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 F1 I2 R1	777	59.2	2955938	92.5%	2734242	106.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,424,386	G→A	229 (TAG→TAA)	ulaF →	L‑ribulose 5‑phosphate 4‑epimerase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,424,386	0	G	A	100.0%	105.3 / NA	33	229 (TAG→TAA)	ulaF	L‑ribulose 5‑phosphate 4‑epimerase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (15/18); total (15/18)

AAGTGGCGAAAATGGCGTGGATTGCCCGCGGCATTAACCCACAACTCAATCACATCGACAGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAGAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑AAAAAAAAGCCCCCTGC‑GAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGCTAG  >  NC_000913/4424262‑4424519

aagTGGCGAAAATGGCGTGGATTGCCCGCGGCATTAACCCACAACTCAATCACATCGACAGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCgg                                                                                                                           >  2:297420/1‑139 (MQ=255)

             ggCGTGGATTGCCCGCGGCATTAACCCACAACTCAATCACATCGACAGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTtccttcct                                                                                                              <  2:36591/139‑1 (MQ=255)

             ggCGTGGATTGCCCGCGGCATTAACCCACAACTCAATCACATCGACAGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTtccttcct                                                                                                              <  1:987485/139‑1 (MQ=255)

               cGTGGATTGCCCGCGGCATTAACCCACAACTCAATCACATCGACAGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCg                                                                                                            >  2:565623/1‑139 (MQ=255)

                     ttGCCCGCGGCATTAACCCACAACTCAATCACATCGACAGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGAt                                                                                                      <  1:297420/139‑1 (MQ=255)

                                                           aGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACAcgcg                                                                                                                                 <  2:346036/74‑1 (MQ=255)

                                                           aGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACAcgcg                                                                                                                                 >  1:346036/1‑74 (MQ=255)

                                                             cTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑AAAAAAAAGccc                                                             >  1:271748/1‑139 (MQ=255)

                                                                 cTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑AAAAAAAAGCCCCCTg                                                         >  2:765437/1‑139 (MQ=255)

                                                                   gatgaATAAACACTTCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑AAAAAAAAGcc                                                              <  1:1296977/132‑1 (MQ=255)

                                                                   gatgaATAAACACTTCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑AAAAAAAAGcc                                                              >  2:1296977/1‑132 (MQ=255)

                                                                          aaaCACTTCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑AAAAAAAAGCCCCCTGC‑GAAggggg                                               <  1:765437/139‑1 (MQ=255)

                                                                              acTTCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑AAAAAAAAg                                                                >  1:1240549/1‑119 (MQ=255)

                                                                              acTTCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑AAAAAAAAg                                                                <  2:1240549/119‑1 (MQ=255)

                                                                                ttCATGCGTTAACCCCGGCCTAAAGCTTATTTACGGG‑AGAAATAAAACAACCGGTGGCGAAATTTCCTTCCTCGGGAAATAACCGGTCTAATTCCCGCGGCGTTTTTCAAAAAAAAAGCCCCCTGC‑GAAGGGGgcaaag                                          <  1:991809/139‑1 (MQ=255)

                                                                                 tCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGa                                                                                                                          >  1:1099962/1‑59 (MQ=255)

                                                                                 tCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGa                                                                                                                          <  2:1099962/59‑1 (MQ=255)

                                                                                 tCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAAc                                                                                                   >  1:557748/1‑82 (MQ=255)

                                                                                 tCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAAc                                                                                                   <  2:557748/82‑1 (MQ=255)

                                                                                 tCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑AAAAAAAAGc                                                               <  1:202288/117‑1 (MQ=255)

                                                                                 tCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑AAAAAAAAGc                                                               >  2:202288/1‑117 (MQ=255)

                                                                                 tCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑AAAAAAAAACCCCCTTCGGAAGGGGgaaaagc                                         >  2:991809/1‑139 (MQ=255)

                                                                                    tGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑AAAAAAAAGCCCCCt                                                          <  1:536866/119‑1 (MQ=255)

                                                                                    tGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑AAAAAAAAGCCCCCt                                                          >  2:536866/1‑119 (MQ=255)

                                                                                               ggTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑AAAGAAAAGCCCCCTGC‑GAAGGGGGCAAAGCAAACTATGGCAATGt                          >  1:1426991/1‑139 (MQ=255)

                                                                                               ggTCCTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑AAAAAAAAGCCCCCTGC‑GAAGGGGGCAAAGCAAACTATGGCAATGt                          <  2:271748/139‑1 (MQ=255)

                                                                                                   cTAACGCTTA‑TTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑AAAGAAAAGCCCCCTGC‑GAAGGGGGCAAAGCAAACTATGGCAATGTTTCg                      <  2:1426991/139‑1 (MQ=255)

                                                                                                           ta‑ttaCGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAAc                                                                                                   >  1:1201818/1‑56 (MQ=255)

                                                                                                           ta‑ttaCGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAAc                                                                                                   <  2:1201818/56‑1 (MQ=255)

                                                                                                               taCGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑AAAAAAAAGCCCCCTGC‑GAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATAcc           <  1:1005743/139‑1 (MQ=255)

                                                                                                                 cGGGCAGAAGTAAAACACGCGCTGCGGAAATTtccttcct                                                                                                              <  1:540300/40‑1 (MQ=255)

                                                                                                                 cGGGCAGAAGTAAAACACGCGCTGCGGAAATTtccttcct                                                                                                              >  2:540300/1‑40 (MQ=255)

                                                                                                                        aaGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑AAAAAAAAGCCCCCTGC‑GAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAg  <  2:1242328/139‑1 (MQ=255)

AAGTGGCGAAAATGGCGTGGATTGCCCGCGGCATTAACCCACAACTCAATCACATCGACAGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTA‑TTACGGGCAGAAGTAGAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑AAAAAAAAGCCCCCTGC‑GAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGCTAG  >  NC_000913/4424262‑4424519

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A