Locus 5001

Sequence ID	2R_DroMel_CAF1
Location	16,286,010 – 16,286,106
Length	96
Max. P	0.981033

overview

Window 6

Location	16,286,010 – 16,286,106
Length	96
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	93.65
Mean single sequence MFE	-21.76
Consensus MFE	-17.68
Energy contribution	-17.84
Covariance contribution	0.16
Combinations/Pair	1.05
Mean z-score	-1.41
Structure conservation index	0.81
SVM decision value	0.07
SVM RNA-class probability	0.570053
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16286010 96 + 20766785
UGACAAAGCAAAUUGUGUGCAUUUGCCGGCACAACAGCAAUGGCAACACUAAAAAGUGAAACCGAACACAAUGUCGCAACUUGAAUUCGA-ACUGGG---
.......((..(((((((.(..(((((.((......))...)))))((((....)))).....).)))))))...)).............-......--- ( -21.00)
>DroSec_CAF1 60822 99 + 1
UGACAAAGCAAAUUGUGUGCAUUUGCCGGCACAACAGCAAUGGCAACACUAAAAAGUGAAACCGAACACAAUGUCGCAACUUGAAUUCGA-ACUGGGAGG
...........(((((((.(..(((((.((......))...)))))((((....)))).....).))))))).((.((..(((....)))-..)).)).. ( -21.50)
>DroSim_CAF1 61675 96 + 1
UGACAAAGCAAAUUGUGUGCAUUUGCCGGCACAACAGCAAUGGCAACACUAAAAAGUGAAACCGAACACAAUGUCGCAACUUGAAUUCGA-ACUGGG---
.......((..(((((((.(..(((((.((......))...)))))((((....)))).....).)))))))...)).............-......--- ( -21.00)
>DroEre_CAF1 69817 96 + 1
UGACAAAGCAAAUUGUGUGCAUUUGCUGGCACAACAGCAGUGGCAACAGUAAAAAGUGCAACCGAACACAAUGUAGCAACUUGAAUUCGA-AUUGGG---
...(((.((..(((((((((((((((((......))))(.((....)).)...))))))......)))))))...))...(((....)))-.)))..--- ( -22.40)
>DroYak_CAF1 75011 97 + 1
UGACAAAGCAAAUUGUGUGCAUUUGCUGGCACAACAGCAAUGGCAACAGUAAAAAGUGCAACCAAACACAAUGUAGCAACUUCAAUUCGAAAUUGGA---
.......((..(((((((((((((((((......))))..((....)).....))))))......)))))))...))...((((((.....))))))--- ( -22.90)
>consensus
UGACAAAGCAAAUUGUGUGCAUUUGCCGGCACAACAGCAAUGGCAACACUAAAAAGUGAAACCGAACACAAUGUCGCAACUUGAAUUCGA_ACUGGG___
.......((..(((((((....(((((.((......))...)))))((((....)))).......)))))))...))....................... (-17.68 = -17.84 +   0.16)

alignment

secondary structure

dotplot

Window 7

Location	16,286,010 – 16,286,106
Length	96
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	93.65
Mean single sequence MFE	-24.28
Consensus MFE	-22.40
Energy contribution	-23.00
Covariance contribution	0.60
Combinations/Pair	1.08
Mean z-score	-1.61
Structure conservation index	0.92
SVM decision value	1.88
SVM RNA-class probability	0.981033
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16286010 96 - 20766785
---CCCAGU-UCGAAUUCAAGUUGCGACAUUGUGUUCGGUUUCACUUUUUAGUGUUGCCAUUGCUGUUGUGCCGGCAAAUGCACACAAUUUGCUUUGUCA
---......-.............((((.(((((((.((((..((((....))))..))).((((((......))))))..).)))))))))))....... ( -26.20)
>DroSec_CAF1 60822 99 - 1
CCUCCCAGU-UCGAAUUCAAGUUGCGACAUUGUGUUCGGUUUCACUUUUUAGUGUUGCCAUUGCUGUUGUGCCGGCAAAUGCACACAAUUUGCUUUGUCA
.........-.............((((.(((((((.((((..((((....))))..))).((((((......))))))..).)))))))))))....... ( -26.20)
>DroSim_CAF1 61675 96 - 1
---CCCAGU-UCGAAUUCAAGUUGCGACAUUGUGUUCGGUUUCACUUUUUAGUGUUGCCAUUGCUGUUGUGCCGGCAAAUGCACACAAUUUGCUUUGUCA
---......-.............((((.(((((((.((((..((((....))))..))).((((((......))))))..).)))))))))))....... ( -26.20)
>DroEre_CAF1 69817 96 - 1
---CCCAAU-UCGAAUUCAAGUUGCUACAUUGUGUUCGGUUGCACUUUUUACUGUUGCCACUGCUGUUGUGCCAGCAAAUGCACACAAUUUGCUUUGUCA
---......-.............((...(((((((.((((.(((........))).)))..(((((......)))))...).)))))))..))....... ( -19.90)
>DroYak_CAF1 75011 97 - 1
---UCCAAUUUCGAAUUGAAGUUGCUACAUUGUGUUUGGUUGCACUUUUUACUGUUGCCAUUGCUGUUGUGCCAGCAAAUGCACACAAUUUGCUUUGUCA
---...((((((.....))))))((...(((((((.((((.(((........))).))))((((((......))))))....)))))))..))....... ( -22.90)
>consensus
___CCCAGU_UCGAAUUCAAGUUGCGACAUUGUGUUCGGUUUCACUUUUUAGUGUUGCCAUUGCUGUUGUGCCGGCAAAUGCACACAAUUUGCUUUGUCA
.......................((((.(((((((.((((..((((....))))..))).((((((......))))))..).)))))))))))....... (-22.40 = -23.00 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:11 2006