genome.fa.s5.2.7.7.80.10.50.1000.159.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   

This is table  159  of  208  ( 24913 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)
48401999--48402053	24	2.2	24	84	9	67	45	0	1	52	1.11
48402194--48402284	45	2.0	44	85	2	119	32	29	5	31	1.80
48402263--48402316	16	3.4	16	92	0	81	29	37	0	33	1.58
48402992--48403025	17	2.0	17	100	0	68	47	11	0	41	1.40
48403683--48403738	25	2.2	25	90	0	85	42	5	8	42	1.59
48405467--48405541	3	25.3	3	78	8	82	66	4	0	29	1.09
48405467--48405542	30	2.6	30	87	6	102	67	3	0	28	1.09
48418742--48418774	2	16.5	2	100	0	66	51	0	0	48	1.00
48418998--48419063	3	22.3	3	75	9	64	68	3	0	28	1.05
48418998--48419064	24	2.7	24	84	9	82	68	2	0	28	1.04
48429133--48429171	8	5.1	7	90	9	51	74	0	25	0	0.82
48429140--48429171	8	4.1	8	96	4	57	75	0	25	0	0.81
48437288--48437318	3	10.3	3	100	0	62	32	0	35	32	1.58
48439788--48439826	20	1.9	21	84	5	53	56	7	20	15	1.63
48449345--48449378	17	2.0	17	88	11	52	32	23	5	38	1.79
48454921--48454950	16	1.9	16	93	6	53	50	20	0	30	1.49
48456030--48456098	25	2.8	25	93	0	111	33	21	21	23	1.97
48459288--48459392	50	2.1	50	85	0	147	20	29	21	27	1.98
48476664--48476757	29	3.2	29	74	4	82	27	17	15	39	1.90
48482479--48482537	20	2.8	22	77	12	70	42	11	11	33	1.78
48493496--48493549	20	2.8	20	85	2	74	44	7	9	38	1.65
48495809--48495846	12	3.2	12	96	0	67	31	7	34	26	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48510194--48510242	3	16.3	3	91	0	80	63	0	2	34	1.06
48530199--48530229	15	2.1	15	100	0	62	29	25	6	38	1.81
48533067--48533097	13	2.4	13	100	0	62	38	22	6	32	1.80
48535305--48535363	30	1.9	31	86	10	86	28	25	27	18	1.98
48535495--48535545	26	2.0	26	84	0	66	35	25	21	17	1.95
48535758--48535937	81	2.2	81	84	2	245	26	15	15	43	1.86
48535758--48535944	27	6.9	27	78	7	191	26	16	15	42	1.87
48543525--48543594	35	2.0	35	100	0	140	34	17	17	31	1.93
48549878--48549910	3	11.0	3	100	0	66	33	33	33	0	1.58
48550276--48550324	22	2.1	24	85	7	66	18	8	12	61	1.55
48552355--48552392	17	2.2	17	90	0	58	57	5	0	36	1.21
48555731--48555795	2	33.5	2	90	6	107	49	0	0	50	1.00
48556591--48556813	41	5.4	41	92	0	383	28	19	28	23	1.98
48558847--48558965	43	2.8	43	87	3	152	26	15	26	30	1.96
48572474--48572501	2	14.0	2	100	0	56	50	0	0	50	1.00
48572859--48572891	2	16.5	2	100	0	66	51	0	0	48	1.00
48574199--48574318	20	5.9	20	80	1	141	23	15	24	36	1.94
48574196--48574313	61	1.9	61	87	0	173	22	15	23	38	1.92
48574199--48574339	41	3.5	40	78	6	149	25	16	21	36	1.94
48576827--48576912	42	2.0	42	100	0	172	47	4	33	13	1.64
48577750--48577843	47	2.0	47	91	0	152	46	4	17	31	1.67
48581443--48581472	11	2.7	11	94	0	51	43	0	20	36	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48582075--48582112	2	19.0	2	100	0	76	50	0	0	50	1.00
48582727--48582808	40	2.0	40	90	0	128	23	15	30	30	1.96
48592081--48592116	17	2.1	17	89	0	54	33	0	8	58	1.28
48592097--48592142	24	1.9	24	86	8	67	34	2	13	50	1.53
48603454--48603564	19	5.8	19	88	0	168	36	10	15	37	1.82
48604620--48604814	98	2.0	98	93	0	336	27	9	25	37	1.87
48609297--48609341	15	3.0	15	90	6	65	86	6	0	6	0.70
48609300--48609341	8	5.5	8	83	11	52	88	4	0	7	0.64
48610708--48610886	44	4.1	44	67	8	112	31	18	24	25	1.98
48610607--48611025	132	3.2	132	92	0	678	30	21	24	23	1.99
48610607--48611598	264	3.8	262	84	6	915	29	19	24	27	1.98
48611091--48611272	44	4.1	45	67	17	103	29	17	23	30	1.96
48610973--48611598	132	4.7	132	93	1	1042	28	17	23	29	1.97
48611598--48611898	44	6.9	43	74	11	242	28	20	23	26	1.99
48611603--48611852	133	1.9	127	80	8	288	28	20	23	26	1.99
48611598--48611891	89	3.4	84	77	9	218	28	20	23	26	1.99
48612069--48612179	19	5.8	19	86	0	159	36	10	16	36	1.83
48613241--48613432	98	2.0	98	93	0	330	28	10	23	37	1.88
48617357--48617418	30	2.1	30	93	0	106	58	12	3	25	1.50
48622208--48622379	63	2.7	63	83	0	209	33	33	8	24	1.86
48625712--48625736	6	4.2	6	100	0	50	52	0	0	48	1.00
48626026--48626077	26	2.0	26	85	7	70	32	5	5	55	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48626429--48626463	2	17.5	2	100	0	70	51	0	0	48	1.00
48632311--48632398	39	2.2	39	92	8	142	50	4	3	42	1.39
48632311--48632415	39	2.7	40	86	10	128	51	3	3	40	1.38
48632386--48632413	11	2.5	11	100	0	56	60	0	7	32	1.24
48632344--48632490	64	2.3	63	87	6	217	53	2	3	40	1.32
48632393--48632494	12	8.3	12	72	19	59	51	1	2	43	1.27
48632449--48632485	11	3.3	11	92	3	56	64	0	0	35	0.94
48632449--48632494	23	2.0	23	86	0	65	58	0	0	41	0.98
48632874--48632923	13	3.2	16	72	16	52	50	0	0	50	1.00
48632877--48632942	31	2.2	30	86	10	91	45	1	0	53	1.09
48633310--48633374	31	2.1	31	97	0	121	64	0	4	30	1.14
48638277--48638313	16	2.2	17	95	4	67	86	0	13	0	0.57
48639442--48639484	16	2.7	16	81	0	59	18	27	0	53	1.45
48642828--48642865	20	1.9	20	88	0	58	31	36	5	26	1.79
48644780--48644818	14	2.7	15	84	11	55	38	10	17	33	1.84
48645362--48645418	18	3.3	18	76	16	57	49	0	0	50	1.00
48645362--48645396	17	2.1	17	89	10	54	42	0	0	57	0.99
48647770--48647822	15	3.5	15	84	7	72	7	26	26	39	1.83
48650306--48650353	15	3.3	15	77	11	55	14	25	33	27	1.94
48662102--48662522	69	6.1	69	80	3	355	36	21	20	21	1.95
48662171--48662522	138	2.6	138	79	1	402	37	21	20	20	1.94
48662396--48662551	69	2.3	69	81	1	170	39	21	17	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48675272--48675314	20	2.2	19	87	4	59	27	18	11	41	1.85
48687977--48688512	285	1.9	285	95	0	973	23	19	10	46	1.81
48716640--48716701	30	2.1	30	84	6	81	48	11	6	33	1.65
48727736--48727786	22	2.3	22	83	6	59	64	9	9	15	1.48
48730628--48730723	35	2.8	35	75	1	104	28	25	15	31	1.96
48736810--48736840	2	15.5	2	100	0	62	48	0	0	51	1.00
48740792--48740895	12	10.3	11	72	24	63	59	0	2	37	1.12
48740824--48740920	9	10.2	9	73	12	52	68	0	2	29	1.01
48740792--48740895	39	2.6	39	90	4	165	59	0	2	37	1.12
48740857--48740913	29	1.9	30	85	3	80	64	0	1	33	1.04
48740857--48740914	30	1.9	30	85	0	80	65	0	1	32	1.03
48740792--48740912	38	3.1	39	84	9	151	62	0	2	34	1.08
48742459--48742490	2	16.0	2	100	0	64	50	0	0	50	1.00
48772570--48772657	44	2.0	44	97	2	169	39	2	13	44	1.57
48809434--48809474	20	2.0	20	100	0	82	41	9	14	34	1.79
48811833--48811877	23	2.0	23	90	0	72	42	22	6	28	1.79
48811834--48811883	23	2.2	23	85	0	64	46	20	8	26	1.78
48817283--48817309	4	6.8	4	100	0	54	22	0	0	77	0.76
48834989--48835062	9	8.2	9	84	0	67	22	12	24	40	1.88
48834997--48835062	18	3.6	17	83	4	78	25	12	21	40	1.88
48834997--48835062	27	2.4	27	82	5	80	25	12	21	40	1.88
48848942--48849015	23	3.0	24	82	7	96	54	20	0	25	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48857121--48857168	9	5.3	9	79	0	51	29	4	16	50	1.64
48857121--48857168	18	2.7	18	90	0	69	29	4	16	50	1.64
48858485--48858515	12	2.6	12	94	0	53	32	0	12	54	1.38
48864142--48864180	16	2.5	16	95	4	71	38	17	5	38	1.72
48865302--48865337	8	4.3	9	89	10	51	44	8	0	47	1.33
48872083--48872134	25	2.1	25	92	0	86	36	17	15	30	1.91
48876789--48876827	18	2.2	18	86	9	53	17	0	7	74	1.05
48878777--48878907	69	1.9	71	85	3	185	23	7	25	42	1.80
48880024--48880112	37	2.4	37	86	3	126	40	14	11	33	1.82
48880161--48880296	33	4.1	33	76	7	159	46	18	4	30	1.69

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