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adamvoss/Fitting-Alignment-Problem-Datasets-And-Output.md

Last active February 12, 2017 01:58
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Sample Data and Extra Dataset solutions for exercise "1.3 The Changing Faces of Sequence Alignment" for Stepik Course "How Do We Compare Biological Sequences?" Week 2 (https://stepik.org/lesson/The-Changing-Faces-of-Sequence-Alignment-248/step/5?course=Stepic-Interactive-Text-for-Week-2&unit=8279)
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Fitting-Alignment-Problem-Datasets-And-Output.md

Sample Data

Sample Input:

GTAGGCTTAAGGTTA
TAGATA

Sample Output with Prescedence: [↘, →, ↓] or [↘, ↓, →]

2
TAGGCTTA
TAGA-T-A

Sample Output with Prescedence: [↓, →, ↘] or [→, ↓, ↘]

2
TAGGCTTA
TA-G-ATA

Extra Dataset

Input:

CAATCACCCCAATCCCTCAATCCTGGCCCCACGCATAGGCTAATGCCAATCGCGGCCAGGGTATAACCGCCATAACTGTGGGTCAGAAGGGATAAGTTCCACAATCCTATTTTCCTCGAGGCGCTTCGATGCGTTAACGCGTACACTCTGTCGGCCAACCGTGTGGGAGCCGAATTGGCTGGGCTGTTGAACATTCTATCAGTAGATAAACGAAGGTACATCCGAGGTTGTCGATCGACCGCGGGGTCGTAGCGCGTGCATGTTCCTTTCAGGCCCACATACTCCGGAACGGTTCATATCACGACTATTCTTGCACAATCGGACAACGGTGTACCATGGTGGACACCGTAGGAGACCAATACTGCGTAAATCATAAGCATTGGAGAGTGGACTGCTAGCGAGGCTCACCATGGAGTCTCGGTCGGCATCTCCTGACTGCTGTTCCATCGCGTTTTTCTTTTACTCACGCAATAAATCAATACCCCCTAACACAGGCCTGCTCCAGCCTTATTAAGGCCATAGTAGCTCTACATGTAGACCGAACGGAAGCACAGTTTGGTAGAAATTCTTAATCGACTATGGTCCGTGCAGGCCAAAAAAGGAATAATCTTCGAATTCTCACGCCTTCATTAGGGCGCACATGGTGGGGTAAATCACTGCACTCTGTTCGCAGTTAAGCGTTGCAATCAATATCGGCAGAACTCGGAGTCCGTATAAAGCCGCCTCAGCGTGCACACGCCCGTGCGGCACGTCATTAGACGAGGATTCCGGGGGACTGGCCTGTTCGTAATCCACTAAAACAATGGTCCTACCATCTAAAACGCACCGTGTTCCCCTCTACGGGAACCCCCTAGAT

AGAGCGCAGAGAAGTCATTAGAACATGTAGCACATCGCTTATTAAGGGTCAATACCTAAAGGGCCTAACTATACGCCACACGGAACAGCTC

Output with Prescedence: [↓, →, ↘] or [→, ↓, ↘]

22

AGGGCGCACATG--GTGGGGTA-AATCAC-T-GCAC-TCTG-TTCGCAGTTAAGCGTTGCAATCAATATCGGC-AGAACTCGGAGTCCGTA--TAAAGCCGCCTCAGCGTGCACACGC-C

AGAGCGCAGA-GAAGTCAT-TAGAA-CATGTAGCACATC-GCTT---A-TTAAG-G--G---TCAATA-C--CTA-AA---GG-G-CC-TAACTATA-C-GCCACA-CG-GAACA-GCTC

Sample Output with Prescedence: [↓, →, ↘] or [→, ↓, ↘]

22

AGGGCGCACATG--GTGGGGTA-AATCA-CT-GCAC-TCTG-TTCGCAGTTAAGCGTTGCAATCAATATCGGC-AGAACTCGGAGTCCGT-A-TAAAGCCGCCTCAGCGTGCACACGC-C

AGAGCGCAGA-GAAGT-CATTAGAA-CATGTAGCACATC-GCTT---A-TTAAG-G--G---TCAATA-C--CTA-AA---GG-G-CC-TAACTATA--CGCCACA-CG-GAACA-GCTC

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