genome.fa.s6.2.7.7.80.10.50.1000.150.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  150  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)
44238790--44238868	20	3.9	20	78	15	90	35	15	3	45	1.64
44238761--44238877	41	2.9	40	81	7	128	37	15	3	43	1.63
44238955--44239008	20	2.7	20	77	5	65	48	12	1	37	1.53
44239173--44239219	24	2.0	24	95	0	85	36	17	10	36	1.84
44244339--44244381	20	2.0	22	86	8	63	67	4	0	27	1.10
44244840--44244901	18	3.3	18	70	16	54	30	0	0	69	0.89
44244839--44244925	28	3.1	27	79	8	77	32	0	1	66	0.99
44249341--44249431	27	3.4	27	89	3	139	19	24	34	21	1.97
44252508--44252640	45	3.0	43	80	11	139	24	18	27	30	1.97
44256307--44256331	11	2.3	11	100	0	50	44	16	8	32	1.76
44258543--44259319	319	2.4	319	92	1	1281	29	10	9	51	1.67
44259681--44259899	5	44.2	5	71	17	86	0	28	0	69	0.98
44259681--44259901	14	13.9	16	67	20	83	0	29	0	69	0.98
44259647--44259745	36	2.8	35	79	10	103	1	26	0	72	0.91
44259683--44259881	44	4.6	43	78	9	199	1	29	0	69	0.99
44259680--44259833	47	3.4	46	87	7	224	1	25	0	72	0.97
44259680--44259860	87	2.0	89	84	9	235	1	28	0	69	0.99
44259680--44259900	24	9.6	23	73	18	140	0	29	0	69	0.98
44259949--44260016	27	2.5	26	86	9	84	19	35	25	20	1.96
44285485--44285532	24	2.0	25	83	4	62	68	6	6	18	1.32
44285923--44285967	19	2.4	19	92	0	72	31	0	4	64	1.13
44286609--44286658	26	1.9	26	95	0	91	42	14	2	42	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44289215--44289265	21	2.4	21	90	0	75	15	25	29	29	1.96
44289665--44289711	8	5.8	8	85	5	58	27	0	0	72	0.85
44289665--44289713	17	2.9	17	87	3	64	28	0	0	71	0.86
44296830--44296860	2	15.5	2	100	0	62	51	0	0	48	1.00
44297154--44297192	6	6.7	6	88	2	53	17	17	25	38	1.92
44299211--44299259	2	24.0	2	95	4	89	48	2	0	48	1.12
44301626--44301706	24	3.4	24	73	13	85	16	28	20	34	1.94
44312032--44312077	17	2.6	18	75	24	53	32	2	0	65	1.05
44316778--44316813	16	2.2	17	90	5	56	38	0	0	61	0.96
44317752--44317778	6	4.5	6	100	0	54	70	0	29	0	0.88
44321129--44321247	46	2.6	46	78	7	118	37	14	12	35	1.84
44322592--44322636	23	2.1	21	88	12	65	44	2	6	46	1.42
44322627--44322695	26	2.7	25	78	8	77	33	4	13	49	1.61
44323215--44323268	25	2.2	25	93	0	90	38	5	5	50	1.49
44325912--44325948	3	12.3	3	100	0	74	67	0	32	0	0.91
44339997--44340204	104	2.0	104	100	0	416	25	17	19	38	1.93
44343148--44343271	58	2.1	58	95	1	221	36	10	34	18	1.85
44347703--44347771	30	2.3	29	85	7	84	46	7	17	28	1.75
44349841--44350056	90	2.4	90	83	3	256	30	15	21	32	1.94
44349841--44350087	90	2.7	89	78	9	250	29	14	22	33	1.94
44350707--44350735	14	2.1	14	100	0	58	48	6	13	31	1.69
44351929--44351988	27	2.2	28	82	8	70	63	1	3	31	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44351977--44352031	29	1.9	29	85	10	78	54	1	7	36	1.39
44352194--44352234	21	2.0	21	85	9	57	46	0	4	48	1.23
44367783--44367811	15	1.9	15	100	0	58	37	0	0	62	0.96
44368511--44368545	12	2.7	13	86	13	54	34	0	0	65	0.93
44377424--44377461	4	9.5	4	100	0	76	50	0	23	26	1.50
44385256--44385313	29	2.0	29	100	0	116	27	31	10	31	1.90
44385257--44385321	29	2.2	29	94	0	112	30	27	9	32	1.88
44402600--44402643	24	1.9	24	90	9	74	36	0	2	61	1.09
44402740--44402767	9	3.1	9	100	0	56	57	10	0	32	1.33
44402710--44402919	68	3.1	68	96	1	379	45	9	5	40	1.58
44402808--44402835	9	3.1	9	100	0	56	57	10	0	32	1.33
44402908--44402949	16	2.6	16	92	0	66	42	7	2	47	1.43
44402923--44402978	23	2.5	23	82	2	69	44	1	1	51	1.22
44412644--44412713	28	2.5	28	82	11	74	30	2	8	58	1.42
44413224--44413260	3	12.3	3	100	0	74	32	0	0	67	0.91
44424968--44425028	24	2.5	24	81	0	68	26	3	40	29	1.72
44437707--44437738	17	1.9	17	93	6	57	15	12	0	71	1.14
44439293--44439357	27	2.4	27	97	0	121	29	20	35	15	1.93
44439497--44439549	3	18.3	3	88	7	83	64	0	35	0	0.94
44439497--44439549	23	2.3	23	96	0	97	64	0	35	0	0.94
44439617--44439642	12	2.2	12	100	0	52	38	0	15	46	1.46
44439711--44439896	22	9.0	21	71	15	100	29	1	13	55	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44439855--44440026	27	6.8	26	85	9	216	30	0	13	54	1.44
44439923--44440005	22	3.8	19	68	29	58	31	1	13	54	1.47
44439845--44440026	76	2.4	78	86	12	245	30	0	13	54	1.43
44439845--44440077	76	3.1	76	83	13	236	30	0	14	54	1.47
44439704--44440073	123	3.0	117	76	17	331	30	1	14	53	1.49
44440067--44440188	60	2.0	60	84	3	156	31	1	13	53	1.50
44440228--44440305	38	2.1	38	87	0	111	55	6	2	35	1.39
44440430--44440466	16	2.4	16	90	4	58	37	2	2	56	1.28
44442078--44442118	6	6.8	6	85	0	55	34	29	31	4	1.79
44445556--44445607	21	2.5	21	84	9	70	1	30	1	65	1.14
44447676--44447715	11	3.6	11	79	0	53	20	15	7	57	1.61
44447757--44447816	30	2.0	30	90	6	95	28	1	13	56	1.47
44451166--44451198	7	4.7	7	96	0	57	54	0	18	27	1.44
44465637--44465676	11	3.6	12	80	16	50	37	5	0	57	1.21
44465712--44465748	18	2.1	18	100	0	74	35	16	10	37	1.83
44473677--44473704	14	2.0	14	100	0	56	42	14	21	21	1.88
44474964--44475016	22	2.5	22	81	3	63	54	1	5	37	1.35
44483603--44483752	71	2.1	73	83	2	187	33	14	16	36	1.89
44489249--44489292	22	2.0	21	82	4	52	29	4	2	63	1.26
44500876--44500931	27	2.1	27	90	6	87	66	3	14	16	1.39
44502093--44502117	12	2.1	12	100	0	50	8	32	8	52	1.60
44509870--44509914	22	2.0	22	82	0	54	33	11	4	51	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44514461--44514500	16	2.5	16	91	0	62	47	2	7	42	1.45
44514489--44514634	75	2.1	68	87	11	206	40	4	8	45	1.56
44514570--44514608	16	2.4	16	91	0	60	35	0	7	56	1.28
44514900--44514950	20	2.5	20	93	0	84	68	5	3	21	1.27
44514993--44515033	20	2.0	20	90	0	64	65	4	7	21	1.37
44515109--44515141	16	2.1	16	100	0	66	69	12	0	18	1.18
44523407--44523442	2	17.5	2	88	5	54	47	5	0	47	1.25
44523821--44523846	5	5.2	5	100	0	52	42	19	19	19	1.90
44524882--44524918	9	4.1	9	92	0	65	29	10	13	45	1.77
44525155--44525252	41	2.4	41	96	0	178	26	20	22	30	1.98
44530698--44530726	14	2.1	14	100	0	58	13	20	27	37	1.91
44532214--44532260	19	2.5	20	79	10	53	36	25	8	29	1.86
44534121--44534147	14	1.9	14	100	0	54	62	0	7	29	1.22
44534139--44534181	13	3.6	13	76	23	58	44	0	4	51	1.22
44534138--44534181	22	2.0	22	100	0	88	45	0	4	50	1.22
44538647--44538700	28	1.9	28	84	0	72	42	7	7	42	1.61
44549433--44549457	13	1.9	13	100	0	50	24	8	28	40	1.83
44550693--44550718	11	2.4	11	100	0	52	50	30	11	7	1.67
44550723--44550771	20	2.5	19	80	6	62	65	6	14	14	1.45
44559179--44559206	13	2.2	13	100	0	56	39	7	21	32	1.80
44562116--44562141	3	8.7	3	100	0	52	30	0	0	69	0.89
44577278--44577314	18	2.1	18	100	0	74	21	24	16	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44581760--44581794	17	2.0	18	88	5	54	17	11	5	65	1.43
44594148--44594183	12	2.8	13	87	8	56	66	0	5	27	1.13
44594280--44594328	3	16.3	3	95	0	89	32	0	2	65	1.04
44602798--44602861	3	21.7	3	90	3	85	60	0	6	32	1.21
44603839--44603893	28	2.0	28	86	10	78	61	3	1	32	1.24
44620097--44620132	18	2.1	17	90	10	56	58	16	0	25	1.38
44620365--44620408	22	2.0	21	86	4	61	47	0	0	52	1.00
44626623--44626673	2	25.0	2	96	4	93	49	0	1	49	1.12
44628611--44628654	6	7.2	6	82	14	54	81	0	13	4	0.83
44633059--44633115	20	2.9	20	81	2	62	47	14	1	36	1.54

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