genome.fa.s9.2.7.7.80.10.50.1000.223.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  223  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)
69604259--69604283	12	2.1	12	100	0	50	52	8	0	40	1.31
69609200--69609247	7	7.0	7	77	13	55	81	0	18	0	0.70
69609197--69609246	11	4.5	11	81	16	59	84	0	16	0	0.63
69609197--69609247	16	3.0	17	75	18	61	82	0	17	0	0.67
69609197--69609247	21	2.5	20	84	12	68	82	0	17	0	0.67
69609197--69609246	24	2.2	23	86	10	68	84	0	16	0	0.63
69610535--69611676	50	22.9	50	70	5	729	32	22	20	24	1.98
69610535--69611675	99	11.5	99	87	1	1546	32	22	20	24	1.98
69613793--69613817	12	2.1	12	100	0	50	52	8	0	40	1.31
69624180--69624216	15	2.6	14	91	8	65	51	5	0	43	1.24
69629434--69629495	29	2.1	29	85	11	81	54	9	9	25	1.63
69630476--69630505	15	2.0	15	100	0	60	53	6	0	40	1.27
69639371--69639443	31	2.4	30	83	2	92	47	0	5	46	1.25
69639500--69639578	31	2.5	31	85	0	95	46	3	15	34	1.63
69641728--69641786	29	2.1	29	84	9	77	32	3	0	64	1.10
69641738--69641779	20	2.2	19	87	8	59	33	2	0	64	1.07
69642505--69642531	2	13.5	2	100	0	54	48	0	0	51	1.00
69642855--69642902	2	24.0	2	100	0	96	50	0	0	50	1.00
69645551--69645899	187	1.8	191	83	2	472	47	8	13	30	1.72
69647552--69647599	20	2.4	20	85	0	60	37	2	0	60	1.09
69648488--69648682	44	4.5	42	75	10	169	34	17	21	25	1.96
69648759--69648898	38	3.7	38	87	0	190	35	17	10	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69650703--69650744	22	1.9	22	90	0	66	35	2	0	61	1.09
69650708--69650756	22	2.2	22	85	3	62	34	2	4	59	1.28
69657899--69657939	20	2.0	20	100	0	82	12	34	24	29	1.91
69660545--69660578	17	1.9	18	94	5	61	29	5	5	58	1.45
69660967--69661041	33	2.2	35	92	7	136	20	6	5	68	1.33
69665635--69665686	11	4.5	11	84	13	61	55	0	3	40	1.18
69665619--69665653	18	1.9	18	94	0	61	65	0	0	34	0.93
69665635--69665704	24	2.9	23	81	12	79	57	0	2	40	1.14
69672975--69673018	14	2.9	14	81	18	52	63	0	0	36	0.95
69675762--69675801	17	2.5	16	84	8	55	55	20	0	25	1.44
69675986--69676099	51	2.2	51	83	6	133	32	15	9	42	1.80
69685673--69685705	17	1.9	17	100	0	66	51	30	6	12	1.63
69687343--69687499	78	2.0	78	97	0	296	35	11	11	42	1.77
69701171--69701213	10	4.4	10	79	5	52	34	0	0	65	0.93
69703099--69703149	3	17.0	3	100	0	102	66	0	0	33	0.92
69710480--69710509	15	1.9	16	93	6	53	43	0	3	53	1.17
69712104--69712147	19	2.2	20	84	8	63	40	9	2	47	1.48
69713339--69713379	17	2.3	18	87	4	57	36	0	2	60	1.10
69730891--69730951	25	2.4	25	88	0	86	29	18	22	29	1.97
69730976--69731032	20	2.6	22	75	10	55	43	12	17	26	1.84
69730982--69731032	20	2.4	21	80	9	59	45	13	13	27	1.82
69732776--69732896	58	2.1	58	87	3	172	42	4	3	50	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69733329--69733465	46	3.0	46	82	0	157	35	17	18	29	1.94
69733328--69733468	23	6.1	23	79	0	138	34	17	20	28	1.95
69734060--69734131	27	2.7	26	78	6	90	37	16	27	18	1.92
69736488--69736541	20	2.8	20	83	5	67	50	29	1	18	1.58
69736559--69736617	30	2.0	30	86	0	82	33	20	18	27	1.96
69737844--69737885	15	3.0	14	80	10	50	4	0	80	14	0.86
69746740--69746795	20	2.9	19	81	5	69	53	8	0	37	1.32
69782826--69782851	13	2.0	13	100	0	52	23	23	23	30	1.99
69785785--69785828	20	2.2	20	100	0	88	68	4	4	22	1.27
69787243--69787343	50	2.0	50	94	0	175	32	18	10	37	1.86
69787417--69787505	44	2.0	44	100	0	178	17	22	11	48	1.79
69792557--69792662	11	10.4	11	71	20	70	39	3	0	56	1.17
69792547--69792694	39	3.6	40	90	5	226	37	2	0	60	1.11
69792568--69792654	30	3.0	29	82	11	90	40	2	0	57	1.11
69792646--69792707	32	1.9	32	86	0	88	29	1	3	66	1.17
69794728--69794785	30	2.0	28	83	12	73	41	18	3	36	1.68
69795061--69795104	21	2.0	22	82	4	54	50	6	9	34	1.61
69798860--69798896	18	2.1	17	90	5	56	29	0	0	70	0.88
69798860--69798896	17	2.1	18	85	14	51	29	0	0	70	0.88
69800406--69800449	20	2.2	20	100	0	88	22	20	0	56	1.42
69800875--69800912	20	1.9	20	88	0	58	18	2	2	76	1.02
69800875--69800945	29	2.4	29	93	4	117	15	5	2	76	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69816000--69816029	2	15.0	2	100	0	60	50	0	0	50	1.00
69820415--69820444	9	3.2	9	95	4	51	26	0	0	73	0.84
69822794--69822832	21	1.9	20	84	5	51	41	5	5	48	1.47
69825223--69825266	6	6.7	7	92	7	51	68	0	2	29	1.02
69825234--69825265	3	10.7	3	100	0	64	68	0	0	31	0.90
69828328--69828382	25	2.2	24	80	6	65	9	10	3	76	1.13
69828890--69828916	10	2.7	10	100	0	54	29	0	0	70	0.88
69828939--69828996	27	2.1	27	80	0	62	36	10	1	51	1.46
69830757--69830787	16	1.9	16	93	0	53	25	19	22	32	1.97
69833142--69833183	20	2.1	20	82	8	50	16	19	2	61	1.44
69835417--69836319	44	19.8	45	67	10	382	30	19	24	26	1.98
69835419--69835664	92	2.7	90	92	3	406	29	19	25	25	1.99
69835656--69835685	14	2.1	14	100	0	60	13	36	6	43	1.70
69835611--69835723	59	1.9	59	94	0	199	26	25	21	26	1.99
69835519--69835812	148	2.0	150	92	2	493	28	22	23	25	1.99
69835670--69836319	89	7.2	89	91	2	1048	30	19	23	26	1.98
69835670--69836319	181	3.6	181	93	1	1112	30	19	23	26	1.98
69835670--69836319	270	2.4	267	91	2	1066	30	19	23	26	1.98
69836723--69836999	44	6.2	44	84	2	250	30	18	24	26	1.98
69836723--69836971	88	2.8	89	86	1	365	29	18	24	28	1.98
69838288--69838353	3	21.3	3	73	17	55	33	0	1	65	1.02
69838311--69838353	10	4.5	10	80	11	54	30	0	2	67	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69838288--69838343	14	3.9	15	72	13	55	33	0	0	66	0.92
69838289--69838350	18	3.0	20	77	15	65	33	0	1	64	1.03
69838370--69838444	30	2.4	30	82	14	89	37	4	8	50	1.50
69854276--69854314	19	2.1	18	85	4	51	46	2	2	48	1.29
69854421--69854455	17	2.0	18	94	5	63	57	0	5	37	1.23
69858373--69858582	109	1.9	110	85	0	287	38	17	12	31	1.88
69860848--69860878	8	3.9	8	91	0	53	16	0	0	83	0.64
69862623--69862660	18	2.2	17	90	4	58	65	5	2	26	1.27
69865901--69866112	106	2.0	104	87	6	302	34	17	17	30	1.94
69866843--69866876	16	2.2	16	89	5	52	35	5	11	47	1.65
69867206--69867324	11	11.4	11	71	22	78	37	3	0	58	1.15
69867205--69867324	52	2.3	51	90	7	197	38	3	0	58	1.15
69867197--69867348	41	3.6	42	81	9	161	38	2	0	58	1.17
69868025--69868051	5	5.4	5	100	0	54	0	22	59	18	1.38
69868389--69868421	17	1.9	17	93	0	57	84	6	0	9	0.76
69869120--69869156	18	2.1	18	100	0	74	40	16	32	10	1.83
69869375--69869711	44	7.7	44	68	19	202	29	25	16	29	1.97
69869283--69869708	132	3.2	132	93	0	717	28	24	17	28	1.98
69869722--69869843	62	2.0	62	82	6	149	22	22	22	32	1.98
69869827--69870971	89	12.9	89	89	0	1574	22	22	26	28	1.99
69873146--69873217	26	2.7	25	81	12	65	52	6	15	25	1.67
69874615--69874654	19	2.1	19	100	0	80	60	10	10	20	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69877149--69877187	6	6.7	6	82	5	53	82	2	2	12	0.89
69882563--69882594	16	2.0	16	100	0	64	31	6	0	62	1.20
69885592--69885669	30	2.6	30	87	2	104	8	21	28	41	1.83
69886243--69886272	5	6.0	5	100	0	60	40	20	20	20	1.92
69887873--69887903	9	3.4	9	90	0	53	38	22	12	25	1.90
69889206--69889300	46	2.2	44	90	7	149	47	10	8	33	1.68
69892042--69892262	72	3.1	72	83	8	290	27	20	20	31	1.98
69900981--69901028	14	3.4	14	79	0	60	52	0	8	39	1.32
69907275--69907423	72	2.1	72	85	2	201	28	18	22	30	1.97
69909335--69909402	33	2.1	33	83	2	84	35	1	14	48	1.53

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