Locus 4320

Sequence ID 2L_DroMel_CAF1
Location 12,367,154 – 12,367,262
Length 108
Max. P 0.896151
window6807 window6808

overview

Window 7

Location 12,367,154 – 12,367,262
Length 108
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 78.83
Mean single sequence MFE -26.70
Consensus MFE -14.60
Energy contribution -15.30
Covariance contribution 0.70
Combinations/Pair 1.06
Mean z-score -2.33
Structure conservation index 0.55
SVM decision value 0.99
SVM RNA-class probability 0.896151
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12367154 108 + 22407834
AACAUUAAUUUCC-CAUGCCAGAACGGCGCAGGCGGUCACAGCCCAGUCGAUUGGAUUUGUCAUCCAGUUUGGCAAUUGCCAAAAAGUAAACACGGCAGAUGAAAUGAA
.......(((((.-..((((....((((...(((.......)))..))))(((((((.....)))))))(((((....)))))...........))))...)))))... ( -31.60)
>DroPse_CAF1 268321 86 + 1
AACAUUAAUUCCGCCAUGCCAAAAA-----------------C-----UCAUUCGAUUUGUCAUUCGAUUUGGCAAUUGCCAAAAAAUAAACACGGCAGA-GAAUCGAA
....(..((((.....((((.....-----------------.-----....((((........))))((((((....))))))..........))))..-))))..). ( -18.80)
>DroSec_CAF1 191195 108 + 1
AACAUUAAUUUCC-CAUGCCAGAACGGCGCAGGCGGUCACAGCCCAGUCGAUUGGAUUUGUCAUCCAGUUUGGCAAUUGCCAAAAAGUAAACACGGCAGAAGAAAUGAC
.......(((((.-..((((....((((...(((.......)))..))))(((((((.....)))))))(((((....)))))...........))))...)))))... ( -31.60)
>DroEre_CAF1 189877 108 + 1
AACAUUAAUUUCU-CAUGCCAGAACAGCACAGGCGGUCACAGCCCAGUCGAUUGGAUUUGUCAUACCGUUUGGCAAUUGCCAAAAAGUAAACACGGCAGAAGAAAUGAC
.......((((((-..((((......((.((((((((.((((.((((....))))..))))...))))))))))..((((......))))....))))..))))))... ( -30.50)
>DroYak_CAF1 199278 108 + 1
AACAUUAAUUUCU-CAUGCCAGAACAGCGAAGGCAUUCGCAGCCCAGUCGAUUGGAUUUGUCAUCCCGUUUGGCAAUUGCCAAAAAGUAAACACGGCGGAAGAAAUGAC
.......((((((-..((((......(((((....)))))......((..(((((((.....))))..((((((....)))))).)))..))..))))..))))))... ( -28.90)
>DroPer_CAF1 272580 86 + 1
AACAUUAAUUCCGCCAUGCCAAAAA-----------------C-----UCAUUCGAUUUGUCAUUCGAUUUGGCAAUUGCCAAAAAGUAAACACGGCAGA-GAAUCGAA
....(..((((.....((((.....-----------------.-----....((((........))))((((((....))))))..........))))..-))))..). ( -18.80)
>consensus
AACAUUAAUUUCC_CAUGCCAGAAC_GCGCAGGCGGUCACAGCCCAGUCGAUUGGAUUUGUCAUCCAGUUUGGCAAUUGCCAAAAAGUAAACACGGCAGAAGAAAUGAA
................((((...........(((.......))).......((((..((((((.......))))))...))))...........))))........... (-14.60 = -15.30 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 12,367,154 – 12,367,262
Length 108
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 78.83
Mean single sequence MFE -29.27
Consensus MFE -17.45
Energy contribution -17.95
Covariance contribution 0.50
Combinations/Pair 1.12
Mean z-score -1.99
Structure conservation index 0.60
SVM decision value 0.78
SVM RNA-class probability 0.849455
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12367154 108 - 22407834
UUCAUUUCAUCUGCCGUGUUUACUUUUUGGCAAUUGCCAAACUGGAUGACAAAUCCAAUCGACUGGGCUGUGACCGCCUGCGCCGUUCUGGCAUG-GGAAAUUAAUGUU
......((((..(((..(((.....((((((....)))))).(((((.....)))))...)))..))).))))...(((..(((.....)))..)-))........... ( -28.50)
>DroPse_CAF1 268321 86 - 1
UUCGAUUC-UCUGCCGUGUUUAUUUUUUGGCAAUUGCCAAAUCGAAUGACAAAUCGAAUGA-----G-----------------UUUUUGGCAUGGCGGAAUUAAUGUU
........-(((((((((((.((((((((((....))))))((((........))))..))-----)-----------------)....)))))))))))......... ( -25.70)
>DroSec_CAF1 191195 108 - 1
GUCAUUUCUUCUGCCGUGUUUACUUUUUGGCAAUUGCCAAACUGGAUGACAAAUCCAAUCGACUGGGCUGUGACCGCCUGCGCCGUUCUGGCAUG-GGAAAUUAAUGUU
...((((((..((((..........((((((....)))))).(((((.....)))))...((.(((((.((....))..)).))).)).))))..-))))))....... ( -30.80)
>DroEre_CAF1 189877 108 - 1
GUCAUUUCUUCUGCCGUGUUUACUUUUUGGCAAUUGCCAAACGGUAUGACAAAUCCAAUCGACUGGGCUGUGACCGCCUGUGCUGUUCUGGCAUG-AGAAAUUAAUGUU
...(((((((.((((.((((((((.((((((....)))))).)))).)))).............((((.......))))..........)))).)-))))))....... ( -31.10)
>DroYak_CAF1 199278 108 - 1
GUCAUUUCUUCCGCCGUGUUUACUUUUUGGCAAUUGCCAAACGGGAUGACAAAUCCAAUCGACUGGGCUGCGAAUGCCUUCGCUGUUCUGGCAUG-AGAAAUUAAUGUU
...(((((((..(((.((((..((.((((((....)))))).))...)))).............((((.(((((....))))).)))).)))..)-))))))....... ( -31.50)
>DroPer_CAF1 272580 86 - 1
UUCGAUUC-UCUGCCGUGUUUACUUUUUGGCAAUUGCCAAAUCGAAUGACAAAUCGAAUGA-----G-----------------UUUUUGGCAUGGCGGAAUUAAUGUU
........-(((((((((((.((((((((((....))))))((((........))))..))-----)-----------------)....)))))))))))......... ( -28.00)
>consensus
GUCAUUUCUUCUGCCGUGUUUACUUUUUGGCAAUUGCCAAACCGGAUGACAAAUCCAAUCGACUGGGCUGUGACCGCCUGCGC_GUUCUGGCAUG_AGAAAUUAAUGUU
...(((((...((((.((((..(..((((((....))))))..)...)))).............((((.......))))..........))))....)))))....... (-17.45 = -17.95 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:58 2006