Locus 7151

Sequence ID	3L_DroMel_CAF1
Location	19,198,093 – 19,198,331
Length	238
Max. P	0.999912

overview

Window 1

Location	19,198,093 – 19,198,213
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	98.61
Mean single sequence MFE	-40.48
Consensus MFE	-39.17
Energy contribution	-39.03
Covariance contribution	-0.14
Combinations/Pair	1.03
Mean z-score	-2.62
Structure conservation index	0.97
SVM decision value	4.51
SVM RNA-class probability	0.999912
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19198093 120 + 23771897
CUCAAUGGGCUCUGGGGCAAAUAUUUUAAAUGCGCAGAUUUUUGGCAUGUUUUAGUGGCAGUUCACGUUUUGAAUUGUUGCCAUGCCCCUCGGAAACGGUCCAACGCUCGUUUCACUGAC
...(((((((...((((((..........((((.(((....)))))))......(..((((((((.....))))))))..)..))))))(((....)))......)))))))........ ( -39.50)
>DroSec_CAF1 26446 120 + 1
CUCAAUGGGCUCUGGGGCAAAUAUUUUAAAUGCGCAGAUUUUUGGCAUGUUUUAGUGGCAGUUCACGUUUUGAAUUGUUGCCAUGCCCCACGGAAACGGUCCAACGCUCGUUUCACUGAC
...(((((((..(((((((..........((((.(((....)))))))......(..((((((((.....))))))))..)..)))))))((....)).......)))))))........ ( -40.60)
>DroSim_CAF1 30759 120 + 1
CUCAAUGGGCUCUGGGGCAAAUAUUUUAAAUGCGCAGAUUUUUGGCAUGUUUUAGUGGCAGUUCACGUUUUGAAUUGUUGCCAUGCCCCACGGAAACGGUCCAACGCUCGUUUCACUGAC
...(((((((..(((((((..........((((.(((....)))))))......(..((((((((.....))))))))..)..)))))))((....)).......)))))))........ ( -40.60)
>DroEre_CAF1 29608 120 + 1
CUCAAUGGGCUCUGGGGCAAAUAUUUUAAAUGCGCAGAUUUUUGGCAUGUUUUAGUGGCAGUUCACGUUUUGAAUUGUUGCCAUGCCCCACGGAAACGGUCCAACGCUCGUUUCACUGAC
...(((((((..(((((((..........((((.(((....)))))))......(..((((((((.....))))))))..)..)))))))((....)).......)))))))........ ( -40.60)
>DroYak_CAF1 54582 120 + 1
CUCAAUGGGCUCUGGGGCAAAUAUUUUAAAUGCGCAGAUUUUUGGCAUGUUUUAGUGGCAGUUCACGUUUUGAAUUGUUGCCAUGCCCCACGGAAACGGUCCAACGCUCGUUUCACUGAC
...(((((((..(((((((..........((((.(((....)))))))......(..((((((((.....))))))))..)..)))))))((....)).......)))))))........ ( -40.60)
>DroAna_CAF1 19659 119 + 1
UUCAAUGGGCUCUGGGGCAAAUAUUUUAAAUGCGCAGAUUUUUGGCAUGUUUUAGUGGCAGUUCACGUUUUGAAUUGUUGCCAUGCCCCACGGA-AUGGUCCGACGCUCGUUUCACUGAC
...(((((((..(((((((..........((((.(((....)))))))......(..((((((((.....))))))))..)..)))))))((((-....))))..)))))))........ ( -41.00)
>consensus
CUCAAUGGGCUCUGGGGCAAAUAUUUUAAAUGCGCAGAUUUUUGGCAUGUUUUAGUGGCAGUUCACGUUUUGAAUUGUUGCCAUGCCCCACGGAAACGGUCCAACGCUCGUUUCACUGAC
...(((((((...((((((..........((((.(((....)))))))......(..((((((((.....))))))))..)..)))))).((....)).......)))))))........ (-39.17 = -39.03 +  -0.14)

alignment

secondary structure

dotplot

Window 2

Location	19,198,093 – 19,198,213
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	98.61
Mean single sequence MFE	-32.30
Consensus MFE	-31.09
Energy contribution	-31.12
Covariance contribution	0.03
Combinations/Pair	1.03
Mean z-score	-1.45
Structure conservation index	0.96
SVM decision value	2.04
SVM RNA-class probability	0.986516
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19198093 120 - 23771897
GUCAGUGAAACGAGCGUUGGACCGUUUCCGAGGGGCAUGGCAACAAUUCAAAACGUGAACUGCCACUAAAACAUGCCAAAAAUCUGCGCAUUUAAAAUAUUUGCCCCAGAGCCCAUUGAG
.((((((.........(((((.....)))))(((((((((((....((((.....)))).))))).......((((((......)).))))..........))))))......)))))). ( -32.20)
>DroSec_CAF1 26446 120 - 1
GUCAGUGAAACGAGCGUUGGACCGUUUCCGUGGGGCAUGGCAACAAUUCAAAACGUGAACUGCCACUAAAACAUGCCAAAAAUCUGCGCAUUUAAAAUAUUUGCCCCAGAGCCCAUUGAG
.(((((((((((..(....)..))))))..((((((((((((....((((.....)))).))))).......((((((......)).))))..........)))))))......))))). ( -32.20)
>DroSim_CAF1 30759 120 - 1
GUCAGUGAAACGAGCGUUGGACCGUUUCCGUGGGGCAUGGCAACAAUUCAAAACGUGAACUGCCACUAAAACAUGCCAAAAAUCUGCGCAUUUAAAAUAUUUGCCCCAGAGCCCAUUGAG
.(((((((((((..(....)..))))))..((((((((((((....((((.....)))).))))).......((((((......)).))))..........)))))))......))))). ( -32.20)
>DroEre_CAF1 29608 120 - 1
GUCAGUGAAACGAGCGUUGGACCGUUUCCGUGGGGCAUGGCAACAAUUCAAAACGUGAACUGCCACUAAAACAUGCCAAAAAUCUGCGCAUUUAAAAUAUUUGCCCCAGAGCCCAUUGAG
.(((((((((((..(....)..))))))..((((((((((((....((((.....)))).))))).......((((((......)).))))..........)))))))......))))). ( -32.20)
>DroYak_CAF1 54582 120 - 1
GUCAGUGAAACGAGCGUUGGACCGUUUCCGUGGGGCAUGGCAACAAUUCAAAACGUGAACUGCCACUAAAACAUGCCAAAAAUCUGCGCAUUUAAAAUAUUUGCCCCAGAGCCCAUUGAG
.(((((((((((..(....)..))))))..((((((((((((....((((.....)))).))))).......((((((......)).))))..........)))))))......))))). ( -32.20)
>DroAna_CAF1 19659 119 - 1
GUCAGUGAAACGAGCGUCGGACCAU-UCCGUGGGGCAUGGCAACAAUUCAAAACGUGAACUGCCACUAAAACAUGCCAAAAAUCUGCGCAUUUAAAAUAUUUGCCCCAGAGCCCAUUGAA
.((((((..........((((....-))))((((((((((((....((((.....)))).))))).......((((((......)).))))..........))))))).....)))))). ( -32.80)
>consensus
GUCAGUGAAACGAGCGUUGGACCGUUUCCGUGGGGCAUGGCAACAAUUCAAAACGUGAACUGCCACUAAAACAUGCCAAAAAUCUGCGCAUUUAAAAUAUUUGCCCCAGAGCCCAUUGAG
.((((((..........((((.....))))((((((((((((....((((.....)))).))))).......((((((......)).))))..........))))))).....)))))). (-31.09 = -31.12 +   0.03)

alignment

secondary structure

dotplot

Window 3

Location	19,198,133 – 19,198,252
Length	119
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	98.32
Mean single sequence MFE	-29.28
Consensus MFE	-28.57
Energy contribution	-28.60
Covariance contribution	0.03
Combinations/Pair	1.03
Mean z-score	-2.41
Structure conservation index	0.98
SVM decision value	4.40
SVM RNA-class probability	0.999890
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19198133 119 + 23771897
UUUGGCAUGUUUUAGUGGCAGUUCACGUUUUGAAUUGUUGCCAUGCCCCUCGGAAACGGUCCAACGCUCGUUUCACUGACAAUUUAAUACAAAAAAUGCCAAACAUUUUCACA-AAAUAA
((((((((.((((.(..((((((((.....))))))))..)...........((((((((.....)).))))))................)))).))))))))..........-...... ( -29.20)
>DroSec_CAF1 26486 119 + 1
UUUGGCAUGUUUUAGUGGCAGUUCACGUUUUGAAUUGUUGCCAUGCCCCACGGAAACGGUCCAACGCUCGUUUCACUGACAAUUUAAUACAAAAAAUGCCAAACAUUUUCACA-AAAUAA
((((((((.((((.(..((((((((.....))))))))..).......((..((((((((.....)).))))))..))............)))).))))))))..........-...... ( -29.30)
>DroSim_CAF1 30799 119 + 1
UUUGGCAUGUUUUAGUGGCAGUUCACGUUUUGAAUUGUUGCCAUGCCCCACGGAAACGGUCCAACGCUCGUUUCACUGACAAUUUAAUACAAAAAAUGCCAAACAUUUUCACA-AAAUAA
((((((((.((((.(..((((((((.....))))))))..).......((..((((((((.....)).))))))..))............)))).))))))))..........-...... ( -29.30)
>DroEre_CAF1 29648 119 + 1
UUUGGCAUGUUUUAGUGGCAGUUCACGUUUUGAAUUGUUGCCAUGCCCCACGGAAACGGUCCAACGCUCGUUUCACUGACAAUUUAAUACAAAAAAUGCCAAACAUUUUCACA-AAAUAA
((((((((.((((.(..((((((((.....))))))))..).......((..((((((((.....)).))))))..))............)))).))))))))..........-...... ( -29.30)
>DroYak_CAF1 54622 119 + 1
UUUGGCAUGUUUUAGUGGCAGUUCACGUUUUGAAUUGUUGCCAUGCCCCACGGAAACGGUCCAACGCUCGUUUCACUGACAAUUUAAUACAAAAAAUGCCAAACAUUUUCACA-AAAUAA
((((((((.((((.(..((((((((.....))))))))..).......((..((((((((.....)).))))))..))............)))).))))))))..........-...... ( -29.30)
>DroAna_CAF1 19699 119 + 1
UUUGGCAUGUUUUAGUGGCAGUUCACGUUUUGAAUUGUUGCCAUGCCCCACGGA-AUGGUCCGACGCUCGUUUCACUGACAAUUUAAUACAAAAAAUGCCAAACAUUUUCCCAGAAAUAA
((((((((.((((.((((....))))((.(((((((((((((((.((....)).-))))).((.....)).......)))))))))).)))))).))))))))................. ( -29.30)
>consensus
UUUGGCAUGUUUUAGUGGCAGUUCACGUUUUGAAUUGUUGCCAUGCCCCACGGAAACGGUCCAACGCUCGUUUCACUGACAAUUUAAUACAAAAAAUGCCAAACAUUUUCACA_AAAUAA
((((((((.((((.(..((((((((.....))))))))..)...........((((((((.....)).))))))................)))).))))))))................. (-28.57 = -28.60 +   0.03)

alignment

secondary structure

dotplot

Window 4

Location	19,198,173 – 19,198,291
Length	118
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	94.21
Mean single sequence MFE	-25.13
Consensus MFE	-21.35
Energy contribution	-21.60
Covariance contribution	0.25
Combinations/Pair	1.00
Mean z-score	-2.54
Structure conservation index	0.85
SVM decision value	1.65
SVM RNA-class probability	0.969710
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19198173 118 + 23771897
CCAUGCCCCUCGGAAACGGUCCAACGCUCGUUUCACUGACAAUUUAAUACAAAAAAUGCCAAACAUUUUCACA-AAAUAAAAGGACCAGCACAAAAAGCCAACGUGGAA-AAGUUUGGCA
............((((((((.....)).))))))......................((((((((.(((((((.-.............................))))))-).)))))))) ( -23.31)
>DroSec_CAF1 26526 118 + 1
CCAUGCCCCACGGAAACGGUCCAACGCUCGUUUCACUGACAAUUUAAUACAAAAAAUGCCAAACAUUUUCACA-AAAUAAAAGGACCGGCACAAAAAGCCAACGUGGAA-AAGUUUGGCA
...(((((((((.....(((((.......(((.....)))............((((((.....))))))....-........)))))(((.......)))..)))))..-......)))) ( -27.90)
>DroSim_CAF1 30839 118 + 1
CCAUGCCCCACGGAAACGGUCCAACGCUCGUUUCACUGACAAUUUAAUACAAAAAAUGCCAAACAUUUUCACA-AAAUAAAAGGACCGGCACAAAAAGCCAACGUGGAA-AAGUUUGGCA
...(((((((((.....(((((.......(((.....)))............((((((.....))))))....-........)))))(((.......)))..)))))..-......)))) ( -27.90)
>DroEre_CAF1 29688 118 + 1
CCAUGCCCCACGGAAACGGUCCAACGCUCGUUUCACUGACAAUUUAAUACAAAAAAUGCCAAACAUUUUCACA-AAAUAAAAGGACCAGCACAAAAAGCCAACGUGGAA-AAGUUUGGCA
...(((((((((.....(((((.......(((.....)))............((((((.....))))))....-........))))).((.......))...)))))..-......)))) ( -23.60)
>DroYak_CAF1 54662 118 + 1
CCAUGCCCCACGGAAACGGUCCAACGCUCGUUUCACUGACAAUUUAAUACAAAAAAUGCCAAACAUUUUCACA-AAAUAAAAGGACCAGCACAAAAAGCCAACGUGGAA-AAGUUUGGCA
...(((((((((.....(((((.......(((.....)))............((((((.....))))))....-........))))).((.......))...)))))..-......)))) ( -23.60)
>DroAna_CAF1 19739 107 + 1
CCAUGCCCCACGGA-AUGGUCCGACGCUCGUUUCACUGACAAUUUAAUACAAAAAAUGCCAAACAUUUUCCCAGAAAUAAAAGGACCA------------AACGUGGAAAAAGUUUGGCA
...(((((((((..-.((((((.......(((.....)))............((((((.....)))))).............))))))------------..))))).........)))) ( -24.50)
>consensus
CCAUGCCCCACGGAAACGGUCCAACGCUCGUUUCACUGACAAUUUAAUACAAAAAAUGCCAAACAUUUUCACA_AAAUAAAAGGACCAGCACAAAAAGCCAACGUGGAA_AAGUUUGGCA
...(((((((((.....(((((.......(((.....)))............((((((.....)))))).............))))).((.......))...))))).........)))) (-21.35 = -21.60 +   0.25)

alignment

secondary structure

dotplot

Window 5

Location	19,198,213 – 19,198,331
Length	118
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	92.92
Mean single sequence MFE	-23.81
Consensus MFE	-19.33
Energy contribution	-19.50
Covariance contribution	0.17
Combinations/Pair	1.00
Mean z-score	-3.35
Structure conservation index	0.81
SVM decision value	1.70
SVM RNA-class probability	0.972666
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19198213 118 + 23771897
AAUUUAAUACAAAAAAUGCCAAACAUUUUCACA-AAAUAAAAGGACCAGCACAAAAAGCCAACGUGGAA-AAGUUUGGCAGUCGUAUAGCGUGUGUUAACCCUUUAAAAUACCCAAAAAU
...((((((((.....((((((((.(((((((.-.............................))))))-).))))))))..((.....))))))))))..................... ( -22.71)
>DroSec_CAF1 26566 118 + 1
AAUUUAAUACAAAAAAUGCCAAACAUUUUCACA-AAAUAAAAGGACCGGCACAAAAAGCCAACGUGGAA-AAGUUUGGCAGUCGUAAAGCGUGUGUUAACCCUUUAAAAUACCCAAAAAU
...((((((((.....((((((((.(((((((.-........(...)(((.......)))...))))))-).))))))))..((.....))))))))))..................... ( -26.80)
>DroSim_CAF1 30879 118 + 1
AAUUUAAUACAAAAAAUGCCAAACAUUUUCACA-AAAUAAAAGGACCGGCACAAAAAGCCAACGUGGAA-AAGUUUGGCAGUCGUAAAGCGUGUGUUAACCCUUUAAAAUACCCAAAAAU
...((((((((.....((((((((.(((((((.-........(...)(((.......)))...))))))-).))))))))..((.....))))))))))..................... ( -26.80)
>DroEre_CAF1 29728 118 + 1
AAUUUAAUACAAAAAAUGCCAAACAUUUUCACA-AAAUAAAAGGACCAGCACAAAAAGCCAACGUGGAA-AAGUUUGGCAGUCGUAAAGCGUGUGUUAACCCUUUAAAAUGCCCAAAAAU
...((((((((.....((((((((.(((((((.-.............................))))))-).))))))))..((.....))))))))))..................... ( -22.71)
>DroYak_CAF1 54702 118 + 1
AAUUUAAUACAAAAAAUGCCAAACAUUUUCACA-AAAUAAAAGGACCAGCACAAAAAGCCAACGUGGAA-AAGUUUGGCAGUCGUAAAGCGUGUGUUAACCCUUUAAAAUACCCAAAAAU
...((((((((.....((((((((.(((((((.-.............................))))))-).))))))))..((.....))))))))))..................... ( -22.71)
>DroAna_CAF1 19778 108 + 1
AAUUUAAUACAAAAAAUGCCAAACAUUUUCCCAGAAAUAAAAGGACCA------------AACGUGGAAAAAGUUUGGCACUCGUAAACCGUGUGUUAACCCUUUAAAAUGGCCGACAAA
...((((((((.....((((((((.(((((((................------------...).)))))).))))))))..((.....)))))))))).((........))........ ( -21.11)
>consensus
AAUUUAAUACAAAAAAUGCCAAACAUUUUCACA_AAAUAAAAGGACCAGCACAAAAAGCCAACGUGGAA_AAGUUUGGCAGUCGUAAAGCGUGUGUUAACCCUUUAAAAUACCCAAAAAU
...((((((((.....((((((((..((((((...............................))))))...))))))))..((.....))))))))))..................... (-19.33 = -19.50 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:25 2006