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
A10 F210 I0 R1 188 159.1 7866933 93.3% 7339848 99.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 4,520,500 Δ1 bp 16.6% intergenic (‑176/+171) yjhU ← / ← yjhF putative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,520,5000A.16.6% 501.2 / 100.0 181intergenic (‑176/+171)yjhU/yjhFputative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter
Reads supporting (aligned to +/- strand):  ref base A (79/71);  new base . (20/10);  total (99/82)
Fisher's exact test for biased strand distribution p-value = 2.27e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.11e-02

Only 100 of 186 total aligned reads displayed.

GGCATGATTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTCGTCACCGTG  >  NC_000913/4520402‑4520598
                                                                                                  |                                                                                                   
ggCATGATTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGAc                                                                                                    >  2:633002/1‑100 (MQ=255)
 gCATGATTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATTCCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACa                                                                                                   <  1:2368039/100‑1 (MQ=255)
 gCATGATTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGAc                                                                                                    <  2:893203/99‑1 (MQ=255)
 gCATGATTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACa                                                                                                   >  2:142074/1‑100 (MQ=255)
  cATGATTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACAt                                                                                                  >  1:3747303/1‑100 (MQ=255)
  cATGATTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACAt                                                                                                  >  1:3804160/1‑100 (MQ=255)
  cATGATTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACAt                                                                                                  >  1:2923511/1‑100 (MQ=255)
   aTGATTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATg                                                                                                 <  2:3635218/100‑1 (MQ=255)
   aTGATTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGATGTTCCCCCATACTGTAAAGCCGGAGACATg                                                                                                 >  2:2685340/1‑100 (MQ=255)
    tGATTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑c                                                                                               <  2:3538008/100‑1 (MQ=255)
      aTTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAACGATAAACCGCTATTCACCCATACTGTAAAGCCGGAGACATg                                                                                                 >  1:39578/1‑97 (MQ=255)
       ttttATTCAGATATTTTATTCTTTTACATGAAATAAACCATCATACCATTTGAGCGATTTCCCGCTGTTCCCCCATATTGTAAAGCCGGAGACATG‑CTcc                                                                                            <  2:795530/100‑1 (MQ=255)
          tataCAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTTTTCCCCCATACTTTAAAGCCGGAGACATG‑CTCCGGc                                                                                         <  2:1274756/100‑1 (MQ=255)
           ataCAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAG‑CATGTCTCCGGCt                                                                                        <  2:3233436/100‑1 (MQ=38)
           ataCAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAG‑CATGTCTCCGGCt                                                                                        <  1:1597398/100‑1 (MQ=38)
            taCAGATATTTTATTCTTTTACATGAGATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCtt                                                                                       <  2:2207744/100‑1 (MQ=255)
            taCAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCtt                                                                                       <  1:187686/100‑1 (MQ=255)
            taCAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCtt                                                                                       <  1:1445587/100‑1 (MQ=255)
            taCAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAG‑CATGTCTCCGGCtt                                                                                       <  1:1590187/100‑1 (MQ=38)
            taCAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAG‑CATGTCTCCGGCtt                                                                                       <  1:2487612/100‑1 (MQ=38)
            taCAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAG‑CATGTCTCCGGCt                                                                                        <  1:1719914/99‑1 (MQ=38)
             aCAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCTATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCtt                                                                                       <  2:689323/99‑1 (MQ=255)
             aCAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCttt                                                                                      <  2:3677014/100‑1 (MQ=255)
             aCAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAG‑CATGTCTCCGGCttt                                                                                      <  1:2624208/100‑1 (MQ=38)
              cAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTa                                                                                     >  1:2194938/1‑100 (MQ=255)
               aGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTAc                                                                                    <  1:633009/100‑1 (MQ=255)
               aGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTAc                                                                                    <  2:1114481/100‑1 (MQ=255)
               aGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTAc                                                                                    >  2:25537/1‑100 (MQ=255)
               aGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTAc                                                                                    <  2:3150439/100‑1 (MQ=255)
               aGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCAATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTAc                                                                                    >  2:1731291/1‑100 (MQ=255)
               aGATATTTTATTCTTTTACATGAAATAAACCAGCATACAATTTGAGCGACCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTAc                                                                                    >  2:1345516/1‑100 (MQ=255)
                gATATTTTATTCTTTTACATTAAATAAACCAGCATATCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAG‑CATGTCTCCGGCttt                                                                                      <  1:1671561/97‑1 (MQ=37)
                gATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCGCCATACTGTAAAGCCGGAG‑CATGTCTCCGGCTTTAcn                                                                                   <  2:3453174/100‑2 (MQ=37)
                gATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACa                                                                                   <  1:86839/100‑1 (MQ=255)
                   atTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGt                                                                                 >  2:1996788/1‑99 (MQ=255)
                       tATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTAc                                                                            <  1:3840136/100‑1 (MQ=255)
                       tATTCTTTTACATAAAATAAACCAGCATACCATTTGACCGATCGCCCGCTGTTCCCGCATACTGTAAAGCCGGAGACATG‑ATCCGGCTTTACAGCAtt                                                                              >  2:3118516/1‑98 (MQ=255)
                           cTTTTACATGAAATAAACCTGCATACCATTAGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTAAAGTAtt                                                                              >  2:1677529/1‑94 (MQ=255)
                           cTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTgag                                                                        >  2:386471/1‑100 (MQ=255)
                            ttttACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTgaga                                                                       >  2:3011898/1‑100 (MQ=255)
                              ttAGATTAAATAAACCAGCATACCATTTGAGCGATTGCCCGCGGTTTCCCCATACTGTAAAGCCTGAGACATT‑CTCCGGCTTTACAGTATTACTGAGAAt                                                                     <  2:1039184/100‑1 (MQ=255)
                                 cATGAAATAAACCAGCATACCATTTGAGCGATCGTCCGCTGTTCTCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATaca                                                                  <  1:1005129/100‑1 (MQ=255)
                                  aTGAAATAAACCAGCATACCATTTGTGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATacac                                                                 <  1:989233/100‑1 (MQ=255)
                                  aTGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATacac                                                                 >  2:1193016/1‑100 (MQ=255)
                                  aTGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATacac                                                                 >  1:3267446/1‑100 (MQ=255)
                                  aTGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATacac                                                                 <  1:1216808/100‑1 (MQ=255)
                                   tGAAATAAACCAGCATATCATTTGAGCGTTCGCCCGTTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACAcc                                                                <  1:3325529/100‑1 (MQ=255)
                                   tGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACAcc                                                                >  1:1204399/1‑100 (MQ=255)
                                   tGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACAcc                                                                >  1:468938/1‑100 (MQ=255)
                                   tGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACAcc                                                                <  1:245067/100‑1 (MQ=255)
                                   tGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGAAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACAcc                                                                >  1:3517853/1‑100 (MQ=255)
                                   tGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAACCAAAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACAcc                                                                >  1:1289456/1‑100 (MQ=255)
                                     aaaTAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCGTACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCa                                                              >  2:3487984/1‑100 (MQ=255)
                                     aaaTAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACAACCa                                                              >  1:1885184/1‑100 (MQ=255)
                                       aTAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCAt                                                             >  1:3815871/1‑99 (MQ=255)
                                        tAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCa                                                           <  2:1917906/100‑1 (MQ=255)
                                          aaCCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAg                                                         >  2:2479992/1‑100 (MQ=255)
                                           aCCAGCATACCATTTGAGCGATCGCCCGCTTTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGc                                                        <  1:2953469/100‑1 (MQ=255)
                                                    ccATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGaa                                               >  1:2143463/1‑100 (MQ=255)
                                                       tttGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCTGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGt                                            <  2:1588231/100‑1 (MQ=255)
                                                         tGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTc                                          <  1:1996806/100‑1 (MQ=255)
                                                          gAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCa                                         <  2:468932/100‑1 (MQ=255)
                                                            gCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAat                                       >  2:1728924/1‑100 (MQ=255)
                                                             cGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAata                                      >  1:2377389/1‑100 (MQ=255)
                                                               aTCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATc                                    >  2:3475813/1‑100 (MQ=255)
                                                                tCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCg                                   <  2:1240771/100‑1 (MQ=255)
                                                                 cGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGc                                  <  1:2708347/100‑1 (MQ=255)
                                                                    ccGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGTTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGcc                                 <  1:58458/98‑1 (MQ=255)
                                                                    ccGCTGTTCCCCCATACTGTAAAGACGGAGACATG‑CTACGGCTTTACAGTATTACTGAGAATACAACCATTAAGCATAATAGAAGGTTCAATATAGccc                                >  2:3100872/1‑99 (MQ=255)
                                                                         gTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCttttt                          <  2:53288/100‑1 (MQ=255)
                                                                            cccccATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGAt                       >  2:1501562/1‑100 (MQ=255)
                                                                            cagtaaTACTGTAAAGCCGGAG‑CATGTCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGAt                       >  1:2775455/6‑100 (MQ=25)
                                                                              gtaaTACTGTAAAGCCGGAG‑CATGTCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATGGCCCCTTTTTGATCg                     >  1:3874144/4‑100 (MQ=25)
                                                                              cccATACTGTAAAGCCGGAAACATG‑CTCCGGATTTACAGTATTACTGAGAATAAACACATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATc                      >  2:1136182/1‑99 (MQ=255)
                                                                                cATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACACATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGcc                   >  2:45054/1‑100 (MQ=255)
                                                                                 aTACTGTAAAGCCGGAG‑CATGTCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCa                  >  2:3628446/1‑100 (MQ=37)
                                                                                    cTGTAAAGCCGGAG‑CATGTCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCgagatcg               >  1:3496230/1‑94 (MQ=37)
                                                                                    cTGTAAAGCCGGAG‑CATGTCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCg               >  2:2841219/1‑100 (MQ=38)
                                                                                     tGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGa              >  1:2544671/1‑100 (MQ=255)
                                                                                     tGTAAAGCCGGAG‑CATGTCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGa              >  1:2076208/1‑100 (MQ=38)
                                                                                     tGTAAAGCCGGAG‑CATGTCTCCGGCTTTACAGTAGTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGa              >  2:3900251/1‑100 (MQ=38)
                                                                                     ngTAAAGCCGGAG‑CATGTCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGACCCTATTTGATCGCCAGCGa              >  1:3238214/2‑100 (MQ=37)
                                                                                      gTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGAt             >  1:3106634/1‑100 (MQ=255)
                                                                                      gTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAAGATAAATATCGCCCCTTTTTGATCGCCAGCGAt             >  1:3219372/1‑100 (MQ=255)
                                                                                      gTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACAACCATCAAGCATAATAGAAGGTTCAATATCGCCCCTTTTTGCTTGCCAGAGAt             >  2:1745595/1‑100 (MQ=255)
                                                                                      gTAAAGCCGGAG‑CATGTCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGAGAt             >  1:1834705/1‑100 (MQ=38)
                                                                                       tAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGAtt            >  1:191023/1‑100 (MQ=255)
                                                                                       tAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGAtt            >  1:2896356/1‑100 (MQ=255)
                                                                                        aaaGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGACTACACACATCAAGCATAATCGAAGGTTCAATATAACCCCTTTTTGAAAGCCAgaaa              >  1:873248/1‑94 (MQ=255)
                                                                                        aaaGCCGGAG‑CATGTCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTc           >  1:1141801/1‑100 (MQ=38)
                                                                                         aaGCCGGAGACATG‑CTCCGGCTATACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTCg          >  2:3821370/1‑100 (MQ=255)
                                                                                         aaGCCGGAG‑CATGTTTCCGGCATTACAGTATTACTGAGAATACACTCATCAAGCATAATCGAAGGTTAAATATCGCCCCTTTTTGATCGCCAACGGTTCg          >  2:74374/1‑100 (MQ=255)
                                                                                         aaGCCGGAG‑CATGTCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTCg          >  2:3666457/1‑100 (MQ=38)
                                                                                         aaGCCGGAG‑CATGTCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAAAATCGCCCCTTTTTGATCGCCAGCGATTCg          >  2:2348391/1‑100 (MQ=38)
                                                                                           gCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTCGTc        <  1:2997336/100‑1 (MQ=255)
                                                                                             cGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTCGTCAc      >  1:148539/1‑100 (MQ=255)
                                                                                             cGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTCGTCAc      >  2:3031664/1‑100 (MQ=255)
                                                                                                agaCATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTCGTCACCGt   <  1:2419955/100‑1 (MQ=255)
                                                                                                 gaCATG‑CTCCGTCTTTATATTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTCGTCACCg    <  1:3558809/98‑1 (MQ=255)
                                                                                                 gaCATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTCGTCACCGTg  <  1:318697/100‑1 (MQ=255)
                                                                                                  |                                                                                                   
GGCATGATTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTCGTCACCGTG  >  NC_000913/4520402‑4520598

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: ‑

GATK/CNVnator alignment

N/A