Locus 77

Sequence ID 4_DroMel_CAF1
Location 574,266 – 574,386
Length 120
Max. P 0.609530
window123 window124

overview

Window 3

Location 574,266 – 574,386
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 78.04
Mean single sequence MFE -17.58
Consensus MFE -10.43
Energy contribution -10.21
Covariance contribution -0.22
Combinations/Pair 1.08
Mean z-score -1.82
Structure conservation index 0.59
SVM decision value 0.13
SVM RNA-class probability 0.596652
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 574266 120 + 1281640
UAUUACCAUAAUCGUCGUCAUCUGCCGAACACAAAUAUUAUUUACCAUCUUAUUCUCUCCUUAUUAUUACACUAUCUGUGCGCUAUUUAAACUUUAUAUAGCCCGGUAAAUGACGAUGUU
............(((((((((.(((((..........................................(((.....))).(((((.((.....)).))))).))))).))))))))).. ( -25.50)
>DroSec_CAF1 4779 97 + 1
--UUACAUUAAUUGUCGUCAUCUGCCGAACACAAACAUUAUUUACCGUCUUAUUCUCUC---------------------CGCGAUUUAAACUUUAUACGGCUCGGUAUAUGACUAUGUU
--..............(((((.((((((....(((.....))).((((...........---------------------.................)))).)))))).)))))...... ( -12.99)
>DroSim_CAF1 4746 94 + 1
--UUACAUUAAUCGUCGUCAUCUGCCGAACACAAACAUUAUUUACCGUCUUA---UCUC---------------------CGCGAUUUAAACUUUAUACGGCUCGGUAUAUGACUAUGUU
--..........(((.(((((.((((((....(((.....))).((((...(---((..---------------------...)))...........)))).)))))).))))).))).. ( -14.24)
>consensus
__UUACAUUAAUCGUCGUCAUCUGCCGAACACAAACAUUAUUUACCGUCUUAUUCUCUC_____________________CGCGAUUUAAACUUUAUACGGCUCGGUAUAUGACUAUGUU
............(((.(((((.(((((............................................................................))))).))))).))).. (-10.43 = -10.21 +  -0.22)

alignment

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secondary structure

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dotplot

Postscript

Window 4

Location 574,266 – 574,386
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 78.04
Mean single sequence MFE -21.81
Consensus MFE -15.40
Energy contribution -14.52
Covariance contribution -0.88
Combinations/Pair 1.18
Mean z-score -1.44
Structure conservation index 0.71
SVM decision value 0.15
SVM RNA-class probability 0.609530
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 574266 120 - 1281640
AACAUCGUCAUUUACCGGGCUAUAUAAAGUUUAAAUAGCGCACAGAUAGUGUAAUAAUAAGGAGAGAAUAAGAUGGUAAAUAAUAUUUGUGUUCGGCAGAUGACGACGAUUAUGGUAAUA
..(.(((((((((.(((((((((.((.....)).)))))(((((((((.(((...........................))).))))))))))))).))))))))).)............ ( -27.63)
>DroSec_CAF1 4779 97 - 1
AACAUAGUCAUAUACCGAGCCGUAUAAAGUUUAAAUCGCG---------------------GAGAGAAUAAGACGGUAAAUAAUGUUUGUGUUCGGCAGAUGACGACAAUUAAUGUAA--
......(((((...((((((((.(((..((((..(((((.---------------------..........).))))))))..))).)).))))))...)))))..............-- ( -18.00)
>DroSim_CAF1 4746 94 - 1
AACAUAGUCAUAUACCGAGCCGUAUAAAGUUUAAAUCGCG---------------------GAGA---UAAGACGGUAAAUAAUGUUUGUGUUCGGCAGAUGACGACGAUUAAUGUAA--
.((((((((.(((((......)))))..(((...(((((.---------------------(((.---..(((((........)))))...))).)).)))...))))))).))))..-- ( -19.80)
>consensus
AACAUAGUCAUAUACCGAGCCGUAUAAAGUUUAAAUCGCG_____________________GAGAGAAUAAGACGGUAAAUAAUGUUUGUGUUCGGCAGAUGACGACGAUUAAUGUAA__
......(((((...((((((((.(((..(((((.....(................................)....)))))..))).)).))))))...)))))................ (-15.40 = -14.52 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:48 2006