genome.fa.s9.2.7.7.80.10.50.1000.161.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  161  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)
51795653--51795701	20	2.5	20	79	0	53	42	4	0	53	1.20
51796230--51796281	24	2.2	24	89	0	77	32	11	11	44	1.77
51796236--51796283	24	2.0	24	95	0	87	29	10	12	47	1.74
51801135--51801172	14	2.9	14	88	7	53	60	0	0	39	0.97
51802948--51802993	18	2.4	19	82	10	58	32	6	19	41	1.77
51805678--51805742	31	2.1	31	91	0	103	16	12	24	46	1.82
51810760--51810805	24	1.9	24	81	0	56	32	8	8	50	1.64
51812579--51812644	19	3.5	18	81	4	69	62	1	1	34	1.14
51812667--51812725	18	3.3	18	83	4	75	64	1	6	27	1.28
51813010--51813052	20	2.2	20	95	0	77	27	6	0	65	1.18
51815601--51815686	38	2.3	37	80	9	104	27	17	18	36	1.94
51817515--51817749	41	5.7	41	92	0	380	34	26	19	20	1.96
51818909--51818940	16	1.9	17	93	6	57	37	21	0	40	1.54
51819102--51819256	41	3.7	41	78	7	127	29	28	20	22	1.98
51820070--51820128	28	2.0	31	83	9	79	49	3	1	45	1.28
51829316--51829383	24	3.0	21	73	21	57	27	8	4	58	1.47
51829316--51829383	23	3.0	22	76	17	68	27	8	4	58	1.47
51829316--51829383	25	3.0	22	74	14	66	27	8	4	58	1.47
51840235--51840337	46	2.3	45	88	6	163	40	8	21	29	1.83
51841023--51841234	93	2.3	93	81	5	236	37	14	12	36	1.83
51841494--51841579	19	4.4	19	79	13	95	62	1	3	32	1.19
51841493--51841569	20	3.8	20	80	11	95	63	0	3	32	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51841505--51841627	39	3.3	38	80	13	105	60	1	4	33	1.28
51841571--51841627	18	3.2	17	82	7	78	59	1	7	31	1.34
51841671--51841727	19	2.9	20	78	5	71	64	0	8	26	1.22
51841901--51841968	28	2.4	28	75	0	73	29	4	2	63	1.29
51841929--51841969	18	2.2	20	91	8	68	26	7	0	65	1.18
51845854--51845942	38	2.3	38	88	0	124	25	20	20	33	1.97
51849264--51849306	22	2.0	22	95	0	77	13	20	23	41	1.88
51849465--51849625	43	3.8	43	79	10	145	25	30	18	25	1.98
51849935--51850026	21	4.4	21	78	5	78	6	42	15	35	1.73
51849996--51850143	66	2.2	66	85	4	192	13	29	17	39	1.88
51849996--51850166	66	2.6	66	84	3	184	14	28	17	39	1.88
51858507--51858540	17	2.0	17	88	0	50	76	2	5	14	1.09
51858746--51859116	106	3.5	106	97	0	697	35	20	12	31	1.90
51861638--51861761	65	2.0	64	87	4	180	36	21	12	29	1.91
51866856--51866883	14	2.0	14	100	0	56	35	7	21	35	1.81
51872782--51872821	22	1.9	20	90	10	62	52	5	0	42	1.23
51880689--51880833	9	16.3	9	70	17	90	33	2	17	45	1.63
51880691--51880828	16	7.9	16	73	16	105	33	2	17	47	1.60
51880689--51880833	25	5.5	25	70	20	98	33	2	17	45	1.63
51880868--51880910	22	2.0	22	95	0	77	9	20	27	41	1.83
51881004--51881317	129	2.4	129	92	0	502	31	30	18	19	1.96
51881004--51881317	43	7.3	43	89	2	452	31	30	18	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51882252--51882336	40	2.1	40	84	4	109	49	14	5	30	1.66
51882412--51882599	86	2.2	85	86	2	268	42	15	7	34	1.76
51882690--51882864	86	2.0	87	83	1	217	46	16	5	30	1.70
51888207--51888359	22	7.0	22	90	0	225	26	26	14	32	1.94
51888486--51888515	14	2.1	14	93	0	51	40	30	3	26	1.72
51888595--51888633	21	1.9	20	89	5	60	46	23	0	30	1.53
51888999--51889135	40	3.4	41	80	3	127	18	21	22	36	1.95
51889241--51889288	16	3.0	16	87	0	69	35	2	16	45	1.59
51889380--51889456	19	4.5	18	67	32	62	33	1	15	49	1.53
51889349--51889472	49	2.5	49	89	4	176	34	3	13	48	1.59
51889401--51889449	21	2.3	22	80	16	59	32	2	16	48	1.57
51889607--51889704	24	4.2	23	66	21	60	51	3	7	38	1.45
51889697--51889808	55	2.0	55	98	0	215	51	5	3	39	1.42
51889565--51889755	70	2.7	70	98	0	366	48	5	5	41	1.48
51889631--51889880	124	2.0	125	96	2	459	50	5	4	40	1.45
51889746--51889922	70	2.5	70	91	4	279	50	5	5	38	1.48
51889565--51889922	194	1.8	195	94	3	641	48	5	5	40	1.48
51891783--51891839	12	4.8	12	76	4	62	19	1	47	31	1.60
51891783--51891839	23	2.4	24	85	8	73	19	1	47	31	1.60
51893772--51893933	86	1.9	84	91	2	261	34	30	17	17	1.93
51895819--51895844	13	2.0	13	100	0	52	30	23	23	23	1.99
51898065--51898312	89	2.8	90	74	11	233	36	16	13	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51899762--51899854	38	2.4	38	87	0	132	29	22	17	31	1.96
51906283--51906321	18	2.2	17	86	4	51	53	17	10	17	1.71
51910470--51910495	6	4.3	6	100	0	52	46	0	0	53	1.00
51910903--51910940	19	2.0	19	89	0	58	57	2	0	39	1.12
51911206--51911249	2	22.0	2	100	0	88	50	0	0	50	1.00
51918697--51918723	11	2.5	11	100	0	54	40	0	0	59	0.98
51918705--51918763	31	1.9	31	89	6	93	27	0	1	71	0.96
51919946--51919977	14	2.4	14	94	5	57	56	0	0	43	0.99
51921407--51921493	39	2.2	40	81	12	106	55	1	6	36	1.34
51930503--51930549	25	1.9	25	82	4	60	29	10	4	55	1.53
51933850--51933904	16	3.3	16	75	22	51	30	10	20	38	1.87
51934253--51934285	16	2.1	16	94	0	57	78	6	0	15	0.93
51934278--51934406	29	4.4	30	84	2	154	31	24	4	39	1.76
51934277--51934407	59	2.2	58	85	6	174	31	24	4	39	1.75
51935012--51935050	13	2.9	13	88	11	53	82	0	15	2	0.79
51935012--51935052	17	2.4	17	83	0	55	80	0	17	2	0.82
51935745--51935793	17	2.9	16	76	11	53	28	16	12	42	1.84
51936028--51936083	19	2.9	19	84	10	87	44	14	5	35	1.68
51936028--51936144	17	6.5	17	74	17	76	35	15	9	40	1.79
51936062--51936144	17	4.7	17	80	7	85	32	15	10	40	1.82
51947122--51947176	10	5.5	10	86	6	76	87	10	1	0	0.63
51947122--51947166	21	2.1	21	95	0	81	88	11	0	0	0.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51947113--51947185	29	2.5	29	86	2	92	84	8	5	1	0.81
51947113--51947185	10	7.5	10	81	15	64	84	8	5	1	0.81
51948061--51948522	154	3.0	152	81	9	530	27	15	20	36	1.93
51948062--51948521	232	2.0	228	84	6	606	27	15	20	36	1.93
51948059--51948570	78	6.7	75	80	11	501	28	15	19	36	1.93
51948868--51948900	16	2.1	16	94	0	57	78	6	0	15	0.93
51948893--51949020	29	4.4	30	79	3	118	31	22	5	40	1.77
51949628--51949666	13	2.9	13	92	3	60	84	0	15	0	0.62
51949628--51949668	17	2.4	17	84	12	57	82	0	17	0	0.66
51950206--51950243	20	1.9	20	88	0	58	36	13	7	42	1.73
51950359--51950407	17	2.9	16	82	11	62	26	16	12	44	1.82
51950643--51950695	16	2.9	19	83	16	85	41	15	5	37	1.70
51950711--51951050	18	18.9	17	67	20	112	31	14	10	43	1.79
51950691--51950733	20	2.2	20	83	8	52	44	2	13	39	1.57
51950723--51950895	73	2.5	67	82	9	211	31	14	9	44	1.78
51950594--51951049	17	25.2	17	67	17	181	32	13	10	43	1.78
51950879--51950963	35	2.4	35	80	5	91	31	15	11	41	1.83
51958366--51958503	46	3.0	46	88	3	199	36	7	23	31	1.84
51959192--51959358	91	1.8	90	83	6	221	39	11	13	35	1.80
51959748--51959800	17	3.1	16	84	10	61	62	1	7	28	1.33
51959728--51959800	35	2.1	35	82	10	87	61	4	6	27	1.40
51959728--51959802	18	4.2	18	80	13	75	61	4	6	28	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51959836--51959902	20	3.4	18	75	19	55	62	0	8	28	1.25
51959847--51959903	19	2.9	20	78	5	71	64	0	8	26	1.22
51960087--51960154	28	2.5	27	90	4	109	36	4	4	54	1.41
51960135--51960177	21	2.1	21	91	4	70	30	4	0	65	1.13
51964523--51964557	18	1.9	19	88	11	56	2	0	45	51	1.16
51965105--51965134	15	2.1	15	93	6	53	50	0	0	50	1.00
51965465--51965509	9	4.7	9	79	15	54	24	0	2	73	0.95
51968306--51968337	15	2.1	15	100	0	64	56	0	6	37	1.25
51973302--51973377	29	2.5	29	76	6	71	32	13	14	39	1.85
51975099--51975137	20	2.0	20	90	10	62	15	5	2	76	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   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