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
A12 F1 I1 R1	760	58.2	3022526	90.8%	2744453	102.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,177,670	C→T	G117G (GGC→GGT)	lolE →	lipoprotein‑releasing system transmembrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,177,670	0	C	T	100.0%	94.7 / NA	31	G117G (GGC→GGT)	lolE	lipoprotein‑releasing system transmembrane protein
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (16/15); total (16/15)

GCAGGAAGCACTGGATCACGTGCAAAAAGTGCCGGGTATTGCCGCTGCCGCGCCGTATATCAATTTCACCGGGCTGGTGGAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGCGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCGATGCGTGGCGCAATTTTAAAGCGGGCGAACAGCAAATTATCATCGGCAAAGGCGTGGCGGATGCGCTGAAAGTGA  >  NC_000913/1177553‑1177800

gCAGGAAGCACTGGATCACGTGCAAAAAGTGCCGGGTATTGCCGCTGCCGCGCCGTATATCAATTTCACCGGGCTGGTGGAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAg                                                                                                               <  2:1460317/139‑1 (MQ=255)

                     gCAAAAAGTGCCGGGTATTGCCGCTGCCGCGCCGTATATCAATTTCACCGGGCTGGTGGAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCg                                                                                          >  1:867374/1‑139 (MQ=255)

                                              gccgcGCCGTATATCAATTTCACCGGGCTGGTGGAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTAcc                                                                                              <  1:1237180/110‑1 (MQ=255)

                                              gccgcGCCGTATATCAATTTCACCGGGCTGGTGGAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTAcc                                                                                              >  2:1237180/1‑110 (MQ=255)

                                                cgcgCCGTATATCAATTTCACCGGGCTGGTGGAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCGATGCGTGGCGCAAt                                                               <  2:867374/139‑1 (MQ=255)

                                                       tataTCAATTTCACCGGGCTGGTGGAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCGATGCGTGgcg                                                                   >  1:1027676/1‑128 (MQ=255)

                                                       tataTCAATTTCACCGGGCTGGTGGAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCGATGCGTGgcg                                                                   <  2:1027676/128‑1 (MQ=255)

                                                       tataTCAATTTCACCGGGCTGGTGGAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCGATGCGTGgcg                                                                   <  2:481072/128‑1 (MQ=255)

                                                       tataTCAATTTCACCGGGCTGGTGGAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCGATGCGTGgcg                                                                   >  1:481072/1‑128 (MQ=255)

                                                             aaTTTCACCGGGCTGGTGGAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCGATGCGTGGCGCAATTTTAAAGCGGGCg                                                  <  1:1205693/139‑1 (MQ=255)

                                                                 tCACCGGGCTGGTGGAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGc                                                                                                                          <  2:857219/63‑1 (MQ=255)

                                                                 tCACCGGGCTGGTGGAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGc                                                                                                                          >  1:857219/1‑63 (MQ=255)

                                                                 tCACCGGGCTGGTGGAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCg                                                                             <  1:225256/108‑1 (MQ=255)

                                                                 tCACCGGGCTGGTGGAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCg                                                                             >  2:225256/1‑108 (MQ=255)

                                                                 tCACCGGGCTGGTGGAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCGATGCGTGGCGCAATTTTAAAGCGGGCGAACa                                              >  1:1227060/1‑139 (MQ=255)

                                                                 tCACCGGGCTGGTGGAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCGATGCGTGGCGCAATTTTAAAGCGGGCGAACa                                              >  2:28331/1‑139 (MQ=255)

                                                                  cACCGGGCTGGTGGAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCGATGCGTGGCGCAATTTTAAAGCGGGCGAACAg                                             <  2:1227060/139‑1 (MQ=255)

                                                                     cGGGCTGGTGGAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCGATGCGTGGCGCAATTTTAAAGCGGGCGAACAGCaa                                          >  1:235437/1‑139 (MQ=255)

                                                                           ggtggAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCGATGCGTGGCGCAATTTTAAAGCGGGCGAACAGCAAATTatc                                    <  1:1102188/139‑1 (MQ=255)

                                                                                  aGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTAcc                                                                                              >  1:221176/1‑74 (MQ=255)

                                                                                  aGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTAcc                                                                                              <  2:221176/74‑1 (MQ=255)

                                                                                  aGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCGATGCGTGGCGCAATTTTAAAGCGGGCGAACAGCAAATTATCATCGGCa                             >  1:1400009/1‑139 (MQ=255)

                                                                                      gcgcGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGc                                                                                                                          <  1:105202/42‑1 (MQ=255)

                                                                                      gcgcGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGc                                                                                                                          >  2:105202/1‑42 (MQ=255)

                                                                                      gcgcGAATCTTCGCGCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCGATGCGTGGCGCAATTTTAAAGCGGGCGAACAGCAAATTATCATCGGCAAAgg                         >  2:560468/1‑139 (MQ=255)

                                                                                                 cgcgCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCGATGCGTGGCGCAATTTTAAAGCGGGCGAACAGCAAATTATCATCGGCAAAGGCGTGGCGGATg              <  1:560468/139‑1 (MQ=255)

                                                                                                 cgcgCAATCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCGATGCGTGGCGCAATTTTAAAGCGGGCGAACAGCAAATTATCATCGGCAAAGGCGTGGCGGATg              >  1:1347947/1‑139 (MQ=255)

                                                                                                      aaTCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCGATGCGTGGCGCAATTTTAAAGCGGGCGAACAGCAAATTATCATCGGCaaa                           <  1:991848/121‑1 (MQ=255)

                                                                                                      aaTCCAGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCGATGCGTGGCGCAATTTTAAAGCGGGCGAACAGCAAATTATCATCGGCaaa                           >  2:991848/1‑121 (MQ=255)

                                                                                                           aGGTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCCGGGCGATGCGTGGCGCAATTTTAAAGCGGGCGAACAGCAAATTATCATCGGCAAAGGCGTGGCGGATGCGCTGAAAGt    <  2:924264/139‑1 (MQ=255)

                                                                                                             gTGAAGGGTGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCGATGCGTGGCGCAATTTTAAAGCGGGCGAACAGCAAATTATCATCGGCAAAGGCGTGGCGGATGCGCTGAAAGTGa  >  1:152691/1‑139 (MQ=255)

GCAGGAAGCACTGGATCACGTGCAAAAAGTGCCGGGTATTGCCGCTGCCGCGCCGTATATCAATTTCACCGGGCTGGTGGAAAGTGGCGCGAATCTTCGCGCAATCCAGGTGAAGGGCGTTAACCCGCAACAGGAACAGCGTCTGAGCGCATTACCCTCGTTTGTCCAGGGCGATGCGTGGCGCAATTTTAAAGCGGGCGAACAGCAAATTATCATCGGCAAAGGCGTGGCGGATGCGCTGAAAGTGA  >  NC_000913/1177553‑1177800

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A