genome.fa.s11.2.7.7.80.10.50.1000.67.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  67  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)
20074765--20074819	19	2.9	19	86	0	74	38	23	7	30	1.82
20075357--20075406	16	3.2	16	69	11	50	38	0	40	22	1.54
20076090--20076136	17	2.8	17	79	20	62	36	2	6	55	1.37
20076571--20076601	5	6.2	5	100	0	62	19	19	19	41	1.90
20076751--20076779	9	3.2	9	100	0	58	31	10	10	48	1.71
20078312--20078355	2	22.0	2	100	0	88	50	0	0	50	1.00
20087069--20087222	76	2.0	76	93	0	263	40	9	9	39	1.71
20087816--20087849	16	2.1	17	94	5	61	23	17	0	58	1.38
20094961--20095003	22	1.9	23	85	4	61	13	6	11	67	1.41
20098492--20098533	22	1.9	22	95	0	75	26	23	23	26	2.00
20105386--20105420	7	5.0	7	92	0	61	28	17	0	54	1.43
20105386--20105431	19	2.3	19	92	7	74	28	19	0	52	1.47
20105386--20105432	7	7.0	7	83	9	53	27	21	0	51	1.48
20109549--20109593	19	2.4	19	85	7	56	33	4	0	62	1.15
20116055--20116119	23	2.8	23	81	4	69	43	3	0	53	1.16
20117990--20118053	22	2.9	22	75	9	67	73	9	6	10	1.25
20129818--20129862	22	2.0	23	82	4	56	60	0	2	37	1.09
20131328--20131490	82	2.0	82	98	0	317	50	15	4	28	1.65
20134301--20134331	16	1.9	16	93	0	53	58	3	0	38	1.15
20148697--20148752	28	2.0	28	93	6	96	32	12	19	35	1.89
20155356--20155385	6	5.2	6	92	8	53	0	16	0	83	0.65
20158891--20158925	17	2.1	17	89	5	54	34	14	8	42	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20162485--20162514	14	2.1	14	93	0	51	30	6	20	43	1.77
20162704--20162739	19	1.9	19	94	5	65	47	5	0	47	1.25
20162714--20162760	24	2.0	24	87	8	69	44	2	0	53	1.12
20165843--20165882	21	1.9	21	85	10	55	22	5	10	62	1.46
20190412--20190464	20	2.7	20	90	0	88	37	0	50	11	1.38
20190914--20191082	6	28.2	6	76	4	135	31	5	4	59	1.39
20190914--20191082	15	11.3	15	75	5	135	31	5	4	59	1.39
20193161--20193193	16	2.1	16	100	0	66	36	6	33	24	1.80
20193182--20193273	45	2.1	44	89	6	141	31	2	30	35	1.70
20193524--20193566	12	3.4	12	75	12	50	55	0	2	41	1.12
20193421--20193690	120	2.2	121	94	1	472	51	4	1	43	1.30
20193447--20193639	61	3.2	61	73	16	229	50	4	1	43	1.32
20193572--20193752	99	1.8	100	91	4	303	50	6	2	41	1.39
20194951--20194996	23	2.0	23	83	8	58	58	2	4	34	1.30
20196134--20196172	6	6.5	6	100	0	78	35	0	30	33	1.58
20196380--20196419	18	2.2	18	95	0	71	30	12	5	52	1.60
20200165--20200193	14	2.1	14	100	0	58	13	27	31	27	1.94
20208724--20208761	16	2.4	16	90	0	58	31	0	34	34	1.58
20208740--20208830	45	2.0	44	87	2	128	31	5	28	34	1.80
20208881--20209193	156	2.0	157	96	0	574	43	3	5	46	1.44
20209131--20209172	15	2.7	16	82	14	52	52	2	0	45	1.13
20209140--20209181	15	2.9	15	82	10	52	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20209370--20209421	15	3.6	15	80	12	56	53	1	0	44	1.11
20209134--20209546	120	3.4	120	95	2	724	49	5	2	42	1.40
20209587--20209634	26	1.9	26	87	8	73	54	2	0	43	1.12
20209542--20209770	92	2.5	92	83	8	236	47	3	3	44	1.40
20213429--20213611	48	3.8	47	94	0	294	36	6	6	50	1.55
20213441--20213611	25	7.1	25	70	17	137	35	7	7	50	1.57
20213445--20213611	23	7.0	24	73	14	148	35	7	7	50	1.57
20213429--20213611	96	1.9	96	95	0	330	36	6	6	50	1.55
20215891--20215916	5	5.2	5	100	0	52	80	0	19	0	0.71
20218049--20218094	19	2.3	20	85	7	67	56	4	0	39	1.19
20218099--20218159	21	3.0	20	80	7	59	60	1	3	34	1.23
20218945--20218991	6	7.8	6	97	0	76	78	17	4	0	0.90
20230368--20230411	18	2.6	18	85	7	56	56	2	0	40	1.11
20230378--20230417	18	2.2	18	90	0	62	57	0	0	42	0.98
20232331--20232398	32	2.1	32	91	0	109	19	23	11	45	1.83
20244879--20244918	20	2.0	20	95	0	71	25	32	5	37	1.77
20249528--20249570	20	2.2	20	83	8	52	25	4	0	69	1.07
20249560--20249622	26	2.4	26	86	5	83	47	0	1	50	1.10
20249603--20249646	18	2.5	18	85	10	56	40	0	4	54	1.21
20249608--20249679	20	3.7	20	83	7	94	38	0	5	55	1.23
20253524--20253566	19	2.3	19	84	15	54	65	0	4	30	1.13
20253524--20253583	10	6.3	9	76	16	59	63	0	5	31	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20253524--20253580	29	2.0	29	86	6	80	61	0	5	33	1.18
20253543--20253589	18	2.5	19	75	6	51	61	0	4	34	1.15
20253715--20253781	30	2.3	28	78	14	73	59	0	5	34	1.22
20253735--20253810	10	8.1	9	72	22	59	60	0	2	36	1.11
20253734--20253771	19	2.0	20	94	5	69	63	0	5	31	1.17
20253735--20253819	11	7.5	11	70	25	54	61	0	2	36	1.09
20253742--20253832	37	2.4	36	76	16	89	62	1	2	34	1.14
20253733--20253889	56	2.8	57	74	18	159	61	1	3	33	1.25
20253918--20253996	41	2.0	38	82	7	95	41	5	1	51	1.31
20254036--20254079	20	2.3	19	84	4	52	31	2	2	63	1.19
20273971--20274023	29	1.9	26	85	11	70	24	0	1	73	0.93
20275707--20275757	13	3.9	13	84	0	66	25	9	25	39	1.86
20280574--20280794	45	4.9	45	89	1	309	50	9	18	21	1.74
20282812--20282876	21	3.1	20	74	22	62	23	1	7	67	1.25
20299595--20299637	22	2.0	22	100	0	86	37	13	25	23	1.92
20304161--20304220	24	2.6	22	77	15	59	58	3	5	33	1.36
20304999--20305039	2	20.5	2	100	0	82	51	0	0	48	1.00
20307504--20307528	4	6.2	4	100	0	50	52	0	0	48	1.00
20311841--20311893	14	3.8	14	78	9	63	28	60	3	7	1.41
20311829--20311893	28	2.3	28	100	0	130	27	58	6	7	1.50
20313444--20313470	14	1.9	14	100	0	54	25	0	14	59	1.36
20314718--20314806	45	2.0	45	100	0	178	34	11	13	40	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20315683--20315712	14	2.2	14	94	5	53	53	0	0	46	1.00
20316092--20316120	2	14.5	2	100	0	58	51	0	0	48	1.00
20316418--20316445	13	2.2	13	100	0	56	53	0	0	46	1.00
20316888--20316990	41	2.5	41	87	0	134	26	26	20	27	1.99
20316928--20317005	41	1.9	41	86	0	111	28	25	20	25	1.99
20318088--20318112	13	1.9	13	100	0	50	40	24	4	32	1.73
20319245--20319282	17	2.2	19	86	13	55	36	10	0	52	1.36
20323834--20323876	21	2.0	21	86	0	59	30	0	16	53	1.43
20333125--20333170	21	2.1	21	84	4	56	58	8	10	21	1.58
20338887--20338924	16	2.4	16	86	8	51	44	21	18	15	1.86
20341553--20341775	113	2.0	113	95	0	401	37	19	13	29	1.90
20342730--20342976	120	2.0	121	92	0	415	30	24	19	25	1.98
20345486--20345543	19	3.1	19	100	0	116	22	31	15	31	1.95
20346249--20346290	16	2.6	16	88	0	57	42	16	16	23	1.88
20350578--20350621	21	2.1	21	91	0	70	34	36	20	9	1.84
20355795--20355847	16	3.3	16	94	0	88	37	5	33	22	1.78
20355827--20355923	44	2.2	44	85	5	124	30	5	28	35	1.79
20357738--20358117	190	2.0	190	98	0	733	39	15	17	27	1.90
20358411--20358448	2	19.0	2	100	0	76	50	0	0	50	1.00
20360122--20360162	17	2.4	17	91	0	64	41	17	19	21	1.90
20365112--20365404	90	3.3	88	81	5	311	35	15	24	24	1.94
20368114--20368147	10	3.4	10	87	0	50	47	5	2	44	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20370682--20370759	29	2.6	29	81	4	75	29	8	17	43	1.80
20375343--20375382	20	2.0	20	90	9	64	27	25	5	42	1.75
20376424--20376479	28	2.0	28	100	0	112	50	17	10	21	1.77
20379760--20379832	36	2.0	36	94	0	128	28	30	19	21	1.98
20381375--20381839	44	10.5	44	82	4	436	29	17	23	29	1.97
20381375--20381757	176	2.2	176	85	2	502	29	17	22	30	1.97
20381414--20381839	89	4.8	88	81	6	432	29	17	23	29	1.97
20383730--20383817	3	28.7	3	78	13	72	36	2	2	59	1.23
20385459--20385504	19	2.4	19	85	7	58	23	21	8	45	1.80
20388345--20388393	21	2.3	22	82	6	57	69	0	18	12	1.19

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