genome.fa.s8.2.7.7.80.10.50.1000.46.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  46  of  190  ( 22705 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)
12870441--12870506	32	2.1	32	97	0	123	48	10	4	36	1.58
12872473--12872607	58	2.3	57	83	5	164	42	1	3	51	1.28
12873111--12873307	98	2.0	98	98	0	385	37	24	10	27	1.88
12875518--12875674	84	1.9	85	82	6	203	29	24	19	26	1.98
12875517--12875891	44	8.7	43	73	12	238	28	22	20	28	1.98
12875474--12875896	217	2.0	216	89	0	657	28	22	20	29	1.98
12876993--12877017	10	2.5	10	100	0	50	0	0	8	92	0.40
12887300--12887494	98	2.0	98	96	2	367	36	25	10	27	1.88
12889350--12889404	16	3.4	16	84	0	74	32	25	5	36	1.79
12891835--12891876	19	2.2	19	83	8	50	50	2	4	42	1.36
12892835--12892885	24	2.1	24	82	7	59	58	3	1	35	1.28
12893147--12893208	22	2.8	23	80	7	74	54	1	1	41	1.19
12896759--12896807	22	2.1	24	82	14	59	55	4	6	34	1.44
12897854--12897891	6	6.2	6	85	14	51	81	0	2	15	0.80
12899088--12899290	44	4.6	44	81	4	214	23	24	22	29	1.99
12906167--12906191	12	2.1	12	100	0	50	0	20	40	40	1.52
12911235--12911283	22	2.1	24	82	14	59	55	2	8	34	1.41
12912362--12912406	6	7.2	6	87	7	63	82	0	4	13	0.82
12912362--12912406	13	3.5	13	88	11	58	82	0	4	13	0.82
12916836--12916940	40	2.6	41	81	3	122	32	21	15	30	1.94
12916881--12916968	41	2.1	41	82	0	104	38	21	15	23	1.92
12918625--12918676	23	2.2	24	79	6	61	69	5	3	21	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12918804--12918867	29	2.1	29	83	11	76	48	17	12	21	1.80
12924293--12924407	37	3.1	37	98	0	221	31	12	20	35	1.90
12931888--12932134	50	4.8	50	79	4	219	28	20	27	23	1.99
12939511--12939613	35	3.0	34	76	8	109	33	25	23	18	1.97
12939446--12939671	75	3.1	75	74	7	239	33	21	23	22	1.98
12950071--12950334	97	2.7	97	94	1	465	42	15	10	31	1.81
12950751--12950856	41	2.6	41	90	0	167	33	22	19	23	1.97
12953658--12953721	22	2.6	22	72	23	65	54	9	3	32	1.48
12953668--12953738	28	2.6	28	82	14	94	53	8	4	33	1.51
12955023--12955108	42	2.0	42	97	0	163	30	29	9	31	1.88
12961470--12961506	15	2.5	16	87	12	53	45	5	16	32	1.70
12972604--12972639	18	2.0	18	94	0	63	33	27	13	25	1.94
12976676--12976779	25	4.2	25	87	2	111	24	20	20	35	1.96
12976710--12976796	25	3.5	24	82	6	102	21	16	22	39	1.92
13011287--13011618	162	2.1	160	84	5	420	34	11	16	37	1.84
13014485--13014509	9	2.8	9	100	0	50	80	12	0	8	0.92
13016203--13016323	27	4.5	27	84	6	147	27	12	29	30	1.93
13018379--13018413	11	3.2	11	87	0	52	11	11	17	60	1.59
13019792--13019832	20	2.0	20	100	0	82	39	4	24	31	1.76
13032825--13032889	26	2.5	26	85	2	78	36	18	20	24	1.94
13041313--13041368	13	4.4	12	82	10	58	16	19	0	64	1.29
13041655--13041692	20	1.9	20	100	0	76	42	13	0	44	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13045667--13045768	48	2.1	48	92	0	168	21	19	16	42	1.89
13052351--13052399	10	4.6	10	83	14	53	59	4	0	36	1.17
13052351--13052397	11	4.3	11	78	7	51	61	4	0	34	1.15
13054572--13054605	8	4.0	8	92	7	50	73	0	11	14	1.10
13054591--13054642	19	2.7	18	74	11	50	75	5	13	5	1.18
13054963--13054988	13	2.0	13	100	0	52	38	7	7	46	1.61
13057819--13058010	92	2.1	92	86	1	260	38	15	16	30	1.89
13059868--13059898	13	2.4	13	94	0	53	29	12	6	51	1.65
13061579--13061754	51	3.5	51	86	4	230	25	26	13	35	1.92
13064793--13064894	20	5.5	18	73	20	77	42	1	2	52	1.27
13064831--13064879	25	1.9	26	84	12	66	44	2	4	48	1.33
13071000--13071068	19	3.8	19	88	7	101	37	8	17	36	1.81
13070989--13071060	38	2.0	36	84	10	94	37	9	16	36	1.82
13071513--13071582	3	23.0	3	85	2	95	27	0	1	71	0.94
13071621--13071674	21	2.6	21	82	2	56	29	5	7	57	1.49
13074940--13074979	19	2.1	19	100	0	80	32	5	0	62	1.17
13074945--13074980	11	3.5	11	78	21	51	36	5	0	58	1.22
13075412--13075442	9	3.4	9	90	0	53	25	12	22	38	1.90
13075495--13075531	18	2.1	18	94	0	65	51	13	5	29	1.63
13075745--13075804	30	2.0	31	86	3	86	20	36	0	43	1.52
13077346--13077381	5	7.2	5	87	0	54	2	22	0	75	0.94
13077346--13077386	20	2.0	20	90	0	64	7	19	0	73	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13079349--13079397	26	1.9	26	83	4	64	59	6	12	22	1.55
13080132--13080679	288	1.9	285	80	7	626	49	9	11	29	1.70
13082506--13082630	62	2.0	62	92	0	205	46	12	6	34	1.68
13083116--13083174	29	2.2	26	75	18	66	38	5	13	42	1.66
13086095--13086156	31	2.0	31	93	0	106	35	9	12	41	1.76
13086723--13086764	12	3.4	12	90	6	66	71	16	11	0	1.14
13086723--13086766	13	3.5	13	90	3	72	70	15	13	0	1.17
13093245--13093279	15	2.3	15	95	0	61	62	14	0	22	1.31
13094264--13094308	7	6.4	7	89	0	72	17	55	26	0	1.42
13095391--13095934	267	2.0	267	87	0	793	25	25	22	27	2.00
13106986--13107020	15	2.3	15	90	0	52	60	14	0	25	1.35
13111273--13112545	436	2.9	435	93	1	2110	34	17	11	37	1.86
13114919--13114961	20	2.2	20	100	0	86	46	20	9	23	1.79
13119796--13119932	58	2.4	58	89	0	202	42	10	27	18	1.84
13121572--13121609	15	2.4	16	86	8	60	28	2	5	63	1.30
13129881--13129914	15	2.3	15	94	0	59	20	23	5	50	1.70
13143967--13144121	78	2.0	78	90	0	247	15	43	22	18	1.88
13144587--13144621	8	4.5	8	92	7	63	11	0	0	88	0.51
13144587--13144621	15	2.3	15	100	0	70	11	0	0	88	0.51
13145054--13145092	14	2.8	14	92	0	60	33	2	0	64	1.08
13149896--13149956	29	2.1	29	90	0	95	75	9	6	8	1.19
13149893--13149951	23	2.4	25	83	10	70	76	10	6	6	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13149936--13149975	6	6.7	6	91	0	53	67	10	7	15	1.41
13152065--13152684	129	4.8	128	90	2	931	32	18	24	24	1.97
13152754--13152872	43	2.7	44	83	7	129	26	21	27	25	1.99
13152713--13153000	132	2.2	132	84	3	366	28	20	27	24	1.99
13154551--13154589	14	2.8	14	96	0	69	35	2	0	61	1.10
13154551--13154590	17	2.4	17	87	8	55	35	2	0	62	1.09
13154576--13155113	280	1.9	274	96	3	988	34	8	4	51	1.53
13160429--13160457	14	2.1	14	93	6	51	17	13	0	68	1.20
13165437--13165542	45	2.4	44	79	7	108	45	6	18	29	1.75
13167821--13168007	50	3.8	48	82	4	232	25	20	32	21	1.98
13167826--13168007	97	1.8	99	87	3	269	26	20	31	21	1.98
13169382--13169640	141	1.8	141	100	0	518	31	15	22	31	1.94
13173800--13174081	50	5.7	50	80	6	306	27	20	32	19	1.96
13173795--13174071	147	1.9	147	93	0	482	27	20	33	19	1.96
13176629--13176682	25	2.2	25	86	6	74	12	11	9	66	1.44
13179994--13180024	2	15.5	2	100	0	62	51	0	0	48	1.00
13183156--13183231	29	2.6	29	84	15	104	53	0	30	15	1.42
13187684--13187731	19	2.4	18	83	16	60	33	10	8	47	1.68
13194626--13194724	49	2.0	49	100	0	198	14	16	14	55	1.69
13194714--13194745	7	4.4	7	96	4	55	0	12	0	87	0.54
13202229--13202475	50	4.8	50	79	4	210	28	21	27	22	1.99
13206943--13206996	18	2.9	18	82	12	65	40	9	16	33	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13217198--13217234	15	2.3	17	86	9	51	37	0	10	51	1.37
13221646--13221683	16	2.4	16	87	12	60	26	15	7	50	1.72
13221649--13221686	17	2.3	17	95	4	69	26	18	5	50	1.68
13223148--13223186	20	2.0	20	94	0	69	51	5	0	43	1.24
13227174--13227286	43	2.6	43	91	1	181	24	15	25	33	1.95
13232497--13232590	48	2.0	48	95	0	170	34	14	29	21	1.93
13251141--13251183	21	2.0	21	90	0	68	18	4	25	51	1.66
13251009--13251272	142	1.9	142	94	0	465	20	12	23	43	1.86
13251644--13251687	22	2.0	22	100	0	88	36	9	18	36	1.82
13254481--13254514	17	2.0	17	88	11	52	35	0	0	64	0.94

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