Locus 8027

Sequence ID 3L_DroMel_CAF1
Location 21,154,530 – 21,154,663
Length 133
Max. P 0.970699
window13112 window13113 window13114

overview

Window 2

Location 21,154,530 – 21,154,629
Length 99
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 80.15
Mean single sequence MFE -36.86
Consensus MFE -24.99
Energy contribution -24.60
Covariance contribution -0.39
Combinations/Pair 1.19
Mean z-score -2.76
Structure conservation index 0.68
SVM decision value 1.43
SVM RNA-class probability 0.953340
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21154530 99 - 23771897
CGUGGUGUUUGAAUACUCCAUGGAUUGCCGGCCCUCCAAGGGGCUGGCUGUUUUUCCGAGCUGUCACUAAAAUACAUUUAAGCAGCUGCAC------CAC-----CGAUU
.(((((((............((((..(((((((((....)))))))))......))))((((((...((((.....)))).))))))))))------)))-----..... ( -38.20)
>DroVir_CAF1 45531 104 - 1
CUUUGAGUUUGAAUACUCCAUGGAUUGCCGGCCCUCAAGGGGGCUGGCCGCUGUUGGUGGCAAGCACUAAAAUACAUUUAAACAGCUGCUGCCUGUGCGC-----CGAG-
....((((......))))..(((...(((((((((....)))))))))(((....((..(((.((...................)))))..))...))))-----))..- ( -38.51)
>DroGri_CAF1 45528 109 - 1
CUUUGAGUUUGAAUACUCCAUGGAUUGCCGGCCCUCAAUGGGGCUGGCCGUUGUUGAGUGCAAGCACUAAAAUACAUUUAAACAGCUGCUGUUUGUGCCCUUUUCAGAU-
.((((((((((..(((((.(..(...(((((((((....)))))))))..)..).)))))))))).............(((((((...)))))))........))))).- ( -34.90)
>DroSec_CAF1 25576 99 - 1
CGUGGUGUUUGAAUACUCCAUGGAUUGCCGGCCCUCCAAGGGGCUGGCUGUUUUUCCGAGCUGUCACUAAAAUACAUUUAAGCAGCUGCAC------CAC-----CGAUU
.(((((((............((((..(((((((((....)))))))))......))))((((((...((((.....)))).))))))))))------)))-----..... ( -38.20)
>DroEre_CAF1 21941 99 - 1
AGUGGUGUUUGAAUACUCCAUGGAUUGCCGGCCCUCCAAGGGGCUGGCUGUUUUUCCGAGCUGUCACUAAAAUACAUUUAAGCAGCUGCAC------CAC-----CGAUU
.(((((((............((((..(((((((((....)))))))))......))))((((((...((((.....)))).))))))))))------)))-----..... ( -38.10)
>DroMoj_CAF1 49262 100 - 1
UUUAGAGUUUGAAUACUCCAUGGAUUGCCGGCCCUCAAGGGGGCUGGCCGCUGUUGGUUGCAAGCACUCAAAUACAUUUAAACAGCUGCUG----UGGGA-----GGUG-
...............((((((((...(((((((((....))))))))).((((((...((..............))....))))))..)))----).)))-----)...- ( -33.24)
>consensus
CGUGGAGUUUGAAUACUCCAUGGAUUGCCGGCCCUCAAAGGGGCUGGCCGUUGUUCCGAGCAAGCACUAAAAUACAUUUAAACAGCUGCAC______CAC_____CGAU_
......((((((((............(((((((((....))))))))).((((....))))..............))))))))........................... (-24.99 = -24.60 +  -0.39)

alignment

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secondary structure

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Window 3

Location 21,154,549 – 21,154,663
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 77.89
Mean single sequence MFE -32.50
Consensus MFE -21.32
Energy contribution -21.16
Covariance contribution -0.16
Combinations/Pair 1.05
Mean z-score -1.94
Structure conservation index 0.66
SVM decision value 1.04
SVM RNA-class probability 0.904960
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21154549 114 + 23771897
UAAAUGUAUUUUAGUGACAGCUCGGAAAAACAGCCAGCCCCUUGGAGGGCCGGCAAUCCAUGGAGUAUUCAAACACCACGGGUUUGACUCACAGCA------UCAAUGAGAACUCACAGA
.............((((...((((((......(((.((((......)))).)))..))).(((((...((((((.(....)))))))))).))...------.....)))...))))... ( -31.50)
>DroGri_CAF1 45557 101 + 1
UAAAUGUAUUUUAGUGCUUGCACUCAACAACGGCCAGCCCCAUUGAGGGCCGGCAAUCCAUGGAGUAUUCAAACUCAAAGUGUUUGAAUCACAACGAGGA---------G----------
....(((..((.((((....)))).))..)))(((.((((......)))).)))..(((.((..((((((((((.......)))))))).))..)).)))---------.---------- ( -30.30)
>DroSec_CAF1 25595 114 + 1
UAAAUGUAUUUUAGUGACAGCUCGGAAAAACAGCCAGCCCCUUGGAGGGCCGGCAAUCCAUGGAGUAUUCAAACACCACGGGUUUGACUCACAGCA------UCAACGAGAACUCACAGA
.............((((...((((........(((.((((......)))).)))......(((((...((((((.(....)))))))))).))...------....))))...))))... ( -33.20)
>DroEre_CAF1 21960 114 + 1
UAAAUGUAUUUUAGUGACAGCUCGGAAAAACAGCCAGCCCCUUGGAGGGCCGGCAAUCCAUGGAGUAUUCAAACACCACUGGUUUGACUCACAACA------UCAAGGAGAAGUCGCACA
.............(((((..((((((......(((.((((......)))).)))..))).(((((...((((((.......))))))))).))...------.....)))..)))))... ( -33.20)
>DroMoj_CAF1 49282 120 + 1
UAAAUGUAUUUGAGUGCUUGCAACCAACAGCGGCCAGCCCCCUUGAGGGCCGGCAAUCCAUGGAGUAUUCAAACUCUAAAUGUUUGAAUCACAACGAGCCAAUACAAGAGCAGCCACGGC
....(((.((((.(((((((...(((......(((.((((......)))).)))......))).((((((((((.......)))))))).))..)))))..)).)))).)))((....)) ( -34.30)
>consensus
UAAAUGUAUUUUAGUGACAGCUCGGAAAAACAGCCAGCCCCUUGGAGGGCCGGCAAUCCAUGGAGUAUUCAAACACCACGGGUUUGACUCACAACA______UCAA_GAGAACUCACAGA
.............(((.............((.(((.((((......)))).)))..((....))))..((((((.......))))))..)))............................ (-21.32 = -21.16 +  -0.16)

alignment

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secondary structure

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Window 4

Location 21,154,549 – 21,154,663
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 77.89
Mean single sequence MFE -37.26
Consensus MFE -24.58
Energy contribution -24.78
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.21
Structure conservation index 0.66
SVM decision value 1.66
SVM RNA-class probability 0.970699
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21154549 114 - 23771897
UCUGUGAGUUCUCAUUGA------UGCUGUGAGUCAAACCCGUGGUGUUUGAAUACUCCAUGGAUUGCCGGCCCUCCAAGGGGCUGGCUGUUUUUCCGAGCUGUCACUAAAAUACAUUUA
...((((...(((.((((------(.......)))))..((((((.((......)).))))))...(((((((((....))))))))).........)))...))))............. ( -37.90)
>DroGri_CAF1 45557 101 - 1
----------C---------UCCUCGUUGUGAUUCAAACACUUUGAGUUUGAAUACUCCAUGGAUUGCCGGCCCUCAAUGGGGCUGGCCGUUGUUGAGUGCAAGCACUAAAAUACAUUUA
----------.---------(((..(..(((.(((((((.......))))))))))..)..)))..(((((((((....))))))))).((.....((((....)))).....))..... ( -33.60)
>DroSec_CAF1 25595 114 - 1
UCUGUGAGUUCUCGUUGA------UGCUGUGAGUCAAACCCGUGGUGUUUGAAUACUCCAUGGAUUGCCGGCCCUCCAAGGGGCUGGCUGUUUUUCCGAGCUGUCACUAAAAUACAUUUA
...((((...((((..((------.((............((((((.((......)).))))))...(((((((((....))))))))).)).))..))))...))))............. ( -39.70)
>DroEre_CAF1 21960 114 - 1
UGUGCGACUUCUCCUUGA------UGUUGUGAGUCAAACCAGUGGUGUUUGAAUACUCCAUGGAUUGCCGGCCCUCCAAGGGGCUGGCUGUUUUUCCGAGCUGUCACUAAAAUACAUUUA
.....(((..(((....(------((..(((..(((((((....).)))))).)))..)))(((..(((((((((....)))))))))......))))))..)))............... ( -35.60)
>DroMoj_CAF1 49282 120 - 1
GCCGUGGCUGCUCUUGUAUUGGCUCGUUGUGAUUCAAACAUUUAGAGUUUGAAUACUCCAUGGAUUGCCGGCCCUCAAGGGGGCUGGCCGCUGUUGGUUGCAAGCACUCAAAUACAUUUA
.((((((..(((........))).....(((.(((((((.......)))))))))).))))))...(((((((((....))))))))).(((((.....)).)))............... ( -39.50)
>consensus
UCUGUGACUUCUC_UUGA______UGUUGUGAGUCAAACCCGUGGUGUUUGAAUACUCCAUGGAUUGCCGGCCCUCCAAGGGGCUGGCUGUUUUUCCGAGCUGUCACUAAAAUACAUUUA
............................(((..((((((.......))))))..........(((.(((((((((....))))))))).)))............)))............. (-24.58 = -24.78 +   0.20)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:15 2006