Locus 2731

Sequence ID	3L_DroMel_CAF1
Location	7,641,460 – 7,641,574
Length	114
Max. P	0.965748

overview

Window 5

Location	7,641,460 – 7,641,574
Length	114
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	75.70
Mean single sequence MFE	-45.82
Consensus MFE	-24.76
Energy contribution	-26.93
Covariance contribution	2.17
Combinations/Pair	1.38
Mean z-score	-1.97
Structure conservation index	0.54
SVM decision value	0.94
SVM RNA-class probability	0.886964
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7641460 114 + 23771897
UCUUCGAGUACUUUUAGUUAGGGCCGGAGUUGGCGAUUUGGGUGGUGCCGGCGACUUUGGAGAUGUCAAGGUGACAUUCUGGCCAAUGUCGCCAUCGCCACUCAAUCCGUACCU
.(((((.(..((.......))..))))))...(((..((((((((((..((((((.((((.((((((.....))))))....)))).))))))..))))))))))..))).... ( -49.10)
>DroEre_CAF1 30118 114 + 1
UUUUCGAGUACUUUUAGUUAGGGCCGGAGCUGGCGAUUUGGGUGGUGCCGGCGACUUUGGUGGUGCCGAGGAGACACUCUGGCCAAUGUCGCCAUCGCCACUCAAACCGUACCU
.......((((...........((((....))))(.(((((((((((..((((((.(((((((((.(.....).))))...))))).))))))..))))))))))).))))).. ( -47.10)
>DroWil_CAF1 44275 111 + 1
UUUAUAUGUAUUUUUAGUGUGCUGUGGUGCAGGCGAUUUGGGUGGUGCUGGCGAUUUCGGUGGUGCCGGCGUAACACUACGAC---UCUCACCAUCAGCAUUGAGACCGAACCG
................((.(((......))).))(.(((((.((((((((.((....))((((((..((((((....)))).)---)..))))))))))))))...))))).). ( -33.70)
>DroYak_CAF1 27428 114 + 1
UCUUCGGGUACUUUUAGUUUGGGCCGGAGCUGGCGAUUUGGGUGGUGCUGGCGACUUUGGGGGUGCCGUGGAGACACUCUGGCCAAUUUCGCCAUCGCCACUCAAACCGUACCU
.....((((((...........((((....))))(.(((((((((((.((((((..((((((...))(((....))).....))))..)))))).))))))))))).))))))) ( -52.20)
>DroAna_CAF1 27012 114 + 1
UCUGUGAGUAAUUUUAGUGAGGCCCGGGGCGGGUGAUUUGGGUGGUGCUGGUGACUUUGGCAGAGCUGGCGAUAUGCUAUGGCCAAUUUCGCCAUCGCCACUCAAACCGUAACG
.(((.((....)).))).......((..((((....(((((((((((.((((((..(((((..(((.........)))...)))))..)))))).)))))))))))))))..)) ( -46.30)
>DroPer_CAF1 35921 111 + 1
UCUGUACGUACUUUUGGUCUGAGGCGGGGCCGGCGAUUUCGGCGGUGCUGGGGACUUUGGCGGAGCCGGAGAGACCCUCUGGCC---CUCGGCAUCGCCACUCAACCCAUAUCG
..............(((..((((.((....))........(((((((((((((.((.....)).(((((((.....))))))))---)))))))))))).))))..)))..... ( -46.50)
>consensus
UCUUCGAGUACUUUUAGUUAGGGCCGGAGCUGGCGAUUUGGGUGGUGCUGGCGACUUUGGCGGUGCCGGGGAGACACUCUGGCCAAUCUCGCCAUCGCCACUCAAACCGUACCG
....................((..(((.(....)...((((((((((.((((((..(((((((((.(.....).))))...)))))..)))))).)))))))))).)))..)). (-24.76 = -26.93 +   2.17)

alignment

secondary structure

dotplot

Window 6

Location	7,641,460 – 7,641,574
Length	114
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	75.70
Mean single sequence MFE	-38.52
Consensus MFE	-21.70
Energy contribution	-23.57
Covariance contribution	1.87
Combinations/Pair	1.30
Mean z-score	-2.22
Structure conservation index	0.56
SVM decision value	1.59
SVM RNA-class probability	0.965748
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7641460 114 - 23771897
AGGUACGGAUUGAGUGGCGAUGGCGACAUUGGCCAGAAUGUCACCUUGACAUCUCCAAAGUCGCCGGCACCACCCAAAUCGCCAACUCCGGCCCUAACUAAAAGUACUCGAAGA
(((..((((.....(((((((((((((.((((..(((.((((.....))))))))))).))))))((......))..)))))))..))))..)))................... ( -43.70)
>DroEre_CAF1 30118 114 - 1
AGGUACGGUUUGAGUGGCGAUGGCGACAUUGGCCAGAGUGUCUCCUCGGCACCACCAAAGUCGCCGGCACCACCCAAAUCGCCAGCUCCGGCCCUAACUAAAAGUACUCGAAAA
.(((((((((((.((((.(.(((((((.((((...(.(((((.....)))))).)))).))))))).).)))).))))))(((......)))...........)))))...... ( -45.50)
>DroWil_CAF1 44275 111 - 1
CGGUUCGGUCUCAAUGCUGAUGGUGAGA---GUCGUAGUGUUACGCCGGCACCACCGAAAUCGCCAGCACCACCCAAAUCGCCUGCACCACAGCACACUAAAAAUACAUAUAAA
.((((((((......)))))((((((..---.(((..(((((.....)))))...)))..))))))..)))............(((......)))................... ( -23.10)
>DroYak_CAF1 27428 114 - 1
AGGUACGGUUUGAGUGGCGAUGGCGAAAUUGGCCAGAGUGUCUCCACGGCACCCCCAAAGUCGCCAGCACCACCCAAAUCGCCAGCUCCGGCCCAAACUAAAAGUACCCGAAGA
.(((((((((((.((((.(.((((((..((((...(.(((((.....)))))).))))..)))))).).)))).))))))(((......)))...........)))))...... ( -45.90)
>DroAna_CAF1 27012 114 - 1
CGUUACGGUUUGAGUGGCGAUGGCGAAAUUGGCCAUAGCAUAUCGCCAGCUCUGCCAAAGUCACCAGCACCACCCAAAUCACCCGCCCCGGGCCUCACUAAAAUUACUCACAGA
......((((((.((((.(.(((.((..(((((...(((.........)))..)))))..)).))).).)))).)))))).((((...))))...................... ( -33.60)
>DroPer_CAF1 35921 111 - 1
CGAUAUGGGUUGAGUGGCGAUGCCGAG---GGCCAGAGGGUCUCUCCGGCUCCGCCAAAGUCCCCAGCACCGCCGAAAUCGCCGGCCCCGCCUCAGACCAAAAGUACGUACAGA
.....(((.((((((((((..((((((---((((....)))).)).))))..))))).........((...((((.......))))...))))))).))).............. ( -39.30)
>consensus
AGGUACGGUUUGAGUGGCGAUGGCGAAAUUGGCCAGAGUGUCUCCCCGGCACCACCAAAGUCGCCAGCACCACCCAAAUCGCCAGCUCCGGCCCAAACUAAAAGUACUCAAAGA
.....(((((((.((((.(.((((((..((((.....(((((.....)))))..))))..)))))).).)))).)))))))................................. (-21.70 = -23.57 +   1.87)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:26 2006