New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3217434 =	NA (NA)	5 (0.060)	4/186	NT	NA	noncoding (1/89 nt)	REP229 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP229 (repetitive extragenic palindromic) element; contains 2 REP sequences
	?	NC_000913	3217467 =	NA (NA)					noncoding (34/89 nt)	REP229 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP229 (repetitive extragenic palindromic) element; contains 2 REP sequences

ATTTTAAAGCGGTGCTGGATTTACGCGTCAACCAGAGCGATATCAGTGATGCACAAATAAAAAAGATCATTGCGGTGATCGACCGCGCCGCTTTTGATATTACGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTGCCGGATGCGACGCTTGACGCGCCTTATCCGGCCTACACCCGCTACACACCCCGCAGGCCTGATAAGATGCGCCAGCATCGCATCAGGCATTGTGCTCCAACCGC  >  NC_000913/3217287‑3217538                                                                                                                                                    |                                                                                                         aTTTTAAAGCGGTGCTGGATTTACGCGTCAACCAGAGCGATATCAGTGATGCACAAATAAAAAAGATCATTGCGGTGATCGACCGCGCCGCTTTTGATATTACGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTg                                                                                                          <  4:464607/148‑1 (MQ=255)     atggtgaaacaccgcgccagccgactggaagacgctgtgacgggactgcattaatcgttatgtcggatccggcggttggagcacaaggcctgatgcgatgctggcgcatcttatctggcctgcggggtgtgtagcgggtgtagGCCgg                                                                                                      <  3:961140‑M1/5‑1 (MQ=255)                            actggaagacgcggtgacggtactgcattaatcggtatgccggatccggcggttggagcacaatgcctgatgcgatgctggcgcatcttatcaggcctgcggggtgtgtagcgggtgtagGc                                                                                                         >  2:645367‑M1/121‑122 (MQ=255)                            actggaagacgcggtgacggtactgcattaatcggtatgccggatccggcggttggagcacaatgcctgatgcgatgctggcgcatcttatcaggcctgcggggtgtgtagcgggtgtagGc                                                                                                         <  1:645367‑M1/2‑1 (MQ=255)                            actgcaagacgcggtgacggtactgcattaatcggtatgacggatcctgcggttggagcacaatgcctgatgcgatgctggcgcatcttgtcaggcccgcggggtgtgtagcgggtgtagGCCGGAAGCGACGCTTGACGCGCCTTAt                                                                               >  4:961140‑M1/121‑148 (MQ=255)                                      cGATATCAGTGATGCACAAATAAAAAAGATCATTGCGGTGATCGACCGCGCCGCTTTTGATATTACGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTGcc                                                                                                        >  1:996141/1‑113 (MQ=255)                                      cGATATCAGTGATGCACAAATAAAAAAGATCATTGCGGTGATCGACCGCGCCGCTTTTGATATTACGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTGcc                                                                                                        <  2:996141/113‑1 (MQ=255)                                              gTGATGCACAAATAAAAAAGATCATTGCGGTGATCGACCGCGCCGCTTTTGATATTACGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTGcc                                                                                                        >  1:389327/1‑105 (MQ=255)                                              gTGATGCACAAATAAAAAAGATCATTGCGGTGATCGACCGCGCCGCTTTTGATATTACGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTGcc                                                                                                        <  2:389327/105‑1 (MQ=255)                                                      caAATAAAAAAGATCATTGCGGTGATCGACCGCGCCGCTTTTGATATTACGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTg                                                                                                          <  1:188111/95‑1 (MQ=255)                                                      caAATAAAAAAGATCATTGCGGTGATCGACCGCGCCGCTTTTGATATTACGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTg                                                                                                          >  2:188111/1‑95 (MQ=255)                                                      caAATAAAAAAGATCATTGCGGTGATCGACCGCGCCGCTTTTGATATTACGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTGCCGGATGCGACGc                                                                                             <  1:180166/108‑1 (MQ=255)                                                      caAATAAAAAAGATCATTGCGGTGATCGACCGCGCCGCTTTTGATATTACGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTGCCGGATGCGACGc                                                                                             >  2:180166/1‑108 (MQ=255)                                                        taatcggtatgccggatccggcggttggagcacaatgcctgatgcgatgctggcgcatcttatcaggcctgcggggtgtgtagcgggtgtagGCCGGATGCGACGCTTGACGCGCCTTATCCgg                                                                           <  4:558676‑M1/32‑1 (MQ=255)                                                        taatcggtatgccggatccggcggttggagcacaatgcctgatgcgatgctggcgcatcttatcaggcctgcggggtgtgtagcgggtgtagGCCGGATGCGACGCTTGACGCGCCTTATCCgg                                                                           >  3:558676‑M1/93‑124 (MQ=255)                                                                       tGCGGTGATCGACCGCGCCGCTTTTGATATTACGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTGCCGGATGCGACGCTTGACGCGCCTTa                                                                                <  1:458043/104‑1 (MQ=255)                                                                       tGCGGTGATCGACCGCGCCGCTTTTGATATTACGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTGCCGGATGCGACGCTTGACGCGCCTTa                                                                                >  2:458043/1‑104 (MQ=255)                                                                                          gcTTTTGATATTACGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTGCCGGATGCGACGCTTGACGCGCCTTATCCGGcc                                                                         <  2:519634/92‑1 (MQ=255)                                                                                          gcTTTTGATATTACGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTGCCGGATGCGACGCTTGACGCGCCTTATCCGGcc                                                                         >  1:519634/1‑92 (MQ=255)                                                                                          atgcctgatgcgatgctggcgcatcttatcaggcctgcggggtgtgtagcgggtgtagGCCGGATGCGACGCTTGACGCGCCTTAt                                                                               <  4:1029060‑M1/28‑1 (MQ=255)                                                                                          atgcctgatgcgatgctggcgcatcttatcaggcctgcggggtgtgtagcgggtgtagGCCGGATGCGACGCTTGACGCGCCTTAt                                                                               >  3:1029060‑M1/59‑86 (MQ=255)                                                                                             tttGATATTACGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTGCCGGATGCGACGCTTGACGCGCCTTATCCGGCCTACACCCGCTACACACCCCGCAGGCCTGATAAGATGCGCCAg                               >  2:693885/1‑131 (MQ=255)                                                                                             tttGATATTACGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTGCCGGATGCGACGCTTGACGCGCCTTATCCGGCCTACACCCGCTACACACCCCGCAGGCCTGATAAGATGCGCCAg                               <  1:693885/131‑1 (MQ=255)                                                                                              ttGATATTACGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTGCCGGa                                                                                                     <  1:107720/60‑1 (MQ=255)                                                                                              ttGATATTACGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTGCCGGa                                                                                                     >  2:107720/1‑60 (MQ=255)                                                                                                       cGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTGCCGGATGCGACGCTTGACGCGCCTTATCCGGCCTACACCCGCTACACACCCCGCAGGCCTGATAAg                                        >  2:418092/1‑112 (MQ=255)                                                                                                       cGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTGCCGGATGCGACGCTTGACGCGCCTTATCCGGCCTACACCCGCTACACACCCCGCAGGCCTGATAAg                                        <  1:418092/112‑1 (MQ=255)                                                                                                                   aaTCGCCGCATCCGCCAGTGGCGCGGTGCAATTGCCGGATGCGACGCTTGACGCGCCTTATCCGGCCTACACCCGCTACACACCCCGCAGGCCTGATAAGATGCGCCAGCATCGCATCAg                    >  1:636914/1‑120 (MQ=255)                                                                                                                   aaTCGCCGCATCCGCCAGTGGCGCGGTGCAATTGCCGGATGCGACGCTTGACGCGCCTTATCCGGCCTACACCCGCTACACACCCCGCAGGCCTGATAAGATGCGCCAGCATCGCATCAg                    <  2:636914/120‑1 (MQ=255)                                                                                                                                 ccAGTGGCGCGGTGCAATTGCCGGATGCGACGCTTGACGCGCCTTATCCGGCCTACACCCGCTACACACCCCGCAGGCCTGATAAGATGCGCCAGCATCGCATCAGGCATTGTGCTcc        <  3:251789/118‑1 (MQ=255)                                                                                                                                 ccAGTGGCGCGGTGCAATTGCCGGATGCGACGCTTGACGCGCCTTATCCGGCCTACACCCGCTACACACCCCGCAGGCCTGATAAGATGCGCCAGCATCGCATCAGGCATTGTGCTcc        >  4:251789/1‑118 (MQ=255)                                                                                                                                               cAATTGCCGGATGCGACGCTTGACGCGCCTTATCCGGCCTACACCCGCTACACACCCCGCAGGCCTGATAAGATGCGCCAGCATCGCATCAGGCATTGTGCTCCAAccgc  >  3:397465/1‑110 (MQ=255)                                                                                                                                               cAATTGCCGGATGCGACGCTTGACGCGCCTTATCCGGCCTACACCCGCTACACACCCCGCAGGCCTGATAAGATGCGCCAGCATCGCATCAGGCATTGTGCTCCAAccgc  <  4:397465/110‑1 (MQ=255)                                                                                                                                                 aTTGCCGGATGCGACGCTTGACGCGCCTTATCCGGCCTACACCCGCTACACACCCCGCAGGCCTGATAAGATGCGCCAgcat                            >  3:991090/1‑82 (MQ=255)                                                                                                                                                 aTTGCCGGATGCGACGCTTGACGCGCCTTATCCGGCCTACACCCGCTACACACCCCGCAGGCCTGATAAGATGCGCCAgcat                            <  4:991090/82‑1 (MQ=255)                                                                                                                                                    |                                                                                                         ATTTTAAAGCGGTGCTGGATTTACGCGTCAACCAGAGCGATATCAGTGATGCACAAATAAAAAAGATCATTGCGGTGATCGACCGCGCCGCTTTTGATATTACGCAACTGGATTAATCGCCGCATCCGCCAGTGGCGCGGTGCAATTGCCGGATGCGACGCTTGACGCGCCTTATCCGGCCTACACCCGCTACACACCCCGCAGGCCTGATAAGATGCGCCAGCATCGCATCAGGCATTGTGCTCCAACCGC  >  NC_000913/3217287‑3217538

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: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.