genome.fa.s9.2.7.7.80.10.50.1000.114.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  114  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)
39105847--39105894	15	3.3	15	88	8	64	68	0	16	14	1.21
39105847--39105888	7	5.7	7	83	10	57	69	0	16	14	1.20
39107149--39107525	132	2.9	131	89	2	560	29	20	24	25	1.99
39107891--39107954	19	3.3	19	87	8	92	37	9	14	39	1.78
39107892--39107965	21	3.6	21	90	3	107	39	10	10	39	1.75
39107892--39107973	40	2.0	40	81	9	96	41	9	10	37	1.73
39108549--39108589	21	2.0	21	90	0	64	31	4	4	58	1.40
39109810--39109874	27	2.4	27	84	2	87	35	20	20	24	1.96
39111520--39111544	6	4.2	6	100	0	50	68	0	32	0	0.90
39114474--39114534	18	3.3	18	75	11	52	63	3	3	29	1.26
39125399--39125480	12	6.5	12	66	20	51	8	23	0	68	1.17
39125347--39125444	38	2.6	38	80	4	99	7	22	1	69	1.19
39125398--39125471	24	3.0	24	70	20	62	8	22	0	68	1.15
39126364--39126423	16	3.9	15	75	20	52	20	15	1	63	1.39
39129278--39129335	3	19.3	3	100	0	116	32	0	0	67	0.91
39129428--39129498	10	7.5	10	73	24	57	61	0	2	35	1.10
39129407--39129498	29	3.3	28	79	10	98	61	1	3	33	1.19
39129412--39129481	18	3.8	17	75	20	61	67	1	1	30	1.08
39133396--39133438	22	1.9	22	90	4	68	41	13	6	37	1.72
39133394--39133491	19	4.8	19	82	13	106	38	15	9	36	1.79
39133428--39133490	21	3.1	21	90	9	112	38	14	9	38	1.78
39134019--39134476	173	2.6	173	88	6	612	29	24	18	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39133882--39134311	217	2.0	218	86	2	614	28	22	19	29	1.98
39133928--39134695	217	3.5	215	81	8	666	27	23	19	28	1.98
39133882--39134776	390	2.3	390	88	2	1314	28	23	20	28	1.98
39134195--39134774	173	3.4	174	83	7	591	27	23	20	28	1.99
39134020--39134774	44	17.5	40	70	13	285	28	23	19	28	1.98
39134285--39134774	217	2.3	216	85	5	641	27	23	20	28	1.99
39134727--39135178	132	3.4	132	90	1	665	26	24	19	29	1.99
39134816--39135132	44	7.2	44	63	13	123	25	23	20	30	1.98
39139600--39139906	154	2.0	154	98	0	596	39	14	18	27	1.90
39141652--39141712	26	2.4	25	81	10	63	59	4	1	34	1.29
39142417--39142470	19	2.8	19	91	0	90	37	16	7	38	1.77
39146242--39146292	26	2.0	26	88	0	75	31	9	11	47	1.73
39147589--39147637	10	4.6	10	78	12	53	71	14	14	0	1.15
39147589--39147637	22	2.3	20	80	13	53	71	14	14	0	1.15
39148484--39148572	3	29.7	3	95	0	160	33	2	0	64	1.06
39148654--39148697	16	2.6	17	82	7	63	45	2	0	52	1.13
39149068--39149278	112	1.9	109	91	2	341	30	16	20	32	1.95
39153258--39153355	48	2.0	48	86	2	133	74	7	9	9	1.22
39153267--39153353	42	2.0	42	85	10	115	74	8	8	9	1.22
39153713--39153756	20	2.2	20	88	8	63	72	0	15	11	1.11
39153714--39153764	20	2.6	19	80	20	61	68	0	17	13	1.21
39155035--39155600	43	13.2	43	62	18	160	30	23	23	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39154976--39155666	86	8.0	86	94	0	1163	30	23	24	22	1.99
39155728--39156014	44	6.6	43	75	9	208	29	18	24	27	1.98
39156524--39156572	10	4.6	10	78	12	53	71	14	14	0	1.15
39156524--39156572	22	2.3	20	80	13	53	71	14	14	0	1.15
39157427--39157490	3	21.3	3	93	0	110	32	3	0	64	1.10
39157567--39157610	16	2.6	17	82	7	63	45	2	0	52	1.13
39158578--39158632	24	2.3	23	81	6	65	52	9	0	38	1.33
39159846--39159898	11	4.5	11	76	17	52	69	1	1	26	1.09
39163719--39163904	50	3.7	50	80	3	198	29	23	25	21	1.99
39170426--39170677	56	4.7	56	85	5	278	26	19	29	24	1.98
39170426--39170728	56	5.8	50	83	5	261	27	19	28	24	1.99
39173253--39173577	87	3.8	87	80	4	322	41	12	12	33	1.79
39173506--39173656	79	1.9	78	85	4	205	37	14	17	31	1.90
39176752--39176790	20	2.0	20	90	10	62	56	5	23	15	1.59
39183876--39183982	50	2.1	50	84	6	146	24	21	31	22	1.98
39197151--39197187	17	2.1	19	85	10	51	24	8	27	40	1.83
39202165--39202215	23	2.3	22	83	6	68	52	19	0	27	1.46
39202165--39202215	10	4.6	11	75	15	52	52	19	0	27	1.46
39202400--39203064	331	2.0	331	99	0	1312	29	16	26	26	1.97
39206881--39206906	6	4.3	6	100	0	52	30	0	19	50	1.48
39206968--39207178	2	109.0	2	72	11	109	55	1	5	37	1.31
39207001--39207192	58	3.0	65	83	14	263	57	1	5	35	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39206998--39207198	68	3.1	65	82	12	254	57	1	5	35	1.31
39209008--39209760	44	17.3	43	68	3	288	21	23	24	30	1.99
39209072--39209280	87	2.4	87	90	0	328	20	24	25	30	1.99
39209028--39209762	43	17.0	42	69	10	363	21	23	23	30	1.99
39209177--39209813	174	3.7	172	83	4	676	22	24	23	29	1.99
39209028--39209503	217	2.2	218	88	0	711	21	23	23	31	1.98
39209247--39209814	87	6.5	87	89	0	841	22	24	23	29	1.99
39211543--39211615	36	2.0	35	82	10	85	60	2	8	28	1.40
39214057--39214581	82	6.5	82	81	5	443	29	13	11	45	1.79
39214048--39214489	162	2.7	165	80	5	465	29	13	11	44	1.79
39214273--39214601	159	2.1	153	80	5	363	30	12	11	45	1.77
39214354--39214601	77	3.2	77	83	2	293	30	11	10	47	1.74
39217793--39217968	79	2.2	78	86	7	257	34	16	13	35	1.88
39217996--39218244	86	2.9	86	80	7	233	35	11	10	42	1.76
39218023--39218269	83	2.9	83	79	7	223	34	12	9	42	1.76
39224397--39224595	100	2.0	100	91	2	319	35	26	10	27	1.89
39228318--39228362	23	2.0	23	86	4	65	35	6	17	40	1.76
39233462--39233519	22	2.7	21	84	7	80	32	5	18	43	1.73
39234615--39234648	2	17.0	2	100	0	68	50	0	0	50	1.00
39237375--39237477	26	3.8	27	73	10	77	48	0	7	42	1.38
39237401--39237454	26	2.1	26	89	0	81	48	0	9	42	1.35
39237558--39237627	34	2.0	34	83	8	88	57	7	4	31	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39237684--39237731	4	12.0	4	80	8	53	70	2	4	22	1.15
39239508--39239931	44	9.8	44	72	5	224	26	20	22	30	1.98
39239649--39239844	85	2.3	85	80	8	209	26	20	21	31	1.98
39239504--39239948	128	3.4	129	84	2	527	25	20	21	31	1.98
39241685--39241714	12	2.4	13	88	11	53	46	6	23	23	1.75
39244630--39244683	26	2.1	26	85	0	72	48	1	9	40	1.46
39254921--39255198	79	3.3	86	74	13	222	33	14	13	38	1.86
39256551--39256702	25	6.2	25	76	12	118	26	21	19	32	1.97
39256561--39256713	49	3.1	49	87	2	191	27	22	18	31	1.97
39256590--39256713	50	2.5	49	89	3	178	27	24	19	29	1.98
39256581--39256708	25	5.2	25	76	14	122	25	23	20	30	1.98
39259627--39260326	350	2.0	346	94	1	1231	34	19	13	32	1.91
39266509--39266547	20	2.0	20	90	10	62	15	23	5	56	1.59
39270981--39271009	15	1.9	15	100	0	58	34	17	13	34	1.89
39274161--39274218	3	19.3	3	100	0	116	67	0	0	32	0.91
39276949--39276988	20	1.9	22	85	10	57	35	10	5	50	1.58
39279942--39280008	31	2.1	32	81	13	77	26	11	29	31	1.92
39280800--39280843	22	2.0	22	95	0	79	25	36	4	34	1.76
39286219--39286262	18	2.5	17	75	10	52	75	2	4	18	1.09
39297505--39297570	33	2.0	33	96	0	123	28	15	3	53	1.57
39301825--39301855	11	2.8	11	100	0	62	29	25	0	45	1.54
39303623--39303665	18	2.4	18	92	0	68	20	27	9	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39303906--39303946	21	2.0	21	95	0	73	31	53	14	0	1.41
39304154--39304183	9	3.4	9	90	9	53	36	0	0	63	0.95
39307620--39307657	19	2.0	20	85	15	53	31	5	21	42	1.75
39311137--39311178	12	3.6	12	83	6	59	35	0	0	64	0.94
39311137--39311178	11	3.5	12	83	9	59	35	0	0	64	0.94
39311744--39311804	26	2.4	26	73	13	72	59	19	11	9	1.60
39314099--39314166	2	34.0	2	87	0	100	0	5	50	44	1.26
39314099--39314170	18	4.0	18	90	0	117	0	6	50	43	1.29
39322226--39322291	29	2.3	29	89	7	100	46	10	13	28	1.76
39322245--39322291	16	3.2	15	77	22	55	44	12	14	27	1.82

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