Locus 6494

Sequence ID 2L_DroMel_CAF1
Location 18,249,527 – 18,249,617
Length 90
Max. P 0.813295
window10367 window10368

overview

Window 7

Location 18,249,527 – 18,249,617
Length 90
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 76.66
Mean single sequence MFE -15.67
Consensus MFE -9.20
Energy contribution -9.95
Covariance contribution 0.75
Combinations/Pair 1.14
Mean z-score -1.74
Structure conservation index 0.59
SVM decision value 0.66
SVM RNA-class probability 0.813295
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18249527 90 + 22407834
AUUC-------CC--ACAUUUCUGGGCCAUUGACCGCAAAUUAACUAAUUAAUAUUGACAGAACAGCGCCACCAUUUUCCACGGCCCAUUCUUUCCUUU
....-------..--.......((((((.(((....)))(((((....))))).............................))))))........... ( -11.50)
>DroSec_CAF1 92764 97 + 1
UUUCCCUUUACCC--ACAUUUCUGGGCCAUUGACCGCAAAUUAACUAAUUAAUAUUGGCAGAACAGUGCCACCAUUUUCCACGGCCCAUUCAUUCCUUU
.............--.......((((((.(((....)))................(((((......)))))...........))))))........... ( -18.20)
>DroSim_CAF1 98436 97 + 1
UUUCCCUUUACCC--ACAUUUCUGGGCCAUUGACCGCAAAUUAACUAAUUAAUAUUGGCAGAACAGUACCACCAUUGUCCACGGCCCAUUCAUUCCUUU
.............--.......((((((..((.(((...(((((....)))))..)))))(.(((((......))))).)..))))))........... ( -16.90)
>DroEre_CAF1 94355 95 + 1
UGUCCAGUUUCCC--ACAUUUCUGGGCCAUUGACCGCAAAUUAACUAAUUAAUAUUGGCCUG-UUCUGCCGCCAUU-UGCACGGCCCAUUCAUUCCUUU
.............--.......((((((.......((((((...(((((....)))))...)-)).))).((....-.))..))))))........... ( -17.90)
>DroYak_CAF1 98222 95 + 1
UUUCCUGUUUCCC--ACAUUUCUGGGCCAUUGACCGCAAAUUAACUAAUUAAUAUUGGCCUG-UUCUGACACCAUU-UCCACGGCCCGUUCAUUCCUUU
.............--........(((((.(((....)))................(((..((-(....))))))..-.....)))))............ ( -13.30)
>DroPer_CAF1 108383 84 + 1
GUUCGUGCCCCCCAAAUAUUUCUGAGCCAUUGAAUCUUAAUUAACUAAUUAAAAUUUGCUUA-UU-----------UGGCAGGGC--UUU-UAUCCUUU
......((((.(((((((......(((....((((.((((((....)))))).)))))))))-))-----------)))..))))--...-........ ( -16.20)
>consensus
UUUCCCGUUACCC__ACAUUUCUGGGCCAUUGACCGCAAAUUAACUAAUUAAUAUUGGCAGA_CAGUGCCACCAUUUUCCACGGCCCAUUCAUUCCUUU
......................((((((.(((....))).....(((((....)))))........................))))))........... ( -9.20 =  -9.95 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 18,249,527 – 18,249,617
Length 90
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 76.66
Mean single sequence MFE -22.98
Consensus MFE -10.45
Energy contribution -12.45
Covariance contribution 2.00
Combinations/Pair 1.18
Mean z-score -2.09
Structure conservation index 0.45
SVM decision value 0.38
SVM RNA-class probability 0.712097
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18249527 90 - 22407834
AAAGGAAAGAAUGGGCCGUGGAAAAUGGUGGCGCUGUUCUGUCAAUAUUAAUUAGUUAAUUUGCGGUCAAUGGCCCAGAAAUGU--GG-------GAAU
...........((((((((.((.((((.(((((......))))).)))).....((......))..)).)))))))).......--..-------.... ( -19.90)
>DroSec_CAF1 92764 97 - 1
AAAGGAAUGAAUGGGCCGUGGAAAAUGGUGGCACUGUUCUGCCAAUAUUAAUUAGUUAAUUUGCGGUCAAUGGCCCAGAAAUGU--GGGUAAAGGGAAA
.............(((((..((......(((((......)))))...((((....))))))..)))))....(((((......)--))))......... ( -23.90)
>DroSim_CAF1 98436 97 - 1
AAAGGAAUGAAUGGGCCGUGGACAAUGGUGGUACUGUUCUGCCAAUAUUAAUUAGUUAAUUUGCGGUCAAUGGCCCAGAAAUGU--GGGUAAAGGGAAA
...........((((((((.(((..(((..(.......)..)))..........((......)).))).)))))))).......--............. ( -25.20)
>DroEre_CAF1 94355 95 - 1
AAAGGAAUGAAUGGGCCGUGCA-AAUGGCGGCAGAA-CAGGCCAAUAUUAAUUAGUUAAUUUGCGGUCAAUGGCCCAGAAAUGU--GGGAAACUGGACA
...........((((((((...-..((((.(((((.-..(((.(((....))).)))..))))).)))))))))))).......--((....))..... ( -26.10)
>DroYak_CAF1 98222 95 - 1
AAAGGAAUGAACGGGCCGUGGA-AAUGGUGUCAGAA-CAGGCCAAUAUUAAUUAGUUAAUUUGCGGUCAAUGGCCCAGAAAUGU--GGGAAACAGGAAA
............(((((((...-....((......)-).((((...(((((....)))))....)))).)))))))........--.(....)...... ( -21.10)
>DroPer_CAF1 108383 84 - 1
AAAGGAUA-AAA--GCCCUGCCA-----------AA-UAAGCAAAUUUUAAUUAGUUAAUUAAGAUUCAAUGGCUCAGAAAUAUUUGGGGGGCACGAAC
........-...--(((((.(((-----------((-(((((.((((((((((....)))))))))).....)))......))))))))))))...... ( -21.70)
>consensus
AAAGGAAUGAAUGGGCCGUGGAAAAUGGUGGCACAA_UAUGCCAAUAUUAAUUAGUUAAUUUGCGGUCAAUGGCCCAGAAAUGU__GGGAAACAGGAAA
............(((((((....((((.((((........)))).)))).....((......)).....)))))))....................... (-10.45 = -12.45 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:35 2006