genome.fa.s11.2.7.7.80.10.50.1000.132.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: 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  132  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)
40143968--40144030	26	2.4	25	77	12	65	36	19	3	41	1.67
40148721--40148759	19	2.1	19	85	9	53	35	12	7	43	1.72
40162449--40162538	27	3.3	27	77	11	112	21	16	22	40	1.92
40162463--40162553	27	3.4	27	74	10	105	21	15	24	38	1.92
40163816--40163851	18	2.0	18	88	0	54	61	0	33	5	1.19
40165124--40165203	25	3.2	25	85	3	99	28	25	15	31	1.95
40165134--40165216	25	3.3	25	88	3	114	28	25	19	26	1.98
40168847--40168895	25	2.0	25	100	0	98	44	16	18	20	1.86
40172787--40172826	14	2.9	14	96	0	71	60	12	0	27	1.33
40174111--40174172	30	2.1	30	90	0	97	37	14	16	32	1.89
40180775--40180820	21	2.2	21	84	3	58	8	23	0	67	1.18
40184854--40184933	40	2.0	40	100	0	160	12	5	15	67	1.38
40187637--40187728	48	1.9	48	100	0	184	41	2	15	41	1.59
40197105--40197153	25	1.9	26	83	4	64	40	10	10	38	1.73
40219280--40219328	20	2.7	18	77	22	57	51	4	2	42	1.32
40220102--40220171	35	2.0	35	97	0	131	30	14	18	37	1.90
40222806--40222956	50	3.0	50	84	4	196	25	15	27	30	1.96
40222869--40222950	26	3.2	26	65	22	64	24	14	28	32	1.94
40223174--40223205	16	2.0	16	93	0	55	59	0	15	25	1.36
40230063--40230107	20	2.3	20	92	3	74	55	2	0	42	1.12
40230742--40230816	31	2.4	31	84	0	96	36	13	6	44	1.70
40231209--40231250	3	14.0	3	100	0	84	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40232884--40233130	50	4.8	50	76	4	183	24	28	19	28	1.98
40235925--40235977	20	2.7	20	75	0	52	56	11	7	24	1.60
40238463--40238507	18	2.5	18	92	0	72	40	26	20	13	1.89
40241913--40241958	23	2.0	23	82	0	56	54	6	0	39	1.26
40241923--40241965	22	1.9	23	85	4	61	62	0	0	37	0.95
40242029--40242074	18	2.6	18	89	0	65	58	23	2	15	1.48
40245081--40245458	28	13.6	28	69	9	173	30	29	14	25	1.95
40245081--40245495	56	7.4	56	74	5	257	30	30	14	25	1.95
40245081--40245314	83	2.8	84	78	6	217	30	31	13	23	1.93
40245127--40245426	84	3.6	83	72	11	245	30	29	15	26	1.95
40245081--40245557	139	3.4	138	78	3	458	29	29	14	26	1.95
40248185--40248244	30	2.0	30	100	0	120	50	16	3	30	1.62
40256760--40256816	27	2.1	27	83	9	71	40	0	17	42	1.49
40264504--40264566	9	6.8	9	76	7	63	36	1	36	25	1.66
40270474--40270512	15	2.8	13	85	14	60	46	28	0	25	1.53
40279345--40279577	114	2.0	114	93	0	394	46	7	5	40	1.55
40282409--40282517	49	2.2	49	88	3	157	26	18	31	23	1.97
40283203--40283263	27	2.2	28	91	5	99	29	1	16	52	1.53
40283715--40283739	11	2.3	11	100	0	50	0	0	12	88	0.53
40284058--40284248	87	2.2	87	81	0	229	34	14	21	29	1.93
40287495--40287564	29	2.3	29	82	7	77	42	2	2	51	1.31
40294971--40295024	27	2.0	26	82	3	63	64	1	20	12	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40295870--40295936	29	2.3	31	80	15	79	35	14	11	37	1.84
40296111--40296189	29	2.6	30	84	6	81	35	10	15	39	1.81
40296120--40296196	29	2.6	30	85	4	102	36	10	19	33	1.86
40297627--40297814	45	4.2	45	85	4	238	22	17	26	34	1.96
40299819--40299953	69	2.0	68	95	1	243	24	8	24	42	1.83
40304353--40304396	17	2.5	19	82	14	58	31	9	0	59	1.29
40304518--40304576	31	1.9	31	100	0	118	49	6	13	30	1.68
40307045--40307203	43	3.7	44	74	7	121	29	26	18	25	1.98
40309699--40309736	3	12.7	3	100	0	76	31	0	0	68	0.90
40316490--40316526	19	1.9	19	88	0	56	37	2	0	59	1.12
40320301--40320358	30	1.9	30	89	0	89	41	3	24	31	1.71
40320570--40320601	13	2.5	13	94	0	55	31	0	12	56	1.37
40320696--40320944	50	4.8	50	87	3	327	26	22	28	21	1.99
40327497--40327616	50	2.4	51	87	1	161	26	25	28	20	1.99
40331903--40332452	140	3.9	139	83	4	687	23	12	12	51	1.74
40332538--40332614	22	3.7	21	72	20	72	25	1	3	68	1.14
40335498--40335542	18	2.5	19	82	7	58	31	0	6	62	1.21
40335845--40335934	44	2.1	43	83	6	110	30	10	5	54	1.56
40337951--40337996	19	2.4	18	82	10	56	23	19	8	47	1.77
40340633--40340759	52	2.5	50	81	13	152	50	14	22	12	1.76
40340635--40340759	51	2.4	53	81	10	152	49	14	23	12	1.77
40341996--40342171	89	2.0	89	91	0	289	29	18	24	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40341996--40342274	44	6.3	45	69	6	183	28	18	24	28	1.98
40342377--40342568	44	4.3	44	80	3	224	31	14	26	28	1.94
40342423--40342585	89	1.8	89	86	0	236	30	15	26	27	1.96
40344218--40344262	18	2.5	19	82	7	58	31	0	6	62	1.21
40344431--40344479	2	24.5	2	95	0	89	48	0	0	51	1.00
40349247--40349298	26	2.0	26	100	0	104	26	11	19	42	1.85
40349254--40349306	26	2.1	25	86	6	72	30	9	20	39	1.84
40360401--40360541	50	2.8	50	78	0	147	23	26	20	29	1.99
40363376--40363454	20	4.0	20	71	12	63	36	21	29	12	1.90
40363374--40363561	60	3.1	60	85	0	259	36	19	29	14	1.92
40363548--40363667	57	2.1	56	93	1	204	27	22	25	25	2.00
40363605--40363768	85	1.9	85	93	2	285	29	20	23	26	1.99
40381881--40381934	19	2.8	18	83	13	63	37	11	9	42	1.73
40381877--40381934	20	2.9	19	82	14	73	39	12	8	39	1.73
40383926--40383969	22	2.0	23	81	4	54	36	6	22	34	1.81
40384130--40384200	20	3.5	20	75	9	72	35	4	16	43	1.68
40385978--40386160	91	2.0	91	100	0	366	28	24	12	35	1.91
40386471--40386528	19	2.9	18	82	17	62	36	10	10	43	1.73
40386635--40386682	22	2.0	25	88	11	75	39	6	2	52	1.39
40388483--40388512	13	2.4	13	94	5	53	46	6	0	46	1.29
40389372--40389474	46	2.4	44	85	9	142	32	21	19	27	1.97
40392091--40392117	12	2.2	12	100	0	54	22	0	7	70	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40392131--40392168	19	2.1	19	90	5	60	39	0	2	57	1.12
40392101--40392169	9	7.7	9	72	8	52	36	0	2	60	1.11
40392392--40392417	5	5.2	5	100	0	52	38	19	19	23	1.93
40392628--40392665	19	2.0	19	89	0	58	39	26	5	28	1.78
40401167--40401220	28	2.0	27	92	3	90	22	25	20	31	1.98
40401499--40401570	27	2.7	27	79	14	78	36	15	16	31	1.90
40405377--40405430	16	3.3	16	80	12	56	18	24	3	53	1.60
40405609--40405955	50	6.8	50	84	3	365	23	29	19	27	1.98
40410934--40410982	19	2.6	20	87	9	68	42	16	0	40	1.48
40415244--40415373	45	2.9	45	85	4	174	41	16	23	18	1.90
40417170--40417198	15	1.9	15	100	0	58	55	0	13	31	1.39
40419010--40419061	27	1.9	27	100	0	104	36	13	26	23	1.92
40420899--40421003	43	2.5	42	79	1	120	26	28	20	24	1.99
40422473--40422532	25	2.4	25	78	13	79	28	3	6	61	1.37
40423092--40423138	19	2.4	20	82	3	60	34	8	8	48	1.64
40425216--40425300	29	2.9	29	80	0	107	38	4	20	36	1.73
40425491--40425531	20	2.0	20	100	0	82	56	9	19	14	1.66
40428716--40428894	59	3.1	59	85	4	211	51	6	6	35	1.53
40429240--40429281	18	2.3	18	95	0	75	42	2	28	26	1.67
40433255--40433306	21	2.4	22	84	12	72	40	3	3	51	1.38
40435493--40435530	19	2.0	19	94	0	67	60	0	7	31	1.25
40438388--40438414	2	13.5	2	100	0	54	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)
40448681--40448706	5	5.2	5	100	0	52	80	0	0	19	0.71
40449406--40449447	21	2.0	21	95	0	75	38	35	9	16	1.81
40453546--40453630	9	9.4	9	85	5	109	27	8	21	43	1.80
40453793--40453817	12	2.1	12	100	0	50	16	24	36	24	1.94
40461592--40461648	17	3.5	17	69	9	55	14	12	12	61	1.57
40464550--40464589	4	10.0	4	94	0	71	47	0	2	50	1.14
40469700--40469736	17	2.2	17	95	0	65	24	2	21	51	1.61
40470884--40471069	46	4.0	46	95	0	318	36	7	25	30	1.84
40475353--40475378	12	2.2	12	100	0	52	65	7	0	26	1.20
40477527--40477660	61	2.2	61	83	6	168	50	4	3	41	1.40

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