Locus 2038

Sequence ID 3R_DroMel_CAF1
Location 5,787,701 – 5,787,799
Length 98
Max. P 0.654076
window3341

overview

Window 1

Location 5,787,701 – 5,787,799
Length 98
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.20
Mean single sequence MFE -30.45
Consensus MFE -21.52
Energy contribution -21.52
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.49
Structure conservation index 0.71
SVM decision value 0.25
SVM RNA-class probability 0.654076
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5787701 98 + 27905053
-----UGC-CGAGUGCCGCAGCACUCG---CAAGUUGCA-----AGUU------GCACA-AACAUGUUGCUCACUGGCUCCGCGACAUGAUUCUGAGGCGCAGAUAUAA-AACCGAAAAA
-----.((-(((((((....))))))(---(((.(....-----).))------))...-..((((((((...........)))))))).......)))..........-.......... ( -28.40)
>DroGri_CAF1 146567 106 + 1
---AGUGC-CGAGUGCCGCAGCACUCGCCGCAAGUU---GUUGCUGUU------GCACA-AACAUGUUGCUCACUGGCUCCGCGACAUGAUUCUGAGGCGCAGAUAUAAAAACCAAAAAG
---.((((-(..((((.((((((..((.(....).)---).)))))).------)))).-..((((((((...........)))))))).......)))))................... ( -38.30)
>DroWil_CAF1 115345 93 + 1
------GC-CGAGUGCCCGAGCACUCC--------GCCA-----AGUU------GCACAAAACAUGUUGCUCACUGGCUCCGCGACAUGAUUCUGAGGCGCAGAUAUAA-AACCGAAAUA
------((-(((((((....)))))).--------((..-----....------))......((((((((...........)))))))).......)))..........-.......... ( -24.80)
>DroMoj_CAF1 72876 112 + 1
---GCCGC-CGAGUGCCGCAGCACUCG---CAAGUUGCUGUUGUUGUUGCAGUCUUACA-AACAUGUUGCUCACUGGCUCCGCGACAUGAUACUGAGGCGCAGAUAUUAAAACUGAAAAA
---((.((-(((.(((.((((((...(---(.....))...)))))).))).)).....-..((((((((...........)))))))).......)))))................... ( -33.10)
>DroAna_CAF1 31774 96 + 1
GGCUCUGC-CGAGUGCUGGAGCACUCG---CAA------------GUU------GCACA-AACAUGUUGCUCACUGGCUCCGCGACAUGAUUCUGAGGCGCAGAUAUAA-AACCGAAAAA
...(((((-(((((((....)))))))---...------------((.------.((.(-(.((((((((...........)))))))).)).))..))))))).....-.......... ( -31.40)
>DroPer_CAF1 85273 92 + 1
-----UGCCCGAGUGCCGCAGCACUCG---CAA------------GUU------GCACA-AACAUGUUGCUCACUGGCUCCGCGACAUGAUUCUGAGGCGCAGAUAUAA-AACCGAAAAA
-----(((((((((((....))))))(---(..------------...------))...-..((((((((...........)))))))).......)).))).......-.......... ( -26.70)
>consensus
_____UGC_CGAGUGCCGCAGCACUCG___CAA__U_________GUU______GCACA_AACAUGUUGCUCACUGGCUCCGCGACAUGAUUCUGAGGCGCAGAUAUAA_AACCGAAAAA
......((.(((((((....))))))....................................((((((((...........)))))))).......)))..................... (-21.52 = -21.52 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:53 2006