Locus 6888

Sequence ID	X_DroMel_CAF1
Location	17,228,548 – 17,228,645
Length	97
Max. P	0.699968

overview

Window 5

Location	17,228,548 – 17,228,645
Length	97
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	83.33
Mean single sequence MFE	-28.63
Consensus MFE	-20.68
Energy contribution	-20.82
Covariance contribution	0.14
Combinations/Pair	1.10
Mean z-score	-1.83
Structure conservation index	0.72
SVM decision value	0.17
SVM RNA-class probability	0.615908
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17228548 97 + 22224390
GGGGUUACG-GGGCA--GGAGA--ACACCUUUGUUGGCCACGUUGUUGACAAAUCAUUUGGCAAGAACGUUGGC-CAUCGACGGCACACGCGACCAACAAA--AA
..(((..((-..(((--((...--...)))(((.((((((((((.(((.(((.....))).))).)))).))))-)).)))..))...))..)))......--.. ( -32.60)
>DroPse_CAF1 103751 90 + 1
----------GAGAAGGAGAGA--ACACCUUUGUUGGCCACGUUGUUGACAAAUCAGUUGGCAACAAGGUUGGC-CAUCGACGGCACACGCGACCAACGAA--CA
----------..(((((.....--...)))))(((((.(..(((((..((......))..)))))...((((((-(......))).)).))).)))))...--.. ( -27.10)
>DroSim_CAF1 76748 91 + 1
------ACG-GGGCA--GGAGA--ACACCUUUGUUGGCCACGUUGUUGACAAAUCAGUUGGCAAGAACGUUGGC-CAUCGACGGCACACGCGACCAACAAA--AA
------..(-(.((.--(....--.).((.(((.((((((((((.(((.(((.....))).))).)))).))))-)).))).)).....))..))......--.. ( -27.60)
>DroYak_CAF1 82751 100 + 1
CGGGUUAAGGGGGCA--GGAGA--ACACCUUUGUUGGCCACGUUGUUGACAAAUCAGUUGGCAACAACGUUGGC-CAUCGACGGCACACGCGACCAACAAAAAAA
..((((..(...(((--((...--...)))(((.((((((((((((((.(((.....))).)))))))).))))-)).)))..))...)..)))).......... ( -33.80)
>DroAna_CAF1 107045 80 + 1
--------------A--AGAGAAGAGACCUUUGUUGGCCACGUUGUUGACAAAUCAGUUGGCAACAAGGCUGG-------ACGGCACACGCGACCAACAAA--AA
--------------.--............((((((((.(.((((((..((......))..)))))...(((..-------..)))....).).))))))))--.. ( -23.90)
>DroPer_CAF1 97492 91 + 1
----------GAGAAGGAGAGA--ACACCUUUGUUGGCCACGUUGUUGACAAAUCAGUUGGCAACAAGGUUGGCCCAUCGACGGCACACGCGACCAACGAA--CA
----------..(((((.....--...)))))((..(((..(((((..((......))..)))))..)))..))...(((.((.....)))))........--.. ( -26.80)
>consensus
__________GGGCA__AGAGA__ACACCUUUGUUGGCCACGUUGUUGACAAAUCAGUUGGCAACAACGUUGGC_CAUCGACGGCACACGCGACCAACAAA__AA
.............................((((((((.(.((((((..((......))..)))))...((((.........))))....).).)))))))).... (-20.68 = -20.82 +   0.14)

alignment

secondary structure

dotplot

Window 6

Location	17,228,548 – 17,228,645
Length	97
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	83.33
Mean single sequence MFE	-30.10
Consensus MFE	-21.60
Energy contribution	-22.43
Covariance contribution	0.83
Combinations/Pair	1.00
Mean z-score	-2.14
Structure conservation index	0.72
SVM decision value	0.35
SVM RNA-class probability	0.699968
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17228548 97 - 22224390
UU--UUUGUUGGUCGCGUGUGCCGUCGAUG-GCCAACGUUCUUGCCAAAUGAUUUGUCAACAACGUGGCCAACAAAGGUGU--UCUCC--UGCCC-CGUAACCCC
..--((((((((((((((..((((....))-))..))(((.(((.(((.....))).))).)))))))))))))))((.((--.....--.)).)-)........ ( -29.50)
>DroPse_CAF1 103751 90 - 1
UG--UUCGUUGGUCGCGUGUGCCGUCGAUG-GCCAACCUUGUUGCCAACUGAUUUGUCAACAACGUGGCCAACAAAGGUGU--UCUCUCCUUCUC----------
..--...((((((((((((.((((....))-))).....(((((.(((.....))).)))))))))))))))).((((.(.--...).))))...---------- ( -30.30)
>DroSim_CAF1 76748 91 - 1
UU--UUUGUUGGUCGCGUGUGCCGUCGAUG-GCCAACGUUCUUGCCAACUGAUUUGUCAACAACGUGGCCAACAAAGGUGU--UCUCC--UGCCC-CGU------
..--((((((((((((((.(((.((((.((-((..........))))..))))..).))...))))))))))))))((.((--.....--.)).)-)..------ ( -29.40)
>DroYak_CAF1 82751 100 - 1
UUUUUUUGUUGGUCGCGUGUGCCGUCGAUG-GCCAACGUUGUUGCCAACUGAUUUGUCAACAACGUGGCCAACAAAGGUGU--UCUCC--UGCCCCCUUAACCCG
....((((((((((((((..((((....))-))..))(((((((.(((.....))).)))))))))))))))))))(((..--.....--.)))........... ( -34.70)
>DroAna_CAF1 107045 80 - 1
UU--UUUGUUGGUCGCGUGUGCCGU-------CCAGCCUUGUUGCCAACUGAUUUGUCAACAACGUGGCCAACAAAGGUCUCUUCUCU--U--------------
((--((((((((((((((..((...-------...))..(((((.(((.....))).)))))))))))))))))))))..........--.-------------- ( -26.80)
>DroPer_CAF1 97492 91 - 1
UG--UUCGUUGGUCGCGUGUGCCGUCGAUGGGCCAACCUUGUUGCCAACUGAUUUGUCAACAACGUGGCCAACAAAGGUGU--UCUCUCCUUCUC----------
..--...((((((((((((.(((.......)))).....(((((.(((.....))).)))))))))))))))).((((.(.--...).))))...---------- ( -29.90)
>consensus
UU__UUUGUUGGUCGCGUGUGCCGUCGAUG_GCCAACCUUGUUGCCAACUGAUUUGUCAACAACGUGGCCAACAAAGGUGU__UCUCC__UGCCC__________
....(((((((((((((((.((.........))).....(((((.(((.....))).)))))))))))))))))))............................. (-21.60 = -22.43 +   0.83)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:12 2006