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
A2 F1 I2 R1	764	42.0	2018750	95.5%	1927906	109.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,417,157	C→T	R77H (CGC→CAC)	recE ←	Rac prophage, exonuclease VIII, 5' to 3' specific dsDNA exonuclease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,417,157	0	C	T	100.0%	128.1 / NA	40	R77H (CGC→CAC)	recE	Rac prophage, exonuclease VIII, 5' to 3' specific dsDNA exonuclease
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (19/21); total (19/21)

GGAGTAGCATATTCTCCTCAATCTCAGTCATGTCTTCGCCGTTGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGCGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCTTTAAAATAGCTGCTCAGTTTTTTACCTGACTTAACGATCAGGTAGTCCA  >  NC_000913/1417026‑1417280

ggAGTAGCATATTCTCCTCAATCTCAGTCATGTCTTCGCCGTTGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACt                                                                                                                      <  1:183476/139‑1 (MQ=255)

ggAGTAGCATATTCTCCTCAATCTCAGTCATGTCTTCGCCGTTGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACt                                                                                                                      <  2:584057/139‑1 (MQ=255)

                 tcAATCTCAGTCATGTCTTCGCCGTTGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGAtct                                                                                                     >  1:929428/1‑139 (MQ=255)

                    aTCTCAGTCATGTCTTCGCCGTTGACGTTGGTATTGCCTTGATAGTGAGCGTCGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCAc                                                                                                  <  1:996525/139‑1 (MQ=255)

                        cAGTCATGTCTTCGCCGTTGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTc                                                                                              >  2:283255/1‑139 (MQ=255)

                               gTCTTCGCCGTTGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGc                                                                                       <  1:104150/139‑1 (MQ=255)

                               gTCTTCGCCGTTGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGc                                                                                       >  2:104150/1‑139 (MQ=255)

                                tCTTCGCCGTTGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCa                                                                                      <  1:326295/139‑1 (MQ=255)

                                  ttCGCCGTTGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAgg                                                                                    <  1:219320/139‑1 (MQ=255)

                                                      tGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCAc                                                                                                  >  1:443872/1‑105 (MQ=255)

                                                      tGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCAc                                                                                                  <  2:443872/105‑1 (MQ=255)

                                                      tGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCAc                                                                                                  >  2:673932/1‑105 (MQ=255)

                                                      tGCCTTGATAGTGAGCGGTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGCTAAAATCGATCTCAc                                                                                                  <  1:673932/105‑1 (MQ=255)

                                                       gCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTc                                                               >  2:988361/1‑139 (MQ=255)

                                                             aTAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGc                                                                                       <  1:813587/109‑1 (MQ=255)

                                                             aTAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGc                                                                                       >  2:813587/1‑109 (MQ=255)

                                                             aTAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCAtt                                                                               >  1:696871/1‑117 (MQ=255)

                                                             aTAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCAtt                                                                               <  2:696871/117‑1 (MQ=255)

                                                               aGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAAc                                                       <  1:988361/139‑1 (MQ=255)

                                                                 tGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAAc                                                       >  1:103315/1‑137 (MQ=255)

                                                                 tGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAAc                                                       <  2:103315/137‑1 (MQ=255)

                                                                  gAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGc                                                    >  1:222621/1‑139 (MQ=255)

                                                                  gAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGc                                                    >  1:771564/1‑139 (MQ=255)

                                                                   aGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCt                                                   >  1:1706/1‑139 (MQ=255)

                                                                       ttGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGc                                                                                       >  1:1002123/1‑99 (MQ=255)

                                                                       ttGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGc                                                                                       <  2:1002123/99‑1 (MQ=255)

                                                                         gTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCTTTaaaa                                             <  2:929428/139‑1 (MQ=255)

                                                                                  tgctCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCTTTAAAATAGCTGCTc                                    <  2:1706/139‑1 (MQ=255)

                                                                                    ctCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTaaaa                                                                                                            <  2:462535/65‑1 (MQ=255)

                                                                                    ctCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTaaaa                                                                                                            >  1:462535/1‑65 (MQ=255)

                                                                                    ctCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCTTTAAAATAGCTGCTCAg                                  >  2:464644/1‑139 (MQ=255)

                                                                                    ctCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCTTTAAAATAGCTGCTCAg                                  >  1:985384/1‑139 (MQ=255)

                                                                                                     cATGTCATGGAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCTTTAAAATAGCTGCTCAGTTTTTTACCTGACTTaa                 <  2:222621/139‑1 (MQ=255)

                                                                                                             ggAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCTTTAAAATAGCTGCTCAGTTTTTTACCTGACTTAACGa              >  1:907648/1‑134 (MQ=255)

                                                                                                             ggAGTCTTTGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCTTTAAAATAGCTGCTCAGTTTTTTACCTGACTTAACGa              <  2:907648/134‑1 (MQ=255)

                                                                                                                    ttGCTGAGTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCTTTAAAATAGCTGCTCAGTTTTTTACCTGACTTAACGATCAGGTAGTCCa  <  1:283255/139‑1 (MQ=255)

                                                                                                                           gTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAgg                                                                                    <  1:793257/50‑1 (MQ=255)

                                                                                                                           gTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAgg                                                                                    >  2:793257/1‑50 (MQ=255)

                                                                                                                           gTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAAc                                                       >  1:941153/1‑79 (MQ=255)

                                                                                                                           gTTGATAGTGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAAc                                                       <  2:941153/79‑1 (MQ=255)

GGAGTAGCATATTCTCCTCAATCTCAGTCATGTCTTCGCCGTTGACGTTGGTATTGCCTTGATAGTGAGCGTTGTCTGGTGCTGCTCCCGGTTTTAGTTCCCATGTCATGGAGTCTTTGCTGAGTTGATAGCGTTCACTCCAGGTAAAATCGATCTCACCTTCAGCGGGCAGGTCATTAACGACAGGAAAATTCGTGGCAACAGCTTTAAAATAGCTGCTCAGTTTTTTACCTGACTTAACGATCAGGTAGTCCA  >  NC_000913/1417026‑1417280

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A