genome.fa.s9.2.7.7.80.10.50.1000.207.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  207  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)
65313156--65313186	15	2.1	14	94	5	53	83	3	0	12	0.75
65314381--65314420	19	2.2	19	86	13	57	15	2	42	40	1.60
65320367--65320399	17	1.9	17	88	11	50	60	0	0	39	0.97
65322064--65322095	2	16.0	2	100	0	64	50	0	0	50	1.00
65327828--65327877	3	17.0	3	78	12	50	28	8	0	64	1.22
65330583--65330621	2	19.5	2	100	0	78	51	0	0	48	1.00
65333398--65333499	3	34.0	3	87	0	150	60	2	2	33	1.26
65334947--65335285	44	7.7	45	69	10	173	27	21	19	31	1.98
65334947--65335068	45	2.7	45	78	6	113	27	22	18	31	1.97
65334819--65335410	217	2.7	217	93	1	963	26	20	20	31	1.98
65335284--65335538	128	2.0	128	89	1	395	26	20	21	31	1.98
65335446--65335720	88	3.1	87	80	3	309	25	21	20	32	1.97
65335611--65335720	44	2.5	44	80	7	125	28	22	20	29	1.98
65348409--65348491	3	27.7	3	85	0	112	61	2	3	32	1.26
65352014--65352054	21	2.0	21	90	0	64	21	17	26	34	1.95
65352019--65352062	21	2.1	21	86	0	61	27	20	22	29	1.99
65353455--65353622	83	2.0	83	90	0	264	33	13	29	23	1.93
65362141--65362243	42	2.5	41	90	3	152	18	3	46	31	1.67
65362141--65362256	42	2.8	41	85	2	151	18	6	44	30	1.74
65367328--65367362	17	2.1	17	89	5	54	57	8	2	31	1.44
65368153--65368193	22	1.9	21	85	5	55	7	26	12	53	1.64
65381312--65381416	48	2.2	48	79	14	126	59	3	2	34	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65381307--65381415	47	2.3	47	80	11	125	59	3	2	33	1.29
65385646--65385672	14	1.9	14	100	0	54	59	14	14	11	1.62
65398070--65398343	46	5.9	46	91	1	379	45	17	13	23	1.84
65398219--65398457	114	2.1	115	94	1	417	45	18	13	22	1.84
65398265--65398407	68	2.1	69	90	2	225	46	18	13	21	1.84
65398336--65398459	46	2.7	46	88	4	182	45	18	12	23	1.83
65399065--65399187	43	2.9	43	82	2	149	31	26	17	25	1.97
65403826--65403865	3	13.0	3	89	5	62	67	0	0	32	0.91
65414851--65414876	9	2.9	9	100	0	52	11	11	0	76	1.01
65429092--65429153	28	2.2	28	97	2	117	29	6	33	30	1.83
65429584--65429697	56	2.0	56	100	0	228	35	14	7	43	1.72
65438880--65438934	25	2.2	25	83	6	67	27	21	27	23	1.99
65439444--65439487	21	2.1	21	86	0	61	43	9	2	45	1.48
65449108--65449144	9	4.1	9	85	0	56	43	13	10	32	1.79
65450373--65450447	27	2.8	27	91	0	123	38	25	18	17	1.92
65450373--65450458	27	3.2	27	85	3	111	36	26	17	19	1.94
65450830--65451051	54	4.1	54	87	6	317	43	20	17	18	1.88
65450830--65451052	81	2.8	80	88	1	320	43	20	17	18	1.88
65450830--65451052	27	8.3	27	87	2	277	43	20	17	18	1.88
65451415--65451558	28	5.2	28	82	0	173	28	23	18	29	1.97
65452164--65452208	21	2.1	21	83	0	54	42	11	2	44	1.52
65452202--65452226	11	2.3	11	100	0	50	28	16	0	56	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65455317--65455541	109	2.1	109	88	1	335	29	23	16	31	1.96
65458043--65458105	27	2.3	27	81	10	67	26	20	11	41	1.86
65467346--65467380	18	2.0	18	88	5	54	51	14	8	25	1.70
65468132--65468178	23	2.0	23	100	0	94	36	25	17	21	1.94
65470803--65470905	42	2.5	42	84	9	122	29	23	19	28	1.98
65476630--65476678	19	2.4	21	83	12	59	26	2	8	63	1.34
65478419--65478494	23	3.3	23	96	0	143	31	26	21	21	1.98
65478581--65478609	8	3.6	8	100	0	58	34	27	13	24	1.93
65478714--65478752	18	2.2	17	86	13	53	46	20	0	33	1.51
65493398--65493435	20	1.9	20	88	0	58	65	2	2	28	1.19
65493903--65493937	17	2.0	18	88	5	54	60	0	5	34	1.21
65494018--65494056	20	2.0	20	94	0	69	64	2	2	30	1.21
65496571--65496607	17	2.1	18	90	10	58	32	2	29	35	1.72
65496580--65496616	17	2.1	17	90	5	56	37	0	29	32	1.58
65500870--65501170	57	5.3	57	80	1	300	29	21	17	30	1.96
65503607--65503799	50	3.8	50	90	0	287	24	22	31	21	1.98
65505905--65505956	18	2.7	20	74	17	56	59	0	3	36	1.16
65506046--65506085	20	2.0	20	90	0	62	50	10	10	30	1.69
65506034--65506100	34	1.9	35	87	3	100	46	11	8	32	1.72
65507694--65507734	21	2.0	21	95	0	73	60	7	0	31	1.24
65507698--65507777	38	2.1	38	84	11	101	56	7	0	36	1.28
65512327--65512366	19	2.1	19	100	0	80	37	10	15	37	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65512330--65512379	19	2.5	19	90	6	73	40	12	12	36	1.79
65512330--65512385	21	2.8	19	80	15	60	41	10	12	35	1.78
65512579--65512617	19	2.0	21	85	10	55	15	10	5	69	1.34
65518980--65520088	44	25.2	44	62	13	172	30	19	23	26	1.98
65518934--65520124	132	9.0	132	91	0	1869	30	18	24	26	1.98
65520409--65520483	19	3.8	19	87	6	114	40	9	13	37	1.77
65520474--65520516	22	1.9	23	85	4	61	34	4	13	46	1.65
65520683--65520721	19	2.0	21	85	10	55	15	10	5	69	1.34
65520944--65520989	3	15.3	3	91	8	76	34	0	0	65	0.93
65520944--65520990	24	2.0	23	95	4	85	36	0	0	63	0.94
65532862--65532905	7	6.1	7	87	12	63	27	0	13	59	1.35
65532860--65532913	21	2.6	21	96	0	99	27	0	14	57	1.38
65533005--65533170	83	2.0	83	91	0	269	43	7	15	33	1.74
65537477--65537550	38	1.9	39	94	2	132	55	10	0	33	1.35
65554718--65554968	133	1.9	132	89	2	387	36	9	21	32	1.86
65556539--65556610	27	2.5	29	80	11	76	23	18	19	38	1.93
65556732--65556821	28	3.2	27	84	7	117	31	15	21	32	1.94
65573202--65573234	17	1.9	17	100	0	66	24	27	6	42	1.78
65590362--65590426	22	3.0	22	93	0	103	33	15	26	24	1.95
65594546--65594606	29	2.1	29	90	0	95	50	3	3	42	1.34
65595074--65595128	22	2.5	21	80	8	56	69	1	5	23	1.19
65597913--65597961	25	2.0	25	88	8	73	32	16	28	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65598021--65598098	25	3.1	25	84	0	102	38	21	24	15	1.92
65598205--65598253	25	2.0	25	83	0	62	40	14	22	22	1.90
65598313--65598451	25	5.6	25	76	1	127	38	19	25	16	1.92
65598317--65598452	50	2.7	50	83	2	166	37	19	25	17	1.93
65600833--65600906	25	3.0	25	85	0	103	33	18	20	27	1.96
65600802--65600904	50	2.1	50	81	5	120	32	22	19	26	1.97
65604671--65604740	25	2.8	25	80	4	79	30	20	22	27	1.98
65611501--65611629	57	2.3	58	80	14	160	48	4	18	27	1.68
65611528--65611642	57	2.1	55	85	9	153	46	6	16	31	1.71
65611535--65611661	57	2.3	57	82	8	145	48	7	15	29	1.72
65612821--65612871	6	8.3	6	88	2	75	1	17	0	80	0.81
65617789--65617867	39	2.0	39	97	0	149	24	24	24	27	2.00
65619411--65619592	87	2.1	87	96	0	337	45	13	10	30	1.77
65622025--65622053	13	2.1	14	93	6	51	58	0	3	37	1.15
65622161--65622191	15	2.1	15	93	0	53	54	0	3	41	1.16
65622732--65622773	2	21.0	2	100	0	84	50	0	0	50	1.00
65622818--65622853	18	2.0	18	100	0	72	16	16	22	44	1.86
65622818--65622859	18	2.5	17	92	7	68	16	14	26	42	1.86
65623586--65623636	18	2.8	18	75	0	66	13	43	3	39	1.63
65624341--65624368	12	2.3	12	100	0	56	28	7	17	46	1.75
65625775--65625802	13	2.2	13	100	0	56	53	14	0	32	1.41
65626235--65626272	20	1.9	20	88	0	58	44	15	10	28	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65626255--65626297	14	3.0	15	80	10	54	41	16	6	34	1.75
65627751--65627879	44	3.0	44	76	12	140	21	17	28	31	1.96
65630297--65630342	3	15.3	3	100	0	92	67	0	0	32	0.91
65631177--65631206	16	1.9	15	93	6	51	46	0	6	46	1.29
65633177--65633226	24	2.1	24	100	0	100	40	12	8	40	1.72
65633182--65633236	24	2.3	24	87	0	74	36	12	10	40	1.79
65633376--65633447	30	2.4	29	73	8	74	33	9	22	34	1.87
65633782--65634077	50	5.8	50	85	2	306	28	21	27	22	1.99
65636364--65636404	21	2.0	21	85	9	57	51	17	0	31	1.46
65637038--65637163	57	2.2	58	85	4	175	40	32	13	13	1.84

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