Locus 2365

Sequence ID 3R_DroMel_CAF1
Location 6,726,742 – 6,726,852
Length 110
Max. P 0.992583
window3818 window3819

overview

Window 8

Location 6,726,742 – 6,726,852
Length 110
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.80
Mean single sequence MFE -39.70
Consensus MFE -18.90
Energy contribution -19.98
Covariance contribution 1.08
Combinations/Pair 1.26
Mean z-score -2.46
Structure conservation index 0.48
SVM decision value 2.34
SVM RNA-class probability 0.992583
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6726742 110 + 27905053
GUAUGCCAGGCA--GGGACAAAAUACUUUUCGACCAUCGAAGCCAGUGGGUCCAAGGACCUGUCGGCCACAUUCCUGUGGUUGUUGCCACUCC--------AAAGUGUCCUUGCUGGCCA
....(((((.((--((((((........((((.....))))(((.(..((((....))))..).))).........(((((....)))))...--------....))))))))))))).. ( -45.70)
>DroSec_CAF1 9962 110 + 1
GUAUGCCAGGCA--GGGACAAAAUACUUUUCGACCAUCCAAAGCAGUGGGACCAAGGACCUGUCGGCCACAUUCCUGUGGUUGUUGCCACUGC--------AAAGUGUCCUUGCCGGCCA
....(((.((((--((((((...........(......)...((((((((((.........)))(((((((....)))))))....)))))))--------....))))))))))))).. ( -44.20)
>DroEre_CAF1 12681 111 + 1
GUAUGCCAGGCA--GGGACAAAAUACUUUUCGACCAACCAAACCAGUGGGUCCAAGACCCAGUCGGCCACAUUCCUGUGGCUGUUGCUACUCCA-------AAAGUGUCCUUGCCGGCCA
....(((.((((--(((((.....((((((.((.((((........((((((...))))))...(((((((....)))))))))))....)).)-------))))))))))))))))).. ( -45.20)
>DroYak_CAF1 11351 120 + 1
GUAUGCCAGGCAGAGGGAAAAAAUACUUUUCGACCAACGAAACCAGUGGGUCCAAGGCCCAGUCGGCCACAUUCCUGUGGUUGUUGCCACUCUACCACUCCAAAGUGUCCUUGCCGGGCA
...((((.((((((((((.....(((((((((.....)))))..))))..)))..(((.....((((((((....))))))))..))).))))..((((....)))).....))).)))) ( -40.70)
>DroAna_CAF1 11069 93 + 1
GUAUGCUGGGCU--AUGACAAAAUCA---UCGUACCCCUGAAGA----AGUCCAAGAGCUU-CUGGCCACAUUCUUGCGGUGGUUGCCGA-----------------UCCUUCUCCGGUA
.......(((.(--((((........---))))).)))...(((----(((......))))-))((((((.........))))))((((.-----------------........)))). ( -22.70)
>consensus
GUAUGCCAGGCA__GGGACAAAAUACUUUUCGACCAACCAAACCAGUGGGUCCAAGGACCUGUCGGCCACAUUCCUGUGGUUGUUGCCACUCC________AAAGUGUCCUUGCCGGCCA
....(((.((((..((((((............................((........))...((((((((....))))))))......................))))))))))))).. (-18.90 = -19.98 +   1.08)

alignment

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secondary structure

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dotplot

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Window 9

Location 6,726,742 – 6,726,852
Length 110
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 74.80
Mean single sequence MFE -39.90
Consensus MFE -15.49
Energy contribution -17.38
Covariance contribution 1.89
Combinations/Pair 1.22
Mean z-score -1.80
Structure conservation index 0.39
SVM decision value 0.18
SVM RNA-class probability 0.623133
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6726742 110 - 27905053
UGGCCAGCAAGGACACUUU--------GGAGUGGCAACAACCACAGGAAUGUGGCCGACAGGUCCUUGGACCCACUGGCUUCGAUGGUCGAAAAGUAUUUUGUCCC--UGCCUGGCAUAC
..(((((((.(((((((.(--------((..((....)).))).))(((((..((((...((((....))))...))))((((.....))))...)))))))))).--)).))))).... ( -39.80)
>DroSec_CAF1 9962 110 - 1
UGGCCGGCAAGGACACUUU--------GCAGUGGCAACAACCACAGGAAUGUGGCCGACAGGUCCUUGGUCCCACUGCUUUGGAUGGUCGAAAAGUAUUUUGUCCC--UGCCUGGCAUAC
..(((((((.(((((...(--------((..((....)).(((((....))))).((((..((((..(((......)))..)))).))))....)))...))))).--)))).))).... ( -43.20)
>DroEre_CAF1 12681 111 - 1
UGGCCGGCAAGGACACUUU-------UGGAGUAGCAACAGCCACAGGAAUGUGGCCGACUGGGUCUUGGACCCACUGGUUUGGUUGGUCGAAAAGUAUUUUGUCCC--UGCCUGGCAUAC
..(((((((.(((((((((-------(.((.((((..(.((((((....)))))).)..((((((...))))))........)))).)).)))))).....)))).--)))).))).... ( -47.60)
>DroYak_CAF1 11351 120 - 1
UGCCCGGCAAGGACACUUUGGAGUGGUAGAGUGGCAACAACCACAGGAAUGUGGCCGACUGGGCCUUGGACCCACUGGUUUCGUUGGUCGAAAAGUAUUUUUUCCCUCUGCCUGGCAUAC
((((.((((((((((.(((...(((((....((....))))))).))).)))(((((((..((((.((....))..))))..)))))))((((((...))))))))).)))).))))... ( -43.30)
>DroAna_CAF1 11069 93 - 1
UACCGGAGAAGGA-----------------UCGGCAACCACCGCAAGAAUGUGGCCAG-AAGCUCUUGGACU----UCUUCAGGGGUACGA---UGAUUUUGUCAU--AGCCCAGCAUAC
....(((((((..-----------------..(....)..(((((....)))))((((-......)))).))----))))).(((.((.((---(......))).)--).)))....... ( -25.60)
>consensus
UGGCCGGCAAGGACACUUU________GGAGUGGCAACAACCACAGGAAUGUGGCCGACAGGGCCUUGGACCCACUGGUUUCGAUGGUCGAAAAGUAUUUUGUCCC__UGCCUGGCAUAC
..(((((((.(((((..............(((((......(((((....)))))((((.......))))..)))))......(.....)...........)))))...)).))))).... (-15.49 = -17.38 +   1.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:34 2006