Locus 8401

Sequence ID 3L_DroMel_CAF1
Location 22,083,604 – 22,083,727
Length 123
Max. P 0.927049
window13738 window13739

overview

Window 8

Location 22,083,604 – 22,083,701
Length 97
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 83.28
Mean single sequence MFE -24.03
Consensus MFE -17.53
Energy contribution -16.37
Covariance contribution -1.16
Combinations/Pair 1.26
Mean z-score -1.53
Structure conservation index 0.73
SVM decision value -0.02
SVM RNA-class probability 0.521443
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22083604 97 - 23771897
UCGUUUGUGCGAAAUCAGAUUAAAUCGCAUAAUCGAAUCUGAUGUUUAGUGUGUGGGGCCAUUCUACAUAU------GAAA-------AAAACGAUGACAAAGAGCUG--AU
(((.((((((((............)))))))).))).(((..((((..(((((((((.....)))))))))------....-------........)))).)))....--.. ( -21.14)
>DroPse_CAF1 84417 108 - 1
UCGUUUGUGCGAAAUCAGAUUAAAUCGCAUAAUCGAAUCUGAUGCUACGUAUAUGU-ACGACUAUAUAUAUGUAUAUGUAUAG---AGUCGAUGAUGACAAAGACCUGGGAU
((((((((((((............)))))))(((((.((((.((((((((((((((-(....))))))))))))...))))))---).)))))))))).............. ( -27.90)
>DroSec_CAF1 69127 100 - 1
UCGUUUGUGCGAAAUCAGAUUAAAUCGCAUAAUCGAAUCUGAUGCUUUGUGUGUGGGGCCAUUCUACAUAU------GAAAAA----AAAAACGAUGACAAAGAGCUC--AU
(((.((((((((............)))))))).)))...(((.((((((((((((((.....)))))))))------......----......(....)..)))))))--). ( -22.60)
>DroEre_CAF1 69254 104 - 1
UCGUUUGUGCGAAAUCAGAUUAAAUCGCAUAAUCGAAUCUGAUGCUUUGUGUGUGGGGCCAUUCUACAUUU------GAAAAAACGAAAAAACGAUGACAAAGAGCUG--AU
(((.((((((((............)))))))).)))(((.(...(((((((((((((.....)))))))..------.......((......))...))))))..).)--)) ( -22.50)
>DroYak_CAF1 84022 98 - 1
UCGUUUGUGCGAAAUCAGAUUAAAUCGCAUAAUCGAAUCUGAUGCUUUGUGUGUGGGGCCAUUCUACAUAU------GAAAA------AAAGCGAUGACAAAGAGCUG--AU
((((....)))).(((((.....(((((...((((....))))..((..((((((((.....)))))))).------.))..------...))))).........)))--)) ( -23.34)
>DroPer_CAF1 84107 103 - 1
UCGUUUGUGCGAAAUCAGAUUAAAUCGCAUAAUCGAAUCUGAUGCUACGUAUAUGUGACGACUAUAUAUAU------GUAUAG---AGUCGAUGAUGACAAAGACCUGGGAU
(((.((((((((............)))))))).)))((((.....((((((((((((.....)))))))))------)))(((---.(((..((....))..)))))))))) ( -26.70)
>consensus
UCGUUUGUGCGAAAUCAGAUUAAAUCGCAUAAUCGAAUCUGAUGCUUUGUGUGUGGGGCCAUUCUACAUAU______GAAAA______AAAACGAUGACAAAGAGCUG__AU
((((((..((...((((((((..((......))..))))))))))...(((((((((.....)))))))))..................))))))................. (-17.53 = -16.37 +  -1.16)

alignment

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secondary structure

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dotplot

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Window 9

Location 22,083,627 – 22,083,727
Length 100
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.49
Mean single sequence MFE -27.03
Consensus MFE -22.98
Energy contribution -22.17
Covariance contribution -0.81
Combinations/Pair 1.25
Mean z-score -2.06
Structure conservation index 0.85
SVM decision value 1.18
SVM RNA-class probability 0.927049
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22083627 100 - 23771897
GCUUG--------------UAUUAUUUGCAUUUGAAUCAUUCGUUUGUGCGAAAUCAGAUUAAAUCGCAUAAUCGAAUCUGAUGUUUAGUGUGUGGGGCCAUUCUACAUAU------GAA
...((--------------((.....)))).....((((((((.((((((((............)))))))).))))..)))).....(((((((((.....)))))))))------... ( -23.20)
>DroPse_CAF1 84446 105 - 1
GUUUG--------------UGUUAUUUGCAUUUGAAUCAUUCGUUUGUGCGAAAUCAGAUUAAAUCGCAUAAUCGAAUCUGAUGCUACGUAUAUGU-ACGACUAUAUAUAUGUAUAUGUA
.....--------------........(((((.((....((((.((((((((............)))))))).)))))).)))))(((((((((((-(....))))))))))))...... ( -27.30)
>DroEre_CAF1 69284 100 - 1
GCUUG--------------UGUUAUUUGCAUUUGAAUCAUUCGUUUGUGCGAAAUCAGAUUAAAUCGCAUAAUCGAAUCUGAUGCUUUGUGUGUGGGGCCAUUCUACAUUU------GAA
.....--------------........(((((.((....((((.((((((((............)))))))).)))))).))))).....(((((((.....)))))))..------... ( -22.20)
>DroYak_CAF1 84046 100 - 1
GCUUG--------------UGUUAUUUGCAUUUGAAUCAUUCGUUUGUGCGAAAUCAGAUUAAAUCGCAUAAUCGAAUCUGAUGCUUUGUGUGUGGGGCCAUUCUACAUAU------GAA
.....--------------........(((((.((....((((.((((((((............)))))))).)))))).))))).(..((((((((.....)))))))).------.). ( -26.40)
>DroAna_CAF1 90797 105 - 1
GCCGGGUGGUGCGGUGGCCUGGUAUUUGCAUUUGAAUCAUUCGUUUGUGCGAAAUCAGAUUAAGUCGCAUAAUCGAAUCUGGUGCUUUAUGUGC-----CGCUC-GCACAC---------
........((((((((((...(((...((((..((....((((.((((((((............)))))))).))))))..))))..)))..))-----))).)-))))..--------- ( -36.40)
>DroPer_CAF1 84136 100 - 1
GUUUG--------------UGUUAUUUGCAUUUGAAUCAUUCGUUUGUGCGAAAUCAGAUUAAAUCGCAUAAUCGAAUCUGAUGCUACGUAUAUGUGACGACUAUAUAUAU------GUA
.....--------------........(((((.((....((((.((((((((............)))))))).)))))).)))))((((((((((((.....)))))))))------))) ( -26.70)
>consensus
GCUUG______________UGUUAUUUGCAUUUGAAUCAUUCGUUUGUGCGAAAUCAGAUUAAAUCGCAUAAUCGAAUCUGAUGCUUUGUGUGUGGGGCCACUCUACAUAU______GAA
...........................(((((.((....((((.((((((((............)))))))).)))))).)))))...(((((((((.....)))))))))......... (-22.98 = -22.17 +  -0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:14:26 2006