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 F28 I1 R1	176	31.5	1082462	98.8%	1069472	138.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,106,131	T→C	S366G (AGC→GGC)	wbbH ←	putative O‑antigen polymerase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,106,131	0	T	C	100.0%	160.8 / NA	44	S366G (AGC→GGC)	wbbH	putative O‑antigen polymerase
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (22/22); total (22/22)

CATCTTTTCTTGCTTTAAATCCAGCATCGCGTCTAGAGAAATTTAAATCATTCAAAAAATACATTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCTAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAATTTCGAGACAATCTCCATAAAACACCTGAAATACAGCCATGAATAACCA  >  NC_000913/2105994‑2106265

cATCTTTTCTTGCTTTAAATCCAGCATCGCGTCTAGAGAAATTTAAATCATTCAAAAAATACATTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCaa                                                                                                                                      <  1:471601/140‑1 (MQ=255)

   cTTTTCTTGCTTTAAATCCAGCATCGCGTCTAGAGAAATTTAAATCATTCAAAAAATACATTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAatat                                                                                                                                   >  1:214578/1‑140 (MQ=255)

   cTTTTCTTGCTTTAAATCCAGCATCGCGTCTAGAGAAATTTAAATCATTCAAAAAATACATTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAatat                                                                                                                                   >  1:80802/1‑140 (MQ=255)

   cTTTTCTTGCTTTAAATCCAGCATCGCGTCTAGAGAAATTTAAATCATTCAAAAAATACATTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAatat                                                                                                                                   >  1:321282/1‑140 (MQ=255)

    ttttCTTGCTTTAAATCCAGCATCGCGTCTAGAGAAATTTAAATCATTCAAAAAATACATTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATAtt                                                                                                                                  <  2:94302/140‑1 (MQ=255)

           gCTTTAAATCCAGCATCGCGTCTAGAGAAATTTAAATCATTCAAAAAATACATTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATg                                                                                                                           <  1:69833/140‑1 (MQ=255)

             tttAAATCCAGCATCGCGTCTAGAGAAATTTAAATCATTCAAAAAATACATTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGaa                                                                                                                         >  2:243924/1‑140 (MQ=255)

             tttAAATCCAGCATCGCGTCTAGAGAAATTTAAATCATTCAAAAAATACATTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGaa                                                                                                                         <  2:214578/140‑1 (MQ=255)

                      aGCATCGCGTCTAGAGAAATTTAAATCATTCAAAAAATACATTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATg                                                                                                                >  1:443695/1‑140 (MQ=255)

                      aGCATCGCGTCTAGAGAAATTTAAATCATTCAAAAAATACATTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATg                                                                                                                >  1:92498/1‑140 (MQ=255)

                           cgcgTCTAGAGAAATTTAAATCATTCAAAAAATACATTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATaaa                                                                                                           >  1:516294/1‑140 (MQ=255)

                             cgTCTAGAGAAATTTAAATCATTCAAAAAATACATTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATaaaaa                                                                                                         >  1:58433/1‑140 (MQ=255)

                               tCTAGAGAAATTTAAATCATTCAAAAAATACATTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAAt                                                                                                       <  2:516294/140‑1 (MQ=255)

                                      aaaTTTAAATCATTCAAAAAATACATTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATgaaagaa                                                                                                <  2:350399/140‑1 (MQ=255)

                                      aaaTTTAAATCATTCAAAAAATACATTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATgaaagaa                                                                                                <  2:321282/140‑1 (MQ=255)

                                      aaaTTTAAATCATTCAAAAAATACATTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATgaaagaa                                                                                                <  2:126315/140‑1 (MQ=255)

                                      aaaTTTAAATCATTCAAAAAATACATTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGACATGAAGCTTTCATGATAAAAAATgaaagaa                                                                                                <  2:315458/140‑1 (MQ=255)

                                                    cAAAAAATACATTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTAtaaataaa                                                                                  >  2:105239/1‑140 (MQ=255)

                                                              aTTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATaa                                                                        <  2:138876/140‑1 (MQ=255)

                                                                   cACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAatat                                                                   >  1:433392/1‑140 (MQ=255)

                                                                      tttATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATAtttt                                                                <  2:280773/140‑1 (MQ=255)

                                                                        tATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTca                                                              <  1:130408/140‑1 (MQ=255)

                                                                        tATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTca                                                              <  2:92498/140‑1 (MQ=255)

                                                                        tATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTca                                                              <  2:443695/140‑1 (MQ=255)

                                                                           tttCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAg                                                           <  2:289717/140‑1 (MQ=255)

                                                                                    cTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAAt                                                  >  2:134579/1‑140 (MQ=255)

                                                                                      tAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAAttt                                                >  2:262300/1‑140 (MQ=255)

                                                                                      tAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAAttt                                                >  2:46132/1‑140 (MQ=255)

                                                                                          aaaTTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAATTTCgag                                            <  2:147352/140‑1 (MQ=255)

                                                                                                              tACAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAATTTCGAGACAATCTCCATAAAACACCt                        >  1:286344/1‑140 (MQ=255)

                                                                                                               aCAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAATTTCGAGACAATCTCCATAAAACACCTg                       <  2:82922/140‑1 (MQ=255)

                                                                                                                cAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAATTTCGAGACAATCTCCATAAAac                            <  1:227613/134‑1 (MQ=255)

                                                                                                                cAAAGAGTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAATTTCGAGACAATCTCCATAAAac                            >  2:227613/1‑134 (MQ=255)

                                                                                                                   agagTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAATTTCGAGACAATCTCCATAAAACACCTGAAAt                   >  2:270295/1‑140 (MQ=255)

                                                                                                                   agagTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAATTTCGAGACAATCTCCATAAAACACCTGAAAt                   >  2:88381/1‑140 (MQ=255)

                                                                                                                   agagTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAATTTCGAGACAATCTCCATAAAACACCTGAAAt                   >  2:70129/1‑140 (MQ=255)

                                                                                                                    gagTTATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAATTTCGAGACAATCTCCATAAAACACCTGAAATa                  <  2:80802/140‑1 (MQ=255)

                                                                                                                       ttATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAATTTCGAGACAATCTCCATAAAACACCTGAAATACAg               >  2:219176/1‑140 (MQ=255)

                                                                                                                       ttATTTGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAATTTCGAGACAATCTCCATAAAACACCTGAAATACAg               <  1:46132/140‑1 (MQ=255)

                                                                                                                          tttGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAATTTCGAGACAATCTCCATAAAac                            >  2:459388/1‑124 (MQ=255)

                                                                                                                          tttGTATCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAATTTCGAGACAATCTCCATAAAac                            <  1:459388/124‑1 (MQ=255)

                                                                                                                               aTCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAATTTCGAGACAATCTCCATAAAACACCTGAAATACAGCCATGAAt       >  2:262444/1‑140 (MQ=255)

                                                                                                                                tCCAACTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAATTTCGAGACAATCTCCATAAAACACCTGAAATACAGCCATGAATa      >  2:315789/1‑140 (MQ=255)

                                                                                                                                    aCTGCCAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAATTTCGAGACAATCTCCATAAAACACCTGAAATACAGCCATGAATAACca  <  1:243924/140‑1 (MQ=255)

                                                                                                                                    aCTGCCAATATTACTCATGAAGCTTTCATGATAGAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATATTCACAGATATGTAATTTCGAGACAATCTCCATAAAACACCTGAAATACAGCCATGAATAACca  >  2:216180/1‑140 (MQ=255)

CATCTTTTCTTGCTTTAAATCCAGCATCGCGTCTAGAGAAATTTAAATCATTCAAAAAATACATTTTCACTTTATTTTCTGGGCCTTAAGAAATTGAGAGAATACTATGATACAAAGAGTTATTTGTATCCAACTGCTAATATTAGTCATGAAGCTTTCATGATAAAAAATGAAAGAAAAGGTATAAATAAAATATGAATAAAATATTTTCACAGATATGTAATTTCGAGACAATCTCCATAAAACACCTGAAATACAGCCATGAATAACCA  >  NC_000913/2105994‑2106265

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