Locus 1970

Sequence ID	2R_DroMel_CAF1
Location	7,436,919 – 7,437,024
Length	105
Max. P	0.988232

overview

Window 0

Location	7,436,919 – 7,437,024
Length	105
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	79.76
Mean single sequence MFE	-27.40
Consensus MFE	-22.06
Energy contribution	-21.98
Covariance contribution	-0.08
Combinations/Pair	1.14
Mean z-score	-2.42
Structure conservation index	0.81
SVM decision value	2.11
SVM RNA-class probability	0.988232
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7436919 105 + 20766785
ACAGGAAUUUCCGCUGAUUGGCAAUGCCAAGUAAUGACCUUGCCGUGGCAUUGCUACUACACAGUAAGAAAUAACAUAGGUUUUGAAUCUAAA---AUAUAUGCAAGA--
......(((((.((((..(((((((((((.((((.....))))..))))))))))).....))))..)))))..((((.((((((....))))---)).)))).....-- ( -26.90)
>DroSec_CAF1 53255 106 + 1
ACAGGAAUUUCCGCUGAAUGGCAAUGCCAAGUAGUGACCUUGCCGUGGCAUUGCUACUACACAGUAAAAAA-AACAUAGAUUUAGAAUCUAAA---AUAUAAGCAAGAGU
...((.....))(((...(((((((((((.((((.....))))..)))))))))))...............-....(((((.....)))))..---.....)))...... ( -25.50)
>DroSim_CAF1 44855 98 + 1
ACAGGAAUUUCCGCUGAAUGGCAAUGCCAAGUAAUGACCUUGCCGUGGCAUUGCUACUACACAGUAACAAAACACAUAUUUUU-------GAA---UUGUAAG--AGUCU
...((.....))((((..(((((((((((.((((.....))))..))))))))))).....))))..(((((.......))))-------)..---.......--..... ( -23.40)
>DroEre_CAF1 52957 107 + 1
ACAGGAAUUUCCACUGAAUGGCAAUGCCAAGCAAUGACCUUGCGGUGGCAUUGCUACUGCACGGAAAAAAAUAAAAUAGUUGUUUAAUCCAUA---AUAGAUGCACAGGU
...(((.(((((..((..(((((((((((.((((.....))))..)))))))))))...)).))))).((((((.....))))))..)))...---.............. ( -30.60)
>DroYak_CAF1 51456 110 + 1
ACAGGAAUUUCCACUGAGUGGCAAUGCCAAGUAAUGACCUUGCGGUGGCAUUGCUACUGCACAGAGAAAAAUAUCAUAGUUGUUGCACCCAUAUAUACAUAUCCAAAGGU
...(((..........(((((((((((((.((((.....))))..)))))))))))))((((((.((......))....))).)))...............)))...... ( -30.60)
>consensus
ACAGGAAUUUCCGCUGAAUGGCAAUGCCAAGUAAUGACCUUGCCGUGGCAUUGCUACUACACAGUAAAAAAUAACAUAGUUUUUGAAUCCAAA___AUAUAUGCAAGAGU
...((.....))((((..(((((((((((.((((.....))))..))))))))))).....))))............................................. (-22.06 = -21.98 +  -0.08)

alignment

secondary structure

dotplot

Window 1

Location	7,436,919 – 7,437,024
Length	105
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	79.76
Mean single sequence MFE	-25.34
Consensus MFE	-16.82
Energy contribution	-16.34
Covariance contribution	-0.48
Combinations/Pair	1.20
Mean z-score	-1.53
Structure conservation index	0.66
SVM decision value	-0.05
SVM RNA-class probability	0.506567
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7436919 105 - 20766785
--UCUUGCAUAUAU---UUUAGAUUCAAAACCUAUGUUAUUUCUUACUGUGUAGUAGCAAUGCCACGGCAAGGUCAUUACUUGGCAUUGCCAAUCAGCGGAAAUUCCUGU
--....(((((..(---(((......))))..))))).((((((..(((.((.(((....))).))(((((.((((.....)))).)))))...))).))))))...... ( -21.90)
>DroSec_CAF1 53255 106 - 1
ACUCUUGCUUAUAU---UUUAGAUUCUAAAUCUAUGUU-UUUUUUACUGUGUAGUAGCAAUGCCACGGCAAGGUCACUACUUGGCAUUGCCAUUCAGCGGAAAUUCCUGU
..............---..(((((.....)))))....-.......((((..(((.(((((((((.(...((....)).).))))))))).)))..)))).......... ( -21.90)
>DroSim_CAF1 44855 98 - 1
AGACU--CUUACAA---UUC-------AAAAAUAUGUGUUUUGUUACUGUGUAGUAGCAAUGCCACGGCAAGGUCAUUACUUGGCAUUGCCAUUCAGCGGAAAUUCCUGU
.....--.......---...-------........(((..((((((((....))))))))...)))(((((.((((.....)))).))))).....((((......)))) ( -24.10)
>DroEre_CAF1 52957 107 - 1
ACCUGUGCAUCUAU---UAUGGAUUAAACAACUAUUUUAUUUUUUUCCGUGCAGUAGCAAUGCCACCGCAAGGUCAUUGCUUGGCAUUGCCAUUCAGUGGAAAUUCCUGU
...(((..((((..---...))))...))).............((((((((.(((.(((((((((..((((.....)))).))))))))).))))).))))))....... ( -28.30)
>DroYak_CAF1 51456 110 - 1
ACCUUUGGAUAUGUAUAUAUGGGUGCAACAACUAUGAUAUUUUUCUCUGUGCAGUAGCAAUGCCACCGCAAGGUCAUUACUUGGCAUUGCCACUCAGUGGAAAUUCCUGU
......(((..(((((......))))).............(((((.(((...(((.(((((((((((....)))........)))))))).)))))).))))).)))... ( -30.50)
>consensus
ACCCUUGCAUAUAU___UUUAGAUUCAAAAACUAUGUUAUUUUUUACUGUGUAGUAGCAAUGCCACGGCAAGGUCAUUACUUGGCAUUGCCAUUCAGCGGAAAUUCCUGU
..............................................(((((.(((.(((((((((......(((....)))))))))))).))))).))).......... (-16.82 = -16.34 +  -0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:45 2006