Locus 7369

Sequence ID	3L_DroMel_CAF1
Location	19,769,484 – 19,769,604
Length	120
Max. P	0.950753

overview

Window 2

Location	19,769,484 – 19,769,604
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	75.29
Mean single sequence MFE	-38.42
Consensus MFE	-19.23
Energy contribution	-20.26
Covariance contribution	1.03
Combinations/Pair	1.28
Mean z-score	-2.26
Structure conservation index	0.50
SVM decision value	1.40
SVM RNA-class probability	0.950753
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19769484 120 + 23771897
UGUUCAAGGCACUGGCCAAAAGCCAGUGCUCCAUUCAGUUGGAAUACCUCAUCCUGCACCGCAAACGCUGGAUUGACGAGGAGCAGGCGCAGUACAUCAGUGCUUUGAAGUGUCUCCGGU
..(((((((((((((......(((..((((((((((.....)))).(.((((((.((.........)).))).))).).)))))))))........)))))))))))))........... ( -40.24)
>DroPse_CAF1 15109 117 + 1
UCUUCAAAGCUUUGGCCAU---CAACUGCUCUUCGCAUUUGGAGUUCCUCAUACUCCAUCGCAAACGGUGGAUCAACGAGGAGCAAGCCCAACACAUCAGUGCCUUAAAAUCGCUUAAGU
......((((...(((..(---(((.(((.....))).)))).(((((((....(((((((....))))))).....)))))))..)))...(((....)))..........)))).... ( -33.70)
>DroEre_CAF1 14044 120 + 1
UCUUCAAGGCACUGGCCAAAGGCCACUGCUCCACCCAGUUGGAAUACCUCAUUCUGCAACGCAAACGCUGGAUUGACGAGGAGCAGGCGCAGUACAUAAGUGCUUUGAAGGGUCUUCGAU
(((((((((((((((((...)))).(((((((..((....))....(.(((.(((((.........)).))).))).).)))))))............)))))))))))))......... ( -44.40)
>DroWil_CAF1 18632 117 + 1
UCUUCAAAGCCUUGGCCA---GCCAGUGCUCCACGCAUUUGGCAUUCCUGGUGCUCCAGCGCAAGCGUUGGAUCAAUGAGGAGCAGGCCCAACAUAUCAGUGCCUUGCGUUCGUUAAGAU
..........((((((..---((((((((.....))).)))))..((((.((..(((((((....)))))))...)).))))((((((.(.........).))).)))....)))))).. ( -39.30)
>DroAna_CAF1 13409 120 + 1
UCUUUAAAACACUGGCGAAAAGUCAUUGCUGUGAACAGCUGGAAUAUCUCAUCCUCCACCGAAAGCGGUGGAUUAAUGAGGAGCAGGCGCAGUAUAUCAGUGCCUUAAAGUCGUUAAAGU
.((((((...(((.((......((...((((....))))..))...((((((..(((((((....)))))))...)))))).))((((((.........))))))...)))..)))))). ( -39.80)
>DroPer_CAF1 15059 117 + 1
UCUUCAAAGCUUUGGCCAG---CAACUGCUCUUCGCAUUUGGAGUUCCUCAUACUCCAUCGCAAACGGUGGAUCAACGAGGAGCAAGCCCAACACAUCAGUGCCUUAAAAUCGCUUAAGU
......((((...(((...---(((.(((.....))).)))..(((((((....(((((((....))))))).....)))))))..)))...(((....)))..........)))).... ( -33.10)
>consensus
UCUUCAAAGCACUGGCCAA__GCCACUGCUCCACGCAGUUGGAAUACCUCAUACUCCACCGCAAACGGUGGAUCAACGAGGAGCAGGCCCAACACAUCAGUGCCUUAAAGUCGCUUAAGU
..(((((.((.((((......(((..((((((........((....))......(((((((....))))))).......)))))))))........)))).)).)))))........... (-19.23 = -20.26 +   1.03)

alignment

secondary structure

dotplot

Window 3

Location	19,769,484 – 19,769,604
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	75.29
Mean single sequence MFE	-39.48
Consensus MFE	-21.80
Energy contribution	-22.97
Covariance contribution	1.17
Combinations/Pair	1.25
Mean z-score	-1.83
Structure conservation index	0.55
SVM decision value	0.77
SVM RNA-class probability	0.847273
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19769484 120 - 23771897
ACCGGAGACACUUCAAAGCACUGAUGUACUGCGCCUGCUCCUCGUCAAUCCAGCGUUUGCGGUGCAGGAUGAGGUAUUCCAACUGAAUGGAGCACUGGCUUUUGGCCAGUGCCUUGAACA
...(....)((((((..(((....))).(((((((.((....(((.......)))...)))))))))..))))))..((((......))))((((((((.....))))))))........ ( -42.80)
>DroPse_CAF1 15109 117 - 1
ACUUAAGCGAUUUUAAGGCACUGAUGUGUUGGGCUUGCUCCUCGUUGAUCCACCGUUUGCGAUGGAGUAUGAGGAACUCCAAAUGCGAAGAGCAGUUG---AUGGCCAAAGCUUUGAAGA
.(((((((........(((((....))))).((((...(((((((...((((.((....)).))))..)))))))....(((.(((.....))).)))---..))))...))))..))). ( -36.40)
>DroEre_CAF1 14044 120 - 1
AUCGAAGACCCUUCAAAGCACUUAUGUACUGCGCCUGCUCCUCGUCAAUCCAGCGUUUGCGUUGCAGAAUGAGGUAUUCCAACUGGGUGGAGCAGUGGCCUUUGGCCAGUGCCUUGAAGA
..........((((((.(((((.....(((((.((....((((((.....(((((....)))))....))))))...(((....))).)).)))))((((...))))))))).)))))). ( -43.20)
>DroWil_CAF1 18632 117 - 1
AUCUUAACGAACGCAAGGCACUGAUAUGUUGGGCCUGCUCCUCAUUGAUCCAACGCUUGCGCUGGAGCACCAGGAAUGCCAAAUGCGUGGAGCACUGGC---UGGCCAAGGCUUUGAAGA
.((((.....(((((((((.(..(....)..)))))((((((...((.((((.((....)).)))).))..))))..))....)))))(((((..(((.---...)))..))))).)))) ( -36.00)
>DroAna_CAF1 13409 120 - 1
ACUUUAACGACUUUAAGGCACUGAUAUACUGCGCCUGCUCCUCAUUAAUCCACCGCUUUCGGUGGAGGAUGAGAUAUUCCAGCUGUUCACAGCAAUGACUUUUCGCCAGUGUUUUAAAGA
..........(((((((((((((.......(((.......((((((..(((((((....))))))).))))))........((((....))))..........)))))))))))))))). ( -40.51)
>DroPer_CAF1 15059 117 - 1
ACUUAAGCGAUUUUAAGGCACUGAUGUGUUGGGCUUGCUCCUCGUUGAUCCACCGUUUGCGAUGGAGUAUGAGGAACUCCAAAUGCGAAGAGCAGUUG---CUGGCCAAAGCUUUGAAGA
.(((((((........(((((....))))).((((.(((((((((...((((.((....)).))))..)))))))........(((.....)))...)---).))))...))))..))). ( -38.00)
>consensus
ACCUAAGCGACUUCAAGGCACUGAUGUACUGCGCCUGCUCCUCGUUAAUCCACCGUUUGCGAUGGAGGAUGAGGAAUUCCAAAUGCGUAGAGCAGUGGC__UUGGCCAAUGCUUUGAAGA
..........(((((((((((....)).(((.(((....((((((...((((.((....)).))))..)))))).........(((.....))).........)))))).))))))))). (-21.80 = -22.97 +   1.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:15 2006