Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A23 F18 I0 R1	31	91.8	2059714	95.2%	1960847	141.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	USA300TCH1516_ALE	2,010,363	C→T	100%	C146Y (TGT→TAT)	USA300HOU_RS10125 ←	Putative multidrug export ATP‑binding/permease protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	2,010,363	0	C	T	100.0%	253.2 / ‑6.5	78	C146Y (TGT→TAT)	USA300HOU_RS10125	Putative multidrug export ATP‑binding/permease protein
Reads supporting (aligned to +/- strand): ref base C (0/0); major base T (27/49); minor base G (0/2); total (27/51)
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TTTCACGTGTCAATTTTCTTAATCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATACAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACTTAAAGCTTGTAAATGGTTGTA  >  USA300TCH1516_ALE/2010226‑2010499

tttCACGTGTCAATTTTCTTAATCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAAt                                                                                                                                        <  1:241602/141‑1 (MQ=255)

tttCACGTGTCAATTTTCTTAATCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAAt                                                                                                                                        <  1:93216/141‑1 (MQ=255)

tttCACGTGTCAATTTTCTTAATCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATATAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATaaa                                                                                                                                        >  2:790768/1‑140 (MQ=255)

 ttCACGTGTCAATTTTCTTAATCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATc                                                                                                                                       >  2:39200/1‑141 (MQ=255)

   cACGTGTCAATTTTCTTAATCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTa                                                                                                                                     <  1:566009/141‑1 (MQ=255)

       tttCAATTTTCATAATCTTCCAAAGAAAACGTACACCGTTAAAAGGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCa                                                                                                                                 <  2:580672/139‑1 (MQ=255)

        atCAATTTAATTAATCATCCAAAGAAAACGTACACCCTTAAAATGTAAAATGGGAAGAGAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCaa                                                                                                                                <  2:976472/140‑1 (MQ=255)

                    aaTCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAAc                                                                                                                    >  2:759072/1‑141 (MQ=255)

                     aTCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAAcc                                                                                                                   <  2:697677/141‑1 (MQ=255)

                     aTCTGCCAAAGAAAACGTACACCGGTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATAGAATCTAACCAAATATTCATTAAcc                                                                                                                   <  2:472053/141‑1 (MQ=255)

                        ttacAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCTGCTATGCATTAACCCgg                                                                                                                <  2:901110/138‑1 (MQ=255)

                          ccAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGtt                                                                                                              <  1:397984/141‑1 (MQ=255)

                          ccAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGtt                                                                                                              <  2:205616/141‑1 (MQ=255)

                          ccAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGtt                                                                                                              <  1:780869/141‑1 (MQ=255)

                            aaaGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTaa                                                                                                            <  1:657158/141‑1 (MQ=255)

                               gAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAAt                                                                                                         <  2:183666/141‑1 (MQ=255)

                               gAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAAt                                                                                                         >  2:509861/1‑141 (MQ=255)

                                  aaCGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGaa                                                                                                      <  1:220280/141‑1 (MQ=255)

                                   aCGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGaaa                                                                                                     <  1:458828/141‑1 (MQ=255)

                                    cGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAACAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAAt                                                                                                    <  1:861879/141‑1 (MQ=255)

                                    cGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAAt                                                                                                    <  2:85945/141‑1 (MQ=255)

                                    aatACACCGTTAAAATGTATAATGAGAAGATAAAAAGTTCTGCTAAAGTCAATTTCACATTTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTCACCAAATATTCATTAATCCGGTTATAATGAAAt                                                                                                    <  2:182837/139‑1 (MQ=255)

                                     gTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATc                                                                                                   >  1:555088/1‑141 (MQ=255)

                                     gTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATc                                                                                                   >  1:63582/1‑141 (MQ=255)

                                     gTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATc                                                                                                   >  1:453753/1‑141 (MQ=255)

                                     gTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGAAATAATAATTGTTATATAATCTAACAAAATATTCATTAACCAGAATAAAATGAAATc                                                                                                   >  2:291557/1‑141 (MQ=255)

                                     gTACACCGTTAAAAGGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATc                                                                                                   <  2:936415/141‑1 (MQ=255)

                                       acacCGTTAAAATGTAGAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCtt                                                                                                 <  1:1012791/141‑1 (MQ=255)

                                       acacCGTTAAAATGTAAAATGCGAAGATAAACAGTGCTGCTAAAGTCAATTCCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCtt                                                                                                 <  1:313212/141‑1 (MQ=255)

                                               aaaatgtaaaatgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTttgtttgt                                                                                         <  1:467526/141‑1 (MQ=255)

                                               aaaatgtaaaatgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATATTttgtttgt                                                                                         >  1:399899/1‑141 (MQ=255)

                                                aaatgtaaaatgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAGCCCGGTTAAAATGAAATCTTTtgtttgtt                                                                                        >  1:906939/1‑141 (MQ=255)

                                                   tgtaaaatgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCaa                                                                                     <  1:759072/141‑1 (MQ=255)

                                                    gtaaaatgGGAAGGTAAACAGTGCTGTTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTATCCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAAc                                                                                    <  2:799656/141‑1 (MQ=255)

                                                    gtaaaatgGGAAAATAAACAGTGCTTCGAAAGTCAATTTCACATCGAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAAc                                                                                    <  2:1026255/141‑1 (MQ=255)

                                                       aaatgGGAAGATAAACAGTGCTGCTAAAGTCAATTTGACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAAcatc                                                                                 <  2:770574/141‑1 (MQ=255)

                                                       aaatgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAAcatc                                                                                 <  2:447183/141‑1 (MQ=255)

                                                         atgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAAcatcat                                                                               <  2:583145/141‑1 (MQ=255)

                                                         atgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAAcatcat                                                                               >  2:756849/1‑141 (MQ=255)

                                                         atgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAAcatcat                                                                               <  2:84102/141‑1 (MQ=255)

                                                         atgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAAcatcat                                                                               >  1:828381/1‑141 (MQ=255)

                                                         atcggAACATAAACATTGCTGCTAAAGTAAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAGCCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAAcatcat                                                                               <  2:683783/138‑1 (MQ=255)

                                                          tgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAATATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCAtt                                                                              <  2:449832/141‑1 (MQ=255)

                                                             gAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAAt                                                                           <  2:240906/141‑1 (MQ=255)

                                                                     aCAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAg                                                                  <  1:36799/141‑1 (MQ=255)

                                                                            tgctAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTAc                                                           >  1:431419/1‑141 (MQ=255)

                                                                            tgctAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTAc                                                           >  1:709401/1‑141 (MQ=255)

                                                                                     cAATTTCACATCTAAAAAGAACATTATGGATAGTCCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAAAATCATTAAGCA‑CTCTAGATATTACTTGACCTAc                                                  <  2:783539/141‑1 (MQ=255)

                                                                                      aacaaaacaTCACAAAAGAAAATAATGGAAAGGGCAATAATAATTATTATATAAGCTAACCAAATATTCATAAAACCGGTTAAAATAAAATCTTTTGTGTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACt                                                 <  2:374117/135‑1 (MQ=255)

                                                                                      aaTTTCTCATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACt                                                 <  2:864824/141‑1 (MQ=255)

                                                                                      aaTTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATACATTAGCCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACt                                                 <  2:906939/141‑1 (MQ=255)

                                                                                       aTTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACtt                                                >  1:1009083/1‑141 (MQ=255)

                                                                                       aTTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACtt                                                >  2:868053/1‑141 (MQ=255)

                                                                                        tttCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTg                                               <  2:805634/141‑1 (MQ=255)

                                                                                            acaTCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGatta                                           >  1:381913/1‑141 (MQ=255)

                                                                                             caTCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑GTCTAGATATTACTTGACCTACTTGattat                                          >  2:862258/1‑141 (MQ=255)

                                                                                             caTCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGattat                                          >  2:645933/1‑141 (MQ=255)

                                                                                               tCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAAATATTACTTGACCTACTTGAttatta                                        >  2:344889/1‑141 (MQ=255)

                                                                                                 tAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTTTCCATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGATTATTAGc                                      >  2:729720/1‑141 (MQ=255)

                                                                                                 tAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGATTATTAGc                                      >  1:606003/1‑141 (MQ=255)

                                                                                                   aaaaGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGATTATTAGCAt                                    <  1:371783/141‑1 (MQ=255)

                                                                                                   aaaaGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGATTATTAGCAt                                    <  2:797507/141‑1 (MQ=255)

                                                                                                   aaaaGAACAGTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGATTATTAGCAt                                    <  2:282415/141‑1 (MQ=255)

                                                                                                      aGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACAAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGATTTACTTGATTATTAGCCTaaa                                 >  2:441347/1‑141 (MQ=255)

                                                                                                           aTTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATATTTTGTTTATTCAA‑ATAATTCAACATCCTTAGATCTTCTTTGACCTACTTGATTATTAGCATAAAAtttc                            >  2:995992/1‑141 (MQ=255)

                                                                                                             aaTGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGc                          <  2:149981/140‑1 (MQ=255)

                                                                                                                 gATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACtt                      >  2:816515/1‑141 (MQ=255)

                                                                                                                       gCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTACTCA‑CCCTAGATATTACTTAACCTACTTGATTATTAGCATAAAATCTCGCACTTAAAGCt                >  2:887157/1‑141 (MQ=255)

                                                                                                                       gCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACTTAAAGCt                <  1:901576/141‑1 (MQ=255)

                                                                                                                       gCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACTTAAAGCt                <  2:137924/141‑1 (MQ=255)

                                                                                                                       gCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACTTAAAGCt                <  1:216370/141‑1 (MQ=255)

                                                                                                                       ccAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCTGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGATTAGTATCATAAAATCTCGCACTTAAAGCt                <  2:968854/140‑1 (MQ=255)

                                                                                                                         aataataatTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACTTAAAGCTTg              <  2:1028603/141‑1 (MQ=255)

                                                                                                                         aataataatTGTTATAGAATCTAACCAAATATTCAGTAACCCGGTTAAAATGACATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACTTAAAGCTTg              <  2:116505/141‑1 (MQ=255)

                                                                                                                          ataataatTGTTATATAATCTAACCAAATATTCATTAATCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATGTTTCTTGAACTACTATCTTATTAGCATAAAATGTCGCACTTAAACCTTGt             >  2:995022/1‑141 (MQ=255)

                                                                                                                          ataataatTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACTTAAAGCTTGt             <  2:872856/141‑1 (MQ=255)

                                                                                                                          ataataatTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACTTAAAGCTTGt             <  2:381913/141‑1 (MQ=255)

                                                                                                                               aatTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACTTAAAGCTTGTAAATg        <  1:729720/141‑1 (MQ=255)

                                                                                                                                     tatataATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGTTTATTAGCATAAAATCTCGCCCTTAAAGATTGTAAATGGCTGta  >  1:934753/1‑141 (MQ=255)

                                                                                                                                     tatataATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACTTAAAGCTTGTACATGGTTGta  >  1:404263/1‑141 (MQ=255)

                                                                                                                                     tatataATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGACTTTAAATCTAGTAAATGGTTGta  >  1:910030/1‑141 (MQ=255)

TTTCACGTGTCAATTTTCTTAATCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATACAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCA‑CTCTAGATATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACTTAAAGCTTGTAAATGGTTGTA  >  USA300TCH1516_ALE/2010226‑2010499

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A