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
A15 F18 I0 R1	80	28.1	641476	93.5%	599780	139.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	638,614	G→T	100%	T14K (ACA→AAA)	thiD ←	phosphomethylpyrimidine kinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	638,614	0	G	T	100.0%	110.0 / NA	37	T14K (ACA→AAA)	thiD	phosphomethylpyrimidine kinase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (19/18); total (19/18)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

CATCCATTGGTAATGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTGTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAATATTAAGCATTCAATATTTGATGATTGTTGAAAT  >  CP000730/638477‑638750

cATCCATTGGTAATGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTtttg                                                                                                                                        >  1:260932/1‑140 (MQ=255)

        ggTAATGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAAcc                                                                                                                                <  1:18991/140‑1 (MQ=255)

             tGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCaa                                                                                                                           >  2:311575/1‑140 (MQ=255)

             tGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCaa                                                                                                                           >  2:71138/1‑140 (MQ=255)

                  tAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGCACGGGCaactagt                                                                                                                      >  2:139227/1‑135 (MQ=255)

                  tAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGAAACGTTTTCAAATCTGCTTGCATACATACGCCAGCACTTTTGTCCGAACCGGCAATTGtt                                                                                                                      >  2:297459/1‑140 (MQ=255)

                            tgACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTCTTAAAActtcct                                                                                                            >  2:103942/1‑140 (MQ=255)

                                cATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTaa                                                                                                        <  2:86732/140‑1 (MQ=255)

                                     aTCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAACACTACAATCGTGTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCa                                                                                                   <  1:314221/140‑1 (MQ=255)

                                        tttATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTACTTCTTTGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTg                                                                                                <  1:151880/140‑1 (MQ=255)

                                          tATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAg                                                                                              <  2:294674/140‑1 (MQ=255)

                                            tCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCATCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCt                                                                                            >  1:2955/1‑140 (MQ=255)

                                              cATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTc                                                                                          <  1:104912/140‑1 (MQ=255)

                                                tAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTCTCAAAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCAc                                                                                        >  1:15972/1‑140 (MQ=255)

                                                       gATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCGAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAACGCCATTGAGCTTCAATCCTACa                                                                                 <  2:76899/140‑1 (MQ=255)

                                                        aTGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACat                                                                                >  2:254701/1‑140 (MQ=255)

                                                         tGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGACCCGGCAATTGTTACAACTTTCTTTAAAGCCATCGAGCTTCACTcctaccta                                                                               >  1:291597/1‑140 (MQ=255)

                                                             aGTTAAACCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACataataa                                                                           <  2:31832/140‑1 (MQ=255)

                                                                 aaaGCGACCAGGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATAtt                                                                       <  2:226577/140‑1 (MQ=255)

                                                                            gCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCATGCATACATGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTcatcat                                                            >  2:200403/1‑140 (MQ=255)

                                                                             ccATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCatcata                                                           <  2:315237/140‑1 (MQ=255)

                                                                                 aCGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCatcatatcat                                                       <  1:99273/140‑1 (MQ=255)

                                                                                  cGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCAtt                                                      <  2:226444/140‑1 (MQ=255)

                                                                                          aTTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCt                                              >  1:257075/1‑140 (MQ=255)

                                                                                               tGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAAAATTGTATTCATCATATCATTTTTAACCTAATTg                                         >  1:288693/1‑140 (MQ=255)

                                                                                                 gAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGTAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGaa                                       >  1:214612/1‑140 (MQ=255)

                                                                                                   aCGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGaaaa                                     >  1:147219/1‑140 (MQ=255)

                                                                                                    cGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTCAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTaaaaaa                                    >  1:192737/1‑140 (MQ=255)

                                                                                                    cGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGaaaaa                                    >  1:185077/1‑140 (MQ=255)

                                                                                                     gTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAat                                   <  1:279932/140‑1 (MQ=255)

                                                                                                     gTTTTCAAATCTGCGTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATGGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCGTACATAATAATATTGTATTCATCATATCATTTTTAACCTAAGTGAAAAat                                   <  2:236161/140‑1 (MQ=255)

                                                                                                        ttCAAATCTGCTTGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAATAtt                                <  1:123888/140‑1 (MQ=255)

                                                                                                                    tGCATACCTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAATATTAAGCATTCAatt                    >  2:19690/1‑139 (MQ=255)

                                                                                                                          ccTGCGCCAGCACTTTTGTCAGAACCGGCAATTGTTAACACTTTCTTTAAAGCCATTCAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAATATTAAGCATTCAATATTtgat              <  2:25697/140‑1 (MQ=255)

                                                                                                                              cgcCAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAATATTAAGCATTCAATATTTGATGCtt          >  1:65765/1‑140 (MQ=255)

                                                                                                                                ccAGCACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAATATTAAGCATTCAATATTTGATGAttgt        >  2:291558/1‑140 (MQ=255)

                                                                                                                                    cACTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTGTCGAGCCATTGAGATTCACTCCTACATTAGAATATCCTATTCATCATATCATTTTTAACCTAATTGAAAAATATTAAGCATTCAATATTTGATGATTGTTGaa    <  2:122119/140‑1 (MQ=255)

                                                                                                                                      cTTTTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTACTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAATATTAAGCATTCAATATTTGATGATTGTTGAAAt  <  2:186761/140‑1 (MQ=255)

CATCCATTGGTAATGGTGTAACATCGTGTGACCATGTATCTTTATCCATAGTAACGATGGCAGTTAAAGCGACCATGCCATACGTATCTAATTCTTGGAACGTTTTCAAATCTGCTTGCATACCTGCGCCAGCACTTGTGTCAGAACCGGCAATTGTTAAAACTTTCTTTAAAGCCATTGAGCTTCACTCCTACATAATAATATTGTATTCATCATATCATTTTTAACCTAATTGAAAAATATTAAGCATTCAATATTTGATGATTGTTGAAAT  >  CP000730/638477‑638750

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A