genome.fa.s8.2.7.7.80.10.50.1000.152.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  152  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)
44332990--44333050	24	2.5	24	78	0	68	14	8	11	65	1.46
44332980--44333068	42	2.1	42	83	8	110	12	8	10	68	1.39
44333005--44333066	30	2.1	30	84	6	81	12	3	12	70	1.27
44337671--44337708	12	3.2	12	81	3	51	60	0	0	39	0.97
44337879--44337957	22	3.7	22	77	14	76	51	2	8	36	1.47
44337849--44337962	41	2.7	43	76	15	114	52	4	9	33	1.54
44337910--44337948	19	2.0	19	85	5	51	56	2	7	33	1.41
44341632--44342047	107	3.9	106	90	0	625	32	18	19	29	1.96
44341632--44342043	213	1.9	214	89	0	637	31	18	19	30	1.96
44344005--44344517	44	11.7	44	75	3	246	24	24	20	30	1.98
44344021--44344516	131	3.8	131	93	0	805	24	23	20	31	1.98
44344055--44344472	87	4.8	87	77	3	374	24	23	20	30	1.98
44344834--44344889	24	2.3	24	90	6	87	32	21	12	33	1.91
44356153--44356568	107	3.9	106	91	0	643	32	19	19	28	1.96
44356153--44356564	213	1.9	214	90	0	655	31	19	19	29	1.96
44357977--44358029	26	2.2	26	78	21	62	3	20	15	60	1.50
44358633--44358680	12	4.2	12	77	20	57	16	0	10	72	1.10
44358633--44358681	22	2.2	22	82	7	64	16	0	12	71	1.14
44358757--44358793	19	2.0	18	89	5	56	24	24	21	29	1.99
44359146--44359195	24	2.1	24	100	0	100	50	16	18	16	1.79
44382323--44382393	34	2.1	34	100	0	142	46	16	28	8	1.76
44388737--44389039	110	2.9	106	81	9	325	40	15	13	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44389095--44389276	97	1.9	97	92	0	310	34	19	15	29	1.93
44397288--44397324	12	2.9	13	84	15	51	51	0	0	48	1.00
44397843--44397891	20	2.4	22	80	10	59	42	18	6	32	1.75
44399166--44399210	22	2.1	22	84	12	58	35	17	8	37	1.81
44400311--44400355	23	2.0	23	91	4	74	46	17	4	31	1.68
44400308--44400363	22	2.6	21	86	8	76	44	17	3	33	1.66
44405448--44405492	23	2.0	23	91	4	74	46	17	4	31	1.68
44405445--44405502	22	2.6	22	86	7	82	43	18	3	34	1.68
44408692--44408739	18	2.7	17	81	9	60	41	4	16	37	1.68
44413280--44413322	20	2.2	20	91	0	68	46	32	4	16	1.67
44413540--44413576	17	2.3	17	86	9	51	70	2	5	21	1.20
44415100--44415134	5	7.0	5	96	0	52	34	40	0	25	1.56
44418052--44418640	220	2.7	218	89	4	878	26	15	12	45	1.82
44436421--44436446	3	8.7	3	100	0	52	0	30	0	69	0.89
44440191--44440259	29	2.3	29	80	5	75	47	11	14	26	1.78
44441251--44441300	21	2.4	22	80	16	61	58	0	0	42	0.98
44442010--44442063	16	3.4	15	80	10	63	38	22	5	33	1.77
44443237--44443276	17	2.4	17	86	0	62	0	17	2	80	0.83
44449171--44449207	18	2.1	17	90	5	56	70	5	0	24	1.08
44449407--44449445	19	2.1	19	85	0	51	35	10	0	53	1.35
44449781--44449911	10	13.3	10	68	15	51	35	4	3	56	1.35
44452687--44452738	27	2.0	26	88	3	77	25	17	11	46	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44458384--44458428	22	1.9	23	82	13	56	62	2	4	31	1.27
44459170--44459212	8	4.9	8	81	15	50	81	9	6	2	0.95
44459955--44460260	40	7.3	41	65	16	153	28	24	20	27	1.99
44459828--44460260	127	3.4	127	93	1	726	27	24	20	27	1.99
44459868--44460237	87	4.4	85	66	16	194	28	23	20	28	1.99
44460361--44460757	127	3.1	127	94	1	706	27	23	20	27	1.99
44460533--44461602	210	5.1	210	70	11	700	27	22	21	27	1.99
44460402--44461570	44	27.7	41	66	16	238	27	22	21	27	1.99
44460741--44461646	127	7.1	127	93	0	1551	27	22	22	28	1.99
44460396--44461094	337	2.1	337	90	0	1112	28	23	20	27	1.99
44460817--44461653	44	19.7	43	66	15	252	26	22	22	28	1.99
44466404--44466462	28	2.1	28	87	0	82	64	8	11	15	1.49
44471386--44471441	27	2.1	27	96	0	103	16	33	17	32	1.92
44474181--44474250	24	2.9	25	70	10	65	48	14	5	31	1.67
44475043--44475094	23	2.3	23	81	15	63	69	3	17	9	1.31
44486241--44486268	10	2.8	10	100	0	56	42	7	0	50	1.30
44487426--44487488	29	2.2	29	81	10	69	31	20	3	44	1.67
44487777--44487803	14	1.9	14	100	0	54	37	18	0	44	1.50
44489903--44490025	45	2.9	42	77	13	135	30	24	17	27	1.97
44493119--44493172	19	2.8	21	75	16	62	35	20	3	40	1.70
44505238--44505825	45	12.9	45	77	6	529	33	17	19	29	1.95
44505241--44505880	96	6.9	93	76	11	496	33	17	19	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44505241--44505825	141	4.3	134	81	6	620	33	17	19	29	1.95
44509350--44509374	2	12.5	2	100	0	50	52	0	0	48	1.00
44509773--44509857	4	21.5	4	68	15	52	69	4	23	2	1.19
44519312--44519345	11	2.9	12	86	8	52	0	8	5	85	0.75
44522315--44522346	15	2.1	16	88	11	50	0	18	0	81	0.70
44525248--44525413	26	6.7	26	69	13	98	16	25	21	36	1.94
44525248--44525412	24	6.6	25	69	15	92	16	25	21	36	1.94
44526499--44526546	20	2.4	20	100	0	96	12	25	41	20	1.87
44530068--44530117	15	3.3	15	76	20	50	36	0	2	62	1.07
44539668--44539915	19	12.4	19	70	21	152	31	0	13	55	1.42
44539693--44539894	80	2.5	80	91	3	325	31	0	12	55	1.38
44539668--44539915	61	4.1	59	69	21	149	31	0	13	55	1.42
44539906--44540027	60	2.0	60	82	3	147	32	1	12	53	1.48
44540145--44540181	16	2.4	16	90	4	58	32	2	5	59	1.34
44543213--44543244	6	5.3	6	96	0	55	18	18	34	28	1.95
44546526--44546567	14	3.2	14	87	9	54	59	14	7	19	1.57
44548530--44548577	12	4.1	12	81	5	62	52	2	0	45	1.12
44548530--44548577	23	2.0	23	92	4	78	52	2	0	45	1.12
44550651--44550678	3	9.3	3	100	0	56	32	0	0	67	0.91
44551312--44551344	17	1.9	17	100	0	66	69	0	6	24	1.10
44565822--44565878	22	2.8	21	79	10	64	35	21	7	36	1.80
44572484--44572525	15	2.6	17	79	20	54	35	0	2	61	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44576707--44576829	38	3.2	39	81	4	144	38	31	16	13	1.88
44581461--44581646	51	3.7	51	81	2	223	23	17	27	31	1.96
44581464--44581648	101	1.8	102	89	3	293	23	17	27	31	1.97
44581464--44581667	102	2.0	101	83	4	259	25	17	25	31	1.97
44581657--44581743	45	1.9	45	92	0	147	25	14	24	35	1.94
44583505--44583575	19	3.6	19	78	10	88	54	19	7	18	1.65
44583524--44583557	11	3.1	11	84	16	52	58	17	8	14	1.61
44583969--44583996	9	3.1	9	100	0	56	10	32	21	35	1.88
44586404--44586483	27	2.9	28	83	3	92	56	6	1	36	1.33
44586433--44586563	13	10.2	13	78	9	126	54	4	3	37	1.39
44586433--44586528	40	2.4	40	91	3	149	55	5	3	36	1.38
44586433--44586553	27	4.7	27	78	8	112	55	4	3	36	1.38
44586513--44586554	22	2.0	21	90	4	66	54	4	2	38	1.34
44586677--44586710	15	2.3	15	100	0	68	41	5	11	41	1.66
44586746--44586938	13	15.2	13	75	11	150	52	4	4	38	1.43
44586755--44586903	27	5.8	26	74	12	137	53	3	4	38	1.39
44586746--44586841	40	2.4	40	89	3	140	54	3	4	38	1.36
44586790--44586937	62	2.4	62	96	0	269	51	4	5	38	1.46
44586874--44586940	35	1.9	35	96	0	125	47	7	5	38	1.56
44588496--44588553	29	2.0	30	89	3	91	55	24	6	13	1.63
44600951--44600995	24	1.9	23	82	13	56	48	24	6	20	1.73
44602104--44602266	33	4.9	32	71	9	112	30	23	15	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44602106--44602332	101	2.2	101	93	1	384	29	23	15	31	1.95
44606437--44606539	44	2.3	43	77	11	111	31	2	2	63	1.24
44606615--44606706	35	2.6	36	80	8	93	31	4	2	61	1.27
44606626--44606722	52	1.9	50	85	12	135	31	3	1	63	1.16
44606661--44606729	17	4.2	16	82	14	70	34	2	1	60	1.20
44606627--44606720	26	3.8	23	75	24	86	31	3	1	63	1.17
44606661--44606720	7	7.7	7	76	20	57	35	3	0	61	1.12
44621700--44621735	14	2.7	13	87	8	54	36	0	0	63	0.94
44621700--44621730	14	2.3	14	94	5	55	32	0	0	67	0.91
44634477--44634509	17	1.9	18	88	11	52	48	0	9	42	1.35

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