Locus 7031

Sequence ID 3R_DroMel_CAF1
Location 18,537,985 – 18,538,180
Length 195
Max. P 0.785128
window11389 window11390

overview

Window 9

Location 18,537,985 – 18,538,100
Length 115
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 76.85
Mean single sequence MFE -33.03
Consensus MFE -15.55
Energy contribution -15.17
Covariance contribution -0.39
Combinations/Pair 1.24
Mean z-score -2.13
Structure conservation index 0.47
SVM decision value 0.57
SVM RNA-class probability 0.785128
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18537985 115 - 27905053
ACCGCCUAUCGCAAGGCGGGCGUCAAGGGACGCGCCAGAAAGCAAUUUUACAAAACAAUCAAAAGGGGAAAGGAGACUAUCACGGUAAGU----GCACA-UGCUCAUAUUUCAAUGCAAU
.((((((......))))))(((((....)))))(((.((((....))))..................((.((....)).))..)))..(.----((...-.)).)............... ( -29.70)
>DroVir_CAF1 4570 113 - 1
ACCGCCUACCGAAAGGCGGGCGUCAAGGGGCGCGCCAGAAAGCAAUUCUACAAAACAAUCAAAAGGGGAAAGGAGACUAUAACGGUAAUUG--U-CAU----CUCCUCACAAAUUAUAAG
.((.(((.((....)).(((((((....))))).))((((.....))))..............)))))..((((((..((((......)))--)-..)----)))))............. ( -28.10)
>DroPse_CAF1 4648 119 - 1
GUUGCCUACCGCAAGGGGGGCGUCAAGGGCCGAGCCAGAAAGCAAUUUUACAAAACAAUCAAAAGGGGCAAAGAGACCAUCACGGUAGGUCCCUGAACU-GGGUUCAGUUUCAGUUCAAA
(.((((..((....))..)))).)..(((((..(((.((((....)))).........((....)))))......(((.....))).))))).((((((-(((......))))))))).. ( -38.30)
>DroMoj_CAF1 4631 115 - 1
ACCGCCUAUCGCAAGGCGGGCGUCAAGGGACGCGCCAGAAAGCAAUUUUACAAAACAAUCAAAAGGGGCAAGGAGACUAUAACGGUAACUG--U-UACAAGGCUCCUAUGAGA--AUGAG
.((((((......))))))(((((....)))))((......))............((.(((..((((((.((....)).((((((...)))--)-))....)))))).)))..--.)).. ( -36.00)
>DroAna_CAF1 8130 100 - 1
ACCGCCUACAGGAAGGCGGGCGUCAAAGGACGUGCCAGAAAGCAAUUUUACAAAACAAUCAAAAGGGGAAAGGAAACUAUAACGGUACGU----------UGCU----------UGCAAU
.((((((......))))))..(.(((..((((((((.((((....))))................(..(.((....)).)..))))))))----------)..)----------)))... ( -29.70)
>DroPer_CAF1 4632 119 - 1
GUUGCCUACCGCAAGGGGGGCGUCAAGGGCCGAGCCAGAAAGCAAUUUUACAAAACAAUCAAAAGGGGCAAAGAGACCAUCACGGUAGGUCCCUGAAUU-CGGUUCAGUUUCAGUUCAAA
(.((((..((....))..)))).)..((((((((...((((....))))..............((((((......(((.....)))..))))))...))-)))))).............. ( -36.40)
>consensus
ACCGCCUACCGCAAGGCGGGCGUCAAGGGACGCGCCAGAAAGCAAUUUUACAAAACAAUCAAAAGGGGAAAGGAGACUAUAACGGUAAGU___U_AAC__GGCUCCUAUUUCA_UACAAA
((((((..((....))..)))(((...((.....)).((((....)))).........................)))......))).................................. (-15.55 = -15.17 +  -0.39)

alignment

Postscript

secondary structure

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dotplot

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Window 0

Location 18,538,060 – 18,538,180
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 84.39
Mean single sequence MFE -50.80
Consensus MFE -35.64
Energy contribution -35.53
Covariance contribution -0.11
Combinations/Pair 1.29
Mean z-score -2.93
Structure conservation index 0.70
SVM decision value 0.46
SVM RNA-class probability 0.744652
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18538060 120 - 27905053
UGGUCGAGCAUAACAACUCCAAGGGAAGCAGCAAGAUUGCGGCCUUCCUGCCGGAACGGCAGCUAUGGGGUUGGUAUGGUACCGCCUAUCGCAAGGCGGGCGUCAAGGGACGCGCCAGAA
((((..(.((((.(((((((((((((.((.(((....))).)).)))))((((...)))).....)))))))).)))).).((((((......))))))(((((....)))))))))... ( -53.50)
>DroVir_CAF1 4643 120 - 1
UGGUUGAGCACAACAACUCCAAGGGUAGCAGCAAAAUUGCCGCCUUUUUGCCAGAGCGGCAAUUGUGGGGUUGGUUUGGAACCGCCUACCGAAAGGCGGGCGUCAAGGGGCGCGCCAGAA
.............((((((((((((..((((.....))))..)))).(((((.....)))))...)))))))).(((((..((((((......))))))(((((....))))).))))). ( -49.40)
>DroGri_CAF1 4876 120 - 1
UGGUUGAGCACAACAACUCCAAAGGCAGCAGCAAAAUUGCAGCUUUCCUGCCAGAGCGGCAGUUAUGGGGUUGGUUUGGCACAGCCUACCGCAAGGCGGGCGUCAAGGGACGAGCCAGAA
.............(((((((((((((.((((.....)))).))))).(((((.....)))))...)))))))).((((((...(((..((....))..)))(((....)))..)))))). ( -50.10)
>DroWil_CAF1 5035 120 - 1
UGGUUGAGCACAAUAACUCCAAGGGCAGCAGCAAGAUAGCAGCAUUUCUGCCCGAGAGACAGCUCUGGGGCUGGUAUGGUACAGCUUACCGCAAGGCUGGAGUUAAAGGCCGGGCCAGAA
(((((..((....((((((((.((((....((......))..(((.((.((((.((((....)))).)))).)).))).....)))).((....)).))))))))...))..)))))... ( -45.00)
>DroAna_CAF1 8190 120 - 1
UGGUUGAACAUAACAACUCCAAGGGAAGCAGCAAAAUAGCUGCCUUCCUGCCGGAGCGACAGCUCUGGGGUUGGUGUGGCACCGCCUACAGGAAGGCGGGCGUCAAAGGACGUGCCAGAA
.............(((((((.(((((.(((((......))))).)))))...(((((....)))))))))))).(.((((.((((((......))))))(((((....))))))))).). ( -56.90)
>DroPer_CAF1 4711 120 - 1
UGGUCGAGCAUAACAACUCCAAGGGUAGCAGCAAGAUAGCCGCCUUUCUGCCGGAGCGGCAGCUGUGGGGUUGGAAUGGCGUUGCCUACCGCAAGGGGGGCGUCAAGGGCCGAGCCAGAA
((((((.((....((((((((((((..((.........))..)))).((((((...))))))...))))))))...((((...(((..((....))..)))))))...))))).)))... ( -49.90)
>consensus
UGGUUGAGCACAACAACUCCAAGGGAAGCAGCAAAAUAGCAGCCUUCCUGCCGGAGCGGCAGCUAUGGGGUUGGUAUGGCACCGCCUACCGCAAGGCGGGCGUCAAGGGACGAGCCAGAA
.............((((((((.((...((.((......)).))....(((((.....))))))).))))))))...((((...(((..((....))..)))(((....)))..))))... (-35.64 = -35.53 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:53 2006