Locus 10351

Sequence ID 3R_DroMel_CAF1
Location 27,880,388 – 27,880,478
Length 90
Max. P 0.987174
window16475 window16476

overview

Window 5

Location 27,880,388 – 27,880,478
Length 90
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 72.42
Mean single sequence MFE -19.38
Consensus MFE -14.52
Energy contribution -12.84
Covariance contribution -1.68
Combinations/Pair 1.47
Mean z-score -1.74
Structure conservation index 0.75
SVM decision value 2.07
SVM RNA-class probability 0.987174
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27880388 90 + 27905053
AAAAGGACACUAAGCCAAACUUUGGUAAAAAACCAUUUAACAAGCGCCCGGCACAAGAGAAUGGUGGUAAAUC-GUUUGUUAAAAGGGCAA
.............(((......((((.....))))(((((((((((.(((.((........)).))).....)-))))))))))..))).. ( -22.10)
>DroPse_CAF1 285120 76 + 1
ACA---------------AAUUCGGCAAGAAGCCCUUCAACAAACGGCCAGCCCAGGACAACGGUGCAAAGCCUGCUUGGAAGAAGGUCAA
...---------------.....(((.....)))...........((((..((((((.((..(((.....))))))))))..)..)))).. ( -17.30)
>DroSec_CAF1 190289 90 + 1
AAAAAGAUACUAAGCCUAACUUUGGCAAAAAACCAUUUAACAAGCGCCCGGCACAAGAGAAUGGUGGUAAAUC-GUUUGUGAAAAGGGCAA
.............(((.......)))...................((((..(((((....(((((.....)))-)))))))....)))).. ( -20.10)
>DroSim_CAF1 192893 90 + 1
AAAAAGAUACUAAGCCUAACUUUGGCAAAAAACCAUUUAACAAGCGCCCGGCACAAGAGAAUGGUGGUAAAUC-GUUUGUGAAAAGGGCAA
.............(((.......)))...................((((..(((((....(((((.....)))-)))))))....)))).. ( -20.10)
>DroPer_CAF1 276529 76 + 1
ACA---------------AAUUCGGCAAGAAGCCCUUCAACAAACGGCCAGCCCAGGACAACGGUGCAAAGCCUGCUUGGAAGAAGGUCAA
...---------------.....(((.....)))...........((((..((((((.((..(((.....))))))))))..)..)))).. ( -17.30)
>consensus
AAAA_GA_ACUAAGCC_AACUUUGGCAAAAAACCAUUUAACAAGCGCCCGGCACAAGAGAAUGGUGGUAAAUC_GUUUGUAAAAAGGGCAA
.......................(((.....)))...........((((...(((((.....(((.....)))..))))).....)))).. (-14.52 = -12.84 +  -1.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 27,880,388 – 27,880,478
Length 90
Sequences 5
Columns 91
Reading direction reverse
Mean pairwise identity 72.42
Mean single sequence MFE -20.90
Consensus MFE -11.84
Energy contribution -11.08
Covariance contribution -0.76
Combinations/Pair 1.40
Mean z-score -1.60
Structure conservation index 0.57
SVM decision value 0.22
SVM RNA-class probability 0.639897
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27880388 90 - 27905053
UUGCCCUUUUAACAAAC-GAUUUACCACCAUUCUCUUGUGCCGGGCGCUUGUUAAAUGGUUUUUUACCAAAGUUUGGCUUAGUGUCCUUUU
...........((((..-((...........))..))))...(((((((.((((((((((.....))))...))))))..))))))).... ( -17.90)
>DroPse_CAF1 285120 76 - 1
UUGACCUUCUUCCAAGCAGGCUUUGCACCGUUGUCCUGGGCUGGCCGUUUGUUGAAGGGCUUCUUGCCGAAUU---------------UGU
.....((((...(((((.((((..((.(((......))))).)))))))))..))))(((.....))).....---------------... ( -24.20)
>DroSec_CAF1 190289 90 - 1
UUGCCCUUUUCACAAAC-GAUUUACCACCAUUCUCUUGUGCCGGGCGCUUGUUAAAUGGUUUUUUGCCAAAGUUAGGCUUAGUAUCUUUUU
..((((....(((((..-((...........))..)))))..))))(((((.....((((.....))))....)))))............. ( -19.10)
>DroSim_CAF1 192893 90 - 1
UUGCCCUUUUCACAAAC-GAUUUACCACCAUUCUCUUGUGCCGGGCGCUUGUUAAAUGGUUUUUUGCCAAAGUUAGGCUUAGUAUCUUUUU
..((((....(((((..-((...........))..)))))..))))(((((.....((((.....))))....)))))............. ( -19.10)
>DroPer_CAF1 276529 76 - 1
UUGACCUUCUUCCAAGCAGGCUUUGCACCGUUGUCCUGGGCUGGCCGUUUGUUGAAGGGCUUCUUGCCGAAUU---------------UGU
.....((((...(((((.((((..((.(((......))))).)))))))))..))))(((.....))).....---------------... ( -24.20)
>consensus
UUGCCCUUUUCACAAAC_GAUUUACCACCAUUCUCUUGUGCCGGGCGCUUGUUAAAUGGUUUUUUGCCAAAGUU_GGCUUAGU_UC_UUUU
..((((....(((((...(((........)))...)))))..))))...........(((.....)))....................... (-11.84 = -11.08 +  -0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:54:42 2006