Locus 1625

Sequence ID 3L_DroMel_CAF1
Location 4,751,555 – 4,751,693
Length 138
Max. P 0.970233
window2513 window2514

overview

Window 3

Location 4,751,555 – 4,751,663
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 90.77
Mean single sequence MFE -25.50
Consensus MFE -24.35
Energy contribution -24.38
Covariance contribution 0.03
Combinations/Pair 1.05
Mean z-score -1.52
Structure conservation index 0.96
SVM decision value 1.65
SVM RNA-class probability 0.970233
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4751555 108 + 23771897
AAUGCUAACCCUGUGUGCCAUUUUCUGCAUUUAAGUGCAAUUCUAUGCAAGAAUGUGCCGACAUGCAUAUUUGUGCUAAAGCCAUUUCCCAG------------CUCUCCUGGCUCGCUU
............(((.((((.....(((((....))))).......(((.((((((((......)))))))).)))................------------......)))).))).. ( -25.80)
>DroSec_CAF1 11652 108 + 1
AAUGCUAACCCUGUGUGCCAUUUUCUGCAUUUAAGUGCAAUUCUAUGCAAGAAUGUGCCGACAUGCAUAUUUGUGCUAAAGCCAUUUCCCAG------------CUCUCCUGGCUCGCUU
............(((.((((.....(((((....))))).......(((.((((((((......)))))))).)))................------------......)))).))).. ( -25.80)
>DroSim_CAF1 12297 108 + 1
AAUGCUAACCCUGUGUGCCAUUUUCUGCAUUUAAGUGCAAUUCUAUGCAAGAAUGUGCCGACAUGCAUAUUUGUGCUAAAGCCAUUUCCCAG------------CUCUCCUGGCUCGCUU
............(((.((((.....(((((....))))).......(((.((((((((......)))))))).)))................------------......)))).))).. ( -25.80)
>DroEre_CAF1 4213 108 + 1
UAUGCUAACCCUGUGUGCCAUUUUCUGCAUUUAAGUGCAAUUCUAUGCAAGAAUGUGCCGACAUGCAUAUUUGUGCUAAAGCCAUUUCCCAA------------CUCUCCUGGCUCGCUU
............(((.((((.....(((((....))))).......(((.((((((((......)))))))).)))................------------......)))).))).. ( -25.80)
>DroYak_CAF1 10644 108 + 1
UAUGCUAACCCUGUGUGCCAUUUUCUGCAUUUAAGUGCAAUUCUAUGCAAGAAUGUGCCGACAUGCAUAUUUGUGCUAAAGCCAUUUCCCAG------------CUCUCCUGGCUCGCUU
............(((.((((.....(((((....))))).......(((.((((((((......)))))))).)))................------------......)))).))).. ( -25.80)
>DroAna_CAF1 4486 117 + 1
CUCCC---UCCAGUGUGCCAUUUUCUGCAUUUAAGUGCAAUUCUAUGCAAGAAUGUGCCGACAUGCAUAUUUGUGCUAAAGCCAUUUCCUCCCCCCAAGGUACUCCCGCCCGGCUCCUUU
.....---....(.(((((......(((((....))))).......(((.((((((((......)))))))).)))......................))))).)((....))....... ( -24.00)
>consensus
AAUGCUAACCCUGUGUGCCAUUUUCUGCAUUUAAGUGCAAUUCUAUGCAAGAAUGUGCCGACAUGCAUAUUUGUGCUAAAGCCAUUUCCCAG____________CUCUCCUGGCUCGCUU
............(((.(((......(((((....))))).......(((.((((((((......)))))))).)))...................................))).))).. (-24.35 = -24.38 +   0.03)

alignment

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secondary structure

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dotplot

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Window 4

Location 4,751,595 – 4,751,693
Length 98
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.00
Mean single sequence MFE -20.84
Consensus MFE -14.60
Energy contribution -14.77
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.45
Structure conservation index 0.70
SVM decision value 0.70
SVM RNA-class probability 0.825710
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4751595 98 + 23771897
UUCUAUGCAAGAAUGUGCCGACAUGCAUAUUUGUGCUAAAGCCAUUUCCCAG------------CUCUCCUGGCUCGCUUUC---------CCCAG-UUUUGCCCGGUUUUCUCCAGCUU
......(((.((((((((......)))))))).)))..............((------------((.....(((..(((...---------...))-)...))).((......)))))). ( -20.30)
>DroSec_CAF1 11692 78 + 1
UUCUAUGCAAGAAUGUGCCGACAUGCAUAUUUGUGCUAAAGCCAUUUCCCAG------------CUCUCCUGGCUCGCUUUC---------CCCAG---------------------CUU
......(((.((((((((......)))))))).)))...(((((........------------......))))).(((...---------...))---------------------).. ( -17.54)
>DroSim_CAF1 12337 99 + 1
UUCUAUGCAAGAAUGUGCCGACAUGCAUAUUUGUGCUAAAGCCAUUUCCCAG------------CUCUCCUGGCUCGCUUUC---------CCCAGCUUUUGCCCGGUUUUCCCCAGCUU
......(((.((((((((......)))))))).))).((((((.....((((------------.....))))...(((...---------...)))........))))))......... ( -22.00)
>DroEre_CAF1 4253 107 + 1
UUCUAUGCAAGAAUGUGCCGACAUGCAUAUUUGUGCUAAAGCCAUUUCCCAA------------CUCUCCUGGCUCGCUUUCCCAGUUUUCCCCAG-UUUUCCCCGGUUUUCUCCAGCUU
......(((.((((((((......)))))))).)))..((((..........------------.....((((...(((.....))).....))))-........((......)).)))) ( -19.10)
>DroYak_CAF1 10684 99 + 1
UUCUAUGCAAGAAUGUGCCGACAUGCAUAUUUGUGCUAAAGCCAUUUCCCAG------------CUCUCCUGGCUCGCUUUC---------CCCAGCUUUUGCCCGAUUUUCCCCAGCUU
......(((.((((((((......)))))))).)))..((((......((((------------.....))))...(((...---------...)))...................)))) ( -19.20)
>DroAna_CAF1 4523 99 + 1
UUCUAUGCAAGAAUGUGCCGACAUGCAUAUUUGUGCUAAAGCCAUUUCCUCCCCCCAAGGUACUCCCGCCCGGCUCCUUUGC---------CACCC------------CUUCGGGAGCCA
......(((.((((((((......)))))))).)))............(((((.....(((......))).(((......))---------)....------------....)))))... ( -26.90)
>consensus
UUCUAUGCAAGAAUGUGCCGACAUGCAUAUUUGUGCUAAAGCCAUUUCCCAG____________CUCUCCUGGCUCGCUUUC_________CCCAG_UUUUGCCCGGUUUUCCCCAGCUU
......(((.((((((((......)))))))).)))...(((((..........................)))))............................................. (-14.60 = -14.77 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:13 2006