genome.fa.s5.2.7.7.80.10.50.1000.164.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   

This is table  164  of  208  ( 24913 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)
50064351--50064404	17	3.4	17	65	19	53	20	38	29	11	1.87
50064339--50064456	30	3.9	30	85	0	146	22	37	27	11	1.90
50066333--50066361	7	4.1	7	100	0	58	41	0	44	13	1.44
50072308--50072333	3	8.7	3	100	0	52	69	0	0	30	0.89
50074441--50074492	26	2.0	26	100	0	104	26	11	3	57	1.51
50077086--50077110	13	1.9	13	100	0	50	56	8	0	36	1.29
50078822--50079045	50	4.5	50	91	0	358	20	31	22	25	1.98
50080486--50080519	17	2.0	17	100	0	68	23	23	29	23	1.99
50080493--50080559	29	2.3	30	84	2	82	19	29	28	22	1.98
50084540--50084745	104	2.0	104	95	0	367	26	26	18	27	1.98
50088932--50088965	17	1.9	17	88	5	50	50	8	8	32	1.64
50092269--50092300	13	2.5	13	94	0	55	31	0	12	56	1.37
50092395--50092643	50	4.8	50	87	3	327	27	22	28	21	1.99
50094186--50094219	15	2.2	16	89	5	52	70	0	11	17	1.16
50094185--50094223	20	2.0	20	85	10	53	69	0	12	17	1.19
50104466--50104492	2	13.5	2	100	0	54	48	0	0	51	1.00
50104686--50104754	27	2.5	28	79	9	70	63	4	2	28	1.28
50119902--50119931	2	15.0	2	92	0	51	53	0	0	46	1.00
50120294--50120321	3	9.3	3	100	0	56	32	0	0	67	0.91
50126729--50126759	16	1.9	16	93	0	53	9	51	32	6	1.60
50126861--50126914	28	1.9	28	100	0	108	72	0	1	25	0.95
50145782--50145834	22	2.4	22	87	0	70	52	0	3	43	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50145808--50145849	16	2.6	16	88	0	66	47	0	11	40	1.40
50145838--50146046	66	3.1	66	95	1	364	40	4	9	44	1.58
50145988--50146015	9	3.1	9	100	0	56	32	0	10	57	1.33
50146112--50146157	24	1.9	24	91	8	76	60	2	0	36	1.09
50147857--50147889	14	2.4	14	90	5	50	0	21	0	78	0.75
50149804--50149861	30	1.9	30	89	0	89	41	3	24	31	1.71
50150074--50150104	13	2.4	13	94	0	53	32	0	12	54	1.38
50150199--50150351	50	3.1	50	97	0	288	26	20	32	20	1.97
50150423--50150508	22	3.9	22	90	0	118	27	15	27	29	1.96
50157655--50157685	13	2.4	13	94	0	53	32	0	12	54	1.38
50157820--50157857	18	2.1	18	95	0	67	28	31	31	7	1.86
50157780--50157906	68	1.9	68	98	0	245	25	24	31	18	1.97
50157838--50157990	50	3.0	50	84	0	198	26	24	28	19	1.99
50162766--50162816	24	2.1	24	88	0	75	37	3	9	49	1.55
50167189--50167242	24	2.2	24	86	0	72	38	3	7	50	1.48
50169100--50169141	20	2.1	20	95	0	75	50	16	9	23	1.75
50169154--50169206	21	2.5	21	79	8	72	43	33	3	18	1.68
50169420--50169455	18	2.0	18	100	0	72	16	16	22	44	1.86
50172233--50172285	26	2.0	26	85	3	70	58	1	0	39	1.09
50172251--50172280	16	1.9	16	93	6	53	60	0	0	40	0.97
50180394--50180555	46	3.6	46	91	2	258	29	22	14	32	1.94
50186789--50186994	104	2.0	104	91	3	335	18	19	29	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50186894--50187071	77	2.3	77	99	0	347	21	19	26	32	1.97
50186786--50187132	181	1.9	179	92	3	581	20	19	29	30	1.97
50189152--50189320	25	6.8	25	75	6	137	17	26	20	35	1.95
50189144--50189309	50	3.3	49	78	12	153	18	28	20	33	1.96
50189144--50189320	74	2.4	75	78	8	191	18	27	20	34	1.95
50190610--50190783	17	9.8	17	76	10	145	45	11	12	31	1.77
50190627--50190794	18	9.6	17	74	14	112	44	11	11	32	1.76
50191578--50191630	28	2.0	26	85	7	70	1	26	0	71	0.96
50192363--50192496	30	4.5	30	74	12	96	47	5	16	31	1.69
50200448--50200496	24	2.0	24	84	7	64	32	4	24	38	1.74
50203736--50203852	58	2.0	58	98	0	225	25	11	15	47	1.78
50208235--50208297	28	2.2	28	86	10	85	23	4	6	65	1.36
50216984--50217018	16	2.3	15	90	5	52	74	0	2	22	0.95
50217233--50217705	241	2.0	239	87	4	684	29	20	14	35	1.92
50225840--50225870	2	15.0	2	93	6	53	48	0	3	48	1.17
50228466--50228522	24	2.4	24	77	13	64	22	1	1	73	1.02
50228488--50228523	9	4.0	9	89	10	56	22	2	0	75	0.94
50228574--50228612	17	2.3	18	82	13	55	17	7	0	74	1.05
50243750--50243843	30	3.4	30	66	28	89	39	14	26	19	1.90
50245376--50246181	44	17.6	44	73	9	504	33	15	19	31	1.94
50245468--50246181	89	7.9	88	77	6	444	33	15	20	31	1.93
50246198--50246299	44	2.3	44	86	3	134	34	16	23	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50246200--50246311	44	2.5	44	84	2	127	35	15	24	25	1.94
50247723--50247779	24	2.4	23	78	18	64	21	3	1	73	1.07
50247723--50247802	38	2.1	39	83	6	101	22	6	1	70	1.17
50247746--50247780	13	2.6	13	95	4	61	22	2	0	74	0.95
50247871--50247912	19	2.2	20	86	4	59	23	4	4	66	1.30
50255275--50255314	19	2.0	20	85	4	55	37	2	7	52	1.43
50261230--50261304	11	6.8	11	71	27	61	54	1	1	42	1.17
50261230--50261304	25	3.1	25	72	18	77	54	1	1	42	1.17
50269223--50269256	11	3.1	11	86	0	50	67	14	8	8	1.41
50270569--50270702	41	3.4	39	74	7	128	34	26	15	23	1.95
50270835--50270884	15	3.2	15	76	20	57	50	14	0	36	1.43
50271658--50271715	5	11.8	5	96	3	109	58	0	0	41	0.98
50271703--50271746	22	1.9	24	90	9	74	47	6	0	45	1.29
50271660--50271764	20	5.2	20	81	17	87	52	3	0	42	1.26
50277999--50278048	25	2.0	25	100	0	100	24	20	8	48	1.76
50278846--50278890	19	2.4	19	96	3	83	46	8	15	28	1.76
50282297--50282348	11	4.7	11	76	9	61	59	5	0	34	1.21
50282276--50282348	33	2.2	32	95	2	128	54	6	0	38	1.27
50285338--50285444	55	1.9	57	81	7	130	40	1	1	56	1.21
50285696--50285771	40	1.9	40	86	0	107	23	25	26	25	2.00
50285905--50285957	23	2.3	23	81	18	67	26	32	0	41	1.56
50285905--50285957	11	4.7	12	80	19	69	26	32	0	41	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50288116--50288162	21	2.2	21	81	7	60	34	31	25	8	1.86
50288409--50288720	21	14.7	21	71	14	182	45	30	0	23	1.58
50288464--50288529	7	9.4	7	73	11	55	43	34	1	19	1.60
50288401--50288720	43	7.5	43	77	14	283	45	30	0	23	1.58
50288471--50288552	15	5.7	15	78	15	68	45	32	1	20	1.59
50288486--50288561	7	10.4	8	71	19	51	44	34	1	19	1.59
50288471--50288596	58	2.2	56	86	10	168	45	33	0	20	1.57
50290412--50290979	126	4.5	125	88	2	818	29	23	17	29	1.97
50290412--50290979	251	2.3	251	89	2	847	29	23	17	29	1.97
50291095--50291131	9	4.1	9	89	0	56	56	27	0	16	1.40
50291095--50291131	18	2.1	18	100	0	74	56	27	0	16	1.40
50300142--50300196	27	2.2	25	80	9	58	40	7	7	45	1.60
50312709--50312736	6	4.7	6	100	0	56	32	0	0	67	0.91
50313024--50313091	31	2.2	32	81	7	77	29	17	4	48	1.67
50315088--50315133	18	2.4	19	86	13	60	52	0	2	45	1.13
50321748--50321795	21	2.3	21	85	0	60	18	29	20	31	1.97
50321759--50321803	21	2.1	21	83	0	54	15	28	22	33	1.95
50326585--50326617	18	1.9	18	88	11	52	33	12	0	54	1.37
50328455--50328490	17	2.1	17	89	0	54	44	22	16	16	1.86
50330216--50330255	3	13.7	3	84	5	55	65	0	2	32	1.06
50330204--50330235	11	2.9	11	95	0	55	62	0	3	34	1.11
50338246--50338594	123	2.8	123	95	1	619	30	17	22	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50341700--50341724	10	2.5	10	100	0	50	48	0	8	44	1.32
50341708--50341864	56	2.8	54	80	14	194	44	5	11	38	1.63
50341752--50341835	18	4.6	18	70	11	62	51	4	7	36	1.51
50341984--50342093	55	2.0	55	98	0	211	42	6	12	38	1.69
50342101--50342142	18	2.3	18	95	0	75	28	0	23	47	1.52
50342119--50342246	29	4.9	26	74	16	115	27	0	26	46	1.53
50342091--50342281	47	4.1	46	80	9	235	27	0	25	47	1.53
50342148--50342188	17	2.3	18	87	8	66	29	0	21	48	1.50
50342088--50342281	93	2.1	91	83	7	239	28	0	24	46	1.53
50342088--50342219	46	2.8	46	94	1	228	28	0	25	46	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