New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_hsa_tpiA	= 1434748	2 (0.040)	48 (0.970)	41/282	0.3	96.0%	intergenic (‑524/+210)	ynaE/ttcC	cold shock protein, Rac prophage/pseudogene, prophage Rac integration site ttcA duplication;Phage or Prophage Related
	?	NC_000913_3_hsa_tpiA	1467910 =	NA (NA)					intergenic (+6/+11)	ydbA/insD1	pseudogene, autotransporter homolog; interrupted by IS2 and IS30/IS2 transposase TnpB

GTTTAAAAGTATACATAGATAACAGTTTTTATCTGAAGAAGAAAAATATCAAGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913_3_hsa_tpiA/1434605‑1434748 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTG  >  NC_000913_3_hsa_tpiA/1467910‑1468057                                                                                                                                                                                                                                                                                                      GTTTAAAAGTATACATAGATAACAGTTTTTATCTGAAGAAGAAAAATATCAAGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGAT                                                                                                                                                 <  2:32895/149‑1  TTTAAAAGTATACATAGATAACAGTTTTTATCTGAAGAAGAAAAATATCAAGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATT                                                                                                                                                >  2:213307/1‑149       gAGTATACATAGATAACAGTTTTTATCTGAAGAAGAAAAATATCAAGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCC                                                                                                                                           <  2:87735/148‑1          TATACATAGATAACAGTTTTTATCTGAAGAAGAAAAATATCAAGGTGATCTAGCCAATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTA                                                                                                                                        >  1:606037/1‑149              CATAGATAACAGTTTTTATCTGAAGAAGAAAAATATCAAGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATT                                                                                                                                    >  2:201954/1‑149               ATAGATAACAGTTTTTATCTGAAGAAGAAAAATATCAAGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTT                                                                                                                                   >  1:392046/1‑149                taaATAACAGTTTTTATAAGAAGAAGTATAAGATCAAGGTGATAGAGCCTATATGCCTGTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTC                                                                                                                                  <  2:606037/146‑1                    TAACAGTTTTTATCTGAAGAAGAAAAATATCAAGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCTCCTATATTTCCAGA                                                                                                                              <  1:754232/149‑1                            TTTATCTGAAGAAGAAAAATATCAAGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTT                                                                                                                      <  2:392046/149‑1                                TCTGAAGAAGAAAAATATCAAGGTGATATAGCCTATATGCAAATGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTAAATCGTTGAAAAACCGCAGTCACGTCGTATTTGGATTTGCCGCTATATTTCCAGACATCTGCTATCA                                                                                                                  >  2:124533/1‑149                                   GAAGAAGAAAAATATCAAGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTT                                                                                                               >  1:88779/1‑149                                    AAGAAGAAAAATATCAAGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTA                                                                                                              >  2:433391/1‑149                                      GAAAAAAAATATTAAGGTGATAAAGCCTATAAGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAAC                                                                                                            <  2:790570/149‑1                                       AAGAAAAATATCAAGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACC                                                                                                           >  1:254820/1‑149                                       AAGAAAAATATCAAGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACC                                                                                                           <  1:734801/149‑1                                         GAAAAATATCAAGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCA                                                                                                         <  2:664028/149‑1                                          AAAACTATCAAGGTGATACAGGCTATATGCCTTTGATGCGGAGGAATTAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCTAGACATCTGTTATCACTTAACCCAT                                                                                                        <  2:553150/149‑1                                          AAAAATATCAAGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCAT                                                                                                        <  2:681263/149‑1                                             AATATCAAGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTAC                                                                                                     >  2:207884/1‑149                                                ATCAAGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAG                                                                                                  >  2:542686/1‑149                                                ATCAAGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAG                                                                                                  <  1:842598/149‑1                                                 TCAAGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGGGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGC                                                                                                 <  2:357749/149‑1                                                    AGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCG                                                                                              >  1:543318/1‑149                                                    AGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCG                                                                                              >  1:264732/1‑149                                                                     TGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCC                                                                             <  1:637580/149‑1                                                                     TGCCTTCGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCC                                                                             <  1:744779/149‑1                                                                         TTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGG                                                                         <  1:338595/149‑1                                                                             ATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAG                                                                     <  1:522742/149‑1                                                                                CGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGA                                                                  >  1:705288/1‑149                                                                                  GAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATA                                                                >  1:490005/1‑149                                                                                     GAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCACCTATATTCCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACC                                                             <  2:420968/149‑1                                                                                        TGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAG                                                          <  2:115676/149‑1                                                                                        TGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAG                                                          <  1:207884/149‑1                                                                                           ATGTGATGGGAGTGATATAGCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTCTCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGCGCGATAACCCAGCGC                                                       >  2:755785/1‑149                                                                                                     AGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGGCGTATGTGGATTTGCCCATATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCCGATATTACCCTGGCGAGCGATAACCCCGCGCACTATGCGGA                                             >  2:177108/1‑149                                                                                                           GTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCAT                                       >  2:566882/1‑149                                                                                                           GTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCAT                                       >  1:652747/1‑149                                                                                                             ATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTC                                     >  1:494429/1‑149                                                                                                              TCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCG                                    <  1:566882/149‑1                                                                                                                 GAATAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACGGATTGTAGCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTA                                 <  1:201954/149‑1                                                                                                                    TAGTTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCAAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAA                              <  1:844022/149‑1                                                                                                                       TTGAAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGg                           >  1:101878/1‑148                                                                                                                          AAAAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCG                        >  2:396012/1‑149                                                                                                                            AAACCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATATTGCTCGAt                      >  1:518384/1‑148                                                                                                                               CCGCAGTCACGTCGTATGTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGC                   <  1:396012/149‑1                                                                                                                                          TCGTATGTGGATTTGCCCATATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGT        <  1:89913/149‑1                                                                                                                                            tctTGTGGATTTGCCCCTTGACTTCCAGACATCTTTTATCACTTAACCCATTACAAGCCCGCTGCCGGAGATATTCCCGTGGCTAGCGATAACCCCGCGCATTATGCTGATTCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTC      <  2:301997/146‑1                                                                                                                                                GTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTG  <  2:596283/149‑1                                                                                                                                                                                                                                                                                                      GTTTAAAAGTATACATAGATAACAGTTTTTATCTGAAGAAGAAAAATATCAAGGTGATATAGCCTATATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913_3_hsa_tpiA/1434605‑1434748 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTG  >  NC_000913_3_hsa_tpiA/1467910‑1468057

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ 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.