Locus 7484

Sequence ID X_DroMel_CAF1
Location 18,669,332 – 18,669,486
Length 154
Max. P 0.965629
window12274 window12275 window12276

overview

Window 4

Location 18,669,332 – 18,669,446
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.42
Mean single sequence MFE -28.98
Consensus MFE -11.64
Energy contribution -12.92
Covariance contribution 1.28
Combinations/Pair 1.11
Mean z-score -3.03
Structure conservation index 0.40
SVM decision value 0.47
SVM RNA-class probability 0.750568
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18669332 114 + 22224390
GAAAACAAUGAUAGCUGAAUUCC-GUGUGCGUGUGUGUG--UGUUGAUUGCAGCCCACAAAUAAACACUUGUGCACCCA--UUGCACCUAAA-ACGCAAGUGCAGAAACAUACACACAAA
.............((........-....)).((((((((--((((..((((...................(((((....--.))))).....-((....)))))).)))))))))))).. ( -29.80)
>DroSec_CAF1 14424 104 + 1
GAAAACAAUGAUAGCCGAUUUUC-GUG----------UG--UGUCGAUUGCAGCCCACAAAUAAACACUUGUGCACCCA--CUGCACCUAAA-ACACAAGUGCAGAAACACACACACAAA
((((((..........).)))))-(((----------((--(((...........(((((........)))))......--((((((.....-......))))))..))))))))..... ( -23.40)
>DroSim_CAF1 12517 102 + 1
GAAA--CAUGAUAGCUGAUUUUC-GUG----------UG--UGUUGAUUACAGCCCACAAAUAAACACUUGUGCACCCA--CUGCACCUAAA-ACACAAGUGCAGAAACACACACACAAA
....--.................-(((----------((--((((..........(((((........)))))......--((((((.....-......)))))).)))))))))..... ( -24.70)
>DroEre_CAF1 14629 115 + 1
GAAAACAGCGAUAGCUGCUUUCUUGUGUGCGUGAGUGUG--UGUUGAUUGCA-CCCACAAAUAAACACUUGCACACCCACGCUGCACCGAAACACGCAAGUGCAGAAACA--CACACAAA
((((.((((....)))).))))(((((((((((.(((((--((((..(((..-....)))...)))....)))))).))))((((((((.....))...)))))).....--))))))). ( -37.90)
>DroYak_CAF1 14659 114 + 1
GAAAACAAUGAUAGCUGAUUUCU-GUGUGCGUGUGUGUGUCUGUUGAUUGCAACACACAAAUAAACAGUUGUACACCCA--CUGCACCUAAA-ACGCAAGUGCAGAAACA--CACACAAA
((((.((........)).))))(-(((((.((.(((((((.(((.....))))))))))....................--((((((.....-......))))))..)).--)))))).. ( -29.10)
>consensus
GAAAACAAUGAUAGCUGAUUUCC_GUGUGCGUG_GUGUG__UGUUGAUUGCAGCCCACAAAUAAACACUUGUGCACCCA__CUGCACCUAAA_ACGCAAGUGCAGAAACA_ACACACAAA
........................(((((......((((..(((.....)))...))))......................((((((............)))))).......)))))... (-11.64 = -12.92 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 18,669,332 – 18,669,446
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.42
Mean single sequence MFE -37.60
Consensus MFE -19.06
Energy contribution -20.38
Covariance contribution 1.32
Combinations/Pair 1.14
Mean z-score -3.41
Structure conservation index 0.51
SVM decision value 1.42
SVM RNA-class probability 0.952576
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18669332 114 - 22224390
UUUGUGUGUAUGUUUCUGCACUUGCGU-UUUAGGUGCAA--UGGGUGCACAAGUGUUUAUUUGUGGGCUGCAAUCAACA--CACACACACGCACAC-GGAAUUCAGCUAUCAUUGUUUUC
((((((((..(((...((((((((...-..)))))))).--..(((.(((((((....))))))).)))..........--.....)))..)))))-))).................... ( -31.60)
>DroSec_CAF1 14424 104 - 1
UUUGUGUGUGUGUUUCUGCACUUGUGU-UUUAGGUGCAG--UGGGUGCACAAGUGUUUAUUUGUGGGCUGCAAUCGACA--CA----------CAC-GAAAAUCGGCUAUCAUUGUUUUC
(((((((((((....(((((((((...-..)))))))))--..(((.(((((((....))))))).))).......)))--))----------)))-))).................... ( -36.90)
>DroSim_CAF1 12517 102 - 1
UUUGUGUGUGUGUUUCUGCACUUGUGU-UUUAGGUGCAG--UGGGUGCACAAGUGUUUAUUUGUGGGCUGUAAUCAACA--CA----------CAC-GAAAAUCAGCUAUCAUG--UUUC
(((((((((((....(((((((((...-..)))))))))--..(((.(((((((....))))))).))).......)))--))----------)))-)))..............--.... ( -36.80)
>DroEre_CAF1 14629 115 - 1
UUUGUGUG--UGUUUCUGCACUUGCGUGUUUCGGUGCAGCGUGGGUGUGCAAGUGUUUAUUUGUGGG-UGCAAUCAACA--CACACUCACGCACACAAGAAAGCAGCUAUCGCUGUUUUC
.(((((((--(....(((((((..........))))))).((((((((....(((((...((((...-.))))..))))--)))))))))))))))))(((((((((....))))))))) ( -46.80)
>DroYak_CAF1 14659 114 - 1
UUUGUGUG--UGUUUCUGCACUUGCGU-UUUAGGUGCAG--UGGGUGUACAACUGUUUAUUUGUGUGUUGCAAUCAACAGACACACACACGCACAC-AGAAAUCAGCUAUCAUUGUUUUC
((((((((--(((...((((((((...-..))))))))(--((.((((....(((((...((((.....))))..))))))))).)))))))))))-))).................... ( -35.90)
>consensus
UUUGUGUGU_UGUUUCUGCACUUGCGU_UUUAGGUGCAG__UGGGUGCACAAGUGUUUAUUUGUGGGCUGCAAUCAACA__CACAC_CACGCACAC_GGAAAUCAGCUAUCAUUGUUUUC
...(((((..((((.(((((((((......)))))))))....(((.(((((((....))))))).)))......))))..))))).................................. (-19.06 = -20.38 +   1.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 18,669,370 – 18,669,486
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.72
Mean single sequence MFE -36.26
Consensus MFE -30.08
Energy contribution -31.56
Covariance contribution 1.48
Combinations/Pair 1.08
Mean z-score -1.97
Structure conservation index 0.83
SVM decision value 1.58
SVM RNA-class probability 0.965629
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18669370 116 - 22224390
UUUAAGCUCGCCUUGUAACGGUACUCCUCGGGAGUUUCAAUUUGUGUGUAUGUUUCUGCACUUGCGU-UUUAGGUGCAA--UGGGUGCACAAGUGUUUAUUUGUGGGCUGCAAUCAACA-
....(((((((.....(((((.(((((...))))).))......(((((((.(...((((((((...-..)))))))).--.).)))))))...))).....)))))))..........- ( -34.60)
>DroSec_CAF1 14452 116 - 1
UUUAAGCUCGCCUUGUAACGGGACUCCACGGGAGUUUCAAUUUGUGUGUGUGUUUCUGCACUUGUGU-UUUAGGUGCAG--UGGGUGCACAAGUGUUUAUUUGUGGGCUGCAAUCGACA-
....(((((((.....((((..(((((...)))))..).(((((((..(.(....(((((((((...-..)))))))))--.).)..)))))))))).....)))))))..........- ( -42.50)
>DroSim_CAF1 12543 116 - 1
UUUAAGCUCGCCUUGUAACGGGACUCCACGGGAGUUUCAAUUUGUGUGUGUGUUUCUGCACUUGUGU-UUUAGGUGCAG--UGGGUGCACAAGUGUUUAUUUGUGGGCUGUAAUCAACA-
....(((((((.....((((..(((((...)))))..).(((((((..(.(....(((((((((...-..)))))))))--.).)..)))))))))).....)))))))..........- ( -42.50)
>DroEre_CAF1 14668 116 - 1
UUUAAGCUCGCCUUGUAACGGUACUCCUCUGCAGCUUCAAUUUGUGUG--UGUUUCUGCACUUGCGUGUUUCGGUGCAGCGUGGGUGUGCAAGUGUUUAUUUGUGGG-UGCAAUCAACA-
.....((((((.....(((.((((.((((((((.(...(((.((((.(--(((....)))).)))).)))..).)))))...))).))))....))).....)))))-)..........- ( -29.40)
>DroYak_CAF1 14698 115 - 1
UUUAAGCUCGCCUUGUUACGGGACUCCUUGGGAGUUUCAAUUUGUGUG--UGUUUCUGCACUUGCGU-UUUAGGUGCAG--UGGGUGUACAACUGUUUAUUUGUGUGUUGCAAUCAACAG
.....(..(((((......(..(((((...)))))..)..........--.....(((((((((...-..)))))))))--.)))))..)..(((((...((((.....))))..))))) ( -32.30)
>consensus
UUUAAGCUCGCCUUGUAACGGGACUCCUCGGGAGUUUCAAUUUGUGUGU_UGUUUCUGCACUUGCGU_UUUAGGUGCAG__UGGGUGCACAAGUGUUUAUUUGUGGGCUGCAAUCAACA_
....(((((((.....(((((((((((...)))))))).(((((((((.......(((((((((......)))))))))......)))))))))))).....)))))))........... (-30.08 = -31.56 +   1.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:04 2006