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
A2 F5 I184 R1	278	29.6	1166432	97.3%	1134938	124.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	803,404	A→C	intergenic (‑39/+20)	ybhB ← / ← bioA	kinase inhibitor/adenosylmethionine‑‑8‑amino‑7‑oxononanoate transaminase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	803,404	0	A	C	100.0%	108.7 / NA	32	intergenic (‑39/+20)	ybhB/bioA	kinase inhibitor/adenosylmethionine‑‑8‑amino‑7‑oxononanoate transaminase
Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (13/19); total (13/19)

TGCGGTGAAATATTATCGCCATCGTAACCCATGCCGTTAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAAACCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCGGGAGAATAATATAGGGCGGCATCAGGT  >  NZ_CP009273/803268‑803521

ttctgTGAATTCTTTTCGCCATCGTAACCCATGCCGTTAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAAccc                                                                                                                     <  2:481971/135‑1 (MQ=255)

                               tGCCGTTAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCaaaaa                                                                                       >  1:195845/1‑138 (MQ=255)

                               tGCCGTTAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCaaaaa                                                                                       >  2:414636/1‑138 (MQ=255)

                                    ttAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATggt                                                                                 <  1:487533/139‑3 (MQ=255)

                                    ttAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGtt                                                                                 <  1:176163/139‑1 (MQ=255)

                                    ttAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGtt                                                                                 <  1:244705/139‑1 (MQ=255)

                                    ttAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGtt                                                                                 <  1:552250/139‑1 (MQ=255)

                                    ttAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGACGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGtt                                                                                 <  1:5684/139‑1 (MQ=255)

                                     tAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTTTCAAAAAAATGtt                                                                                 <  2:185641/138‑1 (MQ=255)

                                              gACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTa                                                                       >  2:445415/1‑139 (MQ=255)

                                              gACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTa                                                                       >  1:384661/1‑139 (MQ=255)

                                                   tGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGtt                                                                                 <  1:127561/124‑1 (MQ=255)

                                                   tGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGtt                                                                                 >  2:127561/1‑124 (MQ=255)

                                                                           aGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGc                                          <  1:65144/139‑1 (MQ=255)

                                                                               cGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGc                                       >  2:240217/1‑138 (MQ=255)

                                                                                  tACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACt                                   >  1:580682/1‑139 (MQ=255)

                                                                                       atgaGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTg                               <  1:414636/138‑1 (MQ=255)

                                                                                       atgaGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGc                              >  1:348903/1‑139 (MQ=255)

                                                                                         gaGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGa                                             <  1:565779/122‑1 (MQ=255)

                                                                                         gaGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGa                                             >  2:565779/1‑122 (MQ=255)

                                                                                         gaGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCgg                            >  1:113561/1‑139 (MQ=255)

                                                                                          aGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCgg                            <  1:390312/138‑1 (MQ=255)

                                                                                          aGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCgg                            <  2:384661/138‑1 (MQ=255)

                                                                                          aGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCgg                            <  2:207200/138‑1 (MQ=255)

                                                                                          aGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCgg                            <  2:195845/138‑1 (MQ=255)

                                                                                          aGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCgg                            <  1:342303/138‑1 (MQ=255)

                                                                                           gTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCGGga                          <  1:236234/139‑1 (MQ=255)

                                                                                            tttCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCgg                            >  2:284153/1‑136 (MQ=255)

                                                                                            tttCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCgg                            >  1:229753/1‑136 (MQ=255)

                                                                                               cATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCGGGAGaa                       <  1:284153/138‑1 (MQ=255)

                                                                                                          ctTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCGGGAGAATAATATAggg             <  2:25854/137‑1 (MQ=255)

                                                                                                          ctTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCGGGAGAATAATATAggg             <  2:580682/137‑1 (MQ=255)

                                                                                                                    tGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCGGGAGAATAATATAGGGCGGCATCAGGt  >  2:581124/1‑138 (MQ=255)

TGCGGTGAAATATTATCGCCATCGTAACCCATGCCGTTAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAAACCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCGGGAGAATAATATAGGGCGGCATCAGGT  >  NZ_CP009273/803268‑803521

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 18 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

BRESEQ :: bam2aln output

CATCCCACGCCAGATGCGGTGAAATATTATCGCCATCGTAACCCATGCCGTTAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAAACCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCGGGAGAATAATATAGGGC  >  NZ_CP009273/803254‑803511

CATCCCACGCCAGATGCGGTGAAATATTATCGCCATCGTAACCCATGCCGTTAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAAC                                                                                                             <  SRR3722139.393214/151‑1 (MQ=60)

                                  ATCGTAACCCATGCCGTTAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAA                                                                            >  SRR3722139.198262/1‑150 (MQ=60)

                                                 gacagAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTAC                                                            <  SRR3722139.129126/146‑1 (MQ=60)

                                                 GTTAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTAC                                                            >  SRR3722139.389242/1‑151 (MQ=60)

                                                 GTTAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTAC                                                            <  SRR3722139.558598/151‑1 (MQ=60)

                                                 GTTAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTAC                                                            <  SRR3722139.247752/151‑1 (MQ=60)

                                                 GTTAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTAC                                                            <  SRR3722139.178351/151‑1 (MQ=60)

                                                 GTTAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGGTTCATCCTGTAC                                                            <  SRR3722139.493202/151‑1 (MQ=60)

                                                 GTTAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGACGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTAC                                                            <  SRR3722139.5739/151‑1 (MQ=60)

                                                                                     gagacagTCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTG                        <  SRR3722139.572269/144‑1 (MQ=60)

                                                                                     GCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTG                        >  SRR3722139.587289/1‑151 (MQ=60)

                                                                                        CAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTG                     <  SRR3722139.65929/151‑1 (MQ=60)

                                                                                          GATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCG                   >  SRR3722139.353126/1‑151 (MQ=60)

                                                                                            TCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCGGG                 >  SRR3722139.114927/1‑151 (MQ=60)

                                                                                               TTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCGGG                 >  SRR3722139.232593/1‑148 (MQ=60)

                                                                                                    GATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCGGGAGAATAA          <  SRR3722139.419560/150‑1 (MQ=60)

                                                                                                       GAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCGGGAGAATAATAT       <  SRR3722139.346464/150‑1 (MQ=60)

                                                                                                       GAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCGGGAGAATAATAT       <  SRR3722139.394949/150‑1 (MQ=60)

                                                                                                        AGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCGGGAGAATAATATAG     <  SRR3722139.239154/151‑1 (MQ=60)

                                                                                                            TCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAACCCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCGGGAGAATAATATAGGGC  <  SRR3722139.287730/150‑1 (MQ=60)

CATCCCACGCCAGATGCGGTGAAATATTATCGCCATCGTAACCCATGCCGTTAAAGACATGACGATGCGGCAATTTATCGCCATCGCGCAGATCGTTACTGATGAGTTTCATGAACCCTCCTTTCTTGTTTGCAGAAAGTGTAGCCAGAAACCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGCGCGGTTAACCGCTGCGGTCAGACGCTGCAACTGTTGCGGGAGAATAATATAGGGC  >  NZ_CP009273/803254‑803511

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 0 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`