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
A1 F18 I0 R1	274	115.5	2655328	86.7%	2302169	226.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	1,589,069	C→T	23.4%	pseudogene (1011/1227 nt)	ydeT ←	pseudogene, putative outer membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,589,069	0	C	T	23.4%	127.8 / 10.6	65	pseudogene (1011/1227 nt)	ydeT	pseudogene, putative outer membrane protein
Reads supporting (aligned to +/- strand): ref base C (41/8); new base T (3/13); total (44/21)
Fisher's exact test for biased strand distribution p-value = 4.33e-06
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TAATCTATTGTTCCTTAGCGACAGATTGCTGTCTGCTGGTTCAGTAAGGTACCAGGAGAAACTTCAGGAAGCTTGTACTCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACGGTTTTCTCTATATTCTGTCGCAAATGGTAATATGGCATAGCCACGCCAGTCGGTATGAATTCCGGTCTGGTTCTCTATTTTGACA  >  NC_000913/1588839‑1589306

tAATCTTTTTTTCCTTAGCGACATATTGCTGTCTGCTGGTTCAGTAAGGTACCAGGAGAAACTTCAGGAAGCTTGTACTCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTAcc                                                                                                                                                                                                                                       <  1:1060097/239‑1 (MQ=255)

     tATTGTTCCTTAGCGACAGATTGCTGTCTGCTGGTTCAGTAAGGTACCAGGAGAAACTTCAGGAAGCTTGTACTCGCCAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGCTAAA‑CCTGACCATTTT‑CCCCG‑AC‑AATGCAGCCATTTTTATTCTCTCCGTGTGTGCCACTTGCACCGAATAGCACGC‑TCTTATTCCCGTACt                                                                                                                                                                                                                                  >  2:140749/1‑239 (MQ=255)

        tGTTCCTTAGCGACAGATTGCTGTCTGCTGGTTCAGTAAGGTACCAGGAGAAACTTCAGGAAGCTTGTACTCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGGGACAATTGCACCGAATGGACCGC‑TCTTATTACCGTCCTTCa                                                                                                                                                                                                                               >  2:119002/1‑239 (MQ=255)

          ttCCTTAGCGACAGATTTCTTTCTGGTGGTTCAGTAAGGTACCATGAGAAACTTCAGGAAGCTTGTACTCGACAATGCAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAAc                                                                                                                                                                                                                             <  1:304807/239‑1 (MQ=255)

           tCCTTAGCGAAGGGTTGCGTGCGGCTGGTTCAGTAAGGTACCAGGAGAAACTTCAGGAAGCTTGGACTAGACAATACAGGTTGAGTTTTTAGCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAAc                                                                                                                                                                                                                             <  2:799094/238‑1 (MQ=255)

               tAGCGACAGATTGCTGTCTGCTGGTTCAGTAAGGTACCAGGTGAAACTTCAGGAAGCTTGTACTCGACCATACAGTTTGAGTTTTTATCTTTGCCCGATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑ACTGCCCCTTTT‑ACGCG‑AC‑AATGCTGCCATTTATCTTCTCTCCGTGTGTGTCATTTGCCCCGAATGGAACGA‑CCTGTTTACCTAACTTCAACGACAt                                                                                                                                                                                                                        >  1:473002/1‑239 (MQ=255)

               tAGCGACAGATTGCTGTCTGCTGGTTCAGTAAGGTACCAGGAGAAACTTCAGGAAGCTTGTACTCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑CTTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑CC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TTTTATTCCCGACATTCAACGTCAt                                                                                                                                                                                                                        >  1:330575/1‑239 (MQ=255)

               tAGCGACAGATTGCTGTCTGCTGGTTCAGTAAGGTACCAGGAGAAACTTCAGGAAGCTTGTACTCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTCCCGTACTTTAACTTctt                                                                                                                                                                                                                        >  2:97847/1‑237 (MQ=255)

               tAGCGACAGATTGCTGTCTGCTGGTTCAGTAAGGTACCAGGAGAAACTTCAGGAAGCTTGTACTCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTCCAACGTCAt                                                                                                                                                                                                                        >  2:1010288/1‑239 (MQ=255)

                    aCAGATTGCTGTCTGCTGGTTCAGTAAGGTACCAGGAGAAACTTCAGGAAGCTTGTACTCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATa                                                                                                                                                                                                                   >  2:291710/1‑239 (MQ=255)

                    aCAGATTGCTGTCTGCTGGTTCAGTAAGGTACCAGGAGAAACTGCAGGAAGCTTGTACTCGAAAATACAGTTTGCGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCA‑TC‑ATTTCTGCCTTTTTTATTATCTCCTCTTGGGCAAGTTGCACAGAATGGAACAC‑TTTTTTTACCTTCCTTCAAAGGCTTTaaca                                                                                                                                                                                                                   >  1:1118788/1‑237 (MQ=255)

                            cTGTCTGCTGGTTCAGTAAGGTACCAGGAAAAATTTCAGGAAGTTTGTACGCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCTTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCTTTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCccg                                                                                                                                                                                                           <  2:194335/239‑1 (MQ=255)

                                 tgctgGTTCAGTAAGGTACCAGGAGAAACTTCAGGAAGCTTGTACTCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGAt                                                                                                                                                                                                      >  2:462233/1‑239 (MQ=255)

                                    tgGTTCAGTAAGGTACCAGGAGAAACTTCAGGAAGCTTGTACTCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGCTAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACAGCATGGAACTC‑TTTTATTCCCGTACTTCAAAGACATTAATACttcaccacagcatag                                                                                                                                                                                                   >  1:261102/1‑226 (MQ=255)

                                    tgGTTCAGTAAGGTACCAGGAGAAACTTCAGGAAGCTTGTACTCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGCACATTGCACCGAATGGACCGC‑TCTTCTTACCGTACTTCACCGCCATTAAAACTTTCCCGCCGCTTtg                                                                                                                                                                                                   >  1:456555/1‑239 (MQ=255)

                                      gTTCAGTAAGGTACCAGGAGAAACTTCAGGAAGCTTGTACTCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑CATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAAGGGAACGC‑TCTTATTACCGGACTTCAAAGCAATTAATACTTTCcctccccttttg                                                                                                                                                                                                  >  1:1189404/1‑231 (MQ=255)

                                                    cAGGAGAAACTTCAGGAAGCTTGTACTCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGct                                                                                                                                                                                   >  2:444848/1‑239 (MQ=255)

                                                     aGGAGAAACTTCAGGAAGCTTGTACTCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGCC‑TGTGGAAGT‑CCAGTCAGCTAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTCCTTCAACGTCATTAAAACTTTACCGCCGATTTGGACATTAAAAGTTActc                                                                                                                                                                                  >  1:555754/1‑239 (MQ=255)

                                                      ggAGAAACTTCAGGAAGCTTGTACTCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCCGGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCAGTTTTATTCTATCCGTGTGTGACAATTGCACCAAATGGAACGC‑TCTTATTACTATACTTCAACGCCATTAACACTTTCACCCCGCTTTGTGCATTAAATGttcc                                                                                                                                                                                    >  1:770451/1‑234 (MQ=255)

                                                            aCTTCAGGAAGCTTGTACTCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCCCG‑AC‑AATGCTGCCATTTTTATTCTCCCCCTGTGTGACAATTGCCCCGAATGGAACGC‑TCTTATTACCGTCCTTCAACGTCATTAATCCTTTCCCGCCGCTTTGTGATTTAAATGTTGTCCTGGaaaa                                                                                                                                                                           >  1:887152/1‑238 (MQ=255)

                                                             cTTCAGGAAGCTTGTACTCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGGCAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAAt                                                                                                                                                                           >  2:745603/1‑238 (MQ=255)

                                                                    aagtttttccccGAAAATACTGTTTGATTTTTTTTCTTTGCCCAATGAACCCTGTA‑ATTGCCCTGAT‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCTTTTT‑CCGGG‑AA‑AATGCTGCCTTTTTTATTCTCTCCGTGTGTGAAAATGGCACCGAATGGAACGC‑TTTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCAcc                                                                                                                                                                     <  2:330575/226‑1 (MQ=255)

                                                                                     tACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCCTTAAATGTTGCTCTGCCAATAGCACCGTGAGTTGGGCTGACAgga                                                                                                                                                  >  2:699635/1‑237 (MQ=255)

                                                                                         ttttggttttttCTCTTTGCCCCAAGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAATC‑CCAGTCAGATAAC‑CCGGCCCATTTC‑CCGGG‑AC‑AATGCTGCCTTTTTTATTCTCCCCGTGTGTGAAAATTGCCCCGAATGGAACGC‑TTTTATTACCGTACTTAACCGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCa                                                                                                                                              <  2:1189404/232‑1 (MQ=255)

                                                                                          ttttgtttttttttttTGTCCCTTGAAACCTTTATATTCCCCT‑AC‑TGGGGAAATCCCTGTCATAAAAC‑CCTGCCTTTTTT‑CCGGG‑AA‑AATGCTGCTTTTTTTATTCTCTCGTTGTGTGACATTTGCCCCAAATGGACCGC‑TTTTTTTACCGTACTTCAACGTCATTAATCCTTCCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCa                                                                                                                                              <  1:165916/233‑1 (MQ=255)

                                                                                                  tttATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAAGGTCATTAATACTTTCCAGCCGATTTTTCCTTTAAATTTTGCCCTGCAAATACCACCGTGGCTTGGGATGACAGAGACACAGGTTTCac                                                                                                                                     >  1:524098/1‑238 (MQ=255)

                                                                                                  tttATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCa                                                                                                                                      >  2:1016377/1‑238 (MQ=255)

                                                                                                    tttctcttccccATCAACCCCTTT‑ATTGCCCTGACTTGTGGAGTG‑CCAGACA‑ATAAACCCTGGCC‑TTTT‑CCGGC‑ACTAGGGCTGCCGTTTTTATTCGCTGCGTGTGTTACAATTCATCCGAATGG‑ACGCGTTATTTCCCCGTACTTCAGCCTCATTAATGCTTCCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATc                                                                                                                                    <  1:444848/231‑1 (MQ=255)

                                                                                                    tATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTTTGCATTAAATGTTGCTCTGGCAATATCACCGTGAGTTGGGCTGACATGGACCACGGTTTTATcc                                                                                                                                   >  1:100861/1‑239 (MQ=255)

                                                                                                        ttgcccccAGAAAACCTGTA‑ATTGCCCTGCC‑TGTGGAATT‑CCGGTCAGATAAC‑CCTGCCCATTTC‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTCCCGTACTTCAACGTCATTAATCCTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGtt                                                                                                                               <  2:664941/235‑1 (MQ=255)

                                                                                                          tGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGGGAGTTGGGTTGACAGTGACAAGGGTTTAATCCAGTTCa                                                                                                                             >  1:1026738/1‑239 (MQ=255)

                                                                                                                                     gAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCCCGGTTTCATCCAGTTCAACATTATCTGCACGGGAATTCGCGtt                                                                                                   >  2:226658/1‑239 (MQ=255)

                                                                                                                                      aC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCCCGTTa                                                                                                  >  2:1261971/1‑239 (MQ=255)

                                                                                                                                            tggactttcggTCAAATAAA‑CCCTCCCATTTC‑CCGGC‑AA‑AATGCTGCAATTTTTATTCCCTCGGTGTGTAACAATTACACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAagag                                                                                              <  2:555754/229‑1 (MQ=255)

                                                                                                                                            ggAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCg                                                                                                                                                                                                                                      >  1:341290/1‑102 (MQ=255)

                                                                                                                                            ggAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCg                                                                                                                                                                                                                                      <  2:341290/102‑1 (MQ=255)

                                                                                                                                                tttttgatgttaTAAA‑CCTGAAC‑TTTT‑CCGGGTAC‑AGTGCTGCCTTTTTTATGCTTTCGTGGTGTGAAAATTCCACCGAATGGACCGC‑TTTGTGTGCCTTACTTCAACGTCATTAATCCTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCaa                                                                                           <  1:387304/227‑1 (MQ=255)

                                                                                                                                                 t‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCa                                                                                                                                                                       >  2:161469/1‑160 (MQ=255)

                                                                                                                                                 t‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCACCATTATCTGCAAGGGAATTCGCGTTAAGAGCAacac                                                                                        >  2:265162/1‑239 (MQ=255)

                                                                                                                                                 t‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAacac                                                                                        >  2:1211556/1‑239 (MQ=255)

                                                                                                                                                    cAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGTTGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACgg                                                                                      >  2:350137/1‑239 (MQ=255)

                                                                                                                                                    cAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACCTTATCTGCAAGGGAATTCGCGTTAAGGGCAACACgg                                                                                      >  2:852305/1‑239 (MQ=255)

                                                                                                                                                    cAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACgg                                                                                      >  2:1109957/1‑239 (MQ=255)

                                                                                                                                                    cAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAAAGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGCTTTGTGCATTAAATGTTGCTCTGGCAATAGCa                                                                                                                                                                       >  1:557852/1‑158 (MQ=255)

                                                                                                                                                      gTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACGGtt                                                                                    >  2:195031/1‑239 (MQ=255)

                                                                                                                                                        cAGAAAAA‑CCTGACCTTTTT‑CCGCA‑AA‑AATGCTCCCTTTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TTTTATTACCGTACTTCAACGTCATTAATACTTCCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACGGttt                                                                                   <  2:1026738/238‑1 (MQ=255)

                                                                                                                                                         aagtAAA‑ACTGGCCCTTTTCCCGGG‑AC‑AATGCTGCCTTTTTTATTCCCCCCGGGTGTGACAATTGCCCCGAATGGAACGC‑TTTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACGGttt                                                                                   <  2:100861/235‑1 (MQ=255)

                                                                                                                                                            tAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACATTGACCACGGTTTCATCCAGTTCCACATTATTTGCAAGGGAATTCGGTTTAAGGGAAACACGGTTTTctct                                                                              >  1:1187489/1‑239 (MQ=255)

                                                                                                                                                                    gACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACGGTTTTTTCtata                                                                           >  2:962377/1‑235 (MQ=255)

                                                                                                                                                                     aCCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCCAGGGAATTCCCGTTACGAGCAACACGGTTTTCTCTTtcttct                                                                       >  2:679117/1‑238 (MQ=255)

                                                                                                                                                                     aCCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGCGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACCGTGACCACGGTTTCATCCAGTTCACCATTATCTGCAAGGGAATTCGCGTTAAGCGTAACACGGTTTTCTCTatat                                                                          >  2:357134/1‑235 (MQ=255)

                                                                                                                                                                          ttt‑CCGGA‑AA‑AATGCTGCCTTTTTTTTTCCTGCCTTTGGGGATAATTGCACCGAAGGGAACTT‑TTTTATTACTGTACTGCAAGGTTATTAATTCTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACGGTTTTCTCTATATTCTGTCGCa                                                                 <  1:195031/239‑1 (MQ=255)

                                                                                                                                                                           ttcccGCG‑AA‑AATGTTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCCCCGAATGGACCGC‑TTTTATTACCGTACTTCAACTTCATTAATACTTCCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCATCACGGTTTTCTCTATATTCTGTCGCa                                                                 <  2:456555/236‑1 (MQ=255)

                                                                                                                                                                            t‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAAAACGGTTTTCTCTAAATTCTTTGGCaaa                                                               >  1:1187108/1‑239 (MQ=255)

                                                                                                                                                                             taaatgaaaagatttttcttttttttttCTCCTGGTGTGTCACAATTGCACCGAATGGAACGC‑TTTTATTACCGTATTACACCGTAATAAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACGGTTTTCTCTATATTCTGTCGCa                                                                 <  1:365582/219‑1 (MQ=255)

                                                                                                                                                                                ccgcgaaatggttctcttttttATTCTCTCCGTGTGTGAAAATTGCTCCGAGTGGAACGT‑TTTTTTTACCGTACTTCACCGTAATTAATCTTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACGGTTTTCTCTATATTCTGTCGCAAAt                                                              <  1:1016377/222‑1 (MQ=255)

                                                                                                                                                                                                   tttATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACGGTTTTCTCTATATTCTGTCGCAAATGGTAata                                                       >  2:365582/1‑227 (MQ=255)

                                                                                                                                                                                                          tctcCGTTGTTGAAAATTGCACCGAATGGAACCT‑TCTTATTCCCTTACTTCAACGTCATTAATCCTTCCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACGGTTTTCTCTATATTCTGTCGCAAATGGTAATATGGCATAGCCACGCCAGTc                                    <  2:887152/239‑1 (MQ=255)

                                                                                                                                                                                                            tcCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACGGTTTTCTCTATATTCTGTCGCAAATGGTAATATGGCATAGCCACGCCAGTCgg                                  >  2:72656/1‑239 (MQ=255)

                                                                                                                                                                                                                         aTTGCACGGAAGGGAACGT‑TTTTATTCCCGTCCGTAAATCGATTTAATTTTTCCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACGGTTTTCTCTATATTCTGTCGCAAATGGTAATATGGCATAGCCACGCCAGTCGGTATGAATTCCGGt                     <  2:1187108/239‑1 (MQ=255)

                                                                                                                                                                                                                          ttGCCCCGAGTGGAACGT‑CTTTTTTTCCGTACTTTAAGGTAATTAATCTTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTGAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACGGTTTTCTCTATATTCTGTCGCAAATGGTAATATGGCATAGCCACGCCAGTCGGTATGAATTCCGGTc                    <  2:175974/239‑1 (MQ=255)

                                                                                                                                                                                                                          ttGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACGGTTTTCTCTATATTCTGTCGCAAATGGTAATATGGCATAGCCACGCCAGTCGGTATGAATTCCgg                      >  2:535503/1‑237 (MQ=255)

                                                                                                                                                                                                                                  aaTGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACGGTTTTCTCTATATTCTGTCGCAAATGGTAATATGGCATAGCCACGCCCGTTGGTTTGAATTCCGGTTTGGGtc              >  1:868086/1‑237 (MQ=255)

                                                                                                                                                                                                                                  aaTGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACGGTTTTCTCTATATTCTGTCGCAAATGGTAATATGGCATAGCCACGCCAGTCGGTATGAAtt                          >  2:338717/1‑225 (MQ=255)

                                                                                                                                                                                                                                  aaTGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACGGTTTTCTCTATATTCTGTCGCAAATGGTAATATGGAAAAGCCACGCCAGTCGGAATAAATTCCGGTTTGGGtctc            >  1:164148/1‑239 (MQ=255)

                                                                                                                                                                                                                                             tctTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACGGTTTTCTCTATATTCTGTCGCAAATGGTAATATGGCATAGc                                              >  2:1145229/1‑195 (MQ=255)

                                                                                                                                                                                                                                             tctTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCCCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAACAGCAACAAGGTTTTCTCTATATTCTTTCGCAAATGGCAATATGGCATAGCCACGCCCTCCGGTATGAATTCCGGTCTGGTTTTCTATTTTGaaa  >  1:380173/1‑237 (MQ=255)

TAATCTATTGTTCCTTAGCGACAGATTGCTGTCTGCTGGTTCAGTAAGGTACCAGGAGAAACTTCAGGAAGCTTGTACTCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTA‑ATTGCCCTGAC‑TGTGGAAGT‑CCAGTCAGATAAA‑CCTGACCATTTT‑CCGCG‑AC‑AATGCTGCCATTTTTATTCTCTCCGTGTGTGACAATTGCACCGAATGGAACGC‑TCTTATTACCGTACTTCAACGTCATTAATACTTTCCCGCCGATTTGTGCATTAAATGTTGCTCTGGCAATAGCACCGTGAGTTGGGATGACAGTGACCACGGTTTCATCCAGTTCAACATTATCTGCAAGGGAATTCGCGTTAAGAGCAACACGGTTTTCTCTATATTCTGTCGCAAATGGTAATATGGCATAGCCACGCCAGTCGGTATGAATTCCGGTCTGGTTCTCTATTTTGACA  >  NC_000913/1588839‑1589306

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 28 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A