genome.fa.s20.2.7.7.80.10.50.1000.145.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_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   

This is table  145  of  186  ( 22216 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)
47861902--47861931	4	7.5	4	92	0	51	76	0	23	0	0.78
47868072--47868203	56	2.4	56	89	0	219	29	14	22	33	1.94
47869245--47869279	16	2.1	17	89	5	54	17	2	22	57	1.53
47874137--47874198	31	2.0	31	93	0	106	32	19	19	29	1.96
47879810--47879978	48	3.6	48	81	6	209	30	18	27	23	1.98
47879998--47880091	49	1.9	49	80	8	111	27	20	27	24	1.99
47889384--47889428	22	2.1	21	84	15	58	44	8	24	22	1.81
47891477--47891516	19	2.0	20	90	4	64	40	10	15	35	1.80
47896605--47896734	55	2.4	55	79	10	149	16	26	28	28	1.97
47914472--47914510	20	2.0	20	94	0	69	30	30	12	25	1.93
47919880--47919974	48	2.0	47	85	2	127	48	5	12	33	1.64
47927513--47927559	17	2.8	17	90	0	67	17	27	40	14	1.89
47927685--47927892	27	7.7	27	90	0	308	24	13	20	41	1.88
47933800--47933854	25	2.2	25	83	0	65	25	23	21	29	1.99
47935327--47935400	37	2.0	37	94	0	130	44	4	14	36	1.65
47937265--47937316	20	2.6	20	100	0	104	19	32	32	15	1.93
47938268--47938334	31	2.2	30	89	2	98	43	11	20	23	1.85
47948704--47948892	55	3.5	53	82	5	227	21	24	18	35	1.95
47948874--47949088	95	2.3	90	78	9	216	22	24	18	35	1.96
47960488--47960561	14	5.4	13	70	12	58	58	10	9	21	1.60
47960489--47960573	42	2.0	42	100	0	170	55	9	9	25	1.62
47960491--47960558	21	3.2	21	66	22	61	57	8	10	23	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47960489--47960588	42	2.3	42	93	3	155	54	10	9	27	1.63
47967611--47967781	42	4.1	41	74	12	152	29	27	21	22	1.99
47972594--47972701	43	2.5	42	79	7	110	30	25	17	25	1.97
47990654--47990720	27	2.5	27	92	4	109	23	1	11	62	1.37
47992560--47992729	41	4.2	40	77	5	137	51	7	22	18	1.70
47992560--47992729	81	2.1	80	79	6	173	51	7	22	18	1.70
48003101--48003147	20	2.3	22	75	20	57	53	12	4	29	1.58
48005114--48005138	12	2.1	12	100	0	50	16	8	16	60	1.58
48005857--48006174	47	6.7	47	76	15	248	26	20	30	23	1.98
48005855--48006072	94	2.4	91	86	6	289	25	20	31	23	1.98
48010284--48010321	19	2.0	19	94	0	67	52	13	5	28	1.61
48010313--48010352	14	2.9	14	88	0	53	32	20	7	40	1.80
48014485--48014549	33	2.0	33	100	0	130	43	3	7	46	1.48
48014751--48014831	42	1.9	42	92	0	135	27	18	22	32	1.97
48031359--48031387	13	2.2	13	100	0	58	72	0	13	13	1.13
48031547--48031571	10	2.5	10	100	0	50	28	20	12	40	1.87
48033153--48033429	91	3.0	91	97	0	518	45	14	6	32	1.71
48036560--48036674	57	2.0	57	96	0	212	31	8	26	33	1.87
48038933--48038992	21	2.8	23	80	9	65	21	0	8	70	1.14
48039050--48039084	5	6.8	5	96	3	61	0	37	60	2	1.12
48046419--48046456	20	1.9	20	88	0	58	28	28	2	39	1.70
48077906--48077983	34	2.3	34	95	0	138	43	3	0	52	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48077957--48078005	25	1.9	26	83	4	64	48	0	2	48	1.12
48083118--48083162	24	1.9	23	86	13	65	57	0	37	4	1.19
48086070--48086095	12	2.2	12	100	0	52	69	7	0	23	1.14
48088263--48088357	44	2.2	44	78	3	102	27	14	13	44	1.83
48092190--48092257	24	2.8	24	86	2	91	17	22	20	39	1.92
48105543--48105572	16	1.9	16	93	6	53	30	36	6	26	1.82
48122502--48122535	17	1.9	18	88	5	52	52	5	5	35	1.50
48138509--48138745	27	8.8	27	90	0	332	29	23	8	38	1.83
48138464--48138836	27	13.9	27	80	7	154	34	22	8	35	1.84
48138496--48138773	81	3.5	80	83	2	326	32	22	8	37	1.84
48138738--48138915	27	6.6	27	87	0	212	40	20	10	28	1.86
48138738--48138946	54	3.9	53	80	5	188	40	20	9	29	1.84
48138765--48138946	81	2.3	82	82	4	210	40	20	9	29	1.84
48138936--48139120	27	7.0	27	85	1	223	34	17	22	25	1.96
48139320--48139386	25	2.7	25	88	4	91	26	26	19	26	1.99
48140922--48141514	299	2.0	299	96	0	1107	29	13	25	31	1.93
48142099--48142194	27	3.6	27	89	0	147	33	20	8	37	1.83
48142079--48142222	54	2.7	53	80	4	162	36	20	8	34	1.83
48142173--48142395	27	8.3	27	83	6	193	38	21	9	30	1.85
48142173--48142395	81	2.8	82	84	4	258	38	21	9	30	1.85
48142173--48142395	54	4.1	54	82	4	245	38	21	9	30	1.85
48142385--48142581	27	7.3	27	83	4	254	36	19	19	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48142385--48142583	54	3.7	54	85	1	283	36	19	19	25	1.95
48142374--48142581	81	2.6	80	87	3	301	37	18	19	24	1.94
48142801--48142869	25	2.8	25	88	0	102	24	24	26	24	2.00
48142801--48142887	25	3.6	25	78	10	74	27	22	26	22	2.00
48145277--48145541	27	9.8	27	90	0	350	29	23	8	39	1.84
48145252--48145598	54	6.4	54	81	2	320	32	23	8	36	1.84
48145493--48145604	27	4.1	27	80	0	89	39	25	5	29	1.78
48145529--48145685	81	1.9	81	82	5	192	41	21	7	29	1.80
48145529--48145688	27	5.9	27	80	2	160	40	21	7	30	1.81
48145534--48145768	27	8.7	27	77	5	145	40	20	9	29	1.85
48145534--48145711	54	3.3	54	77	4	162	41	20	8	29	1.81
48145724--48145928	54	3.8	54	86	0	248	38	18	19	24	1.93
48145731--48145928	27	7.3	27	81	4	211	37	18	19	24	1.94
48145724--48145931	81	2.6	81	82	3	258	37	17	19	25	1.93
48146085--48146115	16	1.9	16	93	0	53	29	25	16	29	1.96
48150823--48151046	49	4.6	48	77	9	156	23	26	19	30	1.98
48150877--48151046	46	3.6	46	82	8	189	22	27	19	31	1.98
48150822--48151055	98	2.4	97	80	5	244	24	26	18	30	1.98
48152761--48152835	29	2.6	30	81	8	84	20	21	17	41	1.90
48153413--48153503	45	2.0	45	97	0	173	34	5	15	45	1.69
48153432--48153501	21	3.2	21	64	25	54	35	2	14	47	1.59
48155816--48155851	16	2.2	17	95	5	65	52	11	16	19	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48156062--48156157	29	3.3	29	89	1	149	26	13	31	29	1.94
48159679--48159712	16	2.1	16	100	0	68	26	11	11	50	1.73
48160942--48161000	3	19.0	3	74	19	50	61	3	1	33	1.23
48160942--48161000	7	9.5	6	72	20	50	61	3	1	33	1.23
48160922--48161028	36	3.2	34	75	12	98	59	1	3	34	1.26
48160922--48161028	16	6.4	16	73	18	76	59	1	3	34	1.26
48162492--48162737	84	3.0	83	87	1	357	26	19	20	33	1.96
48162492--48162761	83	3.2	83	84	1	333	28	18	19	33	1.96
48162685--48163249	119	4.7	119	93	0	905	30	18	16	34	1.93
48162685--48163265	239	2.4	238	90	0	919	30	18	16	34	1.93
48168414--48168635	39	5.6	39	84	5	227	23	22	28	24	1.99
48168414--48168637	40	5.7	40	83	6	253	23	22	29	25	1.99
48168414--48168635	79	2.8	79	82	10	238	23	22	28	24	1.99
48168467--48168670	79	2.6	77	78	11	209	25	21	28	25	1.99
48175784--48176082	47	6.3	47	94	0	490	32	8	30	29	1.86
48177446--48178519	40	26.9	40	97	1	1912	22	22	27	27	1.99
48178530--48178629	28	3.5	28	78	8	103	21	17	30	32	1.95
48182178--48182336	49	3.3	49	86	5	218	31	8	30	29	1.86
48182181--48182334	47	3.2	47	89	1	191	31	8	31	29	1.87
48182457--48182535	37	2.1	37	90	0	122	24	18	31	25	1.98
48188472--48188530	3	19.0	3	74	19	50	61	3	1	33	1.23
48188472--48188530	7	9.5	6	72	20	50	61	3	1	33	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48188452--48188558	36	3.2	34	75	12	98	59	1	3	34	1.26
48188452--48188558	16	6.4	16	73	18	76	59	1	3	34	1.26
48190915--48190976	20	3.3	20	70	21	71	35	14	1	48	1.54
48190911--48190980	35	2.0	35	100	0	140	37	14	2	45	1.59
48191153--48191257	41	2.5	43	81	6	117	29	28	17	24	1.97
48191147--48191317	43	4.0	44	74	15	151	31	28	16	22	1.96
48194263--48194302	21	1.9	21	84	0	53	57	12	2	27	1.48
48205772--48205846	37	2.0	37	94	5	134	22	20	29	28	1.98
48205851--48205955	42	2.5	42	77	10	106	28	22	23	24	1.99
48218802--48219125	49	6.7	49	73	10	222	28	18	29	23	1.98

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   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186