Locus 3049

Sequence ID	2L_DroMel_CAF1
Location	8,703,753 – 8,703,850
Length	97
Max. P	0.990618

overview

Window 3

Location	8,703,753 – 8,703,850
Length	97
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	79.41
Mean single sequence MFE	-22.53
Consensus MFE	-15.59
Energy contribution	-16.23
Covariance contribution	0.64
Combinations/Pair	1.11
Mean z-score	-2.90
Structure conservation index	0.69
SVM decision value	1.69
SVM RNA-class probability	0.972027
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8703753 97 + 22407834
UUUGCCAUUGCGCAUACUUAACCCUUUGGGGUUAAGUUAAACAUUACGAUUACGUUUCACAUCGCUUA-AAU-UUGUGCGCGUUUCC---UUUGUUUU-U--ACU-
.........(((((((((((((((....))))))))).........((((..........))))....-...-..))))))......---........-.--...- ( -22.80)
>DroSec_CAF1 16295 99 + 1
UUUGCCAUUGAGCAUACUUAACCCUUUGGGGUUAAGUUAAACAUUACGAUUACGUUUCACAUCGCUUA-AAU-UUGUGCGUGUUUUU---UUUGUUUUUU--AUUU
...((((((((((..(((((((((....)))))))))........(((....)))........)))))-)..-.)).))........---..........--.... ( -20.70)
>DroEre_CAF1 18860 94 + 1
UUUGCCAUUGCGCAUACUUAACCCUUUGGGGUUAAGUUAAACAUUACGAUUACGUUUCACGUCGCUUA-AAUGUUGUGCGCGUUUUC---UUUGUUUU--------
.........(((((((((((((((....)))))))))..((((((......(((.....)))......-))))))))))))......---........-------- ( -26.90)
>DroWil_CAF1 19287 97 + 1
UUUGCUUUUGCGCAUAUUUAACCCUUUGGGGUUAAGUUAAGCAUUACGUUUAAGUUUUACUUCGCUUU-GUU-UUGUAAGGUUUUUA---UUUGACUUC---GUU-
...((....))((..(((((((((....)))))))))...))...(((.((((((...((((..(...-...-..)..))))....)---)))))...)---)).- ( -21.70)
>DroMoj_CAF1 24619 97 + 1
UUUGCUAUUGCGCAUAUUUAACCCUUUAGGGUUAAGUUAAACAUUACGCUUACGUUUUAUUUCGUUUUCAUU-UUGCGCGCCAU-U-----UUGCGAUUU--AUUU
.((((.((.((((..(((((((((....)))))))))..........((..(((........))).......-..)))))).))-.-----..))))...--.... ( -21.80)
>DroPer_CAF1 19012 102 + 1
UUUGCUGUUGCGCAUAUUUAACCCUU--GGGUUAAGUUAAACAUUACGAUUACGUUUUACUUCGCUUA-AUU-UUGUGCGCGUUUUCCCCAUGGUUUUCCAUACAC
.........((((((((((((((...--.)))))))...........(((((.((........)).))-)))-.))))))).........((((....)))).... ( -21.30)
>consensus
UUUGCCAUUGCGCAUACUUAACCCUUUGGGGUUAAGUUAAACAUUACGAUUACGUUUCACUUCGCUUA_AAU_UUGUGCGCGUUUUC___UUUGUUUU_U__AUU_
.........(((((((((((((((....)))))))).........(((....)))...................)))))))......................... (-15.59 = -16.23 +   0.64)

alignment

secondary structure

dotplot

Window 4

Location	8,703,753 – 8,703,850
Length	97
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	79.41
Mean single sequence MFE	-23.42
Consensus MFE	-13.66
Energy contribution	-14.55
Covariance contribution	0.89
Combinations/Pair	1.10
Mean z-score	-4.09
Structure conservation index	0.58
SVM decision value	2.22
SVM RNA-class probability	0.990618
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8703753 97 - 22407834
-AGU--A-AAAACAAA---GGAAACGCGCACAA-AUU-UAAGCGAUGUGAAACGUAAUCGUAAUGUUUAACUUAACCCCAAAGGGUUAAGUAUGCGCAAUGGCAAA
-.((--.-........---(....)(((((...-...-...(((((..........)))))........(((((((((....))))))))).)))))....))... ( -27.00)
>DroSec_CAF1 16295 99 - 1
AAAU--AAAAAACAAA---AAAAACACGCACAA-AUU-UAAGCGAUGUGAAACGUAAUCGUAAUGUUUAACUUAACCCCAAAGGGUUAAGUAUGCUCAAUGGCAAA
....--...(((((..---....((((((....-...-...))).)))...(((....)))..))))).(((((((((....))))))))).((((....)))).. ( -22.30)
>DroEre_CAF1 18860 94 - 1
--------AAAACAAA---GAAAACGCGCACAACAUU-UAAGCGACGUGAAACGUAAUCGUAAUGUUUAACUUAACCCCAAAGGGUUAAGUAUGCGCAAUGGCAAA
--------........---......(((((.((((((-......(((.....)))......))))))..(((((((((....))))))))).)))))......... ( -26.80)
>DroWil_CAF1 19287 97 - 1
-AAC---GAAGUCAAA---UAAAAACCUUACAA-AAC-AAAGCGAAGUAAAACUUAAACGUAAUGCUUAACUUAACCCCAAAGGGUUAAAUAUGCGCAAAAGCAAA
-...---.........---..............-...-...((((((((..((......))..)))))...(((((((....))))))).....)))......... ( -14.60)
>DroMoj_CAF1 24619 97 - 1
AAAU--AAAUCGCAA-----A-AUGGCGCGCAA-AAUGAAAACGAAAUAAAACGUAAGCGUAAUGUUUAACUUAACCCUAAAGGGUUAAAUAUGCGCAAUAGCAAA
....--.....((..-----.-...))(((((.-..........(((((..(((....)))..)))))...(((((((....)))))))...)))))......... ( -22.30)
>DroPer_CAF1 19012 102 - 1
GUGUAUGGAAAACCAUGGGGAAAACGCGCACAA-AAU-UAAGCGAAGUAAAACGUAAUCGUAAUGUUUAACUUAACCC--AAGGGUUAAAUAUGCGCAACAGCAAA
(((((((...((((...(((....(((......-...-...)))((((.((((((.......)))))).))))..)))--...))))...)))))))......... ( -27.50)
>consensus
_AAU__A_AAAACAAA___GAAAACGCGCACAA_AAU_UAAGCGAAGUAAAACGUAAUCGUAAUGUUUAACUUAACCCCAAAGGGUUAAAUAUGCGCAAUAGCAAA
.........................(((((................((.((((((.......)))))).))(((((((....)))))))...)))))......... (-13.66 = -14.55 +   0.89)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:06 2006