Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	USA300TCH1516_ALE	110,660	T→A	13.0%	I173I (ATT→ATA)	USA300HOU_RS00515 →	putative lipoprotein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	USA300TCH1516_ALE	110,660	0	T	A	13.0%	172.1 / 17.5	68	I173I (ATT→ATA)	USA300HOU_RS00515	putative lipoprotein
Reads supporting (aligned to +/- strand):  ref base T (21/38);  new base A (3/6);  total (24/44)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.80e-01

CGGTTAAAATGGTCGATAATAAAATCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGTTCAGG  >  USA300TCH1516_ALE/110521‑110794                                                                                                                                            |                                                                                                                                       cGGTTAAAATGGTCGATAATCAAATCAATCCAAAAAAAGAAATTAAAGATGAAACACTAAAAGCACAGATCGAAAACGTTAAGTTCTTTGTTCAATATGGCCGCTTTAAAAATTTGAAAGATTATAAAGAAGCAGATAttt                                                                                                                                       >  2:296554/1‑141 (MQ=17)     tAAAATGGTCGATAATAAAATCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCata                                                                                                                                   <  1:42729/141‑1 (MQ=255)       aaaTGGTCGATAATAAAATCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTAGAAATATTATAAAGACGGAGATATTTCAtata                                                                                                                                 >  2:20880/1‑141 (MQ=255)         aTGGTCGATAATAAAATCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAACACGGAGATATTTCATATAAt                                                                                                                               >  1:161017/1‑141 (MQ=255)             tCGATAATAAAAAAAATCCAACAAAAAAAATTAAAAATAAAAAAAT‑AAAAAAGAAACCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCaga                                                                                                                          <  2:700231/141‑1 (MQ=17)                ataataAAATCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAgg                                                                                                                        >  2:717801/1‑141 (MQ=255)                ataataAAATCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAgg                                                                                                                        <  1:225858/141‑1 (MQ=255)                    taaAATCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGcc                                                                                                                    >  1:418603/1‑141 (MQ=255)                     aaaaTCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAATAGAAATGGAAAACTTTAAGTTATTTGTTCAATATGGCGACTTTAAAAATTTGAAACATTTTTAAAACGTTGATAATTTATATAATTAATAGGTGTCg                                                                                                                   >  2:63356/1‑141 (MQ=17)                      aaaTCATTCCAACAAAAGGAATTAAAGAAGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGa                                                                                                                  <  1:363510/141‑1 (MQ=255)                      aaaTCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGa                                                                                                                  <  1:767929/141‑1 (MQ=255)                           ataccAACAAAAGAAATTAAAGATGAAAAAAAAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTAt                                                                                                             <  2:171804/138‑1 (MQ=255)                           aTTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGTGATATTTCATATAATCCAGAGGTGCCGAGTTAt                                                                                                             >  1:536991/1‑141 (MQ=255)                           aTTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTAt                                                                                                             <  2:373302/141‑1 (MQ=255)                           aTTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTAt                                                                                                             <  2:103284/141‑1 (MQ=255)                             tCCAACAAAAGAAATTAAAGATGCAAAAATAACAAAAGAAATCGAAAACTTTAAGTTCTTTGGTAAATATCGCGACTCTAAAAATCTGAAAAATTATAAAGACGGAGATATTTCATATAATCCCGAGGTGCAGAGAGATTc                                                                                                           >  2:200419/1‑141 (MQ=17)                             tCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTGCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGAAGATATTTCATATAATCAAGAGGTGCAGAGCTATTc                                                                                                           >  2:384269/1‑141 (MQ=17)                                  caaAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTa                                                                                                      >  1:153345/1‑141 (MQ=255)                                   aaaaaaaaATAAAGAATAAAAAAAAAAAAAAGCAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTaa                                                                                                     <  2:700774/141‑1 (MQ=17)                                   aaaaTAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTaa                                                                                                     <  2:388715/141‑1 (MQ=255)                                         aatgacaGATGAAATAATTAAATATAGAGTCGAAAACTTTAAGTACTATAAGCAAGATGGCGACGTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCCAGTTATTCGGCTGAATATCa                                                                                               <  1:494092/135‑1 (MQ=12)                                              aaGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTaa                                                                                          <  2:189977/141‑1 (MQ=255)                                                tcgcaaaaaataaaaaatGAAATCAAACACTTTAAGTTCTTTGTTCACTTTGGTGACTTTAAAAACTGGAAAAATTACAAAGAAGGAGATATTTCATATAAGCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAAcc                                                                                        <  1:209630/137‑2 (MQ=14)                                                gATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACt                                                                                        <  1:759418/141‑1 (MQ=255)                                                gATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACt                                                                                        <  1:180597/141‑1 (MQ=255)                                                 aTGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTa                                                                                       <  2:370991/141‑1 (MQ=255)                                                 aTGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTa                                                                                       <  1:240465/141‑1 (MQ=255)                                                  tGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGTATTTTAATTCGGCTAAATATCAATTAACTaa                                                                                      <  1:781492/141‑1 (MQ=18)                                                      aaaaTAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAatgat                                                                                  >  1:424713/1‑141 (MQ=255)                                                        aaTAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTAGTCGCGAATATTTCAATTAACTAAtgatga                                                                                <  2:364334/141‑1 (MQ=17)                                                            aaaaaaGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATtat                                                                            <  1:114454/141‑1 (MQ=255)                                                             aaaaaGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGAGtata                                                                           <  2:547452/141‑1 (MQ=255)                                                                   aaaTCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCATATGTGCCGTGTTGTTCGGCTAAATATCAATTAACTAATGATGATTATAATGTaa                                                                     <  2:48024/141‑1 (MQ=255)                                                                   aaaTCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTaa                                                                     <  2:124257/141‑1 (MQ=255)                                                                            aCTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAAAAAttcc                                                            >  2:254266/1‑139 (MQ=255)                                                                             ctctAAGTTCTTTGGTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACg                                                           <  1:772953/138‑1 (MQ=255)                                                                              tttAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGc                                                          <  1:646219/141‑1 (MQ=255)                                                                                tAAGTTCCTTGTTCAATATCGCCACTTTAAAAATTTGAAAAATTAGAAAGACGGACATACTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATCAACTAATGATGATTATAATGTAACACAATTACGCaa                                                        <  2:295029/141‑1 (MQ=17)                                                                                      cTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAgata                                                  >  1:633971/1‑141 (MQ=255)                                                                                         tcttCAAGATGGCGACGTTAAAAATTTGAAAAATTAGAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAgatatga                                               <  1:348745/139‑1 (MQ=255)                                                                                         tGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAgatatga                                               <  1:248404/141‑1 (MQ=255)                                                                                             cAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATAACAATTAACTAATGATGATTATAATGTCAACCAATTACGACAAAGATATTGtata                                           >  1:653010/1‑141 (MQ=17)                                                                                                 atGGCGACTTTAAAAATTTGGAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACcga                                       <  2:290749/141‑1 (MQ=255)                                                                                                   tgCGACTTTAAAAAGTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGGGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATTATTATAATGTAAAACAATTACGCAAAAGATATGATATACcgacg                                     <  2:72685/140‑1 (MQ=255)                                                                                                   ggCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACcgacg                                     >  2:431046/1‑141 (MQ=255)                                                                                                        ttttAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAACCAATTACGCAAAAGATATGATATACCGACGAGTaa                                <  2:71894/140‑1 (MQ=11)                                                                                                          ttAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGCTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAg                              <  2:520694/141‑1 (MQ=255)                                                                                                           tAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAga                             >  1:632078/1‑140 (MQ=255)                                                                                                             aaaaTTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTc                           >  2:3169/1‑141 (MQ=255)                                                                                                             aaaaTTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAACTc                           >  2:613824/1‑141 (MQ=255)                                                                                                                aTTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCaa                        <  1:708963/141‑1 (MQ=255)                                                                                                                  ttaatgaaTTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGCCGAGTAAAGCTCCAAAg                      >  1:698602/7‑141 (MQ=14)                                                                                                                    gAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGtt                    >  1:55546/1‑141 (MQ=255)                                                                                                                      aaaaTTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTAt                  <  1:434420/141‑1 (MQ=255)                                                                                                                       aaaTTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTAtt                 >  1:594725/1‑141 (MQ=255)                                                                                                                          ttATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGtt              <  1:714464/141‑1 (MQ=255)                                                                                                                          ttATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGtt              >  1:101860/1‑141 (MQ=255)                                                                                                                            ataAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTaa            <  1:310939/141‑1 (MQ=255)                                                                                                                             taAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTaaa           <  2:749630/141‑1 (MQ=255)                                                                                                                             aaaaGAGGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTaaa           <  1:244480/140‑1 (MQ=255)                                                                                                                              aaaGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTAGTGTTaaaa          >  2:213675/1‑141 (MQ=255)                                                                                                                              aaaGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTaaaa          >  2:776121/1‑141 (MQ=255)                                                                                                                               aaGACGGGGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAg         <  2:418603/141‑1 (MQ=255)                                                                                                                                agttggAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAgg        <  1:27572/137‑1 (MQ=255)                                                                                                                                 gACGGAGATATTTCATATANTCCAGAGGTGCCGTGTTATTCGGCTAAATNTCAAGTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGt       <  1:654264/141‑1 (MQ=255)                                                                                                                                 gACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGt       <  1:662191/141‑1 (MQ=255)                                                                                                                                    ggAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGTTcg    >  1:417910/1‑140 (MQ=255)                                                                                                                                      agaTATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCGAAAGATATGATATACCGACGAGTAAAGCTCAAAAGTTATTGTTAAAAGGTTCAgg  <  1:503454/141‑1 (MQ=255)                                                                                                                                      agaTATATCAAATAATCCAGAGGGGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGTTCAgg  <  2:136200/141‑1 (MQ=255)                                                                                                                                            |                                                                                                                                       CGGTTAAAATGGTCGATAATAAAATCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGTTCAGG  >  USA300TCH1516_ALE/110521‑110794

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑