Locus 2747

Sequence ID	X_DroMel_CAF1
Location	7,391,626 – 7,391,733
Length	107
Max. P	0.950103

overview

Window 8

Location	7,391,626 – 7,391,733
Length	107
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	73.35
Mean single sequence MFE	-28.82
Consensus MFE	-18.74
Energy contribution	-18.38
Covariance contribution	-0.36
Combinations/Pair	1.10
Mean z-score	-1.69
Structure conservation index	0.65
SVM decision value	1.40
SVM RNA-class probability	0.950103
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7391626 107 + 22224390
UCUUGUUGUCACUGUUGUUGUCGCUUGAUCGCAAAUUUGCCAUGGCAAGCUUGACAACUUGCAGCAAACCAA----CAGAAAUACACCUUGAGGAAAAAGUCACAAAAUUA--
..((((((...((((.(((((((((((...(((....))).....)))))..))))))..)))).....)))----))).......((....)).................-- ( -24.20)
>DroVir_CAF1 187161 94 + 1
CCAUGUUGUCACUGUUGUUGUCGCUUGAUCGCAAAUUUGCCAUGGCAAGCUUGACAACUUGCAACCAGGCAAGCGGCAGCGGUGCAGAGGCAGA-------------------
.....(((((.((((((((((((((((...((((.(((((....))))).))).)..((((....))))))))))))))))..)))).))))).------------------- ( -35.90)
>DroPse_CAF1 179845 86 + 1
UCUUGUUGUCACUGUUGUUGUCGCUUGAUCGCAAAUUUGCCAUGGCAAGCUUGACAACUUGCAACUUUGCAA----CGGGAG-GCUCCACG----------------------
((((((((.((..((((((((((((((...(((....))).....)))))..))))....)))))..)))))----))))).-........---------------------- ( -26.20)
>DroYak_CAF1 177189 109 + 1
UCUUGUUGUCACUGUUGUUGUCGCUUGAUCGCAAAUUUGCCAUGGCAAGCUUGACAACUUGCAACGAGCCAA----CAAGGAUACACACGGAGAAAUAAAUCAAACAAAUACA
((((((((((..(((.(((((((((((...(((....))).....)))))..))))))..)))..))..)))----)))))................................ ( -25.10)
>DroAna_CAF1 150170 102 + 1
UCUUGUUGUCACUGUUGUUGUCGCUUGAUCGCAAAUUUGCCAUGGCAGGCUUGACAACUUGCAGCCAGGCUG----CCAAAGGGCACUGGGAGAAAAGCAGGGG-GA------
(((((((.((.((((.(((((((((((...(((....))).....)))))..))))))..))))((((..((----((....))))))))..))..))))))).-..------ ( -35.30)
>DroPer_CAF1 212690 86 + 1
UCUUGUUGUCACUGUUGUUGUCGCUUGAUCGCAAAUUUGCCAUGGCAAGCUUGACAACUUGCAACUUUGCAA----CGGGAG-GCUCCAUG----------------------
((((((((.((..((((((((((((((...(((....))).....)))))..))))....)))))..)))))----))))).-........---------------------- ( -26.20)
>consensus
UCUUGUUGUCACUGUUGUUGUCGCUUGAUCGCAAAUUUGCCAUGGCAAGCUUGACAACUUGCAACCAGGCAA____CAGGAGUGCACCAGGAGA___________________
....((((.((..(((((((..(((((...(((....))).....))))).))))))).))))))................................................ (-18.74 = -18.38 +  -0.36)

alignment

secondary structure

dotplot

Window 9

Location	7,391,626 – 7,391,733
Length	107
Sequences	6
Columns	113
Reading direction	reverse
Mean pairwise identity	73.35
Mean single sequence MFE	-26.22
Consensus MFE	-17.58
Energy contribution	-18.08
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-1.25
Structure conservation index	0.67
SVM decision value	0.65
SVM RNA-class probability	0.810446
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7391626 107 - 22224390
--UAAUUUUGUGACUUUUUCCUCAAGGUGUAUUUCUG----UUGGUUUGCUGCAAGUUGUCAAGCUUGCCAUGGCAAAUUUGCGAUCAAGCGACAACAACAGUGACAACAAGA
--...((((((.(((((......)))))((....(((----(((((((((((((((((....)))))))...)))))))((((......))))...))))))..)).)))))) ( -30.10)
>DroVir_CAF1 187161 94 - 1
-------------------UCUGCCUCUGCACCGCUGCCGCUUGCCUGGUUGCAAGUUGUCAAGCUUGCCAUGGCAAAUUUGCGAUCAAGCGACAACAACAGUGACAACAUGG
-------------------..(((....))).(((((....((((.((((((((((((((((.(.....).)))).)))))))))))).))))......)))))......... ( -26.50)
>DroPse_CAF1 179845 86 - 1
----------------------CGUGGAGC-CUCCCG----UUGCAAAGUUGCAAGUUGUCAAGCUUGCCAUGGCAAAUUUGCGAUCAAGCGACAACAACAGUGACAACAAGA
----------------------((.((...-..))))----(((((....)))))(((((((.(((((..((.(((....))).)))))))...........))))))).... ( -23.10)
>DroYak_CAF1 177189 109 - 1
UGUAUUUGUUUGAUUUAUUUCUCCGUGUGUAUCCUUG----UUGGCUCGUUGCAAGUUGUCAAGCUUGCCAUGGCAAAUUUGCGAUCAAGCGACAACAACAGUGACAACAAGA
...........(((.(((........))).)))((((----(((((.....))..((((((..(((((..((.(((....))).)))))))))))))........))))))). ( -27.00)
>DroAna_CAF1 150170 102 - 1
------UC-CCCCUGCUUUUCUCCCAGUGCCCUUUGG----CAGCCUGGCUGCAAGUUGUCAAGCCUGCCAUGGCAAAUUUGCGAUCAAGCGACAACAACAGUGACAACAAGA
------..-....(((.......((((((((....))----))..))))..))).(((((((.(((......)))....((((......)))).........))))))).... ( -27.90)
>DroPer_CAF1 212690 86 - 1
----------------------CAUGGAGC-CUCCCG----UUGCAAAGUUGCAAGUUGUCAAGCUUGCCAUGGCAAAUUUGCGAUCAAGCGACAACAACAGUGACAACAAGA
----------------------...((...-...))(----(((((..(((....((((((..(((((..((.(((....))).))))))))))))))))..)).)))).... ( -22.70)
>consensus
___________________UCUCCCGGUGCACUCCUG____UUGCCUAGUUGCAAGUUGUCAAGCUUGCCAUGGCAAAUUUGCGAUCAAGCGACAACAACAGUGACAACAAGA
................................................((((((.((((((..(((((..((.(((....))).))))))))))))).....)).)))).... (-17.58 = -18.08 +   0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:16 2006