genome.fa.s23.2.7.7.80.10.50.1000.139.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  139  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)
46542879--46542908	13	2.3	13	94	0	51	30	0	0	70	0.88
46543410--46543468	29	2.0	29	83	0	73	37	33	6	22	1.80
46544478--46544533	24	2.3	24	100	0	112	39	17	3	39	1.67
46550805--46551303	117	4.5	116	86	7	601	41	14	15	28	1.86
46551206--46551562	90	3.8	94	87	7	396	39	15	17	27	1.90
46551245--46551592	90	3.9	89	88	6	431	36	15	18	29	1.92
46551245--46551516	90	3.1	90	94	1	451	38	15	18	28	1.91
46551245--46551572	178	1.8	171	80	13	376	37	15	18	28	1.91
46552094--46552160	29	2.3	29	77	10	75	31	2	7	58	1.41
46552946--46553291	104	3.3	101	89	6	478	25	15	14	44	1.84
46559327--46559356	15	2.0	15	93	0	51	40	10	6	43	1.64
46565809--46565865	4	14.2	4	100	0	114	24	0	24	50	1.49
46570356--46570385	15	2.0	15	93	0	51	40	0	56	3	1.16
46575068--46575654	212	2.7	212	87	3	818	37	19	13	29	1.90
46590801--46590860	18	3.4	18	64	13	52	40	10	6	43	1.64
46596722--46596851	65	2.0	65	98	0	251	26	22	20	31	1.98
46598647--46598699	21	2.5	21	75	9	54	52	1	1	43	1.23
46613822--46613937	43	2.7	43	78	4	128	25	18	25	31	1.97
46623358--46623429	5	14.4	5	75	20	62	55	4	1	38	1.28
46623359--46623401	19	2.3	19	92	8	70	55	0	2	41	1.12
46623365--46623430	24	2.7	24	81	9	71	57	4	1	36	1.28
46623823--46623866	21	2.1	21	91	0	70	20	29	20	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46627606--46627732	47	2.6	48	90	7	204	47	8	26	17	1.76
46628555--46628598	23	1.9	23	100	0	88	40	4	31	22	1.74
46629142--46629285	69	2.1	69	97	0	270	15	30	19	34	1.93
46629357--46629383	6	4.5	6	100	0	54	0	51	0	48	1.00
46630941--46630986	23	2.0	23	100	0	92	43	4	30	21	1.72
46631180--46631230	21	2.5	21	80	3	59	17	13	1	66	1.34
46646222--46646355	66	2.0	66	84	5	173	44	16	26	12	1.84
46646730--46646823	43	2.2	43	88	3	136	21	19	28	30	1.97
46647053--46647095	19	2.2	19	83	4	50	37	16	11	34	1.85
46648556--46648702	43	3.4	42	81	3	152	31	16	21	30	1.95
46657366--46657443	15	5.4	14	74	18	70	56	15	16	11	1.67
46657371--46657446	30	2.5	30	81	10	84	56	14	17	11	1.67
46665729--46665776	3	16.3	3	79	12	55	31	2	2	64	1.16
46680116--46680145	15	2.0	15	100	0	60	26	20	13	40	1.89
46682801--46682833	14	2.4	14	85	15	50	51	6	15	27	1.66
46684387--46684416	13	2.4	13	94	5	53	86	0	0	13	0.57
46686260--46686297	3	13.0	3	94	5	69	0	68	0	31	0.90
46690856--46691064	41	5.0	41	83	3	224	33	28	22	16	1.96
46690888--46691073	82	2.3	83	87	0	266	32	28	22	16	1.96
46691320--46691359	19	2.1	19	100	0	80	42	0	17	40	1.49
46696544--46696574	16	1.9	16	93	0	53	51	6	12	29	1.65
46700145--46700173	13	2.2	13	100	0	58	37	0	0	62	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46700139--46700175	13	2.5	15	79	20	51	40	0	0	59	0.97
46700162--46700218	18	3.2	18	80	5	53	36	0	1	61	1.07
46700149--46700253	53	2.0	50	80	8	113	37	0	2	59	1.19
46704966--46705049	31	2.8	31	78	10	102	39	9	3	47	1.53
46707579--46707624	12	3.8	12	77	5	56	4	17	0	78	0.91
46709740--46709774	7	5.0	7	100	0	70	42	0	0	57	0.99
46709738--46709790	21	2.5	22	79	20	67	47	0	0	52	1.00
46710593--46710691	27	3.7	27	76	16	82	63	1	2	33	1.12
46710622--46710660	16	2.4	16	86	0	51	74	0	0	25	0.82
46710606--46710691	27	3.2	26	76	15	86	65	1	1	32	1.08
46710634--46710670	16	2.2	16	90	4	56	67	0	2	29	1.04
46710956--46710984	12	2.5	12	94	5	51	13	0	6	79	0.93
46711101--46711437	175	2.0	167	82	7	408	37	8	16	37	1.79
46711125--46711462	87	3.9	86	75	11	278	39	8	15	36	1.78
46712841--46712880	18	2.1	19	90	9	64	45	2	2	50	1.28
46718585--46718735	43	3.5	43	79	1	178	27	15	23	33	1.95
46719444--46719472	13	2.1	14	93	6	51	55	10	0	34	1.34
46722212--46722246	18	1.9	18	88	11	54	22	28	8	40	1.84
46725332--46725388	25	2.3	25	84	6	80	42	15	22	19	1.89
46733971--46734063	25	3.8	25	85	2	116	24	12	38	23	1.90
46734076--46734192	35	3.4	35	83	3	130	44	4	30	20	1.71
46748184--46748263	6	13.3	6	94	0	124	78	1	3	16	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46749929--46749958	11	2.7	11	89	0	51	70	0	10	20	1.16
46749951--46750024	3	24.7	3	81	10	80	60	2	5	31	1.33
46749963--46750039	34	2.3	34	84	2	93	63	2	6	27	1.32
46757003--46757042	22	1.9	20	85	10	53	2	22	17	57	1.52
46766078--46766165	40	2.2	40	84	8	108	29	19	27	23	1.98
46767048--46767120	37	2.0	37	94	0	128	17	23	32	26	1.97
46769276--46769336	17	3.3	18	82	13	63	65	0	1	32	1.02
46769309--46769343	17	2.1	17	88	0	52	60	5	0	34	1.21
46770356--46770411	24	2.2	26	78	6	62	53	1	1	42	1.21
46773531--46773837	131	2.3	130	84	2	353	32	17	19	30	1.95
46776870--46777025	46	3.2	46	64	22	118	24	14	21	39	1.91
46776740--46777055	102	3.0	102	94	4	533	25	13	20	40	1.90
46779895--46779970	29	2.5	30	79	12	75	40	10	10	38	1.74
46780539--46780577	14	2.6	15	92	8	62	61	0	0	38	0.96
46785477--46785528	18	2.8	19	91	5	88	36	9	15	38	1.80
46785489--46785537	18	2.4	22	87	12	70	38	8	18	34	1.80
46785819--46785852	18	1.9	17	88	5	50	29	0	0	70	0.87
46794544--46794836	78	3.8	78	87	1	417	32	19	22	25	1.98
46794865--46795049	45	4.1	45	86	4	259	33	14	27	24	1.94
46794866--46795035	89	1.9	89	90	2	270	31	14	28	25	1.94
46794877--46795054	89	2.0	89	85	3	223	32	14	28	24	1.95
46798252--46798404	40	3.8	40	94	0	252	30	18	26	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46806133--46806342	40	5.3	39	89	4	242	25	21	27	25	1.99
46806080--46806342	120	2.2	120	82	4	309	25	21	27	25	1.99
46806081--46806377	80	3.7	80	81	6	230	26	21	27	24	1.99
46819149--46819179	2	15.5	2	100	0	62	48	0	51	0	1.00
46823819--46823862	21	2.1	21	91	0	70	20	29	20	29	1.98
46827727--46827775	23	2.1	23	100	0	98	38	12	14	34	1.83
46828188--46828216	15	2.0	15	93	6	51	62	0	34	3	1.12
46831489--46831537	23	2.1	23	100	0	98	38	12	14	34	1.83
46831615--46831646	9	3.6	9	100	0	64	78	9	0	12	0.97
46841208--46841271	29	2.2	28	84	13	78	43	0	7	48	1.32
46848285--46848342	21	2.7	22	86	10	84	20	25	41	12	1.87
46856138--46856168	12	2.6	12	89	0	53	22	0	61	16	1.34
46856275--46856353	24	3.3	24	83	0	95	8	15	32	43	1.77
46856349--46856399	15	3.4	15	88	0	75	19	9	29	41	1.84
46856384--46856465	33	2.5	34	78	6	96	26	8	34	30	1.86
46860743--46860950	92	2.3	92	78	3	204	27	18	18	36	1.94
46867387--46867440	24	2.2	24	83	0	63	37	3	7	51	1.48
46871615--46871729	43	2.7	43	87	2	151	23	17	26	33	1.96
46872467--46872500	16	2.1	16	100	0	68	35	0	32	32	1.58
46875174--46875381	53	3.9	53	93	3	323	25	17	28	28	1.97
46877327--46877356	13	2.3	13	94	0	51	16	0	0	83	0.65
46878424--46878503	21	3.8	21	77	1	88	40	22	21	16	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46878641--46878680	10	4.0	10	100	0	80	40	30	0	30	1.57
46878684--46878722	13	3.0	13	84	0	60	20	10	0	69	1.17
46882655--46882800	50	2.9	50	84	5	197	26	18	26	28	1.98
46891116--46891156	21	2.0	21	85	9	57	56	7	0	36	1.27
46891262--46891343	32	2.6	30	84	11	94	48	6	3	41	1.45
46892389--46892464	40	1.9	40	94	0	134	32	35	18	13	1.89
46898010--46898530	258	2.0	258	94	0	916	27	28	17	27	1.97
46899821--46899911	40	2.3	38	78	10	103	34	28	19	17	1.95
46899831--46899909	40	2.0	40	87	5	115	34	27	18	18	1.95
46900276--46900461	101	1.8	100	85	4	257	25	37	19	17	1.93

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