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
A12 F56 I0 R1 312 170.3 8276235 93.7% 7754832 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 21.5% 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.21.5% 494.0 / 146.3 191intergenic (‑176/+171)yjhU/yjhFputative DNA‑binding transcriptional regulator; KpLE2 phage‑like element/putative transporter
Reads supporting (aligned to +/- strand):  ref base A (87/60);  new base . (19/22);  total (107/84)
Fisher's exact test for biased strand distribution p-value = 1.57e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.30e-01

Only 100 of 194 total aligned reads displayed.

GGCATGATTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTCGTCACCGTGC  >  NC_000913/4520402‑4520599
                                                                                                  |                                                                                                    
ggCATGATTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGATCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGAc                                                                                                     >  2:965842/1‑100 (MQ=255)
 gCATGATTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACa                                                                                                    >  1:3933948/1‑100 (MQ=255)
   aTGATTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGAc                                                                                                     <  2:1685654/97‑1 (MQ=255)
   aTGATTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCACATACTGTAAAGCCGAAGACa                                                                                                    >  2:3918156/1‑98 (MQ=255)
     gATTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑Ct                                                                                               >  1:241788/1‑100 (MQ=255)
      aTTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTc                                                                                              >  1:237915/1‑100 (MQ=255)
       ttttATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTcc                                                                                             <  2:3023159/100‑1 (MQ=255)
          tataCAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGc                                                                                          <  1:887296/100‑1 (MQ=255)
          tataCAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAG‑CATGTCTCCggn                                                                                          <  2:1710013/100‑2 (MQ=39)
            taCAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCtt                                                                                        <  1:1119066/100‑1 (MQ=255)
            taCAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCtt                                                                                        >  1:803146/1‑100 (MQ=255)
            taCAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCtt                                                                                        <  1:652445/100‑1 (MQ=255)
            taCAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCt                                                                                         <  2:3889395/99‑1 (MQ=255)
            taCAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCAATACTGTAAAGCCGGAG‑CATGTCTCCGGCtt                                                                                        <  1:2608172/100‑1 (MQ=38)
             aCAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCttt                                                                                       <  1:3475369/100‑1 (MQ=255)
              ccactatTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAG‑CATGTCTCCGGCtt                                                                                        <  1:608201/94‑1 (MQ=38)
              cAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAACGCCGGAGACATC‑CTCCGGCttt                                                                                       >  2:1126976/1‑99 (MQ=255)
              cAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTa                                                                                      >  2:486219/1‑100 (MQ=255)
               aGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTAc                                                                                     <  1:1075874/100‑1 (MQ=255)
               aGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTAc                                                                                     <  2:1036869/100‑1 (MQ=255)
               aGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAG‑CATGTCTCCGGCTTTAc                                                                                     <  2:1165595/100‑1 (MQ=38)
               aGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAG‑CATGTCTCCGGCTTTAc                                                                                     <  2:2279738/100‑1 (MQ=38)
               aGATACTTAATTCTTTTACATGCAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGGTCCCTCATACTGTAAAGCTGGA‑TCATGTCTCCGGCTTTAc                                                                                     <  2:1874393/100‑1 (MQ=25)
                gATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCTCGCTGTTCCCCCATACTGTAAAGCCGGAG‑CATGTCTCCGGCTTTACa                                                                                    <  2:3096328/100‑1 (MQ=37)
                gATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACa                                                                                    >  1:3070376/1‑100 (MQ=255)
                gATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACa                                                                                    >  1:2068406/1‑100 (MQ=255)
                 atatTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAg                                                                                   >  1:3681798/1‑100 (MQ=255)
                 atatTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAG‑CATGTCTCCGGCTTTACAg                                                                                   <  1:3800469/100‑1 (MQ=38)
                    ttttATTCTTTTACATGAAATAAAACAGCATACTATTTGAGCGTTCGCCCGCTGTTCCCCCATACTGTAAAGACGGAGACCTG‑CTCCGGCTTTACAGtct                                                                                >  2:4102048/1‑98 (MQ=255)
                     tttATTCTTTTACATGAAATAAACCAGCATACCATTTCACCCATCATCCACTTTTTCCCCATACTGTAAAGGCAGAGCATTG‑CTTCGGACTTACAGtt                                                                                 >  2:570914/1‑97 (MQ=255)
                      ttATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTa                                                                              <  2:851009/100‑1 (MQ=255)
                         ttCTTTTACATGCAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTAc                                                                             <  2:2819233/98‑1 (MQ=255)
                          tCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTga                                                                          >  1:776212/1‑100 (MQ=255)
                           cTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTgag                                                                         >  2:876745/1‑100 (MQ=255)
                           cTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTgag                                                                         <  1:53759/100‑1 (MQ=255)
                            ttttTCTTGAATTAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTgaga                                                                        >  2:1493209/1‑100 (MQ=255)
                               tACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACACG‑CTCCGGCTTTACAGTATTACTGAGCATa                                                                     >  2:1412390/1‑100 (MQ=255)
                                aCATGAAATAAACCATCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATac                                                                    <  1:4073586/100‑1 (MQ=255)
                                 cATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATaca                                                                   >  1:3602164/1‑100 (MQ=255)
                                 atctaaaTAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATaca                                                                   <  2:3548956/96‑1 (MQ=255)
                                  aTGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATacac                                                                  >  2:2382896/1‑100 (MQ=255)
                                   tGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACAcc                                                                 <  1:1314139/100‑1 (MQ=255)
                                    gAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACAccc                                                                >  1:2894053/1‑100 (MQ=255)
                                     aaaTAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATacaagat                                                               >  1:3548979/1‑96 (MQ=255)
                                     aaaTAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCa                                                               >  1:1653840/1‑100 (MQ=255)
                                           aCCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGc                                                         <  2:264566/100‑1 (MQ=255)
                                            ccAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCa                                                        >  2:1323779/1‑100 (MQ=255)
                                              aGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACCTG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATa                                                      >  2:2663941/1‑100 (MQ=255)
                                              aGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATa                                                      >  2:294268/1‑100 (MQ=255)
                                              aGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATa                                                      <  2:3683679/100‑1 (MQ=255)
                                               gCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATaa                                                     >  1:3753536/1‑100 (MQ=255)
                                               gCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATaa                                                     >  1:3451865/1‑100 (MQ=255)
                                                 aTACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATc                                                   <  1:2649828/100‑1 (MQ=255)
                                                  tACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCg                                                  >  2:2236065/1‑100 (MQ=255)
                                                  tACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCg                                                  >  1:226353/1‑100 (MQ=255)
                                                   aCCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAGGCCGGGGACTTG‑CTCCGGTTTTACAGTATTACTGGGAATACACCCATCAAGCTTAATCGa                                                 >  2:2094063/1‑100 (MQ=255)
                                                   aCCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGa                                                 <  2:1203269/100‑1 (MQ=255)
                                                    ccATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATAGaa                                                >  1:825966/1‑100 (MQ=255)
                                                       tttGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGt                                             <  1:2610641/100‑1 (MQ=255)
                                                       ttggggCGATCGCCCGCTGTTCCCCCAGACTGTAAAGCCGGATACATG‑CTCCGGCTGTACAGTATTACGGAGAATACACCCATCAAGCATAATCGAAgg                                              <  2:3272007/94‑1 (MQ=255)
                                                              gATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAatat                                      >  2:1929905/1‑100 (MQ=255)
                                                               aTCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATc                                     <  2:2068393/100‑1 (MQ=255)
                                                                 cGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGc                                   >  2:699303/1‑100 (MQ=255)
                                                                  gCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGTTTCAata                                       >  2:3869729/1‑95 (MQ=255)
                                                                  gCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGcc                                  >  1:3286796/1‑100 (MQ=255)
                                                                  gCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGcc                                  >  1:3624945/1‑100 (MQ=255)
                                                                  gCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGcc                                  <  1:905604/100‑1 (MQ=255)
                                                                    ccGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGcccc                                <  1:3644326/100‑1 (MQ=255)
                                                                      gCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCtt                              >  1:482049/1‑100 (MQ=255)
                                                                      gCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATAGAAGGTTCAATATCGCCCCtt                              >  2:3179887/1‑100 (MQ=255)
                                                                        tGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGTTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCtttt                            >  2:2200678/1‑100 (MQ=255)
                                                                         gTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCttttt                           >  1:1874881/1‑100 (MQ=255)
                                                                          ctcagtaaTACTGTAAAGCCGGAG‑CATGTCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTg                          >  1:1187111/8‑100 (MQ=21)
                                                                           tCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGa                         <  1:1072900/100‑1 (MQ=255)
                                                                            cccccATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGAt                        >  2:2484790/1‑100 (MQ=255)
                                                                            cagtaaTACTGTAAAGCCGGAG‑CATGTCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGAt                        >  1:3144019/6‑100 (MQ=25)
                                                                             ccccATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATc                       >  1:2493972/1‑100 (MQ=255)
                                                                              cccATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCg                      <  1:4062353/100‑1 (MQ=255)
                                                                               ccgtACTGTAAAGCCGGAGACATG‑CTCCGGCTCTACAGTATTACTGAGAATACACCCCTCAACCCTAACCGAAGGTTCACTATCGCACCTTTTGGATCg                      >  2:751280/4‑99 (MQ=255)
                                                                               ccATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGc                     >  1:2722141/1‑100 (MQ=255)
                                                                                cATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGcc                    <  2:1276702/100‑1 (MQ=255)
                                                                                cATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGcc                    <  1:1344874/100‑1 (MQ=255)
                                                                                   aCTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGc                 >  1:722423/1‑100 (MQ=255)
                                                                                   aCTGTAAAGCCGGAG‑CATGTCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGc                 >  1:3491361/1‑100 (MQ=38)
                                                                                    cTGTAAAGCCGGAG‑CATGTCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCg                >  1:1889059/1‑100 (MQ=38)
                                                                                     tGTAAAGCCGGAG‑CATGTCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCCCCCCTTTTTGATCGCCAGCGa               >  2:3877823/1‑100 (MQ=37)
                                                                                      gTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGAt              >  1:2197870/1‑100 (MQ=255)
                                                                                      gTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGAt              >  1:549730/1‑100 (MQ=255)
                                                                                      gTAAAGCCGGAG‑CATGTCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGAt              >  2:3423918/1‑100 (MQ=38)
                                                                                        aaaGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTc            >  1:623543/1‑100 (MQ=255)
                                                                                        aaaGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTc            <  2:2083229/100‑1 (MQ=255)
                                                                                         naGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCAATTCg           >  2:3355785/2‑100 (MQ=255)
                                                                                         aaGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTCg           >  1:282041/1‑100 (MQ=255)
                                                                                         aaGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCAAAGGTTGAATATCGCCCCTTTTTGATCGCCAGCGATTCg           >  2:2902441/1‑100 (MQ=255)
                                                                                         aaGCCGGAG‑CATGTCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTCg           >  1:767007/1‑100 (MQ=38)
                                                                                          aGCCGGAG‑CATGTCTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTCGt          >  2:1267952/1‑100 (MQ=38)
                                                                                           gCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTCGTc         >  2:19673/1‑100 (MQ=255)
                                                                                           gCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTCGTc         >  1:3028452/1‑100 (MQ=255)
                                                                                            ccGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTCGTCa        >  1:2582607/1‑100 (MQ=255)
                                                                                              ggAGACATG‑CTCCGGCTTTACAGTATTACTCAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCCTTTTGATCGCCAGCGATTCGTCa        <  2:2120448/98‑1 (MQ=255)
                                                                                                  |                                                                                                    
GGCATGATTTTATACAGATATTTTATTCTTTTACATGAAATAAACCAGCATACCATTTGAGCGATCGCCCGCTGTTCCCCCATACTGTAAAGCCGGAGACATG‑CTCCGGCTTTACAGTATTACTGAGAATACACCCATCAAGCATAATCGAAGGTTCAATATCGCCCCTTTTTGATCGCCAGCGATTCGTCACCGTGC  >  NC_000913/4520402‑4520599

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A