Locus 5125

Sequence ID 2R_DroMel_CAF1
Location 16,668,916 – 16,669,022
Length 106
Max. P 0.965706
window8195 window8196

overview

Window 5

Location 16,668,916 – 16,669,022
Length 106
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 77.69
Mean single sequence MFE -31.55
Consensus MFE -28.65
Energy contribution -29.65
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.24
Structure conservation index 0.91
SVM decision value 0.79
SVM RNA-class probability 0.850310
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16668916 106 + 20766785
CAAAUACUA-AAAAAUCUAUUUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUUAUGACUCUUUUG
.........-.............((((((((((((.......)))))((((((.((...)).)))).)).................))))))).............. ( -32.20)
>DroSec_CAF1 15169 106 + 1
CAAAUACUA-AAAAAUAAAUUUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCGUGUUAUUCUUUCG
.........-...(((((....(((((((((((((.......)))))((((((.((...)).)))).)).................))))))))..)))))...... ( -33.90)
>DroEre_CAF1 15259 107 + 1
AUNNNNNNNNNNNNNNNNNNNNNNNNNCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUUGUGCACAGUGAA
...........................(((((.((........)).)))))..(((...((..(((((((((................)))))))))))...))).. ( -27.29)
>DroYak_CAF1 15082 107 + 1
AAAAUGCAAUAAAAAUGUAAUUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUGUUGAACGCUGAG
....((((.......))))....((((((((((((.......)))))((((((.((...)).)))).)).................))))))).............. ( -32.80)
>consensus
AAAAUACUA_AAAAAU_UAUUUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUUGUGAACCUUGAG
.......................((((((((((((.......)))))((((((.((...)).)))).)).................))))))).............. (-28.65 = -29.65 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 16,668,916 – 16,669,022
Length 106
Sequences 4
Columns 107
Reading direction reverse
Mean pairwise identity 77.69
Mean single sequence MFE -37.48
Consensus MFE -32.08
Energy contribution -33.08
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.87
Structure conservation index 0.86
SVM decision value 1.58
SVM RNA-class probability 0.965706
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16668916 106 - 20766785
CAAAAGAGUCAUAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAAAUAGAUUUUU-UAGUAUUUG
..((((((((....(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))......)))))))-)........ ( -39.10)
>DroSec_CAF1 15169 106 - 1
CGAAAGAAUAACACGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAAAUUUAUUUUU-UAGUAUUUG
..(((((((((...(((((((..((((.......))))((.(((((((...)))))))))(((((.......)))))))))))).....))))))))-)........ ( -38.50)
>DroEre_CAF1 15259 107 - 1
UUCACUGUGCACAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGNNNNNNNNNNNNNNNNNNNNNNNNNAU
..((((((((....))).)))))((((.(((((((.........)))))))..))))((((.(((.......)))))))............................ ( -35.70)
>DroYak_CAF1 15082 107 - 1
CUCAGCGUUCAACAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAAUUACAUUUUUAUUGCAUUUU
....(((.....).(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))................))..... ( -36.60)
>consensus
CUAAAGAUUCACAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAAAUA_AUUUUU_UAGUAUUUG
..............(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))....................... (-32.08 = -33.08 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:11 2006