Locus 2982

Sequence ID	2L_DroMel_CAF1
Location	8,522,315 – 8,522,475
Length	160
Max. P	0.919132

overview

Window 0

Location	8,522,315 – 8,522,435
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	76.85
Mean single sequence MFE	-28.70
Consensus MFE	-16.59
Energy contribution	-16.90
Covariance contribution	0.31
Combinations/Pair	1.22
Mean z-score	-2.03
Structure conservation index	0.58
SVM decision value	1.13
SVM RNA-class probability	0.919132
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8522315 120 + 22407834
CAUGUUGUGGGUGAGUUAUAUACGAACACAAGCCGCAAAGAUUUCGAUUAUGUUCUAUAUUUAAACAUUUGUAUAUAUUUCAUUAGCUACCCCAUGGUCUGUCCAUGGGCAAUAGCUGCU
.........((((((.((((((((((((.((..((.((....)))).)).)))))((....)).......))))))).))))))(((((.(((((((.....)))))))...)))))... ( -29.00)
>DroSec_CAF1 31559 120 + 1
CAUGUUGUGGGUGAGUUAUAUGCGAACACAAACCGCAAGGAAUUCGAUUAUGUUCUAUAUUUAAACACAUAUAUAUAUUUCAUUAGCUACCCCAUGGUCUGUCCAUGGGCAAUAGCUGCU
.((((((((..(((((....((((.........)))).(((((........)))))..)))))..)))).)))).........((((((.(((((((.....)))))))...)))))).. ( -32.00)
>DroSim_CAF1 30856 120 + 1
CAUGUUGUGGGUGAGUUAUAUACGAACACAAACCGCAAGGAAUUCGAUUAUGUUCUAUAUUUAAACACUUAUAUAUAUUUCAUUAGCUACCCCAUGGUCUAUCCAUGGGCAAUAGCUGCU
.((((((((((((....(((((.(((((....((....))(((...))).)))))))))).....)))))))).)))).....((((((.(((((((.....)))))))...)))))).. ( -33.00)
>DroEre_CAF1 31415 114 + 1
GAUGUUGUGGGUGAGUUGUA--CCAUCACGAACCGCGUGGAAUUCUCUUAAGUUCUAUAUUUAAACA----UGUAUAAUUUAUUAGCUACCCCAUGGACUCUCCAUGGGCAAUACCUGCU
......(..(((((((((((--(..(((((.....))))).......((((((.....))))))...----.))))))))).........(((((((.....)))))))....)))..). ( -31.20)
>DroYak_CAF1 32144 118 + 1
CAUGUUGUGGGUGAGUUAUA--ACAUCACAAGCCCCAAAGAAUUCCCUAUAUUUCUAUAUUUAAACAAACGUAUAUAUUUUAUUAGCUACCCCAUGGACUGUCCAUGGGCAAUAGCUGCU
.(((((((((((..((....--.....))..))))...((((..........))))........)).)))))...........((((((.(((((((.....)))))))...)))))).. ( -26.50)
>DroAna_CAF1 15347 101 + 1
CUUGCUAUGGGUAUGUAUU---CC-----AG-----ACAUCCUUACAUAUAGUUCUAUAUUUAUACUUGC------GUGUUAUUAGCUGCCCCAUGGCCUGUCCAUGGGUAAUUCUUGCU
...((((((((.......)---))-----)(-----((((.(.((.(((((....))))).)).....).------)))))..))))...(((((((.....)))))))........... ( -20.50)
>consensus
CAUGUUGUGGGUGAGUUAUA__CCAACACAAACCGCAAAGAAUUCGAUUAAGUUCUAUAUUUAAACACAU_UAUAUAUUUCAUUAGCUACCCCAUGGUCUGUCCAUGGGCAAUAGCUGCU
....(((((.................)))))....................................................((((((.(((((((.....)))))))...)))))).. (-16.59 = -16.90 +   0.31)

alignment

secondary structure

dotplot

Window 1

Location	8,522,315 – 8,522,435
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	76.85
Mean single sequence MFE	-28.82
Consensus MFE	-15.10
Energy contribution	-15.93
Covariance contribution	0.83
Combinations/Pair	1.00
Mean z-score	-2.08
Structure conservation index	0.52
SVM decision value	0.85
SVM RNA-class probability	0.866620
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8522315 120 - 22407834
AGCAGCUAUUGCCCAUGGACAGACCAUGGGGUAGCUAAUGAAAUAUAUACAAAUGUUUAAAUAUAGAACAUAAUCGAAAUCUUUGCGGCUUGUGUUCGUAUAUAACUCACCCACAACAUG
...((((((..(((((((.....)))))))))))))..(((..(((((((..((((....)))).(((((((((((.........))).)))))))))))))))..)))........... ( -34.00)
>DroSec_CAF1 31559 120 - 1
AGCAGCUAUUGCCCAUGGACAGACCAUGGGGUAGCUAAUGAAAUAUAUAUAUGUGUUUAAAUAUAGAACAUAAUCGAAUUCCUUGCGGUUUGUGUUCGCAUAUAACUCACCCACAACAUG
...((((((..(((((((.....)))))))))))))..(((..(((((.(((((......)))))(((((((((((.........))).))))))))..)))))..)))........... ( -31.70)
>DroSim_CAF1 30856 120 - 1
AGCAGCUAUUGCCCAUGGAUAGACCAUGGGGUAGCUAAUGAAAUAUAUAUAAGUGUUUAAAUAUAGAACAUAAUCGAAUUCCUUGCGGUUUGUGUUCGUAUAUAACUCACCCACAACAUG
...((((((..(((((((.....)))))))))))))..(((..(((((((..((((....)))).(((((((((((.........))).)))))))))))))))..)))........... ( -32.00)
>DroEre_CAF1 31415 114 - 1
AGCAGGUAUUGCCCAUGGAGAGUCCAUGGGGUAGCUAAUAAAUUAUACA----UGUUUAAAUAUAGAACUUAAGAGAAUUCCACGCGGUUCGUGAUGG--UACAACUCACCCACAACAUC
....(((....(((((((.....)))))))...................----....................(((....(((((((...)))).)))--.....))))))......... ( -24.20)
>DroYak_CAF1 32144 118 - 1
AGCAGCUAUUGCCCAUGGACAGUCCAUGGGGUAGCUAAUAAAAUAUAUACGUUUGUUUAAAUAUAGAAAUAUAGGGAAUUCUUUGGGGCUUGUGAUGU--UAUAACUCACCCACAACAUG
...((((((..(((((((.....)))))))))))))..............(((.((((...((((....))))..))))....((((..(((((....--)))))....)))).)))... ( -28.00)
>DroAna_CAF1 15347 101 - 1
AGCAAGAAUUACCCAUGGACAGGCCAUGGGGCAGCUAAUAACAC------GCAAGUAUAAAUAUAGAACUAUAUGUAAGGAUGU-----CU-----GG---AAUACAUACCCAUAGCAAG
...........(((((((.....)))))))...((((.....((------....))...............((((((.((....-----))-----..---..))))))....))))... ( -23.00)
>consensus
AGCAGCUAUUGCCCAUGGACAGACCAUGGGGUAGCUAAUAAAAUAUAUA_AAAUGUUUAAAUAUAGAACAUAAUCGAAUUCCUUGCGGUUUGUGUUCG__UAUAACUCACCCACAACAUG
...((((((..(((((((.....))))))))))))).................................................................................... (-15.10 = -15.93 +   0.83)

alignment

secondary structure

dotplot

Window 2

Location	8,522,355 – 8,522,475
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	83.16
Mean single sequence MFE	-33.23
Consensus MFE	-24.31
Energy contribution	-24.48
Covariance contribution	0.17
Combinations/Pair	1.22
Mean z-score	-1.53
Structure conservation index	0.73
SVM decision value	0.01
SVM RNA-class probability	0.537283
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8522355 120 + 22407834
AUUUCGAUUAUGUUCUAUAUUUAAACAUUUGUAUAUAUUUCAUUAGCUACCCCAUGGUCUGUCCAUGGGCAAUAGCUGCUCGGCAUCGGUGCUGGAGGCGCGUAGGUUCUUCGAGCUGGA
...(((((.(((...(((((.(((....))).)))))...)))((((((.(((((((.....)))))))...))))))......))))).(((.((((.((....)).)))).))).... ( -31.70)
>DroSec_CAF1 31599 120 + 1
AAUUCGAUUAUGUUCUAUAUUUAAACACAUAUAUAUAUUUCAUUAGCUACCCCAUGGUCUGUCCAUGGGCAAUAGCUGCUCGGCAUCGGUGCUGGAGGCGCGCAGGUUCUUCGAACUGGA
...........((((............................((((((.(((((((.....)))))))...))))))..(((((....)))))((((.((....)).)))))))).... ( -30.60)
>DroSim_CAF1 30896 120 + 1
AAUUCGAUUAUGUUCUAUAUUUAAACACUUAUAUAUAUUUCAUUAGCUACCCCAUGGUCUAUCCAUGGGCAAUAGCUGCUCGGCAUCGGAGCUGGAAGCGCGCAGGUUCUUCGAGCUGGA
..((((((.(((...(((((.(((....))).)))))...)))((((((.(((((((.....)))))))...))))))......))))))(((.((((.((....)).)))).))).... ( -34.50)
>DroEre_CAF1 31453 116 + 1
AAUUCUCUUAAGUUCUAUAUUUAAACA----UGUAUAAUUUAUUAGCUACCCCAUGGACUCUCCAUGGGCAAUACCUGCUCGGCAUCUGUGCUAGAGGCGCGCAGGUUUUUCGAGCUGCA
........((((((.(((((......)----)))).))))))...((...(((((((.....)))))))........((((((.((((((((.......))))))))...)))))).)). ( -36.30)
>DroYak_CAF1 32182 120 + 1
AAUUCCCUAUAUUUCUAUAUUUAAACAAACGUAUAUAUUUUAUUAGCUACCCCAUGGACUGUCCAUGGGCAAUAGCUGCUCGGCAUCGGUGCUGGAGGCGCGCAGGUUUUUCGAGCUGGA
...(((......................................(((((.(((((((.....)))))))...)))))((((((.(((.((((.......)))).)))...)))))).))) ( -33.40)
>DroAna_CAF1 15374 114 + 1
CCUUACAUAUAGUUCUAUAUUUAUACUUGC------GUGUUAUUAGCUGCCCCAUGGCCUGUCCAUGGGUAAUUCUUGCUCGGCCUCAGUGCUGGAGGCCCGCCGCUUCUUUGAACUGGA
.........((((((.......((((....------))))....(((.(((((((((.....)))))))............((((((.......)))))).)).))).....)))))).. ( -32.90)
>consensus
AAUUCGAUUAAGUUCUAUAUUUAAACACAU_UAUAUAUUUCAUUAGCUACCCCAUGGUCUGUCCAUGGGCAAUAGCUGCUCGGCAUCGGUGCUGGAGGCGCGCAGGUUCUUCGAGCUGGA
...........((((............................((((((.(((((((.....)))))))...))))))..((((......))))((((.((....)).)))))))).... (-24.31 = -24.48 +   0.17)

alignment

secondary structure

dotplot

Window 3

Location	8,522,355 – 8,522,475
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	83.16
Mean single sequence MFE	-32.62
Consensus MFE	-21.80
Energy contribution	-22.74
Covariance contribution	0.94
Combinations/Pair	1.05
Mean z-score	-1.93
Structure conservation index	0.67
SVM decision value	0.07
SVM RNA-class probability	0.570829
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8522355 120 - 22407834
UCCAGCUCGAAGAACCUACGCGCCUCCAGCACCGAUGCCGAGCAGCUAUUGCCCAUGGACAGACCAUGGGGUAGCUAAUGAAAUAUAUACAAAUGUUUAAAUAUAGAACAUAAUCGAAAU
....(((((..(......)((.......))........)))))((((((..(((((((.....)))))))))))))................((((((.......))))))......... ( -29.20)
>DroSec_CAF1 31599 120 - 1
UCCAGUUCGAAGAACCUGCGCGCCUCCAGCACCGAUGCCGAGCAGCUAUUGCCCAUGGACAGACCAUGGGGUAGCUAAUGAAAUAUAUAUAUGUGUUUAAAUAUAGAACAUAAUCGAAUU
...(((((((...........((.((..(((....))).))))((((((..(((((((.....)))))))))))))...............(((((((.......))))))).))))))) ( -31.70)
>DroSim_CAF1 30896 120 - 1
UCCAGCUCGAAGAACCUGCGCGCUUCCAGCUCCGAUGCCGAGCAGCUAUUGCCCAUGGAUAGACCAUGGGGUAGCUAAUGAAAUAUAUAUAAGUGUUUAAAUAUAGAACAUAAUCGAAUU
...((((.((((..(....)..)))).)))).((((.......((((((..(((((((.....)))))))))))))................((((((.......)))))).)))).... ( -31.60)
>DroEre_CAF1 31453 116 - 1
UGCAGCUCGAAAAACCUGCGCGCCUCUAGCACAGAUGCCGAGCAGGUAUUGCCCAUGGAGAGUCCAUGGGGUAGCUAAUAAAUUAUACA----UGUUUAAAUAUAGAACUUAAGAGAAUU
...(((((.....((((((..((.(((.....))).))...))))))....(((((((.....)))))))).)))).............----.((((.......))))........... ( -31.10)
>DroYak_CAF1 32182 120 - 1
UCCAGCUCGAAAAACCUGCGCGCCUCCAGCACCGAUGCCGAGCAGCUAUUGCCCAUGGACAGUCCAUGGGGUAGCUAAUAAAAUAUAUACGUUUGUUUAAAUAUAGAAAUAUAGGGAAUU
(((.(((((.......(((.........))).......)))))((((((..(((((((.....))))))))))))).........((((..(((((......)))))..)))).)))... ( -34.54)
>DroAna_CAF1 15374 114 - 1
UCCAGUUCAAAGAAGCGGCGGGCCUCCAGCACUGAGGCCGAGCAAGAAUUACCCAUGGACAGGCCAUGGGGCAGCUAAUAACAC------GCAAGUAUAAAUAUAGAACUAUAUGUAAGG
...(((((.....(((.((.((((((.......))))))............(((((((.....))))))))).)))......((------....)).........))))).......... ( -37.60)
>consensus
UCCAGCUCGAAGAACCUGCGCGCCUCCAGCACCGAUGCCGAGCAGCUAUUGCCCAUGGACAGACCAUGGGGUAGCUAAUAAAAUAUAUA_AAAUGUUUAAAUAUAGAACAUAAUCGAAUU
....(((((........((.........))........)))))((((((..(((((((.....)))))))))))))............................................ (-21.80 = -22.74 +   0.94)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:20 2006