genome.fa.s2.2.7.7.80.10.50.1000.188.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  188  of  206  ( 24623 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)
57041561--57041658	38	2.7	38	92	4	157	37	6	18	37	1.76
57041859--57041903	23	2.0	23	86	0	63	24	0	13	62	1.31
57042118--57042156	3	13.0	3	100	0	78	33	0	0	66	0.92
57047404--57047436	14	2.3	15	89	5	50	27	12	33	27	1.92
57048764--57049437	88	7.7	88	83	2	798	27	25	24	21	2.00
57048764--57049437	176	3.8	177	89	1	989	27	25	24	21	2.00
57050114--57050163	9	5.6	9	79	15	59	44	0	2	54	1.11
57051218--57051247	3	10.0	3	100	0	60	33	0	0	66	0.92
57052907--57052949	19	2.4	17	84	7	59	41	6	18	32	1.77
57052920--57052964	23	2.0	23	86	4	65	37	6	17	37	1.76
57053149--57053193	23	2.0	23	81	0	54	22	0	15	62	1.33
57054916--57054948	12	2.8	12	95	0	57	60	0	0	39	0.97
57054998--57055046	25	1.9	26	91	4	82	61	2	6	30	1.32
57055117--57055202	26	3.3	26	81	3	91	60	6	4	27	1.43
57057126--57057182	9	6.7	9	75	16	50	66	1	7	24	1.26
57057929--57057977	25	2.0	25	87	0	71	36	0	18	44	1.50
57059687--57059781	49	1.9	50	91	2	156	43	7	24	25	1.80
57064782--57064976	98	2.0	98	92	0	327	27	10	25	36	1.89
57065510--57065707	105	1.9	101	84	6	263	30	16	24	28	1.97
57065510--57065769	105	2.6	101	79	10	260	30	16	25	26	1.97
57065648--57065724	33	2.3	32	82	6	91	32	18	23	25	1.97
57075994--57076146	76	2.0	76	98	0	297	29	11	6	52	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57077427--57077690	73	3.5	75	81	5	293	35	22	18	24	1.96
57077553--57077682	36	3.6	35	68	15	95	36	23	18	22	1.95
57089465--57089539	26	2.8	28	77	6	82	61	0	1	37	1.05
57089902--57089948	21	2.2	22	88	3	69	63	4	0	31	1.13
57098295--57098348	20	2.7	19	83	11	63	35	5	9	50	1.58
57099075--57099107	16	2.0	17	88	5	50	51	0	3	45	1.16
57099083--57099163	23	3.9	22	67	17	57	49	0	3	46	1.19
57104921--57105064	30	4.9	28	70	17	98	36	1	0	62	1.04
57104961--57105000	12	3.4	11	83	16	53	35	0	0	65	0.93
57104968--57105003	13	2.8	13	100	0	72	36	0	0	63	0.94
57104931--57105063	43	3.1	42	85	10	171	36	1	0	61	1.05
57104961--57105030	11	6.4	11	75	17	65	37	1	0	61	1.05
57104972--57105038	31	2.1	32	91	8	111	35	1	0	62	1.04
57104971--57105064	32	2.9	31	83	10	109	35	1	0	63	1.01
57104961--57105063	11	9.3	12	70	20	55	35	0	0	63	1.01
57117467--57117496	16	1.9	15	93	6	51	53	0	0	46	1.00
57119194--57119239	22	2.1	22	95	0	83	30	21	4	43	1.72
57136812--57136843	3	10.7	3	100	0	64	31	0	0	68	0.90
57139344--57139407	20	3.2	19	79	16	67	46	9	6	37	1.61
57141039--57141203	51	3.3	51	93	0	278	27	24	15	32	1.95
57148282--57148320	20	2.0	20	85	10	53	41	12	0	46	1.42
57168071--57168139	3	23.0	3	90	0	111	0	31	2	65	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57169148--57169214	32	2.1	32	100	0	134	37	25	13	23	1.92
57175008--57175129	51	2.5	48	76	11	129	54	6	3	35	1.42
57181485--57181539	22	2.5	22	75	13	60	32	5	1	60	1.30
57182073--57182140	34	2.0	34	100	0	136	44	20	17	17	1.87
57183845--57183884	19	2.1	19	86	9	55	55	5	5	35	1.44
57191361--57191462	41	2.5	41	91	3	161	26	19	25	28	1.99
57199125--57199184	30	2.0	30	83	3	75	41	0	38	20	1.52
57205874--57206097	110	2.0	110	91	1	360	36	16	17	28	1.93
57207676--57207792	57	2.0	58	83	1	146	29	14	5	50	1.64
57208657--57208693	8	4.5	8	96	3	65	27	0	0	72	0.84
57208786--57208857	33	2.2	32	88	11	103	40	1	6	51	1.37
57209413--57209470	29	2.0	29	80	12	66	31	1	25	41	1.66
57209990--57210040	18	2.9	17	80	11	59	47	0	17	35	1.48
57212293--57212443	75	2.0	75	98	0	293	33	5	10	49	1.62
57224327--57224354	12	2.3	12	100	0	56	35	21	17	25	1.95
57231087--57231113	12	2.2	12	100	0	54	7	0	7	85	0.75
57233138--57233254	61	1.9	61	89	0	180	50	5	0	42	1.32
57235004--57235363	178	2.0	178	90	1	569	30	14	19	36	1.91
57237483--57237558	38	2.0	38	97	0	143	17	23	19	39	1.92
57241089--57241125	17	2.2	17	90	9	58	18	5	0	75	0.99
57245199--57245225	2	13.5	2	100	0	54	48	0	0	51	1.00
57248338--57248403	24	2.9	22	73	8	69	42	15	15	27	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57251414--57251438	9	2.8	9	100	0	50	20	0	0	80	0.72
57254494--57254532	15	2.4	16	87	8	53	35	0	0	64	0.94
57258818--57258878	29	2.1	29	100	0	122	40	21	21	16	1.91
57259381--57259406	2	13.0	2	100	0	52	0	50	0	50	1.00
57263922--57263982	27	2.3	27	85	0	77	11	14	39	34	1.82
57266126--57266165	20	2.0	20	100	0	80	30	10	10	50	1.69
57267095--57267141	22	2.0	24	84	8	62	21	10	12	55	1.67
57284346--57284412	6	11.2	6	72	12	57	16	2	4	76	1.08
57287136--57287204	25	2.9	23	77	14	59	20	4	0	75	0.97
57287135--57287195	7	7.9	7	73	20	50	19	3	0	77	0.91
57287134--57287199	8	8.2	8	73	9	55	19	3	0	77	0.90
57287134--57287199	15	4.1	16	72	20	57	19	3	0	77	0.90
57295862--57295928	19	3.2	23	61	30	58	37	8	10	43	1.71
57299106--57299144	14	2.8	14	84	0	51	43	15	7	33	1.75
57299500--57299553	23	2.3	24	78	15	60	46	3	5	44	1.44
57303729--57303775	21	2.2	21	88	7	69	61	0	2	36	1.08
57303736--57303782	20	2.2	20	88	7	67	57	0	2	40	1.11
57303760--57303808	19	2.7	18	81	12	55	53	2	0	44	1.12
57303726--57303796	19	3.5	20	79	11	74	57	0	1	40	1.07
57303772--57303808	19	2.0	18	89	5	56	54	2	0	43	1.14
57304706--57304738	16	2.2	15	89	10	50	18	3	15	63	1.43
57305470--57305523	18	2.9	19	78	8	58	42	16	0	40	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57306760--57306826	27	2.5	27	80	0	71	32	23	17	25	1.97
57309119--57309190	2	37.0	2	86	5	103	0	54	0	45	0.99
57309879--57309921	17	2.5	17	88	0	68	55	6	0	37	1.27
57311133--57311181	25	2.0	25	87	0	71	26	26	4	42	1.73
57313399--57313434	2	18.0	2	100	0	72	50	0	0	50	1.00
57313538--57313571	2	17.0	2	100	0	68	50	0	0	50	1.00
57343690--57343730	20	2.0	20	90	9	66	26	7	4	60	1.43
57354383--57354417	13	2.7	13	95	0	61	45	2	14	37	1.59
57355205--57355244	13	3.1	13	77	0	53	35	25	7	32	1.84
57356741--57356797	27	2.1	27	83	9	71	61	1	1	35	1.17
57358086--57358120	16	2.1	18	89	10	56	62	8	0	28	1.24
57368412--57368998	293	2.0	292	98	1	1131	40	21	19	19	1.92
57370051--57370094	20	2.3	18	84	7	52	20	11	11	56	1.64
57371146--57371254	41	2.7	41	92	0	182	22	29	22	25	1.99
57371788--57371814	2	13.5	2	100	0	54	51	0	0	48	1.00
57384998--57385072	3	25.0	3	100	0	150	33	0	0	66	0.92
57385308--57385366	29	2.0	29	87	6	84	40	6	1	50	1.39
57387989--57388044	25	2.2	25	83	3	67	48	10	14	26	1.76
57387989--57388044	26	2.2	26	83	6	69	48	10	14	26	1.76
57389354--57389418	30	2.2	30	86	10	89	36	4	3	55	1.36
57393362--57393617	127	2.0	127	100	0	512	48	17	8	25	1.76
57394202--57394274	33	2.2	33	97	2	139	32	0	35	31	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57407502--57407527	12	2.2	12	100	0	52	30	23	19	26	1.98
57409732--57409803	22	3.3	22	94	0	117	25	27	16	30	1.97
57412433--57412469	20	1.9	20	88	5	58	48	0	2	48	1.15
57414015--57414052	18	2.1	18	85	9	51	44	0	0	55	0.99
57414013--57414056	19	2.4	19	81	14	56	43	0	0	56	0.99
57416835--57417260	127	3.4	125	87	4	592	30	16	22	30	1.96
57420433--57420572	21	6.7	21	77	3	140	25	2	27	44	1.68
57420433--57420580	64	2.4	63	81	4	165	25	2	27	44	1.67
57420459--57420560	43	2.4	42	90	3	159	25	1	25	47	1.63
57421720--57421744	9	2.8	9	100	0	50	68	0	0	32	0.90

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