Locus 2675

Sequence ID 3R_DroMel_CAF1
Location 7,184,160 – 7,184,254
Length 94
Max. P 0.962889
window4338 window4339

overview

Window 8

Location 7,184,160 – 7,184,254
Length 94
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 71.64
Mean single sequence MFE -36.05
Consensus MFE -11.98
Energy contribution -13.73
Covariance contribution 1.75
Combinations/Pair 1.38
Mean z-score -2.50
Structure conservation index 0.33
SVM decision value 1.55
SVM RNA-class probability 0.962889
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7184160 94 + 27905053
C----------CCUACACCGCCACUCAGAC----CACCUGGCUGUGGCGCCUCCAAAUAUGCGGCGCAACAGCCGUGUGGCAGGCUGUGAAGAAAUGCAGUUAAUUUA
.----------.((.(((.(((.....(.(----(((.(((((((.(((((.(.......).))))).))))))).))))).))).))).))................ ( -35.90)
>DroPse_CAF1 60287 101 + 1
GA-AGCAGGCAGCCAGGCAGCCAGGCAGGCCCUUCAGCCGGCUGUGGCGCCUCCAAAUAUGCAACGAG------GAGCAGCAGCCACUGAAGAAAUGCAGUUAAUUUA
..-.((((((.(((.((...)).)))..)))((((((..((((((.((.((((............)))------).)).)))))).))))))...))).......... ( -39.80)
>DroSim_CAF1 24969 94 + 1
C----------GCCACACCACCACUCAGAC----CACCUGGCUGUGGCGCCUCCAAAUAUGCGGCGCAACAGCCGUGUGGCAGGCUGUGAAGAAAUGCAGUUAAUUUA
.----------(((((((........((..----...))((((((.(((((.(.......).))))).))))))))))))).((((((........))))))...... ( -38.70)
>DroYak_CAF1 25624 99 + 1
C-----CCUUGGCCACCCCACCACUCAGAC----CACCUGGCUGUGGCGCCUCCAAAUAUGCGGCGAAACGGCCGUGUGGCAGGCUGUGAAGAAAUGCAGUUAAUUUA
.-----...(((........)))....(.(----(((.(((((((..((((.(.......).))))..))))))).))))).((((((........))))))...... ( -32.50)
>DroAna_CAF1 24146 88 + 1
U----------GUGGCAUGGCAAGUU----------GCCGGCUGUGGCGCCUCCAAAUAUGCACCGAGAGCGGUGUGUGGCAGCCAGUGAAGAAAUGCAGUUAAUUUA
.----------...(((((((.....----------)))((((((((.....))...(((((((((....))))))))))))))).........)))).......... ( -31.00)
>DroPer_CAF1 62063 102 + 1
GAAAGCAGGCAGCCAGGCAGUCAGGCAGGCCCUUCAGCCGGCUGUGGCGCCUCCAAAUAUGCAACGAG------GAGCAGCAGCCACUGAAGAAAUGCAGUUAAUUUA
....((((((.(((.........)))..)))((((((..((((((.((.((((............)))------).)).)))))).))))))...))).......... ( -38.40)
>consensus
C__________GCCACACCGCCACUCAGAC____CACCCGGCUGUGGCGCCUCCAAAUAUGCAGCGAAAC_GCCGUGUGGCAGCCAGUGAAGAAAUGCAGUUAAUUUA
...........((((((..(((.................))))))))).........((((((((......))))))))(((..(......)...))).......... (-11.98 = -13.73 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 7,184,160 – 7,184,254
Length 94
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 71.64
Mean single sequence MFE -36.22
Consensus MFE -11.23
Energy contribution -10.87
Covariance contribution -0.36
Combinations/Pair 1.43
Mean z-score -2.12
Structure conservation index 0.31
SVM decision value 0.36
SVM RNA-class probability 0.703265
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7184160 94 - 27905053
UAAAUUAACUGCAUUUCUUCACAGCCUGCCACACGGCUGUUGCGCCGCAUAUUUGGAGGCGCCACAGCCAGGUG----GUCUGAGUGGCGGUGUAGG----------G
........((((((..((.(.(((...(((((..((((((.(((((.((....))..))))).))))))..)))----))))).).))..)))))).----------. ( -42.70)
>DroPse_CAF1 60287 101 - 1
UAAAUUAACUGCAUUUCUUCAGUGGCUGCUGCUC------CUCGUUGCAUAUUUGGAGGCGCCACAGCCGGCUGAAGGGCCUGCCUGGCUGCCUGGCUGCCUGCU-UC
..........(((...((((((((((((..((.(------(((............)))).))..))))).)))))))(((..(((.((...)).))).)))))).-.. ( -39.70)
>DroSim_CAF1 24969 94 - 1
UAAAUUAACUGCAUUUCUUCACAGCCUGCCACACGGCUGUUGCGCCGCAUAUUUGGAGGCGCCACAGCCAGGUG----GUCUGAGUGGUGGUGUGGC----------G
........(..(((..((.(.(((...(((((..((((((.(((((.((....))..))))).))))))..)))----))))).).))..)))..).----------. ( -40.60)
>DroYak_CAF1 25624 99 - 1
UAAAUUAACUGCAUUUCUUCACAGCCUGCCACACGGCCGUUUCGCCGCAUAUUUGGAGGCGCCACAGCCAGGUG----GUCUGAGUGGUGGGGUGGCCAAGG-----G
..........((....((((((.(((.(((((..(((.((..((((.((....))..))))..)).)))..)))----))..).)).))))))..)).....-----. ( -32.20)
>DroAna_CAF1 24146 88 - 1
UAAAUUAACUGCAUUUCUUCACUGGCUGCCACACACCGCUCUCGGUGCAUAUUUGGAGGCGCCACAGCCGGC----------AACUUGCCAUGCCAC----------A
..........((((........((((.(((...(((((....)))))((....))..))))))).....(((----------.....)))))))...----------. ( -24.00)
>DroPer_CAF1 62063 102 - 1
UAAAUUAACUGCAUUUCUUCAGUGGCUGCUGCUC------CUCGUUGCAUAUUUGGAGGCGCCACAGCCGGCUGAAGGGCCUGCCUGACUGCCUGGCUGCCUGCUUUC
..........(((...((((((((((((..((.(------(((............)))).))..))))).)))))))(((..(((.........))).)))))).... ( -38.10)
>consensus
UAAAUUAACUGCAUUUCUUCACAGCCUGCCACACGGC_GUCUCGCCGCAUAUUUGGAGGCGCCACAGCCAGCUG____GUCUGACUGGCGGUGUGGC__________G
.......................((((.(((..((((......))))......))).(((......)))))))................................... (-11.23 = -10.87 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:53 2006