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
A10 F28 I1 R1	180	66.5	2263572	99.4%	2249990	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,738,781	G→A	A429T (GCC→ACC)	malS →	alpha‑amylase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,738,781	0	G	A	100.0%	96.6 / NA	30	A429T (GCC→ACC)	malS	alpha‑amylase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (12/18); total (12/18)

GGATATCGGCGATTACGACAATCCTGGATTCGACGATCTCACTATGTCGCTAGCCTTTTTGCCGGATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACGCCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTAACCCACTGGTTAAGTCAGTGGGTCCGCGACTATGGGATTGATGGTTTTCGGGTCGATACCGCCAAACATGTTGAGTTGCCCGCCTGGCAGCAACTGA  >  NC_000913/3738648‑3738916

ggATATCGGCGATTACGACAATCCTGGATTCGACGATCTCACTATGTCGCTAGCCTTTTTGCCGGATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAg                                                                                                                                   <  2:840057/140‑1 (MQ=255)

ggATATCGGCGATTACGACAATCCTGGATTCGACGATCTCACTATGTCGCTAGCCTTTTTGCCGGATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAg                                                                                                                                   <  2:198954/140‑1 (MQ=255)

  atatCGGCGATTACGACAATCCTGGATTCGACGATCTCACTATGTCGCTAGCCTTTTTGCCGGATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGcc                                                                                                                                 >  1:395576/1‑140 (MQ=255)

           aTTACGACAATCCTGGATTCGACGATCTCACTATGTCGCTAGCCTTTTTGCTGGATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGc                                                                                                                        >  2:40287/1‑140 (MQ=255)

                     tCCTGGATTCGACGATCTCACTATGTCGCTAGCCTTTTTGCCGGATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGCTATAcgccgc                                                                                                              >  2:442610/1‑140 (MQ=255)

                     tCCTGGATTCGACGATCTCACTATGTCGCTAGCCTTTTTGCCGGATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGCTATAcgccgc                                                                                                              >  2:293993/1‑140 (MQ=255)

                               gacgaTCTCACTATGTCGCTAGCCTTTTTGCCGGATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACtt                                                                                                    >  2:131434/1‑140 (MQ=255)

                                acgaTCTCACTATGTCGCTAGCCTTTTTGCCGGATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTa                                                                                                   <  1:55626/140‑1 (MQ=255)

                                   aTCTCACTATGTCGCTAGCCTTTTTGCCGGATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATCCCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTAAcc                                                                                                <  2:777257/140‑1 (MQ=255)

                                     ctcACTATGTCGCTAGCCTTTTTGCCGGATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTAACCCa                                                                                              <  2:491298/140‑1 (MQ=255)

                                           aTGTCGCTAGCCTTTTTGCTGGATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTAACCCACTGGtt                                                                                        <  1:40287/140‑1 (MQ=255)

                                              tCGCTAGCCTTTTTGCCGGATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTa                                                                                                   <  2:596719/126‑1 (MQ=255)

                                              tCGCTAGCCTTTTTGCCGGATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTa                                                                                                   >  1:596719/1‑126 (MQ=255)

                                              tCGCTAGCCTTTTTGCCGGATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTAACCCACTGGTTaa                                                                                      >  1:214279/1‑139 (MQ=255)

                                              tCGCTAGCCTTTTTGCCGGATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTAACCCACTGGTTaa                                                                                      <  2:214279/139‑1 (MQ=255)

                                               cGCTAGCCTTTTTGCCGGATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTAACCCACTGGTTAAGt                                                                                    >  2:404246/1‑140 (MQ=255)

                                                         tttGCCGGATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTAACCCACTGGTTAAGTCAGTGGGTcc                                                                          <  1:131434/140‑1 (MQ=255)

                                                           tGCCGGATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGCTACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTAACCCACTGGTTAAGTCAGTGGGTCcgc                                                                        <  2:983424/140‑1 (MQ=255)

                                                                gATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTAACCCACTGGTTAAGTCAGTGGGTCCGCGACTa                                                                   <  2:344902/140‑1 (MQ=255)

                                                                     cAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTAACCCACTGGTTAAGTCAGTGGGTCCGCGACTATGGGa                                                              >  1:967056/1‑140 (MQ=255)

                                                                     cAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTAACCCACTGGTTAAGTCAGTGGGTCCGCGACTATGGGa                                                              <  1:293993/140‑1 (MQ=255)

                                                                       aaaCCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTAACCCACTGGTTAAGTCAGTGGGTCCGCGACTATGGGAtt                                                            <  2:395576/140‑1 (MQ=255)

                                                                             aaTCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTATCCCACTGGTTAAGTCAGTGGGTCCGCGACTATGGGATTGATGGt                                                      >  1:334196/1‑140 (MQ=255)

                                                                                         cTTCTGGTCTGCCGGTGTTCTATAAAAGCAAAATGGATACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTAACCCACTGGTTAAGTCAGTGGGTCCGCGACTATGGGATTGATGGTTTTCGGGTCGAt                                          <  1:792438/140‑1 (MQ=255)

                                                                                          ttCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTAACCCACTGGTTAAGTCAGTGGGTCCGCGACTATGGGATTGATGGTTTTCGGGTCGATa                                         <  1:404246/140‑1 (MQ=255)

                                                                                                    ccGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTAACCCACTGGTTAAGTCAGTGGGTCCGCGACTATGGGATTGATGGTTTTCGGGTCGATAcc                                       >  1:82473/1‑132 (MQ=255)

                                                                                                    ccGGTGTTCTATAAAAACAAAATGGATACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTAACCCACTGGTTAAGTCAGTGGGTCCGCGACTATGGGATTGATGGTTTTCGGGTCGATAcc                                       <  2:82473/132‑1 (MQ=255)

                                                                                                                aaaaaCAAAATGGATACCCACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTAACCCACTGGTTAAGTCAGTGGGTCCGCGACTATGGGATTGATGGTTTTCGGGTCGATACCGCCAAACATGTTGAGTTGcc                   <  2:967056/140‑1 (MQ=255)

                                                                                                                                cccACACCAAAGCCATTGACGGCTATATGCCGCGCGATTACTTAACCCACTGGTTAAGTCAGTGGGTCCGCGACTATGGGATTGATGGTTTTCGGGTCGATACCGCTAAACATGTTGAGTTGCCCGCCTGGCAGCAACTg   >  2:899340/1‑140 (MQ=255)

                                                                                                                                 ccACACCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTAACCCACTGGTTAAGTCAGTGGGTCCGCGACTATGGGATTGATGGTTTTCGGGTCGATACCGCCAAACATGTTGAGTTGCCCGCCTGGCAGCAACTGa  <  1:819782/140‑1 (MQ=255)

GGATATCGGCGATTACGACAATCCTGGATTCGACGATCTCACTATGTCGCTAGCCTTTTTGCCGGATATCAAAACCGAATCAACTACCGCTTCTGGTCTGCCGGTGTTCTATAAAAACAAAATGGATACCCACGCCAAAGCCATTGACGGCTATACGCCGCGCGATTACTTAACCCACTGGTTAAGTCAGTGGGTCCGCGACTATGGGATTGATGGTTTTCGGGTCGATACCGCCAAACATGTTGAGTTGCCCGCCTGGCAGCAACTGA  >  NC_000913/3738648‑3738916

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A