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 F1 I1 R1	748	32.0	1685426	92.6%	1560704	103.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,700,301	G→T	intergenic (‑104/‑219)	shoB ← / → ohsC	toxic membrane protein/sRNA antisense regulator of shoB toxin

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,700,301	0	G	T	100.0%	108.6 / NA	34	intergenic (‑104/‑219)	shoB/ohsC	toxic membrane protein/sRNA antisense regulator of shoB toxin
Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (17/17); total (17/17)

GGTATCGGCAATCAGTCATTCGTTTTTCCTTAAACAAGGAATGCAGCCATTCAGATTAGCCCTTACATCTCCCCAAAACTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCAGAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCATGGTGTAAAGCACAGCAAAATCTTCAATAACGAAGCCAATTTTAATGTACTTACGAATTGGCGGTCACGTTAATCTTTCCATCAATA  >  NC_000913/2700179‑2700432

ggTATCGGCAATCAGTCATTCGTTTTTCCTTAAACAAGGAATGCAGCCATTCAGATTAGCCCTTACATCTCCCCAAAACTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGAcacca                                                                                                                     <  2:741519/139‑1 (MQ=255)

          aTCAGTCATTCGTTTTTCCTTAAACAAGGAATGCAGCCATTCAGATTAGCCCTTACATCTCCCCAAAACTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCaa                                                                                                           <  1:466822/139‑1 (MQ=255)

           tCAGTCATTCGTTTTTCCTTAAACAAGGAATGCAGCCATTCAGATTAGCCCTTACATCTCCCCAAAACTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAAt                                                                                                          >  1:707171/1‑139 (MQ=255)

                  ttCGTTTTTCCTTAAACAAGGAATGCAGCCATTCAGATTAGCCCTTACATCTCCCCAAAACTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGaca                                                                                                                        >  2:431000/1‑118 (MQ=255)

                  ttCGTTTTTCCTTAAACAAGGAATGCAGCCATTCAGATTAGCCCTTACATCTCCCCAAAACTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGaca                                                                                                                        <  1:431000/118‑1 (MQ=255)

                    cGTTTTTCCTTAAACAAGGAATGCAGCCATTCAGATTAGCCCTTACATCTCCCCAAAACTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAAtt                                                                                                 <  2:707171/139‑1 (MQ=255)

                                                        tAGCCCTTACATCTCCCCAAAACTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCATGGTGTAAAGCACAGCa                                                                        <  2:658461/128‑1 (MQ=255)

                                                        tAGCCCTTACATCTCCCCAAAACTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCATGGTGTAAAGCACAGCa                                                                        >  1:658461/1‑128 (MQ=255)

                                                           cccTTACATCTCCCCAAAACTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCATGGTGTAAAGCACAGCAAAATCTTCAATAAc                                                          >  2:387054/1‑139 (MQ=255)

                                                                aCATCTCCCCAAAACTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCATGGTGTAAAGCACAGCAAAATCTTCAATAACGAAGc                                                     <  1:387054/139‑1 (MQ=255)

                                                                     tcCCCAAAACTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCATGGTGTAAAGCACAGCAAAATCTTCAATAACGAAGcc                                                    <  1:731231/135‑1 (MQ=255)

                                                                     tcCCCAAAACTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCATGGTGTAAAGCACAGCAAAATCTTCAATAACGAAGcc                                                    >  2:731231/1‑135 (MQ=255)

                                                                      ccccAAAACTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCa                                                                                         <  1:103756/97‑1 (MQ=255)

                                                                      ccccAAAACTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCa                                                                                         >  2:103756/1‑97 (MQ=255)

                                                                      ccccAAAACTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCa                                                                                         <  2:722814/97‑1 (MQ=255)

                                                                      ccccAAAACTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCa                                                                                         >  1:722814/1‑97 (MQ=255)

                                                                         cAAAACTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGaa                                                                                                   >  1:744930/1‑84 (MQ=255)

                                                                         cAAAACTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGaa                                                                                                   <  2:744930/84‑1 (MQ=255)

                                                                            aaCTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCa                                                                                         <  1:295262/91‑1 (MQ=255)

                                                                            aaCTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCa                                                                                         >  2:295262/1‑91 (MQ=255)

                                                                            aaCTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCATGGTGTAAAGCACAGCAAAATCTTCAATAACGAAGCCAATTTTAATGt                                         >  2:569598/1‑139 (MQ=255)

                                                                                 aaCGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCa                                                                                         >  2:278565/1‑86 (MQ=255)

                                                                                 aaCGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCa                                                                                         <  1:278565/86‑1 (MQ=255)

                                                                                            tATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCATGGTGTAAAGCACAGCAAAATCTTCAATAACGAAGCCAATTTTAATGTACTTACGAATTGGCgg                         <  2:131495/139‑1 (MQ=255)

                                                                                            tATTGAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCATGGTGTAAAGCACAGCAAAATCTTCAATAACGAAGCCAATTTTAATGTACTTACGAATTGGCgg                         <  2:527854/139‑1 (MQ=255)

                                                                                                gAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCATGGTGTAAAGCACAGCAAAATCTTCa                                                               >  1:814440/1‑97 (MQ=255)

                                                                                                gAGGGTGCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCATGGTGTAAAGCACAGCAAAATCTTCa                                                               <  2:814440/97‑1 (MQ=255)

                                                                                                      gCATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCATGGTGTAAAGCACAGCAAAATCTTCAATAACGAAGCCAATTTTAATGTACTTACGAATTGGCGGTCACGTTAAt               >  1:712402/1‑139 (MQ=255)

                                                                                                       cATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCATGGTGTAAAGCACAGCAAAATCTTCAATAACGAAGCCAATTTTAAt                                           <  2:412947/110‑1 (MQ=255)

                                                                                                       cATGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCATGGTGTAAAGCACAGCAAAATCTTCAATAACGAAGCCAATTTTAAt                                           >  1:412947/1‑110 (MQ=255)

                                                                                                        aTGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCATGGTGTAAAGCACAGCAAAATCTTCAATAACGAAGCCAATTTTAATGTACTTACGAATTGGCgg                         <  1:10059/127‑1 (MQ=255)

                                                                                                        aTGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCATGGTGTAAAGCACAGCAAAATCTTCAATAACGAAGCCAATTTTAATGTACTTACGAATTGGCgg                         >  2:10059/1‑127 (MQ=255)

                                                                                                        aTGCTGCACTCCACACCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCATGGTGTAAAGCACAGCAAAATCTTCAATAACGAAGCCAATTTTAATGTACTTACGAATTGGCGGTCACGTTAATCt             >  2:442714/1‑139 (MQ=255)

                                                                                                                   cacaCCATAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCATGGTGTAAAGCACAGCAAAATCTTCAATAACGAAGCCAATTTTAATGTACTTACGAATTGGCGGTCACGTTAATCTTTCCATCAata  >  2:242850/1‑139 (MQ=255)

GGTATCGGCAATCAGTCATTCGTTTTTCCTTAAACAAGGAATGCAGCCATTCAGATTAGCCCTTACATCTCCCCAAAACTGAACGTGCGAGTTATTGAGGGTGCATGCTGCACTCCACACCAGAGCTTTGACGACACCACTCGTTTCAATGGGGGAATTCTGTGGCATGGTGTAAAGCACAGCAAAATCTTCAATAACGAAGCCAATTTTAATGTACTTACGAATTGGCGGTCACGTTAATCTTTCCATCAATA  >  NC_000913/2700179‑2700432

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A