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
A3 F28 I1 R1	161	50.8	1735388	98.6%	1711092	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,001,379	A→G	T722A (ACC→GCC)	elfC →	putative fimbrial usher protein ElfC

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,001,379	0	A	G	100.0%	141.2 / NA	40	T722A (ACC→GCC)	elfC	putative fimbrial usher protein ElfC
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (21/19); total (21/19)

CAACAACAACTGAACTACGCTCTTTCAGGCAGTTTAGTTGCCCATTCACAGGGCATTACCCTGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCACCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAAATCGAATCGCACTTGATGCGGCGTCGTTAAAACGTAACGTGGATCTTGAAAATGCAGTAGTCAACGTGGTTCC  >  NC_000913/1001244‑1001515

caacaacaaCTGAACTACGCTCTTTCAGGCAGTTTAGTTGCCCATTCACAGGGCATTACCCTGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCgg                                                                                                                                      <  2:646546/140‑1 (MQ=255)

             aCTACGCTCTTTCAGGCAGTTTAGTTGCCCATTCACAGGGCATTACCCTGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAactgac                                                                                                                         >  1:805786/1‑140 (MQ=255)

                aCGCTCTTTCAGGCAGTTTAGTTGCCCATTCACAGGGCATTACCCTGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTgg                                                                                                                      <  1:335927/140‑1 (MQ=255)

                 cGCTCTTTCAGGCAGTTTAGTTGCCCATTCACAGGGCATTACCCTGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGgc                                                                                                                     >  1:321374/1‑140 (MQ=255)

                 cGCTCTTTCAGGCAGTTTAGTTGCCCATTCACAGGGCATTACCCTGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGgc                                                                                                                     <  2:51914/140‑1 (MQ=255)

                 cGCTCTTTCAGGCAGTTTAGTTGCCCATTCACAGGGCATTACCCTGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGgc                                                                                                                     >  1:51914/1‑140 (MQ=255)

                  gCTCTTTCAGGCAGTTTAGTTGCCCATTCACAGGGCATTACCCTGGGGCAATCGCTGGGAGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGgcg                                                                                                                    <  1:214875/140‑1 (MQ=255)

                      tttCAGGCAGTTTAGTTGCCCATTCACAGGGCATTACCCTGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGa                                                                                                                >  2:6506/1‑140 (MQ=255)

                      tttCAGGCAGTTTAGTTGCCCATTCACAGGGCATTACCCTGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGa                                                                                                                >  2:449899/1‑140 (MQ=255)

                              aGTTTAGTTGCCCATTCACAGGGCATTACCCTGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCgt                                                                                                        >  1:444085/1‑140 (MQ=255)

                                tttAGTTGCCCATTCACAGGGCATTACCCTGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCgttg                                                                                                      >  1:155311/1‑140 (MQ=255)

                                tttAGTTGCCCATTCACAGGGCATTACCCTGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCgttg                                                                                                      <  2:321374/140‑1 (MQ=255)

                                tttAGTTGCCCATTCACAGGGCATTACCCTGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCgttg                                                                                                      <  2:444085/140‑1 (MQ=255)

                                tttAGTTGCCCATTCACAGGGCATTACCCTGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCgttg                                                                                                      >  1:254185/1‑140 (MQ=255)

                                        cccATTCACAGGGCATTACCCTGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTAt                                                                                              >  1:32979/1‑140 (MQ=255)

                                          cATTCACAGGGCATTACCCTGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGc                                                                                            <  2:443953/140‑1 (MQ=255)

                                          cATTCACAGGGCATTACCCTGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGc                                                                                            >  2:320464/1‑140 (MQ=255)

                                                   ggCATTACCCTGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTa                                                                                   >  2:128355/1‑140 (MQ=255)

                                                       ttACCCTGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCgg                                                                               <  1:449899/140‑1 (MQ=255)

                                                             tGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAaat                                                                         <  2:287498/140‑1 (MQ=255)

                                                               gggCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAaatcg                                                                       >  1:365366/1‑140 (MQ=255)

                                                               gggCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAaatcg                                                                       >  2:742821/1‑140 (MQ=255)

                                                                    aTCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAaatcgaatcg                                                                  >  2:333069/1‑140 (MQ=255)

                                                                     tCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAAATCGAATCGc                                                                 <  2:365366/140‑1 (MQ=255)

                                                                        cTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAAATCGAATCGCACt                                                              <  1:6506/140‑1 (MQ=255)

                                                                                 aCTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAAATCGAATCGCACTTGATgcggc                                                     <  2:155311/140‑1 (MQ=255)

                                                                                      cGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAAATCGAATCGCACTTGATGCGGcgtcgt                                                >  2:156813/1‑140 (MQ=255)

                                                                                                  agcaCCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAAATCGAATCGCACTTGATGCGGCGTCGTTAAaacgtaacg                                    <  2:805786/140‑1 (MQ=255)

                                                                                                    caCCAGGCGCAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAAATCGAATCGCACTTGATGCGGCGTCGTTAAAACGTAACGTg                                  <  1:742821/140‑1 (MQ=255)

                                                                                                         ggCGGAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAAATCGAATCGCACTTGATGCGGCGTCGTTAAAACGTAACGTGGATCt                             >  1:332612/1‑140 (MQ=255)

                                                                                                            gcAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAAATCGAATCGCACTTGATGCGGCGTCGTTAAAACGTAACGTGGATCTTGa                          <  2:254185/140‑1 (MQ=255)

                                                                                                            gcAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAAATCGAATCGCACTTGATGCGGCGTCGTTAAAACGTAACGTGGATCTTGa                          <  2:32979/140‑1 (MQ=255)

                                                                                                            gcAGAGAATACTCGTGTGGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAAATCGAATCGCACTTGATGCGGCGTCGTTAAAACGTAACGTGGATCTTGa                          <  1:270926/140‑1 (MQ=255)

                                                                                                                          tgtgGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAAATCGAATCGCACTTGATGCGGCGTCGTTAAAACGTAACGTGGATCTTGAAAATGCAGTAGTCa            >  1:220213/1‑140 (MQ=255)

                                                                                                                            tgGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAAATCGAATCGCACTTGATGCGGCGTCGTTAAAACGTAACGTGGATCTTGAAAATGCAGTAGTCAAc          >  2:222346/1‑140 (MQ=255)

                                                                                                                            tgGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAAATCGAATCGCACTTGATGCGGCGTCGTTAAAACGTAACGTGGATCTTGAAAATGCAGTAGTCAAc          >  1:840487/1‑140 (MQ=255)

                                                                                                                            tgGCGAACAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAAATCGAATCGCACTTGATGCGGCGTCGTTAAAACGTAACGTGGATCTTGAAAATGCAGTAGTCAAc          >  1:195620/1‑140 (MQ=255)

                                                                                                                                  aCAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAAATCGAATCGCACTTGATGCGGCGTCGTTAAAACGTAACGTGGATCTTGAAAATGCAGTAGTCAACGTGGtt    <  2:220213/140‑1 (MQ=255)

                                                                                                                                   cAGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAAATCGAATCGCACTTGATGCGGCGTCGTTAAAACGTAACGTGGATCTTGAAAATGCAGTAGTCAACGTGGTTc   >  1:302516/1‑140 (MQ=255)

                                                                                                                                    aGCGCCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAAATCGAATCGCACTTGATGCGGCGTCGTTAAAACGTAACGTGGATCTTGAAAATGCAGTAGTCAACGTGGTTcc  <  1:560630/140‑1 (MQ=255)

CAACAACAACTGAACTACGCTCTTTCAGGCAGTTTAGTTGCCCATTCACAGGGCATTACCCTGGGGCAATCGCTGGGGGAAACTAACGTTCTGATTGCAGCACCAGGCGCAGAGAATACTCGTGTGGCGAACAGCACCGGGCTGAAAACTGACTGGCGCGGATATACCGTTGTTCCTTATGCCACTTCTTATCGGGAAAATCGAATCGCACTTGATGCGGCGTCGTTAAAACGTAACGTGGATCTTGAAAATGCAGTAGTCAACGTGGTTCC  >  NC_000913/1001244‑1001515

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A