genome.fa.s9.2.7.7.80.10.50.1000.144.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  144  of  226  ( 27023 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)
47816820--47817259	217	2.0	215	87	3	623	27	24	17	30	1.97
47817262--47817563	132	2.3	131	82	6	333	28	26	18	27	1.98
47817350--47817558	88	2.4	88	90	3	339	29	27	16	26	1.97
47817350--47817562	44	4.8	45	84	5	283	29	27	16	26	1.97
47817527--47817705	88	2.0	88	79	4	191	20	26	25	28	1.99
47818972--47819059	46	1.9	46	88	2	133	12	19	25	43	1.86
47824094--47824141	3	15.7	3	85	8	62	62	2	2	33	1.18
47833548--47833745	107	1.9	107	82	4	256	25	16	23	34	1.95
47838139--47838202	14	4.1	14	78	17	56	75	3	17	4	1.11
47842322--47842355	15	2.3	15	94	0	59	61	0	2	35	1.11
47846858--47846921	26	2.5	26	89	0	92	34	20	3	42	1.68
47848842--47848890	25	2.0	25	91	0	80	30	18	30	20	1.96
47848979--47849036	26	2.3	26	91	8	93	41	24	22	12	1.87
47851245--47851500	107	2.4	107	87	1	352	33	24	16	25	1.96
47855894--47855938	14	3.1	15	81	15	58	62	0	2	35	1.08
47858982--47859015	16	2.0	18	88	11	54	17	5	5	70	1.28
47862077--47862131	26	2.1	26	89	0	83	36	21	20	21	1.95
47862278--47862531	27	9.4	27	90	0	373	17	18	23	40	1.91
47862278--47862532	81	3.1	81	90	0	411	17	18	23	40	1.91
47864031--47864103	27	2.7	27	85	8	112	19	15	21	43	1.87
47866370--47866582	27	7.9	26	77	8	194	45	19	17	17	1.86
47866370--47866582	81	2.6	81	81	4	241	45	19	17	17	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47866372--47866587	54	4.0	53	86	3	270	44	19	17	18	1.86
47866765--47866836	26	2.8	26	84	0	99	15	22	23	38	1.92
47866953--47867043	28	3.2	28	75	9	103	25	21	23	29	1.99
47866947--47867033	28	3.0	28	80	6	111	24	21	22	31	1.99
47866948--47867058	33	3.6	33	67	24	89	24	21	24	29	1.99
47871693--47871775	41	2.0	41	93	4	141	24	13	30	32	1.93
47878758--47878809	27	1.9	27	84	0	68	23	15	17	44	1.86
47878770--47878999	27	8.7	27	85	3	297	16	14	23	45	1.84
47878770--47878999	53	4.3	54	85	2	297	16	14	23	45	1.84
47879022--47879087	29	2.3	29	97	0	123	24	33	25	16	1.96
47886586--47886716	65	2.0	65	93	0	226	38	5	16	39	1.72
47893686--47893752	9	7.3	9	73	17	50	53	2	7	35	1.44
47895034--47895064	6	5.2	6	100	0	62	0	16	0	83	0.64
47896112--47896170	11	5.4	11	86	13	77	23	35	0	40	1.55
47897379--47897418	7	5.7	7	100	0	80	27	0	15	57	1.38
47899511--47899801	126	2.3	125	91	0	465	26	21	20	31	1.98
47899995--47900048	29	1.9	27	82	14	65	53	33	0	12	1.39
47902638--47902796	86	1.8	87	84	9	218	38	15	10	34	1.82
47902638--47902815	88	2.0	85	82	8	207	40	16	10	32	1.82
47902900--47902948	22	2.3	22	89	3	73	63	0	2	34	1.06
47902925--47902996	10	7.3	10	72	21	55	62	0	4	33	1.14
47902924--47903018	41	2.3	40	76	15	97	63	1	5	30	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47903269--47903295	10	2.7	10	100	0	54	44	0	0	55	0.99
47903279--47903360	37	2.2	36	83	10	103	35	0	2	62	1.09
47903279--47903330	19	2.7	19	75	13	54	36	0	1	61	1.07
47903250--47903365	48	2.5	46	79	13	114	34	0	2	62	1.15
47907534--47907567	2	17.0	2	100	0	68	50	0	0	50	1.00
47908015--47908077	32	2.0	32	87	0	90	41	3	7	47	1.48
47915008--47915065	15	3.9	15	75	13	57	68	8	0	22	1.16
47915019--47915068	14	3.5	14	76	13	57	68	8	0	24	1.16
47915013--47915068	29	2.0	28	89	6	87	67	8	0	23	1.18
47915053--47915108	29	2.0	29	85	3	78	57	5	5	32	1.44
47923330--47923371	22	2.0	21	86	13	59	69	0	4	26	1.08
47932091--47932129	14	2.7	14	84	4	51	35	0	0	64	0.94
47939447--47939567	2	60.5	2	100	0	242	50	49	0	0	1.00
47946658--47946686	6	5.0	6	91	8	51	51	0	0	48	1.00
47952048--47952096	22	2.2	21	80	16	55	53	2	0	44	1.12
47959281--47959314	18	1.9	18	88	5	52	29	23	32	14	1.94
47959302--47959352	21	2.4	21	87	6	68	23	19	35	21	1.96
47959319--47959374	21	2.6	22	83	10	64	19	19	37	23	1.94
47959346--47959396	21	2.4	21	78	18	61	15	19	37	27	1.92
47960143--47960197	22	2.4	23	85	8	69	65	12	1	20	1.35
47960730--47960769	18	2.2	18	86	4	53	12	12	5	70	1.33
47967365--47967550	41	4.5	41	90	0	273	16	16	28	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47967369--47967589	82	2.7	82	85	3	257	15	17	27	38	1.91
47967367--47967606	123	2.0	123	80	6	272	17	18	26	37	1.93
47970799--47970851	6	8.3	6	80	15	54	13	3	13	69	1.31
47970795--47970852	13	4.5	13	82	8	82	13	3	12	70	1.28
47970795--47970852	7	8.9	7	78	14	70	13	3	12	70	1.28
47971624--47971653	11	2.7	11	100	0	60	16	0	40	43	1.48
47972120--47972256	67	2.1	66	90	1	211	42	18	25	13	1.87
47972627--47972783	43	3.7	43	87	3	244	28	17	25	28	1.98
47976283--47976324	19	2.1	21	86	8	61	42	14	0	42	1.45
47976951--47976988	16	2.2	18	86	9	53	57	2	5	34	1.35
47977890--47977928	18	2.2	18	85	0	51	38	0	0	61	0.96
47978320--47978434	40	2.9	40	79	2	135	33	22	23	20	1.98
47978490--47978620	41	3.2	41	77	7	149	22	22	26	29	1.99
47979571--47979612	14	2.9	15	89	6	61	16	0	50	33	1.46
47979578--47979628	7	7.3	7	80	6	59	17	0	52	29	1.45
47979564--47979683	7	17.0	7	72	14	50	20	0	40	38	1.53
47980060--47980111	20	2.7	20	74	14	54	38	5	0	55	1.24
47985426--47985461	16	2.2	16	90	0	54	38	0	8	52	1.32
47985530--47985790	43	6.1	43	91	1	364	22	18	29	29	1.97
47985931--47986000	23	2.9	23	76	16	70	67	8	1	22	1.26
47994884--47994957	21	3.4	22	80	9	71	37	22	21	17	1.94
47994913--47994956	23	1.9	23	100	0	88	38	22	20	18	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47995284--47995323	16	2.5	16	84	11	55	25	22	0	52	1.47
48008447--48008514	25	2.7	25	84	4	84	23	27	20	27	1.99
48008473--48008533	25	2.5	24	79	12	61	31	22	21	24	1.98
48015625--48015677	26	2.0	26	96	0	97	18	22	33	24	1.97
48015654--48015804	42	3.6	42	80	5	162	22	18	25	33	1.96
48020923--48022230	639	2.1	619	82	5	1590	34	17	15	32	1.91
48024580--48026228	634	2.6	634	82	7	2002	35	17	14	31	1.91
48029918--48029949	13	2.5	13	94	0	55	28	28	3	40	1.71
48031126--48031173	15	3.1	15	82	5	69	43	6	16	33	1.73
48031126--48031186	31	2.0	31	93	6	106	42	4	16	36	1.70
48031127--48031177	16	3.2	16	83	5	77	43	5	17	33	1.73
48036755--48036807	20	2.5	22	77	14	58	41	20	1	35	1.64
48041122--48041246	24	5.3	23	73	15	78	45	13	15	25	1.82
48041145--48041227	22	3.7	22	78	12	78	43	13	15	27	1.84
48041104--48041256	46	3.3	46	77	4	164	45	14	13	26	1.82
48045539--48045582	13	3.2	13	81	15	52	0	18	0	81	0.68
48045544--48045581	13	2.7	15	88	8	53	0	15	0	84	0.63
48046146--48046175	15	2.0	15	93	0	51	76	0	16	6	0.99
48048992--48049076	43	2.0	44	86	9	122	45	3	4	45	1.41
48049688--48049731	8	5.1	8	79	15	52	29	0	0	70	0.88
48049673--48049732	10	6.4	9	75	9	50	31	0	0	68	0.90
48050726--48050815	31	2.9	31	82	12	114	45	2	20	32	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48054562--48054611	23	2.2	23	92	0	82	42	24	18	16	1.89
48054730--48054794	26	2.5	26	82	7	71	35	18	20	26	1.95
48057123--48057287	64	2.6	65	84	7	216	40	16	6	35	1.75
48064963--48065143	64	2.9	65	82	8	232	40	17	7	34	1.77
48065217--48065259	21	2.0	22	86	13	63	41	16	0	41	1.48
48070652--48070736	43	2.0	44	86	9	122	45	3	4	45	1.41
48071347--48071390	8	5.1	8	79	15	52	29	0	0	70	0.88
48071332--48071391	10	6.4	9	75	9	50	31	0	0	68	0.90
48071409--48071466	25	2.3	26	82	8	66	29	1	5	63	1.25
48072329--48072418	31	2.9	31	82	12	114	45	2	20	32	1.63

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   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226