Locus 4671

Sequence ID	2L_DroMel_CAF1
Location	13,405,579 – 13,405,693
Length	114
Max. P	0.777183

overview

Window 3

Location	13,405,579 – 13,405,693
Length	114
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	74.52
Mean single sequence MFE	-35.17
Consensus MFE	-16.53
Energy contribution	-16.73
Covariance contribution	0.20
Combinations/Pair	1.44
Mean z-score	-1.94
Structure conservation index	0.47
SVM decision value	0.54
SVM RNA-class probability	0.775816
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13405579 114 + 22407834
CGGCCCCAAUCUAUCGAUGCCGCUGCUGCGCGAGAUGCCCAAAAUGACGCGACAGGAGACAGGUGGACCCUUGGCUGAAAACAGCGGACAGCGGAAGAUUGAAAAUCUAAAAAA
......((((((.(((.(((((((((((((((..((.......))..)))).))).((.((((......)))).)).....)))))).)).))).))))))............. ( -33.70)
>DroVir_CAF1 19274 111 + 1
CACACAGAAUCUAUCCAUGCCGCUGCUACGAGAAAUGCCAAAAAUGACGCGCAAAGAGACGGCCACAAAGUUGGACGGAAAUC---GUCAGCAGAAAAUGGAUAAUCUCAAGAA
......((...(((((((....(((((((((....((((((...((..((.(........)))..))...)))).))....))---)).)))))...)))))))...))..... ( -27.40)
>DroPse_CAF1 47132 111 + 1
UGGGCAUAAUCUAUCGAUGCCGCUGCUGCGUGAAAUGCCCAAAAUGACGCGCAAAGAGACGGGCGCCACAUUGCCCGUGAAUG---GACAGCGGGGCAUCGACAGUCUCAAAAA
((((......((.((((((((.((((((((((..((.......))..)))))......(((((((......))))))).....---...))))))))))))).)).)))).... ( -42.20)
>DroGri_CAF1 15819 111 + 1
UACACCGAAUUUAUCCAUGCCGCUGCUGCGCGAAAUGCCUAAGAUGACGCGCAAGGAGACGGCUGCAACGCCCGCCGAGACUC---GACAUCGUAAAAUGGAUAAUCUCAAGAA
......((..((((((((((((((.(((((((..((.......))..))))).)).)).))))....(((...(.((.....)---).)..)))...))))))))..))..... ( -32.10)
>DroAna_CAF1 68752 111 + 1
GGGUCACAAUCUGUCCAUGCCAUUACUUCGUGAAAUGCCCAAAAUGACCCGCCAGGAGACGGGUACAACGCUGGCGGGGAAUG---GCCAGCGGAAAAUCGACAACCUUAAAAA
((((((.....((..(((..(((......)))..)))..))...))))))(((.(....).)))....(((((((.(....).---)))))))..................... ( -33.50)
>DroPer_CAF1 21711 111 + 1
UGGGCAUAAUCUAUCGAUGCCGCUGUUGCGUGAAAUGCCCAAAAUGACGCGCAAAGAGACGGGCGCCACAUUGCCCGUGAAUG---GACAGCGGGGCAUCGACAGUCUCAAAAA
((((......((.(((((((((((((((((((..((.......))..)))))......(((((((......))))))).....---))))))..)))))))).)).)))).... ( -42.10)
>consensus
UGGACACAAUCUAUCCAUGCCGCUGCUGCGUGAAAUGCCCAAAAUGACGCGCAAAGAGACGGGCGCAACGUUGGCCGAGAAUG___GACAGCGGAAAAUCGACAAUCUCAAAAA
.............(((((.((((((((.((((..((.......))..))))...))...((((((......))))))...........))))))...)))))............ (-16.53 = -16.73 +   0.20)

alignment

secondary structure

dotplot

Window 4

Location	13,405,579 – 13,405,693
Length	114
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	74.52
Mean single sequence MFE	-37.95
Consensus MFE	-18.22
Energy contribution	-18.42
Covariance contribution	0.20
Combinations/Pair	1.50
Mean z-score	-1.91
Structure conservation index	0.48
SVM decision value	0.55
SVM RNA-class probability	0.777183
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13405579 114 - 22407834
UUUUUUAGAUUUUCAAUCUUCCGCUGUCCGCUGUUUUCAGCCAAGGGUCCACCUGUCUCCUGUCGCGUCAUUUUGGGCAUCUCGCGCAGCAGCGGCAUCGAUAGAUUGGGGCCG
..........(..((((((..((.((.(((((((.....((..((((..(....)..))))...)).......((.((.....)).))))))))))).))..))))))..)... ( -34.90)
>DroVir_CAF1 19274 111 - 1
UUCUUGAGAUUAUCCAUUUUCUGCUGAC---GAUUUCCGUCCAACUUUGUGGCCGUCUCUUUGCGCGUCAUUUUUGGCAUUUCUCGUAGCAGCGGCAUGGAUAGAUUCUGUGUG
.....(((.(((((((((..((((((.(---((.....(.((((....((((((((......))).)))))..))))).....)))))))))..).)))))))).)))...... ( -31.50)
>DroPse_CAF1 47132 111 - 1
UUUUUGAGACUGUCGAUGCCCCGCUGUC---CAUUCACGGGCAAUGUGGCGCCCGUCUCUUUGCGCGUCAUUUUGGGCAUUUCACGCAGCAGCGGCAUCGAUAGAUUAUGCCCA
.........((((((((((((.(((((.---.....((((((........)))))).....(((.((......)).)))......))))).).))))))))))).......... ( -42.70)
>DroGri_CAF1 15819 111 - 1
UUCUUGAGAUUAUCCAUUUUACGAUGUC---GAGUCUCGGCGGGCGUUGCAGCCGUCUCCUUGCGCGUCAUCUUAGGCAUUUCGCGCAGCAGCGGCAUGGAUAAAUUCGGUGUA
...(((((.((((((((....(((((((---..((....)).)))))))..((((.((.((.(((((..(((....).))..))))))).)))))))))))))).))))).... ( -37.50)
>DroAna_CAF1 68752 111 - 1
UUUUUAAGGUUGUCGAUUUUCCGCUGGC---CAUUCCCCGCCAGCGUUGUACCCGUCUCCUGGCGGGUCAUUUUGGGCAUUUCACGAAGUAAUGGCAUGGACAGAUUGUGACCC
.......(((((.(((((((((((((((---........))))))((..((((((((....))))))).((((((.........)))))).)..))..))).))))))))))). ( -39.80)
>DroPer_CAF1 21711 111 - 1
UUUUUGAGACUGUCGAUGCCCCGCUGUC---CAUUCACGGGCAAUGUGGCGCCCGUCUCUUUGCGCGUCAUUUUGGGCAUUUCACGCAACAGCGGCAUCGAUAGAUUAUGCCCA
.........(((((((((((..((((((---((...(((.((((.(.(((....))).).)))).))).....)))((.......)).)))))))))))))))).......... ( -41.30)
>consensus
UUUUUGAGAUUGUCGAUUUUCCGCUGUC___CAUUCACGGCCAACGUUGCACCCGUCUCCUUGCGCGUCAUUUUGGGCAUUUCACGCAGCAGCGGCAUCGAUAGAUUAUGCCCA
.........((((((((...(((((((..........((((..........))))...........(((......)))..........))))))).)))))))).......... (-18.22 = -18.42 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:12 2006