genome.fa.s8.2.7.7.80.10.50.1000.159.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  159  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)
46340513--46340550	20	1.9	20	88	0	58	36	10	0	52	1.36
46347529--46347557	8	3.6	8	100	0	58	24	13	27	34	1.93
46347644--46347718	23	3.3	23	94	3	134	20	22	26	30	1.98
46350397--46350662	107	2.5	108	88	0	399	21	16	19	42	1.89
46350394--46350662	27	10.0	27	83	5	330	21	16	19	41	1.90
46353722--46353780	23	2.6	23	84	12	77	33	5	16	44	1.70
46364669--46364767	43	2.3	43	87	1	144	25	17	27	30	1.97
46372275--46372376	25	3.8	25	66	20	64	17	25	20	36	1.94
46376941--46377006	26	2.6	26	85	2	80	18	25	19	36	1.94
46378059--46378303	117	2.1	115	89	1	364	21	24	25	28	1.99
46380260--46380325	24	2.8	25	88	4	84	36	18	27	18	1.94
46380269--46380327	24	2.5	24	94	0	100	33	18	28	18	1.95
46380400--46380459	26	2.4	25	81	13	70	35	18	25	21	1.96
46400425--46400456	7	4.6	7	100	0	64	25	0	12	62	1.30
46400728--46400785	20	3.1	19	78	14	66	53	5	1	39	1.33
46402626--46402677	18	2.8	19	79	5	61	69	0	0	30	0.89
46402633--46402683	18	2.7	19	81	6	59	64	0	1	33	1.05
46403941--46403974	2	17.0	2	100	0	68	50	0	0	50	1.00
46405523--46405602	6	14.6	5	96	3	97	25	0	1	73	0.90
46405524--46405594	9	8.6	9	83	16	100	26	0	0	73	0.84
46405524--46405594	15	5.1	15	83	16	100	26	0	0	73	0.84
46413638--46413766	21	6.1	21	74	5	91	44	17	20	17	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46413636--46413758	42	2.9	42	84	4	151	44	18	20	16	1.86
46416372--46416584	106	2.0	106	93	0	363	30	17	13	38	1.89
46424167--46424218	27	1.9	27	92	0	86	48	7	3	40	1.50
46426951--46427022	26	2.8	26	82	0	81	23	19	20	36	1.95
46427142--46427203	28	2.2	28	83	8	74	24	20	22	32	1.98
46431522--46431556	2	17.5	2	100	0	70	51	0	0	48	1.00
46437377--46437457	26	3.1	26	87	0	117	18	20	25	34	1.96
46437394--46437433	13	3.0	14	76	23	50	15	22	27	35	1.94
46439629--46439684	24	2.3	23	80	19	62	53	3	3	39	1.36
46441504--46441551	19	2.3	21	86	10	64	39	4	4	52	1.40
46443402--46443468	34	1.9	35	87	3	100	32	8	13	44	1.75
46444038--46444096	17	3.4	17	73	17	66	33	3	5	57	1.37
46444227--46444264	18	2.1	18	85	9	51	36	5	0	57	1.21
46444369--46444406	19	2.0	19	94	0	67	34	10	21	34	1.87
46452108--46452163	20	2.7	21	81	10	62	39	12	12	35	1.81
46452143--46452179	17	2.3	17	86	9	51	43	10	5	40	1.63
46452104--46452188	37	2.2	39	87	6	120	38	10	9	41	1.72
46452229--46452466	17	13.3	17	69	12	129	42	10	14	31	1.80
46452229--46452476	18	13.8	18	68	14	129	43	10	14	31	1.80
46452227--46452359	36	3.6	37	82	4	171	41	8	15	35	1.77
46452227--46452365	73	1.9	72	89	2	215	41	8	15	34	1.77
46452302--46452466	54	3.1	53	77	8	158	44	11	13	30	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46452551--46452704	20	8.3	19	70	16	99	40	9	14	34	1.79
46452569--46452708	36	3.9	36	83	2	174	42	9	15	32	1.79
46452553--46452795	17	13.5	17	71	12	139	41	9	16	32	1.80
46452572--46452798	36	6.4	35	75	10	160	41	9	16	32	1.81
46452574--46452733	72	2.2	71	84	5	189	43	9	17	30	1.80
46453380--46453416	14	2.6	14	86	0	56	10	24	43	21	1.84
46453465--46453507	12	3.6	12	75	12	52	2	34	39	23	1.67
46453603--46453652	19	2.5	20	80	9	66	4	26	0	70	1.05
46454212--46454296	30	2.9	28	82	8	91	42	2	23	31	1.67
46454243--46454381	29	4.7	29	80	11	147	38	2	25	33	1.71
46455172--46455396	84	2.8	82	77	9	232	32	20	18	28	1.96
46456254--46456337	21	4.0	20	80	13	80	2	7	5	84	0.85
46456254--46456323	1	70.0	1	73	0	59	1	5	5	87	0.73
46467492--46467547	20	2.7	21	81	10	62	39	12	12	35	1.81
46467488--46467570	40	2.2	37	85	10	107	38	10	9	40	1.73
46467610--46467857	17	13.8	17	69	16	135	43	11	14	31	1.81
46467608--46467740	36	3.6	36	83	8	171	42	9	13	34	1.77
46467608--46467796	73	2.6	73	83	9	224	42	10	13	33	1.79
46467648--46467830	54	3.4	54	75	11	144	43	10	14	31	1.80
46467931--46467972	20	2.1	20	95	0	75	38	7	9	45	1.64
46467937--46468019	36	2.3	37	81	8	98	44	8	14	32	1.75
46467932--46468124	17	10.8	17	68	16	90	40	8	14	35	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46468050--46468125	36	2.1	35	83	7	91	39	11	17	31	1.85
46468547--46468578	14	2.3	14	94	0	55	9	21	46	21	1.79
46468627--46468669	12	3.6	12	75	12	52	2	34	39	23	1.67
46468750--46468827	28	2.6	30	82	12	88	6	21	0	71	1.08
46468760--46468811	18	2.7	20	82	14	72	3	25	0	71	1.03
46468930--46469000	20	3.4	21	77	12	67	0	18	8	73	1.08
46469354--46469424	30	2.4	30	78	4	72	43	5	22	28	1.76
46469401--46469492	29	3.1	28	78	9	94	36	2	31	29	1.69
46469412--46469492	30	2.8	29	84	3	108	37	0	30	32	1.58
46470032--46470083	18	2.8	18	94	5	86	48	0	1	50	1.12
46472982--46473049	29	2.2	32	82	7	79	39	4	0	55	1.20
46475835--46475909	24	3.1	24	78	3	71	33	21	25	20	1.97
46475976--46476035	26	2.3	26	82	5	68	35	25	23	16	1.95
46477537--46477563	2	13.5	2	100	0	54	48	0	0	51	1.00
46479023--46479053	7	4.3	7	92	8	53	16	0	0	83	0.64
46479025--46479053	15	1.9	15	100	0	58	13	0	0	86	0.58
46484330--46484354	3	8.3	3	100	0	50	64	0	0	36	0.94
46511924--46511950	6	4.5	6	100	0	54	0	14	70	14	1.17
46520311--46520454	42	3.4	43	75	10	120	20	20	15	42	1.89
46520380--46520432	21	2.5	21	71	0	52	22	26	9	41	1.84
46522417--46522584	24	6.9	24	68	11	101	13	25	23	37	1.92
46525095--46525126	16	2.0	16	100	0	64	43	18	6	31	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46529707--46529945	45	5.3	45	91	2	374	40	21	19	18	1.92
46529707--46529945	88	2.7	89	90	1	372	40	21	19	18	1.92
46529709--46529972	45	6.2	39	75	18	181	39	21	19	18	1.92
46536345--46536419	23	3.3	23	80	14	93	53	21	8	17	1.69
46539070--46539108	14	2.7	15	84	11	55	48	7	10	33	1.66
46540963--46541005	18	2.3	19	88	4	61	53	4	0	41	1.21
46540975--46541031	27	2.2	26	83	3	69	45	3	0	50	1.18
46553884--46553910	2	13.5	2	100	0	54	51	0	0	48	1.00
46559735--46559767	2	17.0	2	93	6	59	48	0	0	51	1.00
46560054--46560086	12	3.0	11	87	12	50	81	0	9	9	0.87
46560055--46560082	12	2.3	12	100	0	56	85	0	7	7	0.73
46565355--46565419	25	2.6	24	81	13	69	38	0	1	60	1.07
46566676--46566719	22	2.0	23	90	4	72	50	2	2	45	1.27
46568868--46568992	64	2.0	63	79	9	137	48	1	11	39	1.49
46571500--46571533	17	2.0	17	94	0	59	11	8	41	38	1.73
46575167--46575322	25	6.2	25	67	16	67	17	25	22	34	1.96
46576085--46576126	2	21.0	2	100	0	84	50	0	0	50	1.00
46577778--46577824	24	1.9	24	82	4	58	36	21	25	17	1.94
46577791--46577843	24	2.2	24	86	6	72	30	20	33	15	1.93
46577859--46577907	26	1.9	25	83	4	62	36	20	24	18	1.94
46578335--46578380	21	2.2	21	84	7	58	43	17	0	39	1.49
46586395--46586436	15	2.6	16	81	14	50	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46586402--46586436	15	2.2	17	90	10	56	48	0	0	51	1.00
46592351--46592388	13	3.0	13	80	3	51	71	2	26	0	1.00
46598229--46598364	50	2.7	50	86	3	184	21	17	29	31	1.96
46599139--46599232	33	2.8	33	77	12	84	34	12	24	28	1.92
46599279--46599355	33	2.3	32	80	6	82	33	15	22	28	1.94
46613329--46613408	42	1.9	42	92	0	133	40	12	13	33	1.83
46613900--46613966	34	1.9	35	84	3	91	32	10	11	44	1.75
46613915--46613954	20	2.0	20	85	0	53	30	12	10	47	1.74
46618863--46618921	23	2.6	23	83	0	73	32	20	27	20	1.97
46618863--46618931	23	3.0	23	78	4	59	33	20	26	20	1.97

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