Locus 7788

Sequence ID X_DroMel_CAF1
Location 19,392,838 – 19,392,937
Length 99
Max. P 0.988840
window12777 window12778

overview

Window 7

Location 19,392,838 – 19,392,937
Length 99
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 75.32
Mean single sequence MFE -39.16
Consensus MFE -33.46
Energy contribution -32.52
Covariance contribution -0.94
Combinations/Pair 1.31
Mean z-score -4.37
Structure conservation index 0.85
SVM decision value 1.28
SVM RNA-class probability 0.939562
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19392838 99 + 22224390
AUGCAGUGCCGCGGCAUUGGUGAGGCCAUCUCCAAUGGAUUAGUUCUCAACAUUGGAUUAGUUAUCAUCAAUGCCGGUGCACUGCACCUAACAACAUCG
.(((((((((.((((((((((((.......(((((((.............))))))).......))))))))))))).))))))))............. ( -43.76)
>DroVir_CAF1 41100 94 + 1
GUGCAGCCCCUCGCGAUUGAUGAUAGCAUCUCCAAUGAG-CAU---AUCACAUUGGAUUAGUUCUCAUCGAUGCCGAUGCGCUGUACCAG-CAACAACA
(((((((.(.(((..((((((((.(((...(((((((..-...---....)))))))...))).))))))))..))).).)))))))...-........ ( -32.60)
>DroSec_CAF1 25983 99 + 1
AUGCAGUGCCGUGGCAUUGGUGAGGACAUCUCCAAUGGCUUAGUUCUCAUCAUUGGAUUAGUUAUCAUCAAUGCCGGUGCACUGCAGCUGUCAACUUCG
.((((((((..((((((((((((.(((...((((((((...........))))))))...))).))))))))))))..))))))))............. ( -43.70)
>DroEre_CAF1 24534 98 + 1
AUGCAGUGCCUCGACAUUGGUGAGGGCAUCUCCAAUGGG-GAGCCAGCAUCAUUGGAUUAGUUCUCAUUAAUGCCGGAGCAUGGCACCUACGAACUGAG
.(((.((((..((.(((((((((((((...(((((((..-(......)..)))))))...))))))))))))).))..)))).)))............. ( -38.90)
>DroYak_CAF1 23882 98 + 1
AUGCAGUGCCACGACAUUGGUGAGGGCAUCUCCAAUGGG-GACCCGGCAUCAUUGGAUUAGUUCUCAUUAAUGCCGGAGCACUGCACCUACCAACUUCG
.((((((((..((.(((((((((((((...(((((((..-(......)..)))))))...))))))))))))).))..))))))))............. ( -44.20)
>DroMoj_CAF1 32398 94 + 1
GUGCAGCCCCUCGCGAUUGAUGAAAGCAUCUCCAAUGAG-UAU---UUCGCAUUGGAUUAGUUCUCAUCGAUGUCGAUGCGCUGUAUCAG-CAACAACA
(((((((.(.(((..((((((((.(((...(((((((.(-...---..).)))))))...))).))))))))..))).).)))))))...-........ ( -31.80)
>consensus
AUGCAGUGCCUCGACAUUGGUGAGGGCAUCUCCAAUGGG_UAG___UCAUCAUUGGAUUAGUUCUCAUCAAUGCCGGUGCACUGCACCUA_CAACAUCG
.((((((((..((.(((((((((.(((...(((((((.............)))))))...))).))))))))).))..))))))))............. (-33.46 = -32.52 +  -0.94)

alignment

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secondary structure

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dotplot

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Window 8

Location 19,392,838 – 19,392,937
Length 99
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 75.32
Mean single sequence MFE -34.86
Consensus MFE -27.08
Energy contribution -29.28
Covariance contribution 2.20
Combinations/Pair 1.11
Mean z-score -2.96
Structure conservation index 0.78
SVM decision value 2.14
SVM RNA-class probability 0.988840
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19392838 99 - 22224390
CGAUGUUGUUAGGUGCAGUGCACCGGCAUUGAUGAUAACUAAUCCAAUGUUGAGAACUAAUCCAUUGGAGAUGGCCUCACCAAUGCCGCGGCACUGCAU
............(((((((((..((((((((.(((...(((.(((((((..((.......)))))))))..)))..))).))))))))..))))))))) ( -42.30)
>DroVir_CAF1 41100 94 - 1
UGUUGUUG-CUGGUACAGCGCAUCGGCAUCGAUGAGAACUAAUCCAAUGUGAU---AUG-CUCAUUGGAGAUGCUAUCAUCAAUCGCGAGGGGCUGCAC
(((.(((.-((.((...((......))...(((((.......(((((((.(..---...-).))))))).......)))))....)).)).))).))). ( -26.34)
>DroSec_CAF1 25983 99 - 1
CGAAGUUGACAGCUGCAGUGCACCGGCAUUGAUGAUAACUAAUCCAAUGAUGAGAACUAAGCCAUUGGAGAUGUCCUCACCAAUGCCACGGCACUGCAU
.............((((((((...(((((((.(((..((...(((((((.............)))))))...))..))).)))))))...)))))))). ( -38.92)
>DroEre_CAF1 24534 98 - 1
CUCAGUUCGUAGGUGCCAUGCUCCGGCAUUAAUGAGAACUAAUCCAAUGAUGCUGGCUC-CCCAUUGGAGAUGCCCUCACCAAUGUCGAGGCACUGCAU
........((((.((((.....(((((((((.((.((.....)))).))))))))).((-..((((((.((.....)).))))))..)))))))))).. ( -34.00)
>DroYak_CAF1 23882 98 - 1
CGAAGUUGGUAGGUGCAGUGCUCCGGCAUUAAUGAGAACUAAUCCAAUGAUGCCGGGUC-CCCAUUGGAGAUGCCCUCACCAAUGUCGUGGCACUGCAU
............(((((((((..(((((((..((((..(...(((((((..........-..)))))))...)..))))..)))))))..))))))))) ( -39.80)
>DroMoj_CAF1 32398 94 - 1
UGUUGUUG-CUGAUACAGCGCAUCGACAUCGAUGAGAACUAAUCCAAUGCGAA---AUA-CUCAUUGGAGAUGCUUUCAUCAAUCGCGAGGGGCUGCAC
........-......((((.(.(((.....(((((((.(...(((((((.(..---...-).)))))))...).))))))).....))).).))))... ( -27.80)
>consensus
CGAAGUUG_CAGGUGCAGUGCACCGGCAUUGAUGAGAACUAAUCCAAUGAUGA___CUA_CCCAUUGGAGAUGCCCUCACCAAUGCCGAGGCACUGCAU
............(((((((((..((((((((.(((.......(((((((.............))))))).......))).))))))))..))))))))) (-27.08 = -29.28 +   2.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:34 2006