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 F204 I0 R1 247 174.3 8556966 94.2% 8060661 99.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 4,296,060 C→T 29.3% intergenic (+266/+376) gltP → / ← yjcO glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,296,0600CT29.3% 541.2 / 252.4 357intergenic (+266/+376)gltP/yjcOglutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
Reads supporting (aligned to +/- strand):  ref base C (135/117);  new base T (54/51);  total (189/168)
Fisher's exact test for biased strand distribution p-value = 7.28e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.01e-01

Only 100 of 360 total aligned reads displayed.

TTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCG  >  NC_000913/4295962‑4296159
                                                                                                  |                                                                                                   
ttAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACg                                                                                                    <  1:1212562/100‑1 (MQ=33)
  aaCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGcc                                                                                                  >  2:857919/1‑100 (MQ=33)
    cgcgTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCt                                                                                                 <  2:404028/99‑1 (MQ=17)
    cgcgTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTg                                                                                                <  2:1047871/100‑1 (MQ=18)
        tCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGc                                                                                            >  1:2360113/1‑100 (MQ=17)
         cTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCg                                                                                           >  2:3648018/1‑100 (MQ=32)
          ttATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGa                                                                                          >  2:2791585/1‑100 (MQ=18)
           tATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGAc                                                                                         <  2:480784/100‑1 (MQ=18)
           tATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGAc                                                                                         <  1:3126136/100‑1 (MQ=18)
           tATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGAc                                                                                         >  1:1672107/1‑100 (MQ=18)
           tATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGAc                                                                                         <  1:48861/100‑1 (MQ=18)
           tATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGAc                                                                                         >  1:4225152/1‑100 (MQ=17)
            aTCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACg                                                                                        >  2:1224607/1‑100 (MQ=18)
             tcatcccaaCGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATg                                                                                             <  1:1435480/86‑1 (MQ=255)
              cAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCt                                                                                      <  2:135246/100‑1 (MQ=18)
                ggCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTg                                                                                    >  2:1811091/1‑100 (MQ=35)
                ggCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTg                                                                                    <  2:2657184/100‑1 (MQ=35)
                ggCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTg                                                                                    <  2:3340110/100‑1 (MQ=35)
                ggCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTg                                                                                    >  2:1466899/1‑100 (MQ=35)
                  ccTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGcc                                                                                  >  2:1741394/1‑100 (MQ=38)
                   cTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCcg                                                                                 <  2:2177801/100‑1 (MQ=25)
                   cTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCcg                                                                                 >  2:169725/1‑100 (MQ=38)
                    tACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCcgc                                                                                >  1:3361383/1‑100 (MQ=14)
                     aCGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCcgcg                                                                               <  2:2376991/100‑1 (MQ=25)
                     aCGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCcgcg                                                                               >  2:3783685/1‑100 (MQ=40)
                      cGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGt                                                                              >  2:2476538/1‑100 (MQ=25)
                       gCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTc                                                                             >  1:2844771/1‑100 (MQ=9)
                        ccAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCt                                                                            <  2:374670/100‑1 (MQ=25)
                        ccAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCt                                                                            >  2:1977910/1‑100 (MQ=255)
                         cAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCAGACATCAACGCCTGCTGCGACGCTTGCCGCGTCt                                                                            <  1:1688237/99‑1 (MQ=255)
                           gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTAt                                                                         >  1:1001050/1‑100 (MQ=255)
                            aCAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATc                                                                        <  2:4186986/100‑1 (MQ=255)
                             cAGCGCAATAGTCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTAt                                                                         <  1:1970428/98‑1 (MQ=255)
                              aGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTc                                                                             <  1:3765188/93‑1 (MQ=25)
                              aGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAg                                                                      <  1:547941/100‑1 (MQ=255)
                               gcgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAgg                                                                     >  1:4187656/1‑100 (MQ=25)
                               gcgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAgg                                                                     >  2:3948927/1‑100 (MQ=255)
                                cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGc                                                                    <  2:1518821/100‑1 (MQ=25)
                                cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGc                                                                    >  2:3051319/1‑100 (MQ=25)
                                cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGc                                                                    >  2:4000788/1‑100 (MQ=40)
                                 gcAATAGCCTGATTTCGCGTGATTTTGTAGATCGGCTAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTCCCGCCTCTTATCACGcc                                                                   >  1:1912716/1‑100 (MQ=11)
                                 gcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGcc                                                                   <  2:2027326/100‑1 (MQ=38)
                                 gcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGcc                                                                   >  1:1522087/1‑100 (MQ=255)
                                  cAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCt                                                                  >  2:4032849/1‑100 (MQ=25)
                                   aaTAGCCTGATTTAGCGTGATTTTGTACCTCGGAGAAGGAGTTTCGGCCGCATCCGGCATCAACGGCTGATGCGACCCTTGCCGCGTCTTATCAGGcc                                                                   <  1:250331/98‑1 (MQ=11)
                                    aTAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTat                                                                >  1:200827/1‑99 (MQ=25)
                                    aTAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTat                                                                <  2:1298589/100‑2 (MQ=25)
                                     tAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACg                                                               <  2:3866003/100‑1 (MQ=255)
                                     tAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACg                                                               <  2:723527/100‑1 (MQ=255)
                                       gCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTatctt                                                             >  2:1155346/1‑96 (MQ=9)
                                       gCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGcc                                                             >  2:209060/1‑100 (MQ=255)
                                        ccTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCa                                                            <  1:857917/100‑1 (MQ=255)
                                         cTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCTGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAg                                                           <  2:2583737/100‑1 (MQ=255)
                                         cTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTatctta                                                            >  1:1552749/1‑94 (MQ=255)
                                         cTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAg                                                           <  1:3223637/100‑1 (MQ=255)
                                          tGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAg                                                           <  1:795715/99‑1 (MQ=255)
                                             tttAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTatctca                                                            >  1:686193/1‑90 (MQ=255)
                                             tttAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAg                                                       >  1:1923222/1‑100 (MQ=40)
                                             tttAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAg                                                       <  2:657855/100‑1 (MQ=40)
                                               tAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAgcg                                                     >  2:3350874/1‑100 (MQ=255)
                                               tAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGGCTTATAAGGCCTACGCCAGACAgcg                                                     >  1:2592277/1‑100 (MQ=255)
                                                aGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAgcgc                                                    <  2:580061/100‑1 (MQ=255)
                                                 gCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCa                                                   <  2:3125428/100‑1 (MQ=255)
                                                 gCGTGATTTTGTAGCTCGGATCTGTCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAgc                                                      <  1:1405980/97‑1 (MQ=14)
                                                  cGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCaa                                                  >  1:1744501/1‑100 (MQ=40)
                                                   gTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACCCCAAACAgcg                                                     >  1:4081854/1‑96 (MQ=255)
                                                   gTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCAGATCGGGACTGCGCCGTGCAGCGCaa                                                  >  1:3054570/1‑99 (MQ=14)
                                                    tGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATa                                                >  1:2151771/1‑100 (MQ=255)
                                                    tGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATa                                                >  2:2394810/1‑100 (MQ=255)
                                                      aTTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGc                                              >  2:1888239/1‑100 (MQ=255)
                                                       ttttGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGcc                                             <  2:2692128/100‑1 (MQ=255)
                                                          tGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCCCAGACAGCGCAATAGCCt                                            >  2:3416196/1‑98 (MQ=255)
                                                          tGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGa                                          <  2:621091/100‑1 (MQ=255)
                                                             aGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGAttt                                       <  2:1001053/100‑1 (MQ=255)
                                                                tCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGc                                    <  2:1598599/100‑1 (MQ=255)
                                                                tCGGATAAGGCGTCTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGc                                    <  1:2793714/100‑1 (MQ=255)
                                                                  ggATAGGGCGTATACGCCCCACCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGt                                  <  1:3946977/100‑1 (MQ=14)
                                                                          cGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGt                          <  1:2671499/100‑1 (MQ=255)
                                                                          cGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGt                          >  2:3484933/1‑100 (MQ=255)
                                                                           gTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTa                         <  1:1272112/100‑1 (MQ=255)
                                                                           gTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTa                         <  2:4142465/100‑1 (MQ=255)
                                                                            tttACGCCGCGTCAGGTATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTa                         <  1:1759902/99‑1 (MQ=14)
                                                                            tttACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAg                        <  2:2151776/100‑1 (MQ=40)
                                                                             ttACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAACGTGATTTTGTAgg                       >  1:2428865/1‑100 (MQ=255)
                                                                              tACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGt                      >  2:3256409/1‑100 (MQ=255)
                                                                               aCGCCGCATCCGACATCAACGCCTGATGCGCCGCTTGCCGCGTCTTATCAGGCCGACGCCAGACAGCGCAATAGCCTGCTTTAGCGTGAtatcgaatgt                      >  1:428668/1‑90 (MQ=14)
                                                                                cgccgcATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACGGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCg                    >  1:135246/1‑100 (MQ=255)
                                                                                cgccgcATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCg                    >  1:1113768/1‑100 (MQ=38)
                                                                                 gccgcGTCGGACACCAACGCCTGCTGCGACGCTTGCCGTGTCTTATCAGGCCTATGTCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGt                      <  1:2958129/97‑1 (MQ=11)
                                                                                 gccgcATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCgg                   <  2:2146725/100‑1 (MQ=38)
                                                                                     cATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTTTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCg                    <  1:4047126/95‑1 (MQ=25)
                                                                                        ccGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAg              <  1:1592987/98‑1 (MQ=35)
                                                                                          gACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCATTATCCTGATTTAGCTTGATTTTGTAGGTCAGATaattcgt          >  1:1826502/1‑95 (MQ=11)
                                                                                            cATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGttt        <  1:3628195/100‑1 (MQ=35)
                                                                                            cATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGttt        >  2:2838502/1‑100 (MQ=38)
                                                                                              tCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGttt        <  1:3509767/98‑1 (MQ=35)
                                                                                                aaCGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGc    <  2:1926868/100‑1 (MQ=32)
                                                                                                 aCGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGcc   <  1:4117432/100‑1 (MQ=31)
                                                                                                  cGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGc    >  1:3707534/1‑98 (MQ=11)
                                                                                                  cGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCg  <  2:2722858/100‑1 (MQ=11)
                                                                                                  |                                                                                                   
TTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCG  >  NC_000913/4295962‑4296159

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

GATK/CNVnator alignment

N/A