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
A8 F1 I2 R1	765	53.2	2691310	93.4%	2513683	103.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,022,885	G→A	90 (TAG→TAA)	fliQ →	flagellar biosynthesis protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,022,885	0	G	A	100.0%	109.9 / NA	35	90 (TAG→TAA)	fliQ	flagellar biosynthesis protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (18/17); total (18/17)

TCCGAAAATCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAGCCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGCGTACCGAAACGGGTAA  >  NC_000913/2022771‑2023019

tCCGAAAATCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAg                                                                                                                >  1:1225895/1‑139 (MQ=255)

                 tATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCt                                                                                               >  2:504116/1‑139 (MQ=255)

                      aTCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTa                                                                                          <  1:504116/139‑1 (MQ=255)

                                     gCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATc                                                                                                 <  1:704/117‑1 (MQ=255)

                                     gCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATc                                                                                                 >  2:704/1‑117 (MQ=255)

                                     gCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTgg                                                                           >  2:1053843/1‑139 (MQ=255)

                                                gATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTgcg                                                                <  2:1225895/139‑1 (MQ=255)

                                                    cTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATc                                                                                                 <  1:295730/102‑1 (MQ=255)

                                                    cTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATc                                                                                                 >  2:295730/1‑102 (MQ=255)

                                                    cTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTg                                                            >  1:1239319/1‑139 (MQ=255)

                                                     tCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGc                                                           >  2:437400/1‑139 (MQ=255)

                                                          cTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGgcg                                                      <  2:1239319/139‑1 (MQ=255)

                                                             ttGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACtt                                                                               <  1:637956/111‑1 (MQ=255)

                                                             ttGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACtt                                                                               >  2:637956/1‑111 (MQ=255)

                                                                cTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACt                                                                                                                                 <  2:608759/58‑1 (MQ=255)

                                                                cTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACt                                                                                                                                 >  1:608759/1‑58 (MQ=255)

                                                                       aCGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACcg                                         >  1:772682/1‑139 (MQ=255)

                                                                            cGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCg                                    >  1:559888/1‑139 (MQ=255)

                                                                                          tAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACg                      <  1:1053843/139‑1 (MQ=255)

                                                                                          tAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACg                      <  1:437400/139‑1 (MQ=255)

                                                                                           aaCCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAAc                                                                                                           >  2:138001/1‑53 (MQ=255)

                                                                                           aaCCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAAc                                                                                                           <  1:138001/53‑1 (MQ=255)

                                                                                           aaCCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATc                                                                                                 <  2:1229694/63‑1 (MQ=255)

                                                                                           aaCCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATc                                                                                                 >  1:1229694/1‑63 (MQ=255)

                                                                                            aCCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCa                    <  2:772682/139‑1 (MQ=255)

                                                                                            aCCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCa                    <  2:559888/139‑1 (MQ=255)

                                                                                               tGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATgg                                                                                                      >  1:450490/1‑54 (MQ=255)

                                                                                               tGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATgg                                                                                                      <  2:450490/54‑1 (MQ=255)

                                                                                               tGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACg                      <  1:1137982/134‑1 (MQ=255)

                                                                                               tGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACg                      >  2:1137982/1‑134 (MQ=255)

                                                                                                           tcGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCa                    >  2:182304/1‑124 (MQ=255)

                                                                                                           tcGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCa                    <  1:182304/124‑1 (MQ=255)

                                                                                                              ggTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATc                                                                                                 >  2:15211/1‑44 (MQ=255)

                                                                                                              ggTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATc                                                                                                 <  1:15211/44‑1 (MQ=255)

                                                                                                              ggTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGCGTACCGAAACGGGTaa  >  1:907816/1‑139 (MQ=255)

TCCGAAAATCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAGCCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGCGTACCGAAACGGGTAA  >  NC_000913/2022771‑2023019

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A