Locus 37

Sequence ID pao.2685
Location 5,086,858 – 5,087,003
Length 145
Max. P 0.997568
window188 window189 window190 window191

overview

Window 8

Location 5,086,858 – 5,086,917
Length 59
Sequences 5
Columns 59
Reading direction forward
Mean pairwise identity 62.57
Mean single sequence MFE -17.02
Consensus MFE -6.16
Energy contribution -5.68
Covariance contribution -0.48
Combinations/Pair 1.44
Mean z-score -3.33
Structure conservation index 0.36
SVM decision value 2.40
SVM RNA-class probability 0.993531
Prediction RNA

Download alignment: ClustalW | MAF

>pao.2685 5086858 59 + 6264404
AUUCGGAAAAUAAGGGUACAGAAACGAAAAAGCCCACCUUCGCAGGUGGGCUUUUUCGU
.......................((((((((((((((((....)))))))))))))))) ( -26.70)
>pau.2772 5251371 59 + 6537648
AUUCGGAAAGUAAUGGCACAGAAACGAAAAAGCCCACCUUUGCAGGUGGGCUUUUUCGU
.(((.(..(....)..)...)))((((((((((((((((....)))))))))))))))) ( -27.40)
>pst.2352 4476371 52 + 6397126
AUCCGCAAAGCAAAA----AAAAAUCCGGAAAUCCUCAUUU--UCAUGGGCCUUCCAG-
...............----........((((..((.(((..--..)))))..))))..- (  -7.30)
>pss.902 4369461 52 - 6093698
AUCUGCAACGCAAAA----AAAAACCUGGAAAUCCGCAUUU--UCAUGGGCCUUCCAG-
...(((...)))...----......((((((..((.(((..--..)))))..))))))- ( -10.00)
>pf5.2838 5378396 51 + 7074893
-UUUUCAAGGCAAAA----AAAAACCCGGAAAUCCUCACUU--UCGUGGGCCUUCCGG-
-..............----......((((((..((.(((..--..)))))..))))))- ( -13.70)
>consensus
AUUCGCAAAGCAAAA____AAAAACCAGGAAAUCCACAUUU__UCGUGGGCCUUCCAG_
...........................((((.(((((........)))))..))))... ( -6.16 =  -5.68 +  -0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 5,086,858 – 5,086,917
Length 59
Sequences 5
Columns 59
Reading direction reverse
Mean pairwise identity 62.57
Mean single sequence MFE -21.50
Consensus MFE -8.74
Energy contribution -8.58
Covariance contribution -0.16
Combinations/Pair 1.50
Mean z-score -4.43
Structure conservation index 0.41
SVM decision value 2.64
SVM RNA-class probability 0.996001
Prediction RNA

Download alignment: ClustalW | MAF

>pao.2685 5086858 59 - 6264404
ACGAAAAAGCCCACCUGCGAAGGUGGGCUUUUUCGUUUCUGUACCCUUAUUUUCCGAAU
((((((((((((((((....))))))))))))))))....................... ( -27.80)
>pau.2772 5251371 59 - 6537648
ACGAAAAAGCCCACCUGCAAAGGUGGGCUUUUUCGUUUCUGUGCCAUUACUUUCCGAAU
((((((((((((((((....))))))))))))))))....................... ( -27.80)
>pst.2352 4476371 52 - 6397126
-CUGGAAGGCCCAUGA--AAAUGAGGAUUUCCGGAUUUUU----UUUUGCUUUGCGGAU
-(((((((.(((((..--..))).)).)))))))......----.(((((...))))). ( -15.20)
>pss.902 4369461 52 + 6093698
-CUGGAAGGCCCAUGA--AAAUGCGGAUUUCCAGGUUUUU----UUUUGCGUUGCAGAU
-(((((((.(((((..--..))).)).)))))))......----.(((((...))))). ( -16.90)
>pf5.2838 5378396 51 - 7074893
-CCGGAAGGCCCACGA--AAGUGAGGAUUUCCGGGUUUUU----UUUUGCCUUGAAAA-
-(((((((.(((((..--..))).)).)))))))......----..............- ( -19.80)
>consensus
_CGGGAAGGCCCACGA__AAAUGAGGAUUUCCGGGUUUUU____UUUUGCUUUGCGAAU
.(((((((.(((((......))).)).)))))))......................... ( -8.74 =  -8.58 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 5,086,917 – 5,087,003
Length 86
Sequences 6
Columns 86
Reading direction forward
Mean pairwise identity 73.66
Mean single sequence MFE -22.07
Consensus MFE -13.12
Energy contribution -13.20
Covariance contribution 0.08
Combinations/Pair 1.07
Mean z-score -2.67
Structure conservation index 0.59
SVM decision value 2.62
SVM RNA-class probability 0.995837
Prediction RNA

Download alignment: ClustalW | MAF

>pao.2685 5086917 86 + 6264404
CUUGAAUAUGGUGGGUCGUGUAGGAUUCGAACCUACGACCAAUUGGUUAAAAGCCAACUGCUCUACCGACUGAGCUAACGACCCAA
...........(((((((((((((.......)))))......(((((.....)))))..((((........))))..)))))))). ( -29.30)
>pau.2772 5251430 63 + 6537648
CUUGAAUAUGGUGGGUCGUGUAGGAUUCGAACCUACGACCAAUUGGUUAAAAGACAACUGGUC-----------------------
..........((((((((.........)).))))))(((((.(((.........))).)))))----------------------- ( -16.20)
>pss.902 4369516 62 - 6093698
UUCGAA-AUGGUGGGUCGUGUGGGAUUCGAACCUACGACCAAUUGGUUAAAAGCCAAUUGGUU-----------------------
......-...((((((((.........)).))))))(((((((((((.....)))))))))))----------------------- ( -23.10)
>pst.2352 4476426 62 + 6397126
UUUGAA-AUGGUGGGUCGUGUGGGAUUCGAACCUACGACCAAUUGGUUAAAAGCCAACUGCUC-----------------------
......-..(((.(((((((.((........)))))))))..(((((.....)))))..))).----------------------- ( -17.90)
>pf5.2838 5378467 55 + 7074893
--------UGGUGGGUCGUGUGGGAUUCGAACCUACGACCAAUUGGUUAAAAGACAAUUGGAC-----------------------
--------..((((((((.........)).))))))..(((((((.........)))))))..----------------------- ( -16.60)
>ppk.352 5448035 78 - 6181863
--------UGGUGGGUCGUGUAGGAUUCGAACCUACGACCAAUUGGUUAAAAGCCAACUGCUCUACCAACUGAGCUAACGACCCAA
--------...(((((((((((((.......)))))......(((((.....)))))..((((........))))..)))))))). ( -29.30)
>consensus
_UUGAA_AUGGUGGGUCGUGUAGGAUUCGAACCUACGACCAAUUGGUUAAAAGCCAACUGCUC_______________________
.............((((((..(((.......)))))))))..(((((.....)))))............................. (-13.12 = -13.20 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 5,086,917 – 5,087,003
Length 86
Sequences 6
Columns 86
Reading direction reverse
Mean pairwise identity 73.66
Mean single sequence MFE -20.47
Consensus MFE -11.22
Energy contribution -11.33
Covariance contribution 0.11
Combinations/Pair 1.07
Mean z-score -2.92
Structure conservation index 0.55
SVM decision value 2.88
SVM RNA-class probability 0.997568
Prediction RNA

Download alignment: ClustalW | MAF

>pao.2685 5086917 86 - 6264404
UUGGGUCGUUAGCUCAGUCGGUAGAGCAGUUGGCUUUUAACCAAUUGGUCGUAGGUUCGAAUCCUACACGACCCACCAUAUUCAAG
.((((((((..............((.(((((((.......))))))).))(((((.......)))))))))))))........... ( -30.80)
>pau.2772 5251430 63 - 6537648
-----------------------GACCAGUUGUCUUUUAACCAAUUGGUCGUAGGUUCGAAUCCUACACGACCCACCAUAUUCAAG
-----------------------(((((((((.........)))))))))(((((.......)))))................... ( -17.80)
>pss.902 4369516 62 + 6093698
-----------------------AACCAAUUGGCUUUUAACCAAUUGGUCGUAGGUUCGAAUCCCACACGACCCACCAU-UUCGAA
-----------------------.(((((((((.......)))))))))....((.(((.........))).)).....-...... ( -14.60)
>pst.2352 4476426 62 - 6397126
-----------------------GAGCAGUUGGCUUUUAACCAAUUGGUCGUAGGUUCGAAUCCCACACGACCCACCAU-UUCAAA
-----------------------((.(((((((.......))))))).))...((.(((.........))).)).....-...... ( -14.30)
>pf5.2838 5378467 55 - 7074893
-----------------------GUCCAAUUGUCUUUUAACCAAUUGGUCGUAGGUUCGAAUCCCACACGACCCACCA--------
-----------------------(.(((((((.........))))))).)...((.(((.........))).))....-------- ( -11.00)
>ppk.352 5448035 78 + 6181863
UUGGGUCGUUAGCUCAGUUGGUAGAGCAGUUGGCUUUUAACCAAUUGGUCGUAGGUUCGAAUCCUACACGACCCACCA--------
.((((((((..(..(((((((((((((.....)))))..))))))))..)(((((.......)))))))))))))...-------- ( -34.30)
>consensus
_______________________GACCAGUUGGCUUUUAACCAAUUGGUCGUAGGUUCGAAUCCCACACGACCCACCAU_UUCAA_
...........................((((((.......))))))((((((.((.......))...))))))............. (-11.22 = -11.33 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:06:41 2007