Locus 2835

Sequence ID 2L_DroMel_CAF1
Location 8,120,248 – 8,120,408
Length 160
Max. P 0.515546
window4506 window4507

overview

Window 6

Location 8,120,248 – 8,120,368
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.06
Mean single sequence MFE -38.07
Consensus MFE -24.36
Energy contribution -24.75
Covariance contribution 0.39
Combinations/Pair 1.35
Mean z-score -1.45
Structure conservation index 0.64
SVM decision value -0.04
SVM RNA-class probability 0.515546
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8120248 120 - 22407834
GGUUAUCACAGAUUUCCUGACCGUAAUGCCAUGGCGGUGUCUGCCGCUGUGCAUCAGCACUGCUGCUAAGUUCGGCUCCCAGACCCAGGAAUUGAACAUUUCUUUGACGGCUAUCGGUCU
((..(((...)))..)).(((((....(((.(((((((....)))((.((((....)))).)).)))).((((((.(((........))).))))))...........)))...))))). ( -40.20)
>DroVir_CAF1 85675 120 - 1
GGUCAUCACCGAUUUUCUGACGGUCAUGCCUUGGCGCUGUCUGCCCCUGUGCAUCAGCACAGCGGCGAAAUUCGGUUCACAGACGCAGGAGCUGAAUAUCUCGCUGACGGCCAUUGGGCU
.((((..(((((.((((.((((((...((....)))))))).(((.((((((....)))))).))))))).)))))........((..((........))..))))))((((....)))) ( -46.90)
>DroGri_CAF1 78712 120 - 1
UGUCAUCACCGAUUUUCUCACCGUCAUGCCCUGGCGCUGUCUGCCCUUGUGCAUUAGCACAGCGGCCAAGUUUGGCUCCCAAACCCAAGAGUUGAAUAUCUCACUAACAGCGAUUGGACU
........((((((........((((.....))))(((((..(((.((((((....)))))).)))...(((..((((..........))))..))).........)))))))))))... ( -35.10)
>DroWil_CAF1 93029 120 - 1
GGUAAUUACCGAUUUCCUAACUGUAAUGCCUUGGCGAUGUCUGCCGCUCUGCAUUAGCACAGCCGCCAAAUUUGGAUCUCAGACGCAAGAGCUAAAUAUUUCCUUGACGGCCAUAGGAUU
(((....)))....(((((..((((((((...((((........))))..))))).)))..((((.(((((((((.(((........))).))))))......))).))))..))))).. ( -29.00)
>DroMoj_CAF1 74978 120 - 1
GGUCAUUACCGACUUUCUUACGGUCAUGCCCUGGCGUUGUCUGCCCCUAUGCAUCAGCACAGCAGCGAAAUUUGGUUCCCAGACACAGGAGCUAAAUAUUUCAUUGACAGCCAUUGGACU
((.(((.((((.........)))).))).))((((..((((.((..((.(((....))).))..))(((((((((((((........))))))))..)))))...))))))))....... ( -34.80)
>DroAna_CAF1 79102 120 - 1
GGUCAUCACCGAUUUCCUCACAGUGAUGCCCUGGCGGUGUCUGCCCCUGUGCAUAAGCACGGCGGCCAAGUUCGGUUCCCAAACCCAGGAGCUGAAUAUUUCUCUUACGGCUAUUGGUCU
((.((((((.((.....))...)))))).))((((.(((...(((.((((((....)))))).)))...((((((((((........))))))))))........))).))))....... ( -42.40)
>consensus
GGUCAUCACCGAUUUCCUCACCGUCAUGCCCUGGCGCUGUCUGCCCCUGUGCAUCAGCACAGCGGCCAAAUUCGGUUCCCAGACCCAGGAGCUGAAUAUUUCACUGACGGCCAUUGGACU
........(((((..((.........(((....)))..(((.((..((((((....))))))..))...((((((((((........))))))))))........)))))..)))))... (-24.36 = -24.75 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 8,120,288 – 8,120,408
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.94
Mean single sequence MFE -45.15
Consensus MFE -29.37
Energy contribution -30.77
Covariance contribution 1.39
Combinations/Pair 1.29
Mean z-score -1.77
Structure conservation index 0.65
SVM decision value -0.05
SVM RNA-class probability 0.508506
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8120288 120 + 22407834
GGGAGCCGAACUUAGCAGCAGUGCUGAUGCACAGCGGCAGACACCGCCAUGGCAUUACGGUCAGGAAAUCUGUGAUAACCAACUGCAGGCAUUGGAAUGCUGUGCGAAUUAACGGCUCGC
..((((((...((((((....))))))((((((((((((((.....((.((((......))))))...))))).....((((.((....))))))..)))))))))......)))))).. ( -46.30)
>DroVir_CAF1 85715 120 + 1
GUGAACCGAAUUUCGCCGCUGUGCUGAUGCACAGGGGCAGACAGCGCCAAGGCAUGACCGUCAGAAAAUCGGUGAUGACCAGCUGCAGGCACUGGAAUGCGGUGCGUAUCAGCGGCUCGC
((((..........(((.((((((....)))))).))).......(((..(((((.((((.........)))).))).)).((((.(.((((((.....)))))).)..))))))))))) ( -52.30)
>DroGri_CAF1 78752 120 + 1
GGGAGCCAAACUUGGCCGCUGUGCUAAUGCACAAGGGCAGACAGCGCCAGGGCAUGACGGUGAGAAAAUCGGUGAUGACAAGCUGCAGGCACUGGAAUGCGGUGCGUAUCAGCGGCUCAC
..(((((...((((((.(((((.....(((......))).))))))))))).(((.(((((......))).)).)))....((((.(.((((((.....)))))).)..))))))))).. ( -47.90)
>DroWil_CAF1 93069 120 + 1
GAGAUCCAAAUUUGGCGGCUGUGCUAAUGCAGAGCGGCAGACAUCGCCAAGGCAUUACAGUUAGGAAAUCGGUAAUUACCAAUUGCAGGCAUUGGAAGGCAGUGCGUAUCAAUGGCUCGC
((..(((....(((((((((.(((....))).)))(.....)..))))))(((......))).)))..))(((....)))....((((.((((((.(.((...)).).)))))).)).)) ( -35.90)
>DroMoj_CAF1 75018 120 + 1
GGGAACCAAAUUUCGCUGCUGUGCUGAUGCAUAGGGGCAGACAACGCCAGGGCAUGACCGUAAGAAAGUCGGUAAUGACCAGCUGCAGGCAUUGAAAGGCAGUGCGUAUCAGCGGCUCUC
((((..........(((.((((((....)))))).))).......(((.((.(((.((((.........)))).))).)).((((.(.((((((.....)))))).)..))))))))))) ( -44.40)
>DroAna_CAF1 79142 120 + 1
GGGAACCGAACUUGGCCGCCGUGCUUAUGCACAGGGGCAGACACCGCCAGGGCAUCACUGUGAGGAAAUCGGUGAUGACCAACUGCAAGCACUGGAAGGCUGUCCGGAUAAGUGGCUCGC
.............((((((.((((....))))..((((((.(....((((((((((((((.........)))))))).))...((....))))))...)))))))......))))))... ( -44.10)
>consensus
GGGAACCAAACUUGGCCGCUGUGCUGAUGCACAGGGGCAGACACCGCCAGGGCAUGACCGUCAGAAAAUCGGUGAUGACCAACUGCAGGCACUGGAAGGCAGUGCGUAUCAGCGGCUCGC
..............(((.((((((....)))))).))).......(((..(((((.((((.........)))).))).)).((((...((((((.....))))))....))))))).... (-29.37 = -30.77 +   1.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:27 2006