genome.fa.s23.2.7.7.80.10.50.1000.120.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  120  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)
40087817--40087892	34	2.2	34	90	0	116	28	22	22	26	1.99
40099345--40099502	46	3.4	45	79	5	163	31	18	25	24	1.98
40099532--40099661	49	2.7	49	79	7	140	30	20	26	23	1.98
40117675--40117837	46	3.6	45	86	8	215	33	18	26	22	1.97
40117877--40117987	49	2.3	49	81	6	127	30	22	26	20	1.98
40120275--40120334	30	2.0	30	100	0	120	46	30	6	16	1.73
40120631--40120681	25	2.0	25	96	0	93	23	31	7	37	1.83
40122517--40122568	18	2.7	19	82	5	61	51	3	9	34	1.53
40122591--40123453	5	172.8	5	99	0	1710	40	0	0	59	0.97
40123518--40123560	12	3.3	13	80	9	52	74	0	25	0	0.82
40123525--40123563	19	2.0	20	90	5	62	74	0	25	0	0.82
40143916--40143980	30	2.2	30	94	0	112	20	32	24	23	1.98
40145703--40145789	43	2.0	43	97	0	165	44	20	3	31	1.68
40148040--40148091	18	2.7	19	88	5	70	53	3	7	34	1.48
40148163--40148201	17	2.3	17	86	8	53	71	0	12	15	1.14
40148214--40148256	13	3.3	13	78	9	52	69	0	30	0	0.88
40148217--40148259	22	2.0	22	81	9	52	69	0	30	0	0.88
40149122--40149254	40	3.4	40	73	7	128	26	16	24	33	1.96
40150382--40150427	23	2.0	23	95	0	83	47	15	4	32	1.65
40150427--40150479	20	2.7	20	85	2	63	15	11	0	73	1.09
40150611--40150679	34	2.0	34	100	0	138	28	5	26	39	1.79
40152488--40152550	24	2.7	23	85	7	81	33	28	15	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40157804--40157914	55	2.0	55	98	0	213	24	20	16	38	1.92
40159108--40159193	3	29.7	3	74	15	74	34	0	4	60	1.17
40159442--40159511	33	2.1	33	82	10	81	41	0	4	54	1.20
40159469--40159533	33	2.0	33	82	11	80	47	0	6	46	1.27
40159666--40159715	22	2.4	20	81	12	64	76	4	6	14	1.13
40159754--40159797	12	3.6	12	81	3	52	72	0	25	2	0.96
40160784--40160808	12	2.1	12	100	0	50	16	24	20	40	1.91
40160786--40160892	45	2.4	45	88	0	160	21	17	18	42	1.90
40163276--40163315	20	2.0	20	100	0	80	25	15	20	40	1.90
40166966--40167136	5	34.6	5	97	2	328	39	0	0	60	0.97
40168212--40168317	45	2.4	45	85	3	142	21	18	18	40	1.91
40170189--40170248	3	19.7	3	96	3	111	33	0	0	66	0.92
40172966--40173023	8	6.7	9	75	13	50	62	0	1	36	1.06
40172981--40173031	17	2.9	17	82	2	57	58	1	1	37	1.20
40177007--40177414	204	2.0	201	83	4	507	23	19	13	43	1.87
40181118--40181150	17	1.9	18	88	11	52	42	9	0	48	1.35
40191320--40191370	21	2.7	18	83	16	75	43	21	5	29	1.76
40191327--40191371	21	2.1	21	100	0	90	44	24	4	26	1.72
40194733--40194809	38	2.0	38	100	0	154	16	7	28	46	1.75
40198864--40198907	18	2.4	19	81	11	56	34	15	25	25	1.95
40199796--40199851	29	1.9	29	88	0	85	35	8	17	37	1.82
40200859--40200982	63	2.0	64	86	1	178	40	17	11	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40202745--40202769	5	5.0	5	100	0	50	60	0	0	40	0.97
40213460--40213501	21	2.1	19	86	8	57	26	38	11	23	1.90
40213863--40213903	14	2.9	14	80	20	50	14	19	0	65	1.26
40215731--40215771	12	3.5	12	93	3	66	17	0	9	73	1.09
40215757--40215810	19	2.8	20	84	13	69	20	1	1	75	0.98
40215757--40215807	6	8.2	6	75	16	50	17	1	1	78	0.94
40256782--40256855	37	2.0	37	85	15	100	27	8	22	41	1.82
40258597--40258626	14	2.1	15	93	6	53	13	10	13	63	1.52
40277628--40277673	20	2.2	20	80	3	56	32	21	39	6	1.79
40277475--40277937	254	1.8	255	93	0	802	27	24	32	15	1.96
40278463--40278515	26	2.1	24	82	6	61	15	5	1	77	1.04
40285388--40285594	45	4.6	45	82	5	249	20	18	14	45	1.85
40285388--40285594	90	2.3	90	84	3	274	20	18	14	45	1.85
40285566--40285689	45	2.8	45	92	0	203	16	20	19	43	1.88
40285388--40285639	90	2.8	89	81	5	251	20	18	15	45	1.86
40288774--40288846	13	5.8	13	71	9	53	27	0	2	69	1.02
40288786--40288846	13	4.6	14	74	8	56	27	0	3	68	1.05
40288798--40288848	27	2.0	24	88	11	75	29	0	3	66	1.09
40288786--40288846	7	9.1	7	75	8	56	27	0	3	68	1.05
40289214--40289275	31	2.0	32	84	9	83	41	8	11	38	1.70
40289387--40289423	14	2.4	16	82	13	51	24	0	2	72	0.97
40303904--40303946	20	2.0	22	86	8	63	55	11	30	2	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40305704--40305769	30	2.2	30	88	0	105	9	25	34	30	1.87
40308374--40308479	54	2.0	53	90	5	169	44	12	8	34	1.72
40313305--40313341	18	2.1	17	90	5	56	27	5	27	40	1.78
40318706--40318743	18	2.1	18	90	0	58	60	5	18	15	1.53
40322544--40322599	18	3.5	15	81	18	60	37	10	16	35	1.83
40322530--40322620	35	2.5	37	87	12	145	37	10	16	35	1.84
40322523--40322613	19	4.9	19	90	8	152	36	10	15	37	1.83
40322592--40322636	23	2.0	22	82	4	54	40	4	17	37	1.70
40331289--40331501	78	2.7	78	90	2	313	32	18	26	22	1.97
40331368--40331492	41	3.1	41	61	17	100	30	20	27	22	1.98
40331329--40331509	78	2.3	78	94	0	317	33	19	25	20	1.97
40331524--40331562	16	2.4	16	100	0	78	43	23	25	7	1.80
40331473--40331546	37	2.0	37	89	0	112	37	16	29	16	1.90
40331827--40331865	16	2.4	16	100	0	78	43	23	25	7	1.80
40331749--40331935	94	2.0	94	92	0	311	34	19	24	21	1.96
40331843--40332032	78	2.4	77	88	3	281	34	18	22	24	1.96
40332062--40332231	89	1.9	89	90	0	268	28	14	29	27	1.95
40332048--40332239	45	4.3	45	86	1	251	31	15	28	25	1.95
40332596--40332658	19	3.0	21	82	11	76	34	7	17	39	1.79
40337143--40337308	84	2.0	84	93	0	287	30	23	13	32	1.93
40337914--40338439	39	13.5	39	90	3	713	24	28	20	26	1.99
40338893--40339094	102	2.0	102	96	0	368	35	29	7	28	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40343825--40343867	11	3.6	11	77	17	50	32	23	0	44	1.54
40343818--40343870	25	2.1	25	100	0	106	33	18	0	47	1.49
40356605--40356925	46	7.0	46	88	2	439	38	15	24	21	1.92
40361143--40361234	46	2.0	46	97	0	175	33	30	5	30	1.80
40362694--40362883	102	1.9	102	87	2	285	27	22	22	26	1.99
40362689--40362883	51	3.9	51	84	1	250	27	22	22	27	1.99
40364326--40364481	43	3.6	43	72	9	131	30	24	17	26	1.97
40367939--40367985	24	2.0	24	87	8	69	55	17	0	27	1.42
40374168--40374233	28	2.4	28	82	5	80	28	22	22	25	1.99
40374389--40374448	27	2.3	27	79	2	68	41	20	20	18	1.90
40379682--40379725	18	2.3	19	81	18	56	15	27	40	15	1.88
40379965--40380039	27	2.8	27	78	8	80	38	17	17	26	1.92
40380166--40380217	27	2.0	26	84	3	68	23	23	17	36	1.95
40380380--40380477	28	3.3	28	77	9	79	27	23	22	26	1.99
40383168--40383304	40	3.5	40	79	6	154	24	21	27	27	1.99
40383532--40383573	22	1.9	22	85	9	59	33	9	14	42	1.78
40396546--40396675	45	2.9	45	90	2	192	22	21	30	26	1.99
40399245--40399379	60	2.2	59	82	8	148	27	23	19	29	1.98
40417538--40417588	5	10.4	5	82	4	68	35	0	21	43	1.53
40417538--40417594	15	3.9	14	86	6	69	35	0	22	42	1.54
40419265--40419298	16	2.1	17	88	5	52	55	5	8	29	1.54
40419443--40419595	68	2.2	68	91	0	252	20	27	23	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40425580--40425735	70	2.2	71	95	3	280	43	4	9	42	1.57
40427308--40427522	45	4.8	45	87	5	271	24	22	27	26	2.00
40436450--40436497	23	2.1	23	84	7	62	35	8	12	43	1.73
40446601--40446656	26	2.2	26	100	0	112	30	7	26	35	1.83
40451591--40451687	34	2.9	34	89	1	142	43	0	16	40	1.48
40451790--40452288	125	4.0	125	81	2	563	38	14	16	30	1.88
40451799--40452291	251	2.0	251	84	2	650	37	14	17	31	1.89
40455785--40455822	18	2.1	18	90	0	58	42	10	23	23	1.85
40466979--40467029	26	2.0	25	85	11	68	64	0	5	29	1.17
40471823--40471873	21	2.5	20	84	9	75	27	7	33	31	1.85

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