Locus 3754

Sequence ID X_DroMel_CAF1
Location 9,961,335 – 9,961,494
Length 159
Max. P 0.711662
window6166 window6167

overview

Window 6

Location 9,961,335 – 9,961,435
Length 100
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 79.82
Mean single sequence MFE -13.98
Consensus MFE -11.94
Energy contribution -11.06
Covariance contribution -0.88
Combinations/Pair 1.25
Mean z-score -1.18
Structure conservation index 0.85
SVM decision value 0.38
SVM RNA-class probability 0.711662
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9961335 100 - 22224390
UUGCAGCAAA-AGUACAAGUAUCUUACAGAUACG----GCACAGCUUCUUGGCUAGAUAAACUUCAAAUAUAA-------ACAAAAAAAAA-AAAGAAGUAAAGAGGAAAAGC
.(((.((...-.))....(((((.....))))).----))).((((....))))......(((((........-------...........-...)))))............. ( -12.25)
>DroEre_CAF1 23923 113 - 1
GUGCAGCAAAAAGUACAAGUAUCUUACAGAUACGAACGAAACAGCUUCUUGGCUAGGUAAAAUCCAAAUAUAAGAGAGAGAUAAAAAAAAAAACAGAAGUGGAGAGGAAAAGU
((((........))))..(((((.....)))))...........((((((.(((.((......))...(((.........)))..............))).))))))...... ( -17.50)
>DroYak_CAF1 23844 103 - 1
GUGCAGCAAA-AUUACAAGUAUCUUAUAGAUACG----AAACAGCUUCUUCACUAGGUAAAAUCCAAAUA----AGAAAGAUAGAAAAAAA-AAAGAGGUAGAGAGGAAAAGC
.....((...-.......(((((.....))))).----......(((((..(((.((......))..((.----......)).........-.....)))..)))))....)) ( -12.20)
>consensus
GUGCAGCAAA_AGUACAAGUAUCUUACAGAUACG____AAACAGCUUCUUGGCUAGGUAAAAUCCAAAUAUAA_AGA_AGAUAAAAAAAAA_AAAGAAGUAGAGAGGAAAAGC
.....((...........(((((.....)))))...........((((((.(((...........................................))).))))))....)) (-11.94 = -11.06 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 9,961,400 – 9,961,494
Length 94
Sequences 3
Columns 100
Reading direction forward
Mean pairwise identity 75.52
Mean single sequence MFE -14.70
Consensus MFE -12.68
Energy contribution -11.80
Covariance contribution -0.88
Combinations/Pair 1.21
Mean z-score -0.59
Structure conservation index 0.86
SVM decision value 0.11
SVM RNA-class probability 0.590789
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9961400 94 + 22224390
GC----CGUAUCUGUAAGAUACUUGUACU-UUUGCUGCAAUGACAUUUAAUUGU-UGCAAUACACCUGCGGAAAAAAGAUGUAUAUUUAAAACCUGAACA
.(----((((((.....))))).((((..-.((((.(((((........)))))-.)))))))).....))............................. ( -15.90)
>DroEre_CAF1 23996 88 + 1
UUCGUUCGUAUCUGUAAGAUACUUGUACUUUUUGCUGCACUGGCAUUUAAUUGU-UGCAACACACCUGCAAAAUUUGA-----------AAAACUAAAUA
.......(((((.....)))))..........((((.....))))(((((...(-((((.......)))))...))))-----------).......... ( -13.80)
>DroYak_CAF1 23912 87 + 1
UU----CGUAUCUAUAAGAUACUUGUAAU-UUUGCUGCACUGACAUUUAAUUGUUUGCAACACACCUGCAAAAAAAAGAUG--------UAAACUGAAUA
((----((((((.....)))))(((((..-..((.((((..((((......)))))))).))....)))))..........--------......))).. ( -14.40)
>consensus
UU____CGUAUCUGUAAGAUACUUGUACU_UUUGCUGCACUGACAUUUAAUUGU_UGCAACACACCUGCAAAAAAAAGAUG________AAAACUGAAUA
.......(((((.....)))))(((((.....((.((((...(((......))).)))).))....)))))............................. (-12.68 = -11.80 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:36 2006