genome.fa.s10.2.7.7.80.10.50.1000.127.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  127  of  202  ( 24201 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)
39292507--39292600	43	2.2	41	83	7	134	32	12	10	43	1.77
39292514--39292595	43	1.9	43	94	0	146	36	12	12	39	1.80
39294829--39294863	16	2.2	16	100	0	70	11	42	11	34	1.77
39295540--39295706	43	3.9	43	88	0	217	23	17	28	29	1.97
39296343--39296373	16	1.9	16	100	0	62	6	32	6	54	1.51
39307767--39308056	43	6.8	43	87	1	368	28	31	18	21	1.97
39307767--39308056	85	3.4	86	85	3	352	28	31	18	21	1.97
39307767--39308056	128	2.3	128	85	1	384	28	31	18	21	1.97
39312432--39312578	78	1.9	78	88	5	226	34	5	42	17	1.72
39312688--39312965	41	6.8	41	81	3	335	30	28	20	20	1.98
39312672--39312965	82	3.6	82	89	1	428	31	27	20	20	1.97
39312674--39312965	123	2.4	123	88	1	424	31	27	20	20	1.97
39312992--39313067	40	1.9	40	86	0	107	21	21	23	34	1.97
39318504--39318594	24	3.9	24	77	10	73	27	19	23	29	1.98
39318553--39318630	25	3.2	24	83	8	86	34	19	23	23	1.96
39319376--39319436	29	2.1	28	80	11	70	36	14	19	29	1.92
39325974--39326010	2	18.5	2	100	0	74	51	0	0	48	1.00
39328662--39328930	39	6.9	39	76	6	258	35	29	16	18	1.93
39328662--39328930	117	2.3	117	83	1	333	35	29	16	18	1.93
39335991--39336296	39	7.8	39	81	0	342	34	30	18	16	1.93
39343448--39343570	40	3.0	41	84	3	140	34	16	20	29	1.94
39343734--39343827	25	3.8	25	75	0	80	19	35	15	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39345575--39345605	13	2.4	13	94	0	53	45	0	12	41	1.42
39352995--39353061	26	2.5	26	95	2	116	25	7	8	58	1.55
39354486--39354604	43	2.8	43	80	2	123	30	21	20	27	1.98
39356806--39356867	30	2.1	30	87	6	90	19	38	0	41	1.51
39358469--39358521	16	3.3	16	79	10	72	37	5	26	30	1.79
39358706--39358839	57	2.3	56	84	7	162	52	3	0	43	1.24
39364557--39364645	39	2.2	40	88	5	128	39	2	4	53	1.33
39372375--39372437	7	9.0	7	96	0	117	44	41	0	14	1.45
39373489--39373527	12	3.3	12	85	3	53	15	15	10	58	1.62
39375496--39376500	524	1.9	524	86	1	1440	30	23	19	26	1.98
39378389--39378500	20	5.7	19	68	13	68	33	16	33	16	1.92
39378362--39378540	39	4.6	39	82	1	198	32	17	32	16	1.93
39378447--39378509	20	3.2	20	67	24	53	26	17	34	20	1.95
39396783--39396837	27	2.0	27	96	0	101	14	9	36	40	1.78
39396846--39396880	17	2.1	17	100	0	70	28	11	17	42	1.83
39397722--39397957	114	2.1	114	82	4	280	25	19	16	38	1.92
39397860--39398182	144	2.2	144	80	2	360	24	19	17	37	1.94
39397716--39398189	29	16.5	29	75	5	273	24	20	17	37	1.93
39397799--39398188	173	2.3	172	80	3	471	24	20	17	37	1.94
39402038--39402256	109	2.0	110	96	0	404	27	21	11	39	1.88
39402037--39402203	55	3.1	55	62	20	132	28	20	10	40	1.86
39402057--39402225	55	3.1	55	62	16	125	27	21	10	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39402085--39402255	55	3.1	55	62	16	129	27	20	12	39	1.88
39402227--39402655	29	15.2	27	77	10	274	24	20	19	35	1.95
39402220--39402643	143	3.0	143	78	6	362	24	20	19	36	1.95
39402220--39402655	57	7.7	57	73	8	311	24	19	19	36	1.95
39404073--39404572	29	17.4	28	76	7	290	23	21	19	36	1.95
39404073--39404572	57	8.7	57	75	6	300	23	21	19	36	1.95
39405777--39405901	29	4.3	29	90	0	178	39	15	23	22	1.92
39405892--39406049	30	5.3	30	79	13	159	39	12	29	19	1.88
39405889--39406049	60	2.7	60	79	14	199	39	11	28	20	1.88
39405890--39406111	119	1.9	119	81	3	277	36	12	28	22	1.90
39410067--39410153	28	3.1	28	90	3	131	39	19	18	22	1.93
39410084--39410153	27	2.5	28	90	2	88	40	20	18	21	1.92
39412059--39412106	22	2.0	23	84	11	62	62	6	2	29	1.31
39413881--39414001	45	2.7	44	85	5	154	25	23	20	29	1.99
39414194--39418808	169	27.4	169	86	2	6088	28	25	16	29	1.97
39418666--39418855	51	3.7	51	69	3	148	27	22	18	31	1.97
39418671--39418904	102	2.3	102	89	1	353	28	23	17	30	1.97
39418727--39418914	51	3.7	50	70	1	133	29	23	15	31	1.95
39418772--39419174	169	2.4	169	84	3	551	26	24	18	29	1.98
39422116--39422433	169	1.9	173	87	4	475	26	24	18	31	1.97
39426538--39427872	169	7.9	169	86	2	1770	28	25	17	28	1.97
39426537--39427872	506	2.6	502	86	3	1874	28	25	17	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39437713--39441005	169	19.6	169	87	2	4309	28	24	17	29	1.97
39441004--39441359	169	2.1	168	86	2	482	27	23	18	30	1.98
39441228--39441501	143	1.9	143	84	5	367	30	20	17	30	1.96
39441365--39445852	169	26.6	169	85	1	5583	27	25	16	30	1.97
39444359--39444460	51	2.0	51	82	0	123	25	24	17	32	1.97
39445708--39445948	102	2.4	102	87	2	342	26	23	19	30	1.98
39445545--39446079	271	2.0	271	89	0	811	26	24	17	30	1.97
39445708--39445948	51	4.7	51	73	0	176	26	23	19	30	1.98
39445201--39446461	609	2.1	609	86	1	1760	27	25	16	30	1.97
39445372--39446271	440	2.0	440	86	0	1228	27	25	17	30	1.97
39445811--39447706	169	11.2	169	86	1	2562	27	25	16	30	1.97
39445035--39446624	778	2.0	778	87	1	2272	27	25	16	30	1.97
39445811--39447706	507	3.7	507	87	1	2837	27	25	16	30	1.97
39444876--39446799	947	2.0	947	90	1	2996	27	25	16	30	1.97
39447611--39447779	67	2.5	67	84	1	205	24	27	17	30	1.97
39447440--39447942	236	2.1	236	89	1	749	27	26	16	29	1.97
39447103--39448286	574	2.1	575	88	1	1791	27	25	16	30	1.97
39447676--39448491	169	4.8	169	84	1	1089	27	24	17	30	1.97
39447271--39448097	405	2.0	405	86	1	1140	27	25	17	29	1.97
39448298--39448700	209	1.9	209	88	1	601	30	23	16	29	1.96
39448622--39448725	51	2.0	51	85	3	138	28	25	16	29	1.97
39448507--39449017	169	3.0	168	82	5	577	29	23	15	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39449118--39449931	169	4.8	168	81	3	839	29	23	16	30	1.96
39449118--39449931	338	2.4	337	81	3	1026	29	23	16	30	1.96
39450036--39451030	169	5.9	169	88	1	1420	27	25	17	30	1.97
39451275--39453536	169	13.4	168	79	5	2207	28	24	16	30	1.96
39451231--39459893	338	25.7	338	76	3	6625	26	23	15	28	1.94
39451269--39459893	507	17.0	505	74	3	4797	26	23	15	28	1.94
39453684--39454276	169	3.5	164	76	7	519	29	24	15	30	1.96
39454539--39459893	169	31.7	169	85	2	6755	28	25	17	29	1.97
39485260--39486858	169	9.4	169	84	3	1766	29	24	16	29	1.97
39485260--39486858	505	3.1	502	84	4	1938	29	24	16	29	1.97
39485260--39486858	674	2.3	676	85	4	2054	29	24	16	29	1.97
39490589--39490801	112	1.9	113	79	2	241	30	22	17	30	1.96
39499184--39500469	169	7.6	169	95	0	2288	27	25	18	29	1.98
39517407--39519444	169	12.1	169	96	0	3699	27	25	18	28	1.98
39519744--39520942	169	7.0	169	92	1	1918	27	25	18	28	1.98
39519744--39520945	506	2.3	507	92	2	1998	27	25	18	28	1.98
39523311--39524163	169	5.1	169	83	2	1011	28	25	16	29	1.96
39523311--39524156	337	2.5	337	83	3	1015	28	25	16	29	1.96
39523960--39524070	51	2.2	51	78	3	125	29	26	14	29	1.95
39524264--39526208	169	11.5	169	89	1	2741	28	25	17	29	1.97
39525209--39525319	51	2.2	51	78	3	125	29	26	14	29	1.95
39524264--39532436	507	16.0	507	80	9	6774	27	25	17	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39526009--39526434	221	1.9	225	84	2	583	28	26	16	28	1.97
39525844--39526599	394	1.9	396	83	4	988	28	25	17	28	1.97
39526229--39532436	169	36.7	169	90	1	9500	27	25	18	29	1.98
39534061--39534955	169	5.3	169	94	0	1576	27	25	19	28	1.98
39535721--39542797	169	41.8	169	85	2	8728	28	25	16	28	1.97
39535721--39548118	338	36.9	338	77	9	6866	28	25	16	29	1.97
39539559--39539614	28	2.0	28	100	0	112	28	28	14	28	1.95
39541158--39541257	51	2.0	51	85	0	137	27	27	19	27	1.99
39542690--39542904	100	2.1	101	87	3	308	30	22	17	29	1.97
39542522--39543073	269	2.0	269	87	2	786	28	25	17	28	1.98

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