genome.fa.s6.2.7.7.80.10.50.1000.154.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  154  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)
45853737--45853776	6	6.7	6	86	11	55	85	2	10	2	0.80
45853737--45853776	11	3.3	12	86	10	55	85	2	10	2	0.80
45853735--45853776	17	2.4	17	92	4	66	83	2	11	2	0.84
45855490--45855519	3	10.0	3	100	0	60	33	0	33	33	1.58
45864173--45864210	19	2.0	19	100	0	76	52	5	15	26	1.64
45866845--45866928	31	2.7	31	87	7	109	40	7	5	46	1.56
45866845--45866938	31	3.1	28	84	9	89	41	7	5	45	1.55
45867297--45867365	31	2.3	29	80	5	75	34	2	7	55	1.43
45870496--45870521	11	2.4	11	100	0	52	65	0	0	34	0.93
45873017--45873062	24	2.0	23	83	12	58	65	2	4	28	1.23
45874323--45874571	43	5.8	43	86	4	333	26	33	20	19	1.96
45874323--45874571	86	2.9	86	90	0	392	26	33	20	19	1.96
45875274--45875900	46	13.7	46	72	7	206	40	23	6	29	1.79
45875353--45875931	23	25.3	23	74	9	357	39	23	6	29	1.80
45875353--45875976	160	3.9	160	94	0	1088	40	23	6	29	1.79
45875274--45875717	137	3.2	137	83	4	477	40	23	5	30	1.78
45875353--45875976	321	1.9	320	94	0	1088	40	23	6	29	1.79
45876103--45876268	91	1.8	91	85	2	235	38	23	6	31	1.81
45876077--45876443	23	16.0	23	77	8	338	38	23	7	29	1.82
45876077--45876420	137	2.5	137	93	0	582	38	24	7	29	1.82
45878023--45878122	49	2.0	49	100	0	200	36	2	35	27	1.68
45879107--45879146	7	5.7	7	85	8	55	32	55	0	12	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45879105--45879149	14	3.1	15	87	9	67	33	48	0	17	1.48
45880100--45880503	41	9.9	41	91	2	589	28	28	20	22	1.98
45880563--45880680	40	3.0	40	81	9	154	24	18	19	37	1.94
45882542--45882707	89	1.8	91	83	5	221	39	7	6	46	1.58
45884713--45884753	21	2.0	21	85	9	57	82	14	2	0	0.76
45884782--45884888	27	4.0	27	96	0	169	26	28	29	14	1.95
45885167--45885213	3	15.7	3	100	0	94	34	0	0	65	0.93
45885164--45885342	12	14.7	12	69	20	86	34	0	9	55	1.37
45885942--45885986	18	2.5	18	85	0	63	28	4	46	20	1.69
45888420--45888460	14	2.9	14	92	3	64	34	4	4	56	1.42
45888966--45889021	3	18.7	3	100	0	112	66	0	0	33	0.92
45889303--45889382	27	3.0	27	94	0	133	13	30	28	27	1.94
45889436--45889506	29	2.5	28	93	4	117	49	1	8	40	1.42
45890863--45890919	29	2.0	29	82	0	69	42	8	10	38	1.71
45917186--45917224	20	2.0	20	84	0	51	15	30	23	30	1.95
45917251--45917277	3	9.0	3	100	0	54	66	0	0	33	0.92
45927568--45927643	37	2.1	37	97	0	143	46	0	6	47	1.28
45928296--45928359	3	21.3	3	100	0	128	67	0	0	32	0.91
45928902--45928926	13	1.9	13	100	0	50	48	4	0	48	1.20
45929701--45929735	17	2.1	17	89	5	54	28	20	17	34	1.95
45940856--45940894	21	1.9	21	84	5	53	17	15	0	66	1.25
45965524--45965591	26	2.5	27	77	15	70	51	5	8	33	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45967397--45967460	30	2.1	31	91	2	103	23	1	15	59	1.45
45968555--45968590	17	2.1	17	89	0	54	63	5	2	27	1.30
45969024--45969049	12	2.2	12	100	0	52	42	0	0	57	0.98
45978023--45978131	11	10.7	11	66	20	51	64	0	1	33	1.05
45978029--45978124	21	4.8	20	70	13	63	62	0	2	35	1.07
45980684--45980732	22	2.2	22	88	0	71	51	0	6	42	1.27
45980919--45980981	28	2.2	28	83	8	74	53	1	0	44	1.10
45980933--45980996	29	2.2	28	83	8	76	48	1	1	48	1.20
45980933--45980996	28	2.3	27	82	10	76	48	1	1	48	1.20
45981086--45981133	24	2.0	24	87	4	69	62	4	2	31	1.26
45986981--45987023	16	2.7	17	79	13	56	65	0	2	32	1.06
45993464--45993521	3	19.3	3	96	0	107	31	0	1	67	1.01
45993817--45993850	2	17.0	2	87	0	50	47	2	0	50	1.16
45994907--45994942	19	1.9	18	88	5	54	16	0	27	55	1.42
46004857--46004897	21	2.0	21	90	0	64	87	12	0	0	0.53
46004858--46004897	10	3.9	10	87	6	62	87	12	0	0	0.54
46006096--46006528	44	9.8	46	69	12	246	29	19	23	27	1.98
46006092--46006544	175	2.6	175	96	0	825	29	19	22	28	1.98
46009182--46009225	19	2.3	19	76	7	54	50	6	0	43	1.29
46012035--46012076	14	2.6	16	78	21	52	42	0	0	57	0.99
46012047--46012074	14	2.0	14	100	0	56	35	0	0	64	0.94
46014819--46014852	17	1.9	18	88	5	52	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46020077--46020171	50	1.9	48	83	14	122	48	2	5	44	1.37
46027340--46027391	27	2.0	26	92	7	88	46	7	0	46	1.31
46027569--46027719	18	8.4	17	72	17	78	66	0	33	0	0.97
46027571--46027642	10	6.6	10	73	17	54	68	0	31	0	0.90
46027571--46027646	24	3.3	23	71	14	66	68	0	31	0	0.90
46027570--46027647	28	2.6	31	76	17	92	66	0	33	0	0.92
46027556--46027720	38	4.2	40	76	13	128	64	0	34	0	0.98
46027589--46027716	38	3.6	38	85	11	141	67	0	32	0	0.97
46027591--46027691	10	10.5	10	69	19	63	64	0	34	0	1.00
46028432--46028483	19	2.7	19	87	0	68	25	0	7	67	1.17
46028490--46028515	13	2.0	13	100	0	52	76	0	0	23	0.78
46028519--46028587	27	2.6	27	93	4	113	42	11	0	46	1.40
46028585--46028618	8	4.1	8	85	7	50	85	2	2	8	0.80
46028578--46028628	26	1.9	27	88	4	77	82	1	5	9	0.91
46028587--46028618	16	1.9	17	93	6	57	87	3	3	6	0.73
46028578--46028631	27	2.0	27	85	7	74	81	3	5	9	0.97
46029288--46029323	14	2.6	14	90	0	54	22	22	33	22	1.97
46029942--46029978	17	2.2	17	100	0	74	29	16	8	45	1.76
46030554--46030605	25	2.1	25	100	0	104	23	21	23	32	1.98
46033377--46033414	18	2.1	18	90	0	58	15	44	5	34	1.69
46033380--46033421	18	2.3	18	83	0	57	21	47	2	28	1.63
46034163--46034224	3	20.7	3	96	0	115	66	0	1	32	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46034518--46034620	27	3.8	27	85	2	109	10	38	25	25	1.88
46034652--46034690	8	4.9	8	84	12	53	7	2	2	87	0.73
46034662--46034690	15	1.9	15	100	0	58	10	0	0	89	0.48
46034692--46034760	28	2.5	29	86	6	99	50	1	8	39	1.42
46034805--46034836	15	2.1	15	100	0	64	37	40	0	21	1.54
46035700--46036004	43	7.3	42	82	10	360	29	30	18	20	1.97
46035677--46035996	162	2.0	165	88	5	488	28	29	18	23	1.98
46036408--46036483	37	2.1	37	94	0	134	42	13	18	26	1.87
46036761--46036812	23	2.3	23	79	0	59	34	7	30	26	1.85
46037271--46037300	12	2.5	12	100	0	60	50	10	6	33	1.62
46039457--46039501	22	2.1	22	83	4	56	20	2	53	24	1.57
46043865--46043889	7	3.6	7	100	0	50	44	56	0	0	0.99
46043880--46044040	82	2.0	82	88	2	243	45	26	1	25	1.63
46043893--46044066	82	2.1	82	83	1	222	47	24	1	26	1.62
46044040--46044100	29	2.1	28	81	3	68	36	36	0	27	1.57
46044058--46044100	14	3.1	14	79	0	50	32	39	0	27	1.57
46044537--46044736	41	4.9	41	90	3	305	28	26	22	23	1.99
46044537--46044736	81	2.4	82	89	4	305	28	26	22	23	1.99
46045626--46045705	31	2.6	31	76	9	85	42	7	10	40	1.67
46050708--46050742	19	1.9	17	88	11	52	45	0	0	54	0.99
46051038--46051075	16	2.5	16	87	8	53	42	0	0	57	0.98
46051357--46051388	2	16.5	2	93	6	57	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46051774--46051817	19	2.4	18	80	3	52	45	2	9	43	1.48
46056164--46056254	31	3.0	31	80	13	102	46	6	9	37	1.63
46056572--46056609	19	2.0	19	85	10	51	65	5	0	28	1.14
46061480--46061505	13	2.0	13	100	0	52	15	0	7	76	0.99
46068844--46068929	43	2.0	43	100	0	172	25	11	27	34	1.91
46069668--46069746	29	2.7	29	84	4	86	25	12	13	48	1.78
46080805--46080841	3	12.3	3	100	0	74	67	0	0	32	0.91
46084820--46084862	17	2.5	17	85	7	61	25	2	2	69	1.12
46094416--46094470	26	2.1	26	96	0	101	29	3	23	43	1.71
46094815--46094887	10	6.7	11	76	10	71	60	0	1	38	1.06

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