Locus 2760

Sequence ID	2R_DroMel_CAF1
Location	9,676,230 – 9,676,334
Length	104
Max. P	0.763413

overview

Window 1

Location	9,676,230 – 9,676,334
Length	104
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	80.04
Mean single sequence MFE	-36.18
Consensus MFE	-22.73
Energy contribution	-22.73
Covariance contribution	0.00
Combinations/Pair	1.26
Mean z-score	-1.83
Structure conservation index	0.63
SVM decision value	0.51
SVM RNA-class probability	0.763413
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9676230 104 + 20766785
AAGAAUAAACCUGCAAUGGCGCUGCAUUCAAUGUGCCAACCGGGGCGUCCCUCGCCACCCCAGGGUGCAGCCCACGUGGGCUCACU-GCCACUUUUACGCGCCUU
.................(((((.((((.....)))).....((((((.....)))).......((((.(((((....)))))))))-.))........))))).. ( -36.30)
>DroPse_CAF1 2484 104 + 1
AAAAAGAAUCCGGCAAUGGCACUGCAUUCAAUGUGCCAGCCGGGGCGACCCUCUCCACCCCAAGGAGCCGCCCAACUGGGCUCAUCAGCCUCCUUCU-UGGCCUU
...(((((.(((((..((((((..........)))))))))))(((......((((.......))))..((((....))))......)))...))))-)...... ( -38.30)
>DroEre_CAF1 2451 104 + 1
AAGAAAAGACCUGCAAUGGCACUGCAUUCGAUGUGCCAACCGGGGCGACCCUCGCCACCCCAAGGUGCAGCCCAGGUGGGCUCACC-GCUACUUUUACGCGCCUU
...(((((....((..((((((..........))))))...((((((.....)))).))....((((.(((((....)))))))))-))..)))))......... ( -38.60)
>DroYak_CAF1 2451 104 + 1
AAGAAAAGACCAGCAAUGGCGCUACAUUCGAUGUGCCAACCGGGGCGUCCCUCACCACCCCAAGGUGCCUCCCAGGUGGGCUCACU-GCCACUUUUACGCGCCUU
................((((((..........))))))...((((.(........).))))(((((((.....((((((.(.....-)))))))....))))))) ( -32.60)
>DroAna_CAF1 2420 104 + 1
AAAAAGAGGCCGGCAAUAGCACUACACUCGAUGUGCCAGCCAGGACGUCCCUCGCCGCCCCACGGCGCCUGCCAACUUGGCUCCUU-UUGGGUUUUGCGCGCCUU
.....(((((.(((....((((..........))))..((.(((.....))).)).))).....((((..(((.....)))(((..-..)))....))))))))) ( -33.00)
>DroPer_CAF1 2484 104 + 1
AAAAAGAAUCCGGCAAUGGCACUGCAUUCAAUGUGCCAGCCGGGGCGACCCUCUCCACCCCAAGGAGCCGCCCAACUGGGCUCAUCAGCCUCCUUCU-UGGCCUU
...(((((.(((((..((((((..........)))))))))))(((......((((.......))))..((((....))))......)))...))))-)...... ( -38.30)
>consensus
AAAAAGAAACCGGCAAUGGCACUGCAUUCAAUGUGCCAACCGGGGCGACCCUCGCCACCCCAAGGUGCCGCCCAACUGGGCUCACC_GCCACUUUUACGCGCCUU
...........(((..((((((..........))))))...(((....)))..(((.......))))))((((....))))........................ (-22.73 = -22.73 +   0.00)

alignment

secondary structure

dotplot

Window 2

Location	9,676,230 – 9,676,334
Length	104
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	80.04
Mean single sequence MFE	-42.58
Consensus MFE	-28.16
Energy contribution	-28.25
Covariance contribution	0.09
Combinations/Pair	1.35
Mean z-score	-1.34
Structure conservation index	0.66
SVM decision value	0.07
SVM RNA-class probability	0.566444
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9676230 104 - 20766785
AAGGCGCGUAAAAGUGGC-AGUGAGCCCACGUGGGCUGCACCCUGGGGUGGCGAGGGACGCCCCGGUUGGCACAUUGAAUGCAGCGCCAUUGCAGGUUUAUUCUU
..((((((((..((((((-.((((((((....))))).))).((((((((........))))))))...)).))))...))).)))))................. ( -45.20)
>DroPse_CAF1 2484 104 - 1
AAGGCCA-AGAAGGAGGCUGAUGAGCCCAGUUGGGCGGCUCCUUGGGGUGGAGAGGGUCGCCCCGGCUGGCACAUUGAAUGCAGUGCCAUUGCCGGAUUCUUUUU
......(-((((((((((......((((....))))((((((((......))).))))))))(((((((((((..........))))))..))))).)))))))) ( -43.10)
>DroEre_CAF1 2451 104 - 1
AAGGCGCGUAAAAGUAGC-GGUGAGCCCACCUGGGCUGCACCUUGGGGUGGCGAGGGUCGCCCCGGUUGGCACAUCGAAUGCAGUGCCAUUGCAGGUCUUUUCUU
(((((((......)).((-(((((((((....))))).))))((((((((((....)))))))))).((((((..........))))))..))..)))))..... ( -45.80)
>DroYak_CAF1 2451 104 - 1
AAGGCGCGUAAAAGUGGC-AGUGAGCCCACCUGGGAGGCACCUUGGGGUGGUGAGGGACGCCCCGGUUGGCACAUCGAAUGUAGCGCCAUUGCUGGUCUUUUCUU
..(((((.((...((..(-.(((.(((.(((.((......))..((((((........))))))))).))).))).).)).)))))))................. ( -36.10)
>DroAna_CAF1 2420 104 - 1
AAGGCGCGCAAAACCCAA-AAGGAGCCAAGUUGGCAGGCGCCGUGGGGCGGCGAGGGACGUCCUGGCUGGCACAUCGAGUGUAGUGCUAUUGCCGGCCUCUUUUU
..(((((.......((..-..)).(((.....)))..)))))..(((((((((((((....)))(((..((((.....))))...))).))))).)))))..... ( -42.20)
>DroPer_CAF1 2484 104 - 1
AAGGCCA-AGAAGGAGGCUGAUGAGCCCAGUUGGGCGGCUCCUUGGGGUGGAGAGGGUCGCCCCGGCUGGCACAUUGAAUGCAGUGCCAUUGCCGGAUUCUUUUU
......(-((((((((((......((((....))))((((((((......))).))))))))(((((((((((..........))))))..))))).)))))))) ( -43.10)
>consensus
AAGGCGCGUAAAAGUGGC_AAUGAGCCCACUUGGGCGGCACCUUGGGGUGGCGAGGGACGCCCCGGCUGGCACAUCGAAUGCAGUGCCAUUGCCGGUCUCUUCUU
.((((...................((((....))))((((((..((((((........)))))))))((((((..........))))))..))).))))...... (-28.16 = -28.25 +   0.09)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:47 2006