Locus 2264

Sequence ID 3L_DroMel_CAF1
Location 6,314,806 – 6,314,902
Length 96
Max. P 0.629040
window3499 window3500

overview

Window 9

Location 6,314,806 – 6,314,902
Length 96
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 84.00
Mean single sequence MFE -21.81
Consensus MFE -15.86
Energy contribution -16.70
Covariance contribution 0.83
Combinations/Pair 1.00
Mean z-score -2.08
Structure conservation index 0.73
SVM decision value 0.20
SVM RNA-class probability 0.629040
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6314806 96 + 23771897
ACCCCACUGUAUUCCCGAUUUUGCUCCAGUUUUUUGUUG-GUUUCGCUC-AGAU------GUUC----UUUUUGUUUUUAUCAGCGACAGCAAAAAAUGAAGCGAAUU
...................((((((...(((((((((((-...(((((.-.(((------(...----..........))))))))))))))))))))..)))))).. ( -22.12)
>DroSec_CAF1 79974 96 + 1
ACCCCACUGUAUACCCGAUUUUGCUCCAGUUUUUUGUUG-GUUUCGCUC-AGAU------GUUC----UUUUUGUUUUUAUCAGCGACAGCAAAAAAUGAAGCGAAUU
...................((((((...(((((((((((-...(((((.-.(((------(...----..........))))))))))))))))))))..)))))).. ( -22.12)
>DroSim_CAF1 85123 96 + 1
ACCCCACUGUAUACCCGAUUUUGCUCCAGUUUUUUGUUG-GUUUCGCUC-AGAU------GUUC----UUUUUGUUUUUAUCAGCGACAGCAAAAAAUGAAGCGAAUU
...................((((((...(((((((((((-...(((((.-.(((------(...----..........))))))))))))))))))))..)))))).. ( -22.12)
>DroEre_CAF1 81470 105 + 1
---CCACUGUAUCCCCGAUUUUGCUCCAGUUUUUUGUUGGGUUUCACUGUGCUUUGUUUUUUUGUGUUUUUUUGUUUUUAUCAGCGACAGCAAAAAAUGAAGCGAAUU
---.((.((.(..((((((...((....)).....))))))..))).))(((((..((((((..((((...(((.......))).))))..))))))..))))).... ( -20.60)
>DroYak_CAF1 88534 96 + 1
AACCCACUGUAUUCCCGAUUUUGCUCCAGUUUUUUGUUG-GUUUCGCUC-GCUU------UUUG----UUUUUGCUUUUAUCAGCGACAGCAAAAAAUGAAGCGAAUU
..............(((((...((....)).....))))-).(((((((-(.((------((((----((.(((((......))))).)))))))).)).)))))).. ( -23.40)
>DroAna_CAF1 79848 86 + 1
CCCCCU-------CUCAAGCAGGCUCCA-UUUUUUGUUG-GUUUCGCUU-U-AU------UUUU----UUUUUGU-UUUAUCAGCGACAGCAAAAAAUGAAGCGAAUU
......-------.........(((.((-((((((((((-...(((((.-.-..------....----.......-......))))))))))))))))).)))..... ( -20.50)
>consensus
ACCCCACUGUAUACCCGAUUUUGCUCCAGUUUUUUGUUG_GUUUCGCUC_AGAU______GUUC____UUUUUGUUUUUAUCAGCGACAGCAAAAAAUGAAGCGAAUU
...................((((((...(((((((((((....(((((..................................))))))))))))))))..)))))).. (-15.86 = -16.70 +   0.83)

alignment

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secondary structure

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dotplot

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Window 0

Location 6,314,806 – 6,314,902
Length 96
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 84.00
Mean single sequence MFE -18.71
Consensus MFE -16.25
Energy contribution -16.11
Covariance contribution -0.14
Combinations/Pair 1.05
Mean z-score -1.39
Structure conservation index 0.87
SVM decision value 0.05
SVM RNA-class probability 0.559294
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6314806 96 - 23771897
AAUUCGCUUCAUUUUUUGCUGUCGCUGAUAAAAACAAAAA----GAAC------AUCU-GAGCGAAAC-CAACAAAAAACUGGAGCAAAAUCGGGAAUACAGUGGGGU
.....(((((((((((((.((((((((((...........----....------))).-.)))))...-)).))))))).))))))...................... ( -17.46)
>DroSec_CAF1 79974 96 - 1
AAUUCGCUUCAUUUUUUGCUGUCGCUGAUAAAAACAAAAA----GAAC------AUCU-GAGCGAAAC-CAACAAAAAACUGGAGCAAAAUCGGGUAUACAGUGGGGU
.....(((((((((((((.((((((((((...........----....------))).-.)))))...-)).))))))).))))))...................... ( -17.46)
>DroSim_CAF1 85123 96 - 1
AAUUCGCUUCAUUUUUUGCUGUCGCUGAUAAAAACAAAAA----GAAC------AUCU-GAGCGAAAC-CAACAAAAAACUGGAGCAAAAUCGGGUAUACAGUGGGGU
.....(((((((((((((.((((((((((...........----....------))).-.)))))...-)).))))))).))))))...................... ( -17.46)
>DroEre_CAF1 81470 105 - 1
AAUUCGCUUCAUUUUUUGCUGUCGCUGAUAAAAACAAAAAAACACAAAAAAACAAAGCACAGUGAAACCCAACAAAAAACUGGAGCAAAAUCGGGGAUACAGUGG---
....((((((...(((..((((.(((.............................)))))))..)))(((..((......))((......)))))))...)))).--- ( -17.15)
>DroYak_CAF1 88534 96 - 1
AAUUCGCUUCAUUUUUUGCUGUCGCUGAUAAAAGCAAAAA----CAAA------AAGC-GAGCGAAAC-CAACAAAAAACUGGAGCAAAAUCGGGAAUACAGUGGGUU
..(((((((..(((((((.....(((......))).....----))))------))).-))))))).(-((........((.((......)).)).......)))... ( -20.06)
>DroAna_CAF1 79848 86 - 1
AAUUCGCUUCAUUUUUUGCUGUCGCUGAUAAA-ACAAAAA----AAAA------AU-A-AAGCGAAAC-CAACAAAAAA-UGGAGCCUGCUUGAG-------AGGGGG
.....(((((((((((((.(((((((......-.......----....------..-.-.)))))...-)).)))))))-))))))...(((...-------.))).. ( -22.70)
>consensus
AAUUCGCUUCAUUUUUUGCUGUCGCUGAUAAAAACAAAAA____GAAA______AUCU_GAGCGAAAC_CAACAAAAAACUGGAGCAAAAUCGGGAAUACAGUGGGGU
.....(((((((((((((.(((((((..................................)))))....)).))))))).))))))...................... (-16.25 = -16.11 +  -0.14)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:10 2006