Locus 918

Sequence ID	3R_DroMel_CAF1
Location	3,108,199 – 3,108,294
Length	95
Max. P	0.860929

overview

Window 4

Location	3,108,199 – 3,108,294
Length	95
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	82.28
Mean single sequence MFE	-46.35
Consensus MFE	-28.03
Energy contribution	-27.95
Covariance contribution	-0.08
Combinations/Pair	1.28
Mean z-score	-2.88
Structure conservation index	0.60
SVM decision value	0.71
SVM RNA-class probability	0.829982
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3108199 95 + 27905053
UUUGGUUGCAUAGGCGGCG------AGCUGUGGCGUCGCAGUCAGCGCCUCUGCUGCCGCUAUUCAAAUGCUGC-GACGCCGGCAGCGCUGCCACCUGCCAG
..((((.....(((.((((------.(((((((((((((((((((((....))))).............)))))-)))))).)))))..)))).))))))). ( -47.71)
>DroPse_CAF1 31371 101 + 1
UUUGGUUGCAUAGGCGGCGGCGGCAGGCGCCGGCGUCGAAGCCAGCGCCAAUGCUGGCGCUAUUCAAAUGCUGC-GAAGCCGGCAGCGCAGGCACCUGCCAA
....(((((....)))))...((((((.((((((......)))(((((((....)))))))........(((((-.......)))))...))).)))))).. ( -51.50)
>DroEre_CAF1 34618 95 + 1
UUUGGUUGCAUAGGCGGCG------AGCUGUGGCGUCGCAGUCAGCGCCUCUGCUGCCGCUAUUCAAAUGCUGC-GACGUCGGCAGUGCUGCCACCUGCCAG
..((((.....(((.((((------.(((((((((((((((((((((....))))).............)))))-)))))).)))))..)))).))))))). ( -43.41)
>DroWil_CAF1 48731 98 + 1
UUUGGUUGCAUAGGCGGCGUC----AACGUCAACGUUAACGUUAACGCCUCUGCUGGCUCUAUUCAAAUGCUGCCGACGCUGGCAGCGCAGCCACCUGCCAA
..((((((((((((((((((.----(((((........))))).))))).(....))).))))......(((((((....))))))))))))))........ ( -39.50)
>DroAna_CAF1 34388 91 + 1
UUUGGUUGCAUAGGCGGCG----------GCAACGUCGCAGUCGGCUUCUCUGCCGGCGCUAUUCAAAUGCUGC-GACGCCGGCAGCGCUGCCACCUGCCAA
.(((((.....(((.((((----------((...((((((((((((......))))))((.........)))))-)))((.....)))))))).)))))))) ( -43.50)
>DroPer_CAF1 31340 101 + 1
UUUGGUUGCAUAGGCGGCGGCGGCAGGCGCCGGCGUCGAAGCCAGCGCCAAUGCUGGCGCUAUUCAAAUGCUGC-GAAGCCGGCAGCGCAGCCACCUGCCAA
..(((((((...((((.(((((...(((((.(((......))).)))))..))))).))))........(((((-.......))))))))))))........ ( -52.50)
>consensus
UUUGGUUGCAUAGGCGGCG______AGCGGCGGCGUCGAAGUCAGCGCCUCUGCUGGCGCUAUUCAAAUGCUGC_GACGCCGGCAGCGCAGCCACCUGCCAA
.(((((.....(((.(((.............(((......)))((((((......))))))........(((((........)))))...))).)))))))) (-28.03 = -27.95 +  -0.08)

alignment

secondary structure

dotplot

Window 5

Location	3,108,199 – 3,108,294
Length	95
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	82.28
Mean single sequence MFE	-46.17
Consensus MFE	-27.66
Energy contribution	-26.88
Covariance contribution	-0.77
Combinations/Pair	1.29
Mean z-score	-3.07
Structure conservation index	0.60
SVM decision value	0.83
SVM RNA-class probability	0.860929
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3108199 95 - 27905053
CUGGCAGGUGGCAGCGCUGCCGGCGUC-GCAGCAUUUGAAUAGCGGCAGCAGAGGCGCUGACUGCGACGCCACAGCU------CGCCGCCUAUGCAACCAAA
...(((((((((.(.((((..((((((-(((((....)..(((((.(......).))))).)))))))))).)))).------)))))))..)))....... ( -47.50)
>DroPse_CAF1 31371 101 - 1
UUGGCAGGUGCCUGCGCUGCCGGCUUC-GCAGCAUUUGAAUAGCGCCAGCAUUGGCGCUGGCUUCGACGCCGGCGCCUGCCGCCGCCGCCUAUGCAACCAAA
..((((((((((.(((((((.......-)))))..((((((((((((......)))))))..))))).)).))))))))))......((....))....... ( -49.90)
>DroEre_CAF1 34618 95 - 1
CUGGCAGGUGGCAGCACUGCCGACGUC-GCAGCAUUUGAAUAGCGGCAGCAGAGGCGCUGACUGCGACGCCACAGCU------CGCCGCCUAUGCAACCAAA
...((((((((((((..((..(.((((-(((((....)..(((((.(......).))))).)))))))))..)))))------.))))))..)))....... ( -37.20)
>DroWil_CAF1 48731 98 - 1
UUGGCAGGUGGCUGCGCUGCCAGCGUCGGCAGCAUUUGAAUAGAGCCAGCAGAGGCGUUAACGUUAACGUUGACGUU----GACGCCGCCUAUGCAACCAAA
..(((.(.(((((..((((((......)))))).((.....))))))).)...(((((((((((((....)))))))----)))))))))............ ( -44.10)
>DroAna_CAF1 34388 91 - 1
UUGGCAGGUGGCAGCGCUGCCGGCGUC-GCAGCAUUUGAAUAGCGCCGGCAGAGAAGCCGACUGCGACGUUGC----------CGCCGCCUAUGCAACCAAA
..(((.((((((((((((((((((((.-.(((...)))....))))))))))....((.....))..))))))----------)))))))............ ( -44.90)
>DroPer_CAF1 31340 101 - 1
UUGGCAGGUGGCUGCGCUGCCGGCUUC-GCAGCAUUUGAAUAGCGCCAGCAUUGGCGCUGGCUUCGACGCCGGCGCCUGCCGCCGCCGCCUAUGCAACCAAA
..(((.((((((.((((.((((((.((-(.(((.......(((((((......)))))))))).))).))))))))..)).)))))))))............ ( -53.41)
>consensus
UUGGCAGGUGGCAGCGCUGCCGGCGUC_GCAGCAUUUGAAUAGCGCCAGCAGAGGCGCUGACUGCGACGCCGCCGCU______CGCCGCCUAUGCAACCAAA
...(((((((((.(((((((........)))))...((........))))...((((.((....)).)))).............))))))..)))....... (-27.66 = -26.88 +  -0.77)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:23 2006