genome.fa.s1.2.7.7.80.10.50.1000.88.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: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  55868233

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   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   

This is table  88  of  187  ( 22383 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)
26305285--26305318	9	3.9	9	92	3	52	47	0	5	47	1.26
26309904--26309946	22	2.0	22	90	0	68	27	4	11	55	1.55
26312075--26312136	23	2.5	25	77	15	67	35	1	4	58	1.29
26314132--26314703	127	4.5	127	91	1	891	30	17	22	29	1.97
26315361--26315390	6	5.0	6	91	0	51	16	0	46	36	1.47
26315382--26315505	22	5.5	21	70	22	90	20	1	32	45	1.60
26315454--26315512	28	2.1	28	87	12	86	20	0	30	49	1.49
26316031--26316073	18	2.4	18	84	0	59	46	9	27	16	1.77
26316906--26316943	20	1.9	20	84	10	51	55	7	2	34	1.43
26317892--26317928	11	3.2	12	85	11	51	48	0	24	27	1.51
26317908--26317996	11	8.4	11	70	19	73	43	0	32	23	1.54
26317884--26317983	51	2.0	51	90	4	157	46	0	29	25	1.53
26320201--26320239	18	2.2	18	95	0	69	38	0	12	48	1.42
26323983--26324018	18	2.0	18	100	0	72	50	11	5	33	1.61
26324973--26325066	39	2.5	37	80	14	104	41	2	2	54	1.24
26324984--26325117	68	1.9	71	86	8	195	42	3	2	50	1.35
26334436--26334481	21	2.2	21	100	0	92	50	23	8	17	1.74
26336661--26336716	21	2.6	22	88	5	87	44	23	1	30	1.63
26337125--26337228	40	2.6	40	89	0	145	28	23	19	28	1.98
26337268--26337343	40	1.9	40	91	0	125	27	17	22	32	1.96
26337267--26337363	40	2.4	40	82	0	122	26	19	20	32	1.97
26339726--26339992	68	3.9	68	84	0	327	24	21	15	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26339726--26339992	136	2.0	136	85	0	363	24	21	15	38	1.92
26346704--26346751	25	1.9	25	83	8	62	68	2	0	29	1.01
26346996--26347042	22	2.2	21	84	3	58	72	2	6	19	1.17
26347087--26347125	15	2.5	16	83	4	53	38	0	7	53	1.30
26347230--26347303	19	3.8	19	77	10	69	24	1	5	68	1.18
26347207--26347284	21	3.7	20	70	16	59	20	1	5	73	1.10
26348275--26348327	14	3.8	14	80	14	56	39	0	3	56	1.17
26350076--26350155	5	16.0	5	97	0	133	63	0	0	36	0.94
26355656--26355693	18	2.1	18	90	0	58	50	10	10	28	1.70
26357551--26357635	30	2.8	31	78	5	95	31	18	17	31	1.95
26361154--26361201	19	2.5	19	76	6	53	8	4	27	60	1.44
26363728--26363879	28	5.4	28	74	1	99	30	18	21	28	1.97
26367828--26367896	27	2.6	26	79	2	75	34	14	21	28	1.93
26367968--26368022	24	2.3	24	87	6	76	21	9	21	47	1.78
26368087--26368155	27	2.6	27	95	2	122	17	24	24	33	1.96
26368087--26368163	27	2.9	26	92	5	111	18	25	24	31	1.97
26368166--26368221	26	2.2	26	96	0	103	17	19	21	41	1.91
26368166--26368232	26	2.6	26	90	0	98	16	19	25	38	1.92
26375804--26375852	23	2.1	23	100	0	98	46	4	0	48	1.20
26380719--26380753	18	1.9	18	88	11	54	22	20	8	48	1.76
26383922--26383955	16	2.1	17	88	5	52	50	0	14	35	1.44
26387921--26388281	27	13.4	27	86	4	419	42	21	18	18	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26398200--26398243	20	2.2	20	84	8	54	36	25	13	25	1.92
26400489--26400655	86	1.9	86	87	0	244	31	25	17	25	1.97
26400489--26400647	43	3.7	43	82	3	203	30	25	18	25	1.98
26400489--26400666	43	4.1	43	79	5	173	31	25	17	25	1.97
26404344--26404440	46	2.1	46	94	0	167	35	31	7	25	1.83
26405554--26405685	7	18.0	7	68	14	61	39	38	0	21	1.59
26405573--26405646	39	1.9	38	83	8	96	36	40	1	21	1.62
26405638--26405685	15	3.3	15	82	5	62	45	35	0	18	1.50
26405865--26405928	21	2.9	22	79	6	67	37	40	1	20	1.62
26406176--26406223	15	3.3	15	79	5	53	43	35	2	18	1.62
26406568--26406764	41	4.8	41	83	5	193	29	28	19	22	1.98
26406785--26406919	40	3.4	38	80	7	137	20	25	23	31	1.98
26410223--26410253	16	1.9	16	93	0	53	74	0	0	25	0.82
26418625--26418685	32	1.9	32	93	0	104	52	0	9	37	1.35
26429268--26429301	9	3.8	9	88	0	50	47	0	2	50	1.16
26429880--26429914	18	1.9	18	88	0	52	28	0	2	68	1.04
26430946--26430997	24	2.2	24	89	0	77	36	3	9	50	1.54
26435394--26435469	24	3.2	24	94	0	125	38	5	10	46	1.61
26436204--26436234	16	1.9	16	93	0	53	54	6	0	38	1.26
26437731--26437881	44	3.4	43	72	8	117	40	16	5	37	1.73
26437796--26437878	22	3.8	22	75	4	60	39	20	7	32	1.80
26438395--26438427	12	2.8	12	95	0	57	33	48	9	9	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26447145--26447201	28	2.0	28	100	0	114	24	19	17	38	1.93
26448826--26448980	53	2.9	53	90	0	229	33	13	24	28	1.93
26456551--26456680	40	3.3	39	79	7	129	30	23	24	20	1.99
26456785--26456958	41	4.2	41	87	2	208	14	24	27	33	1.94
26456785--26456958	82	2.1	82	85	0	231	14	24	27	33	1.94
26457513--26457550	15	2.5	16	83	12	53	18	0	44	36	1.50
26457911--26457965	28	2.0	28	85	7	76	47	5	7	40	1.54
26459122--26459173	27	1.9	27	92	0	86	42	0	11	46	1.40
26462787--26462825	19	2.1	19	100	0	78	35	23	0	41	1.55
26468392--26468427	19	1.9	18	88	5	54	27	13	0	58	1.36
26468608--26468918	85	3.6	86	83	3	322	25	18	30	26	1.98
26468609--26468918	43	7.2	43	81	4	340	24	18	30	26	1.98
26468609--26468918	128	2.4	127	84	6	374	24	18	30	26	1.98
26469045--26469083	13	3.0	13	96	0	69	15	28	23	33	1.95
26477639--26477693	18	3.1	18	66	23	53	41	12	10	34	1.78
26477623--26477693	35	2.0	35	100	0	142	42	11	11	35	1.77
26477623--26477678	17	3.2	17	68	22	53	46	8	10	33	1.70
26478535--26478569	18	2.0	17	88	5	52	34	0	22	42	1.54
26479141--26479181	10	4.0	10	87	3	55	34	0	19	46	1.50
26489235--26489493	95	2.7	95	77	8	256	38	3	18	39	1.66
26489536--26489952	126	3.3	126	87	3	597	34	19	20	26	1.96
26493567--26493601	18	2.1	17	89	10	54	42	0	28	28	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26495214--26495275	18	3.5	18	72	14	58	61	1	0	37	1.06
26495438--26495539	51	2.0	51	92	3	170	44	2	29	23	1.68
26495501--26495553	11	4.9	11	86	2	63	47	3	28	20	1.68
26500806--26500844	19	2.1	19	85	0	51	38	2	15	43	1.60
26502527--26502562	17	2.1	17	90	10	56	30	0	2	66	1.06
26504192--26504221	8	3.6	8	95	4	51	86	0	3	10	0.67
26505640--26505678	19	2.1	19	85	0	51	38	2	15	43	1.60
26508536--26508672	29	4.8	29	74	10	131	26	20	21	32	1.98
26508575--26508701	57	2.2	57	85	2	166	28	20	20	30	1.98
26508823--26508976	53	2.9	54	79	9	149	31	20	10	38	1.86
26512898--26512944	16	2.8	17	81	18	55	40	17	2	40	1.61
26516810--26516867	22	2.6	22	81	7	64	41	17	5	36	1.72
26517329--26517650	131	2.4	133	86	3	454	27	22	21	28	1.99
26517704--26518096	44	8.8	44	69	9	183	27	22	19	30	1.98
26518117--26518826	44	16.1	44	79	3	640	28	20	18	32	1.96
26518120--26518826	221	3.2	221	87	2	922	28	20	18	32	1.96
26518132--26518834	177	4.0	177	84	1	829	28	21	18	32	1.96
26520095--26520127	10	3.3	10	100	0	66	9	0	0	90	0.44
26523386--26523432	19	2.5	20	89	6	71	44	10	21	23	1.83
26535228--26535252	11	2.3	11	100	0	50	52	0	0	48	1.00
26542105--26542272	61	2.8	61	81	0	185	29	14	26	29	1.95
26542606--26542636	16	1.9	16	93	0	53	9	6	9	74	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26550932--26550963	15	2.1	15	94	0	55	28	12	9	50	1.71
26551413--26551442	4	7.5	4	100	0	60	23	0	0	76	0.78
26552852--26552880	8	3.6	8	100	0	58	24	0	0	75	0.80
26554019--26554068	2	25.0	2	100	0	100	50	0	0	50	1.00
26567650--26567801	52	3.0	51	89	6	215	23	10	30	36	1.88
26567901--26568005	52	2.0	51	85	1	138	34	1	30	33	1.69
26567958--26568026	22	3.1	22	87	0	102	39	1	27	31	1.66
26568284--26568342	29	2.2	26	84	9	73	44	16	13	25	1.85
26575226--26575255	5	6.0	5	100	0	60	80	0	0	20	0.72
26579191--26579227	16	2.2	18	85	9	51	54	2	0	43	1.14

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   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187