Locus 2177

Sequence ID 2R_DroMel_CAF1
Location 8,058,473 – 8,058,574
Length 101
Max. P 0.999273
window3596 window3597

overview

Window 6

Location 8,058,473 – 8,058,574
Length 101
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 91.31
Mean single sequence MFE -16.84
Consensus MFE -11.77
Energy contribution -12.17
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.20
Structure conservation index 0.70
SVM decision value 0.02
SVM RNA-class probability 0.543767
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8058473 101 + 20766785
AACUGCAACCCAAAAA-UGCAACUGCAUU--UUCCAGCUGCCCCAGACGAGUUGCAUAAUCCCCCCGAACCAAACCCACUUGCACUGAUAUGCAAAACACAAAA
...((((((.(.((((-(((....)))))--))...((((...))).)).)))))).......................(((((......)))))......... ( -17.00)
>DroSec_CAF1 23641 97 + 1
AACUGCAACCCAAAAA-UGCAACUGCAUU--UUCCAGCUGCCCCAGACGAGUUGCAUAAUCCCCGCAAACCAAACCCACUUGCACUGAUAUGCAAAA----AAA
....(((.(...((((-(((....)))))--))...).)))..........(((((((.((...((((...........))))...)))))))))..----... ( -17.40)
>DroSim_CAF1 7546 98 + 1
AACUGCAACCCAAAAA-UGCAACUGCAUU--UUCCAGCUGCCCCAGACGAGUUGCAUAAUCCCCGCAAACCAAACCCACUUGCACUGAUAUGCAAAA---AAAA
....(((.(...((((-(((....)))))--))...).)))..........(((((((.((...((((...........))))...)))))))))..---.... ( -17.40)
>DroEre_CAF1 21880 98 + 1
AACUGAAACCCAAAAACUGCAACUGCAUUUUUUCCAGCUGCCCCAGACGAGUUGCAUAAUCUCAAUGAACCAAACCCACUUGGACUGAUAUGCAAAA---A---
..................(((.(((.(.....).))).)))..........(((((((.((.....)).((((......)))).....)))))))..---.--- ( -13.60)
>DroYak_CAF1 21805 95 + 1
AACUGCAACCCAAAAA-UGCAACUGCAUU--UUCCAGCUGCCCCAGACGAGUUGCAUAAUCCCAGUGAGCCAAACCCACUUGCACUGAUAUGCAAAA---A---
....(((.(...((((-(((....)))))--))...).)))..........(((((((....(((((...(((......)))))))).)))))))..---.--- ( -18.80)
>consensus
AACUGCAACCCAAAAA_UGCAACUGCAUU__UUCCAGCUGCCCCAGACGAGUUGCAUAAUCCCCGCGAACCAAACCCACUUGCACUGAUAUGCAAAA___AAAA
...((((((.........(((.(((.(.....).))).))).........)))))).......................(((((......)))))......... (-11.77 = -12.17 +   0.40)

alignment

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secondary structure

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dotplot

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Window 7

Location 8,058,473 – 8,058,574
Length 101
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 91.31
Mean single sequence MFE -32.02
Consensus MFE -27.18
Energy contribution -27.02
Covariance contribution -0.16
Combinations/Pair 1.14
Mean z-score -2.87
Structure conservation index 0.85
SVM decision value 3.48
SVM RNA-class probability 0.999273
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8058473 101 - 20766785
UUUUGUGUUUUGCAUAUCAGUGCAAGUGGGUUUGGUUCGGGGGGAUUAUGCAACUCGUCUGGGGCAGCUGGAA--AAUGCAGUUGCA-UUUUUGGGUUGCAGUU
........(((((((....)))))))....((..(..((((..(......)..)))).)..))((((((.(((--(((((....)))-))))).)))))).... ( -32.10)
>DroSec_CAF1 23641 97 - 1
UUU----UUUUGCAUAUCAGUGCAAGUGGGUUUGGUUUGCGGGGAUUAUGCAACUCGUCUGGGGCAGCUGGAA--AAUGCAGUUGCA-UUUUUGGGUUGCAGUU
...----..(((((((((..((((((.........))))))..)).)))))))(((....)))((((((.(((--(((((....)))-))))).)))))).... ( -33.40)
>DroSim_CAF1 7546 98 - 1
UUUU---UUUUGCAUAUCAGUGCAAGUGGGUUUGGUUUGCGGGGAUUAUGCAACUCGUCUGGGGCAGCUGGAA--AAUGCAGUUGCA-UUUUUGGGUUGCAGUU
....---..(((((((((..((((((.........))))))..)).)))))))(((....)))((((((.(((--(((((....)))-))))).)))))).... ( -33.40)
>DroEre_CAF1 21880 98 - 1
---U---UUUUGCAUAUCAGUCCAAGUGGGUUUGGUUCAUUGAGAUUAUGCAACUCGUCUGGGGCAGCUGGAAAAAAUGCAGUUGCAGUUUUUGGGUUUCAGUU
---.---..(((((((((((((((((....)))))...)))))...))))))).....(((..((..(..((((...(((....))).))))..)))..))).. ( -25.90)
>DroYak_CAF1 21805 95 - 1
---U---UUUUGCAUAUCAGUGCAAGUGGGUUUGGCUCACUGGGAUUAUGCAACUCGUCUGGGGCAGCUGGAA--AAUGCAGUUGCA-UUUUUGGGUUGCAGUU
---.---..(((((((...((.(.((((((.....)))))).).)))))))))(((....)))((((((.(((--(((((....)))-))))).)))))).... ( -35.30)
>consensus
UUUU___UUUUGCAUAUCAGUGCAAGUGGGUUUGGUUCGCGGGGAUUAUGCAACUCGUCUGGGGCAGCUGGAA__AAUGCAGUUGCA_UUUUUGGGUUGCAGUU
.........((((((....))))))(((((.....)))))........(((((((((......(((((((.(.....).)))))))......)))))))))... (-27.18 = -27.02 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:11 2006