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
A7 F1 I1 R1	776	60.0	3074904	90.1%	2770488	104.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,191,696	G→A	355 (TAG→TAA)	yqiI →	fimbrial protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,191,696	0	G	A	100.0%	74.4 / NA	25	355 (TAG→TAA)	yqiI	fimbrial protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (10/15); total (10/15)

CTAGTGCGCCTTCGGTCACCGCACCATTCAGGGCAGAACTGAGTGCGAACCCGGCAGAAACGGTTGTTGAGGGACCGTTTAGTAAAGACGTAATCCTGAAAATCACCTATAACTAGTATCTAATACAAACACTAAAACGGGCCATCAGGCCCGTTATATCAGTGCTCTAACTCCAGCTCTCTTGCCTGCATCATCTGTTGACAATACCAGGCATAACGTGCGCAAAACCAGGTTCTATGTTCTT  >  NC_000913/3191581‑3191824

cTAGTGCGCCTTCGGTCACCGCACCATTCAGGGCAGAACTGAGTGCGAACCCGGCAGAAACGGTTGTTGAGGGACCGTTTAGTAAAGACGTAATCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACg                                                                                                           <  2:654153/139‑1 (MQ=255)

         cTTCGGTCACCGCACCATTCAGGGCAGAACTGAGTGCGAACCCGGCAGAAACGGTTGTTGAGGGACCGTTTAGTAAAGACGTAATCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACgg                                                                                                          >  2:838509/1‑131 (MQ=255)

         cTTCGGTCACCGCACCATTCAGGGCAGAACTGAGTGCGAACCCGGCAGAAACGGTTGTTGAGGGACCGTTTAGTAAAGACGTAATCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACgg                                                                                                          <  1:838509/131‑1 (MQ=255)

          ttCGGTCACCGCACCATTCAGGGCAGAACTGAGTGCGAACCCGGCAGAAACGGTTGTTGAGGGACCGTTTAGTAAAGACGTAATCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACGGGCCATCAgg                                                                                                 <  2:939064/139‑1 (MQ=255)

          ttCGGTCACCGCACCATTCAGGGCAGAACTGAGTGCGAACCCGGCAGAAACGGTTGTTGAGGGACCGTTTAGTAAAGACGTAATCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACGGGCCATCAgg                                                                                                 <  2:648221/139‑1 (MQ=255)

          ttCGGTCACCGCACCATTCAGGGCAGAACTGAGTGCGAACCCGGCAGAAACGGTTGTTGAGGGACCGTTTAGTAAAGACGTAATCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACGGGCCATCAgg                                                                                                 <  1:335351/139‑1 (MQ=255)

          ttCGGTCACCGCACCATTCAGGGCAGAACTGAGTGCGAACCCGGCAGAAACGGTTGTTGAGGGACCGTTTAGTAAAGACGTAATCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACGGGCCATCAgg                                                                                                 <  2:283168/139‑1 (MQ=255)

                                    aaCTGAGTGCGAACCCGGCAGAAACGGTTGTTGAGGGACCGTTTAGTAAAGACGTAATCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACGGGCCATCAGGCCCGTTATATCAGTGCTCTAACTCCa                                                                       >  1:1208587/1‑139 (MQ=255)

                                         aGTGCGAACCCGGCAGAAACGGTTGTTGAGGGACCGTTTAGTAAAGACGTAATCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACgg                                                                                                          <  1:1167844/99‑1 (MQ=255)

                                         aGTGCGAACCCGGCAGAAACGGTTGTTGAGGGACCGTTTAGTAAAGACGTAATCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACgg                                                                                                          >  2:1167844/1‑99 (MQ=255)

                                         aGTGCGAACCCGGCAGAAACGGTTGTTGAGGGACCGTTTAGTAAAGACGTAATCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACGGGCCATCAGGCCCGTTATATCAGTGCTCTAACTCCAGctct                                                                  >  1:926642/1‑139 (MQ=255)

                                                         aaaCGGTTGTTGAGGGACCGTTTAGTAAAGACGTAATCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACGGGCCATCAGGCCCGTTATATCAGTGCTCTAACTCCAGCTCTCTTGCCTGCATCATCt                                                  <  1:287106/139‑1 (MQ=255)

                                                                         aCCGTTTAGTAAAGACGTAATCCTGAAAATCACCTATAACTAATATCTAATACa                                                                                                                       >  1:1386109/1‑54 (MQ=255)

                                                                         aCCGTTTAGTAAAGACGTAATCCTGAAAATCACCTATAACTAATATCTAATACa                                                                                                                       <  2:1386109/54‑1 (MQ=255)

                                                                         aCCGTTTAGTAAAGACGTAATCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACGGGCCATCAGGCCCGTTATATCAGTGCTCTAACTCCAGCTCTCTTGCCTGCATCATCTGTTGAc                                            <  2:817171/129‑1 (MQ=255)

                                                                         aCCGTTTAGTAAAGACGTAATCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACGGGCCATCAGGCCCGTTATATCAGTGCTCTAACTCCAGCTCTCTTGCCTGCATCATCTGTTGAc                                            >  1:817171/1‑129 (MQ=255)

                                                                             tttAGTAAAGACGTAATCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACGGGCCATCAGGCCCGTTATATc                                                                                      <  2:403984/83‑1 (MQ=255)

                                                                             tttAGTAAAGACGTAATCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACGGGCCATCAGGCCCGTTATATc                                                                                      >  1:403984/1‑83 (MQ=255)

                                                                                       aCGTAATCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACGGGCCATCAGGCCCGTTATATCAGTGCTCTAACTCCAGCTCTCTTGCCTGCATCATCTGTTGACAATACCAGGCATAACGTGCGCaaa                    >  1:31073/1‑139 (MQ=255)

                                                                                            aTCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACGGGCCATCAGGcc                                                                                               <  2:559579/59‑1 (MQ=255)

                                                                                            aTCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACGGGCCATCAGGcc                                                                                               >  1:559579/1‑59 (MQ=255)

                                                                                             tCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACGGGCCATCAGGCCCGTTATATCAGTGCTCTAACTCCAGCTCTCTTGCCTGCATCATCTGTTGACAATACCAGGCATAACGTGCGCAAAACCAgg              <  2:365216/139‑1 (MQ=255)

                                                                                             tCCTGAAAATCACCTATAACTAATATCTAATACAAACACTAAAACGGGCCATCAGGCCCGTTATATCAGTGCTCTAACTCCAGCTCTCTTGCCTGCATCATCTGTTGACAATACCAGGCATAACGTGCGCAAAACCAgg              <  1:876304/139‑1 (MQ=255)

                                                                                                 gAAAATCACCTATAACTAATATCTAATACAAACACTAAAACGGGCCATCAGGCCCGTTATATCAGTGCTCTAACTCCAGCTCTCTTGCCTGCATCATCTGTTGACAATACCAGGCATAACGTGCGCAAACCCAGGTTCt          <  2:7748/139‑1 (MQ=255)

                                                                                                         ccTATAACTAATATCTAATACAAACACTAAAACGGGCCATCAGGCCCGTTATATCAGTGCTCTAACTCCAGCTCTCTTGCCTGCATCATCTGTTGACAATACCAGGCATAACGTGCGCAAAACCAGGTTCTATGttctt  >  2:50367/1‑139 (MQ=255)

CTAGTGCGCCTTCGGTCACCGCACCATTCAGGGCAGAACTGAGTGCGAACCCGGCAGAAACGGTTGTTGAGGGACCGTTTAGTAAAGACGTAATCCTGAAAATCACCTATAACTAGTATCTAATACAAACACTAAAACGGGCCATCAGGCCCGTTATATCAGTGCTCTAACTCCAGCTCTCTTGCCTGCATCATCTGTTGACAATACCAGGCATAACGTGCGCAAAACCAGGTTCTATGTTCTT  >  NC_000913/3191581‑3191824

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A