Locus 8391

Sequence ID	3L_DroMel_CAF1
Location	22,059,335 – 22,059,467
Length	132
Max. P	0.998727

overview

Window 2

Location	22,059,335 – 22,059,438
Length	103
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	99.42
Mean single sequence MFE	-37.00
Consensus MFE	-37.00
Energy contribution	-37.00
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.24
Structure conservation index	1.00
SVM decision value	3.05
SVM RNA-class probability	0.998264
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22059335 103 + 23771897
AAGUGAAGCCGCUUUGAGCUUUAACGCUUUGUACAGAUUUCCAUUAGUGGAGUGGGUUUUCCACUGCCCACGUGUGCGUGUGCUGCAUGUGUGGGCGCAAAUC
...((((((........))))))....(((((.............(((((((......)))))))(((((((..((((.....))))..)))))))))))).. ( -37.00)
>DroSec_CAF1 44199 103 + 1
AAGUGAAGCCGCUUUGAGCUUUAACGCUUUGUACAGAUUUCCAUUAGUGGAGUGGGUUUUCCACUGCCCACGUGUGCGUGUGCUGCAUGUGUGGGCGCAAAUC
...((((((........))))))....(((((.............(((((((......)))))))(((((((..((((.....))))..)))))))))))).. ( -37.00)
>DroSim_CAF1 50161 103 + 1
AAGUGAAGCCGCUUUGAGCUUUAACGCUUUGUACAGAUUUCCAUUAGUGGAGUGGGUUUUCCACUGCCCACGUGUGCGUGUGCUGCAUGUGUGGGCGCAAAUC
...((((((........))))))....(((((.............(((((((......)))))))(((((((..((((.....))))..)))))))))))).. ( -37.00)
>DroEre_CAF1 44469 103 + 1
AAGUGAAGCCGCUUUGAGCUUUAACGCUUUGUACAGAUUUCCAUUAGUGGAGUGUGUUUUCCACUGCCCACGUGUGCGUGUGCUGCAUGUGUGGGCGCAAAUC
...((((((........))))))....(((((.............(((((((......)))))))(((((((..((((.....))))..)))))))))))).. ( -37.00)
>DroYak_CAF1 51670 103 + 1
AAGUGAAGCCGCUUUGAGCUUUAACGCUUUGUACAGAUUUCCAUUAGUGGAGUGUGUUUUCCACUGCCCACGUGUGCGUGUGCUGCAUGUGUGGGCGCAAAUC
...((((((........))))))....(((((.............(((((((......)))))))(((((((..((((.....))))..)))))))))))).. ( -37.00)
>consensus
AAGUGAAGCCGCUUUGAGCUUUAACGCUUUGUACAGAUUUCCAUUAGUGGAGUGGGUUUUCCACUGCCCACGUGUGCGUGUGCUGCAUGUGUGGGCGCAAAUC
...((((((........))))))....(((((.............(((((((......)))))))(((((((..((((.....))))..)))))))))))).. (-37.00 = -37.00 +   0.00)

alignment

secondary structure

dotplot

Window 3

Location	22,059,335 – 22,059,438
Length	103
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	99.42
Mean single sequence MFE	-29.90
Consensus MFE	-29.90
Energy contribution	-29.90
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.32
Structure conservation index	1.00
SVM decision value	3.20
SVM RNA-class probability	0.998727
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22059335 103 - 23771897
GAUUUGCGCCCACACAUGCAGCACACGCACACGUGGGCAGUGGAAAACCCACUCCACUAAUGGAAAUCUGUACAAAGCGUUAAAGCUCAAAGCGGCUUCACUU
(((((.(((((((...(((.......)))...))))))((((((........))))))...).)))))..............(((((......)))))..... ( -29.90)
>DroSec_CAF1 44199 103 - 1
GAUUUGCGCCCACACAUGCAGCACACGCACACGUGGGCAGUGGAAAACCCACUCCACUAAUGGAAAUCUGUACAAAGCGUUAAAGCUCAAAGCGGCUUCACUU
(((((.(((((((...(((.......)))...))))))((((((........))))))...).)))))..............(((((......)))))..... ( -29.90)
>DroSim_CAF1 50161 103 - 1
GAUUUGCGCCCACACAUGCAGCACACGCACACGUGGGCAGUGGAAAACCCACUCCACUAAUGGAAAUCUGUACAAAGCGUUAAAGCUCAAAGCGGCUUCACUU
(((((.(((((((...(((.......)))...))))))((((((........))))))...).)))))..............(((((......)))))..... ( -29.90)
>DroEre_CAF1 44469 103 - 1
GAUUUGCGCCCACACAUGCAGCACACGCACACGUGGGCAGUGGAAAACACACUCCACUAAUGGAAAUCUGUACAAAGCGUUAAAGCUCAAAGCGGCUUCACUU
(((((.(((((((...(((.......)))...))))))((((((........))))))...).)))))..............(((((......)))))..... ( -29.90)
>DroYak_CAF1 51670 103 - 1
GAUUUGCGCCCACACAUGCAGCACACGCACACGUGGGCAGUGGAAAACACACUCCACUAAUGGAAAUCUGUACAAAGCGUUAAAGCUCAAAGCGGCUUCACUU
(((((.(((((((...(((.......)))...))))))((((((........))))))...).)))))..............(((((......)))))..... ( -29.90)
>consensus
GAUUUGCGCCCACACAUGCAGCACACGCACACGUGGGCAGUGGAAAACCCACUCCACUAAUGGAAAUCUGUACAAAGCGUUAAAGCUCAAAGCGGCUUCACUU
(((((.(((((((...(((.......)))...))))))((((((........))))))...).)))))..............(((((......)))))..... (-29.90 = -29.90 +   0.00)

alignment

secondary structure

dotplot

Window 4

Location	22,059,374 – 22,059,467
Length	93
Sequences	6
Columns	93
Reading direction	forward
Mean pairwise identity	83.58
Mean single sequence MFE	-34.75
Consensus MFE	-24.95
Energy contribution	-26.37
Covariance contribution	1.42
Combinations/Pair	1.15
Mean z-score	-2.19
Structure conservation index	0.72
SVM decision value	0.32
SVM RNA-class probability	0.687528
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22059374 93 + 23771897
UCCAUUAGUGGAGUGGGUUUUCCACUGCCCACGUGUGCGUGUGCUGCAUGUGUGGGCGCAAAUCGCUUCGCUCCGAAAGUUGACACGCACAUA
((((....))))((((((........))))))(((((((((((((....(.(((((((.....))).)))).)....)))..)))))))))). ( -37.80)
>DroSec_CAF1 44238 93 + 1
UCCAUUAGUGGAGUGGGUUUUCCACUGCCCACGUGUGCGUGUGCUGCAUGUGUGGGCGCAAAUCGCUUGGCUCCGAAAGUUGACACGCACAUA
((((....))))((((((........))))))((((((((((.(.((...((.((((.(((.....)))))))))...)).))))))))))). ( -37.90)
>DroSim_CAF1 50200 93 + 1
UCCAUUAGUGGAGUGGGUUUUCCACUGCCCACGUGUGCGUGUGCUGCAUGUGUGGGCGCAAAUCGCUUGGCUCCGAAAGUUGACACGCACAUA
((((....))))((((((........))))))((((((((((.(.((...((.((((.(((.....)))))))))...)).))))))))))). ( -37.90)
>DroEre_CAF1 44508 93 + 1
UCCAUUAGUGGAGUGUGUUUUCCACUGCCCACGUGUGCGUGUGCUGCAUGUGUGGGCGCAAAUCGCUCGGCUCCGAAAGUUGACACGCACAUA
((((....))))((((((..((.((((((((((..((((.....))))..)))))))((.....))(((....))).))).)).))))))... ( -37.20)
>DroYak_CAF1 51709 93 + 1
UCCAUUAGUGGAGUGUGUUUUCCACUGCCCACGUGUGCGUGUGCUGCAUGUGUGGGCGCAAAUCGCUUGGCUCCGAAAGUUGACACGCACAUA
((((....))))(((((((..(((..(((((((..((((.....))))..)))))))((.....)).)))...(....)..)))))))..... ( -35.80)
>DroAna_CAF1 64979 80 + 1
UGCCCGUGUGGGGCAAGUUUGCCAGUCUCC--------AUGUGCAACACGUGCAGAGGAAUCUCGCUCGACUCAGAAA-UUGACAUACG----
....((((((.((((....))))((((..(--------(((((...))))))..((((.....).)))))))......-....))))))---- ( -21.90)
>consensus
UCCAUUAGUGGAGUGGGUUUUCCACUGCCCACGUGUGCGUGUGCUGCAUGUGUGGGCGCAAAUCGCUUGGCUCCGAAAGUUGACACGCACAUA
......(((((((......)))))))(((((((..((((.....))))..))))))).......((((((((.....))))))...))..... (-24.95 = -26.37 +   1.42)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:14:11 2006