Scala example source code file (fasta-output.txt)

This example Scala source code file (fasta-output.txt) is included in the DevDaily.com "Java Source Code Warehouse" project. The intent of this project is to help you "Learn Java by Example" ^TM.

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The Scala fasta-output.txt source code

>ONE Homo sapiens alu
GGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGA
TCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACT
AAAAATACAAAAATTAGCCGGGCGTGGTGGCGCGCGCCTGTAATCCCAGCTACTCGGGAG
GCTGAGGCAGGAGAATCGCTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCGAGATCGCG
CCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAGGCCGGGCGCGGT
GGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACCTGAGGTCA
GGAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAA
TTAGCCGGGCGTGGTGGCGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAG
AATCGCTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCA
GCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAGGCCGGGCGCGGTGGCTCACGCCTGT
AATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACCTGAGGTCAGGAGTTCGAGACC
AGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCCGGGCGTG
GTGGCGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACC
CGGGAGGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAG
AGCGAGACTCCGTCTCAAAAAGGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTT
TGGGAGGCCGAGGCGGGCGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACA
TGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCCGGGCGTGGTGGCGCGCGCCT
GTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGAGGCGGAGG
TTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGT
CTCAAAAAGGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGG
CGGGCGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCCG
TCTCTACTAAAAATACAAAAATTAGCCGGGCGTGGTGGCGCGCGCCTGTAATCCCAGCTA
CTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCG
AGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAGGCCG
GGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACC
TGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAA
TACAAAAATTAGCCGGGCGTGGTGGCGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGA
GGCAGGAGAATCGCTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACT
GCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAGGCCGGGCGCGGTGGCTC
ACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACCTGAGGTCAGGAGT
TCGAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGC
CGGGCGTGGTGGCGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCG
CTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTG
GGCGACAGAGCGAGACTCCG
>TWO IUB ambiguity codes
cttBtatcatatgctaKggNcataaaSatgtaaaDcDRtBggDtctttataattcBgtcg
tactDtDagcctatttSVHtHttKtgtHMaSattgWaHKHttttagacatWatgtRgaaa
NtactMcSMtYtcMgRtacttctWBacgaaatatagScDtttgaagacacatagtVgYgt
cattHWtMMWcStgttaggKtSgaYaaccWStcgBttgcgaMttBYatcWtgacaYcaga
gtaBDtRacttttcWatMttDBcatWtatcttactaBgaYtcttgttttttttYaaScYa
HgtgttNtSatcMtcVaaaStccRcctDaataataStcYtRDSaMtDttgttSagtRRca
tttHatSttMtWgtcgtatSSagactYaaattcaMtWatttaSgYttaRgKaRtccactt
tattRggaMcDaWaWagttttgacatgttctacaaaRaatataataaMttcgDacgaSSt
acaStYRctVaNMtMgtaggcKatcttttattaaaaagVWaHKYagtttttatttaacct
tacgtVtcVaattVMBcttaMtttaStgacttagattWWacVtgWYagWVRctDattBYt
gtttaagaagattattgacVatMaacattVctgtBSgaVtgWWggaKHaatKWcBScSWa
accRVacacaaactaccScattRatatKVtactatatttHttaagtttSKtRtacaaagt
RDttcaaaaWgcacatWaDgtDKacgaacaattacaRNWaatHtttStgttattaaMtgt
tgDcgtMgcatBtgcttcgcgaDWgagctgcgaggggVtaaScNatttacttaatgacag
cccccacatYScaMgtaggtYaNgttctgaMaacNaMRaacaaacaKctacatagYWctg
ttWaaataaaataRattagHacacaagcgKatacBttRttaagtatttccgatctHSaat
actcNttMaagtattMtgRtgaMgcataatHcMtaBSaRattagttgatHtMttaaKagg
YtaaBataSaVatactWtataVWgKgttaaaacagtgcgRatatacatVtHRtVYataSa
KtWaStVcNKHKttactatccctcatgWHatWaRcttactaggatctataDtDHBttata
aaaHgtacVtagaYttYaKcctattcttcttaataNDaaggaaaDYgcggctaaWSctBa
aNtgctggMBaKctaMVKagBaactaWaDaMaccYVtNtaHtVWtKgRtcaaNtYaNacg
gtttNattgVtttctgtBaWgtaattcaagtcaVWtactNggattctttaYtaaagccgc
tcttagHVggaYtgtNcDaVagctctctKgacgtatagYcctRYHDtgBattDaaDgccK
tcHaaStttMcctagtattgcRgWBaVatHaaaataYtgtttagMDMRtaataaggatMt
ttctWgtNtgtgaaaaMaatatRtttMtDgHHtgtcattttcWattRSHcVagaagtacg
ggtaKVattKYagactNaatgtttgKMMgYNtcccgSKttctaStatatNVataYHgtNa
BKRgNacaactgatttcctttaNcgatttctctataScaHtataRagtcRVttacDSDtt
aRtSatacHgtSKacYagttMHtWataggatgactNtatSaNctataVtttRNKtgRacc
tttYtatgttactttttcctttaaacatacaHactMacacggtWataMtBVacRaSaatc
cgtaBVttccagccBcttaRKtgtgcctttttRtgtcagcRttKtaaacKtaaatctcac
aattgcaNtSBaaccgggttattaaBcKatDagttactcttcattVtttHaaggctKKga
tacatcBggScagtVcacattttgaHaDSgHatRMaHWggtatatRgccDttcgtatcga
aacaHtaagttaRatgaVacttagattVKtaaYttaaatcaNatccRttRRaMScNaaaD
gttVHWgtcHaaHgacVaWtgttScactaagSgttatcttagggDtaccagWattWtRtg
ttHWHacgattBtgVcaYatcggttgagKcWtKKcaVtgaYgWctgYggVctgtHgaNcV
taBtWaaYatcDRaaRtSctgaHaYRttagatMatgcatttNattaDttaattgttctaa
ccctcccctagaWBtttHtBccttagaVaatMcBHagaVcWcagBVttcBtaYMccagat
gaaaaHctctaacgttagNWRtcggattNatcRaNHttcagtKttttgWatWttcSaNgg
gaWtactKKMaacatKatacNattgctWtatctaVgagctatgtRaHtYcWcttagccaa
tYttWttaWSSttaHcaaaaagVacVgtaVaRMgattaVcDactttcHHggHRtgNcctt
tYatcatKgctcctctatVcaaaaKaaaagtatatctgMtWtaaaacaStttMtcgactt
taSatcgDataaactaaacaagtaaVctaggaSccaatMVtaaSKNVattttgHccatca
cBVctgcaVatVttRtactgtVcaattHgtaaattaaattttYtatattaaRSgYtgBag
aHSBDgtagcacRHtYcBgtcacttacactaYcgctWtattgSHtSatcataaatataHt
cgtYaaMNgBaatttaRgaMaatatttBtttaaaHHKaatctgatWatYaacttMctctt
ttVctagctDaaagtaVaKaKRtaacBgtatccaaccactHHaagaagaaggaNaaatBW
attccgStaMSaMatBttgcatgRSacgttVVtaaDMtcSgVatWcaSatcttttVatag
ttactttacgatcaccNtaDVgSRcgVcgtgaacgaNtaNatatagtHtMgtHcMtagaa
attBgtataRaaaacaYKgtRccYtatgaagtaataKgtaaMttgaaRVatgcagaKStc
tHNaaatctBBtcttaYaBWHgtVtgacagcaRcataWctcaBcYacYgatDgtDHccta
>THREE Homo sapiens frequency
aacacttcaccaggtatcgtgaaggctcaagattacccagagaacctttgcaatataaga
atatgtatgcagcattaccctaagtaattatattctttttctgactcaaagtgacaagcc
ctagtgtatattaaatcggtatatttgggaaattcctcaaactatcctaatcaggtagcc
atgaaagtgatcaaaaaagttcgtacttataccatacatgaattctggccaagtaaaaaa
tagattgcgcaaaattcgtaccttaagtctctcgccaagatattaggatcctattactca
tatcgtgtttttctttattgccgccatccccggagtatctcacccatccttctcttaaag
gcctaatattacctatgcaaataaacatatattgttgaaaattgagaacctgatcgtgat
tcttatgtgtaccatatgtatagtaatcacgcgactatatagtgctttagtatcgcccgt
gggtgagtgaatattctgggctagcgtgagatagtttcttgtcctaatatttttcagatc
gaatagcttctatttttgtgtttattgacatatgtcgaaactccttactcagtgaaagtc
atgaccagatccacgaacaatcttcggaatcagtctcgttttacggcggaatcttgagtc
taacttatatcccgtcgcttactttctaacaccccttatgtatttttaaaattacgttta
ttcgaacgtacttggcggaagcgttattttttgaagtaagttacattgggcagactcttg
acattttcgatacgactttctttcatccatcacaggactcgttcgtattgatatcagaag
ctcgtgatgattagttgtcttctttaccaatactttgaggcctattctgcgaaatttttg
ttgccctgcgaacttcacataccaaggaacacctcgcaacatgccttcatatccatcgtt
cattgtaattcttacacaatgaatcctaagtaattacatccctgcgtaaaagatggtagg
ggcactgaggatatattaccaagcatttagttatgagtaatcagcaatgtttcttgtatt
aagttctctaaaatagttacatcgtaatgttatctcgggttccgcgaataaacgagatag
attcattatatatggccctaagcaaaaacctcctcgtattctgttggtaattagaatcac
acaatacgggttgagatattaattatttgtagtacgaagagatataaaaagatgaacaat
tactcaagtcaagatgtatacgggatttataataaaaatcgggtagagatctgctttgca
attcagacgtgccactaaatcgtaatatgtcgcgttacatcagaaagggtaactattatt
aattaataaagggcttaatcactacatattagatcttatccgatagtcttatctattcgt
tgtatttttaagcggttctaattcagtcattatatcagtgctccgagttctttattattg
ttttaaggatgacaaaatgcctcttgttataacgctgggagaagcagactaagagtcgga
gcagttggtagaatgaggctgcaaaagacggtctcgacgaatggacagactttactaaac
caatgaaagacagaagtagagcaaagtctgaagtggtatcagcttaattatgacaaccct
taatacttccctttcgccgaatactggcgtggaaaggttttaaaagtcgaagtagttaga
ggcatctctcgctcataaataggtagactactcgcaatccaatgtgactatgtaatactg
ggaacatcagtccgcgatgcagcgtgtttatcaaccgtccccactcgcctggggagacat
gagaccacccccgtggggattattagtccgcagtaatcgactcttgacaatccttttcga
ttatgtcatagcaatttacgacagttcagcgaagtgactactcggcgaaatggtattact
aaagcattcgaacccacatgaatgtgattcttggcaatttctaatccactaaagcttttc
cgttgaatctggttgtagatatttatataagttcactaattaagatcacggtagtatatt
gatagtgatgtctttgcaagaggttggccgaggaatttacggattctctattgatacaat
ttgtctggcttataactcttaaggctgaaccaggcgtttttagacgacttgatcagctgt
tagaatggtttggactccctctttcatgtcagtaacatttcagccgttattgttacgata
tgcttgaacaatattgatctaccacacacccatagtatattttataggtcatgctgttac
ctacgagcatggtattccacttcccattcaatgagtattcaacatcactagcctcagaga
tgatgacccacctctaataacgtcacgttgcggccatgtgaaacctgaacttgagtagac
gatatcaagcgctttaaattgcatataacatttgagggtaaagctaagcggatgctttat
ataatcaatactcaataataagatttgattgcattttagagttatgacacgacatagttc
actaacgagttactattcccagatctagactgaagtactgatcgagacgatccttacgtc
gatgatcgttagttatcgacttaggtcgggtctctagcggtattggtacttaaccggaca
ctatactaataacccatgatcaaagcataacagaatacagacgataatttcgccaacata
tatgtacagaccccaagcatgagaagctcattgaaagctatcattgaagtcccgctcaca
atgtgtcttttccagacggtttaactggttcccgggagtcctggagtttcgacttacata
aatggaaacaatgtattttgctaatttatctatagcgtcatttggaccaatacagaatat
tatgttgcctagtaatccactataacccgcaagtgctgatagaaaatttttagacgattt
ataaatgccccaagtatccctcccgtgaatcctccgttatactaattagtattcgttcat
acgtataccgcgcatatatgaacatttggcgataaggcgcgtgaattgttacgtgacaga
gatagcagtttcttgtgatatggttaacagacgtacatgaagggaaactttatatctata
gtgatgcttccgtagaaataccgccactggtctgccaatgatgaagtatgtagctttagg
tttgtactatgaggctttcgtttgtttgcagagtataacagttgcgagtgaaaaaccgac
gaatttatactaatacgctttcactattggctacaaaatagggaagagtttcaatcatga
gagggagtatatggatgctttgtagctaaaggtagaacgtatgtatatgctgccgttcat
tcttgaaagatacataagcgataagttacgacaattataagcaacatccctaccttcgta
acgatttcactgttactgcgcttgaaatacactatggggctattggcggagagaagcaga
tcgcgccgagcatatacgagacctataatgttgatgatagagaaggcgtctgaattgata
catcgaagtacactttctttcgtagtatctctcgtcctctttctatctccggacacaaga
attaagttatatatatagagtcttaccaatcatgttgaatcctgattctcagagttcttt
ggcgggccttgtgatgactgagaaacaatgcaatattgctccaaatttcctaagcaaatt
ctcggttatgttatgttatcagcaaagcgttacgttatgttatttaaatctggaatgacg
gagcgaagttcttatgtcggtgtgggaataattcttttgaagacagcactccttaaataa
tatcgctccgtgtttgtatttatcgaatgggtctgtaaccttgcacaagcaaatcggtgg
tgtatatatcggataacaattaatacgatgttcatagtgacagtatactgatcgagtcct
ctaaagtcaattacctcacttaacaatctcattgatgttgtgtcattcccggtatcgccc
gtagtatgtgctctgattgaccgagtgtgaaccaaggaacatctactaatgcctttgtta
ggtaagatctctctgaattccttcgtgccaacttaaaacattatcaaaatttcttctact
tggattaactacttttacgagcatggcaaattcccctgtggaagacggttcattattatc
ggaaaccttatagaaattgcgtgttgactgaaattagatttttattgtaagagttgcatc
tttgcgattcctctggtctagcttccaatgaacagtcctcccttctattcgacatcgggt
ccttcgtacatgtctttgcgatgtaataattaggttcggagtgtggccttaatgggtgca
actaggaatacaacgcaaatttgctgacatgatagcaaatcggtatgccggcaccaaaac
gtgctccttgcttagcttgtgaatgagactcagtagttaaataaatccatatctgcaatc
gattccacaggtattgtccactatctttgaactactctaagagatacaagcttagctgag
accgaggtgtatatgactacgctgatatctgtaaggtaccaatgcaggcaaagtatgcga
gaagctaataccggctgtttccagctttataagattaaaatttggctgtcctggcggcct
cagaattgttctatcgtaatcagttggttcattaattagctaagtacgaggtacaactta
tctgtcccagaacagctccacaagtttttttacagccgaaacccctgtgtgaatcttaat
atccaagcgcgttatctgattagagtttacaactcagtattttatcagtacgttttgttt
ccaacattacccggtatgacaaaatgacgccacgtgtcgaataatggtctgaccaatgta
ggaagtgaaaagataaatat