Locus 6837

Sequence ID 3R_DroMel_CAF1
Location 18,105,487 – 18,105,581
Length 94
Max. P 0.984967
window11096 window11097

overview

Window 6

Location 18,105,487 – 18,105,581
Length 94
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 81.79
Mean single sequence MFE -25.86
Consensus MFE -21.26
Energy contribution -21.26
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.70
Structure conservation index 0.82
SVM decision value 0.54
SVM RNA-class probability 0.775904
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18105487 94 + 27905053
CCACUUCUCAUCCUGGCAGUGCACCAAUAGCGCCAGGACCAAACGCCAUCAG----------------UUUCCUGCCUCCCACUCAACGU----CCCCCUUUUGGGGGAAGUUG
..........(((((((...((.......)))))))))..((((.......)----------------))).............((((.(----(((((....)))))).)))) ( -29.10)
>DroSec_CAF1 136346 97 + 1
CCACUUCUCAUCCUGGCAGUGCACCAAUAGCGCCAGGACCAAACGCCAUCAG----------------UUUCCUGCCUC-CACUCCCCUCCCACGCCCCUUUUGGGGGAAGUUG
..(((((...(((((((...((.......)))))))))..............----------------...........-...............((((....))))))))).. ( -24.60)
>DroSim_CAF1 141077 98 + 1
CCACUUCUCAUCCUGGCAGUGCACCAAUAGCGCCAGGACCAAACGCCAUCAG----------------UUUCCUGCCUCCCACUCUCCUCCUCGCCCCCUUUUGGGGGAAGUUG
..(((((...(((((((...((.......)))))))))..............----------------...........................((((....))))))))).. ( -24.70)
>DroEre_CAF1 141071 84 + 1
CCACUUCUCAUCCUGGCAGUGCACCAAUAGCGCCAGGACCA-ACGCCAUCAG----------------UUUCCUGCCUCCCAA-------------CCAACUUGGGGGAAGUUG
..........(((((((...((.......))))))))).((-((.....(((----------------....))).(((((((-------------.....)))))))..)))) ( -24.80)
>DroYak_CAF1 144063 105 + 1
CCACUUCUCAUCCUGGCAGUGCACCAAUAGCGCCAGGACCA-ACGCCAUCAGUUUCUCAGUUUCUCAGUUUCCUGCCUCCCACC----UU----UCCCAUUUGGGGGGAAGUUG
..........(((((((...((.......))))))))).((-((.....................(((....)))(((((((..----..----.......)))))))..)))) ( -26.10)
>consensus
CCACUUCUCAUCCUGGCAGUGCACCAAUAGCGCCAGGACCAAACGCCAUCAG________________UUUCCUGCCUCCCACUC__CUC____CCCCCUUUUGGGGGAAGUUG
..(((((((.(((((((...((.......)))))))))..........................................................((.....))))))))).. (-21.26 = -21.26 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 18,105,487 – 18,105,581
Length 94
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 81.79
Mean single sequence MFE -37.96
Consensus MFE -26.01
Energy contribution -27.01
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.74
Structure conservation index 0.69
SVM decision value 1.99
SVM RNA-class probability 0.984967
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18105487 94 - 27905053
CAACUUCCCCCAAAAGGGGG----ACGUUGAGUGGGAGGCAGGAAA----------------CUGAUGGCGUUUGGUCCUGGCGCUAUUGGUGCACUGCCAGGAUGAGAAGUGG
((((.((((((....)))))----).)))).......(((((...(----------------(..((((((((.......))))))))..))...))))).............. ( -42.60)
>DroSec_CAF1 136346 97 - 1
CAACUUCCCCCAAAAGGGGCGUGGGAGGGGAGUG-GAGGCAGGAAA----------------CUGAUGGCGUUUGGUCCUGGCGCUAUUGGUGCACUGCCAGGAUGAGAAGUGG
..(((((((((............)).))))))).-..(((((...(----------------(..((((((((.......))))))))..))...))))).............. ( -37.60)
>DroSim_CAF1 141077 98 - 1
CAACUUCCCCCAAAAGGGGGCGAGGAGGAGAGUGGGAGGCAGGAAA----------------CUGAUGGCGUUUGGUCCUGGCGCUAUUGGUGCACUGCCAGGAUGAGAAGUGG
...((((((((....))))).))).............(((((...(----------------(..((((((((.......))))))))..))...))))).............. ( -37.90)
>DroEre_CAF1 141071 84 - 1
CAACUUCCCCCAAGUUGG-------------UUGGGAGGCAGGAAA----------------CUGAUGGCGU-UGGUCCUGGCGCUAUUGGUGCACUGCCAGGAUGAGAAGUGG
..(((((.(((((.....-------------))))).(((((...(----------------(..(((((((-(......))))))))..))...))))).......))))).. ( -36.40)
>DroYak_CAF1 144063 105 - 1
CAACUUCCCCCCAAAUGGGA----AA----GGUGGGAGGCAGGAAACUGAGAAACUGAGAAACUGAUGGCGU-UGGUCCUGGCGCUAUUGGUGCACUGCCAGGAUGAGAAGUGG
..(((((..(((....))).----..----((..(....(((....)))............((..(((((((-(......))))))))..))...)..)).......))))).. ( -35.30)
>consensus
CAACUUCCCCCAAAAGGGGG____AAG__GAGUGGGAGGCAGGAAA________________CUGAUGGCGUUUGGUCCUGGCGCUAUUGGUGCACUGCCAGGAUGAGAAGUGG
..(((((((((....))))..................(((((....................(..((((((((.......))))))))..)....))))).......))))).. (-26.01 = -27.01 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:10 2006