Locus 2546

Sequence ID	2L_DroMel_CAF1
Location	7,040,905 – 7,041,002
Length	97
Max. P	0.787816

overview

Window 0

Location	7,040,905 – 7,041,002
Length	97
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	82.82
Mean single sequence MFE	-28.57
Consensus MFE	-19.23
Energy contribution	-18.45
Covariance contribution	-0.78
Combinations/Pair	1.26
Mean z-score	-1.63
Structure conservation index	0.67
SVM decision value	-0.02
SVM RNA-class probability	0.522079
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7040905 97 + 22407834
AUUUCACACAAACGUGCUAAUAUAU-----UAUGUUGUAAUAUUCACAGAGCUGUGCAGCAGCGAGAAUUUGCCCGAGGUGGAGAUUUUCUCACUGCUGGAG
......((((.....(((...((((-----(((...)))))))......)))))))((((((.(((((((..((...))..))....))))).))))))... ( -25.40)
>DroPse_CAF1 12270 100 + 1
AAUUCUCAUAGCCCUGCUAAUCGCUUAAUUGAUGU--UCAUUUUUGCAGAGCUGUGCAGCAGCGAGAAUCUGCCGGAGGUGGAGAUAUUUUCAUUGCUGGAG
......((((((.((((..((((......))))..--........)))).))))))((((((.(((((((..((...))..))....))))).))))))... ( -28.60)
>DroSec_CAF1 9527 97 + 1
AUUUCACACAAUCGUGCUAAUAUAU-----UAUGUUGUAAUAUUCACAGAGCUGUGCAGCAGCGAGAAUCUGCCCGAGGUGGAGAUUUUUUCGCUGCUGGAG
......((((.(((((.....((((-----(((...))))))).))).))..))))((((((((((((((..((...))..))....))))))))))))... ( -31.50)
>DroEre_CAF1 9953 102 + 1
UUUUCUCACAAUCGUGCUAAUAUACUGAUAUAUGUUGUAAUUUUCACAGAGCUAUGCAGCAGCGAGAAUCUGCCCGAGGUGGAGAUUUUUUCGCUGCUGGAG
....(((......(((..(((.(((...........))))))..))).........((((((((((((((..((...))..))....))))))))))))))) ( -29.00)
>DroYak_CAF1 9781 97 + 1
GUUUCACACCAACGUACUAAUAAAC-----UAUGUUGUAAUAUUCACAGAGCUGUGCAGCAGCGAGAAUCUGCCCGAGGUGGAGAUUUUUUCGCUGCUGGAG
.........(((((((.........-----))))))).......((((....))))((((((((((((((..((...))..))....))))))))))))... ( -30.60)
>DroPer_CAF1 11884 100 + 1
AAUUCUCAUAGCCAUGCUAAUCUCUUAAUUGAUGU--UCAUUUUUGCAGAGCUGUGCAGCAGCGAGAAUCUGCCGGAGGUGGAGAUAUUUUCAUUGCUGGAG
......((((((..(((..(((........)))..--........)))..))))))((((((.(((((((..((...))..))....))))).))))))... ( -26.30)
>consensus
AUUUCACACAAACGUGCUAAUAUAU_____UAUGUUGUAAUAUUCACAGAGCUGUGCAGCAGCGAGAAUCUGCCCGAGGUGGAGAUUUUUUCACUGCUGGAG
............................................((((....))))((((((.(((((((..((...))..))....))))).))))))... (-19.23 = -18.45 +  -0.78)

alignment

secondary structure

dotplot

Window 1

Location	7,040,905 – 7,041,002
Length	97
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	82.82
Mean single sequence MFE	-26.75
Consensus MFE	-17.78
Energy contribution	-18.70
Covariance contribution	0.92
Combinations/Pair	1.16
Mean z-score	-2.63
Structure conservation index	0.66
SVM decision value	0.58
SVM RNA-class probability	0.787816
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7040905 97 - 22407834
CUCCAGCAGUGAGAAAAUCUCCACCUCGGGCAAAUUCUCGCUGCUGCACAGCUCUGUGAAUAUUACAACAUA-----AUAUAUUAGCACGUUUGUGUGAAAU
...((((((((((((....(((.....)))....))))))))))))((((....)))).((((((.....))-----))))....((((....))))..... ( -28.00)
>DroPse_CAF1 12270 100 - 1
CUCCAGCAAUGAAAAUAUCUCCACCUCCGGCAGAUUCUCGCUGCUGCACAGCUCUGCAAAAAUGA--ACAUCAAUUAAGCGAUUAGCAGGGCUAUGAGAAUU
((((((((.(((....((((((......)).))))..))).)))))...((((((((.....((.--....))..(((....)))))))))))..))).... ( -26.10)
>DroSec_CAF1 9527 97 - 1
CUCCAGCAGCGAAAAAAUCUCCACCUCGGGCAGAUUCUCGCUGCUGCACAGCUCUGUGAAUAUUACAACAUA-----AUAUAUUAGCACGAUUGUGUGAAAU
...(((((((((...(((((((......)).))))).)))))))))(((((.(((((.(((((.........-----..))))).))).)))))))...... ( -28.60)
>DroEre_CAF1 9953 102 - 1
CUCCAGCAGCGAAAAAAUCUCCACCUCGGGCAGAUUCUCGCUGCUGCAUAGCUCUGUGAAAAUUACAACAUAUAUCAGUAUAUUAGCACGAUUGUGAGAAAA
...(((((((((...(((((((......)).))))).)))))))))(((((.((.(((..((((((...........))).)))..))))))))))...... ( -27.10)
>DroYak_CAF1 9781 97 - 1
CUCCAGCAGCGAAAAAAUCUCCACCUCGGGCAGAUUCUCGCUGCUGCACAGCUCUGUGAAUAUUACAACAUA-----GUUUAUUAGUACGUUGGUGUGAAAC
...(((((((((...(((((((......)).))))).)))))))))((((.(..((((......((......-----)).......))))..).)))).... ( -28.82)
>DroPer_CAF1 11884 100 - 1
CUCCAGCAAUGAAAAUAUCUCCACCUCCGGCAGAUUCUCGCUGCUGCACAGCUCUGCAAAAAUGA--ACAUCAAUUAAGAGAUUAGCAUGGCUAUGAGAAUU
(((.(((.(((.....(((((........(((((.....((((.....))))))))).....((.--....)).....)))))...))).)))..))).... ( -21.90)
>consensus
CUCCAGCAGCGAAAAAAUCUCCACCUCGGGCAGAUUCUCGCUGCUGCACAGCUCUGUGAAAAUUACAACAUA_____AUAUAUUAGCACGAUUGUGAGAAAU
...(((((((((...(((((((......)).))))).)))))))))((((....))))........................((..(((....)))..)).. (-17.78 = -18.70 +   0.92)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:28 2006