genome.fa.s10.2.7.7.80.10.50.1000.132.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  132  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)
43825867--43825918	3	17.0	3	78	4	50	57	3	3	34	1.35
43825879--43825918	16	2.6	16	88	4	55	57	5	5	32	1.42
43825953--43826090	23	6.0	23	71	19	92	55	5	6	32	1.47
43828036--43828075	15	2.3	18	84	16	50	75	0	2	22	0.93
43828036--43828068	15	2.1	15	94	5	57	75	0	0	24	0.80
43828038--43828081	21	2.1	21	83	8	54	70	0	4	25	1.06
43832895--43833068	10	18.6	9	66	16	52	60	4	2	32	1.30
43832988--43833028	19	2.3	19	87	8	59	68	2	0	29	1.03
43833026--43833075	21	2.4	22	80	12	61	60	6	0	34	1.21
43833556--43833585	15	2.0	15	100	0	60	33	0	6	60	1.23
43833623--43833664	10	4.3	10	78	3	50	21	0	2	76	0.90
43833623--43833714	33	3.0	28	80	17	96	30	0	3	66	1.08
43833627--43833697	21	3.4	21	75	7	56	29	0	2	67	1.05
43833659--43833722	33	2.0	32	87	9	94	35	0	3	60	1.12
43833593--43833710	20	6.0	21	66	24	62	33	0	2	64	1.07
43833701--43833761	28	2.2	27	81	18	72	37	0	1	60	1.07
43833666--43833762	29	3.4	28	72	16	81	37	0	2	60	1.08
43833623--43833790	9	17.6	9	64	17	54	30	1	1	66	1.10
43836830--43836862	17	1.9	17	93	0	57	63	3	3	30	1.24
43838337--43838469	44	3.0	44	88	3	142	33	26	14	26	1.94
43838375--43838469	44	2.2	44	100	0	190	33	26	13	26	1.94
43838504--43838710	56	3.9	54	83	6	244	38	17	13	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43838715--43838828	58	2.0	58	89	0	174	33	24	18	23	1.97
43838802--43838941	54	2.6	54	87	2	201	34	20	16	29	1.94
43838860--43839156	122	2.4	124	87	3	420	38	21	13	26	1.91
43839035--43839210	71	2.5	70	85	3	212	34	22	14	28	1.94
43847216--43847353	44	3.1	44	88	3	143	31	27	13	26	1.94
43847259--43847353	44	2.2	44	100	0	190	33	26	13	26	1.94
43847388--43847594	56	3.9	54	81	6	226	38	17	14	29	1.89
43847544--43847760	88	2.5	87	88	5	305	36	22	17	24	1.94
43847719--43847858	54	2.6	54	89	2	219	35	20	16	27	1.94
43847777--43848073	122	2.4	125	87	5	424	39	21	13	25	1.90
43847952--43848127	71	2.5	70	84	3	212	34	23	14	28	1.93
43863973--43864070	27	3.5	28	88	2	126	27	13	27	31	1.94
43864001--43864084	27	3.0	27	87	5	96	29	11	25	33	1.91
43867913--43867954	22	2.0	21	90	4	66	50	0	0	50	1.00
43875839--43875892	22	2.3	23	76	23	60	31	7	0	61	1.24
43878132--43878225	30	3.1	30	93	0	161	20	6	48	24	1.72
43878756--43878795	21	1.9	21	89	0	62	30	30	10	30	1.90
43878875--43879426	87	6.2	88	76	10	398	36	18	17	28	1.93
43879250--43879282	14	2.4	14	94	0	57	63	6	12	18	1.48
43879123--43879742	75	7.7	84	76	15	407	34	19	16	29	1.94
43879360--43879803	75	5.9	75	83	5	508	31	22	15	30	1.95
43879359--43879822	73	6.2	74	83	5	528	33	21	15	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43879813--43879849	14	2.8	13	88	8	56	72	5	5	16	1.21
43879805--43879849	13	3.4	13	84	6	63	73	4	6	15	1.21
43879829--43880138	146	2.1	143	85	4	417	34	20	15	29	1.94
43879866--43880118	69	3.5	70	85	5	323	30	20	16	31	1.95
43880054--43880591	89	5.8	89	75	16	434	38	17	16	27	1.91
43880315--43880341	14	1.9	14	100	0	54	70	7	7	14	1.32
43880405--43880441	14	2.8	13	88	8	56	72	5	5	16	1.21
43880397--43880441	13	3.4	13	84	6	63	73	4	6	15	1.21
43880232--43880585	100	3.7	100	83	7	378	38	18	16	25	1.92
43884851--43884919	15	4.6	15	83	0	84	11	17	13	57	1.64
43900212--43900266	25	2.3	23	78	12	58	43	3	16	36	1.65
43900287--43900384	32	3.3	31	72	22	109	54	2	10	33	1.46
43900279--43900396	58	2.1	57	96	1	218	53	1	11	33	1.46
43900385--43900534	25	5.9	25	77	9	124	58	5	6	29	1.46
43900286--43900425	58	2.4	58	86	4	167	55	3	9	32	1.49
43900572--43900626	29	2.1	24	81	18	58	61	1	1	34	1.17
43901104--43901170	30	2.2	30	94	0	116	17	5	50	25	1.69
43901923--43901959	6	6.3	6	84	15	51	0	32	0	67	0.91
43901926--43901961	17	2.1	17	90	10	56	0	33	0	66	0.92
43901916--43901954	21	1.9	20	84	5	51	0	35	0	64	0.94
43903689--43903717	6	4.8	6	100	0	58	51	0	0	48	1.00
43909230--43909257	3	9.3	3	100	0	56	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43913293--43913327	18	1.9	18	100	0	70	8	28	0	62	1.24
43914100--43914133	12	2.9	12	86	4	52	32	0	0	67	0.91
43914258--43914321	30	2.2	30	83	8	78	57	7	6	28	1.51
43914350--43914392	22	2.0	22	85	0	59	58	9	11	20	1.61
43914357--43914397	11	3.7	11	80	0	55	56	7	14	21	1.63
43914358--43914406	22	2.2	22	85	3	62	61	4	16	18	1.50
43917201--43917230	5	6.0	5	100	0	60	20	0	0	80	0.72
43929082--43929116	18	2.0	17	88	5	52	45	0	0	54	0.99
43929281--43929371	45	2.0	45	85	2	121	37	28	6	27	1.82
43929352--43929403	16	3.2	16	94	0	95	36	36	1	25	1.67
43929446--43929470	7	3.6	7	100	0	50	24	0	0	76	0.80
43929458--43929505	24	2.0	24	84	4	62	33	0	6	60	1.22
43931519--43931570	26	2.0	26	81	7	61	11	9	1	76	1.09
43932033--43932116	26	3.2	26	87	0	132	34	5	23	35	1.80
43933590--43933642	26	2.0	26	85	7	72	37	22	15	24	1.92
43943623--43943704	26	3.2	26	92	0	146	35	24	7	32	1.83
43944033--43944073	21	2.0	21	100	0	82	41	9	0	48	1.36
43945479--43945511	16	2.0	17	88	5	50	36	21	0	42	1.53
43949642--43949728	21	4.0	23	80	10	92	14	21	25	37	1.92
43951225--43951263	15	2.7	14	84	7	51	35	2	10	51	1.50
43951419--43951456	14	2.7	14	91	0	58	36	10	5	47	1.61
43952983--43953104	61	2.0	61	81	0	145	42	4	9	44	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43954361--43954408	23	2.1	23	88	0	69	54	10	14	20	1.70
43956276--43956321	24	2.0	23	86	4	65	34	4	4	56	1.39
43958795--43958866	29	2.4	30	81	4	92	63	2	5	27	1.30
43958790--43958889	10	9.7	10	70	14	69	62	2	4	32	1.25
43958815--43958866	19	2.7	19	78	3	59	63	3	3	28	1.30
43958711--43958963	10	27.0	9	66	19	51	60	2	5	32	1.31
43958812--43958915	29	3.9	27	78	13	90	59	2	3	33	1.30
43959160--43959205	10	4.8	10	73	10	51	36	0	2	60	1.09
43959179--43959227	20	2.5	19	76	3	53	34	2	4	59	1.28
43962073--43962109	18	2.1	18	100	0	74	10	5	27	56	1.55
43964503--43964570	23	2.9	23	75	14	68	61	2	5	29	1.34
43971546--43971614	27	2.6	27	90	0	111	18	20	43	17	1.88
43971745--43971787	12	3.6	12	77	0	50	25	60	9	4	1.47
43972290--43972334	19	2.4	19	96	3	83	46	4	8	40	1.55
43972801--43972846	22	2.1	22	84	11	60	28	0	8	63	1.24
43973477--43973519	19	2.4	19	88	7	63	37	13	11	37	1.82
43973485--43973521	19	1.9	19	100	0	74	37	10	16	35	1.83
43973485--43973544	19	2.8	22	85	9	72	36	8	16	38	1.79
43984873--43984924	27	1.9	27	84	7	70	21	53	15	9	1.70
43985194--43985250	23	2.6	21	72	20	53	10	14	5	70	1.32
43985863--43985907	23	2.0	22	83	12	56	31	0	6	62	1.21
43992691--43992716	12	2.2	12	100	0	52	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43993033--43993078	22	2.1	21	88	11	67	34	36	13	15	1.86
43993569--43993595	14	1.9	14	100	0	54	59	0	14	25	1.36
43997765--43997800	18	2.0	18	100	0	72	33	0	0	66	0.92
43998047--43998101	16	3.4	16	92	0	92	29	29	7	34	1.84
43998612--43998694	25	3.3	24	70	12	69	16	19	19	44	1.87
44002356--44002408	26	2.0	26	96	0	97	35	5	3	54	1.42
44004464--44004571	26	4.2	26	91	0	180	32	6	24	37	1.81
44006792--44007028	115	2.1	115	94	0	411	39	14	14	31	1.86
44007269--44007410	71	2.0	69	91	2	230	17	19	34	28	1.94
44014010--44014175	45	3.4	50	76	10	137	31	18	19	30	1.96

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