Locus 2826

Sequence ID 3L_DroMel_CAF1
Location 8,046,300 – 8,046,419
Length 119
Max. P 0.693115
window4416 window4417

overview

Window 6

Location 8,046,300 – 8,046,419
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.21
Mean single sequence MFE -25.04
Consensus MFE -22.06
Energy contribution -21.26
Covariance contribution -0.80
Combinations/Pair 1.20
Mean z-score -1.30
Structure conservation index 0.88
SVM decision value 0.33
SVM RNA-class probability 0.693115
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8046300 119 + 23771897
UUAUU-UUUCCCAUAGAACAUUGCCACUCGCCUAUGUUUACCGACCUAUCAUCAGCUAAUAGCAAUGGUUCACCAACACAUCACCAGCAGCUGGGCAGGCUAUUCAGCCUCAGUCCUUCG
.....-.........(((((((((.....((..(((.............)))..)).....))))).))))..................(..(((((((((....)))))..))))..). ( -21.62)
>DroSec_CAF1 17407 119 + 1
UUAUU-UUUCCAAUAGAACACUGCCACUCGCCUAUGUUCACCGACAUAUCAUCAGCUAACAGCAAUGGUUCACCAACACAUCACCAGCAGCUGGGCAGGCUAUUUAGCCUCAGUCCGUCG
.....-.........(((((..((.....))...)))))..((((...............(((..((((.............))))...)))(((((((((....)))))..)))))))) ( -26.42)
>DroSim_CAF1 17443 119 + 1
CUAUU-UUUCCAAUAGAACACUGCCACUCGCCUAUGUUCACCGACCUAUCAUCAGCUAACAGCAAUGGUUCACCAACACAUCACCAGCAGCUGGGCAGGCUAUUUAGUCUCAGUCCUUCC
.....-.....(((((....(((((....((..(((.............)))..))...((((..((((.............))))...))))))))).)))))................ ( -21.84)
>DroEre_CAF1 17205 119 + 1
UUCUU-UCUUCAAUAGAGCACUGCCAGUCGCCUAUGUUCACCGACUUAUCAUCAGCUAACAGCAAUGGUUCACCAACACAUCACCACCAGCUGGGCAGGUUGUUUAGCCUCAGUCCUUCG
.....-.........(((((((((((((((...........))))).............((((..((((.............))))...)))))))))..)))))............... ( -22.12)
>DroYak_CAF1 17777 120 + 1
UUGUUCUUUUUAAUAGAACACAGCCACUCGCCUAUGUUCACCGACAUAUCAUCGGCGAACAGCAAUGGUUCACCAACACAUCACCACCAGCUGGGCAGGCUAUUCAGCCUCAGUCCUUCG
.((((((.......))))))..(((..(((((((((((....)))))).....))))).((((..((((.............))))...)))))))(((((....))))).......... ( -33.22)
>consensus
UUAUU_UUUCCAAUAGAACACUGCCACUCGCCUAUGUUCACCGACAUAUCAUCAGCUAACAGCAAUGGUUCACCAACACAUCACCAGCAGCUGGGCAGGCUAUUUAGCCUCAGUCCUUCG
...............(((((..((.....))...)))))...(((.........((...((((..((((.............))))...)))).))(((((....)))))..)))..... (-22.06 = -21.26 +  -0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 8,046,300 – 8,046,419
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.21
Mean single sequence MFE -36.72
Consensus MFE -29.98
Energy contribution -30.58
Covariance contribution 0.60
Combinations/Pair 1.06
Mean z-score -1.47
Structure conservation index 0.82
SVM decision value 0.33
SVM RNA-class probability 0.691602
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8046300 119 - 23771897
CGAAGGACUGAGGCUGAAUAGCCUGCCCAGCUGCUGGUGAUGUGUUGGUGAACCAUUGCUAUUAGCUGAUGAUAGGUCGGUAAACAUAGGCGAGUGGCAAUGUUCUAUGGGAAA-AAUAA
((.(((((..(((((....)))))(((((((((.(((..(((.(((....))))))..))).)))))).......(((.(....)...)))....)))...))))).)).....-..... ( -35.20)
>DroSec_CAF1 17407 119 - 1
CGACGGACUGAGGCUAAAUAGCCUGCCCAGCUGCUGGUGAUGUGUUGGUGAACCAUUGCUGUUAGCUGAUGAUAUGUCGGUGAACAUAGGCGAGUGGCAGUGUUCUAUUGGAAA-AAUAA
((((((....(((((....))))).))((((((..((..(((.(((....))))))..))..)))))).......))))..((((((..((.....)).)))))).........-..... ( -37.00)
>DroSim_CAF1 17443 119 - 1
GGAAGGACUGAGACUAAAUAGCCUGCCCAGCUGCUGGUGAUGUGUUGGUGAACCAUUGCUGUUAGCUGAUGAUAGGUCGGUGAACAUAGGCGAGUGGCAGUGUUCUAUUGGAAA-AAUAG
((((.(.(((..(((.....(((((..((((((..((..(((.(((....))))))..))..))))))...........(....).))))).)))..)))).))))........-..... ( -32.70)
>DroEre_CAF1 17205 119 - 1
CGAAGGACUGAGGCUAAACAACCUGCCCAGCUGGUGGUGAUGUGUUGGUGAACCAUUGCUGUUAGCUGAUGAUAAGUCGGUGAACAUAGGCGACUGGCAGUGCUCUAUUGAAGA-AAGAA
.((.(.(((.(((........)))((((((((((..(..(((.(((....))))))..)..)))))))......(((((.(.......).))))))))))).))).........-..... ( -35.50)
>DroYak_CAF1 17777 120 - 1
CGAAGGACUGAGGCUGAAUAGCCUGCCCAGCUGGUGGUGAUGUGUUGGUGAACCAUUGCUGUUCGCCGAUGAUAUGUCGGUGAACAUAGGCGAGUGGCUGUGUUCUAUUAAAAAGAACAA
....((....(((((....))))).))((((((.(.((...((..(((....)))..))(((((((((((.....)))))))))))...)).).))))))((((((.......)))))). ( -43.20)
>consensus
CGAAGGACUGAGGCUAAAUAGCCUGCCCAGCUGCUGGUGAUGUGUUGGUGAACCAUUGCUGUUAGCUGAUGAUAGGUCGGUGAACAUAGGCGAGUGGCAGUGUUCUAUUGGAAA_AAUAA
...(((((..(((((....))))).....((((((.((..((((((((....))..........((((((.....)))))).)))))).)).))))))...))))).............. (-29.98 = -30.58 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:43 2006