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
A13 F1 I1 R1	778	68.7	3228504	93.4%	3015422	109.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,598,617	C→T	531 (TAG→TAA)	lsrK ←	autoinducer‑2 (AI‑2) kinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,598,617	0	C	T	100.0%	143.7 / NA	45	531 (TAG→TAA)	lsrK	autoinducer‑2 (AI‑2) kinase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (24/21); total (24/21)

TGGTGATGGAACGATGAATCTGCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAACTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAATCCTGATAAAGTTCATGCTTTTCCGGGTCTGGTGTGT  >  NC_000913/1598494‑1598747

tGGTGATGGAACGATGAATCTGCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCt                                                                                                                     >  2:310910/1‑139 (MQ=255)

  gTGATGGAACGATGAATCTGCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCttt                                                                                                                   >  2:1197703/1‑139 (MQ=255)

  gTGAGGGAACGATGAATCTGCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCttt                                                                                                                   >  1:795139/1‑139 (MQ=255)

            gATGAATCTGCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAg                                                                                                                          <  1:1317961/122‑1 (MQ=255)

            gATGAATCTGCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAg                                                                                                                          >  2:1317961/1‑122 (MQ=255)

                 aTCTGCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGAcgtcgt                                                                                                    <  2:693971/139‑1 (MQ=255)

                 aTCTGCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGAcgtcgt                                                                                                    <  2:649236/139‑1 (MQ=255)

                 aTCTGCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGAcgtcgt                                                                                                    <  1:310910/139‑1 (MQ=255)

                 aTCTGCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGAcgtcgt                                                                                                    <  2:237164/139‑1 (MQ=255)

                             gCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATc                                                                                        >  2:598845/1‑139 (MQ=255)

                                 ttAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAAcc                                                                                    <  2:795139/139‑1 (MQ=255)

                                 ttAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAAcc                                                                                    <  1:1001334/139‑1 (MQ=255)

                                                  aaaGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAACCAGCCCCAGCTGATCCTg                                                                   >  2:98382/1‑139 (MQ=255)

                                                       agGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAACCAGCCCCAGCTGATCCTGATaaa                                                              >  1:130253/1‑139 (MQ=255)

                                                        gggAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAACCAGCCCCAGCTGATCCTGATAAAc                                                             >  1:119764/1‑139 (MQ=255)

                                                          gAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAACCAGCCCCAGCTGATCCTGATAAActg                                                           >  1:379257/1‑139 (MQ=255)

                                                           aaaTAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAACCAGCCCCAGCTGATCCTGATAAActgc                                                          <  2:379257/139‑1 (MQ=255)

                                                                aGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAACCAGCCCCAGCTGATCCTGATAAAttgc                                                          <  2:1095548/134‑1 (MQ=255)

                                                                aGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAACCAGCCCCAGCTGATCCTGATAAActgc                                                          >  1:1095548/1‑134 (MQ=255)

                                                                     aaCTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATta                                                                                                                                  >  1:866379/1‑57 (MQ=255)

                                                                            cTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTg                                         >  1:219616/1‑139 (MQ=255)

                                                                               aaaaaCTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGAcgtcgt                                                                                                    <  1:547849/77‑1 (MQ=255)

                                                                               aaaaaCTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGAcgtcgt                                                                                                    >  2:547849/1‑77 (MQ=255)

                                                                               aaaaaCTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAAcc                                                                                    >  1:586445/1‑93 (MQ=255)

                                                                               aaaaaCTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAAcc                                                                                    <  2:586445/93‑1 (MQ=255)

                                                                               aaaaaCTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAAt                                      <  2:190631/139‑1 (MQ=255)

                                                                                 aaaCTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCGTGATCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCTCGTGAATcc                                    >  1:951804/1‑139 (MQ=255)

                                                                                    cTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATCACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAACCAGCCCCAGCTGa                                                                        <  1:1066329/100‑1 (MQ=255)

                                                                                    cTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAATCAGCCCCAGCTGa                                                                        >  2:1066329/1‑100 (MQ=255)

                                                                                           ccACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAATCCTGATAAAGtt                          >  1:1072800/1‑139 (MQ=255)

                                                                                               ggTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGgcg                                                                                                                       >  1:74260/1‑42 (MQ=255)

                                                                                               ggTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGgcg                                                                                                                       <  2:74260/42‑1 (MQ=255)

                                                                                                   atcatGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAATCCTGATAAAGTTCATGCttt                  <  1:460508/139‑1 (MQ=255)

                                                                                                           gtgGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAACCAGCCCCAGCTGATCCTGATAAActgc                                                          >  1:102623/1‑91 (MQ=255)

                                                                                                           gtgGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAACCAGCCCCAGCTGATCCTGATAAActgc                                                          <  2:102623/91‑1 (MQ=255)

                                                                                                           gtgGCTGTCAATGAAATTATAACCCAGACGCTTTCCATAACGACGTCGTCAGTCCATGATCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACtt                                                 >  1:76807/1‑100 (MQ=255)

                                                                                                           gtgGCTGTCAATGAAATTATAACCCAGACGCTTTCCATAACGACGTCGTCAGTCCATGATCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACtt                                                 <  2:76807/100‑1 (MQ=255)

                                                                                                             ggCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCGATGa                                                                                          >  2:1088773/1‑57 (MQ=255)

                                                                                                             ggCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGa                                                                                          <  1:1088773/57‑1 (MQ=255)

                                                                                                              gCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAATCCTGATAAAGTTCATGCTTTTCCGGGTCTgg       >  1:203309/1‑139 (MQ=255)

                                                                                                                  tCAATGAAATTATAACCCAGGCGCTTTCCATAACGACgtcgtc                                                                                                   <  1:820837/43‑1 (MQ=255)

                                                                                                                  tCAATGAAATTATAACCCAGGCGCTTTCCATAACGACgtcgtc                                                                                                   >  2:820837/1‑43 (MQ=255)

                                                                                                                   cAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAATCCTGATAAAGTTCATGCTTTTCCGGGTCTGgtgtgt  <  2:951804/139‑1 (MQ=255)

                                                                                                                    aaTGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGt                                                                                                >  1:1172168/1‑44 (MQ=255)

                                                                                                                    aaTGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGt                                                                                                <  2:1172168/44‑1 (MQ=255)

TGGTGATGGAACGATGAATCTGCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAACTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAATCCTGATAAAGTTCATGCTTTTCCGGGTCTGGTGTGT  >  NC_000913/1598494‑1598747

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A