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
A5 F58 I0 R1	54	56.9	1222162	95.8%	1170831	141.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	1,233,504	T→A	15.8%	V470D (GTT→GAT)	USA300HOU_1157 →	non‑specific serine/threonine protein kinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,233,504	0	T	A	15.8%	137.6 / 13.5	55	V470D (GTT→GAT)	USA300HOU_1157	non‑specific serine/threonine protein kinase
Reads supporting (aligned to +/- strand): ref base T (29/17); new base A (3/6); total (32/23)
Fisher's exact test for biased strand distribution p-value = 1.43e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ACTGGTGAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTAGGCATTAAGCAAGTTTATGTA  >  CP000730/1233365‑1233643

aCTGGTGAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGtt                                                                                                                                            >  2:349664/1‑141 (MQ=255)

aCTGGTGAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGtt                                                                                                                                            <  2:351125/141‑1 (MQ=255)

  tGGTGAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATAc                                                                                                                                          >  1:153899/1‑141 (MQ=255)

       aaCGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTg                                                                                                                                     <  2:133558/141‑1 (MQ=255)

           tgtTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGaaaa                                                                                                                                 <  1:562062/141‑1 (MQ=255)

             ttGAACGTGGTGACAGTGTTGATGTGGTTATCTCAAAGGGCCCTGAAAGGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGAAAGCCTTGCAGAAAGTAAAATCGTTAGGTCTTAAAGATGTTCGGATTGaacagg                                                                                                                               >  2:579945/1‑137 (MQ=255)

                aaCGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGACTTGCAGAAATTAAAATCGTTAGGTCTTAAAGTTGTTATGGTTGAAAAAGttt                                                                                                                            >  2:13735/1‑139 (MQ=255)

                  cgtcgtGACAGTGTTGATGTTGTTATATCAAAGCGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGCTTGAAAAAGtatat                                                                                                                          >  2:84065/1‑141 (MQ=255)

                        gACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAACTGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATaataat                                                                                                                    >  2:174058/1‑141 (MQ=255)

                        gACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGGTGGAAAAAGTATATaataat                                                                                                                    >  2:559818/1‑141 (MQ=255)

                          cAGTGTTGATGTTGTTATATCAAAGGGCCCTGAGAAGGTTAAAATGTCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATTATCa                                                                                                                  <  1:414593/141‑1 (MQ=255)

                              gtTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAgcg                                                                                                              <  1:84604/141‑1 (MQ=255)

                                tGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGcc                                                                                                            <  2:571511/141‑1 (MQ=255)

                                      tgttATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCCAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAgg                                                                                                      <  2:181532/141‑1 (MQ=255)

                                       gttATATCCAAGGCCCCTGAAAAGGTTAAAATGCAAAATGTTATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGa                                                                                                     <  1:204285/141‑1 (MQ=255)

                                          atatCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGGAAAAGTATATAATAATCAAGCGCCAAAAGGATAc                                                                                                  >  1:203610/1‑141 (MQ=255)

                                          atatCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATaa                                                                                                  >  1:151332/1‑140 (MQ=255)

                                             tCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACAtt                                                                                               >  1:244609/1‑141 (MQ=255)

                                               aaaGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGc                                                                                             >  1:519196/1‑141 (MQ=255)

                                                   ggCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAAt                                                                                         >  2:360742/1‑141 (MQ=255)

                                                   ggCCCTG‑AAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATc                                                                                        <  1:71355/141‑1 (MQ=255)

                                                      ccTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCaa                                                                                      <  1:562952/141‑1 (MQ=255)

                                                        cgAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCACATGGTTACATTGCAAATCAAAg                                                                                    <  1:297512/140‑1 (MQ=255)

                                                           caaGGTGGAAAGGCCAAAGGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGAGTGAAAACGTATATAATAAGCAAGCGCCAAAAGGATACATTGCAATTCAAAgtgt                                                                                 <  2:392716/140‑1 (MQ=255)

                                                              ggTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCACAAGGATACATTGAAAATCAAAGTGTAAc                                                                              >  1:270576/1‑141 (MQ=255)

                                                               gTTAAAATGCCAAATGTCATTGGTTTACCTGAGGAGGAAGCCTTGGAGAAATTAAAATCGTTAGGGCTTAAAGATGTTACGATGGAAAAAGTATATAATATTCAAGCGCCAAAAGTATACATTGAAAATCAAAGTTTAAcc                                                                             >  1:76671/1‑141 (MQ=255)

                                                                 tAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGc                                                                           >  2:219219/1‑141 (MQ=255)

                                                                 tAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACAGc                                                                           >  2:609736/1‑141 (MQ=255)

                                                                       gCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATAc                                                                     >  1:211588/1‑141 (MQ=255)

                                                                             tGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGGGTAACCGCAAATACTGAAAt                                                               >  1:204470/1‑141 (MQ=255)

                                                                                taTTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGc                                                            <  2:477480/140‑1 (MQ=255)

                                                                                catgtgTTCACCTAAGGAGGAAGCCCAGCAGAAATTAAAATCGTTAGGCCTTAAAGATAAAAAGAATAAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGc                                                            <  2:305298/136‑1 (MQ=255)

                                                                                cATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGc                                                            <  1:235914/141‑1 (MQ=255)

                                                                                              aggaggAAGCCTTGCAGAACTTAAATACGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTa                                              >  2:131480/1‑141 (MQ=255)

                                                                                               ggaggaAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTaa                                             <  2:563656/141‑1 (MQ=255)

                                                                                                  ggaAGCCTTGCAGAAATTAAAATCGTTAGTTCTTAAAGATGATACGAAAAAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAatat                                          <  2:487137/141‑1 (MQ=255)

                                                                                                    aaGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTa                                        >  1:463412/1‑141 (MQ=255)

                                                                                                     aGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGAGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTaa                                       >  1:115734/1‑141 (MQ=255)

                                                                                                      gCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTaaa                                      >  1:64645/1‑141 (MQ=255)

                                                                                                      gCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTaaa                                      >  1:558095/1‑141 (MQ=255)

                                                                                                      gCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTaaa                                      >  1:558393/1‑141 (MQ=255)

                                                                                                       ccTTGCAGAAATTAAAATCTTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATCCATGATTCTAATATTAAAc                                     <  1:474223/141‑1 (MQ=255)

                                                                                                       ccTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAAc                                     <  2:153899/141‑1 (MQ=255)

                                                                                                        cTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAAAACTGAAATCGCTATTCATGATTCTAATATTAAACt                                    >  2:30920/1‑141 (MQ=255)

                                                                                                             aGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATg                               <  1:560297/141‑1 (MQ=255)

                                                                                                                aaTTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAAt                            >  1:92088/1‑141 (MQ=255)

                                                                                                                aaTTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCACCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAAt                            >  1:373953/1‑141 (MQ=255)

                                                                                                                  ttAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCt                          <  2:516719/141‑1 (MQ=255)

                                                                                                                    aaaaTCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCGAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTACTTTTAAACTATATGAATAttt                        >  1:86604/1‑141 (MQ=255)

                                                                                                                         cGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATTCTTGAATCGCTATTCAGTATTCTAATATTAAACTATATGAATCTTTAGGCa                   <  1:144068/141‑1 (MQ=255)

                                                                                                                         cGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTAGGCa                   >  2:458007/1‑141 (MQ=255)

                                                                                                                             aGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTAGGCATTaa               <  1:360742/141‑1 (MQ=255)

                                                                                                                              ggTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTAGGCATTaac              >  1:596195/1‑140 (MQ=255)

                                                                                                                              ggTCTTAAAAGTTTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAACGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTCTTCATGATTCTAATATTAAACTATATGAATCTCTAGGCATTAAg              <  2:206636/141‑1 (MQ=255)

                                                                                                                                   tAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGTGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATATTTAGGCATAAAGCAGGt         >  1:340553/1‑141 (MQ=255)

                                                                                                                                       gATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTAGGCATTAAGCAAGTTTAt     >  2:189071/1‑141 (MQ=255)

                                                                                                                                          gTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATAGGAATCTTTAGGCATTAAGCAAGGTTATGTa  >  1:112082/1‑141 (MQ=255)

ACTGGTGAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTAGGCATTAAGCAAGTTTATGTA  >  CP000730/1233365‑1233643

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A