Locus 3787

Sequence ID 2R_DroMel_CAF1
Location 12,518,319 – 12,518,431
Length 112
Max. P 0.952771
window6131 window6132

overview

Window 1

Location 12,518,319 – 12,518,431
Length 112
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 78.22
Mean single sequence MFE -28.22
Consensus MFE -15.65
Energy contribution -15.57
Covariance contribution -0.08
Combinations/Pair 1.27
Mean z-score -1.68
Structure conservation index 0.55
SVM decision value 0.04
SVM RNA-class probability 0.554989
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12518319 112 + 20766785
UUACUUGCAGCUUGUCACGGGCGUUAAAAACAUUCGUGAUGUGAUACCCUUCCCCAGGUAUCCACACAGCUGCAAGAUGUGAUCAGAUAAAGAUAUUAAAUGUU--UUGUUUUA
...(((((((((.((((((((.((.....)).))))))))((((((((........))))).)))..))))))))).............(((((((...)))))--))...... ( -32.30)
>DroPse_CAF1 1742 110 + 1
AUAUCUGCAGCUCGUGACGGGUGUUAAGAACAUACGGGAUGUGAUACCAUUUCCCCGAUAUCCACACAGCUGCAAAAUGUGAUUAAUG-UGAGUGAAAAAUAUGUACUUUU---
.....(((((((.(((..(((((((..(......)((((.(((....))).)))).))))))).))))))))))....(((....(((-(.........)))).)))....--- ( -27.60)
>DroEre_CAF1 1003 112 + 1
UUACUUGCAGCUUGUCACGGGUGUGAAAAACAUACGAGAUGUAAUACCCUUUCCCAGGUAUCCACACAGCUGCAAGAUGUGAUCAGUUAAAGAUGUAAAAUGUU--UUGGUUUA
...(((((((((.(((.((..(((.....)))..)).)))((.(((((........)))))..))..)))))))))....(((((...(((.((.....)).))--)))))).. ( -26.90)
>DroYak_CAF1 1277 112 + 1
UUACUUGCAGCUUGUCACGGGUGUUAAAAACAUUCGCGAUGUGAUACCCUUUCCCAGGUAUCCACACAGUUGCAAGAUGUGAUCAGUUAAAUAUGUAAAAUGUU--UUGGUUUA
...(((((((((.(((.(((((((.....))))))).)))((((((((........))))).)))..)))))))))....(((((...((((((.....)))))--)))))).. ( -33.00)
>DroAna_CAF1 1419 112 + 1
UUACUUGCAAUUAGUUACAGGCGUUAAAAAUAUCAGGGAUGUAAUACCCUUUCCCAGAUAUCCUCAUAGCUGCAAGAUGUGAUCUGUUCUACGUGCAAAAUAUU--UUGGUCUU
....(((((..(((..(((((........(((((.((((............)))).)))))..(((((.(.....).)))))))))).)))..)))))......--........ ( -21.90)
>DroPer_CAF1 1760 110 + 1
AUAUCUGCAGCUCGUGACGGGUGUUAAGAACAUACGGGAUGUGAUACCAUUUCCCCGAUAUCCACACAGCUGCAAAAUGUGAUUAAUG-UGAGUGAAAAAUAUGUACUUUU---
.....(((((((.(((..(((((((..(......)((((.(((....))).)))).))))))).))))))))))....(((....(((-(.........)))).)))....--- ( -27.60)
>consensus
UUACUUGCAGCUUGUCACGGGUGUUAAAAACAUACGGGAUGUGAUACCCUUUCCCAGAUAUCCACACAGCUGCAAGAUGUGAUCAGUUAAAAAUGUAAAAUAUU__UUGGUUUA
...(((((((((.((....((((((....((((.....))))))))))........(.....)..)))))))))))...................................... (-15.65 = -15.57 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 12,518,319 – 12,518,431
Length 112
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 78.22
Mean single sequence MFE -27.00
Consensus MFE -21.85
Energy contribution -20.63
Covariance contribution -1.22
Combinations/Pair 1.32
Mean z-score -1.96
Structure conservation index 0.81
SVM decision value 1.43
SVM RNA-class probability 0.952771
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12518319 112 - 20766785
UAAAACAA--AACAUUUAAUAUCUUUAUCUGAUCACAUCUUGCAGCUGUGUGGAUACCUGGGGAAGGGUAUCACAUCACGAAUGUUUUUAACGCCCGUGACAAGCUGCAAGUAA
........--............................(((((((((.((((.((((((......))))))))))(((((..(((.....)))..)))))..)))))))))... ( -31.60)
>DroPse_CAF1 1742 110 - 1
---AAAAGUACAUAUUUUUCACUCA-CAUUAAUCACAUUUUGCAGCUGUGUGGAUAUCGGGGAAAUGGUAUCACAUCCCGUAUGUUCUUAACACCCGUCACGAGCUGCAGAUAU
---......................-............((((((((((((.((((((((((...(((......))))))).))))))...........))).)))))))))... ( -26.10)
>DroEre_CAF1 1003 112 - 1
UAAACCAA--AACAUUUUACAUCUUUAACUGAUCACAUCUUGCAGCUGUGUGGAUACCUGGGAAAGGGUAUUACAUCUCGUAUGUUUUUCACACCCGUGACAAGCUGCAAGUAA
........--............................((((((((((((((.((((((......)))))))))))............((((....))))..)))))))))... ( -27.00)
>DroYak_CAF1 1277 112 - 1
UAAACCAA--AACAUUUUACAUAUUUAACUGAUCACAUCUUGCAACUGUGUGGAUACCUGGGAAAGGGUAUCACAUCGCGAAUGUUUUUAACACCCGUGACAAGCUGCAAGUAA
........--............................((((((.((.((((.((((((......))))))))))(((((..(((.....)))..)))))..)).))))))... ( -25.30)
>DroAna_CAF1 1419 112 - 1
AAGACCAA--AAUAUUUUGCACGUAGAACAGAUCACAUCUUGCAGCUAUGAGGAUAUCUGGGAAAGGGUAUUACAUCCCUGAUAUUUUUAACGCCUGUAACUAAUUGCAAGUAA
........--.....((((((..(((...((((...))))((((((..((((((((((.((((...(......).)))).))))))))))..).))))).)))..))))))... ( -25.90)
>DroPer_CAF1 1760 110 - 1
---AAAAGUACAUAUUUUUCACUCA-CAUUAAUCACAUUUUGCAGCUGUGUGGAUAUCGGGGAAAUGGUAUCACAUCCCGUAUGUUCUUAACACCCGUCACGAGCUGCAGAUAU
---......................-............((((((((((((.((((((((((...(((......))))))).))))))...........))).)))))))))... ( -26.10)
>consensus
UAAAACAA__AACAUUUUACACCUAUAACUGAUCACAUCUUGCAGCUGUGUGGAUACCUGGGAAAGGGUAUCACAUCCCGUAUGUUUUUAACACCCGUGACAAGCUGCAAGUAA
......................................((((((((((((((.((((((......)))))))))))..((..(((.....)))..)).....)))))))))... (-21.85 = -20.63 +  -1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:07 2006