genome.fa.s2.2.7.7.80.10.50.1000.170.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  170  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)
51720428--51720466	15	2.7	15	81	18	55	41	0	20	38	1.53
51729729--51729773	19	2.3	20	84	3	56	48	2	4	44	1.35
51738085--51738115	13	2.4	13	100	0	62	70	0	0	29	0.87
51742399--51742424	6	4.3	6	100	0	52	0	53	0	46	1.00
51742471--51742501	16	1.9	16	93	0	53	0	19	19	61	1.35
51742844--51743007	49	3.4	49	66	13	131	27	14	15	42	1.85
51742852--51743045	96	2.0	97	91	1	318	24	15	15	43	1.86
51743192--51743220	10	2.9	10	100	0	58	6	31	51	10	1.62
51743550--51743611	19	3.3	19	70	4	63	40	11	1	46	1.49
51743538--51743612	37	2.0	37	94	0	132	42	9	2	45	1.50
51743866--51744093	76	3.0	76	93	1	381	35	7	14	42	1.74
51744466--51744553	44	2.0	44	90	0	140	43	11	14	30	1.81
51746445--51746563	27	4.4	27	77	2	87	40	16	23	19	1.91
51761752--51761852	40	2.6	40	87	3	143	34	3	10	50	1.56
51763857--51763973	57	2.1	57	88	3	173	43	7	21	27	1.79
51765266--51765334	22	3.3	22	78	15	92	40	7	8	43	1.63
51765255--51765334	40	2.1	39	90	4	126	42	6	8	42	1.61
51765520--51765555	7	5.0	7	89	3	54	41	55	0	2	1.14
51767872--51767914	21	2.0	21	90	4	68	41	0	4	53	1.21
51789679--51789706	6	4.7	6	100	0	56	17	0	0	82	0.68
51789964--51790004	21	1.9	21	85	5	55	36	29	2	31	1.71
51801050--51801094	21	2.1	21	100	0	90	22	22	13	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51805299--51805355	24	2.3	25	81	6	71	57	1	7	33	1.36
51806080--51806119	20	2.0	20	90	0	62	27	10	12	50	1.72
51806065--51806131	34	1.9	35	90	3	109	31	8	13	46	1.74
51806059--51806135	14	5.0	15	71	20	52	33	9	14	42	1.77
51807109--51807165	28	2.0	28	96	0	105	45	19	12	22	1.83
51818761--51818828	32	2.1	33	94	2	120	38	17	2	41	1.65
51823239--51823273	3	11.7	3	100	0	70	34	65	0	0	0.93
51827012--51827076	30	2.2	30	83	2	78	47	9	4	38	1.56
51827789--51827827	20	1.9	21	85	15	55	15	10	2	71	1.23
51837127--51837237	31	3.7	30	78	10	93	34	7	12	45	1.70
51837166--51837237	31	2.4	30	88	4	108	34	9	12	43	1.76
51837276--51837331	29	1.9	29	85	7	78	44	0	7	48	1.30
51837806--51837918	19	5.8	19	89	4	181	38	10	15	36	1.82
51837807--51837918	59	1.9	59	94	0	197	38	10	14	36	1.81
51839274--51839470	98	2.0	98	96	0	367	28	10	23	37	1.88
51844523--51844595	33	2.2	33	85	9	96	20	17	16	45	1.86
51848785--51848824	19	2.1	19	95	0	71	37	17	17	27	1.92
51852050--51852094	23	2.0	23	100	0	90	35	28	0	35	1.58
51855124--51855217	28	3.4	27	70	11	73	19	23	18	39	1.92
51855218--51855316	31	3.2	31	83	0	90	20	20	17	42	1.89
51863711--51863772	30	2.1	30	87	6	90	48	11	8	32	1.68
51871394--51871432	22	1.9	20	85	15	53	38	0	5	56	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51875421--51875466	22	2.1	22	91	0	74	28	21	17	32	1.96
51879714--51879815	22	4.6	22	87	0	132	27	26	14	31	1.95
51881388--51881851	227	2.0	228	95	0	840	33	16	23	26	1.96
51881388--51881851	114	4.1	114	96	0	840	33	16	23	26	1.96
51881407--51881943	227	2.4	227	86	3	661	34	17	23	24	1.96
51882555--51882606	25	2.0	26	85	3	70	26	5	21	46	1.74
51882885--51882923	16	2.5	16	88	12	55	56	0	5	38	1.22
51885695--51885811	9	12.9	9	81	5	146	47	17	2	32	1.61
51885921--51886589	9	75.2	9	77	6	641	48	18	1	32	1.57
51885928--51886446	91	5.6	90	88	3	687	49	17	1	31	1.55
51886551--51886596	7	6.0	7	87	9	56	52	19	0	28	1.47
51889670--51889729	21	2.9	21	84	0	75	28	15	48	8	1.73
51890044--51890164	42	2.9	42	87	4	165	36	19	21	22	1.95
51890955--51890994	21	1.9	21	85	10	55	32	0	0	67	0.91
51896671--51896711	21	2.0	21	85	0	55	34	7	17	41	1.77
51903964--51904715	138	5.5	137	90	4	1160	39	8	6	44	1.62
51905601--51905659	22	2.7	22	78	0	64	35	42	3	18	1.67
51911902--51911945	23	1.9	22	82	17	54	36	25	0	38	1.56
51911990--51912078	45	2.0	45	93	0	151	33	22	17	25	1.96
51912078--51912275	51	3.9	50	80	4	227	29	27	17	25	1.97
51912086--51912271	101	1.8	99	89	5	284	30	27	17	24	1.97
51926916--51926970	22	2.5	22	87	0	74	27	20	27	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51927006--51927812	433	1.9	430	86	1	1157	35	19	16	28	1.94
51938927--51938964	19	2.0	19	94	0	67	50	5	18	26	1.68
51940453--51940525	28	2.6	28	84	0	92	34	12	17	35	1.88
51942776--51942804	11	2.6	11	100	0	58	37	10	34	17	1.84
51945986--51946103	20	5.9	20	73	4	76	11	31	19	38	1.87
51946242--51946275	7	4.9	7	100	0	68	44	0	14	41	1.45
51948672--51948700	13	2.2	13	100	0	58	41	0	0	58	0.98
51957909--51958119	104	2.0	106	96	2	390	43	7	13	35	1.72
51958212--51958281	30	2.3	32	80	9	83	48	18	7	25	1.73
51958477--51958563	27	3.1	27	75	13	86	35	3	24	36	1.72
51959410--51959439	15	2.0	15	100	0	60	26	6	33	33	1.83
51965678--51966136	102	4.5	102	93	0	774	31	29	20	18	1.96
51965678--51966136	205	2.2	204	92	0	774	31	29	20	18	1.96
51969321--51969378	26	2.2	26	87	0	80	39	12	15	32	1.84
51972328--51972370	21	2.0	22	82	13	54	20	6	16	55	1.64
51973180--51973240	32	1.9	31	83	9	79	50	19	6	22	1.70
51974812--51974847	16	2.2	16	100	0	72	47	13	0	38	1.44
51975292--51975340	22	2.2	22	82	7	64	38	18	32	10	1.84
51975444--51975488	21	2.1	21	87	0	63	33	20	0	46	1.51
51984938--51985006	26	2.7	26	93	0	111	21	20	30	27	1.98
51986410--51986571	46	3.6	46	83	7	199	19	20	14	45	1.85
51986370--51986571	90	2.2	90	80	9	216	18	19	15	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51986499--51986708	45	4.7	45	89	0	251	25	18	15	40	1.90
51988569--51988616	20	2.5	20	89	3	71	52	16	14	16	1.76
51990780--51990827	21	2.2	21	92	3	78	75	0	0	25	0.81
51995729--51995786	23	2.6	22	83	8	64	20	10	24	44	1.82
51997642--51997675	15	2.3	15	89	0	50	32	8	32	26	1.87
51997674--51997706	3	11.0	3	93	0	57	69	0	30	0	0.88
51998071--51998112	22	1.9	22	85	9	59	28	2	23	45	1.66
52010436--52010508	24	3.0	24	88	4	101	21	27	19	31	1.97
52010446--52010508	25	2.6	25	89	2	92	22	28	20	28	1.98
52015570--52015622	23	2.3	23	100	0	106	30	26	20	22	1.98
52019926--52019969	22	2.0	22	90	0	70	15	15	25	43	1.87
52021421--52021559	74	1.9	74	85	5	192	35	17	14	33	1.90
52021411--52021559	37	4.0	37	81	5	167	34	17	14	33	1.91
52029623--52029764	47	3.1	47	87	4	207	22	21	11	43	1.85
52029622--52029763	45	3.1	45	87	4	203	23	21	11	42	1.86
52031094--52031138	21	2.1	21	91	0	72	28	24	31	15	1.96
52031105--52031154	21	2.3	21	86	6	64	36	26	24	14	1.93
52031080--52031190	23	5.0	23	77	7	79	36	22	20	20	1.96
52032213--52032243	5	6.2	5	100	0	62	38	19	19	22	1.93
52032837--52032909	35	2.1	35	82	10	87	46	0	28	24	1.53
52032878--52032914	20	1.9	19	89	10	58	43	0	32	24	1.55
52033243--52033297	9	6.1	9	95	0	101	30	10	12	45	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52033350--52033380	9	3.4	9	90	0	53	38	22	12	25	1.90
52036775--52036861	48	1.9	45	86	11	124	26	19	28	25	1.99
52037709--52037756	23	2.1	23	88	0	69	43	12	4	39	1.62
52037704--52037758	23	2.3	25	75	12	60	41	10	7	40	1.68
52042173--52042236	27	2.4	27	81	5	67	18	29	18	32	1.95
52042327--52042479	45	3.4	45	79	7	182	25	23	8	42	1.82
52058289--52058313	5	5.0	5	100	0	50	20	0	0	80	0.72
52059171--52059224	2	27.0	2	100	0	108	50	0	0	50	1.00
52059236--52059296	12	4.9	12	74	6	50	1	21	4	72	1.13
52064428--52064534	53	2.0	53	92	3	180	41	11	24	23	1.87

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