genome.fa.s23.2.7.7.80.10.50.1000.130.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  130  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)
43544635--43544736	43	2.4	42	86	6	134	28	16	24	30	1.97
43549683--43550000	111	2.9	109	84	7	399	26	18	21	33	1.96
43554412--43554469	26	2.2	26	84	0	71	18	24	20	36	1.95
43560193--43560231	21	1.9	21	89	5	62	23	12	0	64	1.28
43560177--43560231	22	2.5	22	80	11	60	25	12	0	61	1.31
43560191--43560287	18	5.2	18	70	22	58	19	12	3	64	1.39
43560312--43560382	27	2.6	27	93	2	115	36	16	0	46	1.48
43560312--43560399	28	3.2	28	85	4	108	35	15	0	48	1.46
43560477--43560511	16	2.1	17	94	5	63	22	11	0	65	1.24
43560557--43560603	25	1.9	24	82	4	58	23	6	2	68	1.24
43560806--43560837	16	1.9	16	93	6	55	25	15	0	59	1.36
43560796--43560912	50	2.5	47	83	8	132	21	12	0	64	1.32
43560828--43560919	24	3.8	23	71	22	71	21	10	1	66	1.29
43560894--43560934	21	2.0	21	90	0	64	21	12	2	63	1.40
43560822--43560933	50	2.2	50	84	6	147	23	13	0	62	1.36
43560894--43560941	21	2.2	21	85	3	60	22	10	2	64	1.35
43564331--43564574	110	2.2	111	88	5	357	33	20	20	25	1.97
43565623--43565678	29	2.0	28	86	10	80	37	8	7	46	1.63
43567326--43567360	17	2.1	17	94	0	61	25	8	5	60	1.49
43569215--43569260	23	2.0	24	86	4	67	43	0	2	54	1.12
43569309--43569356	18	2.7	18	83	0	60	70	2	4	22	1.15
43569464--43569530	19	3.6	19	78	9	68	61	1	0	37	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43569237--43569606	180	2.1	180	90	2	575	52	4	2	39	1.38
43569766--43569836	22	3.3	23	76	9	78	35	2	0	61	1.10
43569774--43569834	23	2.7	23	84	5	70	36	3	0	60	1.13
43570399--43570486	14	5.0	17	67	22	65	67	1	25	6	1.22
43572278--43572379	51	2.0	51	88	0	150	42	12	18	26	1.86
43572963--43573009	23	2.0	23	88	8	69	12	8	38	40	1.74
43574188--43574243	12	4.8	12	78	22	66	58	0	32	8	1.29
43574185--43574243	23	2.6	23	97	0	109	59	0	32	8	1.28
43574364--43574432	30	2.3	31	85	7	88	24	8	18	47	1.77
43581126--43581299	45	3.9	45	90	0	249	40	15	18	25	1.90
43587681--43587858	89	2.0	86	91	3	284	32	9	12	44	1.75
43587880--43587942	19	3.2	19	70	16	56	38	4	3	53	1.38
43587877--43587961	40	2.1	39	85	8	109	36	7	3	52	1.46
43594084--43594135	21	2.5	21	87	3	70	48	1	1	48	1.24
43596915--43597001	44	2.0	44	88	0	129	45	4	8	41	1.54
43609329--43609368	19	2.1	19	86	9	55	42	10	2	45	1.51
43610402--43610456	29	1.9	29	92	3	94	38	12	5	43	1.66
43615722--43615751	15	2.0	15	93	0	51	16	63	6	13	1.50
43629659--43629932	46	6.0	46	96	0	478	22	23	14	38	1.92
43632005--43632044	17	2.4	16	87	4	53	0	32	0	67	0.91
43632069--43632114	16	2.8	17	83	6	58	13	13	0	73	1.09
43632065--43632102	10	3.7	10	86	13	51	5	15	0	78	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43634278--43634485	91	2.3	91	87	4	285	45	3	3	46	1.39
43634502--43634535	17	2.0	17	94	0	59	44	5	0	50	1.26
43634502--43634540	17	2.4	16	87	8	53	43	5	0	51	1.24
43634506--43634545	17	2.3	18	83	12	57	47	5	0	47	1.24
43634634--43634675	15	2.7	16	82	14	52	45	0	2	52	1.13
43634625--43634666	15	2.9	15	82	10	52	47	0	0	52	1.00
43634612--43634922	154	2.0	156	96	1	572	46	5	3	44	1.41
43634775--43634809	18	2.0	17	88	5	52	45	0	0	54	0.99
43634612--43634845	75	3.1	75	65	16	208	46	2	3	47	1.34
43635054--43635110	16	3.6	16	90	0	78	33	35	0	31	1.58
43635149--43635203	27	2.0	27	92	0	92	30	43	3	21	1.70
43636277--43636340	25	2.7	23	78	11	58	29	4	4	60	1.37
43636506--43636558	18	2.9	19	83	5	74	43	0	0	56	0.99
43636976--43637029	12	4.5	12	81	9	56	31	7	0	61	1.24
43637002--43637029	3	9.3	3	100	0	56	32	0	0	67	0.91
43643465--43643649	46	3.9	46	92	4	273	22	24	12	39	1.90
43645344--43645379	17	2.1	18	90	10	58	5	16	0	77	0.94
43654293--43654334	19	2.2	19	87	8	59	28	0	9	61	1.27
43661784--43661884	39	2.6	39	93	0	166	10	24	25	38	1.88
43661802--43661866	19	3.2	21	73	20	75	9	24	24	41	1.84
43663390--43663445	24	2.2	26	93	6	98	46	8	3	41	1.52
43683237--43683333	49	2.1	45	84	11	124	48	11	9	30	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43684819--43684855	18	2.1	18	100	0	74	27	29	16	27	1.97
43686530--43686596	13	5.8	13	69	25	60	7	0	55	37	1.28
43686519--43686602	22	3.8	22	93	3	134	9	0	55	34	1.32
43686677--43686721	15	2.9	15	86	3	54	6	4	37	51	1.49
43687092--43688175	206	5.3	206	95	0	1891	28	22	19	29	1.98
43697458--43697542	23	3.6	23	72	10	73	58	2	9	29	1.42
43697835--43697867	13	2.5	13	95	0	57	9	15	12	63	1.51
43697969--43698039	22	3.2	22	90	4	108	9	0	54	35	1.33
43697980--43698059	13	6.8	13	70	21	59	11	0	51	37	1.38
43698142--43698186	15	2.9	15	86	3	54	6	4	37	51	1.49
43699025--43699082	29	2.0	29	89	0	89	37	8	24	29	1.85
43708985--43709053	27	2.5	27	75	11	68	57	4	4	33	1.38
43710582--43711013	176	2.4	176	81	3	490	27	22	20	29	1.99
43710948--43711056	44	2.5	43	80	8	112	30	25	21	22	1.99
43710954--43711370	205	2.0	205	99	0	825	29	22	18	30	1.97
43711188--43711443	44	5.7	44	69	13	153	28	24	17	29	1.98
43716186--43716229	21	2.1	21	86	0	61	54	6	9	29	1.58
43723637--43723705	27	2.5	27	77	11	77	59	4	4	31	1.37
43730813--43730842	14	2.1	14	93	0	51	43	33	0	23	1.54
43751161--43751200	17	2.4	18	80	16	50	52	0	0	47	1.00
43753762--43753796	16	2.1	16	89	5	52	34	2	5	57	1.37
43759502--43759545	18	2.5	17	81	7	52	54	0	2	43	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43760508--43760551	22	2.0	21	83	16	54	50	2	4	43	1.35
43762158--43762200	21	2.0	21	95	0	77	23	16	27	32	1.96
43762260--43762310	22	2.3	22	89	0	75	64	0	29	5	1.17
43763283--43763324	22	2.0	22	86	9	61	7	26	0	66	1.17
43765005--43765091	43	2.0	42	80	10	97	32	12	21	33	1.91
43767454--43767643	41	4.6	41	78	5	177	24	15	23	35	1.94
43767454--43767643	84	2.3	82	81	7	206	24	15	23	35	1.94
43768301--43768343	19	2.1	20	87	12	61	30	0	2	67	1.03
43769506--43769548	22	2.0	22	86	4	61	53	6	0	39	1.28
43769747--43769798	21	2.5	21	83	0	68	26	3	34	34	1.75
43770389--43770444	29	2.0	28	83	13	71	55	5	7	32	1.50
43775982--43776078	46	2.1	46	94	1	169	34	6	10	49	1.62
43780543--43780587	20	2.3	20	88	3	65	28	17	26	26	1.98
43780616--43780729	28	3.9	28	71	19	81	26	21	27	25	1.99
43780608--43780752	61	2.4	61	85	8	179	26	20	26	26	1.99
43783886--43783924	10	3.9	10	100	0	78	69	10	20	0	1.17
43792002--43792281	41	6.8	41	90	5	381	27	20	24	28	1.99
43794695--43794745	23	2.2	24	85	3	68	52	3	3	39	1.38
43795461--43795501	21	2.0	21	90	9	66	39	4	14	41	1.67
43802069--43802111	18	2.5	17	81	7	50	48	0	0	51	1.00
43806822--43806858	19	1.9	19	94	0	65	35	10	16	37	1.83
43816514--43816739	108	2.1	108	98	0	434	24	15	16	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43821484--43821622	69	2.0	69	97	0	260	25	9	19	46	1.80
43822204--43822265	17	3.8	17	68	8	56	51	4	6	37	1.49
43822794--43822836	16	2.6	16	85	10	52	65	2	2	30	1.18
43830795--43830830	12	3.0	12	87	0	54	75	0	25	0	0.81
43830784--43830837	22	2.4	23	85	11	69	68	0	31	0	0.90
43831181--43831221	21	2.0	21	100	0	82	34	9	21	34	1.87
43833870--43834207	140	2.4	140	93	1	572	26	7	7	58	1.52
43834186--43834228	13	3.4	13	74	6	52	18	6	4	69	1.29
43834166--43834313	46	3.1	48	74	14	135	21	7	3	67	1.30
43834225--43834303	16	4.9	16	75	9	79	17	8	3	69	1.30

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