genome.fa.s6.2.7.7.80.10.50.1000.46.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  46  of  168  ( 20060 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)
12813295--12813324	14	2.1	14	100	0	60	26	13	6	53	1.64
12813880--12813963	45	1.9	43	80	4	96	38	13	2	46	1.56
12814357--12814509	9	17.9	9	67	16	67	47	17	3	30	1.66
12814467--12814528	18	3.4	17	71	10	52	48	20	1	29	1.59
12814476--12814549	37	2.0	37	97	0	139	50	16	2	31	1.59
12814558--12814590	15	2.2	15	94	0	57	39	3	3	54	1.31
12814934--12815030	16	5.9	16	70	15	56	50	18	1	29	1.54
12814893--12815275	25	15.2	25	76	9	126	46	19	3	30	1.65
12814910--12815214	41	7.8	41	76	16	288	47	19	3	30	1.65
12814950--12815277	50	6.7	49	79	8	273	45	20	3	31	1.67
12814951--12815039	16	6.0	16	71	17	66	49	19	2	29	1.60
12815002--12815277	75	3.7	73	88	5	326	45	20	3	30	1.68
12814950--12815268	34	9.5	35	70	17	142	45	20	3	31	1.68
12820885--12820953	21	3.3	21	72	0	66	34	20	40	4	1.72
12820938--12821010	12	6.3	12	78	9	80	41	19	38	1	1.60
12820921--12820998	33	2.4	33	95	0	147	38	20	41	0	1.53
12821428--12821783	42	8.4	42	86	5	400	26	21	21	30	1.98
12821430--12821764	84	4.0	84	86	5	446	25	21	21	31	1.98
12821430--12821783	126	2.8	126	85	6	441	25	21	22	30	1.98
12821855--12821897	22	1.9	23	90	4	70	48	25	16	9	1.75
12824804--12824851	25	1.9	25	91	0	78	18	4	22	54	1.61
12826645--12826690	23	2.0	23	100	0	92	56	21	0	21	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12832851--12832989	49	2.8	49	79	4	154	32	27	16	23	1.96
12839789--12839824	18	2.0	18	88	0	54	27	33	11	27	1.91
12840236--12840260	12	2.1	12	100	0	50	44	24	0	32	1.54
12846959--12847362	27	15.0	27	87	2	508	19	17	21	42	1.89
12849668--12849706	16	2.4	16	86	0	51	23	41	0	35	1.55
12849677--12849708	16	2.0	16	93	0	55	18	40	0	40	1.51
12863257--12863305	21	2.3	21	86	6	64	16	32	26	24	1.96
12865107--12865150	21	2.1	21	100	0	88	61	25	0	13	1.32
12876951--12876986	18	1.9	19	88	5	56	58	8	16	16	1.61
12878286--12878492	41	5.0	41	80	3	229	19	25	16	38	1.92
12878285--12878492	82	2.5	82	81	3	258	19	25	16	38	1.92
12883418--12883460	15	2.9	15	85	0	59	34	4	34	25	1.77
12900013--12900089	31	2.4	32	76	8	86	35	9	7	48	1.64
12900143--12900184	22	2.1	19	86	13	57	45	0	0	54	0.99
12900143--12900181	16	2.5	15	83	8	51	46	0	0	53	1.00
12903482--12903560	39	2.0	39	100	0	158	34	7	15	43	1.75
12905883--12906027	24	6.0	24	75	5	112	35	21	26	16	1.95
12905877--12906002	49	2.6	50	76	7	132	35	22	25	16	1.95
12913438--12913580	49	2.9	49	81	11	159	34	20	23	20	1.96
12913438--12913604	24	6.8	24	73	12	119	34	20	24	20	1.97
12913428--12913603	73	2.4	74	77	11	184	33	19	24	22	1.97
12914852--12915137	42	6.7	42	84	6	337	23	16	22	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12914844--12915137	128	2.3	125	84	5	385	23	16	22	36	1.94
12919247--12919286	20	2.0	20	90	4	64	60	7	12	20	1.56
12920409--12920433	13	1.9	13	100	0	50	24	8	4	64	1.38
12921427--12921565	32	4.4	32	89	0	199	38	22	20	19	1.94
12921769--12921850	24	3.4	24	84	0	92	48	18	7	25	1.73
12921807--12921879	24	3.0	24	83	0	92	43	20	8	27	1.80
12921807--12921904	24	4.0	24	81	5	90	40	21	11	26	1.87
12921916--12922091	27	6.6	27	80	3	176	22	17	19	39	1.92
12921895--12922091	54	3.7	52	77	5	173	22	19	19	38	1.94
12921893--12922091	81	2.5	79	79	8	206	23	19	19	38	1.94
12926322--12926395	32	2.3	32	79	4	87	8	29	35	27	1.85
12932950--12933046	48	2.0	48	91	0	158	42	21	17	18	1.89
12933248--12933311	17	3.6	17	74	15	67	46	14	12	26	1.79
12933266--12933319	17	2.9	19	71	20	60	46	16	12	24	1.82
12933249--12933319	36	2.0	36	97	0	133	46	15	12	25	1.81
12938091--12938185	48	2.0	48	91	0	154	43	21	15	20	1.88
12938407--12938460	17	2.9	19	71	20	60	46	14	12	25	1.81
12938390--12938460	36	2.0	36	94	0	124	47	12	12	26	1.77
12938389--12938452	17	3.6	17	72	15	58	48	10	12	28	1.75
12942423--12942454	16	2.0	16	93	0	55	9	6	18	65	1.42
12946668--12946700	15	2.2	15	94	0	57	63	12	0	24	1.28
12946708--12946747	13	3.2	12	86	10	53	75	7	2	15	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12947036--12947099	26	2.4	28	82	10	80	59	4	6	29	1.42
12948332--12948373	17	2.5	17	88	7	59	4	19	35	40	1.72
12948347--12948390	15	2.8	16	83	10	54	13	20	36	29	1.91
12950038--12950091	27	2.0	27	88	0	81	40	14	12	31	1.84
12955509--12955546	20	1.9	20	94	0	67	36	5	5	52	1.47
12955507--12955556	20	2.5	20	83	6	66	36	4	4	56	1.37
12956876--12956936	31	2.0	31	83	6	79	36	4	11	47	1.61
12961631--12961670	20	2.0	20	85	5	53	60	5	0	35	1.19
12962409--12962442	10	3.3	10	95	4	59	0	0	11	88	0.52
12962413--12962443	15	2.1	14	94	5	53	0	0	9	90	0.46
12962409--12962444	11	3.4	11	88	7	56	0	0	13	86	0.58
12962463--12962529	25	3.0	22	77	16	57	44	5	0	49	1.27
12963635--12963689	18	3.1	18	75	14	53	61	3	3	30	1.30
12964493--12964530	19	2.0	20	84	5	51	26	0	5	68	1.11
12964466--12964500	9	3.9	9	100	0	70	42	0	0	57	0.99
12977990--12978053	19	3.4	20	72	14	64	45	0	1	53	1.10
12978015--12978080	25	2.6	25	79	15	73	45	1	4	48	1.32
12978038--12978095	31	1.9	29	82	6	71	39	3	5	51	1.41
12979601--12979634	16	2.1	16	88	0	50	58	0	14	26	1.36
12982059--12982084	2	13.0	2	100	0	52	50	0	0	50	1.00
12983177--12983219	22	2.0	22	86	9	61	34	16	11	37	1.85
12988144--12988211	33	2.0	34	82	2	84	32	1	4	61	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12990132--12990197	27	2.5	26	85	4	89	39	15	0	45	1.46
12990246--12990313	13	5.2	13	72	1	64	38	26	1	33	1.66
12990212--12990313	26	3.9	25	75	7	78	36	22	3	37	1.73
12990358--12990661	45	6.7	45	80	1	279	22	19	12	46	1.83
12990415--12990485	21	3.2	21	66	21	54	21	16	11	50	1.76
12990402--12990691	90	3.2	90	77	4	199	22	18	13	45	1.84
12991723--12991747	13	1.9	13	100	0	50	60	0	0	40	0.97
12991805--12991836	16	2.0	16	93	0	55	53	0	6	40	1.26
12994497--12994700	57	3.6	57	79	4	180	24	6	19	49	1.72
12999104--12999151	24	2.0	24	83	0	60	22	22	18	35	1.96
12999339--12999402	24	2.6	24	72	2	56	20	26	21	31	1.98
13008856--13008908	3	17.7	3	100	0	106	66	0	33	0	0.92
13008959--13008992	11	3.1	11	87	12	52	26	0	0	73	0.83
13009682--13009738	25	2.3	25	84	6	71	31	28	17	22	1.97
13011190--13011258	35	1.9	36	94	2	122	50	18	2	27	1.61
13011230--13011302	27	2.6	29	76	6	80	54	19	2	23	1.56
13013184--13013266	37	2.3	37	93	2	141	54	4	3	37	1.39
13026302--13026337	15	2.5	14	86	8	54	44	8	0	47	1.33
13028017--13028046	15	2.0	15	93	0	51	83	0	16	0	0.65
13031007--13031048	16	2.7	16	81	3	50	47	9	16	26	1.77
13031272--13031312	21	2.0	21	90	0	64	43	0	2	53	1.13
13031328--13031387	19	3.2	18	84	11	68	38	1	3	56	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13033006--13033055	18	2.6	19	78	12	57	60	2	4	34	1.27
13035319--13035343	6	4.2	6	100	0	50	32	0	16	52	1.44
13042417--13042537	43	2.8	41	79	7	116	30	24	18	26	1.98
13045024--13045063	19	2.1	19	85	0	53	37	2	5	55	1.35
13049402--13049428	7	3.9	7	100	0	54	25	0	29	44	1.54
13049447--13049485	17	2.2	18	86	9	53	61	0	2	35	1.10
13049846--13049874	2	14.5	2	100	0	58	51	0	0	48	1.00
13050074--13050394	97	3.3	98	88	2	452	40	17	1	40	1.59
13050488--13050564	40	1.9	39	89	2	118	22	20	24	32	1.98
13052332--13052356	13	1.9	13	100	0	50	32	4	24	40	1.73

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