genome.fa.s6.2.7.7.80.10.50.1000.125.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  125  of  168  ( 20060 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)
36299421--36299462	17	2.5	17	88	3	68	52	0	7	40	1.29
36299579--36299622	17	2.6	17	79	10	54	45	6	4	43	1.51
36308917--36308990	29	2.5	29	82	4	85	45	13	13	27	1.81
36313054--36313107	21	2.6	21	87	0	81	27	3	35	33	1.75
36316065--36316101	2	18.5	2	100	0	74	51	48	0	0	1.00
36317870--36317907	6	6.2	6	87	6	58	39	0	60	0	0.97
36317870--36317905	18	2.0	18	100	0	72	38	0	61	0	0.96
36317875--36317916	18	2.3	18	87	0	57	40	0	59	0	0.97
36326225--36326279	23	2.3	24	78	9	67	38	16	9	36	1.80
36333878--36334188	153	2.0	155	91	2	509	42	4	4	47	1.45
36334124--36334165	15	2.7	16	82	14	52	52	2	0	45	1.13
36334133--36334174	15	2.9	15	82	10	52	52	0	0	47	1.00
36334242--36334293	15	3.6	15	80	12	56	53	1	0	44	1.11
36334362--36334413	15	3.6	15	80	12	56	53	1	0	44	1.11
36334127--36334538	120	3.4	120	94	2	706	50	5	2	42	1.38
36334579--36334626	26	1.9	25	84	16	64	52	2	0	45	1.12
36334534--36334762	92	2.5	92	82	8	227	47	4	3	44	1.40
36335589--36335627	17	2.3	17	100	0	78	61	10	0	28	1.28
36341503--36341772	138	2.0	138	93	0	459	45	7	7	40	1.58
36349703--36349839	25	5.5	25	68	17	70	35	21	24	18	1.95
36355331--36355406	24	3.2	24	63	26	61	51	5	5	38	1.47
36355336--36355413	26	3.2	26	63	26	69	52	5	5	37	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36355278--36355433	48	3.3	48	91	2	237	48	4	7	39	1.52
36355801--36355837	19	1.9	19	89	10	58	72	2	0	24	0.97
36366899--36366937	19	2.0	20	85	5	53	41	0	2	56	1.13
36366933--36366969	19	2.0	19	89	5	58	35	2	10	51	1.51
36366940--36366975	18	1.9	19	88	5	56	36	2	11	50	1.53
36366966--36367006	20	2.0	20	90	0	64	39	0	4	56	1.21
36367723--36367781	22	2.7	23	84	5	68	35	3	18	42	1.67
36371358--36371418	22	2.7	23	80	5	63	34	3	19	42	1.68
36389014--36389044	11	2.8	11	90	0	53	32	0	0	67	0.91
36389160--36389228	30	2.3	30	92	2	102	55	17	5	21	1.63
36390827--36390950	66	1.9	62	87	6	176	36	4	11	47	1.61
36392492--36392525	13	2.4	14	90	9	52	38	2	2	55	1.30
36394501--36394531	6	5.2	6	100	0	62	51	0	48	0	1.00
36395579--36395658	30	2.6	31	86	9	112	25	13	26	35	1.93
36397604--36397713	56	2.0	56	96	0	202	41	11	18	28	1.85
36403478--36403511	2	17.5	2	93	6	61	52	0	0	47	1.00
36409826--36409855	3	10.0	3	100	0	60	33	0	0	66	0.92
36410435--36410484	26	2.0	24	84	7	64	40	2	6	52	1.38
36413958--36413994	14	2.6	14	86	4	56	48	24	0	27	1.51
36414913--36414970	24	2.4	23	81	13	64	17	6	3	72	1.21
36418844--36418907	23	2.6	24	78	9	67	18	21	20	39	1.93
36425995--36426056	30	2.1	30	90	0	97	59	12	3	24	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36427783--36427823	17	2.4	17	88	12	57	24	4	0	70	1.06
36428461--36428538	32	2.5	31	79	4	93	32	15	16	35	1.90
36431953--36432015	17	3.5	17	80	6	63	49	1	0	49	1.10
36432001--36432051	20	2.5	20	79	17	61	60	9	0	29	1.28
36432273--36432302	13	2.2	13	94	5	51	33	0	0	66	0.92
36432713--36432989	91	3.0	91	83	4	319	31	11	15	41	1.83
36439224--36439252	12	2.3	13	94	5	51	41	0	13	44	1.44
36440267--36440333	20	3.5	20	71	22	70	25	16	25	32	1.96
36442022--36442062	22	1.9	22	85	5	57	43	4	21	29	1.73
36443284--36443344	29	2.1	28	81	3	68	44	18	11	26	1.83
36450323--36450354	9	3.6	9	95	0	55	0	3	9	87	0.64
36459354--36459387	15	2.3	15	100	0	68	47	14	11	26	1.79
36466282--36466314	14	2.4	14	94	0	57	75	0	24	0	0.80
36466274--36466315	20	2.2	19	91	4	66	78	0	21	0	0.75
36470963--36470997	3	11.7	3	100	0	70	0	34	0	65	0.93
36471677--36471780	42	2.6	39	78	13	111	30	16	14	38	1.88
36471677--36471902	43	5.4	42	76	7	131	32	17	15	33	1.92
36474695--36474724	6	5.0	6	95	0	51	16	0	3	80	0.85
36474695--36474733	18	2.2	18	85	0	51	17	2	2	76	1.01
36491048--36491170	10	12.3	10	68	16	51	56	0	4	38	1.27
36492446--36492492	13	3.6	13	100	0	94	25	31	29	12	1.93
36493435--36493531	50	1.9	49	82	12	117	32	22	22	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36493435--36493531	25	3.9	25	78	14	85	32	22	22	21	1.98
36494699--36494734	15	2.5	14	91	8	63	44	11	0	44	1.39
36494948--36494980	11	3.1	11	86	4	50	60	12	0	27	1.32
36499114--36499202	42	2.1	42	87	2	126	19	8	42	29	1.81
36503361--36503387	14	1.9	14	100	0	54	37	0	11	51	1.37
36515742--36515786	19	2.3	20	85	7	58	51	11	8	28	1.68
36517425--36517454	14	2.1	14	93	0	51	43	6	20	30	1.77
36518917--36518945	12	2.4	12	100	0	58	20	37	34	6	1.80
36522846--36523288	50	8.8	50	89	0	670	20	31	22	25	1.98
36522853--36523288	151	2.9	150	94	0	737	20	31	22	25	1.98
36525096--36525134	15	2.5	16	87	4	53	7	15	0	76	0.99
36531684--36531712	13	2.1	14	93	6	51	20	24	20	34	1.97
36534498--36534525	7	4.0	7	100	0	56	14	0	14	71	1.15
36541777--36541812	17	2.1	17	89	5	54	19	2	11	66	1.35
36542377--36542435	27	2.2	27	100	0	118	35	10	15	38	1.81
36545936--36546074	58	2.4	58	78	2	154	41	2	3	53	1.30
36546169--36546256	45	2.0	46	82	14	114	37	20	5	36	1.76
36546238--36546291	16	3.4	16	85	10	74	29	24	5	40	1.77
36555027--36555056	12	2.5	12	100	0	60	66	0	10	23	1.21
36555234--36555306	10	7.4	10	78	3	85	68	2	1	27	1.11
36555224--36555306	20	4.3	19	80	6	78	68	2	2	26	1.14
36555255--36555317	29	2.2	29	85	5	83	63	3	3	30	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36556173--36556209	15	2.4	16	86	8	51	45	8	2	43	1.47
36558737--36558774	20	1.9	20	88	0	58	52	0	15	31	1.43
36559433--36559466	18	1.9	18	88	5	52	35	5	8	50	1.58
36563522--36563569	15	3.1	15	79	5	51	39	0	12	47	1.41
36565088--36565125	2	19.0	2	100	0	76	50	0	0	50	1.00
36565687--36565750	25	2.4	27	87	10	89	43	10	0	45	1.39
36565801--36565900	27	3.7	27	84	0	110	28	27	27	18	1.98
36565985--36566023	11	3.6	11	86	6	62	71	0	28	0	0.86
36565984--36566022	21	1.9	20	94	5	69	69	0	30	0	0.89
36566022--36566073	26	2.0	26	100	0	104	42	0	7	50	1.31
36567065--36567102	18	2.1	18	95	0	67	34	7	47	10	1.67
36571591--36572064	160	3.0	155	71	18	421	32	11	8	48	1.68
36572316--36572345	15	1.9	16	93	6	53	26	0	0	73	0.84
36572914--36573052	4	34.0	4	71	18	65	0	31	1	66	1.06
36572877--36573017	44	3.3	43	75	20	152	1	30	0	67	1.04
36572878--36573052	40	4.3	42	72	21	133	1	32	1	65	1.07
36572854--36573018	84	2.0	83	82	14	204	1	31	0	66	1.04
36573008--36573063	26	2.2	26	80	6	60	0	37	1	60	1.07
36573092--36573143	27	1.9	27	96	0	95	17	30	28	23	1.97
36573192--36573240	25	2.0	25	95	0	89	53	0	8	38	1.31
36583818--36583864	24	1.9	24	86	4	67	36	0	38	25	1.56
36584851--36585016	27	6.2	27	80	1	199	43	21	16	18	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36584864--36585050	27	7.0	26	77	11	83	42	20	16	20	1.89
36585250--36585304	26	2.1	26	89	0	83	21	20	21	36	1.95
36585415--36585516	28	3.6	28	81	2	125	27	21	21	29	1.99
36590930--36591087	78	2.0	78	92	2	264	40	12	17	29	1.86
36595115--36595176	3	20.7	3	100	0	124	32	0	0	67	0.91
36601275--36601310	3	12.0	3	93	0	63	30	0	36	33	1.58
36617577--36617635	31	1.9	31	82	6	75	45	11	3	38	1.58
36628895--36628968	37	2.0	37	89	0	112	45	18	6	28	1.75
36629278--36629308	16	1.9	16	93	0	53	25	0	3	70	1.02
36630523--36630559	18	2.1	18	100	0	74	35	21	5	37	1.77

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