Locus 4764

Sequence ID	2R_DroMel_CAF1
Location	15,675,204 – 15,675,309
Length	105
Max. P	0.978034

overview

Window 3

Location	15,675,204 – 15,675,309
Length	105
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	74.61
Mean single sequence MFE	-27.20
Consensus MFE	-16.67
Energy contribution	-16.95
Covariance contribution	0.28
Combinations/Pair	1.15
Mean z-score	-2.12
Structure conservation index	0.61
SVM decision value	1.80
SVM RNA-class probability	0.978034
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15675204 105 + 20766785
CUUUGAUUGGAAAUCGUUGUUUGGUUUUAAUUUUUGUCGCACGGCCACCCAGCAAGUGGCCGACCGGCAAAAAGCAAAACAAAAAAAAAAAAACCAAA--AAGCAAA
...............(((.(((((((((..(((((((((..(((((((.......)))))))..)))))))))(.....).........)))))))))--.)))... ( -31.50)
>DroVir_CAF1 659017 100 + 1
CUUUGAUUGGAAAUCGUUGUUUGGUUUUAAUUUUUGUCGCACGGCCACCCAGCAAGUGGCCAG---GCCGGCAGCCAGUCAGC-CAAG---CAGGCAACUGGGCAAC
...(((((((((((((.....))))))......(((((((..((((((.......))))))..---).)))))))))))))((-(...---(((....))))))... ( -37.30)
>DroGri_CAF1 583628 84 + 1
CUUUGAUUGGAAAUCGUUGUUUGGUUUUAAUUUUUGUCGCACGGCCACCCAGCAAGUGGCCAG---GCAAAC------UGAGC-CGAG---UGGCCA----------
...............((..((((((((.....((((((....((((((.......)))))).)---))))).------.))))-))))---..))..---------- ( -27.80)
>DroSec_CAF1 552459 102 + 1
CUUUGAUUGGAAAUCGUUGUUUGGUUUUAAUUUUUGUCGCACGGCCACCCAGCAAGUGGCCAACCAGCAAAAAACCAAAAAAAAAAAG---AAAGAAA--AUGCAAA
......((((((((((.....))))))...(((((((.(...((((((.......))))))...).))))))).))))..........---.......--....... ( -20.60)
>DroSim_CAF1 453126 99 + 1
CUUUGAUUGGAAAUCGUUGUUUGGUUUUAAUUUUUGUCGCAUGGCCACCCAGCAAGUGGCCGACCGGCAAAAAACCAAAAAAAAAAUG------GAAA--AUGCAAA
.............(((((.(((((((((.....((((((..(((((((.......)))))))..))))))))))))))).....))))------)...--....... ( -27.40)
>DroMoj_CAF1 733937 83 + 1
CUUUGAUUGGAAAUCGUUGUUUGGUUUUAAUUUUUGUCGCACGGCCACCCAACAAGUGGCCAG---GCUGGAGGCACUACACA-CAG--------------------
(((((((..(((((((.....))))))).......)))((..((((((.......))))))..---)).))))..........-...-------------------- ( -18.60)
>consensus
CUUUGAUUGGAAAUCGUUGUUUGGUUUUAAUUUUUGUCGCACGGCCACCCAGCAAGUGGCCAA___GCAAAAAGCCAAACAAA_AAAG____A_GAAA__A_GCAAA
.........(((((((.....)))))))..(((((((.....((((((.......)))))).....))))))).................................. (-16.67 = -16.95 +   0.28)

alignment

secondary structure

dotplot

Window 4

Location	15,675,204 – 15,675,309
Length	105
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	74.61
Mean single sequence MFE	-25.11
Consensus MFE	-14.56
Energy contribution	-14.62
Covariance contribution	0.06
Combinations/Pair	1.08
Mean z-score	-1.55
Structure conservation index	0.58
SVM decision value	0.41
SVM RNA-class probability	0.727216
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15675204 105 - 20766785
UUUGCUU--UUUGGUUUUUUUUUUUUUGUUUUGCUUUUUGCCGGUCGGCCACUUGCUGGGUGGCCGUGCGACAAAAAUUAAAACCAAACAACGAUUUCCAAUCAAAG
.......--(((((((((....((((((((..((.....))..((((((((((.....)))))))).))))))))))..)))))))))....(((.....))).... ( -30.30)
>DroVir_CAF1 659017 100 - 1
GUUGCCCAGUUGCCUG---CUUG-GCUGACUGGCUGCCGGC---CUGGCCACUUGCUGGGUGGCCGUGCGACAAAAAUUAAAACCAAACAACGAUUUCCAAUCAAAG
((((.(((((((((..---...)-)).))))))......((---.((((((((.....)))))))).))...................))))(((.....))).... ( -32.60)
>DroGri_CAF1 583628 84 - 1
----------UGGCCA---CUCG-GCUCA------GUUUGC---CUGGCCACUUGCUGGGUGGCCGUGCGACAAAAAUUAAAACCAAACAACGAUUUCCAAUCAAAG
----------.(((((---((((-((..(------((..((---...)).))).)))))))))))...........................(((.....))).... ( -23.20)
>DroSec_CAF1 552459 102 - 1
UUUGCAU--UUUCUUU---CUUUUUUUUUUUGGUUUUUUGCUGGUUGGCCACUUGCUGGGUGGCCGUGCGACAAAAAUUAAAACCAAACAACGAUUUCCAAUCAAAG
.......--.......---.........(((((((((((((....((((((((.....)))))))).))))........)))))))))....(((.....))).... ( -23.10)
>DroSim_CAF1 453126 99 - 1
UUUGCAU--UUUC------CAUUUUUUUUUUGGUUUUUUGCCGGUCGGCCACUUGCUGGGUGGCCAUGCGACAAAAAUUAAAACCAAACAACGAUUUCCAAUCAAAG
.......--....------.........(((((((((......((((((((((.....)))))))....))).......)))))))))....(((.....))).... ( -22.72)
>DroMoj_CAF1 733937 83 - 1
--------------------CUG-UGUGUAGUGCCUCCAGC---CUGGCCACUUGUUGGGUGGCCGUGCGACAAAAAUUAAAACCAAACAACGAUUUCCAAUCAAAG
--------------------..(-(...((((.......((---.((((((((.....)))))))).)).......))))..))........(((.....))).... ( -18.74)
>consensus
UUUGC_U__UUUC_U____CUUG_UUUGUUUGGCUUUUUGC___CUGGCCACUUGCUGGGUGGCCGUGCGACAAAAAUUAAAACCAAACAACGAUUUCCAAUCAAAG
.......................................((....((((((((.....)))))))).)).......................(((.....))).... (-14.56 = -14.62 +   0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:46 2006