Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC	CP000730	1,909,272	Δ48 bp	coding (79‑126/303 nt)	USA300HOU_1771 →	hypothetical membrane protein

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 1909271	8 (0.230)	35 (1.020)	30/276	0.3	84.3%	coding (78/303 nt)	USA300HOU_1771	hypothetical membrane protein
	?	CP000730	1909320 =	5 (0.150)					coding (127/303 nt)	USA300HOU_1771	hypothetical membrane protein

TGATTGTTTATGATACGATATGTAAATGATAATCATCCAGGAGGTCTAGCATGTCTCGTTCAAAAAAATACTTTTACTTATCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP000730/1909144‑1909271 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑AGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACA  >  CP000730/1909320‑1909459                                                                                                                                                                                                                                                                              TGATTGTTTATGATACGATATGTAAATGATAATCATCCAGGAGGTCTAGCATGTCTCGTTCAAAAAAATACTTTTACTTATCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACT                                                                                                                                 <  1:6065/141‑1    TTGTTTATGATACGATATGTAAATGATAATCATCCAGGAGGTCTAGCATGTCTCGTTCAAAAAAATACTTTTACTTATCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGCGTTATTAACTCAA                                                                                                                              >  2:140664/1‑141     TGTTTATGATACGATATGTAAATGATAATCATCCAGGAGGTCTAGCATGTCTCGTTCAAAAAAATACTTTTACTTATCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAAT                                                                                                                             >  2:177783/1‑141     TGTTTATGATACGATATGTAAATGATAATCATCCAGGAGGTCTAGCATGTCTCGTTCAAAAAAATACTTTTACTTATCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAAT                                                                                                                             >  1:230478/1‑141     TGTTTATGATACGATATGTAAATGATAATCATCCAGGAGGTCTAGCATGTCTCGTTCAAAAAAATACTTTTACTTATCTAGCTTAATGATTATTTTAAGCTTTATCTTTAATACAAATAACGTTAGTGTTATTAACTCAAT                                                                                                                             >  1:126651/1‑141         TATGATACGATATGTAAATGATAATCATCCAGGAGGTCTAGCATGTCTCGTTCAAAAAAATACTTTTACTTATCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAATTGTA                                                                                                                         >  2:273557/1‑141          ATGATACGATATGTAAATGATAATCATCCAGGAGGTCTAGCATGTCTCGTTCAAAAAAATACTTTTACTTATCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAATTGTAC                                                                                                                        <  2:59248/141‑1                     TGTAAATGATAATCATCCAGAGCGTCTATCATGTCTCGTTCAAAAAAATACTTTTACTTATCTAGATTCATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCT                                                                                                             <  2:287181/141‑1                          ATGATAATCATCCAGGAGGTCTAGCATGTCTCGTTCAAAAAAATACTTTTACTTATCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAAT                                                                                                        >  2:124342/1‑141                               AATCATCCAGGAGGTCTAGCATGTCTCGTTCAAAAAAATACTTTTACTTATCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTG                                                                                                   >  1:39942/1‑141                                      CAGGAGGTCTAGCATGTCTCGTTCAAAAAAATACTTTTACTTATCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAcgagc                                                                                            >  2:312252/1‑136                                            GTCTAGCATGTCTCGTTCAAAAAAATACTTTTACTTATCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAAT                                                                                      <  2:252138/141‑1                                             TCTAGCATGTCTCGTTCAAAAAAATACTTTTACTTATCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATT                                                                                     >  2:111221/1‑141                                               TAGCATGTCTCGTTCAAAAAAATACTTTTACTTATCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATTAA                                                                                   <  1:19508/141‑1                                                  aATGTCTCGTTCAAAAAAATACTTTTACTTATCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAATTGTACTCATTTTGTCTATAATTTTTGCAGATCGTTCAATTAAATC                                                                                <  2:127016/140‑1                                                                AAAAATACTTTTACTTATCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATG                                                                  >  1:248912/1‑141                                                                   AATACTTTTACTTATCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAG                                                               >  1:179826/1‑141                                                                       CTTTTACTTATCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTG                                                           >  1:318566/1‑141                                                                         TTTACTTATCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTTTTTTTTTTTCAATTAAATCACTAAAGCCTGATGCAGATTGGt                                                         >  2:206682/1‑140                                                                            ACTTATCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTA                                                      <  2:2080/141‑1                                                                                 TCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATT                                                 >  1:154523/1‑141                                                                                 TCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATT                                                 >  1:191703/1‑141                                                                                      CTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAG                                            >  1:163244/1‑141                                                                                          ATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTTTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAA                                        <  2:337048/141‑1                                                                                            GATTATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAG                                      <  1:209189/141‑1                                                                                                ATTTTAAGCTTTTTCTTTAATACAAATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTG                                  <  1:151200/141‑1                                                                                                              ttttttttttttTAACGTTAGTGTTATTAACTCAATTTTACTTTTTTTGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTATAGTTTTATTCAGATTTGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCT                    >  2:158648/13‑141                                                                                                                TTAATACAACTGACGTTAGTGTTATTAACTCAATTGTACTCATTTTGTATATAATTTTTGCCGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGACTTGCGAGTAAAAGTTTGCCTTGGATTATTCTAA                  <  2:78060/141‑1                                                                                                                TTAATACAAATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAA                  <  1:15759/141‑1                                                                                                                 TAATACAAATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAAT                 >  1:231717/1‑141                                                                                                                      CAAATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTA            <  2:230689/141‑1                                                                                                                        AATAACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATT          >  2:154520/1‑141                                                                                                                            ACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATTAAAT                                                                                 >  2:175606/1‑66                                                                                                                            ACGTTAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATTAAAT                                                                                 <  1:175606/66‑1                                                                                                                                TAGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACA  >  1:286403/1‑141                                                                                                                                                                                                                                                                              TGATTGTTTATGATACGATATGTAAATGATAATCATCCAGGAGGTCTAGCATGTCTCGTTCAAAAAAATACTTTTACTTATCTAGCTTAATGATTATTTTAAGCTTTTTCTTTAATACAAATAACGTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP000730/1909144‑1909271 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑AGTGTTATTAACTCAATTGTACTAATTTTGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACA  >  CP000730/1909320‑1909459

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.