genome.fa.s3.2.7.7.80.10.50.1000.110.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  110  of  150  ( 17918 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)
34146433--34146472	20	1.9	22	85	10	57	37	15	0	47	1.45
34146433--34146480	21	2.3	21	82	13	55	37	16	0	45	1.48
34146520--34146575	29	1.9	29	96	0	103	57	3	0	39	1.16
34146524--34146589	29	2.2	29	86	5	87	60	4	0	34	1.17
34147026--34147070	18	2.4	19	81	7	56	64	0	4	31	1.13
34147004--34147112	20	5.8	18	72	12	69	56	0	3	38	1.23
34147050--34147135	21	4.2	20	69	14	59	51	0	3	45	1.18
34152075--34152216	10	14.6	10	65	15	66	38	3	1	56	1.25
34152124--34152206	40	2.1	38	82	4	94	43	2	0	54	1.13
34152145--34152225	19	4.2	19	76	10	92	35	3	0	60	1.15
34160512--34160582	31	2.2	33	83	14	87	36	4	9	49	1.56
34161740--34161807	17	4.0	17	70	0	55	26	5	19	48	1.71
34161722--34161833	51	2.2	51	82	4	136	30	7	16	45	1.75
34161873--34161919	18	2.6	18	82	0	58	25	10	21	42	1.85
34168278--34168460	59	3.2	58	73	12	141	48	3	5	42	1.44
34168378--34168421	16	2.7	16	89	10	63	52	6	6	34	1.55
34174158--34174204	23	2.0	23	95	0	85	44	4	27	23	1.72
34176257--34176367	19	6.0	18	69	18	68	50	2	2	44	1.30
34178392--34178432	20	2.1	20	86	4	57	14	12	0	73	1.11
34179451--34179495	2	22.5	2	100	0	90	48	0	0	51	1.00
34181650--34181683	14	2.4	14	90	0	50	38	8	11	41	1.73
34183160--34183190	9	3.4	9	90	0	53	25	12	22	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34183244--34183280	9	4.1	9	92	0	65	45	13	10	29	1.77
34184371--34184396	5	5.2	5	100	0	52	19	19	19	42	1.90
34185034--34185078	23	2.0	23	100	0	90	40	8	6	44	1.62
34188498--34188539	21	2.0	21	85	0	57	19	21	19	40	1.92
34188944--34188973	15	2.0	15	93	0	51	66	13	10	10	1.44
34191481--34191542	26	2.4	26	89	5	90	41	16	11	30	1.83
34193488--34193553	18	3.7	18	76	13	57	27	28	1	42	1.64
34200650--34200719	24	2.9	24	87	4	97	17	21	7	54	1.66
34200686--34200824	40	3.5	40	79	12	142	20	25	7	46	1.76
34205114--34205139	13	2.0	13	100	0	52	30	7	7	53	1.57
34220096--34220137	22	1.9	22	90	0	66	52	40	4	2	1.35
34221231--34221269	3	13.0	3	88	0	60	30	2	2	64	1.21
34221449--34221526	39	2.0	39	82	0	93	34	8	5	51	1.56
34221690--34221725	18	2.1	17	89	5	54	13	5	8	72	1.27
34221833--34222375	110	5.0	110	91	3	855	30	16	19	33	1.94
34226371--34226400	9	3.3	9	90	0	51	80	3	0	16	0.85
34226371--34226412	18	2.2	20	87	12	61	80	4	0	14	0.86
34228354--34228418	34	1.9	34	93	0	112	26	16	18	38	1.92
34228384--34228807	46	9.2	46	94	0	713	26	16	28	29	1.96
34228797--34229117	132	2.4	132	87	3	441	33	17	22	26	1.96
34229405--34229446	22	1.9	22	85	0	57	52	38	4	4	1.44
34230570--34230611	3	14.0	3	89	0	66	30	2	2	64	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34230634--34230694	24	2.6	22	78	14	59	34	9	1	54	1.44
34230994--34231029	18	2.1	17	89	5	54	13	5	8	72	1.27
34231137--34231575	110	4.0	110	94	0	761	30	16	20	32	1.94
34232661--34232938	139	2.0	139	99	0	547	30	19	21	28	1.97
34233435--34233561	63	2.0	63	84	0	164	35	33	8	22	1.85
34235199--34235313	38	3.1	38	91	1	178	12	20	31	36	1.89
34235223--34235294	22	3.6	21	71	21	73	11	20	30	37	1.88
34237156--34237398	50	4.8	50	92	0	360	25	23	31	19	1.98
34241786--34241902	38	3.1	38	87	1	164	11	21	29	36	1.89
34243306--34243412	55	1.9	55	92	0	178	40	13	8	38	1.74
34246678--34246787	55	2.0	55	90	0	175	38	12	9	40	1.75
34251739--34251786	10	4.8	10	78	0	51	35	2	2	60	1.20
34251808--34251885	31	2.5	32	89	4	122	38	2	6	52	1.41
34256830--34257182	188	1.9	186	85	3	485	32	10	13	43	1.78
34265321--34265373	26	2.0	27	89	10	83	30	24	20	24	1.99
34271804--34271902	44	2.3	44	82	5	112	22	25	17	35	1.95
34271825--34271896	22	3.3	22	73	11	67	25	26	13	34	1.93
34271834--34271907	22	3.4	22	73	14	71	22	25	13	37	1.91
34280822--34280971	43	3.5	44	79	9	166	25	18	27	29	1.98
34282523--34282565	2	21.5	2	100	0	86	48	0	0	51	1.00
34283602--34283648	14	3.6	14	78	21	66	12	12	17	57	1.65
34283602--34283647	24	1.9	24	100	0	92	13	13	17	56	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34283886--34283946	25	2.4	25	83	0	77	22	1	0	75	0.89
34288838--34288923	42	2.0	42	84	4	111	34	3	19	41	1.69
34290861--34290917	23	2.5	23	82	5	71	73	10	10	5	1.23
34300723--34300771	22	2.2	22	82	7	55	42	0	4	53	1.20
34303475--34303511	18	2.1	18	94	0	65	45	8	10	35	1.69
34305308--34305352	18	2.5	19	82	7	58	31	0	6	62	1.21
34305508--34305539	2	16.0	2	100	0	64	50	0	0	50	1.00
34305767--34305809	22	2.0	22	81	9	52	30	4	0	65	1.13
34307808--34307853	19	2.4	18	82	10	56	21	19	10	47	1.80
34310538--34310625	44	2.0	46	88	4	135	43	18	22	15	1.88
34311964--34312457	132	3.7	132	87	1	704	29	18	23	28	1.98
34311975--34312514	132	4.1	132	83	5	628	29	18	23	28	1.98
34311975--34312517	264	2.1	264	85	3	727	28	18	23	29	1.98
34313984--34314028	18	2.5	19	82	7	58	31	0	6	62	1.21
34314328--34314417	44	2.1	43	83	6	110	30	10	5	54	1.56
34314422--34314464	22	2.0	22	81	9	52	30	4	0	65	1.13
34317403--34317453	23	2.2	23	96	0	93	25	7	27	39	1.83
34318804--34318837	4	8.2	4	90	3	50	50	2	0	47	1.16
34318792--34318837	12	3.9	12	78	10	51	47	6	0	45	1.28
34319672--34319706	17	2.1	17	89	5	54	57	0	28	14	1.38
34325643--34325690	24	2.0	25	83	4	62	12	14	4	68	1.34
34328666--34328706	19	2.0	21	86	9	59	31	9	0	58	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34328666--34328705	21	2.0	21	85	5	55	32	10	0	57	1.32
34339904--34339937	17	2.0	17	100	0	68	41	23	5	29	1.78
34340090--34340906	104	7.9	104	81	4	742	32	15	21	30	1.94
34347217--34347252	16	2.3	17	86	13	51	8	19	0	72	1.10
34347215--34347255	15	2.8	15	79	13	50	7	21	0	70	1.11
34349377--34349422	15	3.1	15	87	3	58	26	8	6	58	1.52
34357918--34357969	21	2.5	21	84	9	72	44	11	7	36	1.70
34364637--34364663	13	2.1	13	100	0	54	48	14	0	37	1.45
34365517--34365560	21	2.1	21	83	4	54	31	4	4	59	1.38
34382035--34382156	49	2.5	49	82	5	147	21	19	18	40	1.92
34390105--34390135	13	2.4	13	94	0	53	51	22	3	22	1.62
34391271--34391295	9	2.8	9	100	0	50	8	0	0	92	0.40
34392832--34392892	13	4.7	13	79	0	77	22	8	29	39	1.83
34397658--34397756	44	2.2	44	87	0	135	27	28	19	25	1.98
34397818--34397855	18	2.1	19	90	5	60	36	0	0	63	0.95
34398828--34398858	16	1.9	16	100	0	62	38	12	12	35	1.82
34401571--34401682	30	3.1	39	75	22	145	58	1	21	17	1.47
34402057--34402260	41	5.0	41	83	8	263	32	26	18	22	1.97
34402057--34402267	82	2.6	82	86	0	305	31	27	18	21	1.97
34402247--34402332	43	2.0	43	100	0	172	44	25	16	13	1.85
34402341--34402479	40	3.5	40	75	8	140	22	20	17	39	1.92
34406522--34406567	21	2.2	21	84	7	58	21	21	15	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34406538--34406648	21	5.4	21	64	11	68	14	23	18	43	1.87
34406542--34406658	41	2.8	41	84	6	139	16	23	18	41	1.89
34406580--34406674	21	4.5	21	71	5	66	15	23	17	43	1.88
34408712--34408736	10	2.5	10	100	0	50	68	20	0	12	1.21
34411680--34411746	34	1.9	35	87	3	100	44	14	8	31	1.76
34421526--34421582	29	2.0	29	96	0	105	26	3	15	54	1.57
34428760--34428808	20	2.5	20	96	0	89	36	4	26	32	1.75
34432660--34432697	14	2.6	15	83	8	51	36	52	0	10	1.36
34432657--34432697	21	1.9	22	85	14	59	39	48	0	12	1.41
34432669--34432853	88	2.1	89	89	1	291	43	31	1	23	1.64

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