genome.fa.s23.2.7.7.80.10.50.1000.115.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_chr5
Parameters: 2 7 7 80 10 50 1000
Length:  55438857

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   

This is table  115  of  167  ( 19959 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)
38416927--38416964	18	2.1	18	95	0	67	42	47	2	7	1.46
38416941--38416965	13	1.9	13	100	0	50	40	48	0	12	1.40
38416990--38417030	6	6.5	6	89	10	64	80	0	0	19	0.71
38416982--38417025	20	2.1	21	95	4	81	72	0	0	27	0.85
38416990--38417032	20	2.2	20	91	0	68	81	0	0	18	0.69
38417078--38417118	18	2.3	18	82	0	55	31	9	12	46	1.74
38417051--38417118	27	2.5	27	80	0	73	29	7	17	45	1.75
38417327--38417443	48	2.5	47	81	8	125	28	16	30	24	1.96
38420268--38420335	34	2.0	34	100	0	136	35	26	17	20	1.95
38420308--38420472	25	6.6	25	73	8	131	35	20	27	17	1.95
38420482--38420537	25	2.2	25	100	0	112	32	19	28	19	1.97
38429327--38429375	24	2.0	24	84	7	64	46	0	34	18	1.49
38431436--38431485	22	2.2	22	82	13	57	32	6	0	62	1.20
38434821--38434886	21	3.2	20	77	10	62	21	6	30	42	1.77
38449008--38449075	35	1.9	35	87	0	100	42	13	27	16	1.85
38453304--38453388	44	1.9	44	83	4	109	32	16	24	25	1.96
38453199--38453785	132	4.4	132	84	2	712	30	21	23	24	1.99
38453556--38453854	44	6.8	44	71	8	225	29	22	24	24	1.99
38453199--38453854	132	5.0	132	82	3	487	30	21	23	24	1.99
38453203--38453854	264	2.5	264	82	3	677	30	21	23	24	1.99
38460445--38460630	46	4.0	46	96	1	327	39	13	23	23	1.90
38460566--38460689	65	1.9	63	93	3	212	39	16	21	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38460520--38460735	111	2.0	109	94	1	378	39	15	22	22	1.91
38460631--38461007	46	8.2	46	89	1	524	41	14	23	20	1.89
38460631--38461007	137	2.7	137	89	1	522	41	14	23	20	1.89
38461293--38461325	17	2.0	17	94	5	59	48	0	15	36	1.45
38464878--38464923	4	12.2	4	82	17	55	73	0	26	0	0.83
38465064--38465121	27	2.1	27	87	0	80	34	5	24	36	1.78
38466232--38466268	16	2.3	17	81	13	51	43	0	0	56	0.99
38473871--38473913	3	14.3	3	100	0	86	32	0	0	67	0.91
38486733--38486766	17	1.9	18	88	5	52	41	2	2	52	1.31
38493455--38493481	10	2.7	10	100	0	54	14	0	0	85	0.61
38496042--38496074	16	2.1	16	88	11	50	24	18	24	33	1.97
38506724--38506757	17	2.0	17	94	0	59	32	5	8	52	1.56
38524460--38524509	25	2.0	25	100	0	100	24	12	24	40	1.88
38526652--38526929	50	5.5	50	77	3	245	32	26	16	25	1.96
38528806--38528999	37	5.2	37	78	8	153	42	18	15	23	1.88
38528806--38528963	74	2.1	74	80	4	176	44	17	15	21	1.86
38537169--38537383	46	4.6	45	77	9	184	27	20	28	23	1.99
38539740--38539818	37	2.1	37	90	0	122	25	31	18	24	1.98
38539939--38540067	47	2.7	47	89	0	186	27	31	8	31	1.87
38541924--38542043	56	2.1	56	98	0	231	22	23	9	45	1.81
38544437--38544498	30	2.1	29	93	3	106	59	16	1	22	1.45
38547957--38547995	18	2.2	18	100	0	78	41	20	15	23	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38550198--38550638	220	2.0	220	97	0	828	34	12	20	33	1.90
38554679--38554727	20	2.4	21	86	10	66	48	4	0	46	1.20
38564134--38564177	23	1.9	23	95	0	79	50	13	4	31	1.62
38576297--38576360	32	2.0	32	96	0	119	53	14	9	23	1.69
38579062--38579108	19	2.3	20	82	10	60	36	0	14	48	1.44
38579457--38579851	50	7.9	50	74	3	353	26	18	25	29	1.98
38579609--38579790	101	1.8	101	86	0	265	26	19	24	29	1.98
38579456--38579848	151	2.6	151	91	0	633	25	18	25	30	1.98
38580051--38580082	16	2.0	16	93	0	55	46	0	18	34	1.49
38583375--38583442	24	2.9	23	84	6	82	22	47	7	22	1.75
38584979--38585025	19	2.3	20	82	10	60	36	0	17	46	1.48
38585381--38585717	50	6.7	50	76	7	315	27	17	26	29	1.97
38585432--38585706	100	2.7	100	88	1	390	27	16	25	30	1.97
38591032--38591061	15	2.0	15	100	0	60	33	13	40	13	1.83
38599735--38599765	16	1.9	16	93	0	53	9	9	9	70	1.33
38606311--38606363	27	2.0	26	85	7	63	18	20	33	24	1.95
38611734--38611759	13	2.0	13	100	0	52	46	15	0	38	1.46
38613475--38613513	16	2.4	16	91	4	60	48	0	2	48	1.15
38613591--38613626	15	2.3	15	90	9	54	66	0	33	0	0.92
38613587--38613628	21	1.9	23	90	9	70	69	0	30	0	0.89
38614316--38614372	27	2.1	27	87	12	82	35	0	24	40	1.56
38619380--38619409	3	10.0	3	92	0	51	63	0	33	3	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38622000--38622041	22	2.0	22	90	4	68	61	0	0	38	0.96
38622051--38622087	17	2.3	16	90	9	58	13	16	2	67	1.34
38622049--38622097	19	2.8	19	82	17	70	14	14	4	67	1.37
38623688--38623767	30	2.7	29	79	13	90	50	13	11	25	1.75
38630702--38630781	24	3.3	24	85	0	106	50	5	6	38	1.50
38632827--38632856	16	1.9	15	93	6	51	33	23	0	43	1.54
38633068--38633349	50	5.6	49	77	4	206	32	25	15	26	1.95
38634744--38634848	27	3.9	27	86	9	135	34	21	24	19	1.96
38634954--38635027	28	2.8	26	85	4	85	31	9	22	36	1.86
38636462--38636569	26	4.2	26	92	0	180	35	24	8	32	1.85
38641802--38641906	27	3.9	27	81	7	115	37	20	22	19	1.95
38643527--38643634	26	4.2	26	90	0	171	35	23	9	32	1.86
38650064--38650309	50	4.9	50	74	5	194	29	25	17	27	1.98
38655592--38655635	21	2.0	23	82	8	56	18	2	29	50	1.59
38659757--38659813	24	2.4	24	81	0	69	43	7	8	40	1.63
38662166--38662216	26	2.0	26	92	0	84	27	29	25	17	1.98
38663301--38663365	5	12.6	5	75	18	62	20	1	0	78	0.83
38663301--38663344	17	2.7	16	86	6	70	18	0	0	81	0.68
38663301--38663365	22	2.8	23	88	11	89	20	1	0	78	0.83
38668353--38668407	25	2.2	26	83	9	69	67	18	5	9	1.38
38671503--38671532	3	10.0	3	100	0	60	33	0	0	66	0.92
38672383--38672422	19	2.1	19	100	0	80	15	22	5	57	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38673357--38673419	26	2.4	26	81	7	74	36	25	9	28	1.87
38673719--38673764	20	2.3	20	81	3	58	28	19	26	26	1.99
38673757--38673891	60	2.2	60	85	6	175	28	18	25	27	1.98
38673793--38673891	28	3.4	27	68	26	67	26	19	28	26	1.99
38679571--38679679	40	2.7	40	90	5	159	30	24	22	22	1.99
38683079--38683277	42	4.7	42	78	4	195	47	16	19	17	1.83
38688781--38688848	22	3.0	21	73	12	55	35	4	7	52	1.49
38694367--38694392	5	5.2	5	100	0	52	80	0	0	19	0.71
38694944--38695031	41	2.2	40	81	4	104	34	4	4	56	1.40
38696248--38696285	20	1.9	19	89	5	58	65	0	2	31	1.06
38696979--38697031	22	2.4	22	80	0	70	62	0	9	28	1.26
38698863--38699094	126	1.8	126	97	0	437	29	15	16	38	1.89
38702577--38702621	21	2.1	21	87	0	63	35	22	26	15	1.94
38702612--38703537	461	2.0	461	97	0	1753	32	21	23	22	1.98
38705598--38705671	24	3.2	24	83	11	91	82	1	16	0	0.74
38705598--38705671	35	2.1	35	82	9	89	82	1	16	0	0.74
38705599--38705677	5	16.0	5	75	15	58	79	2	17	0	0.84
38705613--38705682	24	3.0	24	81	4	81	74	2	22	0	0.95
38706929--38707369	177	2.5	177	91	2	740	29	21	23	24	1.99
38707243--38707719	132	3.6	133	81	5	583	31	23	20	24	1.98
38707195--38707689	265	1.9	265	88	2	762	30	22	21	25	1.99
38707195--38707763	265	2.1	265	84	4	702	31	22	21	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38707686--38708247	87	6.6	85	82	3	522	31	21	24	22	1.98
38707838--38708246	85	4.8	85	84	4	509	30	22	26	21	1.99
38708484--38708547	29	2.2	29	83	5	85	29	51	1	17	1.54
38708513--38708624	37	3.0	37	97	0	215	29	53	0	16	1.44
38708529--38708638	18	6.0	18	64	19	57	29	53	0	17	1.44
38708911--38709048	60	2.3	62	80	9	151	26	4	5	64	1.33
38709023--38709059	19	2.0	18	94	5	65	32	0	0	67	0.91
38708911--38709050	62	2.2	61	78	13	142	26	4	5	64	1.33
38709023--38709078	21	2.8	21	82	15	57	37	0	1	60	1.07
38709031--38709061	14	2.2	14	94	0	53	32	0	0	67	0.91

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