Locus 7398

Sequence ID	3R_DroMel_CAF1
Location	19,651,951 – 19,652,173
Length	222
Max. P	0.888335

overview

Window 5

Location	19,651,951 – 19,652,063
Length	112
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	78.16
Mean single sequence MFE	-32.07
Consensus MFE	-15.81
Energy contribution	-16.23
Covariance contribution	0.42
Combinations/Pair	1.31
Mean z-score	-1.95
Structure conservation index	0.49
SVM decision value	0.08
SVM RNA-class probability	0.574155
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19651951 112 + 27905053
UGUUGCAUACCUUUUUGGUGCACUAUUGCCGACACUUCUCC-UAAAAUUCCCAAACAGUUCUGGCAGAUCUCUCAAGGAGAUCCCAGAAUUGGGCGGAGAAAAGCAUACUUAC
.(((((........(((((........)))))...((((((-.......((((....(((((((..((((((.....))))))))))))))))).))))))..))).)).... ( -33.40)
>DroSec_CAF1 36088 112 + 1
GGUUGCAUACAUUUCUGGUGCACUAUCACCGACACUGCGCU-AGAAAUUCCCAAACAGUUCUGGCAGAUCUCUUAAGGAGAGCCCAGAAUUGGGCGGAGAAAAGCAUACUUAC
((((((.....(((((((((((.............))))))-)))))(((((...(((((((((....((((.....))))..))))))))).).))))....))).)))... ( -37.72)
>DroSim_CAF1 36293 112 + 1
UGUUGCAUACUUUUCUGGUGCACUAUUACCAACACUGCGCU-AGAAAUUCCCAAACAGUUCUGGCAGAUCCCGCAAGGAGAGCCCAGAAUUGGGCGGAGAAAAGCAUACUUAC
.(((((.....(((((((((((.............))))))-)))))(((((...(((((((((....((((....)).))..))))))))).).))))....))).)).... ( -38.82)
>DroEre_CAF1 36182 112 + 1
UGUUGCAUACUUUCUCGGUGAAAUAUCCUCGACACUCUGCC-UGAAAUUCCCAAGCAGUUCUGGCAGAUCCCUCAAGGACAUCCCAGAGUUGGGCGCUGGAAGGCAUACUUAC
.........(((((.(((((.....((((.((...((((((-.(((...(....)...))).))))))....)).))))...(((......)))))))))))))......... ( -29.30)
>DroWil_CAF1 68743 113 + 1
UGUUGCAUAUCUUUCAGGUAGAAUUUACUUGCCACUUCCCUUUACAAUUCCCAACAAGUUCUAGCAACUCAGGCAUGGUAACCCCUAUGCUGAGCAGAGAAAAGCAUACUUAC
.(((((...(((((..(.((((((((..(((....................))).)))))))).)..(((((.(((((......)))))))))).)))))...))).)).... ( -21.35)
>DroYak_CAF1 36512 112 + 1
UGUUGCAUACUUCUUUGGUGCAGCAACCCCGAAACGCUGCC-UGAAAUUCCCAAGUAGUUCUGGCAGAUCCCUCAAGGAGAUCCCAGAGUUGAGCGGCGAAAAGCAUACUUAC
((((((((.(......))))))))).(.(((.((((((((.-((.......)).)))))(((((..((((((....)).))))))))))))...))).).............. ( -31.80)
>consensus
UGUUGCAUACUUUUCUGGUGCACUAUCCCCGACACUCCGCC_UGAAAUUCCCAAACAGUUCUGGCAGAUCCCUCAAGGAGAUCCCAGAAUUGGGCGGAGAAAAGCAUACUUAC
.(((((.((((.....))))...........................(((((...(((((((((....(((.....)))....)))))))))...)).)))..))).)).... (-15.81 = -16.23 +   0.42)

alignment

secondary structure

dotplot

Window 6

Location	19,651,951 – 19,652,063
Length	112
Sequences	6
Columns	113
Reading direction	reverse
Mean pairwise identity	78.16
Mean single sequence MFE	-35.47
Consensus MFE	-19.99
Energy contribution	-18.84
Covariance contribution	-1.16
Combinations/Pair	1.59
Mean z-score	-1.80
Structure conservation index	0.56
SVM decision value	0.36
SVM RNA-class probability	0.706536
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19651951 112 - 27905053
GUAAGUAUGCUUUUCUCCGCCCAAUUCUGGGAUCUCCUUGAGAGAUCUGCCAGAACUGUUUGGGAAUUUUA-GGAGAAGUGUCGGCAAUAGUGCACCAAAAAGGUAUGCAACA
....((((((((((((((.(((((((((((((((((.....))))))..))))))....))))).......-))))).((((..((....))))))....))))))))).... ( -37.70)
>DroSec_CAF1 36088 112 - 1
GUAAGUAUGCUUUUCUCCGCCCAAUUCUGGGCUCUCCUUAAGAGAUCUGCCAGAACUGUUUGGGAAUUUCU-AGCGCAGUGUCGGUGAUAGUGCACCAGAAAUGUAUGCAACC
....((((((...((.(((..((.((((((..((((.....))))....)))))).))..)))))((((((-.(.(((.((((...)))).))).).)))))))))))).... ( -35.10)
>DroSim_CAF1 36293 112 - 1
GUAAGUAUGCUUUUCUCCGCCCAAUUCUGGGCUCUCCUUGCGGGAUCUGCCAGAACUGUUUGGGAAUUUCU-AGCGCAGUGUUGGUAAUAGUGCACCAGAAAAGUAUGCAACA
....((((((((((((..(((((....)))))......((((..((.((((((.((((((((((....)))-)).))))).))))))))..))))..)))))))))))).... ( -40.70)
>DroEre_CAF1 36182 112 - 1
GUAAGUAUGCCUUCCAGCGCCCAACUCUGGGAUGUCCUUGAGGGAUCUGCCAGAACUGCUUGGGAAUUUCA-GGCAGAGUGUCGAGGAUAUUUCACCGAGAAAGUAUGCAACA
....((((((.((((....((((....))))((((((((((.(..((((((.(((...(....)...))).-)))))).).))))))))))......).))).)))))).... ( -38.60)
>DroWil_CAF1 68743 113 - 1
GUAAGUAUGCUUUUCUCUGCUCAGCAUAGGGGUUACCAUGCCUGAGUUGCUAGAACUUGUUGGGAAUUGUAAAGGGAAGUGGCAAGUAAAUUCUACCUGAAAGAUAUGCAACA
....(((((((((((((((((((((((.((.....))))).))))))(((.....((....)).....))).))))))).))).......(((.....)))....)))).... ( -24.80)
>DroYak_CAF1 36512 112 - 1
GUAAGUAUGCUUUUCGCCGCUCAACUCUGGGAUCUCCUUGAGGGAUCUGCCAGAACUACUUGGGAAUUUCA-GGCAGCGUUUCGGGGUUGCUGCACCAAAGAAGUAUGCAACA
....((((((((((....((.((((((((..((((.(((((((....(.((((......)))).).)))))-)).)).))..))))))))..)).....)))))))))).... ( -35.90)
>consensus
GUAAGUAUGCUUUUCUCCGCCCAACUCUGGGAUCUCCUUGAGGGAUCUGCCAGAACUGUUUGGGAAUUUCA_AGCGAAGUGUCGGGGAUAGUGCACCAAAAAAGUAUGCAACA
....((((((((((.....(((((.((((((.((((.....)))).)..))))).....))))).........((((.............)))).....)))))))))).... (-19.99 = -18.84 +  -1.16)

alignment

secondary structure

dotplot

Window 7

Location	19,652,063 – 19,652,173
Length	110
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	96.04
Mean single sequence MFE	-38.67
Consensus MFE	-35.83
Energy contribution	-35.13
Covariance contribution	-0.69
Combinations/Pair	1.12
Mean z-score	-1.26
Structure conservation index	0.93
SVM decision value	0.95
SVM RNA-class probability	0.888335
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19652063 110 + 27905053
CUGGCGUAGAGGUUAACCGUGAUCACGAAGGCG-GUUCCUCCGGAGUGAGGCUUGGCCAUUGCAC-CUCGGCUGAGUUGACCUCUGCGAUUAUUCCUAAUGUGAAUAACUCG
....(((((((((((((((..(((.(....).)-))..).(((..(((.(((...)))....)))-..)))..).))))))))))))).(((((((....).)))))).... ( -39.10)
>DroVir_CAF1 45478 111 + 1
CUGGCGUAGAGGUUAACCGUGAUCACGAAGGCG-GUUCCUCCGGAGUGAGGCUUGGCCAUUGCACAUUCGGUUGAGUUGACCUCUGCGAUUAUUCCUAAUGUGAAUAACUCG
....(((((((((((((((..(((.(....).)-))..).((((((((.(((...)))....))).)))))..).))))))))))))).(((((((....).)))))).... ( -38.90)
>DroPse_CAF1 49982 111 + 1
CUGGCGUAGAGGUUAACCGUGAUCACCAAGGCGUGUUCCUCCGGAGUGAGGCUUGGCCAUUGCAC-UGCGGCUGAGUUGACCUCUGCGAUUAUUCCUAAUGUGAAUAACUCG
....(((((((((((((((.((.(((......))).))).(((.((((.(((...)))....)))-).)))..).))))))))))))).(((((((....).)))))).... ( -38.70)
>DroMoj_CAF1 40909 111 + 1
CUGGCGUAGAGGUUAACCGUGAUCACGAAGGCG-GUUCCUCCGGAGUGAGGCUUGGUCAUUGCACUUUCGGCUGAGUUGACCUCUGCGAUUAUUCCUAAUGUGAAUAACUCG
....(((((((((((((((..(((.(....).)-))..).((((((((.(((...)))....))).)))))..).))))))))))))).(((((((....).)))))).... ( -36.00)
>DroAna_CAF1 38099 110 + 1
CUGGCGUAGAGGUUAACCGUGAUCACGAAGGCG-GUUCCUCCGGAGUGAGACCUGGCCAUUGCAC-CUCGGCUGGGUUGACCUCUGCGAUUAUUCCUAAUGUGAAUAACUCG
....((((((((((((((((..((((...((.(-....).))...)))).))..((((.......-...)))).)))))))))))))).(((((((....).)))))).... ( -40.60)
>DroPer_CAF1 49506 111 + 1
CUGGCGUAGAGGUUAACCGUGAUCACCAAGGCGUGUUCCUCCGGAGUGAGGCUUGGCCAUUGCAC-UGCGGCUGAGUUGACCUCUGCGAUUAUUCCUAAUGUGAAUAACUCG
....(((((((((((((((.((.(((......))).))).(((.((((.(((...)))....)))-).)))..).))))))))))))).(((((((....).)))))).... ( -38.70)
>consensus
CUGGCGUAGAGGUUAACCGUGAUCACGAAGGCG_GUUCCUCCGGAGUGAGGCUUGGCCAUUGCAC_UUCGGCUGAGUUGACCUCUGCGAUUAUUCCUAAUGUGAAUAACUCG
....(((((((((((((.((..((((...((.(.....).))...)))).))(..(((...........)))..)))))))))))))).(((((((....).)))))).... (-35.83 = -35.13 +  -0.69)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:55 2006