Locus 700

Sequence ID 2L_DroMel_CAF1
Location 2,019,054 – 2,019,145
Length 91
Max. P 0.956047
window1146 window1147

overview

Window 6

Location 2,019,054 – 2,019,145
Length 91
Sequences 4
Columns 92
Reading direction forward
Mean pairwise identity 81.44
Mean single sequence MFE -22.31
Consensus MFE -15.35
Energy contribution -17.41
Covariance contribution 2.06
Combinations/Pair 1.05
Mean z-score -2.32
Structure conservation index 0.69
SVM decision value 1.46
SVM RNA-class probability 0.956047
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2019054 91 + 22407834
GAAGGGUGGGGGAAGUGGAAA-UGAAAAUGGAAGGGGAAAAGCCGCAUAUCCUGCUCAUGUAUGCAUGUGUGCGAGCCUAGGCAAGCAAAUA
...(((..(((...((((..(-(....)).............))))...)))..)))(((....)))...(((..((....))..))).... ( -20.96)
>DroSec_CAF1 36580 84 + 1
GAAGGGUGGGGAAAGUGGAAA-UGAAA-------GGGAAAAGCCGCAUAUCCUGCUCAUGUAUGCAUGUGUGCGGCUGUAGGCAAGCAAAAU
...(((..(((...((((...-.....-------........))))...)))..))).....(((.(((.(((....))).))).))).... ( -22.49)
>DroSim_CAF1 35024 84 + 1
AAAGGGUGGGGAAAGUGGAAA-UGGAA-------GGGAAAAGCCGCAUAUCCUGCUCAUGUAUGCAUGUGUGCGGCUGUAGGCAAGCAAAUA
...(((..(((...((((...-.....-------........))))...)))..))).....(((.(((.(((....))).))).))).... ( -22.49)
>DroYak_CAF1 38230 73 + 1
------------AAGUGGAAAGUGGAA-------GGAGAAAGCCGCAUAUCCUGCUCAUGUAUGCAUGUGUGCGAGCGUGGGCAAGCAAAUA
------------..(((((..((((..-------........))))...)))(((((((((.((((....)))).))))))))).))..... ( -23.30)
>consensus
GAAGGGUGGGGAAAGUGGAAA_UGAAA_______GGGAAAAGCCGCAUAUCCUGCUCAUGUAUGCAUGUGUGCGACCGUAGGCAAGCAAAUA
...((((((((...((((........................))))...)))))))).....(((.(((.(((....))).))).))).... (-15.35 = -17.41 +   2.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 2,019,054 – 2,019,145
Length 91
Sequences 4
Columns 92
Reading direction reverse
Mean pairwise identity 81.44
Mean single sequence MFE -13.30
Consensus MFE -11.18
Energy contribution -11.17
Covariance contribution -0.00
Combinations/Pair 1.20
Mean z-score -1.48
Structure conservation index 0.84
SVM decision value 0.20
SVM RNA-class probability 0.629696
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2019054 91 - 22407834
UAUUUGCUUGCCUAGGCUCGCACACAUGCAUACAUGAGCAGGAUAUGCGGCUUUUCCCCUUCCAUUUUCA-UUUCCACUUCCCCCACCCUUC
....(((((((....))..(((....)))......)))))(((...(.((......))).))).......-..................... ( -12.80)
>DroSec_CAF1 36580 84 - 1
AUUUUGCUUGCCUACAGCCGCACACAUGCAUACAUGAGCAGGAUAUGCGGCUUUUCCC-------UUUCA-UUUCCACUUUCCCCACCCUUC
...............(((((((....(((........))).....)))))))......-------.....-..................... ( -14.80)
>DroSim_CAF1 35024 84 - 1
UAUUUGCUUGCCUACAGCCGCACACAUGCAUACAUGAGCAGGAUAUGCGGCUUUUCCC-------UUCCA-UUUCCACUUUCCCCACCCUUU
...............(((((((....(((........))).....)))))))......-------.....-..................... ( -14.80)
>DroYak_CAF1 38230 73 - 1
UAUUUGCUUGCCCACGCUCGCACACAUGCAUACAUGAGCAGGAUAUGCGGCUUUCUCC-------UUCCACUUUCCACUU------------
....(((((((....))..(((....)))......)))))(((...(.((........-------..)).)..)))....------------ ( -10.80)
>consensus
UAUUUGCUUGCCUACACCCGCACACAUGCAUACAUGAGCAGGAUAUGCGGCUUUUCCC_______UUCCA_UUUCCACUUUCCCCACCCUUC
...............(((((((....(((........))).....)))))))........................................ (-11.18 = -11.17 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:16 2006