Locus 7362

Sequence ID 2L_DroMel_CAF1
Location 20,509,200 – 20,509,332
Length 132
Max. P 0.903537
window11820 window11821

overview

Window 0

Location 20,509,200 – 20,509,308
Length 108
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.30
Mean single sequence MFE -27.85
Consensus MFE -10.87
Energy contribution -10.32
Covariance contribution -0.55
Combinations/Pair 1.26
Mean z-score -2.34
Structure conservation index 0.39
SVM decision value 0.26
SVM RNA-class probability 0.659367
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20509200 108 - 22407834
AUUUGCG--------CUCUGCCAGCAGAGACAAAAUUUAAAUUGUUUUUCCCAUUGGCAUCGGCGGGAAAACAAAUUCUAAAUAAAGUGGAACGUGACAAACGAUAUCUC---CUC-CAA
.....((--------((.((((((.((((((((........))))))))....))))))..))))(((.......(((((.......)))))(((.....))).......---.))-).. ( -22.80)
>DroPse_CAF1 65504 111 - 1
AUUUUCUGUUGCUGUUGCUGUCGGCAGAGACAAAAUUUAAAUUGUUUUUGCC------AACGGCU-GAAAGCAAAUUCUAAAUAAACCGAAACGUGACAGCCGCCUGCUCGA-CGC-AAA
((((....(((((...(((((.(((((((((((........)))))))))))------.))))).-...))))).....))))..........(((.((((.....))).).-)))-... ( -32.10)
>DroSec_CAF1 26270 107 - 1
UUUUGCG--------CUCUGCCAGCAGAGACAAAAUUUAAAUUGUUUUUCCCAUUGGCAUCGGCG-GAAAACAAAUUCUAAAUAAAGUGGAACGUGACAAACGAUAUCUC---CUC-CAA
((((.((--------((.((((((.((((((((........))))))))....))))))..))))-.))))((..(((((.......)))))..))..............---...-... ( -21.90)
>DroEre_CAF1 24904 107 - 1
AUUUGCG--------CGCUGCCGGGAGAGACAAAAUUUAAAUUGUUUUUCCCAUUGGCAUCGGCA-GAAAACAAAUUCUAAAUAAAGUGGGACGUGACAAACGAUAUUUC---CUC-CAA
.(((((.--------((.(((((((((((((((........)))))))))))...)))).)))))-))..................(..((((((.....))).....))---)..-).. ( -32.20)
>DroAna_CAF1 19040 101 - 1
AUUUUC---------UACUGCCAGCAGAGACAACAUUUAAAUUGUUUUUGCC------AUCGGCG-GAAAACAAAUUCUAAAUAAACUGGGACGUGACAAACGAAUUCUA---CUUACAC
...(((---------..(((((.((((((((((........)))))))))).------...))))-)....((..(((((.......)))))..))......))).....---....... ( -20.90)
>DroPer_CAF1 71253 112 - 1
AUUUUCUGUUGCUGUUGCUGUUGGCAGAGACAAAAUUUAAAUUGUUUUUGCC------AACGGCU-GAAAGCAAAUUCUAAAUAAACCGAAACGUGACAGCCGCCUGCUCGCCCGC-AAA
((((....(((((...(((((((((((((((((........)))))))))))------)))))).-...))))).....))))..........(((((((....))).))))....-... ( -37.20)
>consensus
AUUUGCG________CGCUGCCAGCAGAGACAAAAUUUAAAUUGUUUUUCCC______AUCGGCG_GAAAACAAAUUCUAAAUAAACUGGAACGUGACAAACGAUAUCUC___CUC_CAA
....................(((((((((((((........))))))))))...............(((......))).........)))..(((.....)))................. (-10.87 = -10.32 +  -0.55)

alignment

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secondary structure

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dotplot

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Window 1

Location 20,509,236 – 20,509,332
Length 96
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.18
Mean single sequence MFE -24.83
Consensus MFE -9.01
Energy contribution -8.82
Covariance contribution -0.19
Combinations/Pair 1.23
Mean z-score -3.00
Structure conservation index 0.36
SVM decision value 1.03
SVM RNA-class probability 0.903537
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20509236 96 - 22407834
CAUCG--------------GCGUUUUU-A-UUUUAUUUUCAUUUGCG--------CUCUGCCAGCAGAGACAAAAUUUAAAUUGUUUUUCCCAUUGGCAUCGGCGGGAAAACAAAUUCUA
.....--------------........-.-...........(((.((--------((.((((((.((((((((........))))))))....))))))..)))).)))........... ( -18.80)
>DroPse_CAF1 65542 99 - 1
CAUCG--------------ACGAUUUUCAUUUUUAUUUUCAUUUUCUGUUGCUGUUGCUGUCGGCAGAGACAAAAUUUAAAUUGUUUUUGCC------AACGGCU-GAAAGCAAAUUCUA
.....--------------.............................(((((...(((((.(((((((((((........)))))))))))------.))))).-...)))))...... ( -27.90)
>DroEre_CAF1 24940 95 - 1
CAUCG--------------GCGUUUUU-A-UUUUAUUUUCAUUUGCG--------CGCUGCCGGGAGAGACAAAAUUUAAAUUGUUUUUCCCAUUGGCAUCGGCA-GAAAACAAAUUCUA
.....--------------........-.-...........(((((.--------((.(((((((((((((((........)))))))))))...)))).)))))-))............ ( -27.10)
>DroYak_CAF1 25090 95 - 1
CAUCG--------------ACGUUUUU-A-UUUUAUUUUCAUUUGCG--------CUCUGCCAGCAGAGACAAAAUUUAAAUUGUUUUUCCCAUUGGCAUCGGCG-GAAAACAAAUUCUA
.....--------------........-.-...........(((.((--------((.((((((.((((((((........))))))))....))))))..))))-.))).......... ( -18.40)
>DroAna_CAF1 19077 102 - 1
CAUCCCCGCCAUCGAGGCAACAUUUUU-A-UUUUAUUUUCAUUUUC---------UACUGCCAGCAGAGACAACAUUUAAAUUGUUUUUGCC------AUCGGCG-GAAAACAAAUUCUA
.....(((((.....((((........-.-................---------...)))).((((((((((........)))))))))).------...))))-)............. ( -24.79)
>DroPer_CAF1 71292 99 - 1
CAUCG--------------ACGAUUUUCAUUUUUAUUUUCAUUUUCUGUUGCUGUUGCUGUUGGCAGAGACAAAAUUUAAAUUGUUUUUGCC------AACGGCU-GAAAGCAAAUUCUA
.....--------------.............................(((((...(((((((((((((((((........)))))))))))------)))))).-...)))))...... ( -32.00)
>consensus
CAUCG______________ACGUUUUU_A_UUUUAUUUUCAUUUGCG________CGCUGCCAGCAGAGACAAAAUUUAAAUUGUUUUUCCC______AUCGGCG_GAAAACAAAUUCUA
...........................................................(((.((((((((((........))))))))))..........)))................ ( -9.01 =  -8.82 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:48 2006