genome.fa.s3.2.7.7.80.10.50.1000.149.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  149  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)
45241843--45241889	13	3.5	13	80	13	60	40	0	0	59	0.97
45247128--45247172	11	4.4	11	75	16	51	35	2	0	62	1.08
45248853--45248951	26	3.7	28	75	12	82	49	2	7	41	1.41
45248853--45248951	28	3.7	25	75	15	76	49	2	7	41	1.41
45248962--45249080	62	1.9	63	86	5	170	49	4	10	36	1.56
45249165--45249216	22	2.4	22	78	9	54	51	3	7	36	1.49
45250021--45250069	22	2.3	21	82	6	55	14	10	6	69	1.35
45250122--45250164	6	6.8	6	94	5	68	83	0	0	16	0.64
45250650--45250694	23	1.9	24	86	4	65	6	15	13	64	1.47
45265766--45265805	19	2.0	19	85	9	53	65	5	0	30	1.14
45265787--45265847	31	2.0	31	96	0	113	63	0	0	36	0.94
45270509--45270548	20	2.0	20	95	0	71	42	12	0	45	1.42
45271704--45271822	31	3.8	32	73	5	109	42	16	1	38	1.59
45272814--45272862	2	24.5	2	100	0	98	48	0	0	51	1.00
45273457--45273493	12	3.1	12	88	0	56	10	45	16	27	1.80
45274793--45274845	26	2.1	26	92	3	90	18	9	11	60	1.57
45288851--45288912	14	4.3	14	74	13	54	66	1	3	29	1.17
45288850--45288912	29	2.2	28	84	15	78	66	1	3	28	1.16
45288905--45289082	95	1.8	94	85	7	248	45	3	3	46	1.40
45293771--45293810	17	2.4	17	86	0	53	50	15	7	27	1.70
45294977--45295026	23	2.2	23	100	0	100	30	0	12	58	1.34
45297359--45297390	16	2.1	16	94	5	57	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45299207--45299257	22	2.3	22	80	6	59	39	0	1	58	1.09
45299499--45299534	2	18.0	2	94	0	63	52	0	0	47	1.00
45304611--45304636	3	8.7	3	100	0	52	34	34	0	30	1.58
45305720--45305757	16	2.4	16	90	0	58	47	5	7	39	1.55
45308200--45308274	29	2.6	29	81	8	98	38	18	13	29	1.89
45314703--45314740	2	19.5	2	94	5	69	50	0	0	50	1.00
45318790--45319476	148	4.6	147	78	8	552	40	11	12	35	1.78
45323542--45323567	2	13.0	2	100	0	52	50	0	0	50	1.00
45331447--45331492	23	2.0	23	95	0	83	8	6	30	54	1.56
45335281--45335323	20	2.2	20	83	8	52	41	6	0	51	1.29
45335995--45336058	24	2.7	23	79	13	60	45	1	6	46	1.37
45338162--45338245	2	43.0	2	73	17	61	46	1	4	47	1.31
45341144--45341175	13	2.4	14	94	5	57	50	12	0	37	1.41
45349455--45349486	2	16.0	2	100	0	64	50	0	0	50	1.00
45350831--45350945	23	4.8	23	75	7	86	18	27	22	31	1.97
45351191--45351231	20	2.0	21	85	4	57	34	7	14	43	1.73
45359789--45359813	12	2.1	12	100	0	50	24	16	0	60	1.36
45361091--45361140	5	10.0	5	100	0	100	60	0	0	40	0.97
45366525--45366585	3	20.7	3	96	3	115	32	0	0	67	0.91
45367641--45367665	2	12.5	2	100	0	50	48	0	0	52	1.00
45376053--45376104	27	1.9	27	84	7	70	34	5	11	48	1.63
45379433--45379704	146	1.9	145	86	3	395	43	8	11	37	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45382792--45382852	31	2.0	31	93	0	104	39	11	6	42	1.67
45391083--45391163	6	13.8	6	94	5	148	50	33	0	16	1.45
45391135--45391341	61	3.2	67	83	10	275	46	20	9	23	1.80
45393879--45393918	6	6.7	6	97	0	71	20	0	30	50	1.49
45393922--45394194	145	1.9	145	92	0	465	29	12	22	35	1.91
45396751--45396783	17	2.0	17	88	5	50	15	3	3	78	0.99
45399035--45399092	28	2.1	28	83	6	73	24	13	8	53	1.68
45403957--45403999	18	2.4	18	92	0	77	20	55	11	11	1.66
45403965--45404324	69	5.3	69	68	10	265	22	53	9	13	1.69
45404092--45404134	18	2.4	18	92	0	77	20	55	11	11	1.66
45403931--45404341	135	3.0	135	93	1	673	22	54	9	13	1.68
45406267--45406304	20	2.0	20	89	5	60	57	2	0	39	1.12
45411864--45411918	26	2.1	26	86	0	74	50	7	0	41	1.30
45412458--45412532	24	3.1	24	77	11	82	28	56	8	8	1.57
45412476--45412532	12	4.8	12	75	0	51	28	59	7	5	1.45
45412628--45412702	18	4.2	18	71	6	53	21	52	4	22	1.64
45412584--45413223	123	5.1	122	72	13	338	22	51	8	17	1.72
45412863--45413058	42	4.7	41	68	20	113	21	52	8	16	1.71
45412997--45413079	42	2.0	42	82	0	103	22	55	6	15	1.62
45413109--45413147	18	2.2	18	85	0	51	28	61	0	10	1.28
45421369--45421407	19	2.1	19	95	0	69	38	17	2	41	1.64
45427324--45427351	5	5.6	5	100	0	56	17	0	60	21	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45437882--45437923	19	2.2	19	83	8	50	19	19	2	59	1.49
45442084--45442125	19	2.2	20	86	4	59	35	2	2	59	1.23
45442116--45442156	16	2.7	15	85	10	57	51	2	0	46	1.14
45444177--45444206	14	2.1	14	100	0	60	40	6	26	26	1.81
45455540--45455612	27	2.7	27	89	0	119	30	23	28	17	1.97
45455617--45456007	19	19.3	19	70	21	196	30	0	14	55	1.42
45455620--45455869	101	2.5	100	92	1	403	30	0	12	56	1.40
45455617--45456007	42	9.7	38	67	24	196	30	0	14	55	1.42
45455743--45455941	80	2.5	80	94	0	353	30	0	13	56	1.38
45456000--45456121	60	2.0	60	88	3	183	31	0	13	54	1.45
45456239--45456280	16	2.7	16	88	3	59	30	2	4	61	1.29
45457658--45457707	26	2.0	26	88	4	75	72	4	10	14	1.26
45457667--45457707	12	3.2	12	83	12	55	78	2	9	9	1.06
45465476--45465637	81	2.0	81	83	4	202	47	20	10	21	1.80
45470209--45470234	5	5.2	5	100	0	52	38	19	19	23	1.93
45470183--45470234	26	2.0	26	81	7	61	34	15	26	23	1.94
45470904--45470963	30	2.0	30	83	3	75	41	0	38	20	1.52
45471176--45471212	9	4.1	9	85	0	56	29	8	13	48	1.71
45474944--45474973	16	1.9	16	93	6	53	73	3	6	16	1.18
45481630--45481664	16	2.1	17	89	5	54	34	5	25	34	1.80
45488011--45488078	30	2.2	31	82	12	79	41	8	10	39	1.70
45488011--45488083	31	2.4	33	82	11	84	39	9	10	39	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45490191--45490216	8	3.2	8	100	0	52	88	0	0	11	0.52
45494186--45494251	6	11.0	6	100	0	132	33	0	16	50	1.46
45506120--45506181	32	2.0	32	84	6	83	54	8	6	30	1.55
45506644--45506681	18	2.3	16	80	20	51	34	0	5	60	1.19
45520680--45520722	18	2.4	17	81	11	50	65	2	2	30	1.18
45520666--45520725	26	2.2	28	82	5	70	63	1	1	33	1.14
45520666--45520717	28	1.9	28	84	7	72	63	0	1	34	1.06
45521199--45521252	23	2.4	22	84	12	65	57	1	7	33	1.37
45529400--45529667	95	2.8	94	91	2	423	20	14	15	48	1.80
45539078--45539140	30	2.1	30	87	0	90	28	3	12	55	1.52
45539458--45539489	6	5.3	6	100	0	64	0	15	0	84	0.63
45540349--45540377	9	3.0	10	90	10	51	41	0	0	58	0.98
45540667--45540712	12	3.8	12	80	5	56	30	2	2	65	1.16
45540667--45540698	12	2.5	13	95	5	57	31	0	0	68	0.90
45541348--45541406	31	1.9	31	96	0	109	28	13	8	49	1.71
45545338--45545366	2	14.5	2	100	0	58	48	0	0	51	1.00
45549795--45549853	30	1.9	31	86	13	86	55	1	5	37	1.32
45550220--45550259	2	20.5	2	94	5	73	47	0	0	52	1.00
45553738--45553888	80	1.9	80	92	0	257	50	8	6	33	1.59
45559006--45559039	2	17.0	2	100	0	68	0	50	0	50	1.00
45575359--45575383	13	1.9	13	100	0	50	36	8	16	40	1.77
45577112--45577158	23	2.0	23	91	0	76	46	0	10	42	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45578173--45578307	25	5.6	25	83	7	131	18	22	19	39	1.93
45578173--45578307	50	2.8	48	82	9	152	18	22	19	39	1.93
45579483--45579565	42	2.0	42	87	0	121	43	19	24	13	1.86
45582488--45582513	7	3.7	7	100	0	52	88	0	11	0	0.52
45589171--45589222	24	2.1	25	86	10	72	40	3	11	44	1.59
45592202--45592256	29	1.9	29	85	3	76	49	0	1	49	1.11
45596467--45596504	19	2.0	19	100	0	76	31	5	21	42	1.75
45596912--45596944	2	16.5	2	100	0	66	48	0	0	51	1.00
45600306--45600358	23	2.3	24	78	18	60	54	1	5	37	1.35
45609340--45609366	12	2.2	12	100	0	54	55	25	0	18	1.43

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