genome.fa.s6.2.7.7.80.10.50.1000.51.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  51  of  168  ( 20060 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)
14243041--14243069	13	2.1	14	93	6	51	6	13	0	79	0.93
14247673--14247724	18	2.9	18	94	0	86	34	11	11	42	1.77
14250056--14250085	14	2.1	14	100	0	60	43	6	0	50	1.28
14250071--14250135	30	2.2	30	81	15	73	49	7	1	41	1.41
14250306--14250371	13	5.1	13	76	7	71	34	22	7	34	1.83
14251955--14252058	52	2.0	51	90	1	163	29	23	5	41	1.77
14258966--14259069	48	2.2	48	89	3	156	41	17	20	21	1.90
14268350--14268375	7	3.7	7	100	0	52	57	0	0	42	0.98
14268296--14268384	45	2.0	46	82	10	112	49	2	2	46	1.26
14276857--14276889	15	2.2	15	89	10	50	60	0	18	21	1.36
14280307--14280402	22	4.4	22	77	3	70	34	15	29	20	1.94
14281618--14281673	25	2.2	25	90	0	85	37	25	16	21	1.93
14283781--14283957	50	3.4	49	83	6	192	25	21	28	24	1.99
14286987--14287030	22	2.0	22	95	0	79	25	36	4	34	1.76
14292455--14292579	50	2.5	50	80	0	142	25	25	29	19	1.98
14296801--14296852	25	2.1	24	86	10	70	40	0	0	59	0.97
14297344--14297387	22	2.0	23	90	4	72	50	9	4	36	1.55
14299904--14300052	75	2.0	75	97	0	280	33	22	12	32	1.91
14300592--14300616	8	3.1	8	100	0	50	24	24	0	52	1.48
14302184--14302305	23	5.3	23	87	3	174	31	25	19	22	1.98
14302184--14302305	46	2.7	46	92	0	199	31	25	19	22	1.98
14302523--14302561	18	2.2	17	86	13	53	46	20	0	33	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14304769--14304809	21	2.0	21	85	0	55	41	2	9	46	1.50
14304891--14304918	8	3.5	8	100	0	56	53	0	0	46	1.00
14305673--14305746	10	7.1	10	80	8	67	25	4	1	68	1.15
14325878--14325947	4	17.5	4	79	5	70	21	30	2	45	1.66
14325878--14325938	16	3.8	16	86	0	86	22	31	1	44	1.63
14336221--14336565	42	8.2	42	88	0	519	21	19	24	34	1.96
14336223--14336565	126	2.7	126	93	0	578	21	19	24	34	1.96
14337424--14337829	150	2.7	149	86	7	559	41	3	10	44	1.57
14337565--14337665	53	1.9	54	82	11	129	41	2	10	44	1.55
14338439--14338505	10	6.4	10	72	14	55	19	5	2	71	1.20
14346186--14346232	23	2.0	23	84	12	60	61	2	0	36	1.08
14353960--14354007	17	2.8	17	70	0	51	45	29	16	8	1.76
14354543--14354582	14	2.9	14	88	0	53	35	7	17	40	1.78
14354566--14354605	20	2.0	20	95	0	71	30	10	12	47	1.74
14354551--14354616	34	1.9	34	90	6	107	33	9	13	43	1.76
14354598--14354679	32	2.5	31	75	9	83	28	10	18	42	1.84
14354715--14354742	14	2.0	14	100	0	56	42	0	0	57	0.99
14354712--14354764	24	2.2	25	86	10	74	45	1	0	52	1.11
14355999--14356067	35	1.9	36	97	2	131	52	18	2	26	1.60
14356035--14356104	27	2.5	28	81	6	81	52	21	2	22	1.60
14357742--14357803	26	2.3	26	83	2	79	43	11	9	35	1.73
14357756--14357809	26	2.1	26	92	0	90	40	11	12	35	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14358901--14358927	13	2.1	13	100	0	54	55	14	7	22	1.64
14360709--14360741	12	2.8	12	95	0	57	54	6	39	0	1.25
14360960--14360987	14	2.0	14	100	0	56	35	14	14	35	1.86
14365844--14365905	31	2.1	30	82	17	76	29	17	8	45	1.77
14366064--14366181	49	2.4	49	84	4	148	32	19	25	22	1.98
14366064--14366181	25	4.8	25	76	12	109	32	19	25	22	1.98
14368007--14368041	18	1.9	18	88	0	52	8	34	5	51	1.56
14376557--14376597	18	2.3	18	91	0	64	29	9	17	43	1.80
14376566--14376603	18	2.1	18	90	0	58	31	7	13	47	1.71
14377180--14377233	25	2.3	22	79	20	65	75	0	11	12	1.04
14383519--14383639	64	1.9	64	87	3	181	28	16	22	32	1.96
14383468--14383677	114	1.8	114	88	0	321	29	19	23	27	1.98
14384524--14384566	22	2.0	22	82	13	54	25	2	18	53	1.56
14387748--14387863	52	2.2	52	87	4	171	27	19	17	35	1.94
14388284--14388343	14	4.3	14	70	8	59	38	1	0	60	1.07
14388492--14388551	30	2.1	30	87	6	88	61	3	0	35	1.12
14396329--14396360	16	2.0	16	93	0	55	15	12	15	56	1.68
14400054--14400112	31	2.0	30	86	6	84	32	10	15	42	1.80
14402247--14402295	2	24.5	2	100	0	98	51	0	48	0	1.00
14405815--14405869	19	2.9	19	84	13	69	38	0	5	56	1.23
14409829--14409888	21	2.9	21	80	2	59	40	15	6	38	1.73
14410806--14410891	3	28.7	3	97	0	163	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14413145--14413216	25	2.9	25	80	0	90	26	22	22	29	1.99
14422311--14422508	103	1.9	103	80	6	231	33	9	20	36	1.84
14424164--14424199	5	7.0	5	90	3	54	75	2	22	0	0.94
14424267--14424292	3	8.7	3	100	0	52	69	0	0	30	0.89
14425293--14426360	538	2.0	538	88	2	1572	28	22	11	37	1.89
14433569--14433655	39	2.2	39	81	4	104	16	45	14	22	1.84
14440150--14440212	12	5.3	12	74	9	58	77	11	4	6	1.10
14440150--14440241	30	2.9	31	74	19	84	73	10	6	8	1.23
14440614--14440669	14	4.0	14	75	13	53	75	0	14	10	1.06
14440614--14440666	28	1.9	27	88	3	79	77	0	13	9	0.99
14442046--14442446	44	8.7	44	70	18	262	32	19	20	27	1.97
14442075--14442500	142	3.0	142	96	0	771	33	18	20	27	1.96
14442119--14442300	98	1.9	97	80	9	217	31	19	20	28	1.97
14442569--14443268	50	14.0	50	69	4	300	33	23	20	23	1.97
14442569--14443258	100	6.9	100	84	4	732	33	22	20	23	1.97
14443595--14443623	10	2.9	10	100	0	58	48	20	10	20	1.79
14443771--14443843	29	2.6	28	91	4	94	12	49	20	17	1.79
14443780--14443843	29	2.2	29	97	0	119	10	50	20	18	1.77
14452224--14452328	50	2.1	51	90	1	167	26	26	17	29	1.97
14454231--14454256	4	6.5	4	100	0	52	26	0	0	73	0.84
14456174--14456348	49	3.6	48	89	3	237	30	29	14	24	1.95
14458383--14458596	84	2.5	84	97	0	410	35	25	17	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14458338--14458595	42	6.1	42	82	8	317	35	26	17	20	1.95
14458603--14458789	51	3.7	51	82	5	227	30	28	17	24	1.97
14458595--14458785	101	1.9	101	87	3	276	30	27	17	24	1.97
14461160--14461203	7	6.3	7	86	0	61	27	29	4	38	1.76
14461160--14461203	21	2.1	21	95	0	79	27	29	4	38	1.76
14461115--14461254	64	2.2	65	89	1	210	28	25	12	33	1.92
14461173--14461344	51	3.4	51	95	0	299	27	23	14	33	1.94
14464269--14464296	13	2.2	13	100	0	56	28	0	0	71	0.86
14464385--14464422	15	2.5	15	87	8	51	50	5	2	42	1.39
14469948--14469991	18	2.4	19	79	20	58	43	0	13	43	1.44
14477764--14477832	31	2.4	28	79	13	77	49	4	2	43	1.37
14486833--14486888	21	2.7	20	83	8	67	55	1	0	42	1.10
14486959--14487031	29	2.4	29	78	15	78	56	5	1	36	1.31
14486959--14487037	28	2.6	30	76	9	81	55	5	1	37	1.30
14491822--14491893	35	2.1	35	83	0	90	30	20	23	25	1.99
14492319--14492393	28	2.7	28	87	0	105	26	24	21	28	1.99
14495182--14495230	21	2.3	22	85	7	73	40	18	12	28	1.86
14497826--14497876	24	2.2	24	82	3	59	47	3	0	49	1.20
14498114--14498147	16	2.1	16	88	0	50	58	5	2	32	1.37
14499000--14499036	13	2.6	14	91	8	58	54	0	0	45	1.00
14499649--14499689	2	20.5	2	100	0	82	48	0	0	51	1.00
14500423--14500502	42	1.9	42	84	0	106	28	27	11	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14500892--14500932	16	2.6	16	88	0	55	46	0	19	34	1.50
14503263--14503296	6	5.7	6	100	0	68	85	0	0	14	0.60
14503263--14503337	24	3.1	24	76	3	62	73	1	2	22	1.04
14520712--14520771	26	2.3	26	91	0	93	38	6	25	30	1.81
14521871--14521899	5	5.8	5	100	0	58	41	0	17	41	1.49
14530287--14530330	11	4.3	11	80	16	58	34	0	0	65	0.93
14530286--14530337	19	2.7	19	96	0	95	32	0	0	67	0.91
14530298--14530337	8	4.6	8	82	17	53	35	0	0	65	0.93
14539037--14539070	17	1.9	18	88	5	52	32	32	14	20	1.93
14548153--14548324	50	3.3	50	81	4	173	22	25	23	28	1.99

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