Locus 929

Sequence ID	X_DroMel_CAF1
Location	2,594,974 – 2,595,083
Length	109
Max. P	0.569418

overview

Window 4

Location	2,594,974 – 2,595,083
Length	109
Sequences	5
Columns	115
Reading direction	forward
Mean pairwise identity	84.11
Mean single sequence MFE	-34.08
Consensus MFE	-19.76
Energy contribution	-20.52
Covariance contribution	0.76
Combinations/Pair	1.19
Mean z-score	-2.14
Structure conservation index	0.58
SVM decision value	0.07
SVM RNA-class probability	0.569418
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2594974 109 + 22224390
UUACCCGCAGCGAUGCCCGCUCGGUUGUUUUACAG------CCGCCAAUGGCUAGUUCUAGCCGCAGCUUUCGUUUCCUGGCUGCUUUCCAGCUAAAUGCGUACCCUUUGAACUA
.....((((((((.((..((.((((((.....)))------))).....(((((....))))))).))..))))....((((((.....))))))..)))).............. ( -33.30)
>DroSec_CAF1 3791 109 + 1
UUACUCGCAGCGAUGCCCGCCCGGCUGUUUUACAG------CCGACAAUGGCUAGUUCUAGCCGCAGAUUUCGUUUCCUGGCUGCUUUCCAGCUAAAUGCGUACCCUUUGUACUG
......(((((((...(.((.((((((.....)))------))).....(((((....))))))).)...))))....((((((.....))))))..)))((((.....)))).. ( -35.20)
>DroSim_CAF1 3781 109 + 1
UUACUCGCAGCGAUGCCCGCCCGGCUGUUUUACAG------CCGACAAUGGCUAGUUCUAGCCGCAGCUUUCGUUUCCUGGCUGCUUUCCAGCUAAAUGCGUACCCUCUGUACUG
......(((((((.((..((.((((((.....)))------))).....(((((....))))))).))..))))....((((((.....))))))..)))((((.....)))).. ( -37.30)
>DroEre_CAF1 4424 109 + 1
UUACCCACAGUGAUGCCCGCCAGGCUGUUUUCCAG------CCGGCAAUGGCUAGUUCUACCUGCAGCUUUCGUUUCUUGGCUGUUUUCCAGCUAAAUGAGUACGUUUUGUACUG
.......((((...(((.(((.(((((.....)))------)))))...)))...........((((....(((((((((((((.....)))))))..))).)))..)))))))) ( -30.90)
>DroYak_CAF1 3874 115 + 1
UUACCCUCAGUAAUGCCCGCUGGGCUGCUUACCAGUAAGUACCACUAAUAGCUAGUUCUAGCUGAAGCUUUCGUUACUUGGCGAUUUUCCCGCUAAAUGCGUACUUAUUGUACUG
.......(((((..((((...)))).......((((((((((......((((((....))))))........((...((((((.......))))))..))))))))))))))))) ( -33.70)
>consensus
UUACCCGCAGCGAUGCCCGCCCGGCUGUUUUACAG______CCGACAAUGGCUAGUUCUAGCCGCAGCUUUCGUUUCCUGGCUGCUUUCCAGCUAAAUGCGUACCCUUUGUACUG
......((((((.....)))..(((((......................(((((....)))))((((((..........))))))....)))))...)))((((.....)))).. (-19.76 = -20.52 +   0.76)

alignment

secondary structure

dotplot

Window 5

Location	2,594,974 – 2,595,083
Length	109
Sequences	5
Columns	115
Reading direction	reverse
Mean pairwise identity	84.11
Mean single sequence MFE	-37.00
Consensus MFE	-18.72
Energy contribution	-19.32
Covariance contribution	0.60
Combinations/Pair	1.26
Mean z-score	-2.43
Structure conservation index	0.51
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2594974 109 - 22224390
UAGUUCAAAGGGUACGCAUUUAGCUGGAAAGCAGCCAGGAAACGAAAGCUGCGGCUAGAACUAGCCAUUGGCGG------CUGUAAAACAACCGAGCGGGCAUCGCUGCGGGUAA
............(((.....((((((....(((((..(....)....)))))(((((....))))).....)))------)))........(((((((.....)))).)))))). ( -36.40)
>DroSec_CAF1 3791 109 - 1
CAGUACAAAGGGUACGCAUUUAGCUGGAAAGCAGCCAGGAAACGAAAUCUGCGGCUAGAACUAGCCAUUGUCGG------CUGUAAAACAGCCGGGCGGGCAUCGCUGCGAGUAA
..((((.....))))((.....))......(((((..(....)((..((((((((((....)))))....((((------(((.....))))))))))))..)))))))...... ( -42.00)
>DroSim_CAF1 3781 109 - 1
CAGUACAGAGGGUACGCAUUUAGCUGGAAAGCAGCCAGGAAACGAAAGCUGCGGCUAGAACUAGCCAUUGUCGG------CUGUAAAACAGCCGGGCGGGCAUCGCUGCGAGUAA
..((((.....))))(((....(((....))).(((.(....)....(((..(((((....))))).....(((------(((.....))))))))).))).....)))...... ( -40.70)
>DroEre_CAF1 4424 109 - 1
CAGUACAAAACGUACUCAUUUAGCUGGAAAACAGCCAAGAAACGAAAGCUGCAGGUAGAACUAGCCAUUGCCGG------CUGGAAAACAGCCUGGCGGGCAUCACUGUGGGUAA
.(((((.....)))))......((((.....)))).......(....)(..(((...((....(((...(((((------(((.....))))).))).))).)).)))..).... ( -34.50)
>DroYak_CAF1 3874 115 - 1
CAGUACAAUAAGUACGCAUUUAGCGGGAAAAUCGCCAAGUAACGAAAGCUUCAGCUAGAACUAGCUAUUAGUGGUACUUACUGGUAAGCAGCCCAGCGGGCAUUACUGAGGGUAA
(((((((.(((((((..((((.((((.....)))).)))).......(((..(((((....)))))...))).))))))).)).......((((...))))..)))))....... ( -31.40)
>consensus
CAGUACAAAGGGUACGCAUUUAGCUGGAAAGCAGCCAGGAAACGAAAGCUGCGGCUAGAACUAGCCAUUGGCGG______CUGUAAAACAGCCGGGCGGGCAUCGCUGCGGGUAA
..((((.....)))).......((((.....)))).............(((((((((....))(((....((((......(((.....)))))))...)))...))))))).... (-18.72 = -19.32 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:28 2006