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 I181 R1	159	32.7	1279082	96.9%	1239430	121.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	483,263	T→C	D424D (GAT→GAC)	mscK →	mechanosensitive channel MscK

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	483,263	0	T	C	100.0%	97.8 / NA	26	D424D (GAT→GAC)	mscK	mechanosensitive channel MscK
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (12/14); total (12/14)

ACCAGCAGCGTGATGCACTCTTCCAGAGCGATGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGATCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTCGAAAAACCTGAAATCCATCCTGACTCAGCAAATCTTTTGGGTGAACAGTAACC  >  NZ_CP009273/483130‑483396

aCCAGCAGCGTGATGCACTCTTCCAGAGCGATGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGAccaact                                                                                                                                  >  1:445916/1‑139 (MQ=255)

aCCAGCAGCGTGATGCACTCTTCCAGAGCGATGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGAccaact                                                                                                                                  >  1:448333/1‑139 (MQ=255)

     cagcGTGATGCACTCTTCCAGAGCGATGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGAccaactcaac                                                                                                                              >  2:621776/1‑138 (MQ=255)

        cGTGATGCACTCTTCCAGAGCGATGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCaacaaac                                                                                                                          <  1:586045/139‑1 (MQ=255)

                    ttCCAGAGCGATGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCACCAGCGAAGTTCCCGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCGGGACCAACTCAACAAACAGTTGGGTAccc                                                                                                              >  2:519050/1‑139 (MQ=255)

                      ccAGAGCGATGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAAc                                                                                                               <  1:122310/136‑1 (MQ=255)

                         gagCGATGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAg                                                                                                            >  1:306694/1‑136 (MQ=255)

                         gagCGATGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAg                                                                                                            <  2:306694/136‑1 (MQ=255)

                              aTGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGAccaactcaac                                                                                                                              <  1:460264/113‑1 (MQ=255)

                              aTGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGAccaactcaac                                                                                                                              >  2:460264/1‑113 (MQ=255)

                                                  gaagaaGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATc                                                                                 >  1:316297/1‑138 (MQ=255)

                                                    agaagGTCACACCAACGAAGTCAACAGCGTAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAAc                                                                              <  2:304432/139‑1 (MQ=255)

                                                        ggTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCaaa                                                                                   <  1:573798/130‑1 (MQ=255)

                                                        ggTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAAACTGCaaa                                                                                   >  2:573798/1‑130 (MQ=255)

                                                          tCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACcagcag                                                                        <  2:128147/139‑1 (MQ=255)

                                                          tCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACcagcag                                                                        <  2:621016/139‑1 (MQ=255)

                                                          tCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACcagcag                                                                        <  2:448333/139‑1 (MQ=255)

                                                                       gTCAACAGCGAAGTTCACGATGCGTTATTGCATGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAg                                                                                                            <  1:587696/90‑1 (MQ=255)

                                                                       gTCAACAGCGAAGTTCACGATGCGTTATTGCATGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAg                                                                                                            >  2:587696/1‑90 (MQ=255)

                                                                            cAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTc                                                       >  2:507391/1‑138 (MQ=255)

                                                                                    ttCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGc                                                                                                           >  1:533708/1‑78 (MQ=255)

                                                                                    ttCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGc                                                                                                           <  2:533708/78‑1 (MQ=255)

                                                                                              gTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTCGAAAAACCTGAAatccatc                                    >  2:317337/1‑139 (MQ=255)

                                                                                                       aGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTCGAAAAACCTGAAATCCATCCTGACTCAg                           >  1:158225/1‑139 (MQ=255)

                                                                                                         tGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTCGAAAAACCTGAAATCCATCCTGACTCAGCa                         <  1:317337/139‑1 (MQ=255)

                                                                                                                     gTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTCGAAAAACCTGAAATCCATCCTGACTCAGCAAATCTTTTGGGt             >  1:488082/1‑139 (MQ=255)

                                                                                                                      tCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTCGAAAAACCTGAAATCCATCCTGACTCAGCAAATCTTTTGGGt             >  1:427741/1‑138 (MQ=255)

                                                                                                                      tCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTCGAAAAACCTGAAATCCATCCTGACTCAGCAAATCTTTTGGGt             >  2:626988/1‑138 (MQ=255)

                                                                                                                        gcgAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTCGAAAAACCTGAAATCCATCCTGACTCAGCAAATCTTTTGGGTGaa          <  2:488082/139‑1 (MQ=255)

                                                                                                                               gCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTCGAAAAACCTGAAATCCATCCTGACTCAGCAAATCTTTTGGGTGAACAGTaa    <  1:386890/138‑1 (MQ=255)

                                                                                                                                cTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTCGAAAAACCTGAAATCCATCCTGACTCAGCAAATCTTTTGGGTGAACAGTAAcc  <  1:487421/139‑1 (MQ=255)

ACCAGCAGCGTGATGCACTCTTCCAGAGCGATGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGATCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTCGAAAAACCTGAAATCCATCCTGACTCAGCAAATCTTTTGGGTGAACAGTAACC  >  NZ_CP009273/483130‑483396

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `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

CGAACAGTTTGAAGTTAACCAGCAGCGTGATGCACTCTTCCAGAGCGATGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGATCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTCGAAAAACCTGAAATCCATCCTGACTCAGCAAATCTTTTGGGTGAACAGTAACCGTCCAATGGAC  >  NZ_CP009273/483113‑483407

ggctcggagatgtgtataagagacagGTGATGCACTCTTCCAGAGCGATGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGAC                                                                                                                                                  <  SRR3722135.211952/125‑1 (MQ=60)

      GTTTGAAGTTAACCAGCAGCGTGATGCACTCTTCCAGAGCGATGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTC                                                                                                                                            >  SRR3722135.451962/1‑151 (MQ=60)

      GTTTGAAGTTAACCAGCAGCGTGATGCACTCTTCCAGAGCGATGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTC                                                                                                                                            >  SRR3722135.454408/1‑151 (MQ=60)

                     gtgtataagagacagCTTCCAGAGCGATGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGG                                                                                                                              <  SRR3722135.466514/135‑1 (MQ=60)

                        GCGTGATGCACTCTTCCAGAGCGATGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAAC                                                                                                                          <  SRR3722135.593735/151‑1 (MQ=60)

                               GCACTCTTCCAGAGCGATGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTG                                                                                                                    >  SRR3722135.311088/1‑150 (MQ=60)

                                      gtacggtctcgtgggctcggagatgtgtataagagacagACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCATGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGC                                                                                                            <  SRR3722135.595398/112‑1 (MQ=60)

                                      TCCAGAGCGATGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGAT                                                                                                               <  SRR3722135.124028/148‑1 (MQ=60)

                                                        TCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCA                                                                                           >  SRR3722135.320822/1‑150 (MQ=60)

                                                               ACTGGAAGGAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAG                                                                                   <  SRR3722135.581366/151‑1 (MQ=60)

                                                                                          CAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCctgtctcttatacacatctccgagcccacgagaccgtactagatctcgtat                                                        >  SRR3722135.540775/1‑100 (MQ=60)

                                                                                                             GCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTCGAAAAACCTGAAATCCATCCTGACTCAGC                                     >  SRR3722135.160409/1‑151 (MQ=60)

                                                                                                                         GTGGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTCGAAAAACCTGAAATCCATCCTGACTCAGCAAATCTTTTGGG                         <  SRR3722135.321878/151‑1 (MQ=60)

                                                                                                                           GGTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTCGAAAAACCTGAAATCCATCCTGACTCAGCAAATCTTTTGGGTG                       >  SRR3722135.494639/1‑151 (MQ=60)

                                                                                                                            GTTGATATGCGTCGCGAATTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTCGAAAAACCTGAAATCCATCCTGACTCAGCAAATCTTTTGGGTG                       >  SRR3722135.433580/1‑150 (MQ=60)

                                                                                                                                              TTGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTCGAAAAACCTGAAATCCATCCTGACTCAGCAAATCTTTTGGGTGAACAGTAACCGTCCAATGG    >  SRR3722135.597790/1‑151 (MQ=60)

                                                                                                                                               TGCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTCGAAAAACCTGAAATCCATCCTGACTCAGCAAATCTTTTGGGTGAACAGTAACCGTCCAATGG    <  SRR3722135.392276/150‑1 (MQ=60)

                                                                                                                                                GCTGGACCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTCGAAAAACCTGAAATCCATCCTGACTCAGCAAATCTTTTGGGTGAACAGTAACCGTCCAATGGAC  <  SRR3722135.493969/151‑1 (MQ=60)

CGAACAGTTTGAAGTTAACCAGCAGCGTGATGCACTCTTCCAGAGCGATGCGTTCGTCAACAAACTGGAAGAAGGTCACACCAACGAAGTCAACAGCGAAGTTCACGATGCGTTATTGCAAGTGGTTGATATGCGTCGCGAATTGCTGGATCAACTCAACAAACAGTTGGGTAACCAGCTGATGATGGCCATTAACCTGCAAATCAACCAGCAGCAGTTAATGAGTGTGTCGAAAAACCTGAAATCCATCCTGACTCAGCAAATCTTTTGGGTGAACAGTAACCGTCCAATGGAC  >  NZ_CP009273/483113‑483407

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 0 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`