Locus 1102

Sequence ID	3L_DroMel_CAF1
Location	3,227,531 – 3,227,645
Length	114
Max. P	0.851346

overview

Window 5

Location	3,227,531 – 3,227,645
Length	114
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	71.15
Mean single sequence MFE	-33.50
Consensus MFE	-7.37
Energy contribution	-7.98
Covariance contribution	0.61
Combinations/Pair	1.53
Mean z-score	-2.34
Structure conservation index	0.22
SVM decision value	0.27
SVM RNA-class probability	0.661099
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3227531 114 + 23771897
UCUCCAGAAAGAACCAC------AAUCGGGGAAUCACCACACAGGCGAUGCCCAUCAUCAGACCCAUUGUGGCCAAUCCAAAAACGCUGCAUAAAUGCGUUAGGUGGAUUGGUAAUUGGU
...((((......((((------(((.((((.(((.((.....)).))).))).((....)).).)))))))((((((((..(((((.........)))))...))))))))...)))). ( -38.00)
>DroSec_CAF1 6840 110 + 1
UCUCUAGAAAGAACCAC------AAUCGGGGAAUCACCACACAGGUGAUGCCCAUCACCAGACCCAUUGUGGCCAAUCCAAAAACGCUGCAUGGAUGCGUUAGGUGGAUUGGUAAU----
.............((((------(((.((((.((((((.....)))))).))).((....)).).)))))))((((((((..(((((.........)))))...))))))))....---- ( -39.20)
>DroSim_CAF1 6931 110 + 1
UCUCCAGAAAGAACCAC------AAUCGGGGAAUCACCACACAGGUGAUCACCAUCACCAGACCCAUUGUGGCCAAUCCAAAAACGCUGCAUGGAUGCGUUAGGUGGAUUGGUAAU----
.............((((------(((.(((((.(((((.....)))))))....((....))))))))))))((((((((..(((((.........)))))...))))))))....---- ( -38.50)
>DroEre_CAF1 6712 103 + 1
UCGCCAGGAGCAGCCAC------AAUCUGGGAAUCAUCAGGCAGGCCACGCCUACCACCAGACCCAUUGUGGCCAGUCCAAAGAAGCUACAUGGAUGCGGCAA-------GGUAAU----
..(((.(((...(((((------(((((((((....)).((.((((...)))).)).)))))....)))))))...)))......((..((....))..))..-------)))...---- ( -34.70)
>DroYak_CAF1 6864 103 + 1
UCGCCAGGAAGAGCCAC------AAUCGAGGAAUCACCAGGCAGGCCACGCCUAUCACCAGACCCAAUGUGGCCAAGCCAAAGAAGCUACAUGGAUGUGGUCG-------UGAAAU----
..(((.((.....((..------......)).....)).)))((((...)))).((((..(((((((((((((............)))))))...)).)))))-------)))...---- ( -28.30)
>DroAna_CAF1 8015 109 + 1
UUCCCAGGCAGAUACACCUAAGAAAUCUUGGUAUCACCAGGUAGGCCAAGUAGAGCACCACAACUGAAGCGGCCACUACCAAACAGCUACAGG-AUA---UCA-------UGAAAUUUUU
.(((..(((.(((((...((((....)))))))))....((((((((...(((..........)))....))))..)))).....)))...))-)..---...-------.......... ( -22.30)
>consensus
UCUCCAGAAAGAACCAC______AAUCGGGGAAUCACCACACAGGCCAUGCCCAUCACCAGACCCAUUGUGGCCAAUCCAAAAAAGCUACAUGGAUGCGUUAG_______GGUAAU____
............(((.............(((.....((.....)).....)))..........(((.((((((............)))))))))................)))....... ( -7.37 =  -7.98 +   0.61)

alignment

secondary structure

dotplot

Window 6

Location	3,227,531 – 3,227,645
Length	114
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	71.15
Mean single sequence MFE	-38.28
Consensus MFE	-12.00
Energy contribution	-13.12
Covariance contribution	1.11
Combinations/Pair	1.43
Mean z-score	-2.23
Structure conservation index	0.31
SVM decision value	0.79
SVM RNA-class probability	0.851346
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3227531 114 - 23771897
ACCAAUUACCAAUCCACCUAACGCAUUUAUGCAGCGUUUUUGGAUUGGCCACAAUGGGUCUGAUGAUGGGCAUCGCCUGUGUGGUGAUUCCCCGAUU------GUGGUUCUUUCUGGAGA
.(((....((((((((...(((((.........)))))..))))))))(((((((.((((....)))(((.((((((.....)))))).)))).)))------)))).......)))... ( -44.60)
>DroSec_CAF1 6840 110 - 1
----AUUACCAAUCCACCUAACGCAUCCAUGCAGCGUUUUUGGAUUGGCCACAAUGGGUCUGGUGAUGGGCAUCACCUGUGUGGUGAUUCCCCGAUU------GUGGUUCUUUCUAGAGA
----....((((((((...(((((.........)))))..))))))))(((((((.((((....)))(((.((((((.....)))))).)))).)))------))))((((....)))). ( -43.00)
>DroSim_CAF1 6931 110 - 1
----AUUACCAAUCCACCUAACGCAUCCAUGCAGCGUUUUUGGAUUGGCCACAAUGGGUCUGGUGAUGGUGAUCACCUGUGUGGUGAUUCCCCGAUU------GUGGUUCUUUCUGGAGA
----....((((((((...(((((.........)))))..))))))))(((((((.((((....)))((..((((((.....))))))..))).)))------))))((((....)))). ( -41.70)
>DroEre_CAF1 6712 103 - 1
----AUUACC-------UUGCCGCAUCCAUGUAGCUUCUUUGGACUGGCCACAAUGGGUCUGGUGGUAGGCGUGGCCUGCCUGAUGAUUCCCAGAUU------GUGGCUGCUCCUGGCGA
----......-------(((((((.........))......(((..((((((((((((((....(((((((...)))))))....))..))))..))------))))))..))).))))) ( -40.20)
>DroYak_CAF1 6864 103 - 1
----AUUUCA-------CGACCACAUCCAUGUAGCUUCUUUGGCUUGGCCACAUUGGGUCUGGUGAUAGGCGUGGCCUGCCUGGUGAUUCCUCGAUU------GUGGCUCUUCCUGGCGA
----......-------((.(((.........((((.....)))).((((((((((((.(..(.(.(((((...)))))))..).....)).))).)------)))))).....))))). ( -28.80)
>DroAna_CAF1 8015 109 - 1
AAAAAUUUCA-------UGA---UAU-CCUGUAGCUGUUUGGUAGUGGCCGCUUCAGUUGUGGUGCUCUACUUGGCCUACCUGGUGAUACCAAGAUUUCUUAGGUGUAUCUGCCUGGGAA
.......((.-------((.---(((-(((((((..((..(((((.((((((.......))))).).)))))..))))))..)).)))).)).)).(((((((((......))))))))) ( -31.40)
>consensus
____AUUACC_______CUAACGCAUCCAUGCAGCGUUUUUGGAUUGGCCACAAUGGGUCUGGUGAUGGGCAUCGCCUGCCUGGUGAUUCCCCGAUU______GUGGUUCUUCCUGGAGA
......................(((....))).........(((..((((((.....(((....)))(((.((.(((.....))).)).)))...........))))))..)))...... (-12.00 = -13.12 +   1.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:05 2006