Locus 2032

Sequence ID 2L_DroMel_CAF1
Location 5,494,408 – 5,494,517
Length 109
Max. P 0.999870
window3273 window3274

overview

Window 3

Location 5,494,408 – 5,494,517
Length 109
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 95.31
Mean single sequence MFE -26.80
Consensus MFE -26.80
Energy contribution -26.80
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.02
Structure conservation index 1.00
SVM decision value 4.32
SVM RNA-class probability 0.999870
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5494408 109 + 22407834
UGAAAUUGCCAACAUGCCAGAGAUUACCAACUGUCAGUUGAAUGUCAUGCCAAUGGAACAUGCCGUCAACUGAAGUGUUGAACUAAUUUAACAGCUGUUGAAA-AAAAAU--
.........(((((.((...((((((.((((..((((((((.((.((((((...))..)))).))))))))))...))))...))))))....)))))))...-......-- ( -26.80)
>DroVir_CAF1 166228 111 + 1
AGAAAUUGCCAACAUGCCAGAGAUUACCAACUGUCAGUUGAAUGUCAUGCCAAUGGAACAUGCCGUCAACUGAAGUGUUGAACUAAUUUAGCAGCUGUUGAAA-AAAGCCAA
.........((((((((...((((((.((((..((((((((.((.((((((...))..)))).))))))))))...))))...)))))).)))..)))))...-........ ( -26.80)
>DroGri_CAF1 176341 111 + 1
AGAAAUUGCCAACAUGCCAGAGAUUACCAACUGUCAGUUGAAUGUCAUGCCGUUGGAACAUGCCGUCAACUGAAGUGUUGAACUAAUUUAGCAGCUGUUGAAA-AAAGCCAA
.........((((((((...((((((.((((..((((((((.((.((((((...))..)))).))))))))))...))))...)))))).)))..)))))...-........ ( -26.80)
>DroSim_CAF1 125025 109 + 1
UGAAAUUGCCAACAUGCCAGAGAUUACCAACUGUCAGUUGAAUGUCAUGCCAAUGGAACAUGCCGUCAACUGAAGUGUUGAACUAAUUUAACAGCUGUUGAAA-AAAAAU--
.........(((((.((...((((((.((((..((((((((.((.((((((...))..)))).))))))))))...))))...))))))....)))))))...-......-- ( -26.80)
>DroWil_CAF1 168185 109 + 1
AGAAAUUGCCAACAUGCCAGAGAUUACCAACUGUCAGUUGAAUGUCAUGCCAAUGGAACAUGCCGUCAACUGAAGUGUUGAACUAAUUUAACAGCUGUUGAAA-AAAGAA--
.........(((((.((...((((((.((((..((((((((.((.((((((...))..)))).))))))))))...))))...))))))....)))))))...-......-- ( -26.80)
>DroMoj_CAF1 184602 112 + 1
AGAAAUUGCCAACAUGCCAGAGAUUACCAACUGUCAGUUGAAUGUCAUGCCAAUGGAACAUGCCGUCAACUGAAGUGUUGAACUAAUUUAGCAGCUGUUGAAAAAAAGCCAA
.........((((((((...((((((.((((..((((((((.((.((((((...))..)))).))))))))))...))))...)))))).)))..)))))............ ( -26.80)
>consensus
AGAAAUUGCCAACAUGCCAGAGAUUACCAACUGUCAGUUGAAUGUCAUGCCAAUGGAACAUGCCGUCAACUGAAGUGUUGAACUAAUUUAACAGCUGUUGAAA_AAAGAC__
.........(((((.((...((((((.((((..((((((((.((.((((((...))..)))).))))))))))...))))...))))))....)))))))............ (-26.80 = -26.80 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 5,494,408 – 5,494,517
Length 109
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 95.31
Mean single sequence MFE -27.69
Consensus MFE -27.86
Energy contribution -27.61
Covariance contribution -0.25
Combinations/Pair 1.03
Mean z-score -1.91
Structure conservation index 1.01
SVM decision value 4.18
SVM RNA-class probability 0.999827
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5494408 109 - 22407834
--AUUUUU-UUUCAACAGCUGUUAAAUUAGUUCAACACUUCAGUUGACGGCAUGUUCCAUUGGCAUGACAUUCAACUGACAGUUGGUAAUCUCUGGCAUGUUGGCAAUUUCA
--......-..(((((((((.....((((..(((((...((((((((..(((((((.....)))))).)..))))))))..)))))))))....))).))))))........ ( -26.50)
>DroVir_CAF1 166228 111 - 1
UUGGCUUU-UUUCAACAGCUGCUAAAUUAGUUCAACACUUCAGUUGACGGCAUGUUCCAUUGGCAUGACAUUCAACUGACAGUUGGUAAUCUCUGGCAUGUUGGCAAUUUCU
........-......(((((((((.......(((((...((((((((..(((((((.....)))))).)..))))))))..))))).......))))).))))......... ( -28.84)
>DroGri_CAF1 176341 111 - 1
UUGGCUUU-UUUCAACAGCUGCUAAAUUAGUUCAACACUUCAGUUGACGGCAUGUUCCAACGGCAUGACAUUCAACUGACAGUUGGUAAUCUCUGGCAUGUUGGCAAUUUCU
........-......(((((((((.......(((((...((((((((..(((((((.....)))))).)..))))))))..))))).......))))).))))......... ( -28.94)
>DroSim_CAF1 125025 109 - 1
--AUUUUU-UUUCAACAGCUGUUAAAUUAGUUCAACACUUCAGUUGACGGCAUGUUCCAUUGGCAUGACAUUCAACUGACAGUUGGUAAUCUCUGGCAUGUUGGCAAUUUCA
--......-..(((((((((.....((((..(((((...((((((((..(((((((.....)))))).)..))))))))..)))))))))....))).))))))........ ( -26.50)
>DroWil_CAF1 168185 109 - 1
--UUCUUU-UUUCAACAGCUGUUAAAUUAGUUCAACACUUCAGUUGACGGCAUGUUCCAUUGGCAUGACAUUCAACUGACAGUUGGUAAUCUCUGGCAUGUUGGCAAUUUCU
--......-..(((((((((.....((((..(((((...((((((((..(((((((.....)))))).)..))))))))..)))))))))....))).))))))........ ( -26.50)
>DroMoj_CAF1 184602 112 - 1
UUGGCUUUUUUUCAACAGCUGCUAAAUUAGUUCAACACUUCAGUUGACGGCAUGUUCCAUUGGCAUGACAUUCAACUGACAGUUGGUAAUCUCUGGCAUGUUGGCAAUUUCU
...............(((((((((.......(((((...((((((((..(((((((.....)))))).)..))))))))..))))).......))))).))))......... ( -28.84)
>consensus
__GGCUUU_UUUCAACAGCUGCUAAAUUAGUUCAACACUUCAGUUGACGGCAUGUUCCAUUGGCAUGACAUUCAACUGACAGUUGGUAAUCUCUGGCAUGUUGGCAAUUUCU
...............(((((((((.......(((((...((((((((..(((((((.....)))))).)..))))))))..))))).......))))).))))......... (-27.86 = -27.61 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:38 2006