	29	87	6	84	28	15	32	23	1.95
34038599--34038670	34	2.1	35	84	7	94	41	11	26	20	1.86
34042558--34042651	26	3.7	25	87	5	84	28	24	22	24	1.99
34042576--34042653	26	3.0	26	92	1	122	25	24	21	28	1.99
34042582--34042666	26	3.4	25	88	6	111	28	22	22	27	1.99
34050430--34050475	24	1.9	24	86	0	65	32	23	15	28	1.95
34050506--34050551	9	4.7	10	82	10	51	34	8	19	36	1.83
34050606--34050689	25	3.4	25	82	9	75	28	21	22	27	1.99
34050606--34050701	26	3.8	26	79	5	92	26	22	21	29	1.99
34050630--34050714	26	3.4	26	76	12	72	27	21	21	30	1.98
34050925--34050988	31	2.1	31	87	0	92	40	15	21	21	1.91
34052484--34052618	60	2.2	59	82	8	148	27	21	26	24	1.99
34054328--34054432	50	2.1	51	83	5	133	33	12	13	40	1.82
34060203--34060289	43	2.0	43	95	0	156	28	22	14	33	1.94
34065662--34065797	24	5.6	24	73	7	87	27	30	16	26	1.97
34065662--34065797	49	2.8	47	80	8	123	27	30	16	26	1.97
34066615--34067046	27	16.1	27	87	1	602	25	18	19	36	1.95
34066615--34067040	133	3.2	133	91	2	640	25	18	19	36	1.94
34069096--34069167	31	2.3	31	85	0	90	47	11	19	22	1.80
34069662--34069771	27	4.1	27	86	8	136	37	20	21	20	1.95
34069662--34069771	54	2.1	54	86	5	152	37	20	21	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34069995--34070589	27	22.2	27	88	1	831	24	20	19	35	1.95
34071156--34071198	20	2.2	20	82	0	50	44	2	2	51	1.27
34072067--34072233	46	3.6	46	77	13	180	29	28	20	20	1.98
34072072--34072242	93	1.8	93	88	0	261	29	29	21	20	1.98
34077229--34077337	55	2.0	55	98	0	209	19	27	21	32	1.97
34081358--34081458	37	2.8	36	83	3	114	44	15	12	26	1.83
34082317--34082368	25	2.1	25	81	0	59	25	15	44	15	1.85
34082409--34082433	3	8.3	3	100	0	50	0	0	68	32	0.90
34084427--34084465	20	2.0	20	90	10	62	23	17	12	46	1.83
34084552--34084773	40	5.5	40	78	5	205	28	17	23	30	1.97
34087495--34087536	21	2.0	21	95	0	75	28	16	33	21	1.95
34094923--34094961	14	2.8	14	88	0	51	41	10	17	30	1.83
34095506--34095566	22	2.8	22	82	7	63	49	0	0	50	1.00
34097822--34097873	18	3.1	17	79	20	56	26	1	5	65	1.26
34097823--34097878	17	3.2	18	80	17	64	25	1	5	67	1.21
34097832--34097872	16	2.5	15	88	11	55	24	0	4	70	1.06
34098061--34098105	16	2.9	16	78	15	58	62	0	0	37	0.96
34112197--34112245	25	2.0	25	91	0	80	32	16	26	24	1.96
34112303--34112348	23	2.0	23	91	0	74	34	21	26	17	1.95
34115636--34115673	17	2.2	17	95	0	67	10	21	44	23	1.83
34122701--34122824	61	2.0	62	96	1	232	58	8	0	32	1.33
34124010--34124040	10	3.2	10	90	9	55	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34124011--34124041	9	3.3	9	95	4	53	51	0	0	48	1.00
34130090--34130201	52	2.2	49	84	4	134	44	12	2	40	1.56
34130210--34130286	38	2.0	39	85	7	104	5	16	2	75	1.10
34138068--34138318	63	4.0	63	99	0	493	36	14	13	35	1.86
34139619--34139668	23	2.2	22	79	10	57	68	10	0	22	1.19
34140291--34140350	29	2.0	31	87	6	88	41	1	0	56	1.09
34140442--34140607	86	1.9	85	85	6	228	36	15	9	37	1.81
34140767--34140808	18	2.2	18	87	8	57	66	7	2	23	1.28
34140751--34140886	50	2.8	48	75	19	120	63	3	4	28	1.31
34140777--34140887	10	11.4	10	66	10	52	63	2	4	28	1.27
34140777--34140809	9	3.7	9	91	0	57	66	3	0	30	1.06
34141006--34141048	21	2.0	21	100	0	86	23	13	25	37	1.92
34143096--34143166	35	2.0	35	100	0	142	25	16	16	40	1.90
34143535--34143560	13	2.0	13	100	0	52	23	23	0	53	1.46
34148349--34148397	21	2.3	20	83	13	55	75	2	14	8	1.12
34148431--34148455	12	2.1	12	100	0	50	76	0	24	0	0.80
34158554--34158891	40	8.5	40	94	1	538	25	28	23	22	1.99
34164231--34164532	40	7.4	39	75	13	207	26	18	27	27	1.98
34164229--34164441	79	2.7	80	79	7	213	26	20	27	25	1.99
34164339--34164590	126	2.0	126	98	0	486	27	17	27	26	1.98
34169952--34170209	40	6.5	40	93	2	396	25	28	23	22	1.99
34173931--34174282	177	2.0	177	94	1	625	25	23	19	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34174124--34174752	315	2.0	315	96	0	1152	27	25	18	29	1.98
34195001--34195632	47	13.4	47	94	1	1050	32	9	29	28	1.88
34195751--34195829	37	2.1	37	88	4	115	25	18	30	25	1.98
34200725--34200772	25	1.9	25	86	0	69	33	20	14	31	1.93
34200892--34200963	26	2.8	26	80	2	74	27	22	22	27	1.99
34201183--34201261	31	2.5	31	89	0	122	31	17	27	22	1.97
34205554--34205811	42	6.1	42	82	1	311	32	22	19	25	1.98
34212686--34212937	42	6.0	42	87	1	346	34	22	19	23	1.97
34215632--34215664	13	2.6	13	90	4	50	39	0	12	48	1.40
34220996--34221088	5	17.8	5	73	22	68	19	3	1	76	0.99
34221001--34221068	6	11.2	6	76	9	66	16	4	1	77	0.99
34220995--34221069	16	4.6	16	79	15	73	17	4	1	77	0.99
34229803--34229835	13	2.6	13	90	4	50	48	12	0	39	1.40
34241244--34241524	47	6.0	47	90	0	420	32	12	29	25	1.93
34241338--34241417	25	3.3	25	66	22	71	31	10	28	30	1.89
34241695--34241838	37	3.9	37	89	0	207	22	20	30	26	1.98
34245044--34245139	47	2.0	47	97	0	183	30	15	28	26	1.96
34245220--34245395	46	3.8	46	78	10	205	22	21	28	28	1.99
34245217--34245387	93	1.8	93	92	0	288	22	21	28	27	1.99
34248321--34248376	15	3.7	15	88	7	87	12	16	10	60	1.58
34250309--34250480	46	3.7	46	76	11	172	22	19	28	29	1.98
34250302--34250473	93	1.8	93	88	2	265	22	20	27	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34253464--34253516	25	2.2	24	83	10	63	39	22	22	15	1.91
34271416--34272268	28	30.5	28	99	0	1638	32	28	14	25	1.94
34274170--34274569	200	2.0	200	94	0	701	28	23	22	25	1.99
34277585--34277729	72	2.0	72	97	0	272	17	37	20	24	1.94
34280559--34280710	27	5.6	27	93	3	241	30	28	13	26	1.94
34280559--34280710	55	2.8	55	93	0	250	30	28	13	26	1.94
34287741--34287981	121	2.0	121	99	0	473	25	25	12	37	1.90
34288710--34288914	27	7.6	27	86	3	250	30	27	15	26	1.96
34291705--34291876	47	3.7	46	79	13	181	25	19	30	25	1.98
34293597--34293691	43	2.2	43	96	0	172	22	25	33	18	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