genome.fa.s8.2.7.7.80.10.50.1000.174.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  174  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)
50598230--50598364	9	15.2	9	73	11	91	47	18	1	32	1.58
50598260--50598314	25	2.2	25	86	0	74	47	20	1	30	1.60
50598279--50598556	9	30.4	9	66	23	50	49	12	2	35	1.53
50598377--50598668	31	9.5	31	73	19	197	47	11	2	38	1.52
50598492--50598591	30	3.1	30	83	9	119	51	11	2	36	1.49
50598582--50598633	16	3.1	16	88	5	77	46	21	0	32	1.52
50598582--50598633	9	6.2	9	78	17	67	46	21	0	32	1.52
50598614--50598690	39	2.1	36	86	11	104	38	11	0	49	1.39
50598834--50598917	9	9.8	9	70	10	68	44	19	1	35	1.58
50598865--50598915	16	3.1	16	81	10	66	45	23	1	29	1.64
50604582--50604752	66	2.6	65	85	4	209	38	19	28	13	1.89
50604724--50604795	21	3.4	21	82	0	72	34	19	41	4	1.71
50604743--50604835	42	2.2	42	88	0	132	34	16	44	5	1.70
50604743--50604835	21	4.4	21	83	0	114	34	16	44	5	1.70
50604999--50605028	9	3.2	9	90	9	51	30	0	3	66	1.07
50605343--50605592	43	5.9	43	83	9	325	32	28	19	20	1.96
50605343--50605592	86	2.9	86	96	1	450	32	28	19	20	1.96
50605745--50605787	22	2.0	22	95	0	77	41	27	20	9	1.83
50611269--50611307	20	2.0	20	89	0	60	5	17	0	76	0.96
50619503--50619529	2	13.5	2	100	0	54	48	0	0	51	1.00
50621056--50621116	19	3.1	19	68	23	54	40	4	3	50	1.40
50624780--50624830	27	2.0	26	85	11	70	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50630718--50630748	12	2.5	13	94	5	55	32	3	0	64	1.09
50630752--50630849	50	2.0	49	86	7	137	33	10	11	44	1.74
50632538--50632605	30	2.2	31	81	2	75	38	5	30	25	1.79
50633903--50634073	85	2.0	85	97	0	324	29	18	16	35	1.93
50635812--50636063	101	2.5	101	83	3	310	31	26	16	25	1.97
50635814--50636076	51	5.2	50	75	8	221	31	26	16	25	1.96
50637245--50637275	9	3.4	9	90	0	53	25	12	22	38	1.90
50637329--50637365	9	4.1	9	89	0	56	48	13	8	29	1.71
50637414--50637474	30	2.0	31	87	3	88	21	40	0	37	1.53
50638366--50638396	5	6.2	5	92	0	53	22	19	16	41	1.89
50638589--50638643	25	2.2	25	93	6	94	32	0	0	67	0.91
50638596--50638649	25	2.2	25	86	6	74	29	0	0	70	0.88
50640053--50640102	26	1.9	26	84	8	66	24	0	4	72	1.02
50640311--50640378	27	2.5	28	88	7	104	39	10	0	50	1.37
50640379--50640412	17	2.0	17	88	11	52	82	5	5	5	0.95
50643172--50643212	3	13.7	3	89	0	64	60	4	0	34	1.18
50643599--50643669	28	2.5	29	86	4	101	49	1	9	39	1.45
50654168--50654218	17	2.9	17	80	16	59	35	0	0	64	0.94
50659194--50659228	18	1.9	18	88	0	52	22	8	0	68	1.16
50659226--50659285	2	31.0	2	75	6	52	45	5	0	50	1.23
50659246--50659293	22	2.2	22	84	0	60	37	6	0	56	1.25
50667684--50667787	52	2.0	52	88	0	154	38	6	10	44	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50668115--50668149	6	5.8	6	96	0	61	28	37	0	34	1.58
50668109--50668148	18	2.2	19	82	13	57	27	35	0	37	1.57
50682343--50682368	5	5.2	5	100	0	52	80	0	19	0	0.71
50682900--50682927	3	9.3	3	100	0	56	0	32	0	67	0.91
50691429--50691500	36	2.0	36	94	0	126	34	18	9	37	1.83
50692345--50692415	19	3.5	20	74	16	58	64	5	1	28	1.24
50692508--50692549	17	2.4	18	88	4	59	66	2	2	28	1.16
50692599--50692648	12	3.9	13	74	10	50	76	0	2	22	0.89
50694055--50694114	9	6.6	9	72	16	52	21	0	3	75	0.95
50694057--50694114	26	2.2	26	84	9	73	22	0	3	74	0.97
50694055--50694113	16	3.4	16	86	11	64	22	0	3	74	0.96
50694223--50694274	19	2.7	20	76	8	54	28	3	1	65	1.21
50701926--50702014	25	3.6	25	75	11	83	16	30	20	32	1.95
50701933--50702045	50	2.3	50	80	0	127	18	29	20	31	1.96
50705129--50705254	59	2.1	61	84	8	161	38	4	11	46	1.61
50715951--50715986	13	2.6	14	86	8	56	30	16	41	11	1.83
50727789--50727836	15	3.1	15	87	6	60	0	29	0	70	0.87
50736568--50736610	1	43.0	1	80	0	50	6	90	2	0	0.52
50736568--50736610	10	4.3	10	96	0	77	6	90	2	0	0.52
50748193--50748239	24	2.0	24	84	16	62	51	17	0	31	1.46
50754427--50754459	16	2.1	16	88	11	50	48	3	0	48	1.17
50755673--50755706	16	2.1	16	88	0	50	55	8	0	35	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50755918--50755947	15	2.0	15	93	0	51	16	33	0	50	1.46
50757111--50757140	14	2.1	14	100	0	60	33	0	43	23	1.54
50759799--50759899	47	2.1	47	92	3	168	44	0	7	47	1.32
50760389--50760420	14	2.2	15	94	5	57	40	31	0	28	1.57
50760701--50760744	17	2.7	17	86	6	56	45	25	0	29	1.54
50761170--50761403	73	3.2	73	88	2	317	28	25	20	26	1.99
50761302--50761855	113	4.9	113	91	1	858	27	26	19	25	1.99
50762274--50762367	30	3.2	29	86	10	95	34	22	3	40	1.70
50762289--50762373	30	2.9	31	91	6	133	34	24	3	37	1.73
50763007--50763073	11	6.1	11	77	16	59	73	1	25	0	0.92
50763175--50763199	13	1.9	13	100	0	50	80	12	8	0	0.92
50763155--50763196	16	2.6	16	81	11	50	78	16	4	0	0.91
50763919--50763968	19	2.4	21	90	9	77	50	6	8	36	1.57
50763937--50763977	19	2.2	19	86	4	57	43	4	7	43	1.53
50763943--50764134	17	10.4	18	71	11	122	31	10	11	45	1.76
50764035--50764091	27	2.2	25	84	6	69	19	14	14	52	1.74
50764067--50764132	19	3.6	19	80	12	84	33	12	10	43	1.76
50777600--50777662	1	63.0	1	74	0	54	87	7	4	0	0.67
50777600--50777652	17	3.1	17	88	2	79	88	9	1	0	0.58
50777600--50777662	18	3.4	19	78	8	67	87	7	4	0	0.67
50777600--50777662	27	2.3	27	91	2	99	87	7	4	0	0.67
50777600--50777651	8	5.9	9	82	13	72	88	9	1	0	0.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50777934--50778612	76	8.8	76	90	4	892	28	16	20	35	1.94
50777934--50778612	153	4.4	151	88	6	888	28	16	20	35	1.94
50778882--50779022	30	4.7	29	78	12	135	34	22	4	37	1.76
50778889--50779063	59	2.9	57	78	14	167	33	23	6	36	1.82
50779608--50779668	11	5.2	11	77	13	59	70	0	29	0	0.88
50779752--50779832	18	4.3	19	76	10	78	66	22	9	1	1.28
50780528--50780790	80	3.4	80	80	8	294	29	10	11	49	1.71
50780574--50780656	19	4.7	16	85	10	76	25	12	10	51	1.71
50780489--50780999	17	29.3	17	69	14	156	29	10	11	47	1.73
50780656--50780710	18	2.9	18	86	10	74	41	9	9	40	1.68
50780689--50780720	16	2.0	16	100	0	64	43	6	6	43	1.54
50780574--50780931	187	1.9	191	90	5	573	30	11	10	47	1.73
50780842--50780901	20	3.0	20	88	9	95	38	8	10	43	1.68
50780868--50780912	20	2.3	19	84	3	54	40	4	8	46	1.55
50780743--50781043	154	2.0	152	94	2	532	30	11	11	45	1.77
50780970--50781026	27	2.2	25	84	6	69	19	14	14	52	1.74
50781417--50781441	8	3.1	8	100	0	50	40	12	0	48	1.40
50790971--50791032	21	3.0	21	90	0	88	37	4	45	12	1.64
50792408--50792470	30	2.1	31	87	3	92	38	3	0	58	1.14
50792473--50792525	19	2.7	21	75	19	60	35	1	5	56	1.34
50794158--50794218	17	3.4	17	70	12	59	31	3	14	50	1.59
50794152--50794227	37	2.1	37	94	0	134	34	5	14	46	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50794324--50794352	14	2.1	14	93	6	51	17	6	13	62	1.52
50794460--50794514	3	18.3	3	100	0	110	32	0	0	67	0.91
50797913--50797946	15	2.2	16	94	5	61	17	26	17	38	1.92
50797982--50798102	60	2.0	60	100	0	242	27	24	18	29	1.98
50804181--50804213	15	2.2	15	89	10	50	27	0	0	72	0.85
50805796--50805901	40	2.7	40	86	0	149	7	62	4	25	1.42
50816056--50816097	20	2.1	20	86	0	57	47	0	7	45	1.30
50817806--50817845	21	1.9	21	84	0	53	37	32	2	27	1.70
50817702--50819162	726	2.0	728	95	0	2656	31	22	11	35	1.89
50830390--50830508	57	2.1	57	100	0	238	15	25	37	21	1.92

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