genome.fa.s8.2.7.7.80.10.50.1000.128.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  128  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)
38106374--38106401	2	14.0	2	100	0	56	50	0	0	50	1.00
38109631--38109673	2	22.5	2	83	9	54	53	0	0	46	1.00
38109644--38109679	18	2.0	18	88	0	54	55	0	0	44	0.99
38116076--38116116	20	2.0	20	85	0	55	36	4	0	58	1.20
38116218--38116259	20	2.0	21	86	13	61	28	2	4	64	1.26
38117272--38117518	43	5.8	42	81	4	262	26	27	18	27	1.98
38117275--38117551	86	3.2	86	81	6	278	28	27	16	27	1.97
38117825--38117860	16	2.3	16	90	4	56	50	5	2	41	1.40
38122473--38122542	9	8.0	9	79	9	74	34	0	18	47	1.49
38122477--38122542	34	1.9	34	81	6	80	33	0	18	48	1.48
38122595--38122620	13	2.0	13	100	0	52	38	7	0	53	1.30
38124863--38124894	15	2.1	15	94	0	55	40	12	31	15	1.85
38126147--38126185	20	2.0	20	84	0	51	51	0	2	46	1.14
38126734--38126826	41	2.3	41	83	3	107	18	24	19	37	1.94
38128395--38128444	24	2.1	24	88	0	73	34	6	8	52	1.55
38128404--38128450	24	2.0	24	91	0	76	36	6	8	48	1.59
38129744--38129799	28	2.0	28	96	0	103	28	16	28	26	1.97
38137089--38137358	126	2.2	125	94	2	470	33	18	20	27	1.96
38137341--38137381	13	3.1	13	79	6	55	26	17	26	29	1.97
38137335--38137379	14	3.3	14	81	6	65	24	20	26	28	1.99
38137378--38137419	21	2.0	21	100	0	84	23	0	33	42	1.55
38137442--38137484	12	3.3	12	84	15	59	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38137445--38137484	7	5.9	7	83	16	57	55	0	0	45	0.99
38137679--38137737	21	2.8	22	80	10	61	6	22	42	28	1.79
38137978--38138020	18	2.4	18	88	0	59	44	9	27	18	1.80
38138666--38138691	7	3.7	7	100	0	52	57	15	0	26	1.38
38139889--38139961	22	3.3	22	80	14	62	47	2	30	19	1.63
38139906--38139947	11	3.8	11	96	0	75	47	4	28	19	1.69
38140811--38140878	30	2.3	29	82	12	77	36	4	4	54	1.41
38141482--38141531	14	3.6	14	83	0	55	14	12	8	66	1.45
38145240--38145298	17	3.3	17	72	21	57	38	0	23	37	1.55
38145227--38145299	37	2.0	37	97	0	137	39	0	23	36	1.55
38145227--38145286	20	3.2	19	73	22	63	41	0	21	36	1.54
38145384--38145507	40	3.2	39	70	11	121	21	23	20	33	1.97
38145341--38145599	75	3.5	75	85	1	351	22	23	23	30	1.99
38145424--38145555	35	3.6	35	70	16	97	23	21	25	30	1.99
38147369--38147402	2	17.0	2	100	0	68	50	0	0	50	1.00
38149847--38149884	19	2.0	19	89	0	58	21	2	23	52	1.59
38154092--38154143	16	3.2	16	94	0	86	28	0	36	34	1.58
38154124--38154233	45	2.6	43	80	9	129	33	5	29	31	1.80
38154367--38154408	15	2.9	15	82	10	52	52	0	0	47	1.00
38154667--38154719	27	2.1	27	82	10	67	43	0	0	56	0.99
38158471--38158541	28	2.6	28	78	13	76	45	1	0	53	1.09
38158493--38158537	21	2.1	22	84	12	58	42	2	0	55	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38162159--38162188	14	2.1	14	93	0	51	23	0	3	73	0.98
38164600--38164637	17	2.2	18	85	4	51	28	0	18	52	1.45
38165047--38165083	17	2.1	18	90	5	58	24	0	2	72	0.97
38165047--38165095	13	3.8	13	82	15	57	22	0	4	73	1.00
38170180--38170268	46	1.9	46	83	2	115	25	23	20	30	1.98
38171835--38171859	11	2.3	11	100	0	50	52	8	0	40	1.31
38186326--38186375	25	2.0	25	96	0	91	54	16	18	12	1.72
38193606--38193667	30	2.0	32	90	6	101	66	0	4	29	1.12
38195314--38195349	13	2.8	13	87	4	56	22	19	27	30	1.98
38196525--38196572	22	2.2	22	85	7	71	62	2	4	31	1.26
38199482--38199724	22	11.0	22	84	1	299	41	16	12	28	1.85
38199482--38199724	44	5.5	44	88	0	333	41	16	12	28	1.85
38199482--38199719	88	2.7	88	91	0	368	42	17	11	28	1.84
38199860--38200084	43	5.3	43	83	3	242	26	24	19	30	1.98
38200519--38200569	21	2.4	21	90	0	75	1	45	17	35	1.60
38200434--38200609	87	2.0	87	91	0	280	11	30	18	39	1.86
38206118--38206709	9	69.6	9	69	17	295	30	1	18	49	1.56
38206143--38206438	16	17.9	17	75	16	177	32	1	19	46	1.56
38206118--38206533	25	16.6	25	80	10	360	31	1	18	48	1.56
38206491--38206530	12	3.3	12	85	0	62	32	0	17	50	1.47
38206421--38206601	97	1.9	95	92	6	305	27	1	18	53	1.54
38206510--38206675	71	2.3	71	92	4	271	26	1	18	53	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38206661--38206711	16	3.1	16	86	10	75	39	1	17	41	1.61
38210253--38210742	114	4.3	114	87	1	642	26	25	22	26	2.00
38210845--38210910	22	3.0	23	82	6	91	43	18	6	31	1.74
38211731--38211859	42	3.0	42	77	13	111	34	28	14	21	1.93
38211700--38211858	43	3.7	43	78	12	132	31	28	16	23	1.96
38213477--38213542	16	4.3	16	71	19	52	22	3	3	71	1.14
38213477--38213542	11	6.5	10	75	14	55	22	3	3	71	1.14
38213705--38213751	24	2.0	23	87	4	67	21	21	0	57	1.41
38213720--38213744	13	1.9	13	100	0	50	20	24	0	56	1.43
38214584--38214694	25	4.5	24	75	2	87	20	26	21	31	1.98
38214585--38214694	50	2.2	50	83	3	132	20	26	21	30	1.98
38215411--38215524	28	4.1	28	86	3	142	29	21	23	25	1.99
38215803--38215840	2	18.5	2	94	5	67	50	2	0	47	1.15
38215873--38216096	27	8.3	26	80	11	197	17	20	19	42	1.89
38215875--38216087	107	2.0	108	83	6	272	16	21	19	42	1.89
38215875--38216087	54	4.0	54	83	9	240	16	21	19	42	1.89
38222013--38222052	21	1.9	21	85	10	55	15	5	2	77	1.04
38227042--38227172	63	2.1	63	97	0	244	40	18	16	25	1.90
38237839--38237879	21	1.9	22	85	5	57	43	4	14	36	1.67
38240970--38241007	20	1.9	20	89	10	60	34	2	7	55	1.43
38244919--38244996	26	2.9	27	82	5	95	34	24	30	10	1.89
38244932--38245010	26	3.0	26	83	7	88	36	21	29	12	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38248090--38248114	6	4.2	6	100	0	50	48	0	0	52	1.00
38259432--38259834	203	2.0	200	97	2	754	35	16	15	33	1.90
38265472--38265512	21	2.0	21	100	0	82	4	51	4	39	1.45
38272793--38272867	38	1.9	40	86	5	109	60	0	1	38	1.06
38273348--38273387	21	1.9	21	94	0	71	60	7	10	22	1.54
38281962--38282014	27	1.9	28	84	3	72	43	0	1	54	1.11
38282089--38282208	33	3.4	33	70	20	107	40	10	5	44	1.60
38282117--38282175	20	3.0	18	75	20	64	38	11	5	44	1.63
38282781--38282818	16	2.4	16	95	0	67	36	2	34	26	1.71
38285008--38285311	108	2.9	108	78	4	321	28	18	19	33	1.95
38289281--38289377	48	2.0	48	85	0	131	74	6	8	11	1.22
38292441--38292474	17	2.0	17	94	0	59	50	17	2	29	1.61
38295226--38295286	27	2.3	27	82	5	70	22	24	13	39	1.90
38298322--38298361	20	2.0	20	90	0	62	50	12	10	27	1.72
38298310--38298376	34	1.9	35	90	3	109	46	13	8	31	1.74
38299559--38299614	29	1.9	29	85	0	76	35	14	12	37	1.84
38317590--38317620	13	2.4	13	94	0	53	41	35	16	6	1.74
38318719--38318841	51	2.4	50	81	6	124	57	5	4	31	1.43
38319106--38319148	3	14.3	3	80	9	52	69	0	0	30	0.88
38319106--38319162	18	3.3	18	79	13	59	70	1	0	28	0.98
38319367--38319405	19	2.0	21	85	10	55	69	5	10	15	1.34
38319606--38319662	21	2.7	21	88	0	96	36	12	10	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38319973--38320305	44	7.7	44	72	15	201	27	24	21	27	1.99
38319963--38320444	217	2.2	217	91	1	754	27	24	20	28	1.99
38320056--38320433	44	8.8	42	71	13	184	27	24	20	26	1.99
38320400--38320741	127	2.6	129	90	3	517	23	24	21	29	1.99
38321968--38322020	22	2.4	23	84	12	67	0	18	0	81	0.70
38321969--38322013	15	2.9	15	90	3	63	0	22	0	77	0.76
38321981--38322017	19	1.9	19	89	10	58	0	18	0	81	0.70
38329146--38329184	19	2.0	21	85	10	55	69	5	10	15	1.34
38329376--38329455	21	4.0	21	82	9	105	36	13	10	40	1.79
38329396--38329459	19	3.3	19	88	4	92	37	14	9	39	1.78

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