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
A7 F123 I0 R1	46	52.8	1143652	95.1%	1087613	141.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	1,744,362	G→A	100%	H104Y (CAC→TAC)	apt ←	adenine phosphoribosyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,744,362	0	G	A	100.0%	136.2 / ‑6.5	47	H104Y (CAC→TAC)	apt	adenine phosphoribosyltransferase
Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (16/30); minor base C (1/0); total (17/30)
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

ATTATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAAT‑CGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAA  >  CP000730/1744229‑1744494

attATAAATGCAATACCTACTACGATACCGCCTAATTGTTCAACTAATTTTATTGCTGCTTCAAT‑CGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGtt                                                                                                                               <  1:75559/141‑1 (MQ=255)

   ataAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAAT‑CGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTaaa                                                                                                                            >  1:273473/1‑141 (MQ=255)

     aaaTGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAAT‑CGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAAc                                                                                                                          >  1:435423/1‑141 (MQ=255)

      aaTGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAAT‑CGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACa                                                                                                                         <  2:544263/141‑1 (MQ=255)

                     acGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAAT‑CGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTACTTGCGTTTTTGTACATTGTTAAAACATTTGTACCATATTCt                                                                                                          <  2:375481/141‑1 (MQ=255)

                      cGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAAT‑CGTACCACCAGTAGCTAATAAATCATCCGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTa                                                                                                         >  2:523962/1‑141 (MQ=255)

                      cGATACCGCCTAATTTTTCAACTAATTCTATTGCTGCTTCAATCCTTACTATTTG‑ATCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTa                                                                                                         <  1:412942/141‑1 (MQ=255)

                       gATACCGCCTAATTTCTCAACTAATTTTATTGCTGCTTCAAT‑CGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAg                                                                                                        <  1:148372/141‑1 (MQ=255)

                                      ttCAACTAATTTTATTGCTGCTTCAAT‑CGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTTCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGGCATCCTGATAACg                                                                                         >  2:519204/1‑141 (MQ=255)

                                      ttCAACTAATTTTATTGCTGCTTCAAT‑CGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACg                                                                                         >  2:74838/1‑141 (MQ=255)

                                       tCAACTAATTTTATTGCTGCTTCAAT‑CGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGCCATACTCATAACGa                                                                                        >  2:319890/1‑141 (MQ=255)

                                                     tgctgcTTCAAT‑CGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAgg                                                                          >  1:167205/1‑141 (MQ=255)

                                                     tgctgcTTCAAT‑CGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAgg                                                                          >  1:435060/1‑141 (MQ=255)

                                                     tgctgcTTCAAT‑CGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAgg                                                                          <  1:2259/141‑1 (MQ=255)

                                                      gctgctTCAAT‑CGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGt                                                                         <  1:170330/141‑1 (MQ=255)

                                                        tgctTCCAT‑CGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTaa                                                                       <  1:566603/141‑1 (MQ=255)

                                                            tCAAT‑CGTACCCCCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTc                                                                   <  1:199211/141‑1 (MQ=255)

                                                            tCAAT‑CGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTc                                                                   <  2:277726/141‑1 (MQ=255)

                                                             cAAT‑CGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTcc                                                                  <  2:278771/141‑1 (MQ=255)

                                                             cAAT‑CGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCAGCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTcc                                                                  <  2:138195/141‑1 (MQ=255)

                                                                t‑CGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTAGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATGTTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCctt                                                               <  2:372533/141‑1 (MQ=255)

                                                                     accaccAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCttt                                                           >  2:38696/1‑141 (MQ=255)

                                                                      ccaccaGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGACTGAGCTCACGAGGTAATTTCCCTTCtttt                                                          <  2:549368/141‑1 (MQ=255)

                                                                       caccaGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCttttt                                                         >  2:160575/1‑140 (MQ=255)

                                                                             tAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATGAATAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAg                                                   <  1:559986/141‑1 (MQ=255)

                                                                              aGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAgg                                                  <  2:115166/141‑1 (MQ=255)

                                                                                cTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTg                                                <  1:48686/141‑1 (MQ=255)

                                                                                           tcTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATc                                     >  2:262315/1‑141 (MQ=255)

                                                                                           tcTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATc                                     <  1:38533/141‑1 (MQ=255)

                                                                                              gTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATGCTAGGTCATACTCATAACGAATGACTTCACGAGATAATTTCCCTTCTTTTCTAACAGGTGCAAGGGCAATccgc                                  >  2:295035/1‑139 (MQ=255)

                                                                                               tAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCa                                 <  1:199831/141‑1 (MQ=255)

                                                                                                       acacGTTGACCTGGTTAAATTCCATCTTTGTCCATTGTTAACACATTCGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACCAGGTACTTGCCCATCTTTCCTAACCGGTGCAAAGCCAACCCCCATTGAATaa                         >  2:122330/1‑141 (MQ=255)

                                                                                                         acGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACAGTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGc                       <  1:481977/141‑1 (MQ=255)

                                                                                                               cccTGGTTTAACTGCATCTTTGTATATTGTTAAAACATTTGTACCATATTCTCGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAgg                 <  1:190106/140‑1 (MQ=255)

                                                                                                               aCCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAgg                 <  1:332510/141‑1 (MQ=255)

                                                                                                                ccTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACGGGTGCAAAGCCAATCCCCATTGAATAAGCTACAggc                >  1:261501/1‑140 (MQ=255)

                                                                                                                ccTGGTTTAATTGCATCTGTGTACAGTGTTAAACCCTTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCCAACACGTGCAAAGCCAATCCCCATTGACTAAGCTACAGGa                <  2:370573/141‑1 (MQ=255)

                                                                                                                 cTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGAc               <  1:406865/141‑1 (MQ=255)

                                                                                                                     tttAATTGCATCTTTGTACATTGTTAAAACATTTGTACCTTATTCTAGGTCATGCTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGcc           <  2:314587/141‑1 (MQ=255)

                                                                                                                      ttgcttGCAGCTCTGGACATTGATCCAACATTGGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCa          <  1:129389/137‑1 (MQ=255)

                                                                                                                       tAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCaa         <  1:256983/141‑1 (MQ=255)

                                                                                                                        aaTTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAAt        <  1:74491/141‑1 (MQ=255)

                                                                                                                         aTTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATg       >  2:563610/1‑141 (MQ=255)

                                                                                                                          ttGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGa      <  2:273473/141‑1 (MQ=255)

                                                                                                                          ttGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGa      <  1:523962/141‑1 (MQ=255)

                                                                                                                          ttGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCATTTTGATCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATgt      >  1:271634/1‑140 (MQ=255)

                                                                                                                              aTCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAGGCCAATCCCCATTGAATGAGCTACAGGACAGCCAGTTATaaa  >  2:222332/1‑141 (MQ=255)

ATTATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAAT‑CGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAA  >  CP000730/1744229‑1744494

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