genome.fa.s10.2.7.7.80.10.50.1000.151.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  151  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)
49426368--49426405	17	2.2	18	85	4	51	31	26	5	36	1.79
49428157--49428525	92	4.0	92	99	0	720	15	11	17	55	1.69
49429388--49429432	21	2.1	21	95	0	81	24	24	15	35	1.94
49434696--49434736	20	2.0	21	85	4	57	41	2	2	53	1.27
49435271--49435319	19	2.4	21	80	13	57	63	0	4	32	1.13
49435479--49435540	30	2.1	30	85	8	83	41	12	8	37	1.73
49441291--49441368	35	2.2	35	82	8	88	51	6	2	39	1.41
49442612--49442923	156	2.0	157	98	0	608	36	33	11	17	1.86
49455618--49455643	7	3.7	7	100	0	52	88	0	0	11	0.52
49456482--49456574	43	2.1	45	86	4	127	27	16	25	30	1.96
49466928--49466960	2	16.5	2	100	0	66	0	48	0	51	1.00
49477250--49477282	14	2.4	14	95	5	59	36	27	0	36	1.57
49481771--49481814	22	2.0	22	100	0	88	45	22	13	18	1.84
49483515--49483546	13	2.5	13	89	0	55	9	15	21	53	1.70
49485276--49485303	5	5.6	5	100	0	56	82	0	0	17	0.68
49496583--49496690	52	2.1	51	91	6	182	47	4	13	34	1.64
49505511--49505651	42	3.4	42	78	3	122	18	21	14	45	1.85
49508185--49508245	31	2.0	31	100	0	122	29	22	3	44	1.69
49511596--49511641	16	2.8	17	80	12	60	52	0	47	0	1.00
49525549--49525592	10	4.4	10	91	0	70	36	0	0	63	0.95
49525549--49525619	10	6.4	12	76	15	64	38	5	0	56	1.23
49525549--49525619	22	3.3	22	84	3	83	38	5	0	56	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49525549--49525599	10	4.9	10	86	9	66	35	1	0	62	1.06
49527934--49527980	23	2.0	23	95	0	85	46	6	12	34	1.67
49529819--49529907	39	2.3	38	77	11	90	35	1	5	57	1.30
49534288--49534357	32	2.3	30	82	9	79	48	2	0	48	1.16
49534846--49534884	19	2.1	19	100	0	78	15	30	15	38	1.88
49535739--49535794	28	2.0	28	82	6	69	55	0	0	44	0.99
49535760--49535800	20	2.0	21	85	4	57	58	0	0	41	0.98
49541246--49541276	4	7.5	4	92	7	53	22	0	0	77	0.77
49541246--49541276	13	2.5	13	94	5	55	22	0	0	77	0.77
49541286--49541334	24	2.1	23	85	14	66	44	0	2	53	1.12
49541347--49541435	23	4.1	21	72	22	78	37	2	0	60	1.09
49541422--49541472	21	2.4	21	81	15	61	37	0	1	60	1.08
49541672--49541697	4	6.5	4	100	0	52	23	0	0	76	0.78
49541738--49541780	19	2.1	22	87	12	65	39	0	0	60	0.97
49541705--49541778	23	3.4	22	74	9	62	44	0	4	51	1.20
49541779--49541848	23	3.1	22	80	10	79	42	0	1	55	1.08
49542196--49542228	14	2.3	15	94	5	59	57	0	0	42	0.98
49542203--49542319	31	3.6	31	72	20	96	58	0	1	38	1.14
49542286--49542339	21	2.6	21	88	5	74	61	1	1	35	1.18
49542394--49542433	4	9.5	4	84	10	53	75	0	2	22	0.93
49542397--49542433	13	2.8	13	95	0	65	75	0	2	21	0.92
49542388--49542433	17	2.6	17	83	10	58	73	0	2	23	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49558419--49558471	25	2.1	25	100	0	106	49	15	3	32	1.62
49572047--49572092	24	1.9	24	82	8	58	56	4	15	23	1.57
49572232--49572391	53	3.0	53	100	0	320	48	9	8	33	1.65
49574749--49574781	14	2.3	15	94	5	59	45	0	3	51	1.16
49575445--49575496	24	2.2	24	83	10	63	55	0	3	40	1.18
49577652--49577722	27	2.7	27	81	14	87	54	0	1	43	1.08
49577907--49577941	13	2.8	12	87	8	52	31	0	2	65	1.07
49578099--49578128	10	2.9	10	95	5	51	33	0	0	66	0.92
49578116--49578167	23	2.3	22	75	15	52	44	3	3	48	1.39
49578295--49578338	22	2.0	22	100	0	88	31	18	13	36	1.90
49584197--49584235	14	2.7	15	84	15	55	10	25	0	64	1.25
49584216--49584252	19	1.9	19	88	0	56	8	24	0	67	1.17
49589635--49589664	14	2.1	14	93	0	51	66	3	0	30	1.07
49597296--49597520	47	4.8	48	76	10	182	28	16	29	24	1.97
49597296--49597511	94	2.3	93	80	4	229	28	16	29	25	1.97
49603703--49603745	19	2.3	19	83	0	50	53	20	6	18	1.67
49605356--49605387	6	5.3	6	96	0	55	53	12	18	15	1.73
49605559--49605609	20	2.5	20	78	18	52	35	0	1	62	1.06
49606298--49606340	11	3.8	11	77	17	52	51	2	0	46	1.13
49606309--49606359	22	2.3	23	82	3	59	54	3	1	39	1.30
49614441--49614530	46	2.0	46	88	0	135	34	10	13	42	1.77
49614596--49614642	17	2.7	18	84	15	64	36	0	8	55	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49634313--49634339	5	5.4	5	100	0	54	62	37	0	0	0.95
49639142--49640891	875	2.0	875	100	0	3500	38	18	14	28	1.90
49642815--49642845	12	2.6	12	94	0	53	74	0	0	25	0.82
49643578--49643807	6	38.3	6	100	0	460	50	16	0	33	1.46
49651376--49651440	6	10.2	6	75	18	60	18	3	1	76	0.99
49651394--49651442	20	2.4	22	80	19	70	14	4	2	79	0.97
49651376--49651458	40	2.1	40	82	8	98	16	4	3	74	1.13
49652532--49652561	10	3.0	10	90	0	51	76	0	13	10	1.01
49663220--49663246	6	4.5	6	100	0	54	14	0	0	85	0.61
49664320--49664386	34	2.0	34	100	0	134	17	26	7	47	1.74
49666611--49666657	25	2.0	25	83	8	62	27	14	4	53	1.60
49666918--49667381	46	11.0	44	93	4	484	21	24	16	36	1.94
49667143--49667370	38	6.0	38	100	0	456	23	26	18	31	1.97
49668711--49668787	27	2.8	28	74	16	72	55	3	1	38	1.26
49669832--49669863	5	6.6	5	92	7	57	81	0	0	18	0.70
49669833--49669863	9	3.3	9	95	4	53	80	0	0	19	0.71
49673382--49673903	263	2.0	263	99	0	1026	21	27	14	36	1.93
49677575--49677626	18	2.9	18	85	0	68	36	11	9	42	1.74
49678050--49678361	72	4.3	72	81	3	344	24	6	16	52	1.66
49679725--49679780	9	6.2	9	87	0	76	39	7	26	26	1.82
49679725--49679780	27	2.1	27	100	0	112	39	7	26	26	1.82
49679642--49679890	135	1.8	135	98	1	482	39	7	24	28	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49682861--49683002	27	5.3	27	85	1	70	29	25	9	35	1.87
49682878--49683117	81	3.0	81	88	1	329	28	22	8	40	1.84
49682880--49683117	27	8.8	27	82	0	296	28	22	8	40	1.83
49683130--49683325	27	7.3	27	87	0	248	35	18	19	26	1.95
49683524--49683606	27	3.1	26	87	5	112	19	21	21	37	1.94
49683677--49683868	6	31.8	6	72	16	148	19	15	14	50	1.78
49685387--49685460	29	2.5	29	82	8	87	50	14	13	21	1.78
49685755--49685805	13	3.9	13	89	0	75	41	21	0	37	1.54
49694187--49694274	43	2.0	43	97	0	167	25	9	29	36	1.86
49695977--49696016	21	1.9	21	85	10	55	55	20	25	0	1.44
49698366--49698457	45	2.0	46	93	2	159	32	14	13	40	1.84
49709043--49709084	20	2.1	21	86	8	61	71	0	26	2	0.98
49713508--49713662	41	3.6	42	78	8	134	25	17	27	29	1.97
49713493--49713625	45	3.0	45	82	5	166	24	16	25	33	1.96
49715123--49715153	13	2.3	14	94	5	55	32	6	12	48	1.67
49727577--49727601	10	2.5	10	100	0	50	36	8	28	28	1.85
49728571--49728626	21	2.7	21	82	0	67	8	16	28	46	1.77
49728674--49728860	85	2.2	86	88	0	277	30	31	17	21	1.96
49728688--49728860	43	4.0	43	90	1	267	28	31	17	21	1.97
49730327--49730420	30	3.0	31	85	4	136	52	9	5	32	1.57
49734063--49734149	8	10.9	8	76	11	72	29	2	4	63	1.27
49735403--49735547	40	3.6	39	82	3	182	23	26	19	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49736054--49736108	27	2.0	27	86	6	76	60	1	0	38	1.08
49739530--49739598	34	2.2	29	79	18	77	44	0	0	55	0.99
49739536--49739597	34	1.9	34	87	9	94	48	0	0	51	1.00
49740981--49741124	58	2.5	58	79	4	148	28	12	22	36	1.91
49741342--49741560	98	2.2	95	75	9	215	21	24	16	37	1.93
49741209--49741610	49	8.3	49	72	9	195	21	23	17	37	1.94
49741668--49741708	19	2.2	18	95	4	73	48	21	9	19	1.77
49746957--49747016	17	3.5	17	74	21	63	65	0	1	33	1.03
49747498--49747623	19	6.9	18	88	5	175	36	15	11	37	1.83
49747498--49747615	35	3.3	35	95	3	200	36	14	11	37	1.83

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