genome.fa.s2.2.7.7.80.10.50.1000.171.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  171  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)
52082468--52082607	41	3.4	41	84	2	185	20	23	6	50	1.71
52082769--52082807	20	2.0	20	84	0	51	51	2	5	41	1.38
52086715--52086757	17	2.5	17	84	0	59	27	32	23	16	1.96
52092730--52092760	11	2.8	11	95	0	53	25	12	0	61	1.32
52093781--52093850	30	2.3	30	80	7	88	35	20	1	42	1.61
52119012--52119055	23	1.9	22	82	17	54	36	25	0	38	1.56
52119199--52119332	50	2.7	50	85	3	171	30	27	17	24	1.97
52125806--52125865	29	2.1	29	87	6	86	16	31	11	40	1.85
52125820--52125876	29	2.0	29	85	0	78	14	33	14	38	1.85
52126503--52126548	23	2.0	23	91	0	74	28	10	32	28	1.91
52128503--52128672	20	8.5	19	68	14	85	14	28	17	40	1.89
52128503--52128543	21	2.0	20	85	4	55	9	31	19	39	1.84
52128560--52128670	40	2.8	39	79	5	123	17	27	16	38	1.91
52136494--52136525	16	2.0	16	93	0	55	25	15	0	59	1.36
52136746--52136945	51	3.9	52	78	7	214	30	28	17	24	1.97
52136753--52136937	101	1.8	102	88	3	284	30	27	17	24	1.97
52147310--52147341	2	15.5	2	93	6	55	50	0	3	46	1.17
52148240--52148279	22	2.0	20	85	14	55	55	17	2	25	1.55
52148935--52149094	43	3.7	43	80	8	173	30	28	21	18	1.97
52148935--52149094	86	1.9	86	81	7	200	30	28	21	18	1.97
52155166--52155257	26	3.5	26	80	0	121	16	11	31	40	1.85
52160176--52160282	37	3.1	37	70	21	104	39	1	3	55	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52162285--52162456	94	1.9	90	85	7	238	37	7	8	46	1.63
52163159--52163211	27	2.0	27	88	0	79	35	16	24	22	1.95
52168836--52168877	13	3.3	13	75	18	52	54	7	2	35	1.41
52168822--52168879	25	2.4	25	94	5	102	55	6	3	34	1.44
52170375--52170424	18	2.9	17	84	3	64	52	0	2	46	1.12
52181529--52181589	31	2.0	31	90	6	97	60	0	1	37	1.07
52181529--52181689	11	15.8	11	65	22	59	62	0	1	36	1.03
52181529--52181689	40	4.0	40	84	11	186	62	0	1	36	1.03
52181529--52181689	41	4.0	40	87	7	200	62	0	1	36	1.03
52181577--52181670	9	10.6	9	67	15	52	68	0	0	31	0.90
52181627--52181702	20	3.8	20	75	13	84	64	0	1	34	1.02
52181607--52181672	29	2.3	29	94	5	116	66	0	0	33	0.92
52203631--52203789	79	2.0	79	100	0	318	30	18	18	32	1.96
52204490--52204519	15	2.0	15	100	0	60	33	33	13	20	1.91
52206570--52206610	21	2.0	21	100	0	82	34	21	14	29	1.93
52206816--52206846	2	15.5	2	100	0	62	0	51	0	48	1.00
52206951--52206992	21	2.0	21	95	0	75	38	26	14	21	1.91
52211938--52212056	61	2.0	61	100	0	238	26	30	12	31	1.93
52215082--52215134	19	2.7	19	77	13	54	30	32	7	30	1.85
52215306--52215336	9	3.4	9	100	0	62	9	12	0	77	0.99
52215520--52215574	28	1.9	29	85	3	76	32	14	21	30	1.93
52226480--52226521	18	2.4	18	88	4	59	45	0	4	50	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52226493--52226530	18	2.2	18	85	4	51	47	2	0	50	1.15
52226667--52226695	2	14.5	2	100	0	58	48	0	0	51	1.00
52227242--52227413	87	2.0	88	83	5	224	36	12	7	43	1.71
52227782--52227953	89	2.0	87	87	4	247	44	7	13	34	1.73
52230360--52230409	23	2.2	23	96	3	93	58	18	0	24	1.40
52230561--52230595	2	17.5	2	100	0	70	51	0	0	48	1.00
52230822--52230855	2	17.0	2	100	0	68	50	0	0	50	1.00
52231141--52231357	41	5.3	41	85	2	265	33	29	19	17	1.95
52239205--52239289	30	2.9	29	72	19	77	51	1	1	45	1.16
52239221--52239262	21	2.0	21	86	4	59	52	2	2	42	1.27
52239209--52239296	28	3.0	29	75	16	85	53	1	1	44	1.15
52239254--52239296	20	2.2	20	83	8	52	55	0	0	44	0.99
52241885--52242020	48	2.8	49	86	4	193	27	40	7	24	1.81
52241864--52242024	24	6.6	24	71	12	112	28	39	7	24	1.82
52242008--52242180	33	5.5	33	75	12	157	28	36	11	23	1.90
52241885--52242347	57	8.4	57	76	13	339	27	38	11	23	1.88
52242189--52242251	24	2.6	24	77	5	65	17	44	15	22	1.86
52242417--52242452	18	2.0	18	89	10	56	22	47	5	25	1.73
52242460--52242579	60	2.0	60	95	3	215	20	49	5	25	1.69
52242477--52242596	60	2.0	60	80	4	136	23	44	6	25	1.78
52247161--52247247	40	2.2	40	83	6	106	34	5	19	40	1.76
52247422--52247504	39	2.2	39	86	6	116	19	20	21	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52247422--52247594	45	4.2	40	79	14	149	20	19	20	39	1.93
52247449--52247603	45	3.4	45	89	0	238	20	17	20	42	1.89
52249901--52249969	27	2.5	29	90	6	108	40	10	1	47	1.46
52249970--52250013	18	2.5	18	89	10	65	84	13	2	0	0.73
52250044--52250122	27	2.9	27	90	0	122	26	27	31	13	1.94
52254690--52254758	28	2.5	28	86	6	104	47	1	10	40	1.46
52255660--52255781	37	3.4	34	79	11	138	1	36	0	62	1.05
52255765--52255812	17	2.8	17	87	3	60	0	41	0	58	0.98
52255927--52255967	19	2.1	19	86	9	55	7	0	14	78	0.96
52256195--52256269	15	5.1	15	70	20	68	37	5	5	52	1.47
52256179--52256266	44	2.0	44	100	0	176	36	4	9	50	1.55
52256656--52256694	6	6.3	6	88	5	60	17	0	43	38	1.50
52256751--52256837	29	3.0	28	75	8	86	36	5	25	32	1.80
52259980--52260137	41	3.9	41	85	5	185	20	18	27	33	1.96
52260810--52260844	15	2.3	15	90	9	54	25	0	22	51	1.48
52263793--52263817	6	4.2	6	100	0	50	16	0	0	84	0.63
52263709--52263911	111	1.8	110	86	2	291	27	24	14	33	1.94
52279100--52279132	16	1.9	18	88	11	52	51	6	0	42	1.26
52281871--52281923	19	2.8	19	80	11	56	15	5	7	71	1.27
52281865--52281913	18	2.6	18	79	17	55	12	6	8	73	1.24
52283203--52283541	125	2.7	126	94	0	581	30	15	21	32	1.94
52284382--52284438	26	2.2	26	100	0	114	59	7	7	26	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52284436--52284740	29	10.7	29	91	3	485	24	0	24	50	1.49
52284436--52284733	57	5.2	57	92	2	490	25	0	23	51	1.49
52284436--52284740	28	10.6	28	91	3	466	24	0	24	50	1.49
52284811--52284859	25	1.9	25	87	4	71	38	16	4	40	1.67
52284973--52285025	24	2.2	24	89	0	79	1	24	32	41	1.66
52285970--52285994	7	3.6	7	100	0	50	60	12	0	28	1.32
52287059--52287122	29	2.2	29	94	2	110	64	0	0	35	0.94
52288197--52288236	11	3.7	10	87	12	53	67	0	0	32	0.91
52292340--52292460	63	1.9	63	89	0	188	33	27	12	26	1.92
52297111--52297146	18	2.0	18	89	10	56	61	0	5	33	1.19
52303921--52304005	23	3.7	22	87	6	107	44	12	4	37	1.64
52310848--52310886	20	2.0	20	90	10	62	15	23	5	56	1.59
52311142--52311283	50	2.8	50	79	2	133	23	27	21	28	1.99
52311188--52311324	50	2.6	52	82	9	161	24	32	18	24	1.97
52312594--52312625	15	2.1	16	94	5	57	25	12	9	53	1.68
52317721--52317759	20	2.0	20	90	5	62	25	12	0	61	1.31
52327539--52327576	20	2.0	20	94	5	69	26	10	0	63	1.27
52328423--52329116	360	1.9	360	98	0	1343	29	12	13	44	1.80
52329154--52329265	57	2.0	56	83	11	140	25	16	4	53	1.61
52334979--52335043	26	2.6	24	81	11	85	13	26	18	41	1.88
52335114--52335161	25	2.0	25	83	4	62	16	22	20	39	1.92
52335148--52335214	25	2.7	26	79	6	84	20	22	20	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52337310--52337363	28	1.9	28	85	7	74	14	24	20	40	1.90
52345376--52345505	57	2.4	54	82	15	155	24	27	11	36	1.90
52346104--52346169	33	2.0	33	100	0	132	9	42	12	36	1.74
52356001--52356100	34	3.0	34	82	1	121	17	21	17	45	1.86
52359077--52359299	101	2.2	101	82	0	266	28	24	14	32	1.94
52370747--52370771	2	12.5	2	100	0	50	52	0	0	48	1.00
52371365--52371509	78	1.9	78	98	0	281	32	4	6	55	1.47
52378545--52378824	142	2.0	142	95	1	508	36	14	18	30	1.90
52378988--52379166	40	4.4	40	85	2	234	27	21	24	26	1.99
52379217--52379325	40	2.7	40	84	1	128	32	22	21	23	1.98

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