genome.fa.s8.2.7.7.80.10.50.1000.56.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  56  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)
15886795--15886828	17	2.0	17	88	11	52	64	17	2	14	1.40
15893453--15893595	41	3.5	41	84	1	189	29	18	20	31	1.96
15893708--15893838	61	2.1	61	78	2	138	41	16	8	34	1.78
15903378--15903453	33	2.3	33	86	0	98	48	17	15	18	1.81
15906041--15906073	13	2.8	12	90	9	50	36	9	15	39	1.79
15910680--15910722	19	2.2	20	84	12	63	32	18	0	48	1.48
15910801--15910889	45	2.0	45	93	0	151	33	24	17	23	1.96
15910896--15911034	50	2.8	50	82	3	181	30	28	17	22	1.97
15914471--15914659	51	3.7	50	80	6	202	29	14	25	30	1.95
15914471--15914659	101	1.9	103	84	4	258	29	14	25	30	1.95
15916462--15916514	26	2.0	27	92	3	90	24	20	24	30	1.99
15919349--15919629	77	3.6	78	79	4	282	30	12	11	45	1.77
15927425--15927475	20	2.5	20	81	6	59	29	11	15	43	1.82
15929964--15930079	58	2.0	58	96	0	214	45	11	17	25	1.81
15931244--15931306	33	1.9	33	81	15	78	38	1	22	38	1.64
15931654--15931703	20	2.5	20	87	6	66	28	14	18	40	1.89
15931670--15931708	20	2.1	19	86	13	55	30	15	15	38	1.88
15934804--15934856	26	2.0	26	85	0	70	33	0	9	56	1.32
15944134--15944254	35	3.5	35	71	13	104	25	20	23	30	1.98
15953610--15953665	26	2.2	26	86	0	76	33	26	17	21	1.96
15953827--15954156	27	12.3	27	81	4	330	20	16	19	43	1.88
15953830--15954156	81	4.1	81	86	5	439	20	15	19	44	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15954935--15955037	51	2.0	51	94	0	179	25	22	15	36	1.93
15959661--15959723	6	10.2	6	81	8	65	82	0	17	0	0.67
15959655--15959723	12	5.5	12	78	10	75	82	1	15	0	0.74
15959664--15959723	19	3.2	18	80	15	77	83	0	16	0	0.65
15959656--15959724	25	2.8	25	87	12	90	81	1	17	0	0.77
15959655--15959728	39	1.9	38	88	2	112	79	1	18	0	0.80
15960598--15961109	143	3.6	143	86	2	636	30	19	23	26	1.98
15960906--15961117	44	4.6	45	70	13	142	30	17	24	26	1.97
15961041--15961141	44	2.3	44	81	10	109	29	22	21	25	1.99
15962457--15962488	12	2.8	12	95	4	57	31	6	0	62	1.20
15962440--15962500	27	2.3	27	80	5	70	29	6	1	62	1.30
15965646--15965899	44	5.5	45	70	9	152	27	20	25	26	1.99
15965483--15965992	143	3.6	143	89	1	745	29	20	22	27	1.99
15967220--15967251	12	2.8	12	95	4	57	31	6	0	62	1.20
15967203--15967263	27	2.3	27	80	5	70	29	6	1	62	1.30
15967368--15967406	18	2.2	18	85	0	51	30	10	2	56	1.46
15968401--15968444	17	2.5	18	82	14	56	45	2	0	52	1.13
15969257--15969298	2	21.0	2	95	0	75	50	0	2	47	1.14
15973393--15973431	12	3.2	12	85	0	51	20	23	5	51	1.67
15973680--15973872	50	3.7	50	77	12	185	23	27	21	26	1.99
15981246--15981436	50	3.7	50	78	6	168	24	27	20	27	1.99
15993736--15993760	13	1.9	13	100	0	50	32	0	20	48	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15997769--15997809	18	2.3	18	91	0	64	51	0	0	48	1.00
16007789--16007818	13	2.3	13	100	0	60	40	26	13	20	1.89
16009103--16009195	48	1.9	48	100	0	186	23	4	17	54	1.60
16009765--16009795	16	1.9	16	93	0	53	51	0	0	48	1.00
16009829--16009865	16	2.3	17	81	13	51	51	2	5	40	1.39
16012008--16012032	3	8.3	3	100	0	50	68	0	32	0	0.90
16013317--16013342	11	2.4	11	100	0	52	92	0	7	0	0.39
16013305--16013344	19	2.1	19	95	0	71	85	0	15	0	0.61
16013657--16013735	38	2.1	38	92	0	131	25	6	10	58	1.54
16017953--16017995	18	2.4	18	88	7	61	20	0	6	72	1.08
16030145--16030217	24	3.0	24	82	7	94	13	43	4	38	1.63
16031105--16031129	8	3.1	8	100	0	50	0	16	24	60	1.36
16031856--16032111	138	1.9	138	100	0	512	39	4	11	44	1.61
16034175--16034244	27	2.5	29	79	9	83	25	5	20	48	1.71
16054778--16054810	17	1.9	17	93	0	57	24	30	27	18	1.98
16058959--16059020	15	3.8	16	81	12	81	40	8	20	30	1.82
16060850--16060911	30	2.1	30	93	0	106	50	3	0	46	1.17
16061477--16061520	21	2.1	21	83	8	54	63	0	4	31	1.14
16066590--16066643	26	2.1	26	100	0	108	40	7	22	29	1.81
16066952--16067423	157	3.0	156	90	2	714	35	5	20	37	1.77
16067428--16067452	8	3.1	8	100	0	50	52	0	24	24	1.48
16071067--16071255	95	2.0	95	92	0	315	30	16	17	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16081455--16081486	16	2.0	16	93	0	55	25	15	0	59	1.36
16081704--16081904	51	4.0	51	78	5	228	30	27	16	24	1.97
16081712--16081896	101	1.8	102	88	3	284	31	26	17	24	1.97
16081707--16081930	101	2.2	102	80	4	256	30	27	16	25	1.96
16086357--16086392	18	2.0	18	89	10	56	27	25	2	44	1.68
16087715--16087751	15	2.5	15	95	0	65	24	0	0	75	0.80
16098210--16098253	23	1.9	23	90	0	70	27	20	25	27	1.99
16100523--16100579	24	2.4	24	93	0	96	70	3	17	8	1.28
16113307--16113363	27	2.1	27	83	6	71	21	3	15	59	1.51
16119567--16119634	30	2.3	30	82	10	77	41	8	4	45	1.55
16120462--16120492	14	2.1	15	94	5	55	48	0	0	51	1.00
16125853--16125949	42	2.3	42	81	0	113	29	22	22	24	1.99
16126266--16126318	2	26.5	2	96	0	97	49	1	0	49	1.12
16131896--16131933	16	2.4	16	95	4	69	31	5	0	63	1.17
16137836--16137867	16	2.0	16	93	0	55	46	0	6	46	1.27
16137852--16137970	51	2.4	49	83	7	132	50	1	6	41	1.39
16138008--16138052	21	2.1	21	84	8	56	53	0	6	40	1.27
16139180--16139225	18	2.5	19	76	20	53	36	6	13	43	1.69
16139300--16139336	17	2.2	17	100	0	74	18	10	16	54	1.71
16139935--16139960	6	4.3	6	100	0	52	46	0	0	53	1.00
16139925--16139967	18	2.2	20	80	19	56	44	0	2	53	1.13
16144683--16144793	49	2.2	53	80	6	131	16	16	36	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16148356--16148417	29	2.1	29	100	0	124	32	6	12	48	1.67
16158013--16158045	17	1.9	17	93	0	57	57	9	12	21	1.62
16171497--16171525	12	2.3	13	94	5	51	20	6	6	65	1.40
16174094--16174123	16	1.9	16	93	6	53	33	20	13	33	1.91
16174284--16174412	64	2.0	64	90	3	206	32	13	17	36	1.89
16182416--16182520	42	2.5	42	82	0	138	22	24	33	19	1.97
16189922--16190146	40	5.7	40	79	6	244	20	29	17	32	1.95
16189993--16190054	20	3.2	19	71	13	54	22	29	19	29	1.98
16189920--16190146	80	2.9	79	83	5	273	20	29	17	33	1.95
16191187--16191216	15	2.0	15	100	0	60	33	26	6	33	1.83
16194810--16194880	35	2.0	35	100	0	142	38	5	19	36	1.76
16198460--16198616	40	3.9	39	84	5	197	20	28	18	33	1.96
16200735--16200925	50	3.7	50	77	8	147	26	21	27	24	2.00
16201129--16201167	20	2.0	20	85	10	53	56	5	20	17	1.60
16209101--16209206	40	2.7	38	81	7	113	40	22	19	16	1.91
16209273--16209507	41	5.8	40	75	12	192	25	22	21	30	1.99
16209273--16209474	82	2.5	81	85	3	260	25	21	20	31	1.98
16209994--16210064	33	2.1	34	97	2	135	19	5	35	39	1.76
16213584--16214566	491	2.0	491	97	0	1849	32	14	18	34	1.91
16214957--16215239	43	6.6	43	80	2	232	24	15	27	32	1.95
16215285--16215327	22	2.0	22	90	0	68	44	27	18	9	1.80
16215529--16215710	43	4.3	43	76	7	158	29	23	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16215563--16215700	43	3.3	43	81	6	165	26	23	18	31	1.98
16223049--16223164	41	2.8	41	80	6	108	27	25	18	29	1.98
16227831--16227857	14	1.9	14	100	0	54	51	0	3	44	1.19
16227914--16227970	23	2.5	23	80	5	62	5	19	0	75	0.99
16228526--16228585	31	2.0	30	83	6	77	73	1	20	5	1.11
16228591--16228633	19	2.2	20	87	4	61	32	2	2	62	1.20
16228621--16228652	16	1.9	16	93	6	55	25	6	0	68	1.12
16231025--16231103	38	2.1	38	95	0	140	48	12	10	29	1.74
16232756--16232994	50	4.7	50	76	9	189	29	20	27	23	1.99
16239206--16239252	21	2.2	21	84	0	58	14	27	36	21	1.93

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