Locus 2272

Sequence ID 2R_DroMel_CAF1
Location 8,386,064 – 8,386,171
Length 107
Max. P 0.870218
window3730 window3731

overview

Window 0

Location 8,386,064 – 8,386,171
Length 107
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 77.46
Mean single sequence MFE -20.46
Consensus MFE -10.55
Energy contribution -10.00
Covariance contribution -0.55
Combinations/Pair 1.28
Mean z-score -1.78
Structure conservation index 0.52
SVM decision value 0.03
SVM RNA-class probability 0.549799
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8386064 107 + 20766785
CCUUGUGA--------GCUAUCGAUAGUCAACACUCACGUUUAGUACUUCCUACCAGUACUAC--UCACAUAUACAUACACCUUUUGCCAUUUUUAUCAUGGCGAUUUCUUUUUGAC
...(((((--------(....((..(((....)))..))..(((((((.......))))))))--)))))....((........(((((((.......)))))))........)).. ( -20.09)
>DroVir_CAF1 20531 107 + 1
UUUUGUGC------AUGUUAUCGAUAGCAAACACCGA-GUUUAGUGUUUGUUAACAAUACUAU--ACACUUAUACAUACUGCU-UUGCCAUUUUUAUCAUGGCGAUUUCUUUUUGAC
....(((.------(((.(((.(.((((((((((...-.....)))))))))).).))).)))--.)))..............-(((((((.......)))))))............ ( -22.30)
>DroGri_CAF1 13804 109 + 1
UUUUGUAC------AAUGUAUCGAUAGAAAACACAAA-CCUUAGUGUUUGUUAGCAGUACUACGAACAGUUAUACAUACUGCU-UUGCCAUUUUUAUCAUGGCGAUUUCUUUUUGAC
........------......((((.(((((..(((((-(......)))))).(((((((..((.....))......)))))))-(((((((.......))))))))))))..)))). ( -22.10)
>DroEre_CAF1 13549 107 + 1
CCUCGUGA--------GCUAUCGAUAGUCAACACUCACGUUUAGUACUGCCUAGCAGUACUAC--UCACAUAUACAUACCUCUUUUGCCAUUUUUAUCAUGGCGAUUUCUUUUUGAC
....((((--------(....((..(((....)))..))..(((((((((...))))))))))--)))).....((........(((((((.......)))))))........)).. ( -25.29)
>DroWil_CAF1 30330 114 + 1
AAUUAUGGUCAUCG--AUUAUUAAUAAUCAACACUGAGUUUUAGUAUUGGUUAGACGUACUACCCUCACUUAUACAUACUGCU-UUGCAAUUUUUAUCAUGGCGAUUUCUUUUUGAC
....((.(((((.(--((......(((((((.(((((...))))).)))))))..........................(((.-..)))......)))))))).))........... ( -13.70)
>DroMoj_CAF1 17443 107 + 1
UUAAGCAC------AUUUCAUCGAUAUGAAACACCGA-GUUUAGUGUUUGUUAACAGUACUAC--UCCCUUAUACAUACUGCU-UUGCCAUUUUUAUCAUGGCGAUUUCUUUUUGAC
...((((.------.((((((....))))))....((-((.((.((((....)))).))..))--))............))))-(((((((.......)))))))............ ( -19.30)
>consensus
UUUUGUGC________GUUAUCGAUAGUAAACACUGA_GUUUAGUAUUUGUUAGCAGUACUAC__UCACUUAUACAUACUGCU_UUGCCAUUUUUAUCAUGGCGAUUUCUUUUUGAC
....................((((.................(((((((.......)))))))......................(((((((.......))))))).......)))). (-10.55 = -10.00 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 8,386,064 – 8,386,171
Length 107
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 77.46
Mean single sequence MFE -24.95
Consensus MFE -10.60
Energy contribution -10.30
Covariance contribution -0.30
Combinations/Pair 1.27
Mean z-score -2.50
Structure conservation index 0.43
SVM decision value 0.87
SVM RNA-class probability 0.870218
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8386064 107 - 20766785
GUCAAAAAGAAAUCGCCAUGAUAAAAAUGGCAAAAGGUGUAUGUAUAUGUGA--GUAGUACUGGUAGGAAGUACUAAACGUGAGUGUUGACUAUCGAUAGC--------UCACAAGG
..............(((((.......))))).................((..--.(((((((.......))))))).))((((((((((.....))))).)--------)))).... ( -26.90)
>DroVir_CAF1 20531 107 - 1
GUCAAAAAGAAAUCGCCAUGAUAAAAAUGGCAA-AGCAGUAUGUAUAAGUGU--AUAGUAUUGUUAACAAACACUAAAC-UCGGUGUUUGCUAUCGAUAACAU------GCACAAAA
..............(((((.......)))))..-..............((((--((..(((((.((.((((((((....-..)))))))).)).)))))..))------)))).... ( -28.40)
>DroGri_CAF1 13804 109 - 1
GUCAAAAAGAAAUCGCCAUGAUAAAAAUGGCAA-AGCAGUAUGUAUAACUGUUCGUAGUACUGCUAACAAACACUAAGG-UUUGUGUUUUCUAUCGAUACAUU------GUACAAAA
(((....(((((.((((((.......)))))..-((((((((.(((........))))))))))).((((((......)-)))))).)))))...))).....------........ ( -24.10)
>DroEre_CAF1 13549 107 - 1
GUCAAAAAGAAAUCGCCAUGAUAAAAAUGGCAAAAGAGGUAUGUAUAUGUGA--GUAGUACUGCUAGGCAGUACUAAACGUGAGUGUUGACUAUCGAUAGC--------UCACGAGG
..............(((((.......))))).....................--.(((((((((...)))))))))..(((((((((((.....))))).)--------)))))... ( -31.70)
>DroWil_CAF1 30330 114 - 1
GUCAAAAAGAAAUCGCCAUGAUAAAAAUUGCAA-AGCAGUAUGUAUAAGUGAGGGUAGUACGUCUAACCAAUACUAAAACUCAGUGUUGAUUAUUAAUAAU--CGAUGACCAUAAUU
((((.........(((....(((...(((((..-.)))))...)))...((((..(((((...........)))))...)))))))(((((((....))))--)))))))....... ( -17.10)
>DroMoj_CAF1 17443 107 - 1
GUCAAAAAGAAAUCGCCAUGAUAAAAAUGGCAA-AGCAGUAUGUAUAAGGGA--GUAGUACUGUUAACAAACACUAAAC-UCGGUGUUUCAUAUCGAUGAAAU------GUGCUUAA
..............(((((.......))))).(-((((............((--((..((.((((....)))).)).))-))...(((((((....)))))))------.))))).. ( -21.50)
>consensus
GUCAAAAAGAAAUCGCCAUGAUAAAAAUGGCAA_AGCAGUAUGUAUAAGUGA__GUAGUACUGCUAACAAACACUAAAC_UCAGUGUUGACUAUCGAUAAC________GCACAAAA
...........((((((((.......))))).....................................(((((((.......)))))))......)))................... (-10.60 = -10.30 +  -0.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:20 2006