Locus 7080

Sequence ID 2L_DroMel_CAF1
Location 19,808,550 – 19,808,749
Length 199
Max. P 0.999728
window11298 window11299 window11300 window11301 window11302

overview

Window 8

Location 19,808,550 – 19,808,669
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.00
Mean single sequence MFE -31.72
Consensus MFE -27.24
Energy contribution -27.76
Covariance contribution 0.52
Combinations/Pair 1.05
Mean z-score -1.82
Structure conservation index 0.86
SVM decision value 1.58
SVM RNA-class probability 0.965511
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19808550 119 + 22407834
CCUUUGUCCUGGGAAGGAGUAGUUAUCGCUUCUCGGCCUUAUGGCUAAGAUCAAAGUGUAGUAUCUGUUCUUAUCAGCU-AACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUA
...(((((((..((.(((((((.((((((((((..(((....)))..)))....))))..))).)))...(((((((..-.....)))))))...)))).))..)))))))......... ( -32.30)
>DroSec_CAF1 75206 120 + 1
CCUUUGUCCUAGGAAGGAGUAGUUAUCGCUUCUCGGCCUUAUGGCUAAGAUCAAAGUGUAGUAUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUA
...(((((((..((.(((((((.((((((((((..(((....)))..)))....))))..))).)))...(((((((........)))))))...)))).))..)))))))......... ( -33.00)
>DroSim_CAF1 76904 120 + 1
CCUUUGUCCUAGGAAGGAGUAGUUAUCGCUUCUCGGCCUUAUGGCUAAGAUCAAAGUGUAGUAUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUA
...(((((((..((.(((((((.((((((((((..(((....)))..)))....))))..))).)))...(((((((........)))))))...)))).))..)))))))......... ( -33.00)
>DroEre_CAF1 79360 120 + 1
CCUUCCUUUUGAAAAGGAGUAGUUAUCGCUUCUCGGCCUUAUGGCUAAGAUCAAAGUGUAGUAUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUA
........((((.(((((.(((.((((((((((..(((....)))..)))....))))..))).)))))))).))))..((((((.((...((.(((((...)))))))..)).)))))) ( -30.20)
>DroYak_CAF1 81620 119 + 1
CCUUCGUUUUAGGACUGAUUAGUUAUCGCUUCUCGGCCUUUUGGCUAAGAUCA-AGUGUAGUAUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUA
....(((((.(((((.(((...(((.(((((((..(((....)))..)))...-))))))).))).)))))((((((........))))))((.(((((...)))))))...)))))... ( -30.10)
>consensus
CCUUUGUCCUAGGAAGGAGUAGUUAUCGCUUCUCGGCCUUAUGGCUAAGAUCAAAGUGUAGUAUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUA
((((((....(((((.((((((.((((((((((..(((....)))..)))....))))..))).))))))(((((((........))))))))))))....))))))............. (-27.24 = -27.76 +   0.52)

alignment

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secondary structure

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Window 9

Location 19,808,550 – 19,808,669
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.00
Mean single sequence MFE -33.80
Consensus MFE -28.72
Energy contribution -29.88
Covariance contribution 1.16
Combinations/Pair 1.03
Mean z-score -3.03
Structure conservation index 0.85
SVM decision value 3.37
SVM RNA-class probability 0.999092
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19808550 119 - 22407834
UAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUU-AGCUGAUAAGAACAGAUACUACACUUUGAUCUUAGCCAUAAGGCCGAGAAGCGAUAACUACUCCUUCCCAGGACAAAGG
(((((((((...((((((...)))))).....))))))))-).(((.......)))........(((((.(((..(((....)))..)))............((((....))))))))). ( -34.00)
>DroSec_CAF1 75206 120 - 1
UAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUUAAGCUGAUAAGAACAGAUACUACACUUUGAUCUUAGCCAUAAGGCCGAGAAGCGAUAACUACUCCUUCCUAGGACAAAGG
(((((((((...((((((...)))))).....)))))))))..(((.......)))........(((((.(((..(((....)))..)))............((((....))))))))). ( -34.70)
>DroSim_CAF1 76904 120 - 1
UAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUUAAGCUGAUAAGAACAGAUACUACACUUUGAUCUUAGCCAUAAGGCCGAGAAGCGAUAACUACUCCUUCCUAGGACAAAGG
(((((((((...((((((...)))))).....)))))))))..(((.......)))........(((((.(((..(((....)))..)))............((((....))))))))). ( -34.70)
>DroEre_CAF1 79360 120 - 1
UAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUUAAGCUGAUAAGAACAGAUACUACACUUUGAUCUUAGCCAUAAGGCCGAGAAGCGAUAACUACUCCUUUUCAAAAGGAAGG
(((((((((...((((((...)))))).....))))))))).(((........((((........)))).(((..(((....)))..)))))).........(((((.....)))))... ( -33.50)
>DroYak_CAF1 81620 119 - 1
UAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUUAAGCUGAUAAGAACAGAUACUACACU-UGAUCUUAGCCAAAAGGCCGAGAAGCGAUAACUAAUCAGUCCUAAAACGAAGG
(((((((((...((((((...)))))).....))))))))).((((((.((..(((.........)-)).(((..(((....)))..)))........)).))))))(((.......))) ( -32.10)
>consensus
UAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUUAAGCUGAUAAGAACAGAUACUACACUUUGAUCUUAGCCAUAAGGCCGAGAAGCGAUAACUACUCCUUCCUAGGACAAAGG
....(((((((.((((((...))))))..((((((........))))))..)))))))......(((((.(((..(((....)))..)))............((((....))))))))). (-28.72 = -29.88 +   1.16)

alignment

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secondary structure

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Window 0

Location 19,808,590 – 19,808,709
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 98.33
Mean single sequence MFE -33.98
Consensus MFE -33.74
Energy contribution -33.78
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.91
Structure conservation index 0.99
SVM decision value 2.69
SVM RNA-class probability 0.996393
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19808590 119 + 22407834
AUGGCUAAGAUCAAAGUGUAGUAUCUGUUCUUAUCAGCU-AACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUAAACUGAUUUUUGGAAUCAGACGGAGUGCUAGGGGCUUGCU
..(((.(((..(..((..(....((((((((.(((((.(-(((((.((...((.(((((...)))))))..)).))))))..)))))....)))).))))....)..))..)..)))))) ( -31.90)
>DroSec_CAF1 75246 120 + 1
AUGGCUAAGAUCAAAGUGUAGUAUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUAAACUGAUUUUUGGAAUCAGACGGAGUGCUAGGGGCUUGCU
..(((.(((..(..((..(....((((((((.(((((.(((((((.((...((.(((((...)))))))..)).))))))).)))))....)))).))))....)..))..)..)))))) ( -34.80)
>DroSim_CAF1 76944 120 + 1
AUGGCUAAGAUCAAAGUGUAGUAUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUAAACUGAUUUUUGGAACCAGACGGAGUGCUAGGGGCUUGCU
..(((.(((..(..((..(....((((((((.(((((.(((((((.((...((.(((((...)))))))..)).))))))).)))))....)))).))))....)..))..)..)))))) ( -34.80)
>DroEre_CAF1 79400 120 + 1
AUGGCUAAGAUCAAAGUGUAGUAUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUAAACUGAUUUUUGGAAUCAGACGGAGUGCUAGGGGCUUGCU
..(((.(((..(..((..(....((((((((.(((((.(((((((.((...((.(((((...)))))))..)).))))))).)))))....)))).))))....)..))..)..)))))) ( -34.80)
>DroYak_CAF1 81660 119 + 1
UUGGCUAAGAUCA-AGUGUAGUAUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUAAACUGAUUUUUGGGAUCAGACGGAGUGCUAGGGGCUUGCU
..(((.(((.((.-((..(....((((((((.(((((.(((((((.((...((.(((((...)))))))..)).))))))).)))))....)))).))))....)..)).))..)))))) ( -33.60)
>consensus
AUGGCUAAGAUCAAAGUGUAGUAUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUAAACUGAUUUUUGGAAUCAGACGGAGUGCUAGGGGCUUGCU
..(((.(((..(..((..(....((((((((.(((((.(((((((.((...((.(((((...)))))))..)).))))))).)))))....)))).))))....)..))..)..)))))) (-33.74 = -33.78 +   0.04)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,808,590 – 19,808,709
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 98.33
Mean single sequence MFE -36.02
Consensus MFE -35.60
Energy contribution -36.00
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -4.53
Structure conservation index 0.99
SVM decision value 3.96
SVM RNA-class probability 0.999728
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19808590 119 - 22407834
AGCAAGCCCCUAGCACUCCGUCUGAUUCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUU-AGCUGAUAAGAACAGAUACUACACUUUGAUCUUAGCCAU
.((..((.....)).....(((((.(((.....(((((((.((((((((...((((((...)))))).....))))))))-)))))))..)))))))).................))... ( -32.40)
>DroSec_CAF1 75246 120 - 1
AGCAAGCCCCUAGCACUCCGUCUGAUUCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUUAAGCUGAUAAGAACAGAUACUACACUUUGAUCUUAGCCAU
.((..((.....)).....(((((.(((.....((((((((((((((((...((((((...)))))).....))))))))))))))))..)))))))).................))... ( -37.10)
>DroSim_CAF1 76944 120 - 1
AGCAAGCCCCUAGCACUCCGUCUGGUUCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUUAAGCUGAUAAGAACAGAUACUACACUUUGAUCUUAGCCAU
.....((.....))........(((((......((((((((((((((((...((((((...)))))).....))))))))))))))))((((.((((........)))).))))))))). ( -37.40)
>DroEre_CAF1 79400 120 - 1
AGCAAGCCCCUAGCACUCCGUCUGAUUCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUUAAGCUGAUAAGAACAGAUACUACACUUUGAUCUUAGCCAU
.((..((.....)).....(((((.(((.....((((((((((((((((...((((((...)))))).....))))))))))))))))..)))))))).................))... ( -37.10)
>DroYak_CAF1 81660 119 - 1
AGCAAGCCCCUAGCACUCCGUCUGAUCCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUUAAGCUGAUAAGAACAGAUACUACACU-UGAUCUUAGCCAA
.((..((.....)).....(((((.((......((((((((((((((((...((((((...)))))).....))))))))))))))))..)).)))))........-........))... ( -36.10)
>consensus
AGCAAGCCCCUAGCACUCCGUCUGAUUCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUUAAGCUGAUAAGAACAGAUACUACACUUUGAUCUUAGCCAU
.((..((.....)).....(((((.(((.....((((((((((((((((...((((((...)))))).....))))))))))))))))..)))))))).................))... (-35.60 = -36.00 +   0.40)

alignment

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secondary structure

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dotplot

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Window 2

Location 19,808,629 – 19,808,749
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 98.50
Mean single sequence MFE -39.20
Consensus MFE -39.18
Energy contribution -39.22
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.85
Structure conservation index 1.00
SVM decision value 2.50
SVM RNA-class probability 0.994627
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19808629 120 - 22407834
GGCGGUACUGCAAUACCGGGCCAACCCGUGACAGAGGUGGAGCAAGCCCCUAGCACUCCGUCUGAUUCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUU
(((((...(((....(((((....)))).)....(((.((......))))).)))..)))))(((((.....)))))....((((((((...((((((...)))))).....)))))))) ( -38.80)
>DroSec_CAF1 75286 120 - 1
GGCGGUACUGCAAUACCGGGCCAACCCGUGACAGAGGUGGAGCAAGCCCCUAGCACUCCGUCUGAUUCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUU
(((((...(((....(((((....)))).)....(((.((......))))).)))..)))))(((((.....)))))....((((((((...((((((...)))))).....)))))))) ( -38.80)
>DroSim_CAF1 76984 120 - 1
GGCGGUACUGCAAUACCGGGCCAACCCGUGACAGAGGUGGAGCAAGCCCCUAGCACUCCGUCUGGUUCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUU
(((((...(((....(((((....)))).)....(((.((......))))).)))..)))))(((((.....)))))....((((((((...((((((...)))))).....)))))))) ( -38.20)
>DroEre_CAF1 79440 120 - 1
GGCGGUACUGCAAUACCGGGCCAACCCGCGACAGAGGUGGAGCAAGCCCCUAGCACUCCGUCUGAUUCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUU
(((((...(((....(((((....)))).)....(((.((......))))).)))..)))))(((((.....)))))....((((((((...((((((...)))))).....)))))))) ( -38.80)
>DroYak_CAF1 81699 120 - 1
GGCGGUACUGCAAUACCGGGGCAACCCGCGACAGAGGUGGAGCAAGCCCCUAGCACUCCGUCUGAUCCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUU
(((((...(((....(((((....)))).)....(((.((......))))).)))..)))))((((.......))))....((((((((...((((((...)))))).....)))))))) ( -41.40)
>consensus
GGCGGUACUGCAAUACCGGGCCAACCCGUGACAGAGGUGGAGCAAGCCCCUAGCACUCCGUCUGAUUCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUU
(((((...(((....(((((....)))).)....(((.((......))))).)))..)))))(((((.....)))))....((((((((...((((((...)))))).....)))))))) (-39.18 = -39.22 +   0.04)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:59 2006