Locus 5088

Sequence ID 2L_DroMel_CAF1
Location 14,518,606 – 14,518,704
Length 98
Max. P 0.994749
window8098 window8099

overview

Window 8

Location 14,518,606 – 14,518,704
Length 98
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 73.53
Mean single sequence MFE -32.96
Consensus MFE -24.16
Energy contribution -25.32
Covariance contribution 1.16
Combinations/Pair 1.15
Mean z-score -1.20
Structure conservation index 0.73
SVM decision value 0.66
SVM RNA-class probability 0.813905
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14518606 98 + 22407834
UUA----------------------AAAUACUUGUUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUUCUUAAUUUGAU
...----------------------............((((((((((((.......)))))((((((.((...)).)))).)).................)))))))............. ( -32.20)
>DroSec_CAF1 50205 104 + 1
------------CGUGCAUGAAUUCAACCAUGGUUUGGCUCCGGCCGCGCAG--AUGGCGG--AGGUCGUGCUGGAGAGGGACAUUCUACCACUGAACCACCGAUGCUGCUUAAAUUGAU
------------...((((((.(((..((((.((.((((....)))).))..--))))..)--)).))))))(((((((.....)))).))).........((((.........)))).. ( -28.60)
>DroSim_CAF1 35849 120 + 1
UUAAUAAUAAUACAGGUAUUAAUAAAAAUAUUGGUUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUGCUUAAAUUGAU
(((((..(((((....)))))...........(((..((((((((((((.......)))))((((((.((...)).)))).)).................))))))).)))...))))). ( -34.80)
>DroEre_CAF1 46950 98 + 1
UUA----------------------AAAAUUUCGUUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUGCUUAUUUUAGU
...----------------------(((((...((..((((((((((((.......)))))((((((.((...)).)))).)).................))))))).))..)))))... ( -33.50)
>DroYak_CAF1 40937 98 + 1
UAA----------------------AAAAUUGUGUUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUGCUUAAUUUGAU
...----------------------.((((((.((..((((((((((((.......)))))((((((.((...)).)))).)).................))))))).)).))))))... ( -35.70)
>consensus
UUA______________________AAAAAUUGGUUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUGCUUAAUUUGAU
.....................................((((((((((((.......)))))((((((.((...)).)))).)).................)))))))............. (-24.16 = -25.32 +   1.16)

alignment

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secondary structure

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dotplot

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Window 9

Location 14,518,606 – 14,518,704
Length 98
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 73.53
Mean single sequence MFE -34.50
Consensus MFE -30.66
Energy contribution -30.86
Covariance contribution 0.20
Combinations/Pair 1.17
Mean z-score -1.53
Structure conservation index 0.89
SVM decision value 2.51
SVM RNA-class probability 0.994749
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14518606 98 - 22407834
AUCAAAUUAAGAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAACAAGUAUUU----------------------UAA
.............(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))............----------------------... ( -35.90)
>DroSec_CAF1 50205 104 - 1
AUCAAUUUAAGCAGCAUCGGUGGUUCAGUGGUAGAAUGUCCCUCUCCAGCACGACCU--CCGCCAU--CUGCGCGGCCGGAGCCAAACCAUGGUUGAAUUCAUGCACG------------
..........(((...(((((.((.((((((..((..(((............))).)--)..))).--))).)).)))))(((((.....))))).......)))...------------ ( -28.00)
>DroSim_CAF1 35849 120 - 1
AUCAAUUUAAGCAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAACCAAUAUUUUUAUUAAUACCUGUAUUAUUAUUAA
.............(((((((..((((.......))))((.(((((((...)))))))))(((((.......)))))))))))).............((.(((((....))))).)).... ( -36.80)
>DroEre_CAF1 46950 98 - 1
ACUAAAAUAAGCAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAACGAAAUUUU----------------------UAA
.............(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))............----------------------... ( -35.90)
>DroYak_CAF1 40937 98 - 1
AUCAAAUUAAGCAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAACACAAUUUU----------------------UUA
.............(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))............----------------------... ( -35.90)
>consensus
AUCAAAUUAAGCAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAACAAAUAUUU______________________UAA
.............(((((((..((((.(((((((.........)))))))..))))...(((((.......))))))))))))..................................... (-30.66 = -30.86 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:39 2006