genome.fa.s6.2.7.7.80.10.50.1000.70.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  70  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)
20526631--20526667	19	2.0	19	89	5	58	40	0	2	56	1.13
20526636--20526679	19	2.2	20	84	11	56	40	0	2	56	1.11
20533005--20533158	43	3.6	43	91	0	236	33	24	14	26	1.95
20535739--20535781	23	2.0	22	81	9	52	34	4	9	51	1.55
20541044--20541105	31	2.0	30	81	12	72	69	0	16	14	1.19
20541045--20541103	17	3.8	15	76	19	59	71	0	15	13	1.15
20542359--20543105	129	5.8	129	88	1	1109	31	18	25	24	1.97
20542384--20543105	262	2.8	257	89	1	1086	32	18	25	23	1.97
20544047--20544086	16	2.7	15	88	7	55	0	15	5	80	0.88
20548967--20549007	20	2.0	20	95	0	73	43	12	7	36	1.70
20553314--20553393	40	2.0	40	87	0	115	37	2	22	37	1.68
20554572--20554615	23	2.0	22	81	4	52	9	22	2	65	1.32
20557564--20557613	6	8.3	6	80	6	57	2	62	0	36	1.07
20557637--20557696	25	2.2	28	88	8	90	41	1	0	56	1.09
20584990--20585014	7	3.6	7	100	0	50	56	0	0	44	0.99
20587843--20587908	26	2.4	27	73	16	73	51	1	0	46	1.10
20589191--20589222	3	10.7	3	100	0	64	65	0	34	0	0.93
20592070--20592116	22	2.2	22	84	3	60	21	8	17	53	1.70
20598240--20598281	22	2.0	21	85	4	57	52	14	14	19	1.75
20609714--20609741	6	4.7	6	100	0	56	82	0	0	17	0.68
20609649--20609735	43	2.0	45	88	4	133	57	0	2	40	1.11
20609660--20609752	43	2.1	44	80	9	102	59	1	2	37	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20610235--20610306	31	2.6	27	82	10	83	36	15	15	33	1.89
20610480--20610536	28	2.0	28	96	0	105	24	12	7	56	1.61
20612255--20612375	6	20.2	6	100	0	242	66	0	0	33	0.92
20615589--20615654	4	16.5	4	100	0	132	25	0	24	50	1.50
20616403--20616443	10	3.9	11	78	9	50	26	0	14	58	1.37
20621352--20621497	41	3.6	41	84	0	175	26	27	20	26	1.99
20631068--20631104	2	18.5	2	100	0	74	51	0	0	48	1.00
20631345--20631383	19	2.1	19	90	0	60	41	5	17	35	1.72
20643573--20643667	28	3.4	28	86	0	145	27	24	22	26	2.00
20643825--20643886	28	2.2	28	82	0	70	35	17	14	32	1.90
20645618--20645653	16	2.2	17	90	5	56	47	0	11	41	1.39
20652457--20652700	43	5.7	41	77	6	166	39	18	17	25	1.91
20652504--20652822	86	3.7	86	83	2	363	42	20	15	21	1.88
20652504--20652827	43	7.6	43	82	1	328	43	19	15	21	1.88
20655986--20656238	70	3.6	69	87	2	292	39	18	10	30	1.85
20662139--20662182	12	3.7	12	100	0	88	40	27	25	6	1.80
20668002--20668169	47	3.6	45	70	19	123	45	2	4	47	1.37
20667928--20668135	91	2.3	91	89	0	317	46	3	3	46	1.37
20667949--20668110	44	3.6	43	69	19	116	45	1	3	48	1.30
20667948--20668024	28	2.8	28	73	9	52	42	1	3	51	1.28
20668285--20668339	24	2.2	26	81	12	71	45	0	1	52	1.11
20668463--20668567	44	2.5	40	76	15	113	31	28	4	35	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20668461--20668570	45	2.6	44	80	8	122	31	28	5	34	1.80
20668549--20668629	16	5.4	16	82	14	91	30	37	0	32	1.58
20668547--20668608	27	2.3	27	94	0	106	25	38	0	35	1.56
20669112--20669146	18	2.0	17	88	5	52	54	0	0	45	0.99
20669227--20669263	16	2.2	17	86	13	51	54	0	2	43	1.14
20669389--20669425	16	2.2	17	86	13	51	54	0	2	43	1.14
20669408--20669648	47	5.3	46	71	19	175	46	3	2	47	1.32
20669465--20669609	44	3.2	44	70	19	136	47	2	2	48	1.25
20669493--20669527	18	2.0	17	88	5	52	48	2	0	48	1.16
20669433--20669648	91	2.4	91	92	0	360	46	3	2	47	1.33
20674465--20674497	16	2.1	16	94	0	57	63	15	15	6	1.49
20685903--20685944	15	2.9	14	83	13	50	19	4	2	73	1.12
20698721--20698745	2	12.5	2	100	0	50	52	0	48	0	1.00
20703398--20703456	31	1.9	31	89	0	91	25	10	8	55	1.61
20703797--20703826	12	2.5	12	94	0	51	80	0	20	0	0.72
20705316--20705375	20	3.0	20	73	9	59	26	13	11	48	1.76
20713675--20713702	2	14.0	2	100	0	56	50	0	0	50	1.00
20715211--20715323	61	1.9	57	82	10	140	41	14	16	27	1.87
20715060--20715263	112	1.8	110	83	4	241	37	15	15	31	1.89
20716363--20716428	22	3.0	22	93	0	105	31	15	27	25	1.95
20719073--20719155	29	2.8	29	76	7	78	38	1	9	50	1.43
20720265--20720325	19	3.1	19	81	9	70	47	1	0	50	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20728890--20728928	2	19.5	2	100	0	78	51	0	0	48	1.00
20734550--20734625	30	2.5	30	87	4	100	34	23	3	38	1.74
20735241--20735290	15	3.4	15	86	10	59	76	0	24	0	0.80
20735235--20735283	13	3.8	13	84	10	57	75	0	24	0	0.80
20735235--20735291	21	2.7	20	81	10	60	75	0	24	0	0.80
20735236--20735293	13	4.8	12	80	17	50	75	0	24	0	0.80
20735233--20735286	28	2.0	27	85	3	72	74	0	25	0	0.83
20735350--20735415	32	2.0	33	82	11	82	57	18	16	7	1.62
20735460--20735497	20	1.9	20	88	0	58	18	47	26	7	1.76
20735584--20735620	9	4.0	9	86	6	56	83	0	16	0	0.64
20735586--20735627	18	2.3	18	83	4	50	85	2	11	0	0.68
20736111--20736454	39	9.3	34	73	15	169	34	11	10	44	1.75
20736111--20736503	18	21.3	18	69	19	154	34	10	11	43	1.75
20736182--20736397	39	5.7	38	79	11	189	34	11	10	43	1.75
20736216--20736434	77	2.9	75	79	10	237	35	10	11	42	1.76
20736382--20736503	38	3.3	35	79	12	120	33	12	13	40	1.81
20736368--20736488	56	2.2	54	82	11	140	33	11	13	42	1.80
20737545--20737569	4	6.2	4	100	0	50	24	24	0	52	1.48
20742405--20743084	75	9.1	75	88	5	946	27	15	21	35	1.94
20743437--20743514	30	2.6	30	85	4	95	33	26	3	35	1.75
20743460--20743530	30	2.4	30	82	0	79	32	21	4	42	1.72
20743892--20743936	14	3.2	14	78	12	56	22	53	15	8	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20744110--20744172	13	4.8	13	76	16	58	77	1	20	0	0.85
20744110--20744172	26	2.5	27	80	12	80	77	1	20	0	0.85
20744321--20744386	20	3.5	17	73	17	51	21	39	27	12	1.88
20744959--20745299	17	18.5	17	70	20	183	32	11	11	44	1.76
20744963--20745077	52	2.2	54	92	3	189	33	10	8	46	1.69
20744959--20745244	37	7.8	36	75	12	172	32	11	10	44	1.75
20745178--20745299	56	2.2	54	82	10	140	32	11	13	41	1.81
20747517--20747564	23	2.0	23	88	4	69	37	8	0	54	1.31
20748339--20748377	14	2.8	14	88	0	60	41	10	17	30	1.83
20749431--20749494	27	2.4	27	97	0	119	42	10	0	46	1.39
20749544--20749620	27	2.9	27	92	0	127	27	23	29	19	1.98
20751065--20751097	10	3.4	10	83	8	50	75	0	0	24	0.80
20753149--20753191	21	2.1	20	86	4	59	34	9	9	46	1.68
20754599--20754695	6	16.2	6	86	0	68	42	52	1	4	1.27
20754599--20754685	18	4.8	18	84	0	84	41	55	1	2	1.20
20759786--20759827	22	1.9	22	95	0	75	45	0	14	40	1.45
20773161--20773196	17	2.1	17	94	0	63	52	8	16	22	1.70
20774080--20774333	94	2.7	94	82	1	276	29	19	19	31	1.97
20774118--20774278	50	3.3	50	69	13	147	31	19	19	29	1.97
20773988--20774512	44	11.6	45	68	15	226	29	20	19	31	1.97
20774019--20774457	232	1.9	231	81	4	535	29	21	18	30	1.97
20774193--20774574	136	2.8	138	81	2	448	28	20	19	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20779066--20779126	17	3.4	17	70	12	59	31	3	13	52	1.56
20779064--20779135	37	1.9	37	100	0	144	31	5	13	48	1.66
20789797--20789826	2	15.0	2	92	0	51	46	0	0	53	1.00
20790037--20790084	23	2.1	23	84	7	62	33	0	0	66	0.92
20793959--20794001	12	3.5	12	79	14	52	72	0	6	20	1.08
20794678--20794740	28	2.2	28	80	5	74	28	17	3	50	1.61
20797482--20797526	3	15.0	3	100	0	90	33	0	0	66	0.92
20803971--20804005	18	2.0	18	88	5	54	37	0	5	57	1.23
20803936--20804060	44	2.9	44	92	1	198	34	8	4	52	1.54
20804015--20804049	18	2.0	18	88	5	54	37	0	5	57	1.23

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