genome.fa.s6.2.7.7.80.10.50.1000.132.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: 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  132  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)
38525064--38525107	9	4.9	9	81	8	54	59	0	0	40	0.98
38528645--38528801	49	3.2	49	98	0	296	27	5	19	47	1.71
38533103--38533177	35	2.2	33	81	13	82	44	1	0	54	1.08
38534803--38534912	58	1.9	58	88	3	168	29	12	20	37	1.90
38535035--38535161	48	2.6	48	82	7	157	21	30	14	33	1.93
38535178--38535396	49	4.5	48	74	7	154	21	26	17	35	1.95
38535125--38535396	147	1.9	147	79	4	316	22	26	16	34	1.95
38535327--38535450	48	2.6	48	83	6	135	19	25	20	34	1.96
38537285--38537395	42	2.6	42	90	2	161	14	21	18	45	1.84
38537285--38537410	21	6.1	20	66	10	67	13	22	19	45	1.85
38540199--38540352	21	7.3	21	69	8	107	14	21	18	46	1.84
38540198--38540354	42	3.7	42	84	6	210	14	21	17	45	1.84
38542806--38542848	3	14.3	3	100	0	86	34	0	0	65	0.93
38543206--38543239	18	1.9	17	88	5	50	41	2	0	55	1.15
38550174--38550233	30	2.0	30	81	9	70	43	10	1	45	1.47
38552280--38552328	24	2.0	24	88	8	71	46	10	8	34	1.67
38553167--38553209	11	4.1	10	79	8	50	18	0	9	72	1.11
38555483--38555566	21	4.1	21	86	3	91	46	16	20	16	1.84
38556399--38556437	17	2.3	17	86	8	53	30	0	20	48	1.50
38556576--38556685	21	5.3	21	78	4	116	15	20	16	48	1.82
38556575--38556685	42	2.7	40	83	5	134	15	19	16	48	1.81
38556584--38556685	40	2.5	42	82	6	129	16	19	16	47	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38559680--38559819	68	2.1	68	97	0	262	27	17	18	37	1.93
38563618--38563656	8	4.9	8	84	12	53	0	17	7	74	1.05
38563838--38563898	5	12.4	5	80	16	65	57	0	0	42	0.98
38571248--38571286	8	4.9	8	84	12	53	0	17	7	74	1.05
38571452--38571521	5	14.2	5	82	8	90	62	1	0	35	1.04
38578562--38578655	46	2.0	46	87	0	134	41	7	19	31	1.79
38587452--38587481	3	10.0	3	100	0	60	66	0	33	0	0.92
38588110--38588209	32	3.2	32	91	2	166	34	5	0	61	1.18
38588119--38588206	11	8.3	11	70	7	65	36	4	0	59	1.18
38588110--38588214	31	3.4	31	89	3	158	33	4	0	61	1.17
38594392--38594463	37	2.0	36	86	2	99	12	20	19	47	1.82
38598603--38598647	20	2.1	21	88	8	65	53	4	22	20	1.63
38600401--38600432	6	5.3	6	96	0	55	34	12	34	18	1.89
38603270--38603338	34	2.0	34	94	0	120	30	18	15	34	1.93
38603355--38603408	19	2.8	19	74	23	58	27	0	24	48	1.52
38604422--38604446	10	2.5	10	100	0	50	20	0	28	52	1.47
38609815--38609872	20	2.7	21	76	7	64	62	27	3	6	1.37
38614238--38614306	3	23.0	3	96	0	129	31	0	1	66	1.00
38614908--38614945	18	2.1	18	90	9	60	23	2	2	71	1.12
38615062--38615595	109	4.9	109	90	1	815	30	16	18	34	1.93
38615978--38616041	24	2.7	24	90	0	101	32	17	15	34	1.91
38618339--38618428	10	9.0	9	71	19	56	42	4	0	53	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38618338--38618426	20	4.5	19	72	12	72	42	4	0	52	1.21
38618539--38618614	39	1.9	39	84	5	100	23	23	19	32	1.97
38622199--38622223	6	4.2	6	100	0	50	36	16	32	16	1.90
38628291--38628358	26	2.6	25	84	13	77	66	0	5	27	1.15
38628290--38628358	22	3.0	22	82	16	70	65	0	5	28	1.16
38628294--38628358	4	15.0	4	76	17	51	66	0	4	29	1.12
38628313--38628373	13	4.7	13	75	18	56	72	0	8	19	1.10
38629341--38629417	37	2.1	38	85	2	102	22	18	25	33	1.96
38631464--38631525	27	2.3	26	86	2	79	38	0	1	59	1.07
38632722--38632746	2	12.5	2	100	0	50	52	0	0	48	1.00
38633410--38633574	24	6.8	24	72	12	122	33	23	27	15	1.95
38633381--38633492	49	2.3	49	84	6	138	31	23	26	18	1.98
38633381--38633574	25	7.9	25	75	14	147	33	22	26	17	1.96
38635501--38635537	19	2.0	18	89	5	56	45	21	0	32	1.52
38635547--38635590	23	1.9	23	86	9	63	43	0	0	56	0.99
38636370--38636407	13	2.8	14	80	8	51	34	0	0	65	0.93
38638466--38638492	12	2.2	12	100	0	54	51	0	40	7	1.30
38639070--38639099	2	15.5	2	93	6	53	53	0	0	46	1.00
38640683--38640725	8	5.4	8	85	0	59	34	11	2	51	1.51
38650546--38650589	11	3.8	11	80	11	52	31	0	4	63	1.14
38659834--38659876	22	2.0	22	100	0	86	23	25	13	37	1.92
38660758--38660789	7	4.6	7	100	0	64	28	15	0	56	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38669432--38669469	17	2.2	17	100	0	76	60	13	15	10	1.59
38673604--38673641	18	2.1	18	100	0	76	44	15	15	23	1.85
38677146--38677187	22	1.9	22	85	9	59	35	0	2	61	1.09
38679936--38679997	32	1.9	33	86	3	90	45	3	3	48	1.34
38689210--38689360	42	3.6	42	77	0	140	44	15	23	16	1.86
38694787--38694832	20	2.5	17	82	10	56	45	0	2	52	1.13
38697777--38700492	992	2.8	984	84	5	3497	40	15	10	32	1.83
38714881--38714908	2	14.0	2	100	0	56	50	0	0	50	1.00
38720109--38720389	139	2.0	139	98	0	544	38	13	18	29	1.89
38723641--38723911	136	2.0	136	98	1	526	41	15	16	25	1.88
38740340--38740379	21	1.9	21	85	10	55	57	20	5	17	1.58
38741204--38741254	11	4.6	11	90	4	77	21	33	0	45	1.52
38741203--38741258	22	2.5	22	86	11	87	21	30	0	48	1.51
38742046--38742071	8	3.2	8	100	0	52	65	0	23	11	1.25
38742677--38742719	18	2.4	18	80	0	50	30	2	0	67	1.03
38746089--38746124	18	1.9	18	88	5	54	63	0	30	5	1.17
38751228--38751271	23	1.9	22	82	17	54	36	25	0	38	1.56
38751324--38751409	45	1.9	45	92	0	145	33	24	15	26	1.95
38751406--38751601	51	3.9	50	76	4	205	31	28	16	23	1.96
38751413--38751597	101	1.8	101	88	3	282	32	27	16	23	1.96
38758010--38758035	9	2.9	9	100	0	52	23	7	0	69	1.14
38762956--38763008	14	3.9	14	73	16	58	60	0	1	37	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38764483--38764522	21	1.9	21	94	0	71	57	10	10	22	1.61
38768324--38768350	2	13.5	2	100	0	54	51	0	0	48	1.00
38768350--38768379	2	15.0	2	100	0	60	50	0	50	0	1.00
38771746--38771789	21	2.1	21	87	4	63	52	2	0	45	1.13
38773455--38773485	6	5.2	6	100	0	62	32	0	0	67	0.91
38780076--38780152	36	2.1	36	100	0	154	44	7	10	37	1.68
38792505--38792533	2	14.5	2	100	0	58	51	0	48	0	1.00
38797386--38797432	21	2.3	21	85	7	62	36	12	10	40	1.78
38800881--38800925	23	1.9	24	86	4	65	73	4	8	13	1.23
38802130--38802156	14	1.9	14	100	0	54	48	14	14	22	1.81
38802229--38802290	24	2.5	24	84	2	79	33	16	27	22	1.95
38807350--38807529	81	2.2	81	84	3	229	42	18	15	23	1.89
38807350--38807665	27	11.7	26	77	6	179	41	20	15	22	1.90
38807697--38807793	24	4.0	24	86	6	126	24	8	23	43	1.81
38807702--38807807	24	4.4	24	86	0	113	23	7	23	45	1.78
38807699--38807807	48	2.3	47	84	6	139	24	7	22	44	1.78
38807950--38808047	32	3.1	32	75	4	108	20	18	21	39	1.92
38815379--38815431	17	3.1	17	83	0	70	49	3	20	26	1.66
38818093--38818121	14	2.0	15	93	6	51	72	6	0	20	1.07
38825902--38825936	2	17.5	2	100	0	70	48	0	0	51	1.00
38827289--38827317	2	14.5	2	100	0	58	48	0	0	51	1.00
38828231--38828381	76	2.0	76	93	0	257	25	14	33	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38829952--38830137	31	6.1	31	83	7	238	29	8	17	45	1.76
38837368--38837513	31	4.7	31	86	4	181	28	7	17	46	1.75
38837357--38837513	62	2.5	61	87	4	208	28	7	17	47	1.73
38840066--38840307	121	2.0	121	100	0	484	32	19	19	29	1.96
38840426--38840515	3	30.0	3	88	0	108	34	3	1	61	1.20
38840416--38840469	27	2.0	27	88	0	81	44	9	1	44	1.46
38840419--38840466	24	2.0	24	95	0	87	43	8	2	45	1.45
38840892--38840945	26	2.1	26	86	3	74	22	7	0	70	1.12
38847665--38847701	18	2.1	18	90	5	58	37	21	0	40	1.54
38853149--38853220	34	2.1	34	82	5	83	54	13	2	29	1.54

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