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
A9 F110 I0 R1	50	71.1	1529928	95.4%	1459551	140.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	1,233,504	T→A	100%	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	100.0%	129.9 / ‑6.5	45	V470D (GTT→GAT)	USA300HOU_1157	non‑specific serine/threonine protein kinase
Reads supporting (aligned to +/- strand): ref base T (0/0); major base A (31/13); minor base G (1/0); total (32/13)
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTAGGCATTAAGCAAGTTTATG  >  CP000730/1233371‑1233641

gAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGAtt                                                                                                                                    <  1:606998/141‑1 (MQ=255)

    gtgtTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTCAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGACTGaaa                                                                                                                                >  2:107091/1‑141 (MQ=255)

       ttGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAg                                                                                                                             >  1:716525/1‑141 (MQ=255)

        tGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAGGATGATACGCTTGAAAAAGt                                                                                                                            >  2:579176/1‑141 (MQ=255)

             gtggtgACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGtatata                                                                                                                       >  1:631320/1‑141 (MQ=255)

               ggtgACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTCAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATataat                                                                                                                     >  1:117952/1‑141 (MQ=255)

               ggtgACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATataat                                                                                                                     >  1:177048/1‑141 (MQ=255)

                gtgACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATataata                                                                                                                    >  1:657516/1‑141 (MQ=255)

                          tGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGcc                                                                                                          >  1:498537/1‑141 (MQ=255)

                          tGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGcc                                                                                                          >  1:498882/1‑141 (MQ=255)

                                        ataaGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTGTACCTAAGTAGGAAGCCCTGGAGAAATTAAAATCTCGAGGTCTTAAAGATGAGACTATCGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACGTTg                                                                                            <  2:372489/139‑1 (MQ=255)

                                        aaaaGGGCCCTGACCAGCTTATAATTCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAACGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTg                                                                                            <  1:342709/140‑1 (MQ=255)

                                             ggCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATACTCAAGCGCCAAAAGGATACATTGCacca                                                                                       >  2:387648/1‑138 (MQ=255)

                                                      aaGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAAGGGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATAGATTGCACATGAAAATGTa                                                                              >  1:124978/1‑141 (MQ=255)

                                                         gTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAAcc                                                                           >  1:282266/1‑141 (MQ=255)

                                                         gTTAAAATGCCAAATGTCATAGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGTAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAAcc                                                                           >  2:414486/1‑141 (MQ=255)

                                                            aaaaTGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCa                                                                        <  1:68288/141‑1 (MQ=255)

                                                                  ccagacgtccaacgTTTACCGAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACt                                                                  >  2:166270/14‑141 (MQ=255)

                                                                        gTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGGTGGTAAGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACGTGGCAAATCAAAGTGTAACCGCAAATACTGAAAta                                                            >  1:113385/1‑140 (MQ=255)

                                                                         tCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCg                                                           >  1:299022/1‑141 (MQ=255)

                                                                         tCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCg                                                           >  2:312119/1‑141 (MQ=255)

                                                                                 ttACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCAt                                                   <  2:741704/141‑1 (MQ=255)

                                                                                  tACCTAAGAAGGAAGCCCTGAAGAAATTAAAACCGTTAGGCTTTAAAGACGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAATGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATg                                                  <  1:47777/141‑1 (MQ=255)

                                                                                   aCCTAAGGAGGAAGCGTTGAAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAATATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGa                                                 >  1:567204/1‑141 (MQ=255)

                                                                                   aCCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCAtaa                                                 >  2:561658/1‑139 (MQ=255)

                                                                                    ccTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGAt                                                >  2:45714/1‑141 (MQ=255)

                                                                                         ggaggaAGCCTTGCAGAAATTAAACTCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTaa                                           >  1:483333/1‑141 (MQ=255)

                                                                                           aggaAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATGGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAata                                         >  1:332235/1‑141 (MQ=255)

                                                                                            agaAACCTTGCATAAATTAAAATCGTTAGTTCTTAAAGATGATAAGATTTAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAatat                                        <  2:489225/140‑1 (MQ=255)

                                                                                               aGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTaa                                     >  1:237439/1‑141 (MQ=255)

                                                                                               aGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTaa                                     >  1:437446/1‑141 (MQ=255)

                                                                                               aGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTaa                                     >  1:631786/1‑141 (MQ=255)

                                                                                                     gCAGAAATTAAAATCGTTAGGAAACAAAGAGTATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACtata                               >  2:735137/1‑141 (MQ=255)

                                                                                                       aGAAATTAAAATCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATCTg                             >  2:645795/1‑141 (MQ=255)

                                                                                                              aaaaTCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCttt                      <  1:136805/141‑1 (MQ=255)

                                                                                                                 aTCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTAgg                   <  2:631320/141‑1 (MQ=255)

                                                                                                                  tCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTCATATTAAACTATATGAATCTTTAGGc                  >  2:317995/1‑141 (MQ=255)

                                                                                                                  tCGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTAGGc                  <  2:750646/141‑1 (MQ=255)

                                                                                                                  tCGCTAGGGCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGGTTAACCGCAAAAACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTAGGc                  <  2:360261/141‑1 (MQ=255)

                                                                                                                   cGTTAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTAGGCa                 >  2:269984/1‑141 (MQ=255)

                                                                                                                      tAGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTCTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTAGGCATTa              >  2:566135/1‑141 (MQ=255)

                                                                                                                       aGGTCTTAAAGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTAGGCATTaa             <  1:312119/141‑1 (MQ=255)

                                                                                                                              aaaGATGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATATTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTTGGCATTAAGCAAgat      >  1:749799/1‑139 (MQ=255)

                                                                                                                                  aTGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTAGGCATTAAGCAAGTTTATg  <  1:158469/141‑1 (MQ=255)

                                                                                                                                  aTGATACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTAGGCATTAAGCAAGTTTATg  >  1:656743/1‑141 (MQ=255)

GAACGTGTTGAACGTGGTGACAGTGTTGATGTTGTTATATCAAAGGGCCCTGAAAAGGTTAAAATGCCAAATGTCATTGGTTTACCTAAGGAGGAAGCCTTGCAGAAATTAAAATCGTTAGGTCTTAAAGATGTTACGATTGAAAAAGTATATAATAATCAAGCGCCAAAAGGATACATTGCAAATCAAAGTGTAACCGCAAATACTGAAATCGCTATTCATGATTCTAATATTAAACTATATGAATCTTTAGGCATTAAGCAAGTTTATG  >  CP000730/1233371‑1233641

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A