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 F2 I206 R1	206	23.7	1314362	96.8%	1272302	86.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	4,034,572	T→G	Q74H (CAA→CAC)	mobB ←	molybdopterin‑guanine dinucleotide biosynthesis protein MobB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	4,034,572	0	T	G	100.0%	96.8 / NA	30	Q74H (CAA→CAC)	mobB	molybdopterin‑guanine dinucleotide biosynthesis protein MobB
Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (12/18); total (12/18)

TCCAGCTTTGAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGTTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCATG  >  NZ_CP009273/4034486‑4034658

tCCAGCTTTGAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTgc                                                                                     <  1:633595/90‑1 (MQ=255)

  cAGCTTTGAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTgctg                                                                                   >  1:262529/1‑90 (MQ=255)

              aTCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGAt                                                                       >  1:610201/1‑90 (MQ=255)

                   ttCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGttt                                                                  >  1:125953/1‑90 (MQ=255)

                      gACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTtgtg                                                               <  2:544076/90‑1 (MQ=255)

                      gACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTtgtg                                                               >  1:137643/1‑90 (MQ=255)

                        cTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGcc                                                             <  2:140101/90‑1 (MQ=255)

                                       aGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTgcgc                                              <  2:607389/90‑1 (MQ=255)

                                          tCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGc                                           >  2:255258/1‑90 (MQ=255)

                                           ccAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCt                                          <  2:55517/90‑1 (MQ=255)

                                             aGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCa                                        >  1:192589/1‑90 (MQ=255)

                                             aGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCa                                        >  1:322749/1‑90 (MQ=255)

                                                 cttcttCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGc                                    <  2:269407/90‑1 (MQ=255)

                                                  ttcttcGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCt                                   <  2:76694/90‑1 (MQ=255)

                                                   tcttcGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTa                                  >  1:651334/1‑90 (MQ=255)

                                                   tcttcGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTa                                  >  2:448625/1‑90 (MQ=255)

                                                           tGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGcc                          >  2:271681/1‑90 (MQ=255)

                                                              tgtTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTgg                       >  1:10904/1‑90 (MQ=255)

                                                                     gTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCa                <  1:653686/90‑1 (MQ=255)

                                                                       catcaAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCa                <  2:86844/88‑1 (MQ=255)

                                                                       catcaAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCa                >  1:86844/1‑88 (MQ=255)

                                                                       catcaAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAAc              <  1:330991/90‑1 (MQ=255)

                                                                        atcaAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACa             <  2:610201/90‑1 (MQ=255)

                                                                        atcaAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACa             <  1:139144/90‑1 (MQ=255)

                                                                          caAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATc           <  2:1413/90‑1 (MQ=255)

                                                                          caAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATc           <  2:125953/90‑1 (MQ=255)

                                                                          caAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATc           <  1:413462/90‑1 (MQ=255)

                                                                            aGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCa         <  2:202037/90‑1 (MQ=255)

                                                                            aGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCa         <  1:546908/90‑1 (MQ=255)

                                                                                   tCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCATg  <  1:232843/90‑1 (MQ=255)

TCCAGCTTTGAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGTTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCATG  >  NZ_CP009273/4034486‑4034658

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

BRESEQ :: bam2aln output

CAGAATCAAATCCAGCTTTGAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGTTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCATGGTGCGTATGCTTA  >  NZ_CP009273/4034476‑4034671

acagATCAAATCCAGCTTTGAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGC                                                                                                  <  SRR3722088.99448/96‑1 (MQ=60)

  GAATCAAATCCAGCTTTGAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTG                                                                                                >  SRR3722088.265075/1‑100 (MQ=60)

          TCCAGCTTTGAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAA                                                                                        <  SRR3722088.641429/100‑1 (MQ=60)

              GCTTTGAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGAT                                                                                    >  SRR3722088.617725/1‑100 (MQ=60)

                   GAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTT                                                                               >  SRR3722088.127258/1‑100 (MQ=60)

                      GTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTG                                                                            >  SRR3722088.139058/1‑100 (MQ=60)

                                             CTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCA                                                     >  SRR3722088.194512/1‑100 (MQ=60)

                                             CTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCA                                                     >  SRR3722088.326051/1‑100 (MQ=60)

                                                   ATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTA                                               >  SRR3722088.659402/1‑100 (MQ=60)

                                                              CTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGG                                    >  SRR3722088.11029/1‑100 (MQ=60)

                                                                       GTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAAC                           >  SRR3722088.87716/1‑100 (MQ=60)

                                                                               GTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATAT                   <  SRR3722088.661787/100‑1 (MQ=60)

                                                                                 CATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCA                 <  SRR3722088.334420/100‑1 (MQ=60)

                                                                                  agacAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCAT                <  SRR3722088.280066/96‑1 (MQ=60)

                                                                                  ATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCAT                <  SRR3722088.140570/100‑1 (MQ=60)

                                                                                    CAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCATGG              <  SRR3722088.418029/100‑1 (MQ=60)

                                                                                      AGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCATGGTG            <  SRR3722088.553583/100‑1 (MQ=60)

                                                                                             TCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCATGGTGCGTATGC     <  SRR3722088.235150/100‑1 (MQ=60)

                                                                                                GTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCATGGTGCGTATGCTTA  >  SRR3722088.310307/1‑100 (MQ=60)

                                                                                                GTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCATGGTGCGTATGCTTA  >  SRR3722088.659908/1‑100 (MQ=60)

CAGAATCAAATCCAGCTTTGAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGTTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCATGGTGCGTATGCTTA  >  NZ_CP009273/4034476‑4034671

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 0 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`