Locus 455

Sequence ID	X_DroMel_CAF1
Location	1,339,362 – 1,339,457
Length	95
Max. P	0.892290

overview

Window 7

Location	1,339,362 – 1,339,457
Length	95
Sequences	6
Columns	98
Reading direction	forward
Mean pairwise identity	79.36
Mean single sequence MFE	-27.80
Consensus MFE	-18.19
Energy contribution	-19.42
Covariance contribution	1.22
Combinations/Pair	1.19
Mean z-score	-1.98
Structure conservation index	0.65
SVM decision value	0.94
SVM RNA-class probability	0.885170
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1339362 95 + 22224390
-GAGGCGUUGAGGCGUGGCUGGUCAGCAGUGAAGUUGAAAUCAUUGAAUUUCAUACCCGAAAGAUUAGUAAUAAACUCAUCACGC-UAGCCACGCCG-
-..........((((((((((((.....((((((((.((....)).))))))))........(((.(((.....))).)))..))-)))))))))).- ( -34.10)
>DroPse_CAF1 3779 92 + 1
UGGGCUUGUGAGGCGUGGCAUAUCAGCU-UUAAGUUGAAAUCAUUGCAUUUCAUACCCGAAAGAU----AAAAAAAUCAUCAUAU-GAACCACGGGGU
......(((((((.(..(.((.(((((.-....))))).))..)..).)))))))((((...(((----......))).((....-))....)))).. ( -17.90)
>DroSim_CAF1 3082 95 + 1
-GAGGCGUUGAGGCGUGGCUGGUCAGCAGUGAAGUUGAAAUCAUUGAAUUUCAUACCCGAAAGAUUAGUAAUAAACUCAUCACGC-UAGCCACGCCG-
-..........((((((((((((.....((((((((.((....)).))))))))........(((.(((.....))).)))..))-)))))))))).- ( -34.10)
>DroYak_CAF1 70 95 + 1
-GAGGCAGUGAGGCGUGGCUGGUCAGCAGUGAAGUUGAAAUCAUUGAAUUUCAUACCCGAAAGAUUAGUGAUAAACUCAUCACGU-UGGCCACGCCG-
-..........((((((((....((((.((((((((...((((((((.((((......))))..)))))))).))))..))))))-)))))))))).- ( -35.00)
>DroAna_CAF1 4431 93 + 1
-UCCAUAGUGAGGCUUGGCUGGUCAGCGGUGAAAGUGAAAUCAUUGCAUUUCAUACCCGAAAGAUUA---AAAGAAUCAUCACGUGCAGCCACGCCU-
-.........((((.((((((....(.(((((..(((((((......)))))))...(....)....---......))))).)...)))))).))))- ( -27.80)
>DroPer_CAF1 3765 92 + 1
UGGGCUUGUGAGGCGUGGCAUAUCAGCU-UUAAGUUGAAAUCAUUGCAUUUCAUACCCGAAAGAU----ACAAAAAUCAUCAUAU-GAACCACGGGGU
......(((((((.(..(.((.(((((.-....))))).))..)..).)))))))((((...(((----......))).((....-))....)))).. ( -17.90)
>consensus
_GAGGCAGUGAGGCGUGGCUGGUCAGCAGUGAAGUUGAAAUCAUUGAAUUUCAUACCCGAAAGAUUA__AAAAAAAUCAUCACGU_UAGCCACGCCG_
...........((((((((((.(((((......)))))...................(....).......................)))))))))).. (-18.19 = -19.42 +   1.22)

alignment

secondary structure

dotplot

Window 8

Location	1,339,362 – 1,339,457
Length	95
Sequences	6
Columns	98
Reading direction	reverse
Mean pairwise identity	79.36
Mean single sequence MFE	-25.05
Consensus MFE	-17.38
Energy contribution	-17.55
Covariance contribution	0.17
Combinations/Pair	1.14
Mean z-score	-1.88
Structure conservation index	0.69
SVM decision value	0.97
SVM RNA-class probability	0.892290
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1339362 95 - 22224390
-CGGCGUGGCUA-GCGUGAUGAGUUUAUUACUAAUCUUUCGGGUAUGAAAUUCAAUGAUUUCAACUUCACUGCUGACCAGCCACGCCUCAACGCCUC-
-.((((((((((-(((((((((((((..((((.........))))..))))))).((....))...)))).)))....)))))))))..........- ( -31.10)
>DroPse_CAF1 3779 92 - 1
ACCCCGUGGUUC-AUAUGAUGAUUUUUUU----AUCUUUCGGGUAUGAAAUGCAAUGAUUUCAACUUAA-AGCUGAUAUGCCACGCCUCACAAGCCCA
....(((((..(-(((((((((.....))----)))(((..(((.((((((......)))))))))..)-))...))))))))))............. ( -18.20)
>DroSim_CAF1 3082 95 - 1
-CGGCGUGGCUA-GCGUGAUGAGUUUAUUACUAAUCUUUCGGGUAUGAAAUUCAAUGAUUUCAACUUCACUGCUGACCAGCCACGCCUCAACGCCUC-
-.((((((((((-(((((((((((((..((((.........))))..))))))).((....))...)))).)))....)))))))))..........- ( -31.10)
>DroYak_CAF1 70 95 - 1
-CGGCGUGGCCA-ACGUGAUGAGUUUAUCACUAAUCUUUCGGGUAUGAAAUUCAAUGAUUUCAACUUCACUGCUGACCAGCCACGCCUCACUGCCUC-
-.((((((((..-..((((((....)))))).........((...(((((((....)))))))...(((....))))).))))))))..........- ( -28.50)
>DroAna_CAF1 4431 93 - 1
-AGGCGUGGCUGCACGUGAUGAUUCUUU---UAAUCUUUCGGGUAUGAAAUGCAAUGAUUUCACUUUCACCGCUGACCAGCCAAGCCUCACUAUGGA-
-((((.((((((((.(((..((((....---.))))....(((..((((((......))))))..)))..)))))..)))))).)))).........- ( -23.90)
>DroPer_CAF1 3765 92 - 1
ACCCCGUGGUUC-AUAUGAUGAUUUUUGU----AUCUUUCGGGUAUGAAAUGCAAUGAUUUCAACUUAA-AGCUGAUAUGCCACGCCUCACAAGCCCA
....((((((((-((...)))).....((----((((((..(((.((((((......)))))))))..)-))..)))))))))))............. ( -17.50)
>consensus
_CGGCGUGGCUA_ACGUGAUGAGUUUAUU__UAAUCUUUCGGGUAUGAAAUGCAAUGAUUUCAACUUCACUGCUGACCAGCCACGCCUCACAACCUC_
..((((((((...((.(((.((............))..))).)).((((((......))))))................))))))))........... (-17.38 = -17.55 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:57 2006