Locus 5283

Sequence ID 2R_DroMel_CAF1
Location 17,163,014 – 17,163,127
Length 113
Max. P 0.885469
window8443 window8444

overview

Window 3

Location 17,163,014 – 17,163,127
Length 113
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 81.20
Mean single sequence MFE -29.83
Consensus MFE -22.82
Energy contribution -23.10
Covariance contribution 0.28
Combinations/Pair 1.09
Mean z-score -1.81
Structure conservation index 0.76
SVM decision value 0.69
SVM RNA-class probability 0.824169
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17163014 113 + 20766785
AGAUUCUGCAGCGCCUGCUCCAAUUACGAAGGGUGAUUGAAAAGCAGUCGAGCUACAGAUUCUACUCUUGGUAAGUACGCAGCUUCAGAGUCUGCAUACAUAAACACACAUAA
(((.((((.(((..(((((.(((((((.....)))))))...)))))....))).)))).)))...........(((.((((((....)).)))).))).............. ( -32.00)
>DroSec_CAF1 30203 106 + 1
AGAUUCUGCAGCGCCUGCUCCAAUUACGAAGGGUGAUUGAGAAGCAGUCGAGCUACAGAUUCUACUCUUGGUAAGUACUCAACUUUAGAGUCUUCAUAUAUAAAA-------A
(((.((((.(((..(((((((((((((.....))))))).).)))))....))).)))).)))(((((....((((.....)))).)))))..............-------. ( -30.40)
>DroSim_CAF1 31373 113 + 1
AGAUUCUGCAGCGCCUGCUCCAAUUACGAAGGGUGAUUGAGAAGCAGUCGAGCUACAGAUUCUACUCUUGGUAAGUACGCAACUUUACAGUCUUCAUGUAUAGAAACACAUAA
(((.((((.(((..(((((((((((((.....))))))).).)))))....))).)))).)))...................((.((((.......)))).)).......... ( -28.00)
>DroEre_CAF1 31151 113 + 1
AGAUUCUGCAGCGCCUGCUCCAGUUACGAAGGGUGAUUGAGAAGCAGUCUAGCUACAGAUUCUACUCUUGGUAAGUAAGCAACAUCAGGUUCUUCAUACUUACAAACACAUAA
(((.((((.(((..(((((((((((((.....))))))).).)))))....))).)))).))).......(((((((((.(((.....)))))...))))))).......... ( -32.10)
>DroYak_CAF1 30445 108 + 1
AGAUUCUGCAGCGGCUGCUCCAGUUACGAAGGGUGAUUGAGAAGCAGUCGAGCUACAGAUUCUACUCUUGGUAAGUAACCAACUUCUUGU-CUUCAU----AUAAACACAUAA
(((.((((.((((((((((((((((((.....))))))).).)))))))..))).)))).)))....(((((.....)))))........-......----............ ( -31.60)
>DroPer_CAF1 46408 103 + 1
AGAUCCUGCAGCGACUGCUCCAGAUGCGCAGAGUUAUUGAGAAGCAGUCCAGCUACAGAUUCUACUCCUGGUAAGAUCGACACCUCAGGUUUCCC-G--AUAGUU-------U
(((..(((.((((((((((((((..((.....))..))).).)))))))..))).)))..)))(((..(((..(((((.........))))).))-)--..))).-------. ( -24.90)
>consensus
AGAUUCUGCAGCGCCUGCUCCAAUUACGAAGGGUGAUUGAGAAGCAGUCGAGCUACAGAUUCUACUCUUGGUAAGUACGCAACUUCAGAGUCUUCAUA_AUAAAAACACAUAA
(((.((((.(((..(((((((((((((.....))))))).).)))))....))).)))).))).................................................. (-22.82 = -23.10 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 17,163,014 – 17,163,127
Length 113
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 81.20
Mean single sequence MFE -32.63
Consensus MFE -23.74
Energy contribution -23.79
Covariance contribution 0.06
Combinations/Pair 1.09
Mean z-score -2.23
Structure conservation index 0.73
SVM decision value 0.94
SVM RNA-class probability 0.885469
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17163014 113 - 20766785
UUAUGUGUGUUUAUGUAUGCAGACUCUGAAGCUGCGUACUUACCAAGAGUAGAAUCUGUAGCUCGACUGCUUUUCAAUCACCCUUCGUAAUUGGAGCAGGCGCUGCAGAAUCU
.(((.((.((....((((((((.((....))))))))))..))))...)))((.((((((((....((((((..((((.((.....)).))))))))))..)))))))).)). ( -36.40)
>DroSec_CAF1 30203 106 - 1
U-------UUUUAUAUAUGAAGACUCUAAAGUUGAGUACUUACCAAGAGUAGAAUCUGUAGCUCGACUGCUUCUCAAUCACCCUUCGUAAUUGGAGCAGGCGCUGCAGAAUCU
.-------..............(((((.((((.....))))....)))))(((.((((((((....(((((.(.((((.((.....)).))))))))))..)))))))).))) ( -29.00)
>DroSim_CAF1 31373 113 - 1
UUAUGUGUUUCUAUACAUGAAGACUGUAAAGUUGCGUACUUACCAAGAGUAGAAUCUGUAGCUCGACUGCUUCUCAAUCACCCUUCGUAAUUGGAGCAGGCGCUGCAGAAUCU
((((((((....)))))))).((((....))))...(((((.....)))))((.((((((((....(((((.(.((((.((.....)).))))))))))..)))))))).)). ( -33.30)
>DroEre_CAF1 31151 113 - 1
UUAUGUGUUUGUAAGUAUGAAGAACCUGAUGUUGCUUACUUACCAAGAGUAGAAUCUGUAGCUAGACUGCUUCUCAAUCACCCUUCGUAACUGGAGCAGGCGCUGCAGAAUCU
...((.((..(((((((...............)))))))..)))).....(((.((((((((....(((((((...................)))))))..)))))))).))) ( -31.77)
>DroYak_CAF1 30445 108 - 1
UUAUGUGUUUAU----AUGAAG-ACAAGAAGUUGGUUACUUACCAAGAGUAGAAUCUGUAGCUCGACUGCUUCUCAAUCACCCUUCGUAACUGGAGCAGCCGCUGCAGAAUCU
...(((.(((..----..))).-))).....(((((.....)))))....(((.((((((((..(.(((((((...................)))))))).)))))))).))) ( -29.71)
>DroPer_CAF1 46408 103 - 1
A-------AACUAU--C-GGGAAACCUGAGGUGUCGAUCUUACCAGGAGUAGAAUCUGUAGCUGGACUGCUUCUCAAUAACUCUGCGCAUCUGGAGCAGUCGCUGCAGGAUCU
.-------.(((.(--(-((....))...((((.......)))).)))))(((.((((((((..(((((((((...................))))))))))))))))).))) ( -35.61)
>consensus
UUAUGUGUUUCUAU_UAUGAAGAACCUGAAGUUGCGUACUUACCAAGAGUAGAAUCUGUAGCUCGACUGCUUCUCAAUCACCCUUCGUAACUGGAGCAGGCGCUGCAGAAUCU
....................................(((((.....)))))((.((((((((....(((((((...................)))))))..)))))))).)). (-23.74 = -23.79 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:09 2006