Locus 1106

Sequence ID 2L_DroMel_CAF1
Location 3,007,691 – 3,007,890
Length 199
Max. P 0.821660
window1799 window1800 window1801 window1802

overview

Window 9

Location 3,007,691 – 3,007,810
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 86.63
Mean single sequence MFE -31.07
Consensus MFE -23.37
Energy contribution -22.93
Covariance contribution -0.44
Combinations/Pair 1.08
Mean z-score -2.48
Structure conservation index 0.75
SVM decision value 0.66
SVM RNA-class probability 0.815179
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3007691 119 - 22407834
CCUAAUGAAAAGCUCCAAACUGGAGCAGUAGCUCCAGCACAGCAAACAGCUGUGGGAAUUCUAAUUUUCAGCUGGCUAAUGGAAAGAAGAAAGGCUUUACGAUAAGGGAUUAAAAA-GUU
(((.(((.((((((((...(((((((....)))))))((((((.....))))))))).((((..((((((.........))))))..))))..))))).).)).))).........-... ( -37.80)
>DroSec_CAF1 15189 116 - 1
CCUAAUGAAAAGCUCCAAACUGGAGCAGUAGCUGCCGCACAGCAAACAGCUGUGGGAAUUAUAAUUUUCAGCUGGCUAAUGGAAAGAAGAAAGGCUGUACGAUAAGGGAUUA---A-GUU
(((........(((((.....))))).(((....((.((((((.....))))))))............(((((..((..(....)..))...))))))))....))).....---.-... ( -32.60)
>DroEre_CAF1 15744 114 - 1
CUUAAUGAAAAGCUCCAAACUGGAGCAGUAGCU------UGGCAAACAGCUGUGGGAAUUAUAAUUUUCAGCUGGCUAAUGGAAAGAAGAAAGGGCUUAACGAAAGGGAUUAAAAAGACU
.(((((.....(((((.....)))))...((((------(......((((((...((((....)))).)))))).((..(....)..))...)))))...(....)..)))))....... ( -22.80)
>consensus
CCUAAUGAAAAGCUCCAAACUGGAGCAGUAGCU_C_GCACAGCAAACAGCUGUGGGAAUUAUAAUUUUCAGCUGGCUAAUGGAAAGAAGAAAGGCUUUACGAUAAGGGAUUAAAAA_GUU
(((........(((((.....)))))(((.(((.......)))...((((((...((((....)))).)))))))))...........................)))............. (-23.37 = -22.93 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 0

Location 3,007,730 – 3,007,850
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 89.44
Mean single sequence MFE -32.50
Consensus MFE -25.64
Energy contribution -25.76
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.39
Structure conservation index 0.79
SVM decision value 0.44
SVM RNA-class probability 0.737040
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3007730 120 + 22407834
AUUAGCCAGCUGAAAAUUAGAAUUCCCACAGCUGUUUGCUGUGCUGGAGCUACUGCUCCAGUUUGGAGCUUUUCAUUAGGAAAAGCCGCCGCAUUGGUAGUCAACUCAACCCCCACCGAC
....((..((.............(((((((((.....))))))(((((((....)))))))...)))(((((((.....))))))).)).))..(((..((.......))..)))..... ( -36.90)
>DroSec_CAF1 15225 120 + 1
AUUAGCCAGCUGAAAAUUAUAAUUCCCACAGCUGUUUGCUGUGCGGCAGCUACUGCUCCAGUUUGGAGCUUUUCAUUAGGAAAAGCCACCGCAUUGGUAAUCAACUUAACCACCAUCAUC
...(((.(((((............((((((((.....)))))).)))))))...)))(((((.(((.(((((((.....)))))))..))).)))))....................... ( -33.00)
>DroEre_CAF1 15784 114 + 1
AUUAGCCAGCUGAAAAUUAUAAUUCCCACAGCUGUUUGCCA------AGCUACUGCUCCAGUUUGGAGCUUUUCAUUAAGAAAAGCCGCCGCAUUGGUAAUCAACUUAGCCCCCACCAAC
....((((((((................)))))).((((((------(((.((((...))))..((.(((((((.....)))))))..)))).)))))))........)).......... ( -27.59)
>consensus
AUUAGCCAGCUGAAAAUUAUAAUUCCCACAGCUGUUUGCUGUGC_G_AGCUACUGCUCCAGUUUGGAGCUUUUCAUUAGGAAAAGCCGCCGCAUUGGUAAUCAACUUAACCCCCACCAAC
..((((((((((................))))))...))))......(((....)))(((((.(((.(((((((.....)))))))..))).)))))....................... (-25.64 = -25.76 +   0.11)

alignment

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secondary structure

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dotplot

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Window 1

Location 3,007,730 – 3,007,850
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 89.44
Mean single sequence MFE -42.67
Consensus MFE -30.00
Energy contribution -29.57
Covariance contribution -0.43
Combinations/Pair 1.13
Mean z-score -3.38
Structure conservation index 0.70
SVM decision value 0.68
SVM RNA-class probability 0.821660
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3007730 120 - 22407834
GUCGGUGGGGGUUGAGUUGACUACCAAUGCGGCGGCUUUUCCUAAUGAAAAGCUCCAAACUGGAGCAGUAGCUCCAGCACAGCAAACAGCUGUGGGAAUUCUAAUUUUCAGCUGGCUAAU
(((((((..(((((((((............((.((((((((.....))))))))))...(((((((....)))))))((((((.....))))))..))))).))))..)).))))).... ( -47.10)
>DroSec_CAF1 15225 120 - 1
GAUGAUGGUGGUUAAGUUGAUUACCAAUGCGGUGGCUUUUCCUAAUGAAAAGCUCCAAACUGGAGCAGUAGCUGCCGCACAGCAAACAGCUGUGGGAAUUAUAAUUUUCAGCUGGCUAAU
.....((((((((.....)))))))).(((((..(((((((.....)))))(((((.....)))))....))..))))).(((...((((((...((((....)))).)))))))))... ( -43.30)
>DroEre_CAF1 15784 114 - 1
GUUGGUGGGGGCUAAGUUGAUUACCAAUGCGGCGGCUUUUCUUAAUGAAAAGCUCCAAACUGGAGCAGUAGCU------UGGCAAACAGCUGUGGGAAUUAUAAUUUUCAGCUGGCUAAU
((((((....(((((((((....(((.(..((.((((((((.....))))))))))..).))).....)))))------))))...((((((...((((....)))).)))))))))))) ( -37.60)
>consensus
GUUGGUGGGGGUUAAGUUGAUUACCAAUGCGGCGGCUUUUCCUAAUGAAAAGCUCCAAACUGGAGCAGUAGCU_C_GCACAGCAAACAGCUGUGGGAAUUAUAAUUUUCAGCUGGCUAAU
.......(((((((...((.((.(((.(..((.((((((((.....))))))))))..).))))))).))))))).....(((...((((((...((((....)))).)))))))))... (-30.00 = -29.57 +  -0.43)

alignment

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secondary structure

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dotplot

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Window 2

Location 3,007,770 – 3,007,890
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 90.00
Mean single sequence MFE -35.67
Consensus MFE -28.86
Energy contribution -29.53
Covariance contribution 0.67
Combinations/Pair 1.09
Mean z-score -2.00
Structure conservation index 0.81
SVM decision value 0.08
SVM RNA-class probability 0.573741
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3007770 120 - 22407834
GUUAAAACUGAGUGAAGGUUAAGCGAUAAGUCAAAACUGUGUCGGUGGGGGUUGAGUUGACUACCAAUGCGGCGGCUUUUCCUAAUGAAAAGCUCCAAACUGGAGCAGUAGCUCCAGCAC
...........(((........(((((((((....))).))))(((((..(......)..)))))...))((.((((((((.....))))))))))...(((((((....)))))))))) ( -35.90)
>DroSec_CAF1 15265 120 - 1
GUUAAAACUGAGUGAAGGUUAAGCGAUAAGUCAAAACUGUGAUGAUGGUGGUUAAGUUGAUUACCAAUGCGGUGGCUUUUCCUAAUGAAAAGCUCCAAACUGGAGCAGUAGCUGCCGCAC
(((.((.((......)).)).))).....((((......))))..((((((((.....)))))))).(((((..(((((((.....)))))(((((.....)))))....))..))))). ( -35.70)
>DroEre_CAF1 15824 114 - 1
GUUAAAACUGAGUGAAGGUUAAGCGAUAAGUCAAAGCUGUGUUGGUGGGGGCUAAGUUGAUUACCAAUGCGGCGGCUUUUCUUAAUGAAAAGCUCCAAACUGGAGCAGUAGCU------U
.....((((.......))))((((((.(((((...(((((((((((((...(......).)))))))))))))))))).))..........(((((.....)))))....)))------) ( -35.40)
>consensus
GUUAAAACUGAGUGAAGGUUAAGCGAUAAGUCAAAACUGUGUUGGUGGGGGUUAAGUUGAUUACCAAUGCGGCGGCUUUUCCUAAUGAAAAGCUCCAAACUGGAGCAGUAGCU_C_GCAC
((((...........(((..((((((....))...(((((((((((((..(......)..))))))))))))).))))..)))........(((((.....)))))..))))........ (-28.86 = -29.53 +   0.67)

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 09:53:52 2006