Locus 2058

Sequence ID 2R_DroMel_CAF1
Location 7,730,727 – 7,730,818
Length 91
Max. P 0.808285
window3413 window3414

overview

Window 3

Location 7,730,727 – 7,730,818
Length 91
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 81.04
Mean single sequence MFE -16.75
Consensus MFE -11.48
Energy contribution -11.20
Covariance contribution -0.28
Combinations/Pair 1.27
Mean z-score -1.23
Structure conservation index 0.69
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7730727 91 + 20766785
CAAAGGCAUUUUAAUGAUUUUAAUUAACUGCAUGUUUGCCUGUAAUUACAAC-GGCAACAAUGCAAUUACGCCGCAUGUACAGCACUGGGUG
....(((...(((((.......))))).(((((..((((((((....)))..-)))))..))))).....)))((.......))........ ( -19.20)
>DroVir_CAF1 13227 82 + 1
CAAAGGCAUUUUAAUGAUUUUAAUUAACUGCAUGUUUGCCAGUAAUUACAAC-GGCAACAAUGCAAUUAUGAGUCUAGUUUG---------A
......((..(((..(((((....(((.(((((..(((((.((.......))-)))))..))))).))).))))))))..))---------. ( -15.70)
>DroGri_CAF1 15308 83 + 1
CAAAGGCAUUUUAAUGAUUUUAAUUAACUGCAUGUUUGCCAGUAAUUACAGCGGGCAACAAUGCAAUUAUGAGUCUAGUUCA---------A
...((((...(((((.......))))).(((((..(((((.((.......)).)))))..))))).......))))......---------. ( -16.90)
>DroWil_CAF1 14399 83 + 1
CAAAGGCAUUUUAAUGAUUUUAAUUAACUGCAUGUUUGUCUGUAAUUACAAU-AGCAGCAAUGCAAUUAUGAGUC--------CACUAAGUU
....((.((((..((((((.((((((...(((....)))...))))))....-.(((....))))))))))))))--------)........ ( -11.90)
>DroMoj_CAF1 15008 82 + 1
CAAAGGCAUUUUAAUGAUUUUAAUUAACUGCAUGUUUGCCAGUAAUUACACU-GGCAACAAUGCAAUUAUGAGUCUAGUUCA---------A
...((((...(((((.......))))).(((((..((((((((......)))-)))))..))))).......))))......---------. ( -21.50)
>DroAna_CAF1 11345 89 + 1
--AAGGCAUUUUAAUGAUUUUAAUUAACUGCAUGUUUGCCUGUAAUUACAAC-GGCAACAAUGCAAUUACGUUACAUGUACAGCUCACAAUG
--..(((.....................(((((..((((((((....)))..-)))))..)))))..(((((...)))))..)))....... ( -15.30)
>consensus
CAAAGGCAUUUUAAUGAUUUUAAUUAACUGCAUGUUUGCCAGUAAUUACAAC_GGCAACAAUGCAAUUAUGAGUCUAGUUCA_________A
........................(((.(((((..(((((.((.......)).)))))..))))).)))....................... (-11.48 = -11.20 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 7,730,727 – 7,730,818
Length 91
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 81.04
Mean single sequence MFE -18.10
Consensus MFE -13.20
Energy contribution -13.40
Covariance contribution 0.20
Combinations/Pair 1.06
Mean z-score -1.80
Structure conservation index 0.73
SVM decision value 0.64
SVM RNA-class probability 0.808285
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7730727 91 - 20766785
CACCCAGUGCUGUACAUGCGGCGUAAUUGCAUUGUUGCC-GUUGUAAUUACAGGCAAACAUGCAGUUAAUUAAAAUCAUUAAAAUGCCUUUG
........(((((....))))).(((((((((..(((((-..(((....))))))))..)))))))))........................ ( -22.50)
>DroVir_CAF1 13227 82 - 1
U---------CAAACUAGACUCAUAAUUGCAUUGUUGCC-GUUGUAAUUACUGGCAAACAUGCAGUUAAUUAAAAUCAUUAAAAUGCCUUUG
.---------.............(((((((((..(((((-(.((....)).))))))..)))))))))........................ ( -16.90)
>DroGri_CAF1 15308 83 - 1
U---------UGAACUAGACUCAUAAUUGCAUUGUUGCCCGCUGUAAUUACUGGCAAACAUGCAGUUAAUUAAAAUCAUUAAAAUGCCUUUG
.---------.............(((((((((..(((((.(.((....))).)))))..)))))))))........................ ( -15.20)
>DroWil_CAF1 14399 83 - 1
AACUUAGUG--------GACUCAUAAUUGCAUUGCUGCU-AUUGUAAUUACAGACAAACAUGCAGUUAAUUAAAAUCAUUAAAAUGCCUUUG
...((((((--------(.....((((((((((((((.(-(.......))))).))...))))))))).......))))))).......... ( -12.60)
>DroMoj_CAF1 15008 82 - 1
U---------UGAACUAGACUCAUAAUUGCAUUGUUGCC-AGUGUAAUUACUGGCAAACAUGCAGUUAAUUAAAAUCAUUAAAAUGCCUUUG
.---------.............(((((((((..(((((-((((....)))))))))..)))))))))........................ ( -23.60)
>DroAna_CAF1 11345 89 - 1
CAUUGUGAGCUGUACAUGUAACGUAAUUGCAUUGUUGCC-GUUGUAAUUACAGGCAAACAUGCAGUUAAUUAAAAUCAUUAAAAUGCCUU--
((((((((((.......))....(((((((((..(((((-..(((....))))))))..))))))))).......))))...))))....-- ( -17.80)
>consensus
U_________UGAACUAGACUCAUAAUUGCAUUGUUGCC_GUUGUAAUUACAGGCAAACAUGCAGUUAAUUAAAAUCAUUAAAAUGCCUUUG
.......................(((((((((..(((((....((....)).)))))..)))))))))........................ (-13.20 = -13.40 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:13 2006