genome.fa.s2.2.7.7.80.10.50.1000.2.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  2  of  206  ( 24623 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)
357513--357546	16	2.1	17	88	5	52	26	5	0	67	1.13
363367--363532	31	5.4	29	75	12	127	51	0	10	37	1.41
363358--363519	62	2.6	61	79	4	164	49	0	10	39	1.42
370986--371010	13	1.9	13	100	0	50	48	0	4	48	1.20
371713--371742	2	15.0	2	100	0	60	50	0	0	50	1.00
380019--380058	20	1.9	20	90	10	62	57	0	30	12	1.36
380741--380855	59	1.9	59	84	3	151	40	14	20	23	1.90
392703--392743	20	2.0	21	85	4	57	24	12	31	31	1.92
393312--393348	2	18.5	2	100	0	74	0	48	0	51	1.00
396347--396411	30	2.2	30	80	8	78	49	7	7	35	1.60
398247--398280	18	1.9	18	88	5	52	67	0	0	32	0.91
409841--409891	24	2.2	23	86	10	68	33	1	1	62	1.17
412214--412257	23	2.0	22	81	4	52	27	4	6	61	1.41
420310--420362	22	2.4	21	75	12	52	30	3	3	62	1.30
420328--420369	3	14.7	3	85	9	61	30	2	0	66	1.04
420329--420365	14	2.6	14	86	0	56	32	2	0	64	1.07
420320--420371	20	2.5	20	87	6	68	30	3	0	65	1.10
423531--423608	11	7.4	11	75	17	58	62	0	2	34	1.09
423522--423608	22	4.1	22	73	13	83	64	0	2	33	1.06
423541--423574	17	2.0	17	88	0	50	64	0	0	35	0.94
423554--423626	10	7.3	10	73	14	53	69	0	1	28	0.96
423554--423608	11	5.0	11	82	4	67	67	0	1	30	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
423538--423637	51	2.0	51	90	4	157	63	0	2	35	1.06
423511--423600	40	2.2	40	82	9	112	66	0	2	31	1.04
423623--423647	11	2.3	11	100	0	50	52	0	8	40	1.31
429719--429782	27	2.5	25	82	5	74	34	1	0	64	1.03
434188--434256	32	2.2	32	97	0	129	21	10	21	46	1.81
438710--438776	31	2.2	31	83	0	80	35	5	11	46	1.65
439485--439530	23	2.0	22	83	4	56	54	17	13	15	1.71
440410--440471	31	2.0	31	90	0	97	46	9	8	35	1.66
444694--444770	34	2.3	34	100	0	154	27	27	2	42	1.68
445931--445997	29	2.3	31	87	10	97	26	2	5	64	1.31
448010--448079	30	2.3	30	80	9	72	34	18	7	40	1.78
455989--456047	31	1.9	31	89	0	91	50	10	13	25	1.72
466404--466432	2	14.5	2	100	0	58	51	0	0	48	1.00
472149--472227	37	2.1	37	93	4	133	32	6	24	36	1.80
472809--472845	18	2.0	18	89	5	56	67	0	0	32	0.91
482826--484208	137	10.0	137	75	12	979	28	7	17	46	1.75
482826--483304	257	1.9	257	91	0	798	29	6	18	46	1.73
483211--483482	146	1.9	148	89	1	431	29	7	17	45	1.76
483366--483617	133	1.9	133	86	0	362	30	7	17	44	1.77
483083--484072	424	2.3	424	82	6	1189	27	8	16	46	1.75
483484--484209	145	5.0	143	79	6	707	27	8	17	46	1.77
483523--484209	144	4.8	143	80	6	521	27	9	17	46	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490220--490260	15	2.7	15	88	3	55	46	19	0	34	1.50
490528--490552	4	6.2	4	100	0	50	52	24	0	24	1.48
490649--490673	2	12.5	2	100	0	50	52	0	0	48	1.00
490830--490888	29	2.0	29	87	6	84	25	16	37	20	1.93
494681--494743	31	2.0	31	100	0	126	47	15	22	14	1.81
500327--500352	2	13.0	2	100	0	52	50	0	0	50	1.00
500630--500708	29	2.7	30	75	7	90	26	8	3	60	1.43
500630--500709	30	2.7	30	76	5	92	27	8	3	60	1.44
501020--501064	23	2.0	23	82	8	56	37	13	8	40	1.76
502636--502665	11	2.6	11	94	5	51	40	0	0	60	0.97
509897--509927	5	6.4	5	92	7	55	35	0	0	64	0.94
511630--511668	2	19.5	2	100	0	78	51	0	0	48	1.00
512581--512617	18	2.0	19	89	5	58	56	2	0	40	1.13
512893--512918	5	5.2	5	100	0	52	42	19	19	19	1.90
513346--513392	24	1.9	25	95	4	87	57	0	21	21	1.41
513430--513489	30	2.0	30	83	3	75	41	0	38	20	1.52
513571--513630	30	2.0	30	80	3	68	41	0	38	20	1.52
525744--525782	2	19.5	2	100	0	78	48	0	0	51	1.00
533313--533345	15	2.1	16	88	5	50	54	0	0	45	0.99
535947--536033	20	4.4	19	70	16	77	65	0	1	33	1.00
535908--536011	41	2.5	41	87	7	138	64	0	0	34	1.00
535974--536022	14	3.3	14	76	15	53	61	0	2	36	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
536000--536051	19	2.7	19	84	3	59	73	0	1	25	0.94
537147--537700	239	2.3	239	87	2	776	34	17	18	28	1.94
538499--538570	30	2.4	29	79	9	81	44	9	11	34	1.73
549250--549279	12	2.5	12	94	0	51	46	0	6	46	1.29
552264--552471	96	2.2	96	83	4	267	29	20	21	28	1.98
553218--553287	20	3.4	21	78	9	72	47	1	1	50	1.19
556077--556133	3	19.0	3	96	0	105	0	0	64	35	0.93
556847--556893	19	2.4	19	80	19	53	55	6	6	31	1.51
561505--561547	21	2.0	22	90	4	70	44	34	4	16	1.68
564660--565034	102	3.7	102	72	8	328	33	11	17	37	1.86
564669--565056	206	1.9	207	89	1	607	32	11	17	38	1.85
573267--573301	2	17.5	2	100	0	70	51	0	0	48	1.00
574052--574188	69	2.0	69	88	0	202	37	11	18	32	1.87
575196--575275	21	3.8	21	86	0	106	15	52	7	25	1.68
587642--587694	17	3.0	17	81	13	54	64	9	0	26	1.24
590266--590325	21	3.0	20	81	11	61	61	3	1	33	1.22
590265--590312	18	2.3	20	80	20	55	60	2	0	37	1.09
591494--591537	19	2.5	17	82	10	54	70	4	2	22	1.17
592853--592916	9	6.4	11	78	21	54	59	0	1	39	1.07
592862--592935	9	8.0	9	77	19	73	59	0	1	39	1.06
592862--592956	30	3.4	26	79	19	86	58	0	2	38	1.10
592845--592946	39	2.6	39	90	6	154	59	0	1	38	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
592862--592955	28	3.4	27	80	16	79	58	0	2	39	1.10
592831--592946	39	3.2	36	83	13	132	60	0	1	37	1.07
594791--594858	31	2.2	31	91	0	109	38	8	8	44	1.67
603489--603582	46	2.0	46	93	0	161	38	9	21	30	1.85
607176--607243	30	2.3	30	100	0	136	20	26	33	19	1.96
614574--614644	29	2.4	30	79	9	76	43	18	14	23	1.86
615350--615396	24	2.0	24	86	0	67	34	8	4	53	1.51
617459--617492	13	2.7	12	90	9	50	67	11	11	8	1.42
618216--618436	118	1.9	117	83	7	293	28	20	15	35	1.94
622703--622747	22	2.0	22	86	0	63	28	2	0	68	1.01
627053--627083	16	1.9	16	93	0	53	48	12	6	32	1.67
627219--627265	17	2.9	16	81	12	51	34	0	0	65	0.93
627212--627263	18	2.9	17	77	8	50	34	0	1	63	1.06
629906--629971	31	2.1	31	88	0	96	37	3	10	48	1.53
632018--632042	2	12.5	2	100	0	50	0	0	48	52	1.00
636700--636954	127	2.0	127	96	0	465	27	17	21	33	1.96
637997--638026	2	15.0	2	100	0	60	50	0	0	50	1.00
645648--645696	14	3.1	16	78	21	66	28	12	8	51	1.68
648964--649021	29	2.0	29	89	0	89	55	0	8	36	1.31
649000--649037	16	2.3	17	81	4	51	68	0	0	31	0.90
649518--649640	47	2.7	46	81	10	135	38	3	1	56	1.25
649569--649607	19	2.0	20	95	5	71	30	2	5	61	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
649567--649611	19	2.4	18	86	13	65	33	2	4	60	1.29
649525--649640	46	2.5	44	82	9	126	37	2	1	58	1.22
654057--654098	18	2.2	19	83	8	50	28	0	2	69	1.01
654338--654364	2	13.5	2	100	0	54	48	0	0	51	1.00
658730--659250	132	4.0	133	85	2	678	22	20	16	40	1.91
682920--683028	37	3.0	37	93	2	177	24	22	16	36	1.94
682992--683358	52	7.2	52	86	7	515	26	23	14	34	1.94
682992--683350	98	3.6	98	94	2	592	27	23	14	34	1.94
683003--683364	150	2.4	144	89	5	535	27	22	15	34	1.94
687018--687074	29	1.9	30	85	3	80	19	33	33	14	1.91

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