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
A3 F228 I0 R1 182 117.2 5818924 93.6% 5446512 99.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 3,705,970 G→A 31.3% intergenic (‑180/+128) dppB ← / ← dppA dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,705,9700GA31.3% 263.5 / 136.4 163intergenic (‑180/+128)dppB/dppAdipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor
Reads supporting (aligned to +/- strand):  ref base G (53/59);  new base A (40/11);  total (93/70)
Fisher's exact test for biased strand distribution p-value = 1.79e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.72e-02

Only 100 of 172 total aligned reads displayed.

CAGGGAATGAAGTATTGCTGCCGGATGGCGCTGCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAGCGCATCAGGCATTTTTGCC  >  NC_000913/3705871‑3706069
                                                                                                   |                                                                                                            
  gggAATGAAGTATTGCTGCCGGATGGCGCTGCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATgcg                                                                                                            >  2:1498265/1‑100 (MQ=255)
    gAATGAAGTATTGCTGCCGGATGGCGCTGCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATgcggc                                                                                                          <  1:1019413/100‑1 (MQ=255)
           gTATTGCTGCCGGATGGCGCTGCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACg                                                                                                   >  1:2275018/1‑100 (MQ=255)
             aTTGCTGCCGGATGGCGCTGCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGcc                                                                                                 <  1:721412/100‑1 (MQ=255)
              ttGCTGCCGGATGGCGCTGCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCt                                                                                                <  2:1414241/100‑1 (MQ=255)
                 ctgcCGGATGGCGCTGCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTAt                                                                                             >  1:2711336/1‑100 (MQ=255)
                  tggccgATGGGGCTGCACGCAGAGGCACAGCGCCAGCGGGTATGCAGATGGGTGACTAAGTGTGCTTTGTTTATGCCGGATAAGGGGTTAACGccgca                                                                                              <  1:1204262/93‑4 (MQ=19)
                  tgcCGGATGGCGCTGCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTCGTTTATGCCGGATGCGGCGTTAACGCCTTAt                                                                                             >  1:2530029/1‑99 (MQ=255)
                    ccGGATGGCGCTGCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCg                                                                                          >  2:1056155/1‑100 (MQ=255)
                    ccGGATGGCGCTGCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCg                                                                                          <  2:110610/100‑1 (MQ=255)
                     cGGATGGCGCTGCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATAAGGCGTTAACGCCGCATCCgg                                                                                         <  2:1273241/100‑1 (MQ=37)
                      ggATGGCGCTGCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGc                                                                                        <  2:812152/100‑1 (MQ=255)
                       gATGGCGCTGCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATAAGGCGTTAACGCCGCATCCGGca                                                                                       <  2:353427/100‑2 (MQ=37)
                        aTGGCGCTGCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCt                                                                                      >  2:1290454/1‑100 (MQ=255)
                        aTGGCGCTGCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCt                                                                                      <  2:2711346/100‑1 (MQ=255)
                        aTGGCGCTGCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATAAGGCGTTAACGCCGCATCCGGcat                                                                                      <  2:2556677/100‑3 (MQ=37)
                        aTGGCGCTGCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATAAGGCGTTAACGCCGCATCCGGcat                                                                                      <  2:670031/100‑3 (MQ=37)
                         tGGCGCTGCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATAAGGCGTTAACGCCGCATCCGGCAT‑‑a                                                                                   <  1:2392408/100‑1 (MQ=37)
                           gcgcTGCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑a                                                                                >  1:298616/1‑100 (MQ=255)
                                gCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATc                                                                           >  1:2114859/1‑100 (MQ=255)
                                  aCGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGt                                                                         <  1:1201430/100‑1 (MQ=255)
                                   cctctgcgtgcaGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTg                                                                        >  1:2117929/11‑100 (MQ=255)
                                    gCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGc                                                                       <  1:1628590/100‑1 (MQ=255)
                                    gCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGc                                                                       <  2:156242/100‑1 (MQ=255)
                                     cAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAAAGACTTATCCGGCCT‑‑AC‑AAAATCGTGc                                                                       <  1:266293/99‑1 (MQ=255)
                                         ggCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAAtt                                                                  <  1:1399844/100‑1 (MQ=255)
                                          gCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTc                                                                 <  1:234040/100‑1 (MQ=255)
                                          gCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTc                                                                 <  1:1164818/100‑1 (MQ=255)
                                            acaGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCaa                                                               <  1:748110/100‑1 (MQ=255)
                                            acaGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCaa                                                               >  2:1107768/1‑100 (MQ=255)
                                             caGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAAt                                                              >  2:1036276/1‑100 (MQ=255)
                                             caGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAAt                                                              >  2:75776/1‑100 (MQ=255)
                                             caGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAAt                                                              <  2:1044860/100‑1 (MQ=255)
                                                  ccACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACAtt                                                         <  2:2254494/100‑1 (MQ=255)
                                                   cACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTg                                                        >  1:1714925/1‑100 (MQ=255)
                                                    aacGGGTATACAGATTGTTGACAAAGTGCGCATTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGc                                                       >  2:1960069/3‑100 (MQ=255)
                                                    aCCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGc                                                       >  2:213659/1‑100 (MQ=255)
                                                    aCCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGc                                                       <  2:2662823/100‑1 (MQ=255)
                                                     cggggTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACAtt                                                         <  1:319334/95‑1 (MQ=255)
                                                     ccGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCa                                                      <  1:2901766/100‑1 (MQ=255)
                                                         gTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAAt                                                 <  1:2240157/100‑1 (MQ=255)
                                                           ataCAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAAtt‑‑‑t                                            >  1:783393/1‑100 (MQ=255)
                                                              cAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑g                                       <  1:1070657/100‑1 (MQ=255)
                                                               aGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTCAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑Gt                                      <  1:1863226/100‑1 (MQ=255)
                                                                gATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTa                                     <  1:1066102/100‑1 (MQ=255)
                                                                 aTTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAg                                    <  2:1931441/100‑1 (MQ=255)
                                                                     ttgACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGcc                                 <  1:536930/99‑1 (MQ=255)
                                                                        aCAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGAt                             >  2:1373498/1‑100 (MQ=255)
                                                                        aCAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGAt                             <  1:1023825/100‑1 (MQ=255)
                                                                         cAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATa                            >  1:2423367/1‑100 (MQ=255)
                                                                         cAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATa                            <  2:1553936/100‑1 (MQ=255)
                                                                           aaGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAg                          <  2:505799/100‑1 (MQ=255)
                                                                               gcgcTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGa                      >  1:1134315/1‑100 (MQ=255)
                                                                                cgcTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAg                     <  1:105123/100‑1 (MQ=255)
                                                                                cgcTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAg                     <  1:2875506/100‑1 (MQ=255)
                                                                                cgcTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAg                     <  1:2282282/100‑1 (MQ=255)
                                                                                 gcTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAgc                    >  1:1899801/1‑100 (MQ=255)
                                                                                 gcTTTGTTTATGCCGGATGCGGCCTTAACCCCATAGCCGGCCT‑‑AC‑AAAGTCGTGCAAACTCCGTACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATCAGCGGAgc                    <  1:211091/100‑1 (MQ=18)
                                                                                   attttgtaggCCGGATAAGGCGTTAACGCCGCATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAgcgc                  >  2:1839977/10‑100 (MQ=18)
                                                                                    ttGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAGCGCa                 <  2:2088136/100‑1 (MQ=255)
                                                                                     ttcgtaggCCGGATAAGGCGTTCACGCCGCATCCGGCGT‑‑AC‑GAAATCGTGCTAATTCAATATATTGTG‑GGCTC‑‑‑CAC‑‑GTAGGCCTGATAAGCGTAGCGCAt                >  2:2311783/8‑100 (MQ=18)
                                                                                     tGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAGCGCAt                >  1:141256/1‑100 (MQ=255)
                                                                                      ttgtaggCCGGATAAGGCGTTCACGCCGCATCCGGCCT‑‑AC‑AAAACCTTGCTAATTCAATATATTGCA‑GGGAC‑‑‑TAT‑‑GTAGGCCTGATAAGCATAGCGCATc               >  1:2351461/7‑100 (MQ=18)
                                                                                      ttgtaggCCGGATAAGGCGTTCACGCCGCATCCGGCCT‑‑AC‑‑AAATCATGCAAATCCAAAATATTGCA‑GGAGT‑‑‑TAT‑‑GTAGGCCTGATAAGCGTAGCGCATCa              >  2:2138085/7‑100 (MQ=21)
                                                                                      gatctggCCGGATAAGGCGTTCACGCCGCATCCGGCCT‑‑AC‑AAAACTTTGCAAATTCAATATATTGC‑‑‑AATC‑‑‑TCCGTGTAGGCCTGATAAGCGTAGCGCATc               <  2:1402921/94‑1 (MQ=18)
                                                                                      gTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAGCGCATc               <  1:2447633/100‑1 (MQ=255)
                                                                                       tttATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAGCGCATCa              <  1:1512983/100‑1 (MQ=255)
                                                                                       tgtaggCCGGATAAGGCGTTTACGCCGCATCCGGCCT‑‑AC‑AAAAATGTGCAAATTCAATAAATTGC‑‑‑AATTCAACTT‑‑GTAGGCCTGATAAGCGCAGCGCATc               >  1:1920233/6‑100 (MQ=21)
                                                                                       tgtaggCCGGATAAGGCGTTCACGCCGCATCCGGCCT‑‑ACAAAAATCTTGCCAATTCAATATATTGCA‑GGACC‑‑‑AT‑‑‑GTAGGCCTGATAAGCGTAGCGCATCa              <  2:1706794/95‑1 (MQ=18)
                                                                                        gtaggCCGGATAAGGCGTTCACTCCGCATCCGGCCT‑‑AC‑AAAAGCACGCAAATTCAATATATTGCA‑GAGAT‑‑‑TGC‑‑GTAGGCCTGATAAGCGTAGCGCATCAg             >  1:373862/5‑100 (MQ=14)
                                                                                         taggCCGGATAAGGCGTTTACGCCGCATCCGGCCT‑‑AC‑AAAAGCATGCAAATTCAATATATTGCA‑GAGTT‑‑‑CAC‑‑GTAGGCCTGATAAGCGTAGCGCATCAgg            >  2:621294/4‑100 (MQ=17)
                                                                                         taggCCGGATAAGGCGTTCACGCCGCATCCGGCCT‑‑AC‑AAAGTCGTATAAATTCAATGTATTGCA‑GTTTA‑‑‑TTG‑‑GTAGGCCTGATAAGCGCAGCGCATCAgg            >  2:739538/4‑100 (MQ=25)
                                                                                         taggCCGGATAAGGCGTTCACGCCGCATCCGGCCT‑‑AC‑AAAGTCGTATAAATTCAATGTATTGCA‑GTTTA‑‑‑TTG‑‑GTAGGCCTGATAAGCGCAGCGCATCAgg            >  2:2291973/4‑100 (MQ=21)
                                                                                         taggCCGGATAAGGCGTTCACGCCGCATCCGGCCT‑‑AC‑AAAATCGCTTAAATTCAATATATTGCA‑CCATC‑‑‑CTC‑‑GTAGGCCTGATAAGCGTAGCGCATCAgg            <  1:1396944/97‑1 (MQ=21)
                                                                                          aggCCGGATAAGGCGTTTACGCCGCATCCGGCCT‑‑AC‑AAAATCGTGCTAATTCAATATATTGCA‑GAAAC‑‑‑CTT‑‑GTAGGCCTGATAAGCGTAGCGCATCAGGc           >  2:889574/3‑100 (MQ=17)
                                                                                          aggCCGGATAAGGCGTTTACGCCGCATCCGGCCT‑‑AC‑AAAATCGTGCTAATTCAATATATTGCA‑GAAAC‑‑‑CTT‑‑GTAGGCCTGATAAGCGTAGCGCATCAGGc           >  2:2882801/3‑100 (MQ=18)
                                                                                          aggCCGGATAAGGCGTTTACGCCGCATCCGGCCT‑‑AC‑AAAAGCGTGCAAATTCAATACATTGCATGGGCC‑‑‑AT‑‑‑GTAGGCCTGATAAGCGTAGCGCATCAGGc           >  1:2129657/3‑100 (MQ=17)
                                                                                          aggCCGGATAAGGCGTTTACGCCGCATCCGGCCT‑‑AC‑AAAAGCGTGCAAATTCAATACATTGCATGGGCC‑‑‑AT‑‑‑GTAGGCCTGATAAGCGTAGCGCATCAGGc           >  2:1880716/3‑100 (MQ=17)
                                                                                          aggCCGGATAAGGCGTTCACGCCGCATCCGGCCT‑‑AC‑AAAAACCTGCAAATTCAATATATTGCA‑GGATA‑‑‑CGT‑‑GTAGGCCTGATAAGCGTAGCGCATCAGGc           >  1:150656/3‑100 (MQ=17)
                                                                                          aTGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAGCGCATCAGGc           <  2:199529/100‑1 (MQ=255)
                                                                                           ggCCGGATAAGGCGTTCACGCCGCATCCGGCCT‑‑ACAAAAATCTTGCCAATTCAATATATTGCA‑GGACC‑‑‑AT‑‑‑GTAGGCCTGATAAGCGTAGCGCATCAGGCa          >  2:2741719/2‑100 (MQ=18)
                                                                                           ggCCGGATAAGGCGTTCACGCCGCATCCGGCCT‑‑AC‑AAAACTTTGCAAATTCAATATATTGCA‑ATCTC‑‑‑CGT‑‑GTAGGCCTGATAAGCGTAGCGCATCAGGCa          >  2:2588977/2‑100 (MQ=18)
                                                                                           ggCCGGATAAGGCGTTCACGCCGCATCCGGCCT‑‑AC‑AAAAACATGCAAATTCAATAGATTGCA‑GAGAT‑‑‑TAT‑‑GTAGGCCTGATAAGCGTAGCGCATCAGGCa          >  2:297573/2‑100 (MQ=17)
                                                                                            gCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAGCGCATCAGGCAt         >  2:1317900/1‑100 (MQ=255)
                                                                                            gCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAGCGCATCAGGCAt         >  2:60616/1‑100 (MQ=255)
                                                                                            gCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAGCGCATCAGGCAt         >  1:2211422/1‑100 (MQ=255)
                                                                                            gCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATGCAATACATTGCA‑GAATT‑‑‑TTC‑‑CTAGGCCTGATAAGCGGTGCGCATCAGGCAt         >  2:1143506/1‑100 (MQ=255)
                                                                                            gCCGGATAAGGCGTTCGCGCCGCATCCGGCCT‑‑AC‑AAAAGTTTGCAAATTCAATAAATTGCA‑GAATT‑‑‑CAT‑‑GTAGGCCTGATAAGCGAAGCGCATCAGGCAt         >  2:2223264/1‑100 (MQ=17)
                                                                                            gCCGGATAAGGCGTTCACGCCGCATCCGGCCT‑‑AC‑GAAATCGTGCTAATTCAATATATTGTG‑GGCTC‑‑‑CAC‑‑GTAGGCCTGATAAGCGTAGCGCATCAGGCag         >  2:715891/1‑99 (MQ=18)
                                                                                            gCCGGATAAGGCGTTCACGCCGCATCCGGCCT‑‑AC‑AAAGTCGTATAAATTCAATGTATTGCA‑GTTTA‑‑‑TTG‑‑GTAGGCCTGATAAGCGCAGCGCATCAGGCaa         >  1:1629349/1‑99 (MQ=21)
                                                                                            gCCGGATAAGGCGTTCACGCCGCATCCGGCCT‑‑AC‑AAAGTCGTATAAATTCAATGTATTGCA‑GTTTA‑‑‑TTG‑‑GTAGGCCTGATAAGCGCAGCGCATCAGGCaa         >  2:1764218/1‑99 (MQ=25)
                                                                                            gCCGGATAAGGCGTTCACGCCGCATCCGGCCT‑‑AC‑AAAATTGTGTAAATTCAATAAATTGAT‑CGATC‑‑‑CAC‑‑GTAGGCCTGATAAGCGTAGCGCATCAGGCag         >  2:2513525/1‑99 (MQ=21)
                                                                                            gCCGGATAAGGCGTTCACGCCGCATCCGGCCT‑‑AC‑AAAATCGCTTAAATTCAATATATTGCA‑CCATC‑‑‑CTC‑‑GTAGGCCTGATAAGCGTAGCGCATCAGGCaa         >  1:1597626/1‑99 (MQ=21)
                                                                                            gCCGGATAAGGCGTTAACGCCGCATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAGCGCATCAGGCAt         >  2:39523/1‑100 (MQ=18)
                                                                                             ccGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAGCGCATCAGGCAtt        >  1:1448217/1‑100 (MQ=255)
                                                                                             ccGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAGCGCATCAGGCAtt        >  1:849248/1‑100 (MQ=255)
                                                                                             ccGGATAAGGCGTTAACGCCGCATCCGGCATAAAC‑AAAATCGTGCAAAATCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAGCGCATCAGGCa          >  1:2065620/1‑100 (MQ=17)
                                                                                                gATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAGCGCATCAGGCAttttt     >  2:1616832/1‑100 (MQ=255)
                                                                                                  tGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAGCGCATCAGGCAttttttt   >  1:1390426/1‑98 (MQ=255)
                                                                                                   gcggcgTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAGCGCATCAGGCATTtttgcc  <  2:1448220/100‑1 (MQ=255)
                                                                                                   |                                                                                                            
CAGGGAATGAAGTATTGCTGCCGGATGGCGCTGCACGCAGAGGCACAGCGCCACCGGGTATACAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCT‑‑AC‑AAAATCGTGCAAATTCAATACATTGCA‑GAATT‑‑‑TTC‑‑GTAGGCCTGATAAGCGGAGCGCATCAGGCATTTTTGCC  >  NC_000913/3705871‑3706069

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

GATK/CNVnator alignment

N/A