Locus 2495

Sequence ID 3L_DroMel_CAF1
Location 7,009,518 – 7,009,674
Length 156
Max. P 0.605460
window3871 window3872

overview

Window 1

Location 7,009,518 – 7,009,637
Length 119
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 84.05
Mean single sequence MFE -30.25
Consensus MFE -22.92
Energy contribution -22.43
Covariance contribution -0.50
Combinations/Pair 1.14
Mean z-score -1.53
Structure conservation index 0.76
SVM decision value 0.12
SVM RNA-class probability 0.591830
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7009518 119 + 23771897
ACAUUCACCUAUUUUUUUUUUUUAUAAAUGAAAUUAGAAUUGUGUAAUUU-UUUUCUCUGUGCCGUUGUGGUGGGCAACACGAAAUUGCCUGCCUGCCCAUAACGAUGUGCCGCGGUAAU
.....(((..(((((..((((........))))..))))).)))......-......((((((((((((.(((((((.((.(......).))..))))))).)))))).).))))).... ( -27.50)
>DroSec_CAF1 22456 115 + 1
ACAUCCACU---UCUUGUUUUUAAUAAAGGAAACUAGAGUUGUGUAAUUU-UUUUCUUUGUGCCGUUGUGGUGGGCAACACGAAAUUGCCUGCCUGU-CAUAACGAUGUGCCGCGGUAAU
((((..(((---.((.((((((......)))))).))))).)))).....-.........((((((.((((..(((((.......)))))..)).((-(.....)))..)).)))))).. ( -29.30)
>DroEre_CAF1 27172 111 + 1
UAAUCCA-------UUUUUUUGUAUAAAUGAAGCUGGAAUGAUAUGAUUU-UUUUCUCUGUGCCGUUGUGGUGGGCAACACGAAAUUGCCUGCCUGC-CAUAACGAUGUGCCGCGGUAAU
...((((-------((((.((.....)).)))).))))............-......((((((((((((((..((((.((......))..))))..)-)))))))....).))))).... ( -28.80)
>DroYak_CAF1 28199 113 + 1
CAAUCGAA------AUUUCUUGUAUAAAUGAAACUAGUAUGGUAGAAUUUUUUUUCUCUGUGCCGUUGUGGCGGGCAACACAAAAUUGCCUGCCUGC-CAUAACGAUGUGCCGCGGUAAU
..((((..------.......(((((..........((((((.((((......))))))))))((((((((((((((.((......))..)))))))-))))))).)))))..))))... ( -35.40)
>consensus
AAAUCCAC______UUUUUUUGUAUAAAUGAAACUAGAAUGGUAUAAUUU_UUUUCUCUGUGCCGUUGUGGUGGGCAACACGAAAUUGCCUGCCUGC_CAUAACGAUGUGCCGCGGUAAU
.............................((((...((((......))))..))))....((((((...(((((((((.......))))))))).((.(((....))).)).)))))).. (-22.92 = -22.43 +  -0.50)

alignment

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secondary structure

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dotplot

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Window 2

Location 7,009,558 – 7,009,674
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.44
Mean single sequence MFE -36.78
Consensus MFE -27.74
Energy contribution -27.70
Covariance contribution -0.04
Combinations/Pair 1.22
Mean z-score -1.63
Structure conservation index 0.75
SVM decision value 0.15
SVM RNA-class probability 0.605460
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7009558 116 + 23771897
UGUGUAAUUU-UUUUCUCUGUGCCGUUGUGGUGGGCAACACGAAAUUGCCUGCCUGCCCAUAACGAUGUGCCGCGGUAAUGUGAUCC---GAUCCACAGCCAGGUGCUAAGUUUUGUAUU
..........-........((((((((((((..((((.((......))..))))..).)))))))..(..((..(((..((((....---....))))))).))..)........)))). ( -32.50)
>DroSec_CAF1 22493 115 + 1
UGUGUAAUUU-UUUUCUUUGUGCCGUUGUGGUGGGCAACACGAAAUUGCCUGCCUGU-CAUAACGAUGUGCCGCGGUAAUGUGAUCC---GAUCCACAGCCAGGUGCUAAGUUUUGUAUU
.(..(((...-......)))..)((((((((..((((.((......))..))))..)-)))))))..(..((..(((..((((....---....))))))).))..)............. ( -33.20)
>DroEre_CAF1 27205 115 + 1
GAUAUGAUUU-UUUUCUCUGUGCCGUUGUGGUGGGCAACACGAAAUUGCCUGCCUGC-CAUAACGAUGUGCCGCGGUAAUGUGAUCC---GAUUCACAGCCAGGUGCUAAGUUUUGUAUU
((((..(..(-((..........((((((((..((((.((......))..))))..)-)))))))..(..((..(((..(((((...---...)))))))).))..).)))..)..)))) ( -39.40)
>DroYak_CAF1 28233 116 + 1
GGUAGAAUUUUUUUUCUCUGUGCCGUUGUGGCGGGCAACACAAAAUUGCCUGCCUGC-CAUAACGAUGUGCCGCGGUAAUGUGAUCC---GAUUCACAGCCAGGUGCUAAGUUUUGUAUU
((.((((......))))))((((((((((((((((((.((......))..)))))))-)))))))..(..((..(((..(((((...---...)))))))).))..)........)))). ( -43.00)
>DroAna_CAF1 41110 110 + 1
----UACAUU-UUUUCUCCCUGCCGUUGUGGCGGGCAACGCGAAAUUGCCC----GG-CAUAAUGAUGUGUCCUGGUUAUAUGAUCCCUGGAUCCUUGGCGAGGUGCUAAGUUCCGCUUC
----......-..........(((((((((.(((((((.......))))))----).-)))))))..(((.(((.((((...((((....))))..)))).))))))........))... ( -35.80)
>consensus
GGUAUAAUUU_UUUUCUCUGUGCCGUUGUGGUGGGCAACACGAAAUUGCCUGCCUGC_CAUAACGAUGUGCCGCGGUAAUGUGAUCC___GAUCCACAGCCAGGUGCUAAGUUUUGUAUU
...................(((((((((((((((((((.......)))))))).....)))))))..(..((..(((..(((((((....))).))))))).))..)........)))). (-27.74 = -27.70 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:05 2006