genome.fa.s10.2.7.7.80.10.50.1000.123.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  123  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)
41048286--41048333	15	2.9	16	84	9	62	35	25	4	35	1.75
41048405--41048450	23	2.0	24	86	4	67	45	21	10	21	1.82
41049412--41049453	22	1.9	22	90	0	66	40	4	11	42	1.63
41060537--41060799	40	6.6	40	88	3	325	24	20	27	26	1.99
41060576--41060834	80	3.3	80	85	3	256	25	20	27	25	1.99
41068489--41068751	40	6.6	40	88	3	325	24	20	27	26	1.99
41068528--41068786	80	3.3	80	85	3	256	25	20	27	25	1.99
41070598--41070732	48	2.9	48	85	6	172	22	31	22	24	1.99
41070652--41070827	46	3.8	46	77	8	171	23	31	18	26	1.97
41071174--41071234	30	2.1	30	81	3	70	37	19	11	31	1.87
41078228--41078442	48	4.6	46	78	12	158	24	28	18	27	1.98
41078368--41078542	46	3.8	44	81	11	165	23	29	18	28	1.98
41090431--41090612	40	4.6	40	84	4	217	25	22	25	26	2.00
41094538--41094632	29	3.3	28	85	7	120	25	33	14	26	1.94
41094563--41094650	29	3.0	29	86	0	104	27	30	15	26	1.96
41094866--41094908	16	2.7	16	88	0	68	6	16	20	55	1.64
41101781--41101823	16	2.7	16	96	0	77	11	20	16	51	1.75
41103062--41103093	16	2.0	16	100	0	64	18	6	25	50	1.70
41111380--41111493	44	2.5	46	76	9	117	47	28	0	22	1.57
41112271--41112372	7	14.3	7	79	14	95	59	0	0	40	0.97
41112265--41112345	15	5.4	15	82	10	67	66	0	0	33	0.92
41112272--41112343	8	9.5	8	88	8	98	63	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41112324--41112358	18	1.9	18	88	0	52	71	0	0	28	0.86
41112422--41112461	18	2.2	18	86	0	53	80	0	7	12	0.91
41112404--41112460	26	2.2	26	81	6	62	73	1	5	19	1.11
41112430--41112468	18	2.2	17	95	4	69	76	0	2	20	0.90
41117361--41117401	19	2.2	19	86	4	57	21	2	4	70	1.18
41117646--41117689	21	2.1	21	95	0	79	11	18	36	34	1.86
41118365--41118410	16	2.8	16	83	6	56	30	2	28	39	1.69
41126253--41126289	20	2.0	20	89	10	60	27	0	5	67	1.12
41137532--41137593	32	1.9	33	90	3	99	43	16	0	40	1.48
41137539--41137595	21	2.6	23	78	10	66	38	17	0	43	1.49
41137509--41137595	11	7.9	11	75	5	68	37	19	0	42	1.52
41143515--41143587	20	3.8	20	67	20	64	45	21	0	32	1.53
41144320--41144549	120	1.9	120	82	3	284	43	9	1	44	1.47
41147157--41147271	44	2.6	44	85	2	149	35	13	22	27	1.92
41147157--41147290	46	3.0	45	82	4	153	35	14	23	26	1.93
41151881--41151910	14	2.2	14	94	5	53	36	6	26	30	1.82
41153260--41153294	18	1.9	18	88	0	52	42	20	5	31	1.75
41154438--41154470	17	1.9	17	93	0	57	15	0	9	75	1.03
41158547--41158580	3	11.3	3	100	0	68	35	0	32	32	1.58
41160256--41160293	15	2.6	14	84	15	51	0	34	0	65	0.93
41173789--41174236	232	1.9	234	84	5	593	40	20	13	25	1.90
41175207--41175511	168	1.8	168	94	1	540	41	10	15	32	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41176965--41177040	25	3.0	25	98	0	143	50	5	11	32	1.62
41179377--41179641	47	5.7	48	82	7	246	23	28	20	28	1.98
41179381--41179641	140	1.9	140	84	6	359	22	28	19	28	1.98
41186558--41186974	201	2.1	201	99	0	825	36	15	13	34	1.87
41189899--41189960	33	2.0	31	84	12	83	35	0	9	54	1.33
41190290--41190322	14	2.4	14	85	15	50	72	15	12	0	1.12
41197041--41197139	26	3.8	26	80	5	128	31	27	19	22	1.98
41198011--41198056	23	2.0	23	100	0	92	34	17	8	39	1.80
41200895--41201077	46	4.0	46	86	1	224	20	24	14	40	1.90
41204500--41204564	28	2.3	28	94	0	112	33	27	7	30	1.85
41204670--41204759	28	3.2	27	85	7	119	20	24	23	32	1.98
41204680--41204761	27	2.9	28	85	5	103	21	25	20	31	1.98
41204670--41204784	55	2.1	56	82	8	137	19	23	21	35	1.96
41205223--41205261	19	2.1	19	85	0	51	15	5	7	71	1.26
41212403--41212464	28	2.2	28	94	0	106	33	27	8	30	1.86
41212573--41212662	28	3.2	27	85	7	119	20	24	23	32	1.98
41212573--41212687	55	2.1	56	83	8	146	19	24	21	34	1.96
41220539--41220596	25	2.3	26	85	11	77	22	12	1	63	1.37
41222665--41222691	13	2.1	13	100	0	54	22	25	29	22	1.99
41230160--41230290	47	2.8	47	85	0	172	32	28	15	23	1.95
41244311--41244335	13	1.9	13	100	0	50	16	36	40	8	1.77
41244837--41244883	23	2.0	23	83	0	58	23	31	8	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41246118--41246170	23	2.3	23	80	3	63	20	1	3	73	1.08
41252733--41252860	48	2.6	49	81	4	143	22	27	21	28	1.99
41252879--41253042	49	3.4	49	80	6	151	23	28	19	29	1.98
41252917--41253054	49	2.9	47	82	5	154	23	27	19	29	1.98
41255434--41255468	17	2.1	16	94	5	61	42	25	5	25	1.77
41255469--41257909	1000	2.4	999	97	0	4614	30	13	11	43	1.80
41260486--41260529	13	3.2	14	87	12	65	52	6	13	27	1.66
41261376--41261420	22	2.1	21	87	4	63	44	4	11	40	1.60
41264489--41264816	23	14.3	23	69	10	109	37	23	5	33	1.78
41264504--41264927	46	9.2	46	76	8	364	38	22	5	33	1.77
41264529--41265052	23	22.7	23	70	12	247	38	23	5	32	1.78
41265593--41265625	15	2.2	15	94	0	57	51	21	3	24	1.62
41267272--41267337	24	2.8	24	79	6	71	18	22	21	37	1.94
41271211--41271394	40	4.6	40	83	6	230	25	23	26	24	2.00
41281364--41281423	23	2.6	23	94	0	111	20	18	21	40	1.92
41282367--41282410	21	2.1	21	83	8	54	34	15	0	50	1.45
41284087--41284166	40	2.0	40	92	4	135	21	23	12	42	1.87
41288049--41288206	43	3.7	44	77	9	173	25	19	24	29	1.98
41288046--41288206	86	1.9	85	82	6	200	25	19	24	31	1.98
41294739--41294890	43	3.5	43	78	9	159	24	16	25	33	1.96
41296164--41296209	23	2.0	23	91	8	76	32	10	21	34	1.88
41304807--41305112	46	6.6	47	72	15	167	27	18	28	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41304855--41305112	138	1.9	139	82	4	333	27	18	28	24	1.98
41311550--41311574	9	2.8	9	100	0	50	24	40	24	12	1.88
41313038--41313104	32	2.1	32	81	10	75	50	1	5	41	1.36
41314045--41314128	25	3.4	25	84	0	114	19	23	20	36	1.95
41314059--41314175	22	5.0	22	77	7	83	19	23	17	38	1.93
41314259--41314321	31	2.0	31	96	0	117	49	0	25	25	1.51
41314262--41314316	18	3.3	18	65	29	50	50	0	25	23	1.49
41314831--41314869	19	2.1	19	85	4	53	38	0	15	46	1.46
41315120--41315176	29	2.0	28	96	0	96	15	14	19	49	1.78
41318479--41319549	183	5.9	183	99	0	2115	35	12	10	40	1.78
41321137--41322205	183	5.8	183	99	0	2075	41	10	12	35	1.77
41324660--41324844	40	4.7	40	79	7	191	23	22	28	25	1.99
41324660--41324842	79	2.3	81	81	7	205	24	22	27	25	2.00
41331901--41331960	30	2.0	30	93	6	104	33	13	25	28	1.93
41332267--41332299	16	2.1	16	100	0	66	24	0	18	57	1.40
41344069--41344127	21	2.8	20	73	16	57	57	1	3	37	1.25
41346719--41346829	28	4.3	27	70	18	69	62	2	2	32	1.23
41346719--41346826	26	4.0	27	71	19	68	62	2	2	32	1.24
41348272--41348816	204	2.7	206	88	1	817	28	21	18	31	1.97
41366205--41366243	18	2.1	19	85	4	53	43	15	12	28	1.83
41368616--41368905	27	10.7	27	85	1	323	38	21	9	30	1.85
41368941--41369136	27	7.3	27	87	0	257	34	19	20	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41369335--41369417	27	3.1	26	89	5	121	19	22	21	36	1.95
41369504--41369562	22	2.7	22	81	0	64	20	25	22	32	1.98
41369792--41369878	27	3.3	26	88	4	120	17	22	24	35	1.95
41369982--41370038	25	2.3	24	87	3	78	17	17	17	47	1.83
41369980--41370754	85	9.1	85	99	0	1523	21	16	15	47	1.83
41370707--41370786	36	2.2	36	84	0	97	20	16	12	51	1.76
41387857--41387897	20	2.0	20	95	0	73	51	2	29	17	1.58
41388746--41388827	28	2.9	28	94	0	137	25	8	29	36	1.86
41404315--41404429	56	2.1	56	88	4	171	44	13	14	27	1.82
41405794--41405868	29	2.6	29	76	14	82	50	6	12	30	1.65

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