Locus 2423

Sequence ID 2R_DroMel_CAF1
Location 8,714,246 – 8,714,349
Length 103
Max. P 0.961572
window4011 window4012

overview

Window 1

Location 8,714,246 – 8,714,349
Length 103
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 75.22
Mean single sequence MFE -21.27
Consensus MFE -13.92
Energy contribution -13.28
Covariance contribution -0.64
Combinations/Pair 1.21
Mean z-score -1.40
Structure conservation index 0.65
SVM decision value 0.04
SVM RNA-class probability 0.551545
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8714246 103 + 20766785
CCAGAUUGCAGCGAUAACGCAAUCUAAAUUUUGAGCAGGCCUAUCGAAUUCCGACAGUGCUGUUAAACUACAUUUUCGUUAAAGCUUUUAACAAA------AUAAAGCA
..(((((((.........)))))))........(((((..((.(((.....))).))..)))))...................(((((.......------..))))). ( -19.70)
>DroSec_CAF1 20477 91 + 1
CCAGAUUGCAGCGAUAACGCAAUCUUAUUCUUGAGCAGGCCUAUCGAAUUCCGACAAUGCUGUCAAACUG------------AACUUAUAUUAAA------AAAAGCCA
.(((.((((((((.....((...((((....))))...))...(((.....)))...))))).))).)))------------.............------........ ( -16.60)
>DroSim_CAF1 23321 91 + 1
CCAGAUUGCAGCGAUAACGCAAUCUUUUUCUUGAGCAGGCCUAUCGAAUUCCGACAGUGCUGUCAAACUG------------AGCUUAUAUUAAA------AAAAACCA
..(((((((.........)))))))......(((((.(((((.(((.....))).)).))).((.....)------------)))))).......------........ ( -18.10)
>DroEre_CAF1 21060 108 + 1
CCAGAUUGUGGCGAUAACACAAUCUAAUUCUUGAAUAGGUCUAUCGAAAUCCGACAGUGCUGCCAAACUGAAU-UUAGCGAAAGCUUGUAACAAAGUCAUAACAGGUUA
..((((((((.......))))))))....((((....(((((.(((.....))).))....)))..(((....-..(((....)))........))).....))))... ( -22.94)
>DroYak_CAF1 21135 102 + 1
CCAGAUUGUAGCGAUAAUACAAUCUAAUUCUUGCUCAGGCCUAUCGAUAUACGACAGUGCUGGCAAACUGAAU-UUAGCGAAAGUUUGUUGCAAA------AUAGGCCA
..((((((((.......))))))))............(((((((((.....)))...(((.((((((((....-........)))))))))))..------.)))))). ( -29.00)
>consensus
CCAGAUUGCAGCGAUAACGCAAUCUAAUUCUUGAGCAGGCCUAUCGAAUUCCGACAGUGCUGUCAAACUG_AU_UU_G__AAAGCUUAUAACAAA______AAAAGCCA
..(((((((.........))))))).....((((.(((..((.(((.....))).))..)))))))........................................... (-13.92 = -13.28 +  -0.64)

alignment

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secondary structure

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dotplot

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Window 2

Location 8,714,246 – 8,714,349
Length 103
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 75.22
Mean single sequence MFE -23.80
Consensus MFE -20.68
Energy contribution -19.52
Covariance contribution -1.16
Combinations/Pair 1.32
Mean z-score -1.21
Structure conservation index 0.87
SVM decision value 1.53
SVM RNA-class probability 0.961572
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8714246 103 - 20766785
UGCUUUAU------UUUGUUAAAAGCUUUAACGAAAAUGUAGUUUAACAGCACUGUCGGAAUUCGAUAGGCCUGCUCAAAAUUUAGAUUGCGUUAUCGCUGCAAUCUGG
.(((.(((------((((((((.....))))).)))))).)))....(((..((((((.....))))))..))).........(((((((((.......))))))))). ( -24.90)
>DroSec_CAF1 20477 91 - 1
UGGCUUUU------UUUAAUAUAAGUU------------CAGUUUGACAGCAUUGUCGGAAUUCGAUAGGCCUGCUCAAGAAUAAGAUUGCGUUAUCGCUGCAAUCUGG
........------..........(((------------(...(((((((..((((((.....))))))..))).)))))))).((((((((.......)))))))).. ( -19.60)
>DroSim_CAF1 23321 91 - 1
UGGUUUUU------UUUAAUAUAAGCU------------CAGUUUGACAGCACUGUCGGAAUUCGAUAGGCCUGCUCAAGAAAAAGAUUGCGUUAUCGCUGCAAUCUGG
.(((((..------........)))))------------...((((((((..((((((.....))))))..))).)))))....((((((((.......)))))))).. ( -22.30)
>DroEre_CAF1 21060 108 - 1
UAACCUGUUAUGACUUUGUUACAAGCUUUCGCUAA-AUUCAGUUUGGCAGCACUGUCGGAUUUCGAUAGACCUAUUCAAGAAUUAGAUUGUGUUAUCGCCACAAUCUGG
....((((((.((((..(((...(((....))).)-))..))))))))))..((((((.....))))))..............(((((((((.......))))))))). ( -24.90)
>DroYak_CAF1 21135 102 - 1
UGGCCUAU------UUUGCAACAAACUUUCGCUAA-AUUCAGUUUGCCAGCACUGUCGUAUAUCGAUAGGCCUGAGCAAGAAUUAGAUUGUAUUAUCGCUACAAUCUGG
.......(------(((((..((((((........-....)))))).(((..((((((.....))))))..))).))))))..(((((((((.......))))))))). ( -27.30)
>consensus
UGGCUUAU______UUUGAUACAAGCUUU__C_AA_AU_CAGUUUGACAGCACUGUCGGAAUUCGAUAGGCCUGCUCAAGAAUUAGAUUGCGUUAUCGCUGCAAUCUGG
..........................................((((((((..((((((.....))))))..))).)))))....((((((((.......)))))))).. (-20.68 = -19.52 +  -1.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:47 2006