Locus 2606

Sequence ID 3L_DroMel_CAF1
Location 7,221,590 – 7,221,680
Length 90
Max. P 0.925047
window4078 window4079

overview

Window 8

Location 7,221,590 – 7,221,680
Length 90
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 76.72
Mean single sequence MFE -39.47
Consensus MFE -20.67
Energy contribution -21.83
Covariance contribution 1.17
Combinations/Pair 1.05
Mean z-score -2.22
Structure conservation index 0.52
SVM decision value 1.17
SVM RNA-class probability 0.925047
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7221590 90 + 23771897
GUAGA---------GCUGCUGGUUCUGCUGAUACUGGCCGGCCGGGUCCUGCGGAGC---UCCCAUAGGUGUGUCCUCCAGCAUCGCCAGCAUGCUGGAGUU
(((((---------((.....))))))).(((((..(((....(((..((....)).---.)))...))))))))((((((((((....).))))))))).. ( -35.50)
>DroPse_CAF1 3958 96 + 1
GUACAAUUGACUUUGCUGCUGCUGCGGCUGCGGCUGGC---CCGUCUCUUGGGGACA---GCCCAUGGGCGUAUCCUCCAGCAUCGCCAGCAUGCUGGAGUU
((((..........(((((.((....)).)))))..((---((((...(((....))---)...)))))))))).((((((((((....).))))))))).. ( -40.90)
>DroEre_CAF1 3255 90 + 1
GUAGA---------GCUGCUGGUUCUGCUGAUGCUGACCGGCUGUGUCCUGCGGAUA---UCCCAUAGGUGUGUCCUCCAGCAUCGCCAGCAUGCUGGAGUU
((((.---------.(.(((((((..((....)).)))))))...)..))))(((((---..((...))..)))))(((((((((....).))))))))... ( -39.20)
>DroYak_CAF1 3255 90 + 1
GUAUA---------GCUGCUGGUGCUGCUGCUGUUGACCGGCCGUGUCCUGCGGAUA---ACCCAUAGGUGUAUCCUCCAGCAUCGCCAGCAUGCUGGAGUU
...((---------((((((((((.(((((..((.((((....).)))..))(((((---(((....))).)))))..))))).)))))))).))))..... ( -37.20)
>DroAna_CAF1 3168 87 + 1
GUAUA---------GCUGCUGGUGUUGCUG------CACGGACGAAUCGUGGGUGUAGCCCCCCAUCGGCGUGUCCUCCAGCAUCGCCAGCAUGCUGGAGUU
...((---------((((((((((.(((((------...(((((..(((((((........)))).)))..)))))..))))).)))))))).))))..... ( -43.10)
>DroPer_CAF1 3784 96 + 1
GUACAAUUGACUUUGCUGCUGCUGCGGCUGCGGCUGGC---CCGUCUCUUGGGGACA---GCCCAUGGGCGUAUCCUCCAGCAUCGCCAGCAUGCUGGAGUU
((((..........(((((.((....)).)))))..((---((((...(((....))---)...)))))))))).((((((((((....).))))))))).. ( -40.90)
>consensus
GUACA_________GCUGCUGGUGCUGCUGCUGCUGGCCGGCCGUGUCCUGCGGAUA___GCCCAUAGGCGUAUCCUCCAGCAUCGCCAGCAUGCUGGAGUU
..............((((((((((.(((((......................((........))..(((.....))).))))).)))))))).))....... (-20.67 = -21.83 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 7,221,590 – 7,221,680
Length 90
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 76.72
Mean single sequence MFE -34.08
Consensus MFE -18.45
Energy contribution -19.15
Covariance contribution 0.70
Combinations/Pair 1.06
Mean z-score -1.76
Structure conservation index 0.54
SVM decision value 0.32
SVM RNA-class probability 0.686613
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7221590 90 - 23771897
AACUCCAGCAUGCUGGCGAUGCUGGAGGACACACCUAUGGGA---GCUCCGCAGGACCCGGCCGGCCAGUAUCAGCAGAACCAGCAGC---------UCUAC
......(((.((((((.((((((((.((.....(((.(((..---...))).)))......))..)))))))).......))))))))---------).... ( -30.80)
>DroPse_CAF1 3958 96 - 1
AACUCCAGCAUGCUGGCGAUGCUGGAGGAUACGCCCAUGGGC---UGUCCCCAAGAGACGG---GCCAGCCGCAGCCGCAGCAGCAGCAAAGUCAAUUGUAC
..((((((((((....).)))))))))(((..((...(((((---((.(((........))---).))))).))...)).((....))...)))........ ( -35.90)
>DroEre_CAF1 3255 90 - 1
AACUCCAGCAUGCUGGCGAUGCUGGAGGACACACCUAUGGGA---UAUCCGCAGGACACAGCCGGUCAGCAUCAGCAGAACCAGCAGC---------UCUAC
......(((.((((((.((((((((.((.....(((.(((..---...))).)))......))..)))))))).......))))))))---------).... ( -30.20)
>DroYak_CAF1 3255 90 - 1
AACUCCAGCAUGCUGGCGAUGCUGGAGGAUACACCUAUGGGU---UAUCCGCAGGACACGGCCGGUCAACAGCAGCAGCACCAGCAGC---------UAUAC
......(((.((((((.(.(((((..(((((.(((....)))---)))))....(((.(....)))).....))))).).))))))))---------).... ( -34.20)
>DroAna_CAF1 3168 87 - 1
AACUCCAGCAUGCUGGCGAUGCUGGAGGACACGCCGAUGGGGGGCUACACCCACGAUUCGUCCGUG------CAGCAACACCAGCAGC---------UAUAC
......(((.((((((.(.(((((.(((((....((.((((........))))))....)))).).------))))).).))))))))---------).... ( -37.50)
>DroPer_CAF1 3784 96 - 1
AACUCCAGCAUGCUGGCGAUGCUGGAGGAUACGCCCAUGGGC---UGUCCCCAAGAGACGG---GCCAGCCGCAGCCGCAGCAGCAGCAAAGUCAAUUGUAC
..((((((((((....).)))))))))(((..((...(((((---((.(((........))---).))))).))...)).((....))...)))........ ( -35.90)
>consensus
AACUCCAGCAUGCUGGCGAUGCUGGAGGACACACCUAUGGGA___UAUCCCCAGGACACGGCCGGCCAGCAGCAGCAGCACCAGCAGC_________UAUAC
.......((.((((((...(((((..((.....))...(((......)))......................)))))...)))))))).............. (-18.45 = -19.15 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:18 2006