genome.fa.s6.2.7.7.80.10.50.1000.166.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  166  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)
50065569--50065705	51	2.7	49	82	8	168	27	14	25	32	1.95
50080017--50080094	36	2.2	36	90	0	120	10	17	38	33	1.84
50092628--50093015	125	3.0	127	79	5	363	27	10	12	49	1.73
50092774--50093038	131	2.0	130	83	2	325	27	11	11	49	1.74
50092821--50093235	215	1.9	219	82	5	531	24	11	13	50	1.75
50092696--50093359	344	1.9	344	84	3	899	26	10	12	49	1.74
50093040--50094046	257	3.9	254	82	5	1143	26	11	15	46	1.80
50093040--50094046	127	7.9	126	81	6	1059	26	11	15	46	1.80
50093040--50094046	384	2.6	381	84	4	1260	26	11	15	46	1.80
50094080--50094400	109	3.0	106	79	9	321	30	10	11	47	1.73
50096089--50097274	199	5.9	199	81	5	1295	28	19	20	30	1.97
50096259--50097270	399	2.5	393	84	6	1311	29	19	20	30	1.97
50102920--50102964	22	2.0	22	86	0	63	42	6	4	46	1.50
50104656--50104743	40	2.1	41	85	10	126	39	4	30	25	1.75
50115476--50115502	3	9.0	3	100	0	54	33	0	0	66	0.92
50115900--50115928	6	4.8	6	100	0	58	65	0	0	34	0.93
50115943--50115982	16	2.5	16	91	0	62	47	2	7	42	1.45
50115915--50115967	22	2.4	22	87	0	70	52	1	1	43	1.23
50115971--50116097	59	2.2	59	95	0	236	42	5	8	43	1.58
50116506--50116547	13	3.2	13	80	13	50	71	0	9	19	1.13
50126339--50126402	3	21.3	3	100	0	128	32	0	0	67	0.91
50127006--50127070	31	2.1	31	81	16	73	43	3	3	50	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50127063--50127138	37	2.1	37	82	4	93	40	5	2	51	1.38
50131831--50131912	39	2.1	39	97	2	157	40	7	4	47	1.53
50133621--50133669	23	2.1	23	84	0	62	71	0	6	22	1.08
50135717--50135746	12	2.5	12	100	0	60	13	13	53	20	1.72
50142265--50142456	50	3.8	50	88	2	278	20	30	22	25	1.98
50142551--50142580	13	2.3	13	94	0	51	50	13	3	33	1.58
50142794--50142850	30	1.9	30	85	3	80	31	24	1	42	1.65
50144958--50144992	15	2.4	15	90	4	54	42	0	2	54	1.15
50152971--50153002	13	2.5	13	94	0	55	31	0	0	68	0.90
50155839--50155916	7	11.1	7	95	0	138	26	0	0	73	0.84
50159087--50159195	23	5.0	23	81	11	131	35	23	22	17	1.95
50160886--50160980	40	2.4	40	87	0	136	11	14	29	44	1.81
50161674--50161702	12	2.3	13	94	5	51	17	0	20	62	1.33
50161938--50161962	12	2.1	12	100	0	50	24	0	0	76	0.80
50162103--50162139	18	2.1	18	100	0	74	40	10	27	21	1.86
50164608--50164641	15	2.3	15	90	10	52	23	0	0	76	0.79
50167778--50167810	13	2.4	14	90	10	50	3	0	12	84	0.72
50168350--50168426	38	2.0	39	94	2	138	50	27	3	18	1.64
50169422--50169469	13	3.9	13	81	13	57	43	2	0	54	1.12
50169422--50169479	13	4.7	12	79	12	55	44	1	0	53	1.10
50175057--50175090	3	11.3	3	100	0	68	67	0	0	32	0.91
50175927--50175966	18	2.2	19	86	4	55	35	22	5	37	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50187311--50187337	13	2.1	13	100	0	54	14	0	0	85	0.61
50187984--50188023	13	3.0	13	89	10	55	25	0	27	47	1.52
50187993--50188029	14	2.7	14	91	4	58	27	0	27	45	1.54
50195247--50195398	80	1.9	80	94	2	270	33	13	9	42	1.78
50206363--50206401	3	13.0	3	88	0	51	25	33	0	41	1.56
50206363--50206401	15	2.6	15	87	0	60	25	33	0	41	1.56
50206365--50206399	18	1.9	18	100	0	70	22	34	0	42	1.54
50207830--50207879	25	2.0	25	84	3	66	48	0	2	50	1.12
50250308--50250350	22	2.0	22	82	8	54	55	23	2	18	1.54
50257446--50257486	20	2.1	20	86	4	57	31	4	12	51	1.60
50262473--50262509	18	2.2	17	90	9	58	43	2	10	43	1.53
50263871--50264097	73	3.2	70	78	10	216	60	4	8	26	1.45
50277892--50277929	16	2.3	17	90	4	60	44	0	2	52	1.14
50278731--50278778	23	2.0	24	84	8	62	58	0	10	31	1.32
50296813--50296846	2	17.0	2	100	0	68	50	0	0	50	1.00
50300658--50300695	2	19.0	2	100	0	76	50	0	0	50	1.00
50301311--50301379	35	2.0	35	85	5	95	39	2	1	56	1.23
50309853--50309893	18	2.3	18	86	0	55	17	7	2	73	1.17
50322950--50323014	29	2.2	29	77	2	67	38	9	9	43	1.69
50327981--50328006	5	5.2	5	100	0	52	38	19	19	23	1.93
50332861--50332921	29	2.1	29	82	8	72	22	14	16	45	1.84
50345527--50345592	31	2.1	31	88	0	96	21	10	24	43	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50346198--50346228	6	5.2	6	100	0	62	48	0	0	51	1.00
50362030--50362064	3	11.7	3	100	0	70	68	0	31	0	0.90
50362260--50362302	21	2.0	22	90	4	70	46	18	18	16	1.84
50367452--50367479	7	4.0	7	100	0	56	57	0	0	42	0.99
50374573--50374609	19	1.9	19	88	0	56	43	0	0	56	0.99
50386938--50387085	79	1.9	80	89	1	235	35	8	8	47	1.66
50388468--50388503	18	1.9	19	88	5	56	38	2	0	58	1.13
50394582--50394623	22	2.0	21	86	13	59	35	2	0	61	1.09
50395564--50395702	19	7.0	20	68	15	76	59	2	5	32	1.33
50397603--50397638	2	18.0	2	100	0	72	50	0	0	50	1.00
50405077--50405130	26	2.0	27	82	10	67	53	3	7	35	1.47
50412762--50412828	31	2.2	31	83	5	82	31	19	23	25	1.98
50420748--50420801	28	1.9	28	85	7	74	53	18	3	24	1.60
50420763--50420807	21	2.1	21	87	0	63	55	15	4	24	1.59
50424641--50424925	130	2.2	130	90	1	448	36	9	16	37	1.81
50424928--50425229	130	2.3	129	81	5	369	36	7	16	39	1.78
50425498--50425569	35	2.1	35	100	0	144	15	13	23	47	1.81
50437259--50437304	4	11.5	4	100	0	92	50	26	0	23	1.50
50450123--50450451	163	2.0	163	99	0	649	34	17	17	30	1.93
50460069--50460099	16	2.0	15	93	6	53	32	9	6	51	1.60
50462441--50462471	16	1.9	16	93	0	53	51	6	3	38	1.44
50467462--50467529	31	2.2	31	89	0	100	30	17	17	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50470469--50470501	14	2.4	14	90	5	50	69	0	0	30	0.88
50470658--50470988	188	1.8	178	84	9	450	34	17	17	30	1.93
50471978--50472025	15	3.1	15	77	11	53	72	12	0	14	1.11
50472201--50472226	3	8.7	3	100	0	52	34	30	0	34	1.58
50499600--50499639	18	2.3	18	87	8	57	57	5	0	37	1.21
50504278--50504303	2	13.0	2	100	0	52	50	0	0	50	1.00
50508696--50508822	6	19.0	6	71	23	69	33	2	51	12	1.52
50508696--50508822	13	9.5	13	72	16	91	33	2	51	12	1.52
50508725--50508797	21	3.4	21	70	17	69	30	4	56	9	1.50
50508910--50509274	30	12.1	30	85	7	465	51	0	9	38	1.40
50509645--50509697	21	2.5	22	84	6	74	33	35	5	24	1.79
50512985--50513024	20	2.0	20	90	0	62	50	12	10	27	1.72
50512973--50513039	34	1.9	35	90	3	109	46	13	8	31	1.74
50513861--50513891	2	15.5	2	93	0	53	48	0	3	48	1.17
50518138--50518163	9	2.9	9	100	0	52	23	7	34	34	1.83
50521568--50521727	79	2.0	79	96	0	293	30	23	11	33	1.91
50523703--50523754	26	2.0	26	100	0	104	30	19	26	23	1.98
50527089--50527243	77	2.0	77	100	0	310	26	10	11	51	1.70
50527234--50527297	31	2.1	31	91	5	103	23	18	4	53	1.64
50530039--50530113	32	2.5	28	75	22	73	52	4	1	42	1.28
50544320--50544354	2	17.5	2	100	0	70	51	0	0	48	1.00
50545448--50545483	4	9.0	4	100	0	72	50	25	0	25	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50559387--50559455	27	2.4	28	81	11	70	69	2	4	23	1.20
50565569--50565604	12	3.0	12	91	0	54	41	25	8	25	1.83
50569109--50569147	20	2.0	20	85	10	53	51	0	2	46	1.14
50569588--50569616	12	2.3	13	94	5	51	0	10	0	89	0.48
50571096--50571167	22	3.1	22	74	18	67	54	1	4	40	1.28
50573657--50573693	2	18.5	2	100	0	74	48	0	0	51	1.00
50580901--50581198	150	2.0	150	100	0	596	31	9	35	23	1.87
50597505--50597545	11	3.7	11	80	0	55	19	14	9	56	1.66
50597582--50597644	30	2.1	30	93	0	108	25	3	14	57	1.52
50597767--50597800	12	3.1	11	91	8	52	61	0	0	38	0.96

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