Locus 3176

Sequence ID 2R_DroMel_CAF1
Location 10,851,257 – 10,851,368
Length 111
Max. P 0.951815
window5227 window5228

overview

Window 7

Location 10,851,257 – 10,851,368
Length 111
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 79.53
Mean single sequence MFE -30.23
Consensus MFE -14.93
Energy contribution -14.29
Covariance contribution -0.64
Combinations/Pair 1.21
Mean z-score -2.64
Structure conservation index 0.49
SVM decision value 0.93
SVM RNA-class probability 0.883256
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10851257 111 + 20766785
G-GGUGCUCCUUAUUUACAUAUUGCUCACCCAAUUGAUUUGCUACCUGCUGCUC---G-UGUUGUCUUUGACAGAUU--UUAUGCAGCUUU-GCCGCUGCCACUCCACUGAACACCAAU
(-((((..(..(((....)))..)..)))))....((...((.....))...))---(-(((((((...))).....--....(((((...-...)))))..........))))).... ( -22.20)
>DroVir_CAF1 19416 104 + 1
GGGUUGCACUUUAUUUACAUAUUGUUCAGUCAAUUGAUUUGUUACCUGCUGCUG-------UUGUCUUUGACAGAUUGUUUAAGCAGCUUC-GCAGC----AGUUGAAUAAACAAU---
.(..((.((..(((....)))..)).))..).((((.((((((..(((((((.(-------(((.(((.(((.....))).)))))))...-)))))----))...))))))))))--- ( -28.30)
>DroPse_CAF1 3197 109 + 1
G-GGUGGGCCUUAUUUACAUAUUGCUCACCCAAUUGAUUUGUUACCUGCUGCU------UGUUGUCUUUGACAGAUU--UUGCGCAGCUUU-AGAGCUGCCACUUGAGUGAACCCUCAU
(-(((((((..(((....)))..))))))))....(((((((((...((....------....))...)))))))))--.((.((((((..-..))))))))..((((......)))). ( -34.00)
>DroGri_CAF1 382 105 + 1
--GGCGCACUUUAUUUACAUAUUGUUCAUUCAAUUGAUUUGUUACCUGCUGCCG---GUUGUUGUCUUUGACAGAUU-UUUAAGCAGCUUC-AGAGC----ACUUGAGUAAACAGC---
--...................(((((.((((((.((.((((....(((((....---....(((((...)))))...-....)))))...)-))).)----).)))))).))))).--- ( -21.76)
>DroMoj_CAF1 16320 109 + 1
--GGUGCACUUUAUUUACAUAUUGUUCACUCAAUUGAUUUGUUACCUGCUGCUGUCUGUCGUUGUCUUUGACAGAUU-UUUAAGCAGCUUCCAUAGC----AGUUGAGUGAACAAA---
--...................(((((((((((((((...((..(.(((((...((((((((.......)))))))).-....))))).)..))...)----)))))))))))))).--- ( -41.10)
>DroPer_CAF1 404 109 + 1
G-GGUGGGCCUUAUUUACAUAUUGCUCACCCAAUUGAUUUGUUACCUGCUGCU------UGUUGUCUUUGACAGAUU--UUGCGCAGCUUU-AGAGCUGCCACUUGAGUGAACCCUCAU
(-(((((((..(((....)))..))))))))....(((((((((...((....------....))...)))))))))--.((.((((((..-..))))))))..((((......)))). ( -34.00)
>consensus
G_GGUGCACCUUAUUUACAUAUUGCUCACCCAAUUGAUUUGUUACCUGCUGCUG_____UGUUGUCUUUGACAGAUU__UUAAGCAGCUUC_AGAGC____ACUUGAGUGAACACU___
..((((.((..(((....)))..)).)))).................(((((.........(((((...))))).........)))))............................... (-14.93 = -14.29 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 10,851,257 – 10,851,368
Length 111
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 79.53
Mean single sequence MFE -27.59
Consensus MFE -18.24
Energy contribution -17.55
Covariance contribution -0.69
Combinations/Pair 1.19
Mean z-score -2.52
Structure conservation index 0.66
SVM decision value 1.42
SVM RNA-class probability 0.951815
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10851257 111 - 20766785
AUUGGUGUUCAGUGGAGUGGCAGCGGC-AAAGCUGCAUAA--AAUCUGUCAAAGACAACA-C---GAGCAGCAGGUAGCAAAUCAAUUGGGUGAGCAAUAUGUAAAUAAGGAGCACC-C
.(((.(((((.(((...(((((((...-...)))))....--..(((.....))))).))-)---))))).)))..............(((((..(..(((....)))..)..))))-) ( -32.40)
>DroVir_CAF1 19416 104 - 1
---AUUGUUUAUUCAACU----GCUGC-GAAGCUGCUUAAACAAUCUGUCAAAGACAA-------CAGCAGCAGGUAACAAAUCAAUUGACUGAACAAUAUGUAAAUAAAGUGCAACCC
---((((((((.((((((----(((((-...(.(((((..((.....))..))).)).-------).)))))))(........)..)))).)))))))).((((.......)))).... ( -22.40)
>DroPse_CAF1 3197 109 - 1
AUGAGGGUUCACUCAAGUGGCAGCUCU-AAAGCUGCGCAA--AAUCUGUCAAAGACAACA------AGCAGCAGGUAACAAAUCAAUUGGGUGAGCAAUAUGUAAAUAAGGCCCACC-C
....((((((((((((.((((((((..-..))))))....--.((((((...........------....)))))).......)).))))))))((..(((....)))..))..)))-) ( -29.66)
>DroGri_CAF1 382 105 - 1
---GCUGUUUACUCAAGU----GCUCU-GAAGCUGCUUAAA-AAUCUGUCAAAGACAACAAC---CGGCAGCAGGUAACAAAUCAAUUGAAUGAACAAUAUGUAAAUAAAGUGCGCC--
---((((((((.((((..----.....-...((((((....-....((((...)))).....---.)))))).(((.....)))..)))).))))))....(((.......))))).-- ( -18.74)
>DroMoj_CAF1 16320 109 - 1
---UUUGUUCACUCAACU----GCUAUGGAAGCUGCUUAAA-AAUCUGUCAAAGACAACGACAGACAGCAGCAGGUAACAAAUCAAUUGAGUGAACAAUAUGUAAAUAAAGUGCACC--
---.((((((((((((.(----(...((..(.(((((....-..((((((.........))))))....))))).)..))...)).))))))))))))..((((.......))))..-- ( -32.70)
>DroPer_CAF1 404 109 - 1
AUGAGGGUUCACUCAAGUGGCAGCUCU-AAAGCUGCGCAA--AAUCUGUCAAAGACAACA------AGCAGCAGGUAACAAAUCAAUUGGGUGAGCAAUAUGUAAAUAAGGCCCACC-C
....((((((((((((.((((((((..-..))))))....--.((((((...........------....)))))).......)).))))))))((..(((....)))..))..)))-) ( -29.66)
>consensus
___AGUGUUCACUCAAGU____GCUCU_AAAGCUGCUUAA__AAUCUGUCAAAGACAACA_____CAGCAGCAGGUAACAAAUCAAUUGAGUGAACAAUAUGUAAAUAAAGUGCACC_C
......(((((.((((...............(((((..........((((...))))..........))))).(((.....)))..)))).)))))....................... (-18.24 = -17.55 +  -0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:18 2006