Locus 6348

Sequence ID X_DroMel_CAF1
Location 16,001,093 – 16,001,315
Length 222
Max. P 0.696936
window10357 window10358

overview

Window 7

Location 16,001,093 – 16,001,213
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.24
Mean single sequence MFE -27.35
Consensus MFE -25.98
Energy contribution -25.94
Covariance contribution -0.04
Combinations/Pair 1.04
Mean z-score -1.16
Structure conservation index 0.95
SVM decision value 0.34
SVM RNA-class probability 0.696936
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16001093 120 + 22224390
ACCAACUUGAUUAUUCCUCCAAUAAUACGAAUGUGGCCAACGAGCAAAAAGAAACAAUCUGGCCAACAUUUACUGUCGCCGACGUCUCGAGUUGGUCUCCUCCUCCUUCAGUUUUUUGGU
((((((((((..................(((((((((((..((..............))))))).))))))...(((...)))...))))))))))........................ ( -25.54)
>DroSec_CAF1 69027 115 + 1
ACCAGCUUGAUUAUUCCUCCAAUAAUACGAAUGUGGCCAACGAGCAA-AGGAAACAAUCUGGCCAACAUUUACUGUCGCCGACGUCUCGAGUUGGUUUCC---UCCUUCAGUUUUUU-GU
((((((((((..................(((((((((((..((....-.(....)..))))))).))))))...(((...)))...))))))))))....---..............-.. ( -27.80)
>DroSim_CAF1 63183 115 + 1
ACCAGCUUGAUUAUUCCUCCAAUAAUACGAAUGUGGCCAACGAGCAA-AGGAAACAAUCUGGCCAACAUUUACUGUCGCCGACGUCUCGAGUUGGUCGCC---UCCUUCAGUUUUUU-GU
((((((((((..................(((((((((((..((....-.(....)..))))))).))))))...(((...)))...))))))))))....---..............-.. ( -27.80)
>DroEre_CAF1 68145 115 + 1
ACCAACUUGAUUAUUCCUCCAAUAAUACGAAUGUGGCCAACGAGCAA-AGGAAACAAUCUGGCCAACAUUUACUGUCGCCGACGUCUCGAGUUGGUCUCC---UCCUCCAGUUUUUU-GU
((((((((((..................(((((((((((..((....-.(....)..))))))).))))))...(((...)))...))))))))))....---..............-.. ( -27.80)
>DroYak_CAF1 52223 115 + 1
ACCAACUUGAUUAUUCCUCCAAUAAUACGAAUGUGGCCAACGAGCAA-AGGAAACAAUCUGGCCAACAUUUACUGUCGCCGACGUCUCGAGUUGGUCUCC---UCCUCCAGUUUUUU-GU
((((((((((..................(((((((((((..((....-.(....)..))))))).))))))...(((...)))...))))))))))....---..............-.. ( -27.80)
>consensus
ACCAACUUGAUUAUUCCUCCAAUAAUACGAAUGUGGCCAACGAGCAA_AGGAAACAAUCUGGCCAACAUUUACUGUCGCCGACGUCUCGAGUUGGUCUCC___UCCUUCAGUUUUUU_GU
((((((((((..................(((((((((((..((......(....)..))))))).))))))...(((...)))...))))))))))........................ (-25.98 = -25.94 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 16,001,213 – 16,001,315
Length 102
Sequences 4
Columns 114
Reading direction reverse
Mean pairwise identity 85.40
Mean single sequence MFE -17.65
Consensus MFE -12.28
Energy contribution -12.54
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.70
Structure conservation index 0.70
SVM decision value 0.26
SVM RNA-class probability 0.659388
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16001213 102 - 22224390
AAUGAAAUUAGGCACUUAUUUUAAUGGAGUCCCUAAAACCGGCGAAUAAUACUACGUA------------UGUAUAUGGGCGCAGGGUACAAACAAAAAAAAAAAAGGAACAAA
.......(((((.((((.........)))).))))).(((.(((..((((((......------------.)))).))..)))..))).......................... ( -17.20)
>DroSec_CAF1 69142 96 - 1
AAUGAAAUUAGGCACUUAUUUUAAUUGAGUCCCUAAAACCGGCGAAUAAUACUACGUA------------UGUAUAUG-GCGCAGGGUACAAA-----AAAAAAAAAGAACAAA
.......(((((.(((((.......))))).))))).(((.(((....((((......------------.))))...-.)))..))).....-----................ ( -18.70)
>DroSim_CAF1 63298 96 - 1
AAUGAAAUUAGGCACUUAUUUUAAUGGAGUCCCUAAAACCGGCGAAUAAUACUACGUA------------UGUAUAUG-GCGCAGGGUACGAA-----AAAAAAAAAGAACAAA
.......(((((.((((.........)))).))))).(((.(((....((((......------------.))))...-.)))..))).....-----................ ( -16.70)
>DroEre_CAF1 68260 102 - 1
AAUGAAAUUAGGCACUUAUUUUAAUGGAGUCCCUAAAACCGGCGAAUAAUACUACGUAUGCAUAUACAUAUGUAUAUG-GCACAUGGUAAAAA-----------AAUGAACAAA
.......(((((.((((.........)))).))))).((((.......(((.((((((((......))))))))))).-.....)))).....-----------.......... ( -18.02)
>consensus
AAUGAAAUUAGGCACUUAUUUUAAUGGAGUCCCUAAAACCGGCGAAUAAUACUACGUA____________UGUAUAUG_GCGCAGGGUACAAA_____AAAAAAAAAGAACAAA
.......(((((.((((.........)))).))))).(((.(((....((((...................)))).....)))..))).......................... (-12.28 = -12.54 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:22 2006