Locus 24

Sequence ID	3L_DroMel_CAF1
Location	92,764 – 92,862
Length	98
Max. P	0.998508

overview

Window 9

Location	92,764 – 92,862
Length	98
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	73.39
Mean single sequence MFE	-44.75
Consensus MFE	-24.54
Energy contribution	-25.35
Covariance contribution	0.81
Combinations/Pair	1.21
Mean z-score	-3.18
Structure conservation index	0.55
SVM decision value	3.12
SVM RNA-class probability	0.998508
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 92764 98 + 23771897
---GAGCGGUGGGCGGUA-------GUUGGUGCUGCGGCAGAGAAGCUGUGCCGUUGUACCCAUA-GGCAGCUGUUGCCGCCAAUUGAUUGAAAUGCCGCCCCUUCAUU
---..(.((.((((((((-------...(((((.((((((.((...)).)))))).)))))....-(((.((....)).)))............)))))))))).)... ( -44.80)
>DroSec_CAF1 37695 75 + 1
---GAGCGGUGGGCGGCA------------------------------AUGCCGUUGUACCCAGC-AGCAGCUGUUGCCGCCAAUUGAUUGAAAUGCCGCCCGUUCAUU
---(((((((((((((((------------------------------((((.(((((.....))-))).)).))))))))).(((......)))..)).))))))... ( -33.60)
>DroSim_CAF1 42828 75 + 1
---GAGCGGUGGGCGGCA------------------------------AUGCCGUUGUACCCAGC-GGCAGCUGUUGCCGCCAAUUGAUUGAAAUGCCGCCCGUUCAUU
---(((((((((((((((------------------------------(((((((((....))))-))))....)))))))).(((......)))..)).))))))... ( -36.20)
>DroEre_CAF1 56477 101 + 1
GGUGAGCGGUGGGCGGUA-------GGUGCUGCUGCGGCAGAGAAGCUGUGCCGUUUUACCCAGC-GGCAGCUGUUGCCGCCAAUUGAUUGAAAUGCCGCCCGUUCAUU
.(((((((((((((((((-------(..((((((((((((.((...)).))))(.....)...))-))))))..)))))))).(((......)))..)).)))))))). ( -47.20)
>DroYak_CAF1 53864 103 + 1
GGUGAGCGGUGGGCGGCAGC-----GGUGCUGCUGCGGCAGAGAAGCUGUGCCGUUGUACCCAGC-GGCAGCUGUUGCCGCCAAUUGAUUGAAAUGCCGCCCGUUCAUU
.(((((((((((((((((((-----(((((((((((((((.((...)).))))).......))))-)))).))))))))))).(((......)))..)).)))))))). ( -54.91)
>DroAna_CAF1 11555 106 + 1
---GGGCGGUAGGCGCAAGCAGGGGCGUGUCUCUGGGGGCGGGGCACUGUGUGGUCGUAGUCGGCUCGCAGCUGCUGCCGCCAAUUGAUUAAAAGGCCGCCCGUUAAUU
---(((((((..((....))(((((....)))))...((((((((((((((.(((((....)))))))))).)))).))))).............)))))))....... ( -51.80)
>consensus
___GAGCGGUGGGCGGCA_______GGUG_UGCUGCGGCAGAGAAGCUGUGCCGUUGUACCCAGC_GGCAGCUGUUGCCGCCAAUUGAUUGAAAUGCCGCCCGUUCAUU
...(.(((((.(((((((...........((((....))))........((((((((....)))).)))).....))))))).(((......)))))))).)....... (-24.54 = -25.35 +   0.81)

alignment

secondary structure

dotplot

Window 0

Location	92,764 – 92,862
Length	98
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	73.39
Mean single sequence MFE	-35.57
Consensus MFE	-22.92
Energy contribution	-23.67
Covariance contribution	0.75
Combinations/Pair	1.12
Mean z-score	-2.55
Structure conservation index	0.64
SVM decision value	2.52
SVM RNA-class probability	0.994853
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 92764 98 - 23771897
AAUGAAGGGGCGGCAUUUCAAUCAAUUGGCGGCAACAGCUGCC-UAUGGGUACAACGGCACAGCUUCUCUGCCGCAGCACCAAC-------UACCGCCCACCGCUC---
.......((((((..............((((((....))))))-....(((.(..(((((.((...)).)))))..).)))...-------..)))))).......--- ( -35.30)
>DroSec_CAF1 37695 75 - 1
AAUGAACGGGCGGCAUUUCAAUCAAUUGGCGGCAACAGCUGCU-GCUGGGUACAACGGCAU------------------------------UGCCGCCCACCGCUC---
.......((((((((............((((((....))))))-((((.......))))..------------------------------)))))))).......--- ( -32.70)
>DroSim_CAF1 42828 75 - 1
AAUGAACGGGCGGCAUUUCAAUCAAUUGGCGGCAACAGCUGCC-GCUGGGUACAACGGCAU------------------------------UGCCGCCCACCGCUC---
.......((((((((............((((((....))))))-((((.......))))..------------------------------)))))))).......--- ( -35.50)
>DroEre_CAF1 56477 101 - 1
AAUGAACGGGCGGCAUUUCAAUCAAUUGGCGGCAACAGCUGCC-GCUGGGUAAAACGGCACAGCUUCUCUGCCGCAGCAGCACC-------UACCGCCCACCGCUCACC
.......((((((..............((((((....))))))-((((((((....(((...)))....)))).))))......-------..)))))).......... ( -37.20)
>DroYak_CAF1 53864 103 - 1
AAUGAACGGGCGGCAUUUCAAUCAAUUGGCGGCAACAGCUGCC-GCUGGGUACAACGGCACAGCUUCUCUGCCGCAGCAGCACC-----GCUGCCGCCCACCGCUCACC
.......(((((((..............((((((..(((((..-((((.......)))).)))))....))))))(((......-----)))))))))).......... ( -43.60)
>DroAna_CAF1 11555 106 - 1
AAUUAACGGGCGGCCUUUUAAUCAAUUGGCGGCAGCAGCUGCGAGCCGACUACGACCACACAGUGCCCCGCCCCCAGAGACACGCCCCUGCUUGCGCCUACCGCCC---
.......((((((..............(((((..(((.(((.(.(.((....)).)..).)))))).)))))..........(((........)))....))))))--- ( -29.10)
>consensus
AAUGAACGGGCGGCAUUUCAAUCAAUUGGCGGCAACAGCUGCC_GCUGGGUACAACGGCACAGCUUCUCUGCCGCAGCA_CACC_______UGCCGCCCACCGCUC___
.......((((((..............((((((....)))))).((((.......))))..................................)))))).......... (-22.92 = -23.67 +   0.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:30:09 2006