genome.fa.s20.2.7.7.80.10.50.1000.40.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  40  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)
11866925--11866959	18	1.9	18	88	0	52	60	0	0	40	0.97
11869906--11869972	34	2.0	33	97	2	125	40	11	5	41	1.66
11871716--11871786	28	2.8	25	72	23	67	45	2	4	47	1.36
11871737--11871786	24	2.1	26	82	14	63	46	2	4	48	1.32
11874998--11875026	13	2.1	14	93	6	51	51	0	3	44	1.18
11875396--11875459	31	2.0	32	85	8	87	45	0	7	46	1.32
11876384--11876431	15	3.3	15	82	2	62	37	2	12	47	1.53
11876933--11876973	19	2.2	19	87	12	59	46	0	24	29	1.53
11879265--11879313	23	2.1	23	92	0	80	46	4	6	42	1.47
11883720--11883752	16	2.1	16	94	0	57	48	6	6	39	1.53
11883815--11883846	10	3.4	10	83	16	50	28	0	0	71	0.86
11883815--11883847	9	3.7	9	84	15	50	30	0	0	69	0.88
11886583--11886621	3	13.0	3	100	0	78	33	0	0	66	0.92
11890005--11890053	18	2.7	17	76	14	53	63	12	2	22	1.39
11893123--11893187	9	6.9	9	78	11	60	63	1	3	32	1.19
11895401--11895440	20	1.9	20	85	10	53	75	0	20	5	0.99
11895723--11895969	137	1.8	134	85	5	345	37	10	8	42	1.71
11902993--11903028	16	2.3	16	90	4	56	44	5	2	47	1.41
11905358--11905408	25	2.0	25	100	0	102	52	0	7	39	1.30
11906220--11906259	17	2.4	17	95	0	71	80	0	2	17	0.83
11906220--11906259	6	7.0	6	83	11	57	80	0	2	17	0.83
11912263--11912321	29	2.0	29	100	0	118	30	13	20	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11920317--11920393	28	2.8	28	78	7	93	25	22	22	29	1.99
11922955--11923037	39	2.1	39	88	0	121	42	18	16	22	1.89
11923750--11923790	21	2.0	21	85	0	55	24	2	29	43	1.67
11923764--11923804	21	1.9	22	85	14	59	24	0	31	43	1.54
11923911--11923947	14	2.6	14	91	0	56	21	0	37	40	1.54
11924087--11924136	23	2.2	23	82	3	57	26	4	26	44	1.72
11924123--11924221	50	2.0	51	84	6	130	21	4	35	39	1.72
11924188--11924247	14	4.2	14	81	12	77	18	3	31	46	1.65
11924188--11924250	21	3.0	21	83	2	81	17	3	34	44	1.65
11924192--11924250	7	8.3	7	81	3	64	16	3	37	42	1.66
11924387--11924423	13	2.7	14	87	8	58	43	2	5	48	1.40
11924480--11924519	19	2.1	19	90	0	62	75	2	2	20	1.04
11924782--11924829	18	2.6	18	78	15	53	27	33	0	39	1.57
11924949--11924987	20	2.0	20	94	0	69	17	10	12	58	1.61
11927397--11927797	104	3.8	105	94	1	709	34	5	3	56	1.41
11927397--11927797	209	1.9	208	95	1	723	34	5	3	56	1.41
11927692--11927732	13	3.4	12	78	21	50	29	0	4	65	1.13
11928020--11928073	9	6.0	9	82	0	72	44	14	1	38	1.56
11928019--11928110	27	3.5	27	78	13	93	45	15	1	38	1.53
11933118--11933146	14	2.1	14	93	6	51	34	0	10	55	1.34
11933842--11933910	30	2.3	31	84	2	86	20	8	17	53	1.69
11933919--11934100	43	4.3	43	81	5	217	26	27	17	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11934431--11934471	20	2.0	21	85	4	57	43	0	0	56	0.99
11940872--11940902	11	2.7	11	95	5	53	35	0	3	61	1.12
11940956--11941099	78	1.9	77	88	5	222	54	5	6	34	1.49
11940966--11941117	75	2.0	77	82	8	186	53	9	4	32	1.53
11941620--11941656	17	2.1	19	90	10	60	43	8	40	8	1.64
11944110--11944134	12	2.1	12	100	0	50	44	8	16	32	1.76
11952031--11952119	7	12.3	7	74	19	76	62	5	1	30	1.25
11952031--11952119	15	6.1	14	76	17	76	62	5	1	30	1.25
11952011--11952107	44	2.3	42	94	3	167	60	8	2	28	1.37
11955202--11955381	98	1.8	98	89	0	279	35	21	10	33	1.87
11956747--11956790	20	2.4	17	88	11	61	65	0	34	0	0.93
11959325--11959402	26	3.0	26	81	3	77	30	34	15	19	1.93
11960404--11960483	39	2.1	38	81	4	90	42	17	5	35	1.71
11965490--11965587	49	2.0	49	100	0	196	20	20	14	44	1.86
11967946--11968007	31	2.0	31	96	0	115	30	19	4	45	1.71
11968029--11968081	26	2.0	26	100	0	106	39	3	0	56	1.17
11971192--11971241	22	2.2	23	82	7	57	38	24	12	26	1.90
11976067--11976128	34	2.0	29	100	0	79	38	19	22	19	1.93
11989226--11989349	1	124.0	1	100	0	248	0	0	0	100	0.00
11996427--11996491	23	2.9	23	95	2	114	35	32	4	27	1.77
12001868--12001900	17	1.9	17	93	0	57	72	6	0	21	1.05
12010956--12011012	24	2.4	24	87	0	78	14	3	61	21	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12011034--12011077	18	2.4	18	84	0	52	11	9	56	22	1.62
12011067--12011121	18	2.8	20	86	8	69	12	1	63	21	1.38
12011052--12011140	24	3.7	24	76	5	81	11	3	60	24	1.45
12011135--12011205	18	3.9	18	74	7	72	18	7	57	16	1.61
12011135--12011206	12	6.5	12	68	18	57	18	6	58	16	1.60
12011153--12011200	15	3.2	15	69	0	51	16	6	58	18	1.59
12011214--12011293	30	2.7	30	86	0	106	8	8	57	25	1.57
12012306--12012335	12	2.5	12	94	0	51	6	23	40	30	1.80
12017676--12017713	19	2.0	19	100	0	76	26	10	31	31	1.90
12017773--12017908	31	4.4	31	98	0	254	25	19	13	40	1.89
12018268--12018316	17	2.8	18	84	6	57	4	10	4	81	0.95
12028067--12028432	182	2.0	182	100	0	732	20	17	15	46	1.84
12040052--12040085	5	6.6	5	93	6	59	82	0	0	17	0.67
12040051--12040085	11	3.3	11	92	8	63	82	0	0	17	0.66
12040745--12040829	39	2.2	40	85	4	120	40	21	20	18	1.92
12041318--12041352	15	2.4	14	90	4	52	20	0	34	45	1.51
12041279--12041357	22	3.6	22	71	8	54	24	0	29	46	1.53
12041333--12041380	25	1.9	25	87	8	71	18	0	41	39	1.51
12041571--12041609	14	2.8	14	88	0	60	25	0	25	48	1.51
12041633--12041680	15	3.3	15	82	5	62	18	0	35	45	1.50
12041628--12041677	22	2.3	21	82	3	64	22	0	32	46	1.52
12041669--12041709	14	2.9	15	85	7	59	19	2	43	34	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12041662--12041701	21	1.9	21	84	0	53	15	2	42	40	1.60
12048744--12048768	10	2.5	10	100	0	50	36	0	0	64	0.94
12050094--12050148	26	2.1	26	100	0	110	29	10	7	52	1.63
12050462--12050498	17	2.2	17	100	0	74	83	0	0	16	0.64
12050458--12050508	6	8.5	6	89	8	77	78	0	3	17	0.90
12050771--12050834	31	2.0	33	84	6	87	50	7	3	39	1.47
12051455--12051493	18	2.1	19	86	13	55	30	5	0	64	1.15
12052632--12052756	62	2.0	62	98	0	241	49	16	12	22	1.78
12053020--12053062	10	4.3	10	84	0	50	48	6	2	41	1.43
12053496--12053549	26	2.1	26	96	0	99	29	14	20	35	1.93
12058539--12058578	20	2.0	20	100	0	80	45	20	15	20	1.86
12061677--12061896	116	1.9	115	87	0	323	32	15	20	31	1.93
12064598--12064635	16	2.3	16	90	4	58	2	21	0	76	0.91
12064596--12064642	13	4.0	12	79	20	55	2	23	0	74	0.93
12064623--12064682	32	1.9	31	83	10	77	6	21	6	65	1.40
12065694--12065741	20	2.5	19	83	10	53	68	2	6	22	1.23
12065736--12065797	27	2.3	26	78	8	70	51	11	0	37	1.38
12070452--12070542	19	4.9	19	89	8	152	38	10	14	36	1.81
12070452--12070549	35	2.7	37	86	12	141	38	10	15	35	1.81
12078239--12078454	109	2.0	109	97	0	405	34	19	22	24	1.97
12078646--12078833	90	2.2	82	87	10	258	32	17	22	27	1.96
12078694--12078838	47	3.2	47	62	25	119	30	15	24	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12078677--12078885	90	2.4	88	87	5	296	29	16	23	30	1.96
12078422--12079051	299	2.1	298	91	0	1028	32	18	22	26	1.97
12078916--12079209	78	3.8	78	86	2	394	31	19	23	25	1.98
12079149--12079422	45	6.1	45	77	5	257	30	16	28	24	1.97
12079239--12079407	89	1.9	89	88	0	257	30	15	28	24	1.96
12079149--12079405	134	1.9	136	84	7	344	29	16	28	25	1.97
12079770--12079860	19	4.9	19	89	8	152	37	9	15	37	1.81
12079770--12079883	19	5.8	22	84	14	87	36	8	15	38	1.79
12080152--12080187	18	1.9	19	88	5	56	30	0	0	69	0.89
12084758--12084792	16	2.2	16	90	5	54	60	0	22	17	1.37

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