Locus 6331

Sequence ID	3R_DroMel_CAF1
Location	16,573,069 – 16,573,164
Length	95
Max. P	0.880860

overview

Window 3

Location	16,573,069 – 16,573,164
Length	95
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	77.39
Mean single sequence MFE	-31.40
Consensus MFE	-23.79
Energy contribution	-23.68
Covariance contribution	-0.11
Combinations/Pair	1.21
Mean z-score	-1.40
Structure conservation index	0.76
SVM decision value	0.91
SVM RNA-class probability	0.880860
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16573069 95 + 27905053
-----A-UCGAUGUCUU-UACAGAUGUACUUCGGAGUGUGCGUGACCAUCCUGAUGACCGCGUCGUGGGUGGGGGCCACCCACUGCAUUAAGUACAUGUACA
-----.-..........-...(.((((((((...((((((((((..(((....)))..))))).((((((((...)))))))).))))))))))))).)... ( -31.80)
>DroVir_CAF1 158033 93 + 1
--------ACGUGUCCG-GGCAGAUGUACUUUGGCGUGUGCGUUACCAUUCUAGUGACUGCCUCAUGGGUGGGCGCCACGCACUGCAUCAAGUACAUGUAUC
--------((((((.(.-....((((((.....(((((.((((..((((((..((((.....)))))))))))))))))))..))))))..).))))))... ( -32.20)
>DroWil_CAF1 150072 94 + 1
-------UCUCUUGAUC-UGCAGAUGUACUAUGGUGUGUGCGUGACCAUUCUGGUGACCGGGUCAUGGGUAGGAGCCACUCAUACCAUCAAGUAUAUGUACA
-------..........-.(.(.(((((((((((((((.((((((((.....(....)..)))))))(((....))).).))))))))..))))))).).). ( -30.00)
>DroMoj_CAF1 131193 94 + 1
--------AUCUUUAUGCUACAGAUGUACUUUGGGGUGUGCGUCACGAUUCUAGUGACUGCUUCGUGGGUGGGCGCCACGCACUGCAUCAAGUACAUGUAUU
--------.............(.((((((((((.((((((((((((.......))))).))...(((((....).))))))))).))..)))))))).)... ( -31.00)
>DroAna_CAF1 127439 101 + 1
AAACAAAUAAAUUUCCC-UUCAGAUGUACUUCGGGGUGUGCGUGACCAUCCUGAUGACUGCCUCGUGGGUGGGGGCCACGCAUUGCAUCAAGUACAUGUACA
.................-...(.((((((((.((...(((((((.(((((((((........))).))))))....)))))))....)))))))))).)... ( -30.10)
>DroPer_CAF1 139439 88 + 1
-------------UCGU-UGCAGAUGUACUUCGGGGUGUGCGUGACCAUCCUGAUGACCGCCUCAUGGGUGGGGGCCACGCACUGCAUCAAGUACAUGUACA
-------------..((-.(((..(((((((.(..(((((((((.(((((((((........))).))))))....))))))).))..))))))))))))). ( -33.30)
>consensus
________AUAUUUCUC_UGCAGAUGUACUUCGGGGUGUGCGUGACCAUCCUGAUGACCGCCUCAUGGGUGGGGGCCACGCACUGCAUCAAGUACAUGUACA
.....................(.(((((((((((.(((((.((..((((((..((((.....))))))))))..))))))).)))....)))))))).)... (-23.79 = -23.68 +  -0.11)

alignment

secondary structure

dotplot

Window 4

Location	16,573,069 – 16,573,164
Length	95
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	77.39
Mean single sequence MFE	-26.63
Consensus MFE	-18.13
Energy contribution	-19.46
Covariance contribution	1.33
Combinations/Pair	1.17
Mean z-score	-1.07
Structure conservation index	0.68
SVM decision value	0.01
SVM RNA-class probability	0.539682
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16573069 95 - 27905053
UGUACAUGUACUUAAUGCAGUGGGUGGCCCCCACCCACGACGCGGUCAUCAGGAUGGUCACGCACACUCCGAAGUACAUCUGUA-AAGACAUCGA-U-----
..(((((((((((......((((((((...))))))))(.((.(..(((....)))..).)))........)))))))..))))-..........-.----- ( -31.10)
>DroVir_CAF1 158033 93 - 1
GAUACAUGUACUUGAUGCAGUGCGUGGCGCCCACCCAUGAGGCAGUCACUAGAAUGGUAACGCACACGCCAAAGUACAUCUGCC-CGGACACGU--------
.....((((((((...((.((((((((((((((....)).))).)))(((.....))).))))))..))..)))))))).....-((....)).-------- ( -26.20)
>DroWil_CAF1 150072 94 - 1
UGUACAUAUACUUGAUGGUAUGAGUGGCUCCUACCCAUGACCCGGUCACCAGAAUGGUCACGCACACACCAUAGUACAUCUGCA-GAUCAAGAGA-------
((((.((.((((..(((((.((.((((.......))))((((...((....))..)))).....)).))))))))).)).))))-..........------- ( -19.60)
>DroMoj_CAF1 131193 94 - 1
AAUACAUGUACUUGAUGCAGUGCGUGGCGCCCACCCACGAAGCAGUCACUAGAAUCGUGACGCACACCCCAAAGUACAUCUGUAGCAUAAAGAU--------
..(((((((((((......((((((((.(....)))))......(((((.......)))))))))......)))))))..))))..........-------- ( -26.90)
>DroAna_CAF1 127439 101 - 1
UGUACAUGUACUUGAUGCAAUGCGUGGCCCCCACCCACGAGGCAGUCAUCAGGAUGGUCACGCACACCCCGAAGUACAUCUGAA-GGGAAAUUUAUUUGUUU
((((((......)).)))).(((((((((.((....((......)).....))..)))))))))...(((..((.....))...-))).............. ( -23.60)
>DroPer_CAF1 139439 88 - 1
UGUACAUGUACUUGAUGCAGUGCGUGGCCCCCACCCAUGAGGCGGUCAUCAGGAUGGUCACGCACACCCCGAAGUACAUCUGCA-ACGA-------------
((((.((((((((......((((((((((.((.((.....)).))((.....)).))))))))))......)))))))).))))-....------------- ( -32.40)
>consensus
UGUACAUGUACUUGAUGCAGUGCGUGGCCCCCACCCACGAGGCAGUCACCAGAAUGGUCACGCACACCCCAAAGUACAUCUGCA_AAGAAAGAU________
.(((.((((((((......((((((((((.........((.....))........))))))))))......)))))))).)))................... (-18.13 = -19.46 +   1.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:51 2006