Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_045136
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 682840
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Found at i:17579 original size:27 final size:27
Alignment explanation
Indices: 17549--17609 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
17539 CAGGTATAAT
17549 AATAATGATG-TCGCCTGGTTTTTTAAG
1 AATAATGATGCT-GCCTGGTTTTTTAAG
*
17576 AATAATGCTGCTGCCTGGTTTTTTAAG
1 AATAATGATGCTGCCTGGTTTTTTAAG
17603 AATAATG
1 AATAATG
17610 CTGCCGGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.39
Consensus pattern (27 bp):
AATAATGATGCTGCCTGGTTTTTTAAG
Left flanking sequence: Indices 17049 -- 17548
CGCTTTCTTCCTTCCGGTCGAATCTATTGCTGCTTGAGAAGAGGATGTGGGAAGAGAAAGAACCT
TCGAATAAGAAGAAAGGAAGTATGACCGAATACCGCCTCACTTTCTTCGATAAAGGATAGAGTGA
GAAATTTCACTATGGAAATTACTTATAGTAAGTAGTAAGCTACTGGCGCTAAGCTGCTGGATGTT
TCTGATCAATAGGAAGAGGAGGAAAAGGAGTCAATAAAAAGCTTATGACGAACATCTATTTGAGT
CGATCATTTCCAAGATCAAATTCTTGTTTTTCCTTACGTAGAGGTAACGCCTTACAATCTTCAGT
CTTACGCTTAAGGGGGGAAATGTTCTTGTTGGATGCAGGACTTGGGACACCCAGAATTTGTATGC
AAGATGAGCTTACAGGAGAGTCAGAAAATAACCGAGCCACCAGGTTTGAGAATAAAGTGGGATCC
CTGGGTAAATCAAAGATCAAAGTGCGAGCAGGCGCCAGGTATAAT
Right flanking sequence: Indices 17610 -- 18109
CTGCCGGTAAATCAAAGATCAAAGTGCATATTTTGGAGAGATTATTCATCGATCTAGTGTCCGGT
GAATCAATGATCAAAGAGCGAGCAGCCGCCAGGTTTAATGATTTGGTGGGATCCACAGATGTAGC
GGCTGGTGAACTGCTTCTTCTTCCACGAAGATTCAGACAAATCCGAGCTTGGATGGAAGTGATAA
AGATTTGGCAAACGAAAAAGGTCAAAGGCATTATTATTAAGAAAATCAAGGGAGGTTATTCAGTA
GCCATCGCAGGTTTCATTACTTTTCTTCCATTCCGTCCTCTCAAAAGGCTTCCATTCCGCCGGAA
AGGAAAATGGAAAATGGAAATGCGAAGGCTAAGGAAAATGGAAATGCAAAGGCAAGCGCTATCGA
ATGGTCGATTCAACATCGAGCGCTATGATCCCAAATGGATGAATATTGTGGTGTCGCTACCAGCG
GAAGATCAAAGAAGAACTTGATGAGCGAAATTTGCTGACGAAAAA
Found at i:17610 original size:27 final size:27
Alignment explanation
Indices: 17561--17613 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
17551 TAATGATGTC
17561 GCCTGGTTTTTTAAGAATAATGCTGCT
1 GCCTGGTTTTTTAAGAATAATGCTGCT
17588 GCCTGGTTTTTTAAGAATAATGCTGC
1 GCCTGGTTTTTTAAGAATAATGCTGC
17614 CGGTAAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (27 bp):
GCCTGGTTTTTTAAGAATAATGCTGCT
Left flanking sequence: Indices 17061 -- 17560
TCCGGTCGAATCTATTGCTGCTTGAGAAGAGGATGTGGGAAGAGAAAGAACCTTCGAATAAGAAG
AAAGGAAGTATGACCGAATACCGCCTCACTTTCTTCGATAAAGGATAGAGTGAGAAATTTCACTA
TGGAAATTACTTATAGTAAGTAGTAAGCTACTGGCGCTAAGCTGCTGGATGTTTCTGATCAATAG
GAAGAGGAGGAAAAGGAGTCAATAAAAAGCTTATGACGAACATCTATTTGAGTCGATCATTTCCA
AGATCAAATTCTTGTTTTTCCTTACGTAGAGGTAACGCCTTACAATCTTCAGTCTTACGCTTAAG
GGGGGAAATGTTCTTGTTGGATGCAGGACTTGGGACACCCAGAATTTGTATGCAAGATGAGCTTA
CAGGAGAGTCAGAAAATAACCGAGCCACCAGGTTTGAGAATAAAGTGGGATCCCTGGGTAAATCA
AAGATCAAAGTGCGAGCAGGCGCCAGGTATAATAATAATGATGTC
Right flanking sequence: Indices 17614 -- 18113
CGGTAAATCAAAGATCAAAGTGCATATTTTGGAGAGATTATTCATCGATCTAGTGTCCGGTGAAT
CAATGATCAAAGAGCGAGCAGCCGCCAGGTTTAATGATTTGGTGGGATCCACAGATGTAGCGGCT
GGTGAACTGCTTCTTCTTCCACGAAGATTCAGACAAATCCGAGCTTGGATGGAAGTGATAAAGAT
TTGGCAAACGAAAAAGGTCAAAGGCATTATTATTAAGAAAATCAAGGGAGGTTATTCAGTAGCCA
TCGCAGGTTTCATTACTTTTCTTCCATTCCGTCCTCTCAAAAGGCTTCCATTCCGCCGGAAAGGA
AAATGGAAAATGGAAATGCGAAGGCTAAGGAAAATGGAAATGCAAAGGCAAGCGCTATCGAATGG
TCGATTCAACATCGAGCGCTATGATCCCAAATGGATGAATATTGTGGTGTCGCTACCAGCGGAAG
ATCAAAGAAGAACTTGATGAGCGAAATTTGCTGACGAAAAAGAGC
Found at i:58297 original size:7 final size:7
Alignment explanation
Indices: 58285--58316 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
58275 ATCCTATCCA
58285 GGAGGAG
1 GGAGGAG
58292 GGAGGAG
1 GGAGGAG
58299 GGAGGAG
1 GGAGGAG
*
58306 GGAGGGG
1 GGAGGAG
58313 GGAG
1 GGAG
58317 CATTTGCCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.75, T:0.00
Consensus pattern (7 bp):
GGAGGAG
Left flanking sequence: Indices 57785 -- 58284
TAGAGTAGGAAACCCCCCTCACGATCTACTAAATGGTAAGTAGCTTGATATTGGTTCGAATCCAA
TTCGTGAGATGTCCCACTGGGTCATAGAGATGTCTTGACGCCTCCATTTTCTCGTTTCGGATGAC
TGTCCCATTCCATTGATTGCTGGTAAATACGGAGTCCAATTCAACCGCGTGGTGAATGAAAGAAG
ATTCATTGAATGAGTTGACGGGGTCTGGAGGTTACGCGCCAACTCCCACACTACCATTACGCCCT
TACTCTCTTAAAGGGCTGAAGAAAAACAAAAGAAGTCACTTGACTCCCGACTGACTAACTAAAAC
AAACCTGGCGCACTGTAGCATGAGAGCAACAGGGGCAAGACGGAGATTCGCTTTTTCAAAAACTT
TTTTATTTAATTGGTACCCCTTCTTTCTAATCTAAGGCGGTACACCGAACACCAAGTAAATCTCG
ATTATAGAAAACTTTCCTAACCCGCTTTTGATACTATCCTATCCA
Right flanking sequence: Indices 58317 -- 58816
CATTTGCCAGATATGAATGATCTAAAAAATGGATCTTCATTTCCATATGTAGATGTCCTTTTCTT
CAATGGAGAAAAGCGAGATTAAAATACAAGACCTGGTCTCATCTGAGCTCTAGTAGGGCGATGTT
TACCAAATTCGAAAAAAGTGGCAATTCAAAGATTTCGTCTGGTATAAGGGTTAACTCGCGCGGTC
TCATCTCCTTTCGGGGAGAGTCAATAATGACACCCTTTCAAATACGGATTAAGGGAACGACCCCG
ACCGATCCAAAGATCGAGAGGGAGCCACGACTGAGTCCACATAGCCAGAATTCGCTCGTAGTGCA
AACTGGTCAAACCGAGCTAAGACCCGAAATCCAACACCACCGATCCGTGCTAAGGTGGTTACCTG
CCTTACCGGATACTTCTAATGGACCGCCATTAGCCCACATGGATGGTGAGAGTTGAGTAAACTCT
TGATTGAGATAGGACTGAGGTCCACATTCAACCCCCTAGCTCTAA
Found at i:96303 original size:14 final size:15
Alignment explanation
Indices: 96281--96316 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
96271 TTGTTGCTAG
96281 AGTTATTTCT-TCCT
1 AGTTATTTCTCTCCT
*
96295 AGTTCTTTCTCTCCT
1 AGTTATTTCTCTCCT
96310 AGTTATT
1 AGTTATT
96317 CTCCGATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.14, C:0.22, G:0.08, T:0.56
Consensus pattern (15 bp):
AGTTATTTCTCTCCT
Left flanking sequence: Indices 95781 -- 96280
ACCAGGCACGAAATTGCTCACCCGGCTCTTAAATAGAAATCCCTGCAGTGAAGTCACCCGAGGGT
GATATCATAAGCTGTTGTCGGAATAACTAGTAATATCATCGGTAAGAATTAAGCCAATTTCTCCT
CTTTCTTTTCTGGGCTTGTTGGAATAAGAGCTTTTGTCGCCTTTCCTTTGTCCTTTGACATCGAA
TCGGTTGTGCTAGAATCAATGGCAGATAATGCCCTCTTGTCGCAAGTGAGCAGACGATTTCTCCC
TGACATCACAGAAGACGATTTTCGGCATATGGCTACTTCTATTCTTGGGCATCCCGCCTCAAATA
GACTAGGCTCCTTCATTCCTTAGAAACCTCCTTCATTCATGCCTTTTCTCGGTTACTCTTTCCCA
GTTCCTAGCTCTAAGACTAGTGGAAGAAGGGGCAAGAGTGGCTTCGCTCCTACACCTTCTTACAC
GAAGGGCTGCTCTTACTCTTAGGAGTTCTCTTTCCTTGTTGCTAG
Right flanking sequence: Indices 96317 -- 96816
CTCCGATCAATTGCTAGTGTTTTCGAGGAATCCCCTGTTCGCAAGAGATGGGACATTTTAATCAG
AATCCCCTGCTAGCAATAATACTTGAATCCCTAGGGAGTATAATCAGTCCCCTTGCGCCTTCAAG
CTTTCAACTGATTGAAAGAGATGTGATGCTTGACAAGAGTATGCCAAGTGAACTTCCTGCGTTGG
GAAAGAAAACAGTTTGTTTTCTCATTTTACTTCCTGATTCCGCTTTCAAACTCATTTCTCGGAGA
GCTGACTGGCTTAAAATAGCTCTTGTCCTTCCCCTGCTCTGGCTCTCGAAGACTCCTGCGACCTT
GCGCTTGCGCCAGCTTTCCTAAAATCCCATCCCTACTGGTCTAAGCTTGACTTTATATCTGCCGC
TTTCTCATATGAATATGAGATAAAATAACTTTATTTAAGTGCCTTCAAATGAAAGGGCTTTCTAA
CTTACTTTATCACAGCACATGCTTTTGTTTTGCTTTGTAACCTAG
Found at i:147694 original size:23 final size:23
Alignment explanation
Indices: 147620--147697 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 23
147610 ATTAAATAGG
147620 GCACCTTGCTTCTCAACTGCTGC
1 GCACCTTGCTTCTCAACTGCTGC
** ** * *
147643 GCACCTT--TAGTGGATTGCTCC
1 GCACCTTGCTTCTCAACTGCTGC
* *
147664 GTATCTTGCTTCTCAACTGCTGC
1 GCACCTTGCTTCTCAACTGCTGC
147687 GCACCTTGCTT
1 GCACCTTGCTT
147698 TGAAGGCAGA
Statistics
Matches: 37, Mismatches: 16, Indels: 4
0.65 0.28 0.07
Matches are distributed among these distances:
21 13 0.35
23 24 0.65
ACGTcount: A:0.13, C:0.33, G:0.19, T:0.35
Consensus pattern (23 bp):
GCACCTTGCTTCTCAACTGCTGC
Left flanking sequence: Indices 147120 -- 147619
TTGGTCGAACAAGGATTCAGGCCAAAAGGCTGTTCATTTACCACTCTTGTTATTAGTACCCTATT
GCTACTACGGATTCTTAGGTCATCGCAACCTATGCTAGTGGGCAAGAAACTTTCTTCGGCTACTC
GTTTGAGTGCTGGGAAAAACTCCCTTTCAACCAGATCGTGTTGCTGGCTTTGCCTTGGTGGCTTT
TACAGCCCTTTTTCTCATTACAGTGGATTTAATTTCTTGATCCAGAGGAACACTGCCCATTAGGT
TAGGCATCTGACTAGGCAGTGGATTTGTATTGCTTTAATTCTTTCTTACTGGGGAAAGCTTCTAT
CCCTTATCTCTCTATAAATTGCATAAGAAAAGAGGGTTAGAGTCGTCTCTTTGACTGCAGAGAAA
GAATGAAGCTAGTGGAGTTAGTTCGTTACTGCGAAACTCATTGCTTGGAGTTCTTTACTGCTGCT
CACCTTGCTTAGCAACCACCAGATTCTCAACTCTTATTAAATAGG
Right flanking sequence: Indices 147698 -- 148197
TGAAGGCAGATCCTGTTTGAACCTTGCTTCTGAACCCTGATCCAGTGGATTCTTCTTGCGCAGAT
TAGGATAGGGCTTCTCCTGGTTTCCTTGCAACTGCTGCGTACCTATTCCTATCCGGTATTCGGGA
AAGAGTCTTTGGAAAGGAGTGAGCAAGTGAGTCTAATTCGGCGGGAAAGAAGACCGGCTAAATTC
TTTTCAATAGAAGTTATTTATGCACTAGTTCTGAACTAACTCCATTCTTTCCGTATTCTCATAGG
AGGGAATAATTCTTAGGGTAAAAGATTCTCATTAGTTAGTGTATTTGGAGTTACTGCGAAACTCT
CTTCTTTGGCGCGTAGGGTTGGAGGAGCGCCTCATAGACTAAGACTCTCAAACCATAGGATAAAG
ACTCTCAGATGTTTCGAATCGCATGTGTTAAGCATATGCTCTCCTATCTTCATCTATCTAGTAAG
CATCTCCCTCTCTTTCGGATTCTAGAAGGGATTCAATCACTACTC
Found at i:149074 original size:21 final size:21
Alignment explanation
Indices: 149048--149089 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
149038 CCAGAAAGAA
149048 GTCAATTCTTCTTGGACAAGG
1 GTCAATTCTTCTTGGACAAGG
149069 GTCAATTCTTCTTGGACAAGG
1 GTCAATTCTTCTTGGACAAGG
149090 ATCTATCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (21 bp):
GTCAATTCTTCTTGGACAAGG
Left flanking sequence: Indices 148548 -- 149047
CAACCTTGGTCTTTGAGATCAAGTTCAGATTAAGGCTGTGATCCATGACATGACTTGCTTAACAA
TTAGCTTTCTAGTCTAACTACTAACTACTAGTCTTTAAGGGAAATCTGTCATACGAAAAAAGAGA
TTTACAGTAAAGAAAGATTGAAATGAGAGAAAGATATTCTCACTCATTTAGGATGGAGTTTCCTT
AGGGACAAGACAAGAAGAGAAAAGAAACCTGGCTAAGCATATCATATAGAGAAATGGGAAAGCCT
CTCTTCTTGAACTCTCTTCCCTTTTTCTCTCTCTTCGGCTTCTTTGCCCTAATGATGGTCCTTTT
TTTTGATCTTATTTGTATTCTAATCTGAAGTCTCATTCTTACTACTATCTTTTTGAAGCAGATAG
TTCACAGTGCTTATTCTATAGATACTGTAAAAGCCAAAAAATGTTTTCCACATACTTCTTCATGG
AGTTGTCACCCATCCTGCTTCCTTTTGATTTTCTTCCAGAAAGAA
Right flanking sequence: Indices 149090 -- 149589
ATCTATCCTTCTGGGTCGCTTTTCTGTTCCTTTCCATAATTGTCTGTTCACAAGTGAAAAAAGAG
CAAAAAGAGTGTTTTCCTTCGAACTCCTTGGAGACTAAGACTGCGACTGCTCTTTTTTTTTTTAT
TTTAGTTGTGTGCGGGAGTATTGCCTTAGGCGTTCAAAATCCTAAAATCGCCTATTGCGATGGAA
GAAACGCATTCTTGCCCCCGCCTAGTCCGGTGCAATTGCCGGAAGAACCGGTTACTCCCCCAGAA
GCTCCGCCGGTACCTCAACCGGTACCACAACCGGTTGTTATCCCCCAATTGGCCCAGCCTCTTAT
CTCGGATGACACCCGAAGGAGCCTCCTTTATAACCGATACCTACTCCTTAATTTGGGTGGGAATG
AGGACCTACAACGAATGGTGTCCATTATCGACGCCCAAGTCATAGTGGAACGAGATGTGGAGGCG
GCATTGGTGGATGATGGATTTCGTCCCAATTCCATTCTTGCCCGA
Found at i:149101 original size:24 final size:21
Alignment explanation
Indices: 149049--149101 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
149039 CAGAAAGAAG
*
149049 TCAATTCTTCTTGGACAAGGG
1 TCAATTCTTCTTGGACAAGGA
149070 TCAATTCTTCTTGGACAAGGA
1 TCAATTCTTCTTGGACAAGGA
* *
149091 TCTATCCTTCT
1 TCAATTCTTCT
149102 GGGTCGCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCAATTCTTCTTGGACAAGGA
Left flanking sequence: Indices 148549 -- 149048
AACCTTGGTCTTTGAGATCAAGTTCAGATTAAGGCTGTGATCCATGACATGACTTGCTTAACAAT
TAGCTTTCTAGTCTAACTACTAACTACTAGTCTTTAAGGGAAATCTGTCATACGAAAAAAGAGAT
TTACAGTAAAGAAAGATTGAAATGAGAGAAAGATATTCTCACTCATTTAGGATGGAGTTTCCTTA
GGGACAAGACAAGAAGAGAAAAGAAACCTGGCTAAGCATATCATATAGAGAAATGGGAAAGCCTC
TCTTCTTGAACTCTCTTCCCTTTTTCTCTCTCTTCGGCTTCTTTGCCCTAATGATGGTCCTTTTT
TTTGATCTTATTTGTATTCTAATCTGAAGTCTCATTCTTACTACTATCTTTTTGAAGCAGATAGT
TCACAGTGCTTATTCTATAGATACTGTAAAAGCCAAAAAATGTTTTCCACATACTTCTTCATGGA
GTTGTCACCCATCCTGCTTCCTTTTGATTTTCTTCCAGAAAGAAG
Right flanking sequence: Indices 149102 -- 149601
GGGTCGCTTTTCTGTTCCTTTCCATAATTGTCTGTTCACAAGTGAAAAAAGAGCAAAAAGAGTGT
TTTCCTTCGAACTCCTTGGAGACTAAGACTGCGACTGCTCTTTTTTTTTTTATTTTAGTTGTGTG
CGGGAGTATTGCCTTAGGCGTTCAAAATCCTAAAATCGCCTATTGCGATGGAAGAAACGCATTCT
TGCCCCCGCCTAGTCCGGTGCAATTGCCGGAAGAACCGGTTACTCCCCCAGAAGCTCCGCCGGTA
CCTCAACCGGTACCACAACCGGTTGTTATCCCCCAATTGGCCCAGCCTCTTATCTCGGATGACAC
CCGAAGGAGCCTCCTTTATAACCGATACCTACTCCTTAATTTGGGTGGGAATGAGGACCTACAAC
GAATGGTGTCCATTATCGACGCCCAAGTCATAGTGGAACGAGATGTGGAGGCGGCATTGGTGGAT
GATGGATTTCGTCCCAATTCCATTCTTGCCCGATATAGGGAGATT
Found at i:184677 original size:30 final size:30
Alignment explanation
Indices: 184637--184697 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
184627 AAGTGCAGCT
184637 TTTTACGTTACGACTAGACTTCGTTGCTGC
1 TTTTACGTTACGACTAGACTTCGTTGCTGC
*
184667 TTTTATGTTACGACTAGACTTCGTTGCTGC
1 TTTTACGTTACGACTAGACTTCGTTGCTGC
184697 T
1 T
184698 CCGGCTTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.16, C:0.21, G:0.20, T:0.43
Consensus pattern (30 bp):
TTTTACGTTACGACTAGACTTCGTTGCTGC
Left flanking sequence: Indices 184137 -- 184636
AGGAGCTTTCCTACGAACAGCGCTCAGGAGCGATCAATAAGAAAGAGGAGCAGCTCGAGCAAGGT
AGAGTCTATCAAAGAATCATGTTCCTCCCTTTGGTCTGGTCAGTCTATTCCCGGCTAGCCGAAAG
ACATGAAAGGCATCCCTTTGACGAGAATGTTCCCTCGGCGGTTACGCCTCCAGAGTTTACGCTTT
ATCCAGCCTTTGATGAGCAAAGAAGAAAACTCAACTAGGGATGCAAAATCCCTCTTGAATTTCTC
TCCGTATCACTGGCAGCTCACTCAGTAGTTGATTCAGCATAGCGCGCTAAAGCAGAATGAAGAGG
ACATGTAAGCAATCCCCATCCGACAAAGGCAAGGCGAAGAGCTCAGGGGTTATTCTATTAAAGGA
GGAGTCACTATACCTACAGTATATCTCTTTGGTATGAAATAGGCCCCTCCGAAAGAACTCCATCT
ATTGGTTTATGCGCTCCAGTAAGCGATTTCGTCTCAAGTGCAGCT
Right flanking sequence: Indices 184698 -- 185197
CCGGCTTCTTATTCTTGCTTAGAGGGCCCGGTAGGAAATTAGATACAAGGACAGTAGGTAGTCAA
GAGAAAAGAAGACACTGACCTCTTATCAGCTCTTCAAGCAAGCGCGATAGCTAATCCAGCAAGCC
ATAAAAGAAAAGCGGAGATAAGGGAAAGGAAAGGCAACGAACGCATAAGCACACGAGTACTTAGT
AGACTTATTGGTTGGATGCTTCTTGACGGCTCTCTAGTAAGCTCCAGCTATGGATAGTTCGAGGA
AGGTGATCCCCTATCAATACCATTAAAGGGAGAAATCGTGAATAACTAAAACGAACTGCGGCAGA
ATAGGAGCCGAAAGCCAGAGCTTACTTTCACGAATAAACCCTGGTAAGGTTACCTGCGTTCTTCA
CGGCTAACTAATGTGAAGCCAACAGAGGGGCACGAGCGTCCTTTCACTAAGGAACCTATCGAGGG
TAGCCTGCGTTCTTTGCTTAACCTAAAGGAACCTATCGAGAAATT
Found at i:211598 original size:18 final size:18
Alignment explanation
Indices: 211575--211610 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
211565 GAAGAAAAGC
211575 AAAGAAGGAGCTTTCTAT
1 AAAGAAGGAGCTTTCTAT
211593 AAAGAAGGAGCTTTCTAT
1 AAAGAAGGAGCTTTCTAT
211611 TTGGGTCCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (18 bp):
AAAGAAGGAGCTTTCTAT
Left flanking sequence: Indices 211075 -- 211574
CTTTCGCCTTATCGCCCTTACGCTCCTTCCCTTGCCAATGGATCAGAATCTTTTCCAACAACGTC
CAGGACTCTATCATCCCAACCCCCCTACGACTGAGGAATCGAACATCAAGAGATAGAATAAGGCA
AGAGGCGCTCTAGTTAACTGATAGATAAAGCACCCGCAAGCAGGGACCGAAGAGATAGAAAAAGG
GAAGACACGCCAATCGACCCGAATAGATAGCCTGTGGGAGAATCGGTGCACCCAACCTCAAGATA
AGAAGAAAAGGCCGCTTCGGATGCCCTCCCTTTCGCCTCTTCCCACAAGAAATGACGTAAGTAGT
AGTGCCTTTTTTGGCTAGTTACGAGAACTCAACAGTTGAGACGACTCGACTCGTATCAAGAGTAA
AAGCTCCTGACTAGCTTTAGAGCACACGGCAATTGGTACTACTTCGCTATCGGTCACCGTTAAGG
ACGATTCGGCTTGTGTTCATCGAATTGACGTAAGAGAAGAAAAGC
Right flanking sequence: Indices 211611 -- 212110
TTGGGTCCACTCGATGAGTATCCCTTGAATTTACGTTCAAAATTGTAAACAGTCGAATGCGCTCT
TTTCATCCAACTCGAAATCTCGTAAGAGAAGAAAGCGTCTGTTCACGTCAAGAAATGGTTTTGCT
GTAGTAGAGACTGGGTTCGTGTTCAGTGAGGGAACAAGCAACGGACTGAGCAGCGCGAAAGCCGT
TGCGCTAACGCGCATCCGTTTTCTTGCTAGGTAGCCAGTCTTTACTTCACTTTGGGCATTGCTTG
GCCCAAAGACTCCCATTTATTTGTTGGTCAACAACCAACCACAACTCTCTATACTTCTTCACTAC
TCCTACAGGCTTGACGGAGTTCAGTCTGTCTTGAGGGAATTTTTTTGTCTCAATCCAAAAATATG
TTTAACAGCGTTCGACGCATCTCTCTTCCTACTTATGTTTCTGGCAATCGACTTTCTCTTCCTAC
TTATCTTCAGAAACGGACATTTGTCCCCGACCCCTCCCATAGTTT
Found at i:241897 original size:70 final size:70
Alignment explanation
Indices: 241823--241960 Score: 233
Period size: 70 Copynumber: 2.0 Consensus size: 70
241813 GTGAAAAATG
241823 GTTGCACACATCTTTTCCTTCGGACAGTGAATTTCAAATTG-AGACTTTTGCAAAAACCCCGTCA
1 GTTGCACACATCTTTTCCTTCGGACAGTGAATTTCAAATTGCA-ACTTTTGCAAAAACCCCGTCA
241887 TTTTCT
65 TTTTCT
** *
241893 GTTGCACACATCTTTTCCTTCGGACAGTGAATTTCAAATTGCATTTTTTGCAAAAACCCCGTCTT
1 GTTGCACACATCTTTTCCTTCGGACAGTGAATTTCAAATTGCAACTTTTGCAAAAACCCCGTCAT
241958 TTT
66 TTT
241961 TTTCTTTTGA
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
70 63 0.98
71 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (70 bp):
GTTGCACACATCTTTTCCTTCGGACAGTGAATTTCAAATTGCAACTTTTGCAAAAACCCCGTCAT
TTTCT
Left flanking sequence: Indices 241323 -- 241822
GCGCTGTCCTCCCGTTGAGGAGGAGATCGAAAGGCTTGCTTATTTGCTGTGTTCCATGTGCCTGT
GCCTTCGGTCAGTTTTCTTCAAAGAGAGAGAGAGAATCCCATTAGATAGGTCTACTAAGCTTGCA
TAGGCAATAGCTCAATCGATCCGATCATTAGTCAGAGAATGAGTGAGTCATAGCTGTAGTAATTA
GGGTAAGAGGGAGCTAGGAGTTAGCCCAATTTCAGTGTCTAAGGAAAAGTCCACGTCAAATAGAG
AACTCAGGTACTACAATTCCATTTTCATAAGAAGCCCGTAAAGGCAGCTTCAGTTTCAAGTGAAA
ATGGAAGTCTGGTCTGGGTCTTCCTGTGCAGTCAGGCAGAATCAGAAGAAAAGAGGTAATAAATG
GAATTTCAAACTTCATTTTTTTCATTTTCCCGTGAAAAATGGTTGCAAGTGGATTTCCCTTCGGT
AAGTTCATTTCAAACTGCAAAAAATGCATTTTCCCGTGAAAAATG
Right flanking sequence: Indices 241961 -- 242460
TTTCTTTTGAACAAAGAGGCAAACGCCTGAATAATCCTAATTTTTTGTCCTTTTGATTTGAGTCC
ATAATGACTGGCAGGTTTCATTAATGAAAAGAAAAGCGGAGGCCCGCCATCTGCTAGCATTGTGG
TTTGAAATCGATTCTTTATCAATGGCCCACCCTTTCTTTGAACCTTGTCAATGATCGAACTTAAA
GATATGAACTGAGTGCCATTTGATGAGTAACTGAGAACAAGGGAGAGGGATATAGAAAGGATGAA
GTAATGAAAGAGGAAGTCATTGCTAGTAGTAACGACTTGTTACGATCCATTGGTTCATATAGAAT
CCATGTCCTAGGTGTATCAAAAAACATTCTTTTCGCTAAGCGTATATAATAAAATAGAGTGAAAG
AGTCCACCCCGAAACCAAGGGGGTACTAACTAACAGCTGAGTCCTCTCCGAACCGCAAGAGATAG
TTGCCCATCATACGGCTCACCAACTTCACTTGCCTCTATGGGGGG
Found at i:331735 original size:13 final size:13
Alignment explanation
Indices: 331717--331742 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
331707 CTCGCTCGGT
331717 TCGGTTTCCCGAC
1 TCGGTTTCCCGAC
331730 TCGGTTTCCCGAC
1 TCGGTTTCCCGAC
331743 AGGTGAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.38, G:0.23, T:0.31
Consensus pattern (13 bp):
TCGGTTTCCCGAC
Left flanking sequence: Indices 331217 -- 331716
ACTTAGCACTTGTTTTCTTATTGGGGCGGCTTCTAGCTTATGAATGGGTCGGGACCTTGATGCTC
CTTCTTTTTCTCGTTTCGGGCCTGGGCGATAGCGTCAGCATGATGATGACCCCATCCGGAGCGGG
TGGAAGCGGCGCCGGTCCCTCGGGGGAAGGCCCTTCTGGAACTAAGCTGCCGGCACACGAAGACT
CTCGGGGCCAACAACCTGGGGTGGAGCCTCAAATTTTTGAGGGGATCCCCGTACCTATCGCTAAG
ATTGAGGAGGCAATCGCCTCCCCTTTCTATATTAGCAGCGTGATCCATATTCCCGGGGAAATTGA
GGATCCCTATATAAATTAAGTAAATTAAACGGGTTGCTCCTTTTTCTCACGGAGAACGTGTTTCA
CGAGATAGAACCCGGCTACACTAAAGGACTCCAACAAGAGTTGGATCAAACCCCAGCAGACGCAC
TTGCGGCTAAGCTGGAAGAGATTCGACTTAGGGAGCTCGCTCGGT
Right flanking sequence: Indices 331743 -- 332242
AGGTGAGAAAGGCAGCACTATTCGCTTTCAGTAAAGTGTCCCTTGCTTGCACAAGCCTTATTTAT
TTTATATATGCGACCCCTTACCTTATGATTAACTTTATAACTCCTAGTCTCTGTCCGTAGGTGTA
GCTATATTACAAGCTCATGTTTCTACGATCTCAATCTGTATTTACTTGAATGATGCTATAAATCT
CCATCAAAGTGCTTATTTTTTTATAATTGAACAAAAGCGAGTCTGAGTGGGTATACTTAGTCGTG
GAGCATTCCGAGTATTTGCTTTAGGGATCGTTCCTGCGCATCTGCTTCCTTTATAGCATGCTCCG
GTTCCAGAAGGTATTGCTCTTGCCTCGGCTTCGCCTTTGAAATCGGAGACTGTTCCAATTGCCTA
CTGAGATAGGCAAGCGGGGGGAGAACTAGACGTATCTTGCTAGGCAAAGACGGGTGGATAGCTCG
CGGGTGGGATTGACGGGATAGATCACTATTGCAGAAGGAGGTAGA
Found at i:333272 original size:19 final size:19
Alignment explanation
Indices: 333248--333304 Score: 105
Period size: 19 Copynumber: 3.0 Consensus size: 19
333238 GGCAAGAATC
*
333248 TACTAGTCTTAGTGGGAAA
1 TACTAGTCTCAGTGGGAAA
333267 TACTAGTCTCAGTGGGAAA
1 TACTAGTCTCAGTGGGAAA
333286 TACTAGTCTCAGTGGGAAA
1 TACTAGTCTCAGTGGGAAA
333305 GCATCGTATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (19 bp):
TACTAGTCTCAGTGGGAAA
Left flanking sequence: Indices 332748 -- 333247
GGGAAATGGGAGAACAACAACAGCAAAGAACCTTATATAACTTAAGGTTCTTTGTCTTGTGGTGA
AAGCACGACAGGAGAAAGAAAAGCTACCTATCTTAGAGCCTTCGTCTCTTCCCCGCTTCACTACG
AAAGAAGACAGTTAAGACTTATAGCAAGGGAAGACTGTAACGAATAATAAATCAAATAGTTGGGG
GCGCGGATATCCTTATCCCGTTGAGTCAGCCGGAAGTCAGACTAATGCCTTAAAGAAGCTACTTC
AGAGGAAGAGCAAGAAAACATCCTATTTTTCTTTAGTTTTTACTTTCCCGTCCTTGGAATCAATT
CAACTAGGAAAGCGTCTTCTCTTACTATTCCCTTAGATTCACCCGTGGGAACATACTGAGTAAAT
TCAGTAGGCTAGAGCCTTTAATCAGTCTGAAGCTGCAAAGAAGTCCGAAGCCGGATTGAAGTCAT
GAGATTTAGTTATTACCACGGGATCTAGTGTTAAAGGCAAGAATC
Right flanking sequence: Indices 333305 -- 333804
GCATCGTATCTTCTATTCTGACTTCCGGTGACATAGGACGTAAGGAAGAAGCCGGAGCATCAAAC
TAAGACTAAGTCTTTGCAATCCCGGAAGCCAGGAAAAAAGAAAACCAAGATAAGCCTATTCCGAA
ACCCTTATCAAAACAAGCGTAACTCCAAAAAAACAAATAGTTGCGGAGCCGTGTTGAAGCTTCTT
GATTGAGTAGGAGAAGCCAGCCCGAGAAAGCTATAAAGGAAAGAAGGCATGCGGAGAATAGGTTT
TAACATATGATTCTTTAAGACCTTATTATGTAACAGCTCCTTCCCCGGGGATCAAAATCTTTTTA
ACTTAAGAAGGGTTCCGTCTCGAACTCCGAGTGCTTCCCAAGGAGATCAGGTTAGGGTTGGTGTG
GCCATCTACTGTTATACCCGAATCAATTCCATTAATTCATGGCGTAGACAGATCAGGGTCGAAAT
TTGTATGGTACCTAGAAATATCATAAGAGAAGAAAGCACTTAGTC
Found at i:343607 original size:23 final size:24
Alignment explanation
Indices: 343581--343646 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
343571 CTTACGGCTT
343581 AGTTACTTCGTACCTCTCG-GTCG
1 AGTTACTTCGTACCTCTCGAGTCG
** *
343604 AGTTACTTTATACCT-TAAGAGTCG
1 AGTTACTTCGTACCTCT-CGAGTCG
*
343628 AGTTACTACGTACCTCTCG
1 AGTTACTTCGTACCTCTCG
343647 TATTCACTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
22 1 0.03
23 14 0.42
24 17 0.52
25 1 0.03
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (24 bp):
AGTTACTTCGTACCTCTCGAGTCG
Left flanking sequence: Indices 343081 -- 343580
ATTGCTTTCTTAGAAGAAGAATTTTCCTTTCCAGAAGGAGTCGAGGAATTGCCTACCATCTCCTT
CTTTCTCGGGGTGGAGTTGGTCTGTCTTTCAAGACAAAGGGGTCTTTCCTTATTTAACTCACCAT
CCTGCCTATTTGAAGATAGGCCATTGTTGTTCTGTAAATGGATTCATGATATTGCCTCTTTTTTT
ATCTAGTTTGAGGTGGATGTTAAGAAGCTTTCTTAAGTCCGACCCATTTTTGTTTTTAAAACTGA
TTAAACAGTTTGATTATTAGCCAGAAGATAGACACTTATTTCCTACTAATCTTAGTCTAGAGATA
GACAAAATAGCCAACTAATAGCTTTATTTGAGTTTCCTTTTCACTTTGGACCCTATTGACTCAAA
GTTAGACCAAAATAGACTCATGTTCATAGGAAGAGGGAACCTTTCCCTTCTTTTCGTTTATCCCG
TGATTATCCTTGCTATCACTTTTCCTTTCCCTAACCTTACGGCTT
Right flanking sequence: Indices 343647 -- 344146
TATTCACTTTAGTTACTTCCGCAACGAACTATGAAAGAATGAGAGAAGGAAAAGGTAAGAAGTCA
CTCATATAGCTATATATGAGGTAAGAAGCAGCTCATATAGCTATATAAGGAAAGATTTGACGTAA
GCCTTCTAAGACGATCCAGAACGTGGGATAAAGGGCTGAAAAGGGCATGATCGCATTCTCGACTA
GCTTTTCTATGCTTCTATGCTATTCACCGTAGCTTGGATGCTATACCCCTCTGCCTTCTTGGCTA
TTAGATGCTTACCTGTAAAGTGAGCTAAATTACCTTTTGTAAATCTCTAAAAGATCGTAATGGTT
GACACATCAGCTATGCCAAAGATGTGATAAAGCACGCAACAATTGGCTTTGAGCTCGTTTTCTTC
CGCAGTCTCTTTTCTCACATAGAGACTATATGAGTGACTTCGTACCTTACCCTTTTTGGTTAGTG
ACTTCTTTTACCTTGTAATTATCTCTTTCCCTTTTTTCTTTTCTT
Found at i:343737 original size:31 final size:31
Alignment explanation
Indices: 343699--343758 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
343689 GAGAAGGAAA
343699 AGGTAAGAAGTCA-CTCATATAGCTATATATG
1 AGGTAAGAAG-CAGCTCATATAGCTATATATG
343730 AGGTAAGAAGCAGCTCATATAGCTATATA
1 AGGTAAGAAGCAGCTCATATAGCTATATA
343759 AGGAAAGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (31 bp):
AGGTAAGAAGCAGCTCATATAGCTATATATG
Left flanking sequence: Indices 343199 -- 343698
TTAACTCACCATCCTGCCTATTTGAAGATAGGCCATTGTTGTTCTGTAAATGGATTCATGATATT
GCCTCTTTTTTTATCTAGTTTGAGGTGGATGTTAAGAAGCTTTCTTAAGTCCGACCCATTTTTGT
TTTTAAAACTGATTAAACAGTTTGATTATTAGCCAGAAGATAGACACTTATTTCCTACTAATCTT
AGTCTAGAGATAGACAAAATAGCCAACTAATAGCTTTATTTGAGTTTCCTTTTCACTTTGGACCC
TATTGACTCAAAGTTAGACCAAAATAGACTCATGTTCATAGGAAGAGGGAACCTTTCCCTTCTTT
TCGTTTATCCCGTGATTATCCTTGCTATCACTTTTCCTTTCCCTAACCTTACGGCTTAGTTACTT
CGTACCTCTCGGTCGAGTTACTTTATACCTTAAGAGTCGAGTTACTACGTACCTCTCGTATTCAC
TTTAGTTACTTCCGCAACGAACTATGAAAGAATGAGAGAAGGAAA
Right flanking sequence: Indices 343759 -- 344258
AGGAAAGATTTGACGTAAGCCTTCTAAGACGATCCAGAACGTGGGATAAAGGGCTGAAAAGGGCA
TGATCGCATTCTCGACTAGCTTTTCTATGCTTCTATGCTATTCACCGTAGCTTGGATGCTATACC
CCTCTGCCTTCTTGGCTATTAGATGCTTACCTGTAAAGTGAGCTAAATTACCTTTTGTAAATCTC
TAAAAGATCGTAATGGTTGACACATCAGCTATGCCAAAGATGTGATAAAGCACGCAACAATTGGC
TTTGAGCTCGTTTTCTTCCGCAGTCTCTTTTCTCACATAGAGACTATATGAGTGACTTCGTACCT
TACCCTTTTTGGTTAGTGACTTCTTTTACCTTGTAATTATCTCTTTCCCTTTTTTCTTTTCTTCT
TTGGACAGCTACTGGTACTAGAATGAGACCAGACCTCTTAAGAAGGCAAATGGTTTTAGAGAAGA
TAAAAGGCATAAAGGAAGACAGCTTCCATAAAGAAAGATACGTAT
Found at i:343766 original size:29 final size:29
Alignment explanation
Indices: 343698--343766 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 29
343688 AGAGAAGGAA
343698 AAGGTAAGAAGTCACTCATATAGCTATAT
1 AAGGTAAGAAGTCACTCATATAGCTATAT
343727 ATGAGGTAAGAAG-CAGCTCATATAGCTATAT
1 A--AGGTAAGAAGTCA-CTCATATAGCTATAT
*
343758 AAGGAAAGA
1 AAGGTAAGA
343767 TTTGACGTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
29 8 0.22
30 2 0.06
31 26 0.72
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (29 bp):
AAGGTAAGAAGTCACTCATATAGCTATAT
Left flanking sequence: Indices 343198 -- 343697
TTTAACTCACCATCCTGCCTATTTGAAGATAGGCCATTGTTGTTCTGTAAATGGATTCATGATAT
TGCCTCTTTTTTTATCTAGTTTGAGGTGGATGTTAAGAAGCTTTCTTAAGTCCGACCCATTTTTG
TTTTTAAAACTGATTAAACAGTTTGATTATTAGCCAGAAGATAGACACTTATTTCCTACTAATCT
TAGTCTAGAGATAGACAAAATAGCCAACTAATAGCTTTATTTGAGTTTCCTTTTCACTTTGGACC
CTATTGACTCAAAGTTAGACCAAAATAGACTCATGTTCATAGGAAGAGGGAACCTTTCCCTTCTT
TTCGTTTATCCCGTGATTATCCTTGCTATCACTTTTCCTTTCCCTAACCTTACGGCTTAGTTACT
TCGTACCTCTCGGTCGAGTTACTTTATACCTTAAGAGTCGAGTTACTACGTACCTCTCGTATTCA
CTTTAGTTACTTCCGCAACGAACTATGAAAGAATGAGAGAAGGAA
Right flanking sequence: Indices 343767 -- 344266
TTTGACGTAAGCCTTCTAAGACGATCCAGAACGTGGGATAAAGGGCTGAAAAGGGCATGATCGCA
TTCTCGACTAGCTTTTCTATGCTTCTATGCTATTCACCGTAGCTTGGATGCTATACCCCTCTGCC
TTCTTGGCTATTAGATGCTTACCTGTAAAGTGAGCTAAATTACCTTTTGTAAATCTCTAAAAGAT
CGTAATGGTTGACACATCAGCTATGCCAAAGATGTGATAAAGCACGCAACAATTGGCTTTGAGCT
CGTTTTCTTCCGCAGTCTCTTTTCTCACATAGAGACTATATGAGTGACTTCGTACCTTACCCTTT
TTGGTTAGTGACTTCTTTTACCTTGTAATTATCTCTTTCCCTTTTTTCTTTTCTTCTTTGGACAG
CTACTGGTACTAGAATGAGACCAGACCTCTTAAGAAGGCAAATGGTTTTAGAGAAGATAAAAGGC
ATAAAGGAAGACAGCTTCCATAAAGAAAGATACGTATATAAAGAG
Found at i:345351 original size:18 final size:18
Alignment explanation
Indices: 345328--345363 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
345318 AGAGGTTCAA
345328 GCTTGAAACTTTCCTATC
1 GCTTGAAACTTTCCTATC
345346 GCTTGAAACTTTCCTATC
1 GCTTGAAACTTTCCTATC
345364 TTTCGGGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.39
Consensus pattern (18 bp):
GCTTGAAACTTTCCTATC
Left flanking sequence: Indices 344828 -- 345327
GGAGATTCGAAATCAGTCTCGGAATCTATATCGCTTTCCTCACCACTCCTATCAGTCTTAGTCTC
GGAATCTATATTGCTTTCCTCACCTCTCCTACTAGATCTTTTCTTTCTATCATTACGACTAAAAG
AAGATTGCTTCATATGATCAAGCTCAGATCGGGCAGTACCCGCGCTTTGAGATTCTGGTACCGAA
ATAGGGCCTTGTCTTAAGGCATGTAAATGATGTGGATAATACTGAGTGCTACGCATGTAAATAGG
TGGAAAACGATTACTATGTGGATATAGATGGACCATATTAAGATTACGAATGCTAGGTGGTAGCC
AATTGCTATCCCTGTAAACAAAAGCAGTATTATGAGTTCTTACTGGTATATGAAGACGATCTCGA
ATATCAGAATATCGATGATTGGTGAAAGATTGGTTGATTCCCATTTAAATACTTTTTGAAATAAT
CATTCTTTGAGGTACGGAGTCACTCGACCATAGAGAGAGGTTCAA
Right flanking sequence: Indices 345364 -- 345863
TTTCGGGAGTCCGCCCCTGTTATGGTTCTTTTAAGAAGATTCTTTCTCTTCTTTTGTCTTCTCAA
CCCCATTAGAGTGACATTTTTCCCACGTTTTTGATGCCGAATGGGAAAAGTCATTCTGGTATGGC
CGATATGGCAGATCGAAGACTTCCTACTCCAAAGATGACGGAGGCTACTTTCTTTTCTGGGCATT
GATTAACTTGCTTGGGGGCCGACGAGGCTTGGAAACCGGCTTGCCTATATATGCCTTAGGGCTGA
TGTCGTAAAACCGCAAGGGCTGACGGACGCATGCAGCACGAAGCAAGAAATGCCCGCATATCAAA
GGGTGAAGAAAAAAAAAGACGGCTTTGATTGAGGAAAGAAAAAGGCCCGGGAACGCTGGCGGGTA
CTTCACTTCGCGGGAATAGGTTCCTGTATGCTATACTATACTGCGACGGTGGCTCCATACAGGGG
AAGGGTTCTGAGTATGGAAAGTCAAACAAAGTAGACTTAAAAAGA
Found at i:351151 original size:21 final size:23
Alignment explanation
Indices: 351122--351167 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
351112 ATTGAATTGA
351122 CTTTATGGCTAGGCTC-TTTGGC
1 CTTTATGGCTAGGCTCTTTTGGC
351144 CTTT-TGGCTAGGCTCTTTTGGC
1 CTTTATGGCTAGGCTCTTTTGGC
351166 CT
1 CT
351168 ACAGTTTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.07, C:0.24, G:0.26, T:0.43
Consensus pattern (23 bp):
CTTTATGGCTAGGCTCTTTTGGC
Left flanking sequence: Indices 350622 -- 351121
TCCTACCTCGCCTGTCATGCAGAGCGGGAGCATTTAAGATTCTTCCGAATTCCTAGTATAAATTC
ATATCGAAGAGTCTTAGACTATCCTTTTTCTTGTCGGAATAAGCCCTTCTCAGGGAAGAGAAAGA
GGCCAGTCCTGCTTGACTTTGACTCTTTCCTTGCTTGCTTGGGTGGTCTCGTATTATAGACTTGA
AGCCAAAAAGATGGGGTTGGATAAAAGGAGATCTTTTTTTCTTTTCTCGTAGAAGGGAAATGTGA
GGTAGGCCAATTCTCCCGAGGGGGATAACTTTCCATATGACTATTTAAATAAGGAGTCAGTCTAG
TCGGTCATGAACGGCTTTCCTTCCTTCCGATTTGCCTTCTCTCCCTAGCTACTTTCTTTCGAGAA
TGAGAATCCTAATCATACTTTCGCTCGTGCCAATCGCCTATTCTCTAGCCGCGAAAAATCCTATT
GAGTTCTCTCTCCTCGTCTCACGACGGAACTCTGAATTGAATTGA
Right flanking sequence: Indices 351168 -- 351667
ACAGTTTCTCGATCAACTAGATGACGCATTTGAAGAAAGACAGAAGGAAGATAATCCTTATATAG
ACAATTACCTACAAGATCTCGCCCCATAAGGCTTGAATGGATGGCTTCCAAGGCCAGGGCTCGAT
CCTGCACAATTTCCTTTCCTTCCCCCCTGGGAAGATGTCTCAATTCCACACTTCCCTTACCCAAC
GTTCAGTTACTTGCTTCAGGGCAATCCTGAAGCCTAGGTTCTATATAGGTATGCTATAAGTAGTT
AACAGAATGCAATGCCTCCATTCCTGCTTGCAGATCAATCAATAATATACTGGATAATTCTTGCT
CGGCCTCGGGCCAATTAGTCAATTATAACAAGTCCTCTCTCTCTTTCTCAGCAAACTTACCGAAC
TGGCTAAAAAGAGCTAGCTCTAGGAAGGTCTCTAAGCTAAGGCTTCCTCACTTACTTGCTAGAGT
ATGGAATTAGTCCGCCTTTTGAAAGTCAGAATGATGGTTCACCAG
Found at i:353188 original size:29 final size:30
Alignment explanation
Indices: 353146--353204 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
353136 ATTCTTAAAG
*
353146 GCATTGAGAAAGA-GGGGCGTAGCGAGAAT
1 GCATTAAGAAAGAGGGGGCGTAGCGAGAAT
353175 GCATTAAGAAAGAGGGGGCGTAGCGAGAAT
1 GCATTAAGAAAGAGGGGGCGTAGCGAGAAT
353205 AGAGAATTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.36, C:0.10, G:0.41, T:0.14
Consensus pattern (30 bp):
GCATTAAGAAAGAGGGGGCGTAGCGAGAAT
Left flanking sequence: Indices 352646 -- 353145
ATTGGTATTTACGCTCCAGCTAGTTCTTCTTGCCTTCCTTCTCTTGCTGCTGCTTTGCCAATTTC
AATTTGAGTAGCTTTCGATGCGAAGCCCTTTCAATTGCGTCTGTCTTTCTTCTGCCTTTCCTGAT
GACTTTCCTTTCTTTCTTTACTCTATGTCTGTCTCGACTCTATGCCTTCTTGCTGGCTTGGTGAA
GACTGAGGTAGTGGTTTGCCACCTTCAAGCCTAGAGAGCAAGAAGCAATGCTAGGCCTGTTAGTT
GAGAAGTAGGGATGTTTTCACCTGTCCTATCGCTATCAATAAAAAGGAATTTCCTTAATGCATTG
ACCCTTTCGCCAGCACTCCTAATAAAGATATTTTCTGGATCCCTAAAGCCATTGTCCACAGCTTT
GGCTTAGTTCAAAACAGTCCTAGCTAGAGATTCTACCTTCCTTCTTAGCGCGTATCATCCCTTTC
AGTTAGCGTTTGCTTCCAGGTCAAGCCCTTTCTTAATTCTTAAAG
Right flanking sequence: Indices 353205 -- 353704
AGAGAATTCTTACCCCGATTTCGCTAAACTAGAATAGAGGGTCTCTTTGGCATTGGGAGTACATC
AGGGCAGGGACAGTCGAGCCAAAGGCTTCTTAAGGTCAATCGAGTGCGCTCCCTTGTCTTTTCTT
TTCCATCTATATGAAATAAGAAAAAACCAGGTTCTCGGGACTCTAAACGCAGGTCCTCGGGTTGA
GAACCAAATGGCGGATGCTTTGGCCACATTAGCTGCTATGTCAAAGAAGGATGTAGTCAATAAGG
AATGATGTCTTTCCATTCAGGTGGATAGTTAGCTTGGGTTCCACACCATTCCAGTAGCTTAAGTA
AAAGATAAGAGCAAACTTGCTTTCTTGCTTAAATCAGGCTGTAAAGTTCAAAAGATGATTTCGGG
TGGAAAGAGTCAAAAGGATAGCGGTTTCGATCTCTTAAGGTAAGGTACTTAGGGCCCGTTTGGTT
TAGTCCCATCGATCGGGTGGATTAGTTACGGCCGAGATAAGGGGG
Found at i:354161 original size:13 final size:13
Alignment explanation
Indices: 354143--354168 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
354133 TGCTTCTCGT
354143 CTAGCCTAATCTA
1 CTAGCCTAATCTA
354156 CTAGCCTAATCTA
1 CTAGCCTAATCTA
354169 ATAGAGTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (13 bp):
CTAGCCTAATCTA
Left flanking sequence: Indices 353643 -- 354142
TTAGGGCCCGTTTGGTTTAGTCCCATCGATCGGGTGGATTAGTTACGGCCGAGATAAGGGGGGAC
GAAGCAATAAGATCATGTCCCTCAAAGCTCCGCGAAGAGAAGCGTAGCAGGCATGTATCGATGTG
CAAACGATGTGATAGGGAGAACTTCTTGTTCTCTCAGTCAAATCTCTTTAGTAGAGAGGTAGCTT
CCTCTTCCAAATCTCTTTCTCTTGGGCTTCCCTTTGTCTGCTCTAAATTTCAAAGTAGGTTACAT
CAGTCTGAGATTCTAGTATGTCTCAAGTAGTCGGCTAGAAAGGTAGGTAGCAGCCGAGGAGAAGG
GTCCGACCCGACCCAAACCATATCCCCTCTTTCTTCTGCTATCCTTCACTGGTCGCACTCGACGA
ATTTCCTCAAAATCTTTCCTTTCATAATTTCAGTCCGCCGTAGCGAGCGCGTTTATGCGTGTAAA
ATGGATTTGGAGGTTGGGGTGCCAAAAGCCCGATTTGCTTCTCGT
Right flanking sequence: Indices 354169 -- 354668
ATAGAGTAGCTTCTTTCTCTTTACCCGGCACCTGTCCCTCTAGGGCTTTCTCGCTATTCTATAAG
CAAACCTCTTCTTGACTTTAGGTGTTTAAACGTTGGTCCACGTCAATTACATCGAGCCTTTTCTT
TTGAATTGAAGTAGGACATGAAATTCTGATAGCAGAAAGAGCTCTTTCAGACCCCTCCCTGAAAG
TCAACAACGACCGAAAAAGGCCGTAGCGCTCGACGTTTGTTTACAGACGTCTGGGGGTTTCGAAT
TGGACCTGGCGATCAACCCTTCGCTCTTCTCGCTCGCGAACATTCTTTGTTGTTAACTGACTTGC
CTGCTCTCTTAAACCACGCTGCTAAACCACGCTTCCTTGCCAAGGGCCTTCACTTCGCTCGACCG
AATGGGGACGGTAAACTGCGAACTTTTCCAGTATTCGTGGCTCGGTTGACTGGAACCCCGCACAA
CAACAAAACGGGGATAAACGGCCCTATAGACAGACCTCTCTTCTC
Found at i:389472 original size:15 final size:15
Alignment explanation
Indices: 389452--389481 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
389442 AGATCCGCTG
*
389452 CTAGTCTTTGCTTCA
1 CTAGTCCTTGCTTCA
389467 CTAGTCCTTGCTTCA
1 CTAGTCCTTGCTTCA
389482 GTTGGTCTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.30, G:0.13, T:0.43
Consensus pattern (15 bp):
CTAGTCCTTGCTTCA
Left flanking sequence: Indices 388952 -- 389451
CGGATCAATGTCCCCAGAAGCAAGGAGTACGCCCGCGTGTTTCAACGAGAACACCGAAAAAACCT
AATTCAGCTCCACGTAAGATAGCCAAAGTACGGTTGAGCAATCGACATGATATATTTGCTCACAT
TCCAGGCGAAGGTCATAATTTGCAGGAACATTCTATGGTCTTAATAAGAGGAGGTAGAGTAAAGG
ATTCGCCAGGTGTGAAATCCCATTGTATTCGAGGAGTCAAGGATTTGCTGGGAATTCCGGATCGA
AGAAGAGGCAGATCAAAATATGGTGCGGAAAAACCCAAATCGATATGAATGGAAGATGCCTCTGG
AACTTGTTTTTCTCGGTCAGTCGAGTTTATTCGTTCCAATTCATTGGTTTAATCCGGTATAAATC
TCATAGTCGGAGAATCCGCTTTTGCCTTAGCTTAGGATGAGTTCATAGGCACAGTACAGGTTACG
TAGTCAGAGTGAAAAAGATCCGATGTTCCAGATCCAGATCCGCTG
Right flanking sequence: Indices 389482 -- 389981
GTTGGTCTACCTACTGTTTGCAAGATCCAAGGTCGGGCATGAAGCTTTGGCTCAGTAGGCTTTGG
CATTCGACTTTGGGAAATAGAATAGATCGCTTACCTTGCTTTGGCATGCCAGAAAGGAAGCATTT
CGCTGTGGTTCAAGATCATTGATTGAGTAGATCCCGAGACAAAGGGAGTTGAAGTGATCCGAGGG
GGAATAGAGAAAAGCAGTTCCGGGGGTTCTGTTTGCTTAAAGAAAGCCTAGAAGTCATAAGGAAT
AGGGAATAGGCACTGTACCGTCAGCGAACTCTAAGGTTTGGCTTTTTATTTACTTTCATTAGTCA
ATGTCGCATTTCGAGTGCTTGGTTAGATCTCCTAATGTAATGAACGAGAAGATGCGGTGAATCAA
TCAGTATTAGCTAAGGAAAGCATTCTAATTCTGGGGAAGAGATTCAATCTTTCTTTATAGGAAAT
TGAGATTTATAGGGAATCTGTGCTTACTAAGCCTTTGTTTGAAGG
Found at i:399920 original size:19 final size:19
Alignment explanation
Indices: 399896--399934 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
399886 TAGAATGTAG
399896 AAAGAAGATCTTTTGTCTC
1 AAAGAAGATCTTTTGTCTC
399915 AAAGAAGATCTTTTGTCTC
1 AAAGAAGATCTTTTGTCTC
399934 A
1 A
399935 TGGTAGCCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (19 bp):
AAAGAAGATCTTTTGTCTC
Left flanking sequence: Indices 399396 -- 399895
GCAAAAGGCGCTGGAAAGAGGTCGAAAGTAGGGCGGAGGGTGGGCGTAGCGGATTTGATCATCCT
CTGCTCGTAGGGATCCGGGGCACCGCCCAGAAGCGTCACGGACGAACCGAATCGTCTCGCAGTTA
CACGAACCAGCTCAATCAGCCACGACCGATAAGATGTCAGACTAGTAAAAAGAGCAGTACGCACC
TACATTTTCAAACCTTCCAGCAGAAAAGCTCAACTAACTACAACAATAGACTGAGAGAATACCAT
ACCAATAGACTAAACGAAGACCCCCCTCCACAAGGATAGAACACACCAATAAAGAAAGACCGGAA
TTTATCTAATAACAGGATTCGCGCCATAATTATATATTAAAATTAGATATTCAATATAATAAACA
GCATATTTGGTGAAGCAAAGAGCTTCGGTCAAAAGCAGATACCACACACTCAATCCAATGAGCAA
GCACATAACATAAGCTAGACGAATCTCTATCTCTTTAGAATGTAG
Right flanking sequence: Indices 399935 -- 400434
TGGTAGCCTGCTCCAGTCCCCTTACGAAACTCTCGTTATTGGGTTAGCCATACACTTCACATGTT
TCTAGCGATTCACATGGCATCATCAAATGATACAAGTCTTGGATAAGAATCTACAACGCACTAGA
ACGCCCTTGTTGACGATCCTTTACTCCGGCAGCATCTAGGGTTCCTCGAACAATGTGATATCTCA
CACCGGGTAAATCTTTAACCCTCCCCCCTCTTACTAAGACTACCGAATGTTCTTGTGAATTATGG
CCAATACCGGGTATATAAGCAGTGATTTCAAACCCAGAGGTTAATCGTACTCTGGCAACTTTACG
TAAGGCAGAGTTTGGTTTTTTGGGGGTGATAGTGGAAAAGTTGACAGATAAGTCACCCTTACTGC
CACTCTACAGAACCGTACATGAGATTTTCGCCTCATACGGCTCCTCGTTCAATTCTTTCTCTTCT
AGTAAGGCCTTGCCTTGGAAAGGCTACATTCGATTCTGACGACGT
Found at i:408541 original size:14 final size:14
Alignment explanation
Indices: 408522--408549 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
408512 TTTCAAGGCC
408522 AAACAAAATAGCCT
1 AAACAAAATAGCCT
408536 AAACAAAATAGCCT
1 AAACAAAATAGCCT
408550 TTATAAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.21, G:0.07, T:0.14
Consensus pattern (14 bp):
AAACAAAATAGCCT
Left flanking sequence: Indices 408022 -- 408521
CCTTTCTTCTCTAACGGTGGAGCATATTGAAAATAGCTCTGCGGTAAGGGAAAGATTCTCTAAGA
AGCACAAGAGCTGGTACCTAAGCCAGTGCTATCTTAGAGTTCCAGTCTAGCGGATCAAAGAATCT
TTCCTTCTTTTCCGTCTTCGTTGAGTGAGGAGCGATGTCAAGTCTTTTTATTGTTCCGTGAGTGA
ATGGAAGTGTGGTTCTAACTGCTTTACCGGTTCAAGTAATCATTCCAAGCCCTGGAAGTCTTCCT
ACCTGGGGAAAGAAAATAGAGAACTTGCTTACTATCTCCTCCATCTAAGTTAAGTAAGAGGAGAG
GACCGTCAAGCTTAGCCTTGAGTTGGACTGTGGTCCCGCGAAGCTGGTATCCTCAGACCGCCTAA
GAAACTTTCCTACTATCGAAGGAAGGAAGTTCACTGCTTCTTTAAGCAGCAATTATCCGATCAAG
GCCACGCACAAAAGAAGATGTCTCGAATGGGATTATTTCAAGGCC
Right flanking sequence: Indices 408550 -- 409049
TTATAAGAATAAGATAAGAGAGAGAGTGCCTCACCTTTCTAAATCATTATAAGCCCGCCGACACA
CGGTGAAATGGGTGCTTTGCAGTTAAGAGGTATGAAAGAACTCGACCAAAGAGAGAGGGATTCGT
CGAGTGGGAGAGACTTTGAAAGTCTGCATTTTTCTCCTAAAGAGGGCAAGCCAGCGTCTTGTGAG
AAAGCCTGCTTTTAGCCAGTTCCAAGAAAAAGAAAGAAGTAATCAAAGGCAAGCAAGGCAAAAGC
GCTAGACAGCTGAAGCAACTCTTATTTATAAGAAGCAGGTGGAAAAGAACAATATCTTCACTTGA
CTGACCCCGGAAAGTGTGAGTTCCCCTCCATATCGATCTATTTCTTCGATAGAGCCCTCCACAAA
CTGTGGTGAATCGGGCTAGTCTGTCTATCTTGAGTTTCCCGAGGTTACCCTTCCAAACGCTCTAA
CAATCTCCAAGGCTACTCCTTATTAGTGCTTGGATGTTGGTCCAG
Found at i:471693 original size:22 final size:22
Alignment explanation
Indices: 471668--471709 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
471658 ACTGTAAGGC
471668 AGAAGAAACTGTCTATCTATAG
1 AGAAGAAACTGTCTATCTATAG
471690 AGAAGAAACTGTCTATCTAT
1 AGAAGAAACTGTCTATCTAT
471710 TCTATAGAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (22 bp):
AGAAGAAACTGTCTATCTATAG
Left flanking sequence: Indices 471168 -- 471667
CCTGCTTTTGACCGAGAATCAGCTATTCCTAGCTTTATCCTGCATTGCTTTCAAAGGGAATAACA
ACTATCAATTTATTCCTGCCTTACACGCTTAACAAGAAGGACTTCCAACTCACTTCCTCACTGGT
TGGCAGAGACCCTATTCGATCGTATGGACCTATTCCCATTTATGGGACAGTATCCCAAGCAGTAA
GGCTCTGTAGAGCTAGTCTCCTACTACTCAGGGAAAGGCAGCGGAGAAGGTATTACGTCTGGCAG
GGAATCAAAGAGGCAATATGCTTTTTATATATAACTATTACTTAGTCTTTATCTTATAAGATTTA
TATATATATATAGGGAATATCCTTTAAGCGGTTCCTTTCTCACACTCGATAGAAATAGTAAAGAC
TCCTACCCGGAGAAGAGAATACTGATAGAGGGACTTAAACTGGCTCGCATGTAAGAGAATTCACA
AGAGAAGGAATGGAAGAAATTAGGAAGGTATTATCACTGTAAGGC
Right flanking sequence: Indices 471710 -- 472209
TCTATAGAGCACATCTATGCACCGAAGGCTCTCTATAGACTATTCTAAGTGTCTCTGGGAAGAGT
CCCACCCGGGCAGGTCCGGGAAAGACAGTCCTTATAGATGGGGAGAAAATAACAAGTACTCCCTG
TCCCAACAAAGGTCAATCTTATTTAGTCTATAGGAAGAGAAAGAAGGTAGCAGAGATATGGGGGG
AGGGCGAACGAAGTGAGAGGTACGTAGTGGAAGCGAAGCGAAGTCAAAAAAGGAAGCTATGAAAG
GAGAGAATGCGGGAGACAGAATGATGTCGGGCCAGCACTAGAGGTCAGACTAAACAACCCATTCG
ACGCGTCGGGGGTACTCGACCAACGGGAGATAGGGATTTTGTGACTTACCAACCAAGCGGACATT
GAGGGCAAGACATACCATACAAATCACGGCTTCGGATGCTTCCCTACAAGCTGGCTATCTCTCCG
TGCAAAGAACTAGAAGGTCTCACAGGGACAACTATCCAAACTCCA
Found at i:529037 original size:26 final size:26
Alignment explanation
Indices: 529001--529053 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
528991 GACCCCTGTG
529001 ATAGATTAGGGTGACTAATTCGCACT
1 ATAGATTAGGGTGACTAATTCGCACT
529027 ATAGATTAGGGTGACTAATTCGCACT
1 ATAGATTAGGGTGACTAATTCGCACT
529053 A
1 A
529054 ATGAGTCAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (26 bp):
ATAGATTAGGGTGACTAATTCGCACT
Left flanking sequence: Indices 528501 -- 529000
ACTTCGACCGATTCACTAAGGTACCAGGCCTACCAATAACAATCTATCTTTATTTAGTTATTTAG
AAAGCTGAATGAATATGGATAGATGCCCACATCAAGCACTTGCCACAGAGATTCTCCTCGCTAAC
CTAGCCTGATTCTAGAACTTCTCAACCCATGACCACGCAGCTAAGAAAGCGAACATAATCAGGTT
TGAAGAAGTCAAGCCATTCTACCGACAGGAAAGGTTGGGGTATGCTCGACCGAAGGAAAAGAAAT
GAGGTCTCGTGATTTGTCTCAGGCGGACAGACTGCCCGAGCTAAAGAAATAGTAGCTGCTCCGAA
AGACCTATTCTACATCCGGGACGAGAAGTACTAATGCCGAAGACTGCACAGACACATTAGGCTTC
CTTTCTGTTCTAGATTGGATGACTCAATCCCCCTTGTCCACTTCTTAGAATGATTTCCCTATCTA
AGCCTTCAACTACCGTACCTGTGAGTTTTCGGATAGACCCCTGTG
Right flanking sequence: Indices 529054 -- 529553
ATGAGTCAGTAAGAATACAAGACCTCTTCCCCAACCCAACTCACGGAACTCAAGTCATCCTTTCT
CTTTATAGCATATCCCAATCCCGTCGCTTTATCCTTGCCCTTTTCTTTCTACAGGAGAGGGTACC
CCCTCGGTAAAGGTCTTCTTACAAATGCTAATTAGGTTAGCTCCTTATTAGGAATGGGAACGAAC
TCTTTCCAAGCACGAATTCCAGTCCTCCCAGCAGGCTTTTTCCCAGCTGCAGCAACAGTTGCAGA
TGATGCATCCGTCAAATCCTAGCACAGAGTTCCCAAGCTCCTAAACGGCAGTGGCCTGGGCTTGC
ACCACAAGCAGTTTCCAGCACTTCTGCTACTACACTCCCTACAGATGTTCCTCTGTCTACATCTG
CTCCTACTCCAGGCCTTATGAATCAGACAGTAGCCCCTGTAAAATGCAATTGGACTGAGCATACT
TCCCCTGAGGGATTAAAGTACTATTATAATAGCGTAACTCGTGAA
Found at i:540684 original size:57 final size:57
Alignment explanation
Indices: 540596--540716 Score: 242
Period size: 57 Copynumber: 2.1 Consensus size: 57
540586 GCTAGATGTG
540596 AAAGGCTTAACTCTTATATGTTTGTACTTGACTGTTAGTAAACTAAGGCAGCCTGCT
1 AAAGGCTTAACTCTTATATGTTTGTACTTGACTGTTAGTAAACTAAGGCAGCCTGCT
540653 AAAGGCTTAACTCTTATATGTTTGTACTTGACTGTTAGTAAACTAAGGCAGCCTGCT
1 AAAGGCTTAACTCTTATATGTTTGTACTTGACTGTTAGTAAACTAAGGCAGCCTGCT
540710 AAAGGCT
1 AAAGGCT
540717 GTGGAAGTGA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 64 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (57 bp):
AAAGGCTTAACTCTTATATGTTTGTACTTGACTGTTAGTAAACTAAGGCAGCCTGCT
Left flanking sequence: Indices 540096 -- 540595
AATCCAGATGACCAGGATGTGGGAGGTAAAGGGGTGACTACTAAGATAGAACCGCTAAGCAACTA
GTAAGAAAGTCCCAACGATCCTATGGTTGATTGAAAGCGCTTTGTAAGTGAAGTGAGCGTGGGTA
TAGGGCACTATCGGATTCAATGGAATAAAGAAAATCGGTCCTATCTTTATCTCGCTCCAGGAGCT
AAGCAGCCGATTAGCTTTATAATAGAAAGGCGGTAAACAATCCGTATCGGATGCCAGTCCGTCTG
TATCTATGTATTGGAAGCGGACCCATGACCTCAAAAAGAAAGAAGACGTGTGGGTCAGTTAATCT
TTTCTCGGTTGTATGGAAAGGAAGTCGGGCTTTCTATCTCTTACTTATATAAGAATAAGGCTGAT
TCCACGACTTTTGATGACACTGATGCTTATGCCTCTTAAGATAGGGGGATGCTGAAGCAGAGTAA
ACACAGGAAGCAAGAAGCCCGAGTGAGGACTGATTGCTAGATGTG
Right flanking sequence: Indices 540717 -- 541216
GTGGAAGTGAGTCACCTTACAAAGCAGAATGTTGGTTGGGAATAGGAAGTAAGTAAGACGGAACT
ACTTATCCCATTTCAAAAAAAGAGGCGAGAGAGCTTTATTTTCCAAAAGTTATTGATCTTTCGGG
AGAACTCTTATCGATGCAGCTATTGCATCTGCTACCCCGAATGCCTGGAATCTTTTTTGCACTCC
TTGAGTCTTGTTCAATCTATCATAGCATTCCATTTAAGGAATAGTACATATGAATGAAGGGCGTC
ATGCTGATCCGCGATCACTAGCAATTCCAACAAAAATTGCAAATAAAATAAATGAGATCTTTCAA
TTATTCTACTCTGTCGGGGGTAGCCTCAAAACTTTTCTACATTATCTCAAGCTGCCTTGAATGCC
ATCTTTGATGAAGATTCGGTTAGCATCAATCAGATCCGCTTTAGCTTCCTTAGCCCTAGGCTGAG
CTGAAAGCTAGTTTGCGCTATTCCTTTTCCAGTACCCTCCTCAAA
Found at i:569836 original size:18 final size:18
Alignment explanation
Indices: 569813--569848 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
569803 AAGCACCGAT
569813 GGACAGAGGTAGATAGAG
1 GGACAGAGGTAGATAGAG
569831 GGACAGAGGTAGATAGAG
1 GGACAGAGGTAGATAGAG
569849 AGCCATAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.44, T:0.11
Consensus pattern (18 bp):
GGACAGAGGTAGATAGAG
Left flanking sequence: Indices 569313 -- 569812
CCGGTGGAGGAGAACTCAAGTCAATGCGCTTACCAACTCCTTATAGACCTTCAAATCTCTTATCT
AGACAGGATAAGAGCAAATGAACCCACCCTTCCTATTGTCTATTCCTACTCCAGGCGGTGGGCAT
TAACTAGACCTGTTCTCATAGCTATCTATTGGTGCTCTCGGCATAGGAAGTCTCGCCGGTTGATC
CAGCACCTTGCTAAGTATCCATTTAAGTTCCGGCCTCCAGCCTCCTTGTGTAGTTCCAGCTGATC
CAGTCGATTTATAAGTTTCAAGCCCCTTACTAGATAGGGCGATATCCACCAAGCCAGCAGCATAC
CTTTCAGTGACCCCCGGCAAATCAACCAACGTCAGGGATGGTAACTAAAGATCGGAATAGAGATC
CAGTGCGAGCTAACCGAATTTACCCTGCAGCTAAGGCAGTCGCAGGAGAAGCGTTGAAGAAGCAG
TAGTTTAAGGCATTGATCCTGCAGCTTATCCAAATAAGCACCGAT
Right flanking sequence: Indices 569849 -- 570348
AGCCATAGGCAGACCTTCAGATAGCCTGATGAATACGACCCTAAAGAATTAGGATTAGCCCTAGA
ACCAGCTATCCTCTTGCTTTATGTCTATCCTGATTCCCTTTACCCTACTGATGTAAAGAAAATGT
AAAGTCAACGCTTTCAAAAGAAAAGACTGGAGCTGGAAAGATTCCTGCTTTTGCCTGCTTTGATT
AGGCTTCCTTCGCTTGCACCCTACGACCGAAGACAAGGAAGTGGTTCGCACTCTCCCTTGGCTCT
TTCAAATTCCATACATAGGAAGAGAGCTTCCCGAAACCATTGCTCAGCAAGCATCCCTATGTCTC
GCACTCAAGCTAAGGGCTGGAGGGTGGGCTTAGTACGGTTTACCGATCCATCAGTTCATAGAAAG
AAGTTCCAGGACATGGTCCTGGTCGAGGATGCTTTTCAGCTGAGACTACTCATGATCCGGGGCCA
TAAGAAATGAGGCGAGGTCTCTCGCCACTATATCGACCGAAGCCT
Found at i:582857 original size:15 final size:15
Alignment explanation
Indices: 582837--582874 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
582827 CGACACCACT
582837 GAGTAAGAAAAAGAA
1 GAGTAAGAAAAAGAA
582852 GAGTAAGAAAAAGAA
1 GAGTAAGAAAAAGAA
582867 -AG-AAGAAA
1 GAGTAAGAAA
582875 GTAGTCCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 6 0.26
14 2 0.09
15 15 0.65
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.05
Consensus pattern (15 bp):
GAGTAAGAAAAAGAA
Left flanking sequence: Indices 582337 -- 582836
TATTGTATCGTAGATGATGATGGAAACGAAATAATAAAGTACAAGGGGCAAGGTAAAGCAAAGGT
ATATAAAAAATGGTTTTTTGAACAGTACAATGACCCTACTCGTACAGAGAAGGTTGAAGTAGTTA
ATAACTTTAGGGTTAATTACCAACATCTAAATATATTTCAGTATAAAAACTATATAGAGCTCAAA
CTTCCGGACGATCCAAAGAGGAAGTCTGTATATCGCGAGGGAAAATGGATTGATTCTGAACCTAT
TGAGATAAATGACTTATCTTGCCTAGATCAAAGAGGACAAAAAATAGTTAAGTCCTTAAGTAATC
AAATAAGGAAACTTAAGGATGAAAATAGCAGTCTTAATGAAAGATTATCTCAGAAGGAAAGAGAG
AGAAAGGAAGATAAAGGAAAATTAAAAACAGAAGATAATCATAAAAGAATAGAAGGTACGATGGG
GGACCAGAAGATAGAAGATAGTCCTAAGAAGGCTTCGACACCACT
Right flanking sequence: Indices 582875 -- 583374
GTAGTCCTCAGAAAAAAGAAAGGATAAAAAAGAAACCTCCACCAGGCTAAGAAGAGGACCGTTAA
GAAAGAGATACTATGGTAGTTTGGCCTTACTTGTCTGAAATCGTCCTTACCTGGGAAAAAAAGCC
AGGAGTCTATCTCCGATCTTTCATTCAGTATGCCCGAGACTTACAGCAGTCAGTAAGCTCTATGA
CTTGAAGCGAGCAAGCAATGAATAAAGAGGGGAACTTGCTTTGCAAGACACATCAGGATTGAACT
TCCTAGTTTTGAGAGAACTTGCTATCGAAGAAGCTTTTAGTTAACTTCCCGGGATAGTTGTCTCC
TAGATCTGTAGATCCTAAAAACTAGATCTGTTTACCGGCTTGTCTAGCTGTAGGAAAGCACTAAT
GTTAGCGAAGCTAGCTTTAGGATAATGAGTCGATAGACTTGTTTAGCTGTAGGATAGAGTGTTCT
GTCTATAAGCATTCCACTCTTCTATAAGCTGGATTGACATCGGAA
Found at i:661310 original size:21 final size:21
Alignment explanation
Indices: 661272--661315 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
661262 TGTTTTTAAC
**
661272 TTAATATGTTGTGTTGTT-TG
1 TTAATATGTTGTAATGTTGTG
661292 TTAACTATGTTGTAATGTTGTG
1 TTAA-TATGTTGTAATGTTGTG
661314 TT
1 TT
661316 TAGTTGTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.18, C:0.02, G:0.23, T:0.57
Consensus pattern (21 bp):
TTAATATGTTGTAATGTTGTG
Left flanking sequence: Indices 660772 -- 661271
AGGTTTGAAATGATCCATGTTACGGAACCAAGACAACCTATCTTACTAATAATAATAGGATTAAT
AATAATATAATAAGAAAGAGAAAAGGGCTTCCAACGTCTATAAATAGAAGCTGCTTTCTCTATTT
GGCAAAGCAAAGGGAGACGGGGAGGAACTTAGAAGTCGGCAAAAAAAAGCTTTGAGTGTAATTAT
GGATCTTTTTACAAGACTTGAAAGAATTCCACTTGAAATATCTCAAGTGGAACGAGAGAAGAACC
AATGTCAGGAAAGGCTGGGTCTTTTTTGGGAGCATATGCCTGCTCTCGATGAGGGGGTCGTGGCA
GAAATCATGCATCAGCTCGAGGACCGCATACGCTCTCTCGAAAACAGGAAGAGGTCGCTGCTCGA
AGAACAGCAAGCGCTCCTTGTGCGGGCTGTCACCCTCGCTGCCCGGGGAGACTAGAAGACTCCGT
CGACTCTTTCTAGAAGATTCAAATAAGTAGTCCGTTGTTTTTAAC
Right flanking sequence: Indices 661316 -- 661815
TAGTTGTGTGGCTGGTCTATGTGTGTGTAAGCTTCCTATTGTATGTACTCCCATGTAACAAAATG
CTTCTAGTGCTGGAATGAATAAAATCTGCTTTGTTCTAGTTCATTCTCTTTCCCTGTTTTGTGCA
GAAAAATTTCTGATTTGAATTATTTTTGAAATCTCGTTTTTTTCTTGTTAATTTCTCACATATAC
AAGCTAAAACTACAGCCAAGAGGGTGGAAGTTGTGTGTTTACAGTAACTCTCCTATAATAGCAAA
AGCATAGCAGAAAGCTTCCATGCCTCGCTATCCTATCTTTAAAACCGCCACTACGGTGTCGTTAA
AGCGCAGTTAGATAACAAGATACCCGATACTAACGATTGAAAGTAGCACAATCGGATATAGGGCA
GGCAGAACTCCAGATCTACGAATAGCCGCGGTCAAGCCCCTTTAACAAGCAAGTAGCTAGCTTCC
ACCTTACTTAACAGCAAGGCGCGAAAGCCTTCGCCTATAGCTTAT
Found at i:669556 original size:12 final size:13
Alignment explanation
Indices: 669526--669556 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
669516 GGAATATACT
669526 AGATTGCACAAAA
1 AGATTGCACAAAA
669539 AGATTGCACAAAA
1 AGATTGCACAAAA
669552 A-ATTG
1 AGATTG
669557 TTTTTGCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.19
Consensus pattern (13 bp):
AGATTGCACAAAA
Left flanking sequence: Indices 669026 -- 669525
TAGGATTCTGTTGGAGCCGTGCTTGCACAGCATGATGACGATAAGAAGGAGAGAGCTGTGTACTA
TTTAGCTAAGTTGTTCAATGATGCATAAAATAAAGACACAGCTATGGAGAAATTCGCTCAAAAAT
TGAAGCATTATTTTCTGGCCCATGAAGTGAAACTCCTTGCCTTGCCCGGATGGATCCGATCCTCC
TCGATAAGCCTGTGCTAACTAAGTCCGCAGGAACTAAGCCAATCCTAATCCTAATGGCAGCAGTT
TTTACGTGCAGCCGTTCGTAATCTCTTGCCAAGAGTTTGATCTCGTGTCAAGACCTCTCTTCTTT
GAGTAGAAAATCGAGATCCGAAAGTTAATGGTTATAGCACCGGGGACGAATCTCGTCCGTTCTTA
AGGACAGTTGGTGCGCCCTAAGTTTTCAAAGCAAAGGCTTTTAAAGTAAAACATAAATAAAACAG
AAAGTAGTCTCCGCCAGAAACTTTTAATTAAGATAGGAATATACT
Right flanking sequence: Indices 669557 -- 670056
TTTTTGCATTAATTCAAAGCCCAAAAAGGTCCGTTGAGCGCCTCGTGGGTATGTCATAATAGATC
CGAACACTTGCCCTGGATCGACTTCCAGATCATAATTGCTCTAGTGAATAACTAAAGAAACTAGA
TAAATATAAATGGGAGATAGAAAAGAAAGAAACTAATTATAAGCATCTCTCATAGGTTCACTAAT
TACTTTTCTTGACTATTGGCGGGTCTCTTTATATGTGTTGTCCGGAAAGAGGAGGACTCAATGAT
TATTCGTTCGCCGGAACCAGAAGTCAAAATTTTGGTAGATAGGGATCCCATCAAAACTTCTTTCG
AGGAATGGGCCAGACCCGGTCATTTCTCAAGAACAATAGCTAAAGGACCTGATACTACTACTTGG
ATCTGGAACCTACATGCTGATGCTCACGATTTCGATAGCCATACCAGTGATTTGGAGGAGATTTC
TCGGAAAGTATTTAGTGCTCATTTCGGCCAACTCTCCATCATCTT
Found at i:679360 original size:13 final size:13
Alignment explanation
Indices: 679342--679368 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
679332 AATATTAGCC
679342 TATTCATTTCTAT
1 TATTCATTTCTAT
679355 TATTCATTTCTAT
1 TATTCATTTCTAT
679368 T
1 T
679369 TGGATTACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTCATTTCTAT
Left flanking sequence: Indices 678842 -- 679341
GAATAGCGGATTAAGGAAACTTCCAGTCTAGAACAGCGAAAACAGAGCGTCCACTTTTCCCCGGT
GTTAAGCATAAGGCTGAAGCCAATCTCGAAACGAAACATTGCCCGACGTGAACGGACGTTTTCTC
GAATCTTCACCTTTCTTTTCTTCAAAAGTAAGATAGGATTGTAGGCGATCTAAGGTTACCGGCTT
TGCGAGACCATTTCGGTCTACACATGGCTAAGCTCTATGGGCCTGTCGCTTTCTAAATCGACTAG
CTTACTAAATGAAGAGAGAAGAGAACTAGACTAAGTGCTTTCTTCTCTTATGATATTTTTAGTTT
TAAAGACAGAGCTCGGAAGCCTCGTAAACTCCTACTTCACTACAAGAATTTTTCTATGTACGAGT
ATCGATAAGAAAAATCCTTGATTCGTGTAAGTTTCCCTAAACCATACCTGCTATCAAAGGGGACT
TTTTACCTGATTTCGTATACAAATATCAAATATATAATATTAGCC
Right flanking sequence: Indices 679369 -- 679868
TGGATTACAAGGATCAGGCCTTTGAGTAAGGCTTTCCAGAGCAAGGATAGGCAAGGTAGGCCGGA
GGAGAGATTTCTTTATATCCCGGGGAAAAAGATAGAACGAAGGATGAATTTCTCTCAGAATTTCT
CAATTTGATTTGGCTGGAGAGGCCAGACAAGCATTGCGGTTAGACAGAGCATTACCTTCCATCTC
TCAATGCTTTGGCGACCCCGAAACTAGAATTAGCTGCAGACTTCTTGATCACAGCCAGGGTCAGC
TCTAGGCTAGCAAGTAGCGAACCTGAGACCAAAGGTAGGCTACTATGCAAGAAAGCCTAGTTTAA
GGAGGACGGAAGGTAGAGCGTGGAGCATTTTATTATTATGTACTTCTTTTTGGCTAGTCTTTTCT
TTTGAAAGCGTTGACTTTACATTTTCTTTACATCAGTAGGGTAAAGGGAATCAGGATAGACATAA
AGCAAGAGGATAGCTGGTTCTAGGGCTAATCCTAATTCTTTAGGG
Found at i:679930 original size:18 final size:18
Alignment explanation
Indices: 679907--679942 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
679897 GCCTATGGCT
679907 CTCTATCTACCTCTGTCC
1 CTCTATCTACCTCTGTCC
679925 CTCTATCTACCTCTGTCC
1 CTCTATCTACCTCTGTCC
679943 ATCGGTGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.44, G:0.06, T:0.39
Consensus pattern (18 bp):
CTCTATCTACCTCTGTCC
Left flanking sequence: Indices 679407 -- 679906
GAGCAAGGATAGGCAAGGTAGGCCGGAGGAGAGATTTCTTTATATCCCGGGGAAAAAGATAGAAC
GAAGGATGAATTTCTCTCAGAATTTCTCAATTTGATTTGGCTGGAGAGGCCAGACAAGCATTGCG
GTTAGACAGAGCATTACCTTCCATCTCTCAATGCTTTGGCGACCCCGAAACTAGAATTAGCTGCA
GACTTCTTGATCACAGCCAGGGTCAGCTCTAGGCTAGCAAGTAGCGAACCTGAGACCAAAGGTAG
GCTACTATGCAAGAAAGCCTAGTTTAAGGAGGACGGAAGGTAGAGCGTGGAGCATTTTATTATTA
TGTACTTCTTTTTGGCTAGTCTTTTCTTTTGAAAGCGTTGACTTTACATTTTCTTTACATCAGTA
GGGTAAAGGGAATCAGGATAGACATAAAGCAAGAGGATAGCTGGTTCTAGGGCTAATCCTAATTC
TTTAGGGTCGTATTCATCAGGCTATCTGAAGGTCTGCCTATGGCT
Right flanking sequence: Indices 679943 -- 680442
ATCGGTGCTTATTTGGATAAGCTGCAGGATCAATGCCTTAAACTACTGCTTCTTCAACGCTTCTC
CTGCGACTGCCTTAGCTGCAGGGTAAATTCGGTTAGCTCGCACTGGATCTCTATTCCGATCTTTA
GTTACCATCCCTGACGTTGGTTGATTTGCCGGGGGTCACTGAAAGGTATGCTGCTGGCTTGGTGG
ATATCGCCCTATCTAGTAAGGGGCTTGAAACTTATAAATCGACTGGATCAGCTGGAACTACACAA
GGAGGCTGGAGGCCGGAACTTAAATGGATACTTAGCAAGGTGCTGGATCAACCGGCGAGACTTCC
TATGCCGAGAGCACCAATAGATAGCTATGAGAACAGGTCTAGTTAATGCCCACCGCCTGGAGTAG
GAATAGACAATAGGAAGGGTGGGTTCATTTGCTCTTATCCTGTCTAGATAAGAGATTTGAAGGTC
TATAAGGAGTTGGTAAGCGCATTGACTTGAGTTCTCCTCCACCGG
Done.