genome.fa.s9.2.7.7.80.10.50.1000.165.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  165  of  226  ( 27023 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)
52628202--52628306	52	2.0	52	96	0	192	34	17	21	26	1.95
52631458--52631492	18	1.9	18	100	0	70	37	5	28	28	1.80
52631669--52631792	64	1.9	64	96	0	230	37	14	11	36	1.82
52646295--52646336	17	2.4	18	84	8	59	54	0	0	45	0.99
52646308--52646341	17	2.0	17	94	0	59	55	2	0	41	1.15
52653591--52653625	18	1.9	18	100	0	70	37	5	28	28	1.80
52653783--52653912	64	2.0	64	100	0	260	39	12	13	34	1.83
52656687--52656729	22	2.0	22	85	0	59	62	11	4	20	1.46
52662461--52662669	72	2.9	71	77	5	222	29	16	20	33	1.95
52664993--52665066	11	6.8	11	71	22	50	40	2	0	56	1.13
52665017--52665050	17	2.0	17	94	0	59	32	0	0	67	0.91
52664986--52665066	41	2.0	41	95	4	146	38	2	0	59	1.11
52671491--52671567	29	2.5	31	85	4	104	25	12	14	46	1.80
52672824--52672879	21	2.6	21	77	8	60	23	1	7	67	1.24
52681307--52681404	47	2.1	47	84	3	126	45	5	4	44	1.44
52682476--52682601	63	2.0	63	98	0	243	25	13	28	32	1.94
52685567--52685609	2	21.5	2	100	0	86	48	0	0	51	1.00
52686921--52686972	16	3.2	16	94	0	86	28	0	36	34	1.58
52686953--52687043	45	2.0	44	87	2	128	31	5	28	34	1.80
52687403--52687700	125	2.4	121	90	5	458	50	5	3	40	1.41
52687498--52687566	16	4.5	16	75	15	65	55	2	2	39	1.30
52687448--52687639	61	3.1	61	66	18	162	49	7	2	40	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52687403--52687711	120	2.5	122	89	6	448	50	5	2	40	1.40
52687643--52687923	91	3.0	93	80	11	279	48	3	3	44	1.37
52687716--52687923	91	2.3	91	88	4	285	46	3	3	45	1.39
52688623--52688658	15	2.4	15	100	0	72	44	11	8	36	1.70
52688871--52688899	6	4.8	6	100	0	58	48	0	0	51	1.00
52692970--52693001	9	3.6	9	91	0	55	28	0	25	46	1.53
52695076--52695169	28	3.5	26	72	16	75	40	0	2	57	1.11
52697360--52697388	14	2.1	14	93	6	51	37	0	6	55	1.27
52697844--52697981	43	3.2	43	83	4	161	33	22	15	28	1.95
52697812--52697981	43	4.0	43	77	6	148	32	22	15	30	1.95
52700473--52700511	9	4.3	9	86	0	60	30	2	25	41	1.69
52700565--52700601	19	1.9	19	100	0	74	37	0	18	43	1.51
52700567--52700601	9	3.8	9	92	7	61	37	0	20	42	1.52
52702675--52702712	19	2.1	19	90	9	62	36	0	2	60	1.11
52704561--52704770	7	30.1	7	72	4	129	47	33	0	18	1.55
52704565--52704770	36	5.7	34	75	10	133	47	32	0	18	1.56
52704684--52704734	27	1.9	26	84	4	66	45	29	1	23	1.64
52705116--52705336	107	2.1	106	85	5	295	27	22	17	32	1.96
52705407--52705503	40	2.5	40	86	1	133	25	24	20	28	1.99
52711330--52711382	22	2.3	23	78	15	56	45	26	5	22	1.74
52712741--52712772	3	10.7	3	100	0	64	0	34	0	65	0.93
52713926--52713960	17	2.1	17	94	0	61	31	8	28	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52718323--52718356	3	11.3	3	100	0	68	32	0	0	67	0.91
52722251--52722307	25	2.3	24	80	13	71	19	3	21	56	1.57
52731688--52731734	15	3.1	15	84	6	51	17	40	12	29	1.86
52738176--52738225	13	4.2	12	78	16	59	54	2	0	44	1.11
52740791--52740854	32	2.0	32	100	0	128	18	18	6	56	1.62
52756089--52756122	12	2.8	12	87	12	52	23	5	0	70	1.09
52756049--52756129	7	12.0	7	74	20	50	22	4	1	71	1.12
52782777--52782824	22	2.2	23	85	7	64	66	12	6	14	1.42
52785522--52785718	98	2.0	98	94	0	349	37	22	10	29	1.87
52786416--52786451	17	2.1	17	89	0	54	61	2	8	27	1.39
52787071--52787183	19	5.8	19	87	4	172	35	15	10	38	1.81
52787071--52787182	40	2.8	40	94	2	192	35	14	10	39	1.81
52787064--52787183	59	2.1	56	87	6	170	35	15	10	39	1.80
52787398--52788092	44	15.8	44	73	11	414	26	23	21	28	1.99
52787671--52787966	89	3.4	89	78	13	387	25	26	21	27	2.00
52787347--52788045	173	4.0	172	83	8	861	26	23	21	28	1.99
52787622--52788111	218	2.2	216	82	8	557	25	24	21	28	1.99
52793311--52793507	98	2.0	98	95	0	358	37	23	10	29	1.88
52794858--52794951	19	4.8	19	88	5	143	35	15	11	37	1.85
52794851--52794950	40	2.6	40	89	6	145	36	15	11	38	1.82
52802362--52802414	22	2.4	22	96	0	97	32	26	3	37	1.74
52814292--52814321	12	2.5	12	94	0	51	43	0	3	53	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52814409--52814468	20	3.0	20	81	13	61	58	1	5	35	1.30
52814422--52814476	20	3.1	17	80	15	58	65	1	1	30	1.13
52819243--52819288	23	2.0	22	84	12	58	78	4	0	17	0.91
52821563--52821653	40	2.2	40	82	5	103	34	23	21	20	1.97
52821740--52821976	41	5.8	41	84	3	291	22	23	26	28	1.99
52821740--52821976	82	2.9	81	88	1	323	22	23	26	28	1.99
52822994--52823065	33	2.2	33	82	0	81	19	4	40	36	1.71
52822950--52823224	115	2.4	116	83	6	333	28	2	27	42	1.67
52824231--52824263	15	2.3	15	89	5	50	33	30	3	33	1.73
52824433--52824466	17	2.0	17	94	0	59	44	0	2	52	1.16
52824433--52824464	11	2.8	12	90	9	50	43	0	3	53	1.16
52824433--52824466	15	2.1	16	89	10	52	44	0	2	52	1.16
52828075--52828377	43	7.1	43	83	3	335	27	18	28	26	1.98
52828075--52828377	86	3.5	86	82	4	371	27	18	28	26	1.98
52828075--52828377	129	2.3	127	86	5	410	27	18	28	26	1.98
52829419--52829494	38	2.0	38	100	0	152	31	23	15	28	1.96
52838746--52838892	75	2.0	74	95	4	269	38	8	8	44	1.65
52844675--52844720	24	1.9	24	86	8	67	26	2	2	69	1.11
52852294--52852326	2	17.0	2	93	6	59	48	0	0	51	1.00
52862367--52863183	284	2.9	284	99	0	1598	29	18	11	41	1.85
52877647--52877693	20	2.2	20	85	7	58	29	10	12	46	1.76
52878792--52878904	56	2.0	56	100	0	226	28	22	26	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52880581--52880617	18	2.0	19	89	5	58	75	5	8	10	1.17
52884140--52884803	113	5.9	113	93	0	1096	26	19	27	26	1.99
52884703--52884935	73	3.2	73	86	4	317	26	20	26	27	1.99
52914773--52915208	48	8.9	50	70	7	309	33	25	19	21	1.97
52914773--52915208	98	4.4	98	94	0	719	33	25	19	21	1.97
52915740--52915775	5	7.2	5	87	12	56	19	2	0	77	0.88
52916511--52916575	3	21.7	3	100	0	130	33	0	0	66	0.92
52918800--52918847	22	2.2	23	85	7	64	66	12	6	14	1.42
52919547--52919604	3	19.7	3	84	10	75	27	3	1	67	1.17
52919543--52919622	9	8.2	9	77	13	61	27	2	2	67	1.16
52920507--52920927	108	3.8	109	93	1	700	31	15	19	33	1.93
52927747--52927867	52	2.3	52	86	6	158	28	28	14	28	1.95
52929898--52929955	3	19.3	3	100	0	116	32	0	0	67	0.91
52935847--52935935	41	2.2	41	82	9	103	21	21	26	30	1.98
52936480--52936529	14	3.4	14	78	8	55	28	0	34	38	1.57
52936516--52936554	21	1.9	20	89	5	60	23	0	41	35	1.55
52940567--52940605	19	2.1	19	100	0	78	48	15	15	20	1.81
52940672--52940724	26	2.0	26	100	0	106	32	7	7	52	1.58
52944012--52944187	91	1.9	91	95	0	316	32	23	12	31	1.92
52954533--52954557	6	4.2	6	100	0	50	16	0	0	84	0.63
52960024--52960061	20	1.9	20	94	0	67	15	28	13	42	1.85
52968550--52968588	20	2.0	20	94	0	69	48	2	0	48	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52969137--52969355	108	2.0	108	83	6	275	34	14	15	35	1.88
52976488--52976542	26	2.1	27	83	10	69	72	3	3	20	1.15
52978581--52978635	18	3.1	18	75	17	60	50	0	1	47	1.11
52982411--52982601	40	4.7	41	90	5	266	36	2	0	61	1.08
52982444--52982598	11	15.4	10	73	18	58	35	1	0	63	1.03
52982462--52982598	11	13.3	11	72	19	91	36	1	0	62	1.05
52982502--52982603	51	2.0	52	90	5	163	39	0	0	59	1.04
52983507--52983537	2	15.5	2	100	0	62	48	0	0	51	1.00
52984199--52984263	32	2.0	32	96	0	121	55	12	10	21	1.67
52985093--52985146	15	3.6	15	80	7	56	48	0	51	0	1.00

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   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226