Locus 3572

Sequence ID 2L_DroMel_CAF1
Location 10,424,958 – 10,425,057
Length 99
Max. P 0.667136
window5646 window5647

overview

Window 6

Location 10,424,958 – 10,425,057
Length 99
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 81.74
Mean single sequence MFE -27.30
Consensus MFE -18.21
Energy contribution -17.85
Covariance contribution -0.36
Combinations/Pair 1.30
Mean z-score -1.78
Structure conservation index 0.67
SVM decision value 0.28
SVM RNA-class probability 0.667136
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10424958 99 + 22407834
-CUCUUUGUUUUACAAGUAAUUUCUGACUGUCAGGAAUACGACAGCAUCAUUGUCGCCACUGCGGCAAAGCCGUGUGCGACAACUGUUCCACCAAUCGCA
-...............(((.((((((.....)))))))))(((((.....(((((((.((.(((((...)))))))))))))))))))............ ( -27.60)
>DroGri_CAF1 1553 90 + 1
UAAAACU-------AA-UA-UAUUUUAU-UGCAGGUAUCCGACAACAUCAUUGCCGCCAUUGCGGCAAGGCUGUCUGCGAUAAUUGUUCAACGAAUCGCA
.......-------..-..-....((((-(((((..(.((((.....)).(((((((....))))))))).)..)))))))))................. ( -25.80)
>DroSec_CAF1 1220 99 + 1
-CUCCUUGAUUUACAAGUACUUUCUGAAUGGCAGGAAUACGACAGCAUCAUUGUCGCCACUGCGGCAAGGCCGUGUGCGACAACUGUUCCACCAAUCGCA
-...((((.....))))........((.(((..((((((.((.....)).(((((((.((.(((((...)))))))))))))).)))))).))).))... ( -28.30)
>DroSim_CAF1 1205 99 + 1
-CACCUUGAUUUACAAGUACUUUCUGAAUGGCAGGAAUACGACAGCAUCAUUGUCGCCACUGCGGCAAGGCCGUGUGCGACAACUGUUCCACCAAUCGCA
-...((((.....))))........((.(((..((((((.((.....)).(((((((.((.(((((...)))))))))))))).)))))).))).))... ( -28.30)
>DroEre_CAF1 1224 99 + 1
-CUCCAUGUUUUACAAAUAAUCUUCGUCCGCUAGGAAUCCGGCAGCAUCAUUGUCGCCACUGCGGCAAGGCCGUGUGCGACAACUGUUCCACCAAUCGUA
-..........(((............(((....)))....((.((((...(((((((.((.(((((...)))))))))))))).)))))).......))) ( -25.80)
>DroYak_CAF1 1179 99 + 1
-CUCCUUGUUUUACAAAUAAUUUUCGUCCGCCAGGAAUUCGGCAGCAUCAUUGUCGCCACUGCGGCAAGGCAGUGUGCGACAACUGUUCAACCAAUCGCA
-......(((..(((..............(((........))).......(((((((((((((......)))))).))))))).)))..)))........ ( -28.00)
>consensus
_CUCCUUGUUUUACAAGUAAUUUCUGACUGGCAGGAAUACGACAGCAUCAUUGUCGCCACUGCGGCAAGGCCGUGUGCGACAACUGUUCCACCAAUCGCA
....................((((((.....))))))...(((((.....((((((((((.((......)).))).))))))))))))............ (-18.21 = -17.85 +  -0.36)

alignment

Postscript

secondary structure

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dotplot

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Window 7

Location 10,424,958 – 10,425,057
Length 99
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 81.74
Mean single sequence MFE -30.92
Consensus MFE -19.59
Energy contribution -19.62
Covariance contribution 0.03
Combinations/Pair 1.24
Mean z-score -1.61
Structure conservation index 0.63
SVM decision value -0.02
SVM RNA-class probability 0.523487
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10424958 99 - 22407834
UGCGAUUGGUGGAACAGUUGUCGCACACGGCUUUGCCGCAGUGGCGACAAUGAUGCUGUCGUAUUCCUGACAGUCAGAAAUUACUUGUAAAACAAAGAG-
(((((.((((......((((((((.(((.((......)).)))))))))))...(((((((......))))))).....)))).)))))..........- ( -29.10)
>DroGri_CAF1 1553 90 - 1
UGCGAUUCGUUGAACAAUUAUCGCAGACAGCCUUGCCGCAAUGGCGGCAAUGAUGUUGUCGGAUACCUGCA-AUAAAAUA-UA-UU-------AGUUUUA
((((((..(((....))).))))))((((((.(((((((....)))))))....))))))...........-.((((((.-..-..-------.)))))) ( -25.70)
>DroSec_CAF1 1220 99 - 1
UGCGAUUGGUGGAACAGUUGUCGCACACGGCCUUGCCGCAGUGGCGACAAUGAUGCUGUCGUAUUCCUGCCAUUCAGAAAGUACUUGUAAAUCAAGGAG-
...((.(((..(....((((((((.(((.((......)).)))))))))))(((((....))))).)..))).))........((((.....))))...- ( -31.70)
>DroSim_CAF1 1205 99 - 1
UGCGAUUGGUGGAACAGUUGUCGCACACGGCCUUGCCGCAGUGGCGACAAUGAUGCUGUCGUAUUCCUGCCAUUCAGAAAGUACUUGUAAAUCAAGGUG-
...((.(((..(....((((((((.(((.((......)).)))))))))))(((((....))))).)..))).))........((((.....))))...- ( -31.70)
>DroEre_CAF1 1224 99 - 1
UACGAUUGGUGGAACAGUUGUCGCACACGGCCUUGCCGCAGUGGCGACAAUGAUGCUGCCGGAUUCCUAGCGGACGAAGAUUAUUUGUAAAACAUGGAG-
.....((((..(....((((((((.(((.((......)).)))))))))))....)..))))..(((......(((((.....))))).......))).- ( -31.82)
>DroYak_CAF1 1179 99 - 1
UGCGAUUGGUUGAACAGUUGUCGCACACUGCCUUGCCGCAGUGGCGACAAUGAUGCUGCCGAAUUCCUGGCGGACGAAAAUUAUUUGUAAAACAAGGAG-
(((((.(((((.....((((((((.((((((......))))))))))))))..((((((((......)))))).))..))))).)))))..........- ( -35.50)
>consensus
UGCGAUUGGUGGAACAGUUGUCGCACACGGCCUUGCCGCAGUGGCGACAAUGAUGCUGUCGUAUUCCUGCCAGUCAAAAAUUACUUGUAAAACAAGGAG_
......(((..(....((((((((.(((.((......)).)))))))))))....)..)))....................................... (-19.59 = -19.62 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:56 2006