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 F55 I0 R1 2523 96.7 4820918 92.8% 4473811 133.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,610,582 T→C 20.2% intergenic (‑17/‑55) PP_4929 ← / → emrE LysR family transcriptional regulator/small multidrug resistance protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,610,5820TC20.2% 201.0 / 42.1 99intergenic (‑17/‑55)PP_4929/emrELysR family transcriptional regulator/small multidrug resistance protein
Reads supporting (aligned to +/- strand):  ref base T (41/37);  new base C (11/9);  total (52/47)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.02e-01

GGCACTGCTGATCGCCGACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCGATGAAGGCGGTGAAAGGCCTGAGCACGCCGTTGC  >  NC_002947/5610434‑5610730
                                                                                                                                                    |                                                                                                                                                     
ggCACTGCTGATCGCCGACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACtt                                                                                                                                                      <  1:1255722/150‑1 (MQ=255)
  cACTGCTGATCGCCGACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTa                                                                                                                                                    <  1:828050/150‑1 (MQ=255)
    ctgctgATCGCCGACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑cc                                                                                                                                                 <  2:984991/150‑1 (MQ=255)
       ctgATCGCCGACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACCTTA‑CCCCa                                                                                                                                              >  2:1006214/1‑150 (MQ=255)
            cGCCGACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAg                                                                                                                                         <  1:916780/150‑1 (MQ=255)
                gACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCaa                                                                                                                                     >  2:747653/1‑150 (MQ=255)
                gACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCaa                                                                                                                                     <  2:1736852/150‑1 (MQ=255)
                    gggCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACCTTA‑CCCCATCCAGGCAACGTc                                                                                                                                 <  1:360752/150‑1 (MQ=255)
                     ggCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCt                                                                                                                                >  1:860947/1‑150 (MQ=255)
                      gCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACCTTA‑CCCCATCCAGGCAACGTCTa                                                                                                                               <  1:1006214/150‑1 (MQ=255)
                       cTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAg                                                                                                                              <  2:860947/150‑1 (MQ=255)
                       cTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAg                                                                                                                              >  1:1744781/1‑150 (MQ=255)
                                  tCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTc                                                                                                                   >  1:1827235/1‑150 (MQ=255)
                                  tCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTc                                                                                                                   >  1:936757/1‑150 (MQ=255)
                                    aCGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAAGGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAg                                                                                                                 >  1:1999945/1‑150 (MQ=255)
                                           aCCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACgga                                                                                                          >  1:953095/1‑150 (MQ=255)
                                                       gAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCAt                                                                                              <  1:1356020/150‑1 (MQ=255)
                                                       gAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCAt                                                                                              >  1:1996005/1‑150 (MQ=255)
                                                         gcgcAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGa                                                                                            >  1:179839/1‑150 (MQ=255)
                                                         gcgcAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGa                                                                                            >  2:2152358/1‑150 (MQ=255)
                                                           gcAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAAt                                                                                          <  2:1744781/150‑1 (MQ=255)
                                                           gcAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAAt                                                                                          <  2:224807/150‑1 (MQ=255)
                                                           gcAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAAt                                                                                          >  2:250721/1‑150 (MQ=255)
                                                           gcAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACCTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAAt                                                                                          >  1:2375210/1‑150 (MQ=255)
                                                             aGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGTCCATCAACCTATCTCCCATATGGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGc                                                                                        >  1:557171/1‑150 (MQ=255)
                                                             aGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGc                                                                                        <  1:747653/150‑1 (MQ=255)
                                                             aGTTCTGCAACGCGCAGAAAGGTACGCAATCGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGc                                                                                        <  1:2065813/150‑1 (MQ=255)
                                                               ttCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCt                                                                                      <  2:1259894/150‑1 (MQ=255)
                                                                  tGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACCTTA‑CCCCATCCAGGCAACGTc                                                                                                                                 <  1:1704525/104‑1 (MQ=255)
                                                                  tGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACCTTA‑CCCCATCCAGGCAACGTc                                                                                                                                 >  2:1704525/1‑104 (MQ=255)
                                                                   gCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTAtac                                                                                  <  1:2152358/150‑1 (MQ=255)
                                                                    cAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACgga                                                                                                          >  1:2120428/1‑125 (MQ=255)
                                                                    cAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACgga                                                                                                          <  2:2120428/125‑1 (MQ=255)
                                                                        gcgcAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATc                                                                                                                                            <  2:1385573/87‑1 (MQ=255)
                                                                        gcgcAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATc                                                                                                                                            >  1:1385573/1‑87 (MQ=255)
                                                                          gcAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTc                                                                           <  2:1996005/150‑1 (MQ=255)
                                                                                aGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTACCTCCCCTATACAACGATGTTGTCGTCG‑TCCTCTCCAGTTTACGGTTAGGATGCCCTTGCAGTATCGGATGATCCTGCCATGAATGCCTATACCTACCTCGCCAtt                                                                     <  2:2079155/150‑1 (MQ=255)
                                                                                 ggTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACCTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTg                                                                    <  1:2032491/150‑1 (MQ=255)
                                                                                   tACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCt                                                                                      <  1:2252320/130‑1 (MQ=255)
                                                                                   tACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCt                                                                                      >  2:2252320/1‑130 (MQ=255)
                                                                                   tACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGcc                                                                  <  2:1999945/150‑1 (MQ=255)
                                                                                       cAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGCAATGAACTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCt                                                              >  2:2134623/1‑150 (MQ=255)
                                                                                        aaTTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCta                                                                                     <  1:2196125/126‑1 (MQ=255)
                                                                                        aaTTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCta                                                                                     >  2:2196125/1‑126 (MQ=255)
                                                                                         aTTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCa                                                                 <  1:460649/145‑1 (MQ=255)
                                                                                         aTTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCa                                                                 >  2:460649/1‑145 (MQ=255)
                                                                                             ttCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGcc                                                                                       >  1:2258370/1‑119 (MQ=255)
                                                                                             ttCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGcc                                                                                       <  2:2258370/119‑1 (MQ=255)
                                                                                             ttCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCg                                                        >  2:116901/1‑150 (MQ=255)
                                                                                              tCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCATGAACGGAGGATCCTGCCATGAATGc                                                                                        <  1:2130877/117‑1 (MQ=255)
                                                                                              tCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGc                                                                                        >  2:2130877/1‑117 (MQ=255)
                                                                                               cAAGGTTCCACTGCTCTGCAATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGaa                                                      <  1:116901/150‑1 (MQ=255)
                                                                                               cAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGaa                                                      <  2:1827235/150‑1 (MQ=255)
                                                                                               cAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGaa                                                      <  1:105788/150‑1 (MQ=255)
                                                                                                aaGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAg                                                     >  1:1284020/1‑150 (MQ=255)
                                                                                                aaGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAg                                                     >  2:2298646/1‑150 (MQ=255)
                                                                                                aaGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCAAAg                                                     >  2:1857815/1‑150 (MQ=255)
                                                                                                 aGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACCTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAAt                                                                                          <  2:867961/112‑1 (MQ=255)
                                                                                                 aGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACCTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAAt                                                                                          >  1:867961/1‑112 (MQ=255)
                                                                                                       cACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACCTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGc                                              >  1:390922/1‑150 (MQ=255)
                                                                                                        aCTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACCTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCAt                                                                                              >  1:1743096/1‑101 (MQ=255)
                                                                                                        aCTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACCTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCAt                                                                                              <  2:1743096/101‑1 (MQ=255)
                                                                                                           gCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACgga                                                                                                          >  2:1055277/1‑86 (MQ=255)
                                                                                                           gCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACgga                                                                                                          <  1:1055277/86‑1 (MQ=255)
                                                                                                           gCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAATGCGAGAGAACGCAGTAGCGAAGGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCAcc                                          >  1:1489128/1‑150 (MQ=255)
                                                                                                             tCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAAc                                                                                                                                    <  1:1998470/58‑1 (MQ=255)
                                                                                                             tCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAAc                                                                                                                                    >  2:1998470/1‑58 (MQ=255)
                                                                                                             tCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGc                                        >  2:1429025/1‑150 (MQ=255)
                                                                                                               ggCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCt                                      >  2:1044825/1‑150 (MQ=255)
                                                                                                               ggCCATCAACCTATCTCCCATATCGATAGGTAATGACCTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCt                                      >  2:1643915/1‑150 (MQ=255)
                                                                                                                   aTCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCGAt                                  <  1:1429025/150‑1 (MQ=255)
                                                                                                                   aTCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCGAt                                  <  2:1284020/150‑1 (MQ=255)
                                                                                                                   aTCAACCTATCTCCCATATCGATAGGTAATGACCTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTc                                     <  1:31845/147‑1 (MQ=255)
                                                                                                                   aTCAACCTATCTCCCATATCGATAGGTAATGACCTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTc                                     >  2:31845/1‑147 (MQ=255)
                                                                                                                   aTCAACCTATCTCCCATATCGATAGGTAATGACCTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCGAt                                  <  2:2375210/150‑1 (MQ=255)
                                                                                                                    tCAACCTATCTCCCATATCGATAGGTAATGACCTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCGATg                                 >  1:1318654/1‑150 (MQ=255)
                                                                                                                     cAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTAGCCAAAGCGATCTGTGCCGAAGTCATCGCCACCGCCTCGATGa                                >  2:1999257/1‑150 (MQ=255)
                                                                                                                       aCCTATCTCCCATATCGATAGGTAATGACCTTACCCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCGATGaa                               >  1:1502367/1‑150 (MQ=255)
                                                                                                                        ccTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCGATGAAgg                             >  2:2300471/1‑150 (MQ=255)
                                                                                                                          tATCTCCCATATCGATAGGTAATGACCTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCGATGAAGGCg                           <  1:1447175/150‑1 (MQ=255)
                                                                                                                              tcCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCg                                    >  1:1804833/1‑137 (MQ=255)
                                                                                                                              tcCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCg                                    <  2:1804833/137‑1 (MQ=255)
                                                                                                                                ccATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGaa                                                      <  1:1915045/117‑1 (MQ=255)
                                                                                                                                ccATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGaa                                                      >  2:1915045/1‑117 (MQ=255)
                                                                                                                                ccATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATc                                                >  2:281261/1‑123 (MQ=255)
                                                                                                                                ccATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATc                                                <  1:281261/123‑1 (MQ=255)
                                                                                                                                ccATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCGATGAAGGCGGTGaaa                     <  1:2300471/150‑1 (MQ=255)
                                                                                                                                 cATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTTCATCGAGGCGGTggcga                    <  2:936757/150‑5 (MQ=255)
                                                                                                                                 cATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCGATGAAGGCGGTGAAAg                    <  1:250721/150‑1 (MQ=255)
                                                                                                                                         tAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCGATGAAGGCGGTGAAAGGCCTGAGc            >  2:863308/1‑150 (MQ=255)
                                                                                                                                         tAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCGATGAAGGCGGTGAAAGGCCTGAGc            >  1:1800246/1‑150 (MQ=255)
                                                                                                                                           ggTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCGATGAAGGCGGTGAAAGGCCTGAGCAc          >  1:480665/1‑150 (MQ=255)
                                                                                                                                           ggTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCGATGAAGGCGGTGAAAGGCCTGAGCAc          >  2:1701072/1‑150 (MQ=255)
                                                                                                                                             tAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCGATGAAGGCGGTGAAAGGCCTGa              >  1:107093/1‑144 (MQ=255)
                                                                                                                                             tAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCGATGAAGGCGGTGAAAGGCCTGa              <  2:107093/144‑1 (MQ=255)
                                                                                                                                              aaTGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCGATGAAGGCGGt                         >  1:1781121/1‑132 (MQ=255)
                                                                                                                                              aaTGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCGATGAAGGCGGt                         <  2:1781121/132‑1 (MQ=255)
                                                                                                                                                tGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTAtac                                                                                  <  2:2136160/73‑1 (MQ=255)
                                                                                                                                                tGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTAtac                                                                                  >  1:2136160/1‑73 (MQ=255)
                                                                                                                                                   cTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCGATGAAGGCGGTGAAAGGCCTGAGCACGCCGTTGc  >  1:748929/1‑150 (MQ=255)
                                                                                                                                                    |                                                                                                                                                     
GGCACTGCTGATCGCCGACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTA‑CCCCATCCAGGCAACGTCTAGAATGCCCGCTCAGTAACGGAGGATCCTGCCATGAATGCCTATACCTACCTCGCCATTGCCATCTGCGCCGAAGTCATCGCCACCGCCTCGATGAAGGCGGTGAAAGGCCTGAGCACGCCGTTGC  >  NC_002947/5610434‑5610730

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