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
A13 F63 I0 R1	31	53.1	1128482	96.8%	1092370	140.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	1,481,355	G→T	100%	A6890E (GCA→GAA)	ebh ←	extracellular matrix binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,481,355	0	G	T	100.0%	142.6 / NA	46	A6890E (GCA→GAA)	ebh	extracellular matrix binding protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (21/25); total (21/25)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

CCATCGCTGTATTCAGTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTGCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATTAATAATATTTTCA  >  CP000730/1481218‑1481486

ccATCGCTGTATTCAGTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCAt                                                                                                                                  <  2:267626/141‑1 (MQ=255)

 cgtggCTGGATTCAGTTCCTGGGCTGCTTGGATTGCTTGTGTTAATTCCGCTACAGTGTGCGCTTGATTGATGTTTCCTGTAACCGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCAtt                                                                                                                                 <  2:207003/137‑1 (MQ=255)

      cTGTATTCAGTTCCTGAGCGGTTTGAATGGCCTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGtttt                                                                                                                            <  1:102509/141‑1 (MQ=255)

       tGTATTCAGTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGGTTTCATTGttttt                                                                                                                           >  1:246784/1‑141 (MQ=255)

         tATTCAGTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAg                                                                                                                         >  2:378554/1‑141 (MQ=255)

         tATTCAGTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAg                                                                                                                         >  2:552354/1‑141 (MQ=255)

         tATTCAGTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAg                                                                                                                         >  2:507458/1‑141 (MQ=255)

              aGTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCt                                                                                                                    >  1:64384/1‑141 (MQ=255)

              aGTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCt                                                                                                                    <  1:351257/141‑1 (MQ=255)

               gTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCCTTGTTTAAGTTATCTA‑ACTTCGATAATGTTTGGTTTTCATTGTTTTTAGCATCTg                                                                                                                   >  2:394011/1‑141 (MQ=255)

                    tgggCGGTTTGAAGTGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACt                                                                                                              <  2:437934/138‑1 (MQ=255)

                    tgggCGGGTGGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTGGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACt                                                                                                              <  2:19592/138‑1 (MQ=255)

                                aTGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCa                                                                                                  >  2:563519/1‑141 (MQ=255)

                                       gCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTCTTCATTGTTTTTAGCATCTGTTACCTTTCTATCACCATTCAACg                                                                                           <  1:307821/141‑1 (MQ=255)

                                          ttACTTCAGCTACAGTGTGCGCTTGCCTGAGGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCtt                                                                                        >  2:257723/1‑141 (MQ=255)

                                              ttCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGttt                                                                                    <  2:156205/141‑1 (MQ=255)

                                              tgcAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTATTTTTCTATCACCATTCAACGCTTGttt                                                                                    <  2:187977/139‑1 (MQ=255)

                                                cAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCg                                                                                  <  2:533366/141‑1 (MQ=255)

                                                       aGTGTGCGCTTGATTGATGTTTCCAGTACAAGCACCGTTTTGTGCGTTGTTTAATTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTTGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTCgtttt                                                                           >  1:412641/1‑139 (MQ=255)

                                                       aGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAgttgt                                                                           >  2:134944/1‑141 (MQ=255)

                                                          gtgCGCTTGATTGATGTTTCCACTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGGAGATAATGTTTGGTGTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTAc                                                                        <  1:497220/141‑1 (MQ=255)

                                                           tgCTCTTGATTGATGTTTCCAGTAACAGCACCTTTTTTTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACa                                                                       <  2:495115/141‑1 (MQ=255)

                                                           tgCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACa                                                                       >  1:421709/1‑141 (MQ=255)

                                                              gcTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGtt                                                                    <  1:563519/141‑1 (MQ=255)

                                                               cTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCTTTTGTTACTTTTCTATCACCATTGAACGCTTGTTTCGTAGTTGTTATAGTTg                                                                   >  2:228997/1‑141 (MQ=255)

                                                                ttgattgaTGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGa                                                                  <  2:524787/141‑1 (MQ=255)

                                                                    ttgatGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGt                                                              >  1:192444/1‑141 (MQ=255)

                                                                     tgatGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGtg                                                             <  1:121323/141‑1 (MQ=255)

                                                                        tGTTTCCAGTAACAGTACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTACTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGtgctg                                                          <  2:407301/141‑1 (MQ=255)

                                                                        tGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGtgctg                                                          <  2:441046/141‑1 (MQ=255)

                                                                                gTAACAGCACCTTTTTTTTTTTTTTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGTAAGTGCTGCTTCAACt                                                  >  2:216456/1‑141 (MQ=255)

                                                                                gTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACt                                                  >  2:392193/1‑141 (MQ=255)

                                                                                 tAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACtt                                                 <  2:551826/141‑1 (MQ=255)

                                                                                       cACCTTTTTGTTCATTGTTTAAGTTATCTA‑ACGTAGATTATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGAtt                                           <  2:300769/141‑1 (MQ=255)

                                                                                       cACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCACCGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCACCTTGTGAtt                                           <  2:485946/141‑1 (MQ=255)

                                                                                            ttttGTGCATTGTTTAAGTTATCTACAGCTACGT‑GCGCTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCGACGCTTGTTTCGTAGTTGTTACAGTTGACAGTGCTGCTTCAACTTGTGATTGGTTc                                      >  2:233110/1‑141 (MQ=255)

                                                                                               tgggCATTGTTTAAGTTATTTA‑ACGTAGATAATGTTTGGTTTTCGTTGTTTTTTGCATCTGTTACTTTTCTATCACCATTCATCGCTTGTTTCGTAGTTGTTGCAGTTGAGAGTGCTGCTTCAACTTGTGATTGGTTCGCa                                   <  2:111501/138‑1 (MQ=255)

                                                                                                 tgCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCAtt                                 >  1:496336/1‑141 (MQ=255)

                                                                                                          tAAGTTATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTAGGGTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCAtt                        <  1:551881/141‑1 (MQ=255)

                                                                                                          tAAGTTATCCA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTCAGTATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCAtt                        <  2:90866/141‑1 (MQ=255)

                                                                                                              ttATCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCt                    >  1:507169/1‑141 (MQ=255)

                                                                                                                 tCTA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTgt                 >  1:61693/1‑140 (MQ=255)

                                                                                                                   tA‑ACGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTCCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGAtt               <  2:358050/141‑1 (MQ=255)

                                                                                                                    a‑aCGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTGGCTTGATta              >  1:478695/1‑141 (MQ=255)

                                                                                                                      aCGTAGATAATGTTTGGTTTTCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATtaa             >  2:547527/1‑141 (MQ=255)

                                                                                                                              aaTGTTTGGTTTTCCTTGTTTTTAGCATCTGTTACTTCTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATTAATAATAttt     <  1:249991/141‑1 (MQ=255)

                                                                                                                                 gtttggttttCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTAACATTTGCTTGATTAATAATATTTTca  >  2:211437/1‑141 (MQ=255)

CCATCGCTGTATTCAGTTCCTGAGCGGTTTGAATGGCTTGCGTTACTTCAGCTACAGTGTGCGCTTGATTGATGTTTCCAGTAACAGCACCTTTTTGTGCATTGTTTAAGTTATCTA‑ACGTAGATAATGTTTGGTTTGCATTGTTTTTAGCATCTGTTACTTTTCTATCACCATTCAACGCTTGTTTCGTAGTTGTTACAGTTGAAAGTGCTGCTTCAACTTGTGATTGGTTCGCATTTGTACCATTTGCTTGATTAATAATATTTTCA  >  CP000730/1481218‑1481486

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A