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
A9 F59 I0 R1	41	42.9	928050	95.2%	883503	140.9

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%	127.3 / NA	42	H104Y (CAC→TAC)	apt	adenine phosphoribosyltransferase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (22/20); total (22/20)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TTCAATTATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGC  >  CP000730/1744225‑1744496

ttcaattATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACAt                                                                                                                                     >  1:437141/1‑141 (MQ=255)

    attATAAATGCAATACCTACTACGACACCGCCTAAGTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGtt                                                                                                                                 <  1:111138/141‑1 (MQ=255)

         aaaTGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAAc                                                                                                                            >  1:246072/1‑141 (MQ=255)

           aTGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATCAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACAt                                                                                                                          <  2:109941/141‑1 (MQ=255)

           aTGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACAt                                                                                                                          <  2:3724/141‑1 (MQ=255)

               aaTACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGt                                                                                                                      <  2:456219/141‑1 (MQ=255)

                 tACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTAc                                                                                                                    <  1:416775/141‑1 (MQ=255)

                  aCCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGtctc                                                                                                                   >  2:421396/1‑138 (MQ=255)

                  aCCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTCAGACCGAACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACCTTGTTAAAACATTTGTAcc                                                                                                                   >  2:421477/1‑141 (MQ=255)

                  aCCTACTACCATACCGCCTAATTTTTCAACTAACTCTATTGCTGCTTCAATCGTCCCACCAGTAGCTAATAAATCATCTGTAATTAACACACTTTGACCTGGTTTAATTGCATCTTTGTACAGTGTTAAAACATTTGTAcc                                                                                                                   <  1:181221/141‑1 (MQ=255)

                    ctactaCGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTCTACATTGTTAAAACATTTGTACCaa                                                                                                                 >  2:131651/1‑140 (MQ=255)

                     tactacGCTACCGCCTAATGTGTCAACCAATTTTATTGCTGCTTCAATCGTACCACCCGTAGCTCATAAATCATCTGTAACTAACACACTTTTACCTGGTTTAATTGCATCCTTGTACATTGTTAAAACCTTTGTACCata                                                                                                                >  2:180890/1‑141 (MQ=255)

                       ctacGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATAtt                                                                                                              >  1:321423/1‑141 (MQ=255)

                             tACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCATACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTTTACATTGTTAAAACATTTGTACCATATTCTAGGt                                                                                                        >  1:46483/1‑141 (MQ=255)

                                         ttttttttttttttATTGCTGCTTCAACCGTACCACCAGTCGCTAATAAATCATCTGTAATTAACACCCCTTCCCCTGGTCCCATTGCATCTTTTTACATTTTTAAAACATTTTTACCATATTCTAGGTCTTACTCATAAc                                                                                            >  2:7606/11‑141 (MQ=255)

                                             aaCTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAAt                                                                                        >  1:354519/1‑141 (MQ=255)

                                                         tgctgcTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAgg                                                                            <  2:205394/141‑1 (MQ=255)

                                                           ttgctTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTa                                                                          <  2:448943/140‑1 (MQ=255)

                                                           ctgctTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTa                                                                          >  1:345683/1‑141 (MQ=255)

                                                             gctTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTCATTGCATCTTTGTACCTTGTTACACCATTTGTACCATATTCTAAGTCATTCTCATAACGACTGACTTGACGAGGGAAt                                                                        >  2:240693/1‑141 (MQ=255)

                                                                       tccgccccgTAGCTAATAAATAATCTGTAATTAACACACGTTGGCCTGGTTTAATTGCATCTTTGTACATTGTTAACACATTTGTACTATATTATAGGTTATACTCATAACGTATGACTTCACGAGGTAATTTCCcttctt                                                              <  2:218717/133‑1 (MQ=255)

                                                                          caccgGTAGCTAATAAATCAGCTGTAATTAACACTCGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATGCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTc                                                           <  1:437898/141‑1 (MQ=255)

                                                                            ccaGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTa                                                         >  2:44497/1‑141 (MQ=255)

                                                                                 aGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTACTTTTCTAACAgg                                                    <  2:329251/141‑1 (MQ=255)

                                                                                   cTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATCACTTAACGAGGTAATAACCCTTCTTTTCTAACAggag                                                  >  2:360121/1‑139 (MQ=255)

                                                                                      ataaATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTCCCCTTCTTTTCTAACAGGTCCaa                                               >  2:220579/1‑141 (MQ=255)

                                                                                        aaaTCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAg                                             <  2:439686/141‑1 (MQ=255)

                                                                                          atcatcTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTGACAGGTGCAAAGcc                                           <  1:241377/141‑1 (MQ=255)

                                                                                            gatcTGTAATTTACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCaa                                         <  2:150872/140‑1 (MQ=255)

                                                                                            catcTGAAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCaa                                         >  2:255257/1‑141 (MQ=255)

                                                                                                 gTAATTAACACACGTTGACCTGGGGTAAGTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATcccc                                    >  2:270037/1‑141 (MQ=255)

                                                                                                  tAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATccccc                                   >  2:242581/1‑140 (MQ=255)

                                                                                                     ttAACACACGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTg                                <  1:47112/141‑1 (MQ=255)

                                                                                                            ccGTTGACCTGGTTCAATTGCATCTTTGTACATTGTTAAAACATTGGTACTATATTCTATGTCATACTCATAGCGAATGACTTCTCGGTCTAAGTTCCCGTCTTCTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGc                         <  2:2806/140‑1 (MQ=255)

                                                                                                            acGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGc                         <  1:19833/141‑1 (MQ=255)

                                                                                                             cGTTGACCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCt                        <  2:437141/141‑1 (MQ=255)

                                                                                                                  aCCTGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAgg                   <  1:190707/141‑1 (MQ=255)

                                                                                                                     tGGTTTAATTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACa                <  1:181234/141‑1 (MQ=255)

                                                                                                                            aTTGCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTATGTCATACTCATAACGAATGACTTCACAAGGTAATATCCCTTCTTTTCTAACAGATGCAAAGCCAATCCCCAGTGACTAAGCTACAGGACAGCCAATg         >  2:353695/1‑141 (MQ=255)

                                                                                                                            aTTGCATCTTTGTACATTGGTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCCCGAGGTAATTACCCTTCTTTTCTAACAGTTGCAAAGCCAAACCCCATTGAATAAGCTACAGGACAGCCAATg         >  2:353569/1‑141 (MQ=255)

                                                                                                                               gCATCTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATa      >  1:352487/1‑141 (MQ=255)

                                                                                                                                   cTTTGTACATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGc  >  1:155234/1‑141 (MQ=255)

TTCAATTATAAATGCAATACCTACTACGATACCGCCTAATTTTTCAACTAATTTTATTGCTGCTTCAATCGTACCACCAGTAGCTAATAAATCATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGC  >  CP000730/1744225‑1744496

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