Locus 5375

Sequence ID	X_DroMel_CAF1
Location	13,976,506 – 13,976,605
Length	99
Max. P	0.952691

overview

Window 1

Location	13,976,506 – 13,976,605
Length	99
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	76.48
Mean single sequence MFE	-31.48
Consensus MFE	-18.13
Energy contribution	-18.22
Covariance contribution	0.09
Combinations/Pair	1.12
Mean z-score	-2.17
Structure conservation index	0.58
SVM decision value	1.42
SVM RNA-class probability	0.952691
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13976506 99 + 22224390
UACCGGGUGGCGUAUGACGUAUGCUGGCGAUUAAUUUCGCUCUGUGCGUAAUCAAGUCGAAAAUUUAUUGAAGUUGCAAUAAUUGCGCCUGCGGCGAA---------------------A
..(((.(.((((((((((.(((((.(((((......)))))....))))).....)))).....((((((......)))))).))))))).)))....---------------------. ( -31.00)
>DroVir_CAF1 13006 106 + 1
---------GCGUAUGACGUAUGCGAGCGAUUAAUUUCGCUCAGUGCGUAAUCAACUCGAAAAUUUAUUGAAGUUGCAAUAAUUGCGCCCAUGGCGUACCAUCAACUCAAC-----UCAA
---------(.((.(((.((((((((((((......)))))).(.(((((((((((((((.......))).))))).....))))))).)...))))))..))))).)...-----.... ( -30.90)
>DroPse_CAF1 112638 99 + 1
GGCAUACCGACGUAUGACGUAUGCCGACGAUUAAUUUCGCUCUGUGCGUAAUCAAGUCAAAAAUUUAUUGAAGUUGCAAUAAAUGCGCCCAAGGCAGC---------------------G
(((((((...........)))))))((((((((....(((.....))))))))..)))....((((((((......))))))))(((((...))).))---------------------. ( -26.40)
>DroYak_CAF1 10305 99 + 1
UGCCGGGUGGCGUAUGACGUAUGCAGGCGAUUAAUUUCGCUCUGUGCGUAAUCAAGUCGAAAAUUUAUUGAAGUUGCAAUAAUUGCGCCUGCGGCGAA---------------------A
.((((.(.((((((((((.(((((((((((......)))))...)))))).....)))).....((((((......)))))).))))))).))))...---------------------. ( -36.40)
>DroMoj_CAF1 13026 120 + 1
UGCCGCAUGCCGCAUGACGUAUGCGAGCGAUUAAUUUCGCUCAGUGCGUAAUCAACUCGAAAAUUUAUUGAAGUUGCAAUAAUUGCGCCCAUGGCGUGCCAUCAGCUCAAACCCAGUCGA
....((((((((((((...)))))((((((......)))))).(.(((((((((((((((.......))).))))).....))))))).)..)))))))..................... ( -37.80)
>DroPer_CAF1 133283 99 + 1
GGCAUACCGACGUAUGACGUAUGCCGACGAUUAAUUUCGCUCUGUGCGUAAUCAAGUCAAAAAUUUAUUGAAGUUGCAAUAAAUGCGCCCAAGGCAGC---------------------G
(((((((...........)))))))((((((((....(((.....))))))))..)))....((((((((......))))))))(((((...))).))---------------------. ( -26.40)
>consensus
UGCCGACUGGCGUAUGACGUAUGCCGGCGAUUAAUUUCGCUCUGUGCGUAAUCAAGUCGAAAAUUUAUUGAAGUUGCAAUAAUUGCGCCCAAGGCGAA_____________________A
...........(((((((.(((((.(((((......)))))....))))).....)))).....((((((......)))))).)))(((...)))......................... (-18.13 = -18.22 +   0.09)

alignment

secondary structure

dotplot

Window 2

Location	13,976,506 – 13,976,605
Length	99
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	76.48
Mean single sequence MFE	-28.47
Consensus MFE	-15.72
Energy contribution	-15.50
Covariance contribution	-0.22
Combinations/Pair	1.04
Mean z-score	-1.75
Structure conservation index	0.55
SVM decision value	0.43
SVM RNA-class probability	0.734629
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13976506 99 - 22224390
U---------------------UUCGCCGCAGGCGCAAUUAUUGCAACUUCAAUAAAUUUUCGACUUGAUUACGCACAGAGCGAAAUUAAUCGCCAGCAUACGUCAUACGCCACCCGGUA
.---------------------...((((..((((...((((((......)))))).....(((.((((((.(((.....))).)))))))))...............))))...)))). ( -22.20)
>DroVir_CAF1 13006 106 - 1
UUGA-----GUUGAGUUGAUGGUACGCCAUGGGCGCAAUUAUUGCAACUUCAAUAAAUUUUCGAGUUGAUUACGCACUGAGCGAAAUUAAUCGCUCGCAUACGUCAUACGC---------
...(-----((((.(((.((((....)))).))).)))))....((((((.((......)).))))))((.(((...(((((((......)))))))....))).))....--------- ( -27.20)
>DroPse_CAF1 112638 99 - 1
C---------------------GCUGCCUUGGGCGCAUUUAUUGCAACUUCAAUAAAUUUUUGACUUGAUUACGCACAGAGCGAAAUUAAUCGUCGGCAUACGUCAUACGUCGGUAUGCC
.---------------------((.(((...)))))((((((((......))))))))....(((((((((.(((.....))).))))))..)))((((((((.(....).).))))))) ( -26.00)
>DroYak_CAF1 10305 99 - 1
U---------------------UUCGCCGCAGGCGCAAUUAUUGCAACUUCAAUAAAUUUUCGACUUGAUUACGCACAGAGCGAAAUUAAUCGCCUGCAUACGUCAUACGCCACCCGGCA
.---------------------...((((((((((((.....))).................((.((((((.(((.....))).))))))))))))))...((.....))......))). ( -29.10)
>DroMoj_CAF1 13026 120 - 1
UCGACUGGGUUUGAGCUGAUGGCACGCCAUGGGCGCAAUUAUUGCAACUUCAAUAAAUUUUCGAGUUGAUUACGCACUGAGCGAAAUUAAUCGCUCGCAUACGUCAUGCGGCAUGCGGCA
((((((.((.(((.(((.((((....)))).))).)))((((((......))))))....)).))))))...((((..((((((......))))))((((.....))))....))))... ( -40.30)
>DroPer_CAF1 133283 99 - 1
C---------------------GCUGCCUUGGGCGCAUUUAUUGCAACUUCAAUAAAUUUUUGACUUGAUUACGCACAGAGCGAAAUUAAUCGUCGGCAUACGUCAUACGUCGGUAUGCC
.---------------------((.(((...)))))((((((((......))))))))....(((((((((.(((.....))).))))))..)))((((((((.(....).).))))))) ( -26.00)
>consensus
U_____________________UACGCCAUGGGCGCAAUUAUUGCAACUUCAAUAAAUUUUCGACUUGAUUACGCACAGAGCGAAAUUAAUCGCCCGCAUACGUCAUACGCCACCCGGCA
.........................(((...)))((..((((((......)))))).....(((.((((((.(((.....))).)))))))))...))...................... (-15.72 = -15.50 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:26 2006