Locus 2809

Sequence ID 2R_DroMel_CAF1
Location 9,794,569 – 9,794,682
Length 113
Max. P 0.999788
window4644 window4645

overview

Window 4

Location 9,794,569 – 9,794,682
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 75.63
Mean single sequence MFE -42.96
Consensus MFE -25.19
Energy contribution -26.83
Covariance contribution 1.64
Combinations/Pair 1.28
Mean z-score -3.04
Structure conservation index 0.59
SVM decision value 3.63
SVM RNA-class probability 0.999466
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9794569 113 + 20766785
GUUGUACUGGUGUGGGAGGUCGGUUCAGUGCAGGACGUCCGUUAUCCCGCAUUUCG-GACUCCUCUGGCCGGGAUCUCCCAC-----GUUGUACAGUU-UUGAGAUGAAUGUACUUAAUG
.((((((...((((((((((((((.(((...((((.(((((..((.....))..))-)))))))))))))..))))))))))-----)..))))))..-(((((((....)).))))).. ( -42.10)
>DroSec_CAF1 32766 113 + 1
GUUGUACUGGUGUGGGAGAUCGGGUCAGUGCAGGAUGUCCCCUAUUCCGCAUAUCG-GACUCCUCUGGCCGGGAUCUCCCAC-----GUUGUACAGUU-UUGAGAUGAAUGUACCUAAUG
.((((((...(((((((((((.((((((...((((.((((..(((.....)))..)-)))))))))))))..))))))))))-----)..))))))..-..................... ( -43.70)
>DroEre_CAF1 35715 112 + 1
GUUGUACUGGCGUGGGAGGUCAGGUCCGUACAGGAUGUCCCUUAUUCCGUAUUUCG-GACUCCUCUGGCCGGGAUCUCCCAC-----UCAGUACAGUU-UUGAGAUGAAUGUACUU-AUG
.(((((((((.((((((((((.((.(((...((((.((((...((.....))...)-))))))).)))))..))))))))))-----)))))))))..-.................-... ( -44.80)
>DroYak_CAF1 34192 113 + 1
GUUGUACUGGCGUGGGAGGUCGGGUCAGCACUGGAUGUCCCCUAUCCCGUAUUUCGGGACUCCUCUGACCAGGAUCUCCCAC-----GUUGUACAGUU-UUGAGAUGAAUGUACUU-UUG
.((((((.(((((((((((((.((((((....(((.(((((..(........)..)))))))).))))))..))))))))))-----)))))))))..-.................-... ( -50.40)
>DroAna_CAF1 33113 107 + 1
CCUGUACUGUUAUCGGGGGUGCG--------AGAAAAAUCCCUAUUUCUUGUUUAU-GUGUC--AUGAUGGGGAUCCCUCACACCCCUUUGUACGGUUUUUGAGAUGAAUGUU--UUAUG
.((((((.......(((((((.(--------((....(((((((((...((.....-....)--).)))))))))..))).)))))))..))))))....((((((....)))--))).. ( -33.80)
>consensus
GUUGUACUGGUGUGGGAGGUCGGGUCAGUACAGGAUGUCCCCUAUUCCGUAUUUCG_GACUCCUCUGGCCGGGAUCUCCCAC_____GUUGUACAGUU_UUGAGAUGAAUGUACUU_AUG
.((((((....((((((((((.((((((...((((.(((..................)))))))))))))..))))))))))........))))))........................ (-25.19 = -26.83 +   1.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 9,794,569 – 9,794,682
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 75.63
Mean single sequence MFE -37.07
Consensus MFE -16.74
Energy contribution -17.74
Covariance contribution 1.00
Combinations/Pair 1.27
Mean z-score -3.37
Structure conservation index 0.45
SVM decision value 4.08
SVM RNA-class probability 0.999788
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9794569 113 - 20766785
CAUUAAGUACAUUCAUCUCAA-AACUGUACAAC-----GUGGGAGAUCCCGGCCAGAGGAGUC-CGAAAUGCGGGAUAACGGACGUCCUGCACUGAACCGACCUCCCACACCAGUACAAC
.....................-...(((((...-----(((((((....(((.(((.((...)-)....((((((((.......)))))))))))..)))..)))))))....))))).. ( -32.80)
>DroSec_CAF1 32766 113 - 1
CAUUAGGUACAUUCAUCUCAA-AACUGUACAAC-----GUGGGAGAUCCCGGCCAGAGGAGUC-CGAUAUGCGGAAUAGGGGACAUCCUGCACUGACCCGAUCUCCCACACCAGUACAAC
.....................-...(((((...-----((((((((((..((.((((((((((-(..(((.....)))..)))).))))...))).)).))))))))))....))))).. ( -39.40)
>DroEre_CAF1 35715 112 - 1
CAU-AAGUACAUUCAUCUCAA-AACUGUACUGA-----GUGGGAGAUCCCGGCCAGAGGAGUC-CGAAAUACGGAAUAAGGGACAUCCUGUACGGACCUGACCUCCCACGCCAGUACAAC
...-.................-...(((((((.-----(((((((.((..(((((.(((((((-(...............)))).)))).)..)).)).)).)))))))..))))))).. ( -38.26)
>DroYak_CAF1 34192 113 - 1
CAA-AAGUACAUUCAUCUCAA-AACUGUACAAC-----GUGGGAGAUCCUGGUCAGAGGAGUCCCGAAAUACGGGAUAGGGGACAUCCAGUGCUGACCCGACCUCCCACGCCAGUACAAC
...-.................-...(((((..(-----(((((((.((..((((((.(((((((((.....)))))).(....).)))....)))))).)).))))))))...))))).. ( -44.90)
>DroAna_CAF1 33113 107 - 1
CAUAA--AACAUUCAUCUCAAAAACCGUACAAAGGGGUGUGAGGGAUCCCCAUCAU--GACAC-AUAAACAAGAAAUAGGGAUUUUUCU--------CGCACCCCCGAUAACAGUACAGG
.....--.................((((((...(((((((((((((((((..((.(--(....-.....)).))....))))))..)))--------)))))))).(....).)))).)) ( -30.00)
>consensus
CAU_AAGUACAUUCAUCUCAA_AACUGUACAAC_____GUGGGAGAUCCCGGCCAGAGGAGUC_CGAAAUACGGAAUAGGGGACAUCCUGCACUGACCCGACCUCCCACACCAGUACAAC
..........................((((........(((((((.(((........))).........((((((((.......))))))))..........)))))))....))))... (-16.74 = -17.74 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:58 2006