genome.fa.s11.2.7.7.80.10.50.1000.166.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   

This is table  166  of  210  ( 25152 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)
49929793--49929832	21	1.9	21	94	0	71	30	52	0	17	1.45
49929941--49929985	7	6.4	7	94	0	63	33	42	0	24	1.55
49930274--49930954	114	6.0	114	95	0	1175	28	25	21	23	1.99
49932067--49932175	43	2.4	45	77	4	123	51	14	15	18	1.77
49939716--49939831	44	2.6	44	95	0	205	22	20	8	48	1.77
49941730--49941760	16	1.9	16	93	0	53	67	0	32	0	0.91
49946387--49946711	43	7.7	43	82	6	344	30	31	16	20	1.95
49946387--49946698	86	3.7	85	83	3	380	30	32	17	20	1.95
49946387--49946698	129	2.5	125	86	2	417	30	32	17	20	1.95
49948207--49948261	25	2.2	26	80	9	69	50	14	3	30	1.60
49958649--49958841	50	3.8	50	91	0	305	20	30	23	25	1.98
49958936--49958965	13	2.3	13	94	0	51	50	13	3	33	1.58
49962428--49962468	13	3.1	14	86	6	50	21	7	24	46	1.77
49962525--49962576	25	2.0	26	85	3	70	25	1	21	51	1.57
49962633--49962724	7	13.0	7	77	6	78	17	1	38	43	1.56
49963906--49963937	16	2.0	16	100	0	64	56	6	12	25	1.59
49964939--49965032	47	2.0	47	89	0	143	29	14	22	32	1.94
49965632--49966062	9	46.6	9	70	23	199	45	17	0	37	1.48
49965747--49966014	103	2.6	103	98	1	509	45	17	0	36	1.49
49965615--49966060	152	2.9	154	85	10	557	45	17	0	37	1.48
49965852--49966061	47	4.3	47	65	26	123	45	18	0	36	1.50
49965955--49966030	16	4.8	16	75	15	86	44	22	0	32	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49965972--49966053	22	3.6	22	76	15	94	45	19	0	35	1.51
49965712--49966014	31	9.5	31	71	18	173	45	17	0	36	1.49
49971672--49971869	87	2.3	87	84	6	251	38	16	31	12	1.86
49971825--49971890	21	3.1	21	82	0	78	33	12	45	9	1.73
49972200--49972627	43	10.1	42	88	2	522	22	21	25	30	1.99
49975809--49975847	18	2.2	18	100	0	78	28	15	10	46	1.78
49979824--49979902	27	2.9	27	76	1	77	20	2	30	46	1.64
49980653--49980714	24	2.5	24	76	2	70	59	0	0	40	0.97
49988730--49988884	66	2.3	66	89	0	238	31	26	15	26	1.96
49988868--49988924	29	2.0	29	92	0	96	29	15	21	33	1.94
49988917--49989039	65	1.9	65	81	5	149	26	21	16	35	1.94
49988814--49988990	95	1.9	95	86	2	257	31	20	15	32	1.94
49990760--49990787	2	14.0	2	100	0	56	50	0	0	50	1.00
49991806--49991834	6	4.8	6	100	0	58	65	17	0	17	1.27
49991869--49991949	9	8.9	9	74	6	56	28	13	19	38	1.90
49991874--49991949	18	4.2	18	78	6	82	28	13	19	38	1.90
49991882--49991949	27	2.5	27	80	0	91	27	13	20	38	1.90
49992737--49992762	7	3.7	7	100	0	52	53	0	30	15	1.42
49992807--49992837	2	15.5	2	100	0	62	51	0	0	48	1.00
49993185--49993230	16	2.9	16	90	0	65	43	2	23	30	1.66
49993352--49993437	34	2.4	35	86	7	104	46	0	2	51	1.13
49993366--49993437	34	2.1	35	92	2	119	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49993370--49993439	11	6.2	12	72	22	53	47	0	0	52	1.00
49993380--49993438	23	2.6	23	81	7	68	44	0	0	55	0.99
49993390--49993441	12	4.4	12	73	22	56	44	0	0	55	0.99
49996257--49996292	19	1.9	19	88	5	56	13	11	0	75	1.06
49996551--49996619	31	2.2	31	97	0	129	39	17	11	31	1.85
49998124--49998166	23	2.0	21	86	9	59	58	4	30	6	1.45
50003066--50003108	23	2.0	21	86	9	59	58	4	30	6	1.45
50011761--50011800	13	3.1	13	85	0	53	27	10	22	40	1.86
50013386--50013440	27	2.0	27	96	0	101	38	9	3	49	1.52
50014005--50014039	12	2.8	12	91	4	52	42	11	8	37	1.72
50014073--50014320	123	2.0	122	97	1	471	41	7	19	31	1.79
50016200--50016238	9	4.5	8	82	17	51	69	0	0	30	0.89
50016199--50016236	17	2.1	17	90	9	58	65	0	0	34	0.93
50016716--50016754	21	1.9	20	84	5	51	30	2	0	66	1.05
50018156--50018192	9	4.1	9	92	0	65	29	10	13	45	1.77
50022884--50022934	23	2.2	23	92	0	84	35	11	19	33	1.88
50022987--50023032	9	5.1	9	94	0	83	45	13	10	30	1.77
50024152--50024177	5	5.2	5	100	0	52	19	19	19	42	1.90
50030144--50030345	32	6.6	32	73	15	133	27	3	17	51	1.62
50030149--50030345	91	2.2	91	95	0	349	27	3	17	51	1.62
50030192--50030342	59	2.5	59	77	11	153	26	4	17	51	1.64
50032573--50032679	42	2.5	43	80	6	135	20	14	14	51	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50034741--50034774	9	3.7	9	88	4	50	67	0	0	32	0.91
50037047--50037087	11	3.5	13	87	12	54	39	4	0	56	1.21
50037037--50037114	40	2.0	38	90	7	120	37	2	0	60	1.11
50037071--50037103	16	2.0	17	88	5	50	36	0	0	63	0.95
50037070--50037148	27	2.8	27	88	7	122	36	1	0	62	1.04
50037047--50037141	11	9.4	11	66	26	50	38	3	0	57	1.14
50043338--50043370	17	1.9	17	93	0	57	54	6	3	36	1.41
50044550--50044710	68	2.4	68	83	3	191	26	14	28	29	1.95
50044685--50044796	40	2.8	40	80	2	136	26	17	30	25	1.97
50049630--50049669	20	2.0	20	90	9	64	47	0	12	40	1.41
50051203--50051717	44	11.8	44	68	14	233	28	23	18	29	1.97
50051190--50051760	219	2.6	219	90	0	892	27	23	19	29	1.98
50051895--50052062	43	3.9	43	86	3	230	25	22	20	32	1.97
50051896--50052062	86	1.9	86	90	2	264	25	22	19	32	1.97
50053286--50053337	7	7.7	7	83	16	58	15	15	1	67	1.32
50053286--50053344	14	4.5	13	80	16	52	15	15	1	67	1.31
50053296--50053343	6	7.7	6	88	11	62	14	14	2	68	1.30
50053296--50053343	11	3.8	12	86	13	62	14	14	2	68	1.30
50054277--50054319	18	2.4	18	84	0	50	16	11	6	65	1.46
50054277--50054301	6	4.2	6	100	0	50	16	16	0	68	1.22
50054349--50054404	6	8.7	6	84	7	58	14	3	12	69	1.31
50054340--50054380	8	5.5	8	86	13	61	9	0	12	78	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50054340--50054386	22	2.2	21	92	3	76	10	2	10	76	1.10
50058410--50058449	20	2.0	20	90	9	64	47	0	12	40	1.41
50063931--50063970	13	3.2	13	85	3	55	47	2	0	50	1.14
50064034--50064058	13	1.9	13	100	0	50	72	0	24	4	1.02
50064922--50064976	25	2.2	25	86	0	74	18	27	20	34	1.95
50064968--50065024	22	2.6	23	86	8	82	12	26	19	42	1.86
50066486--50066627	27	5.3	27	83	6	173	19	15	22	42	1.88
50066484--50066630	54	2.8	53	88	2	215	19	14	23	42	1.88
50070855--50071008	27	5.8	27	80	4	179	22	16	18	41	1.90
50070861--50071008	53	2.8	53	84	5	176	22	17	16	42	1.89
50079876--50079910	18	2.0	17	88	5	52	60	17	5	17	1.55
50080267--50080319	26	2.0	24	82	13	61	54	0	9	35	1.33
50080525--50080562	14	2.7	14	91	0	58	57	2	2	36	1.26
50080519--50080562	17	2.6	16	79	10	52	59	2	2	36	1.23
50081678--50081709	14	2.3	14	100	0	64	21	0	0	78	0.76
50098947--50098983	19	1.9	19	88	0	56	62	0	5	32	1.18
50100307--50100618	43	7.3	43	89	1	464	21	30	21	27	1.98
50101268--50101424	46	3.3	46	72	15	154	35	1	17	46	1.56
50101274--50101329	17	3.1	17	74	18	58	37	0	14	48	1.44
50101349--50101420	21	3.2	21	74	14	72	34	0	16	48	1.47
50103889--50104490	199	3.0	199	88	0	864	29	24	15	31	1.95
50104599--50104706	48	2.2	48	86	1	144	40	0	11	47	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50104691--50104741	19	2.6	20	78	12	61	17	1	3	76	1.03
50104745--50104780	8	4.5	8	90	10	56	38	8	0	52	1.32
50104738--50104776	17	2.3	17	90	0	60	35	7	0	56	1.28
50104736--50104775	9	4.6	9	87	6	55	35	7	0	57	1.27
50104769--50104823	21	2.7	20	71	23	51	41	7	1	49	1.41
50104872--50105059	82	2.3	83	86	2	254	44	23	1	30	1.63
50106394--50106948	114	4.9	114	89	0	842	28	25	21	23	1.99
50107807--50107866	22	2.8	21	75	12	59	38	3	8	50	1.49
50108262--50108311	24	2.1	24	81	7	57	76	2	12	10	1.11
50111632--50111717	43	2.0	43	97	0	163	29	23	20	26	1.99

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210