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
A1 F1 I2 R1 1873 183.1 9376148 98.2% 9207377 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,001,717 +C coding (86/903 nt) rarD ← hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,001,7171.C100.0% 648.0 / NA 209T29R (ACG→AGG) rarDhypothetical protein
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base C (84/125);  total (84/125)

Only 100 of 242 total aligned reads displayed.

TGCTCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑G‑TGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACTCATT  >  NC_000913/4001625‑4001803
                                                                                                |                                                                                      
tGCTCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGGA‑C‑g                                                                                         >  1:3959755/1‑93 (MQ=255)
 gCTCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑gc                                                                                        >  1:2849976/1‑92 (MQ=255)
 gCTCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑gc                                                                                        <  2:2944162/93‑2 (MQ=255)
   tcatcaGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCCCGGAGTAAATTCAAC‑TGAAGTA‑C‑gctg                                                                                      >  2:497361/1‑90 (MQ=255)
   tcatcaGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑gctg                                                                                      <  2:2878965/93‑4 (MQ=255)
    catcaGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑gctgg                                                                                     <  1:2143136/93‑5 (MQ=255)
    catcaGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑gctgg                                                                                     <  1:2407690/93‑5 (MQ=255)
    catcaGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑gctgg                                                                                     <  2:310397/93‑5 (MQ=255)
    catcaGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑gctgg                                                                                     <  2:2604520/93‑5 (MQ=255)
         gCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCta                                                                                >  2:897309/1‑93 (MQ=255)
         gCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCta                                                                                <  2:2485946/93‑1 (MQ=255)
           accaccATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCtata                                                                              >  2:1007948/1‑93 (MQ=255)
           accaccATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCtata                                                                              <  2:3926333/93‑1 (MQ=255)
           accaccATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCtata                                                                              <  1:1662105/93‑1 (MQ=255)
            ccaccaTAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAC‑TCAACTTGAAGTA‑C‑GCCGGCGCTATAc                                                                             >  2:703785/1‑93 (MQ=255)
            ccaccaTAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATAc                                                                             <  1:646111/93‑1 (MQ=255)
            ccaccaTAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATAc                                                                             >  1:3910680/1‑93 (MQ=255)
            ccaccaTAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATAc                                                                             <  2:3727998/93‑1 (MQ=255)
                caTAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCa                                                                         >  1:1962021/1‑93 (MQ=255)
                caTAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCa                                                                         <  2:4584640/93‑1 (MQ=255)
                 aTAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCCCGTAATAAA‑TCAACTTGAGGTA‑CGG‑AGGCGCTATACGCCaa                                                                        >  1:1453406/1‑93 (MQ=255)
                 aTAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATAccccca                                                                        >  1:1179519/1‑91 (MQ=255)
                 aTAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCaa                                                                        <  1:975403/93‑1 (MQ=255)
                  tAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCaaa                                                                       <  2:2660442/93‑1 (MQ=255)
                  tAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCaaa                                                                       >  1:2319633/1‑93 (MQ=255)
                    aaGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCaaata                                                                     <  1:246229/93‑1 (MQ=255)
                    aaGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGCCACGTAGTAAA‑TCATCTTGAAGTA‑C‑GCTGGCGCTATACCCCaaata                                                                     <  2:2772157/93‑1 (MQ=255)
                     aGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCaaataa                                                                    <  2:1353551/93‑1 (MQ=255)
                      gAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCaaataaa                                                                   >  1:3842801/1‑93 (MQ=255)
                       aaaaaCGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCaaataaaa                                                                  <  2:3423422/93‑1 (MQ=255)
                        aaaaCGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCaaataaaat                                                                 <  2:105077/93‑1 (MQ=255)
                         aaaCGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCaaataaaata                                                                <  1:508519/93‑1 (MQ=255)
                         aaaCGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGGAGTAAA‑TCAACATGAAGTACC‑A‑TGGCGCTATACCCCaaataaaata                                                                >  2:2121312/1‑93 (MQ=255)
                          aaCGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAaataaaataa                                                               <  2:2647376/93‑1 (MQ=255)
                          aaCGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAaataaaataa                                                               <  2:3060635/93‑1 (MQ=255)
                          aaCGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAaataaaataa                                                               <  1:1609919/93‑1 (MQ=255)
                          aaCGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAaataaaataa                                                               >  1:155581/1‑93 (MQ=255)
                           aCGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAg                                                              >  2:2162037/1‑93 (MQ=255)
                            cGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGc                                                             <  1:4435081/93‑1 (MQ=255)
                            cGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGc                                                             <  2:3167337/93‑1 (MQ=255)
                            cGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGc                                                             <  1:1361598/93‑1 (MQ=255)
                             gACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCg                                                            >  1:234728/1‑93 (MQ=255)
                               ccAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGc                                                          >  1:457875/1‑93 (MQ=255)
                                   aacACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAaga                                                      <  1:4073287/91‑1 (MQ=255)
                                   aTCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAaga                                                      <  1:4330237/93‑1 (MQ=255)
                                   aTCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAaga                                                      <  1:1602386/93‑1 (MQ=255)
                                   aTCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAaga                                                      <  2:3459161/93‑1 (MQ=255)
                                    tCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCGagag                                                     >  2:4407062/1‑93 (MQ=255)
                                    tCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAACGGCAagag                                                     >  2:476605/1‑93 (MQ=255)
                                    tCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAACGGCAagag                                                     >  2:1658156/1‑93 (MQ=255)
                                     cACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGc                                                    <  1:2930397/93‑1 (MQ=255)
                                      aCGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCg                                                   >  2:1441835/1‑93 (MQ=255)
                                          gATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTa                                               >  1:2964818/1‑93 (MQ=255)
                                           aTGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTaa                                              <  1:2867135/93‑1 (MQ=255)
                                           aTGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGAGGGTaa                                              >  2:2966302/1‑93 (MQ=255)
                                            tGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAAt                                             <  2:633591/93‑1 (MQ=255)
                                             gCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATa                                            <  2:4064459/93‑1 (MQ=255)
                                             gCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATa                                            <  1:2131799/93‑1 (MQ=255)
                                              cGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATAc                                           <  1:1831893/93‑1 (MQ=255)
                                               gTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCGCAAATAAAATAAGCGGCAAGAGCGAGTAATACg                                          >  1:3621752/1‑93 (MQ=255)
                                               gTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACg                                          >  1:192543/1‑93 (MQ=255)
                                               gTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAAATTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACg                                          >  1:326413/1‑93 (MQ=255)
                                                tCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGc                                         <  1:590214/93‑1 (MQ=255)
                                                  aGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGccc                                       <  2:4518136/93‑1 (MQ=255)
                                                  aGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGccc                                       <  1:1325155/93‑1 (MQ=255)
                                                    gATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTg                                     >  1:3985329/1‑93 (MQ=255)
                                                       ttCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCcg                                  >  2:680803/1‑93 (MQ=255)
                                                        tCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCcgc                                 <  2:1823564/93‑1 (MQ=255)
                                                        tCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCcgc                                 <  2:1461420/93‑1 (MQ=255)
                                                            cggcggGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCgttt                             >  1:1100887/1‑93 (MQ=255)
                                                             ggcggGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCgtttg                            >  1:2027027/1‑93 (MQ=255)
                                                             ggcggGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCgtttg                            <  2:669666/93‑1 (MQ=255)
                                                              gcggGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCgtttgt                           <  2:3808733/93‑1 (MQ=255)
                                                              gcggGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCgtttgt                           <  2:1190494/93‑1 (MQ=255)
                                                              gcggGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCgtttgt                           <  1:1240952/93‑1 (MQ=255)
                                                               cggGCACGTAGTAAA‑TCAACTGGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAAGAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCgtttgtt                          <  2:2053287/93‑1 (MQ=255)
                                                                gggCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATGCGCCCTGCCGCgtttgttt                         <  2:2440334/93‑1 (MQ=255)
                                                                  gCACGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTg                       <  1:4502193/93‑1 (MQ=255)
                                                                    aCGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGca                     >  2:3569975/1‑93 (MQ=255)
                                                                     cGTAGTAAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGcat                    <  2:3661133/93‑1 (MQ=255)
                                                                      gtagtaAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGcatc                   >  1:873360/1‑93 (MQ=255)
                                                                      gtagtaAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGcatc                   <  2:784353/93‑1 (MQ=255)
                                                                      gtagtaAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGcatc                   >  1:1005115/1‑93 (MQ=255)
                                                                       cagtaAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGcatcc                  >  1:2554332/2‑93 (MQ=255)
                                                                         gtaAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGcatccat                <  1:4214723/93‑1 (MQ=255)
                                                                          taAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGcatccatc               >  2:563509/1‑93 (MQ=255)
                                                                          taAA‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGcatccatc               <  1:321258/93‑1 (MQ=255)
                                                                            aa‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCgg             >  1:1786348/1‑93 (MQ=255)
                                                                             a‑TCAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCggg            >  2:290320/1‑93 (MQ=255)
                                                                                cAACTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGaa          <  1:1208748/93‑1 (MQ=255)
                                                                                 aaCTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAAt         >  1:3775329/1‑93 (MQ=255)
                                                                                  aCTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATa        <  1:4252858/93‑1 (MQ=255)
                                                                                  aCTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATa        >  2:2643328/1‑93 (MQ=255)
                                                                                  aCTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATa        <  2:3764532/93‑1 (MQ=255)
                                                                                  aCTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATa        <  1:1427013/93‑1 (MQ=255)
                                                                                  aCTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATa        >  1:1296985/1‑93 (MQ=255)
                                                                                   cTTGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATAc       >  2:922389/1‑93 (MQ=255)
                                                                                     tGAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACTc     <  1:3351176/93‑1 (MQ=255)
                                                                                      gAAGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACTCa    <  1:1582039/93‑1 (MQ=255)
                                                                                       aaGTA‑C‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACTCAt   <  2:849884/93‑1 (MQ=255)
                                                                                                |                                                                                      
TGCTCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAA‑TCAACTTGAAGTA‑C‑G‑TGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACTCATT  >  NC_000913/4001625‑4001803

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
ATGCTCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑G‑TGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACTCATTTTTAATT  >  NC_000913/4001624‑4001810
                                                                                              |                                                                                              
ATGCTCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑G                                                                                                <  SRR4302535.297984/94‑1 (MQ=60)
ATGCTCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGGAC‑G                                                                                                >  SRR4302535.3986797/1‑94 (MQ=60)
 TGCTCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑G‑C                                                                                              >  SRR4302535.2870167/1‑94 (MQ=60)
   CTCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑Gctg                                                                                             <  SRR4302535.907653/94‑4 (MQ=60)
   CTCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑Gctg                                                                                             >  SRR4302535.869066/1‑91 (MQ=60)
   CTCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑Gctg                                                                                             >  SRR4302535.2153018/1‑91 (MQ=60)
    TCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGG                                                                                            >  SRR4302535.2122195/1‑94 (MQ=60)
     CATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGC                                                                                           <  SRR4302535.2158554/94‑1 (MQ=60)
     CATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGC                                                                                           <  SRR4302535.2425020/94‑1 (MQ=60)
        CAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCT                                                                                        <  SRR4302535.1596581/94‑1 (MQ=60)
         AGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTA                                                                                       <  SRR4302535.4552325/94‑1 (MQ=60)
          GCACCACCATAAAGAAAAACGACCAGATCACGTGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTAT                                                                                      <  SRR4302535.2846012/94‑1 (MQ=60)
          GCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTAT                                                                                      <  SRR4302535.641325/94‑1 (MQ=60)
            ACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATAC                                                                                    <  SRR4302535.1674114/94‑1 (MQ=60)
            ACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATAC                                                                                    >  SRR4302535.3937456/1‑94 (MQ=60)
             CCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACC                                                                                   >  SRR4302535.1783363/1‑94 (MQ=60)
             CCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACC                                                                                   <  SRR4302535.650619/94‑1 (MQ=60)
                CCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCA                                                                                >  SRR4302535.1976167/1‑94 (MQ=60)
                 CATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCCCGTAATAAATCAACTTGAGGTACGG‑AGGCGCTATACGCCAA                                                                               >  SRR4302535.1463806/1‑94 (MQ=60)
                 CATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTACATCAACTTGAAGTAC‑GCTGGCGCTCTACCCCCA                                                                               >  SRR4302535.1189530/1‑94 (MQ=60)
                 CATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCCA                                                                               >  SRR4302535.1187935/1‑94 (MQ=60)
                 CATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAA                                                                               <  SRR4302535.43579/94‑1 (MQ=60)
                  ATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAA                                                                              <  SRR4302535.982327/94‑1 (MQ=60)
                  ATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAA                                                                              >  SRR4302535.1455293/1‑94 (MQ=60)
                  ATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAA                                                                              >  SRR4302535.2336238/1‑94 (MQ=60)
                   TAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAAT                                                                             >  SRR4302535.526997/1‑94 (MQ=60)
                   TAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAAT                                                                             <  SRR4302535.2432852/94‑1 (MQ=60)
                   TAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAAT                                                                             <  SRR4302535.294741/94‑1 (MQ=60)
                    AAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATA                                                                            <  SRR4302535.1597320/94‑1 (MQ=60)
                    AAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATA                                                                            <  SRR4302535.1812925/94‑1 (MQ=60)
                     AAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAA                                                                           <  SRR4302535.247917/94‑1 (MQ=60)
                     AAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATAACCCAAATAA                                                                           >  SRR4302535.3645297/1‑94 (MQ=60)
                      AGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAA                                                                          >  SRR4302535.3869272/1‑94 (MQ=60)
                       GAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACCTGAAGTAC‑GCTGGCGCTATACCCCCAATAAAA                                                                         >  SRR4302535.9985/1‑94 (MQ=60)
                        AAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAAT                                                                        <  SRR4302535.48242/94‑1 (MQ=60)
                         AAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCACATAAAATA                                                                       >  SRR4302535.4155734/1‑94 (MQ=60)
                         AAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATA                                                                       <  SRR4302535.2876170/94‑1 (MQ=60)
                          AAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAA                                                                      <  SRR4302535.512076/94‑1 (MQ=60)
                          AAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAA                                                                      >  SRR4302535.156683/1‑94 (MQ=60)
                          AAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAA                                                                      <  SRR4302535.3847331/94‑1 (MQ=60)
                          AAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGCAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAA                                                                      >  SRR4302535.4421772/1‑94 (MQ=60)
                           AACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAG                                                                     <  SRR4302535.3958365/94‑1 (MQ=60)
                           AACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAG                                                                     <  SRR4302535.4334145/94‑1 (MQ=60)
                           AACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAG                                                                     <  SRR4302535.1621525/94‑1 (MQ=60)
                             CGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCG                                                                   <  SRR4302535.4465478/94‑1 (MQ=60)
                             CGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCG                                                                   <  SRR4302535.3139869/94‑1 (MQ=60)
                             CGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCG                                                                   <  SRR4302535.3007938/94‑1 (MQ=60)
                             CGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCG                                                                   <  SRR4302535.1371337/94‑1 (MQ=60)
                             CGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCG                                                                   >  SRR4302535.236350/1‑94 (MQ=60)
                               ACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGC                                                                 >  SRR4302535.461075/1‑94 (MQ=60)
                                  AGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAG                                                              >  SRR4302535.4500487/1‑94 (MQ=60)
                                  AGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAG                                                              <  SRR4302535.2195813/94‑1 (MQ=60)
                                  AGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAG                                                              <  SRR4302535.1377585/94‑1 (MQ=60)
                                   GATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAATTCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGA                                                             >  SRR4302535.3330475/1‑94 (MQ=60)
                                    ATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAG                                                            <  SRR4302535.4359851/94‑1 (MQ=60)
                                    ATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAG                                                            <  SRR4302535.1701463/94‑1 (MQ=60)
                                    ATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAG                                                            <  SRR4302535.3477638/94‑1 (MQ=60)
                                    ATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAG                                                            <  SRR4302535.1613947/94‑1 (MQ=60)
                                    AACACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAG                                                            <  SRR4302535.4101161/94‑1 (MQ=60)
                                      CACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCG                                                          <  SRR4302535.2951037/94‑1 (MQ=60)
                                          CGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTA                                                      >  SRR4302535.2985624/1‑94 (MQ=60)
                                          CGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGGA                                                      >  SRR4302535.771352/1‑94 (MQ=60)
                                           GATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAA                                                     >  SRR4302535.3833946/1‑94 (MQ=60)
                                           GATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAA                                                     >  SRR4302535.404446/1‑94 (MQ=60)
                                            ATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAAT                                                    <  SRR4302535.2887444/94‑1 (MQ=60)
                                              GCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATAC                                                  <  SRR4302535.3238864/94‑1 (MQ=60)
                                              GCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATAC                                                  <  SRR4302535.2147168/94‑1 (MQ=60)
                                              GCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATAC                                                  <  SRR4302535.2981458/94‑1 (MQ=60)
                                               CGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCGCAAATAAAATAAGCGGCAAGAGCGAGTAATACG                                                 >  SRR4302535.3646856/1‑94 (MQ=60)
                                               CGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATATG                                                 >  SRR4302535.1325366/1‑94 (MQ=60)
                                               CGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACG                                                 >  SRR4302535.193870/1‑94 (MQ=60)
                                               CGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACG                                                 <  SRR4302535.1845110/94‑1 (MQ=60)
                                               CGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACG                                                 >  SRR4302535.1533768/1‑94 (MQ=60)
                                               CGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACG                                                 <  SRR4302535.1275045/94‑1 (MQ=60)
                                               CGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAA‑GCTGGCGCTATAGCCCAACTAAAATAAGCGGCAAGAGGGAGTAATAAG                                                 >  SRR4302535.676362/1‑94 (MQ=60)
                                               CGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAAATTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACG                                                 >  SRR4302535.328675/1‑94 (MQ=60)
                                                GTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGAGGCCAGAGCGAGTAATACGC                                                >  SRR4302535.1670514/1‑94 (MQ=60)
                                                GTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAACGGCAAGAGCGAGgaaaaagc                                                >  SRR4302535.898112/1‑86 (MQ=60)
                                                 TCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCC                                               <  SRR4302535.1616883/94‑1 (MQ=60)
                                                 TCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCC                                               <  SRR4302535.594349/94‑1 (MQ=60)
                                                   AGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCT                                             <  SRR4302535.1334614/94‑1 (MQ=60)
                                                    GGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTG                                            >  SRR4302535.4012564/1‑94 (MQ=60)
                                                           ATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTT                                     <  SRR4302535.4009315/94‑1 (MQ=60)
                                                            TCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTT                                    >  SRR4302535.1108750/1‑94 (MQ=60)
                                                             CGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTG                                   >  SRR4302535.2041633/1‑94 (MQ=60)
                                                              GGCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGT                                  <  SRR4302535.2398201/94‑1 (MQ=60)
                                                               GCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTT                                 <  SRR4302535.1249813/94‑1 (MQ=60)
                                                               GCGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTT                                 >  SRR4302535.4119838/1‑94 (MQ=60)
                                                                CGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTT                                <  SRR4302535.1935384/94‑1 (MQ=60)
                                                                CGGGCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTT                                <  SRR4302535.3753052/94‑1 (MQ=60)
                                                                   GCACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGC                             <  SRR4302535.4533110/94‑1 (MQ=60)
                                                                     ACGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCAT                           <  SRR4302535.1409491/94‑1 (MQ=60)
                                                                      CGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATC                          >  SRR4302535.879550/1‑94 (MQ=60)
                                                                      CGTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATC                          >  SRR4302535.1012258/1‑94 (MQ=60)
                                                                       GTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCC                         >  SRR4302535.1254561/1‑94 (MQ=60)
                                                                       GTAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCC                         >  SRR4302535.1212438/1‑94 (MQ=60)
                                                                       GCAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCC                         >  SRR4302535.2572723/1‑94 (MQ=60)
                                                                        TAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCA                        <  SRR4302535.1352813/94‑1 (MQ=60)
                                                                        TAGTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCA                        >  SRR4302535.589957/1‑94 (MQ=60)
                                                                          GTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATC                      <  SRR4302535.2395778/94‑1 (MQ=60)
                                                                          GTAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATC                      <  SRR4302535.4243568/94‑1 (MQ=60)
                                                                           TAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCG                     <  SRR4302535.576845/94‑1 (MQ=60)
                                                                           TAAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCG                     <  SRR4302535.323482/94‑1 (MQ=60)
                                                                            AAATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGG                    >  SRR4302535.1799273/1‑94 (MQ=60)
                                                                             AATCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGG                   >  SRR4302535.2907970/1‑94 (MQ=60)
                                                                               TCAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAA                 <  SRR4302535.2217180/94‑1 (MQ=60)
                                                                                CAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAAT                >  SRR4302535.3801360/1‑94 (MQ=60)
                                                                                CAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAAT                <  SRR4302535.2567053/94‑1 (MQ=60)
                                                                                CAACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAAT                <  SRR4302535.1217435/94‑1 (MQ=60)
                                                                                 AACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATA               >  SRR4302535.1306238/1‑94 (MQ=60)
                                                                                 AACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATA               <  SRR4302535.2688136/94‑1 (MQ=60)
                                                                                  ACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATAC              <  SRR4302535.1437199/94‑1 (MQ=60)
                                                                                  ACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATAC              <  SRR4302535.4606898/94‑1 (MQ=60)
                                                                                  ACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATAC              >  SRR4302535.2050329/1‑94 (MQ=60)
                                                                                  ACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATAC              <  SRR4302535.4281998/94‑1 (MQ=60)
                                                                                  ACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATAC              >  SRR4302535.3870292/1‑94 (MQ=60)
                                                                                  ACTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATAC              <  SRR4302535.4256722/94‑1 (MQ=60)
                                                                                   CTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACT             <  SRR4302535.189755/94‑1 (MQ=60)
                                                                                   CTTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACT             >  SRR4302535.2005416/1‑94 (MQ=60)
                                                                                    TTGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGCTTGTTTTGCATCCATCGGGAATACTC            >  SRR4302535.1590933/1‑94 (MQ=60)
                                                                                     TGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACatt           <  SRR4302535.1030362/94‑4 (MQ=60)
                                                                                     TGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACTCA           >  SRR4302535.1244908/1‑94 (MQ=60)
                                                                                     TGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACTCA           <  SRR4302535.3374519/94‑1 (MQ=60)
                                                                                     TGAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATAATCA           >  SRR4302535.2345553/1‑94 (MQ=60)
                                                                                      GAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACTCAT          <  SRR4302535.3986903/94‑1 (MQ=60)
                                                                                      GAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACTCAT          <  SRR4302535.1156178/94‑1 (MQ=60)
                                                                                      GAAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACTCAT          <  SRR4302535.1593459/94‑1 (MQ=60)
                                                                                       AAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACTCATT         <  SRR4302535.1497560/94‑1 (MQ=60)
                                                                                       AAGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACTCATT         <  SRR4302535.1943457/94‑1 (MQ=60)
                                                                                        AGTAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACTCATTT        >  SRR4302535.918861/1‑94 (MQ=60)
                                                                                          TAC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACTCATTTTT      <  SRR4302535.2245021/94‑1 (MQ=60)
                                                                                           AC‑GCTGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACTCATTTTTA     >  SRR4302535.3586119/1‑94 (MQ=60)
                                                                                              C‑TGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACTCATTTTTAATT  <  SRR4302535.1185866/94‑1 (MQ=60)
                                                                                              |                                                                                              
ATGCTCATCAGCACCACCATAAAGAAAAACGACCAGATCACGCGATGCGTCAGGATTTCATCGGCGGGCACGTAGTAAATCAACTTGAAGTAC‑G‑TGGCGCTATACCCCAAATAAAATAAGCGGCAAGAGCGAGTAATACGCCCTGCCGCGTTTGTTTTGCATCCATCGGGAATACTCATTTTTAATT  >  NC_000913/4001624‑4001810

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 2 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑