Locus 7295

Sequence ID X_DroMel_CAF1
Location 18,169,730 – 18,169,838
Length 108
Max. P 0.641663
window11949 window11950

overview

Window 9

Location 18,169,730 – 18,169,838
Length 108
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 76.68
Mean single sequence MFE -23.18
Consensus MFE -7.48
Energy contribution -8.40
Covariance contribution 0.92
Combinations/Pair 1.21
Mean z-score -1.85
Structure conservation index 0.32
SVM decision value 0.22
SVM RNA-class probability 0.641663
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18169730 108 + 22224390
UU----UUUAAUACCCU--GUAGCUGUGUACUUUAUUUACUUAUCAGACUAA--AGCUGUGGCCAAAUA--UCACUUUACGGAUAUUAACC-ACGUAAUUACACAGAAAUGCAAAGG-AA
..----.......((.(--(((.((((((((((((.((........)).)))--))..((((...((((--((........))))))..))-)).....)))))))...))))..))-.. ( -23.30)
>DroSec_CAF1 31714 107 + 1
UU-----UUAAUACCCU--GUAGCUGUGUACUUUGUUUGCUUAUCAGAGUAA--AGCUGUGGCAAAAUA--UAACUUUAUGGAUAUUAACC-ACGUAAUUACACAGAAACGCAAAGG-AA
..-----.......(((--((..(((((((.(((((.....((((...((((--((.((((......))--)).)))))).))))......-))).)).)))))))..))....)))-.. ( -20.70)
>DroSim_CAF1 31825 112 + 1
UU-----UUAAUACCCUUAGUAGCUGUGUACUUUGUUUGCUUAUCAGAGUAACUACCAUUCAAGGAAUA--UAACUUUAUGGAUAUUAACCAACGGAAUUACACAGAAACUCAGUGG-GA
..-----......(((..(((..(((((((.(((((((((((....)))))....((((..(((.....--...))).)))).........))))))..)))))))..)))....))-). ( -25.70)
>DroEre_CAF1 27096 105 + 1
UUGUAUGUAAAUACCCU--GUAGCUGUGUAUU--------UUAACCGAGUAA--GGCUGCGGCGAAAUA--UCAUUUCAUGGAUAUUAACC-ACGUAAUUACACAGAAAUCCAAAUUGAA
.....(((((.((((((--((((((...((((--------(.....))))).--)))))))).).((((--((........))))))....-..))).)))))................. ( -20.90)
>DroYak_CAF1 29398 110 + 1
AU-----UAAAUACCCU--GUAGCUGUGUAUUCUGAAUAUUUAUCAGAGAAA--AUCUCUGGCAAAAUAUAUAACUUUUUGCAUAUUAACC-ACGCAAUUACACAGAAAUGCUGAGGAAA
..-----......(((.--(((.(((((((...((.........(((((...--..)))))((((((.........)))))).........-...))..)))))))...))).).))... ( -25.30)
>consensus
UU_____UUAAUACCCU__GUAGCUGUGUACUUUGUUUACUUAUCAGAGUAA__AGCUGUGGCAAAAUA__UAACUUUAUGGAUAUUAACC_ACGUAAUUACACAGAAAUGCAAAGG_AA
...................((..((((((((((((.........)))))...........................(((((............))))).)))))))..)).......... ( -7.48 =  -8.40 +   0.92)

alignment

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secondary structure

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dotplot

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Window 0

Location 18,169,730 – 18,169,838
Length 108
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.68
Mean single sequence MFE -23.90
Consensus MFE -6.44
Energy contribution -6.92
Covariance contribution 0.48
Combinations/Pair 1.14
Mean z-score -1.73
Structure conservation index 0.27
SVM decision value 0.04
SVM RNA-class probability 0.555999
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18169730 108 - 22224390
UU-CCUUUGCAUUUCUGUGUAAUUACGU-GGUUAAUAUCCGUAAAGUGA--UAUUUGGCCACAGCU--UUAGUCUGAUAAGUAAAUAAAGUACACAGCUAC--AGGGUAUUAAA----AA
..-.(((((.....((((((......((-(((((((((((.....).))--)).)))))))).(((--(((..((....))....))))))))))))...)--)))).......----.. ( -26.30)
>DroSec_CAF1 31714 107 - 1
UU-CCUUUGCGUUUCUGUGUAAUUACGU-GGUUAAUAUCCAUAAAGUUA--UAUUUUGCCACAGCU--UUACUCUGAUAAGCAAACAAAGUACACAGCUAC--AGGGUAUUAA-----AA
.(-(((....((..(((((((.....((-(((.(((((..........)--))))..))))).(((--(.........))))........)))))))..))--))))......-----.. ( -22.10)
>DroSim_CAF1 31825 112 - 1
UC-CCACUGAGUUUCUGUGUAAUUCCGUUGGUUAAUAUCCAUAAAGUUA--UAUUCCUUGAAUGGUAGUUACUCUGAUAAGCAAACAAAGUACACAGCUACUAAGGGUAUUAA-----AA
.(-((....(((..(((((((......(((.(((....((((.(((...--.....)))..))))(((.....))).))).)))......)))))))..)))..)))......-----.. ( -22.80)
>DroEre_CAF1 27096 105 - 1
UUCAAUUUGGAUUUCUGUGUAAUUACGU-GGUUAAUAUCCAUGAAAUGA--UAUUUCGCCGCAGCC--UUACUCGGUUAA--------AAUACACAGCUAC--AGGGUAUUUACAUACAA
.....((((.....(((((((.....((-(((.((((((........))--))))..)))))((((--......))))..--------..)))))))...)--)))((((....)))).. ( -23.80)
>DroYak_CAF1 29398 110 - 1
UUUCCUCAGCAUUUCUGUGUAAUUGCGU-GGUUAAUAUGCAAAAAGUUAUAUAUUUUGCCAGAGAU--UUUCUCUGAUAAAUAUUCAGAAUACACAGCUAC--AGGGUAUUUA-----AU
..((((.(((.....((((((.((((((-(.....)))))))........((((((...(((((..--...)))))..))))))......)))))))))..--))))......-----.. ( -24.50)
>consensus
UU_CCUUUGCAUUUCUGUGUAAUUACGU_GGUUAAUAUCCAUAAAGUUA__UAUUUCGCCACAGCU__UUACUCUGAUAAGCAAACAAAGUACACAGCUAC__AGGGUAUUAA_____AA
..............(((((((........((.......))..(((((.....))))).................................)))))))....................... ( -6.44 =  -6.92 +   0.48)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:21 2006