Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: ON478172
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: 510187
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Found at i:24057 original size:30 final size:30
Alignment explanation
Indices: 24021--24125 Score: 210
Period size: 30 Copynumber: 3.5 Consensus size: 30
24011 ATCTTCCGTC
24021 TCGTTACCCTCTCCTTTCAGTCGAGCTACT
1 TCGTTACCCTCTCCTTTCAGTCGAGCTACT
24051 TCGTTACCCTCTCCTTTCAGTCGAGCTACT
1 TCGTTACCCTCTCCTTTCAGTCGAGCTACT
24081 TCGTTACCCTCTCCTTTCAGTCGAGCTACT
1 TCGTTACCCTCTCCTTTCAGTCGAGCTACT
24111 TCGTTACCCTCTCCT
1 TCGTTACCCTCTCCT
24126 CTGAGATACG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 75 1.00
ACGTcount: A:0.12, C:0.38, G:0.12, T:0.37
Consensus pattern (30 bp):
TCGTTACCCTCTCCTTTCAGTCGAGCTACT
Left flanking sequence: Indices 23521 -- 24020
CTATTTTCTGGTTAAATACATTACGAGATGTTTTTCCATACTTTCCGCATTCAGTTCTAGTTATT
TCTGCGCCCCTCCACTTACTCGTAACAGGCTTTCCTCGCTAAACAAGAAGAAGCTGCTAAGGTTG
CCCAATTCGTTCTATCATGGGACAGGCAGGGTTTCGCACTAAGCAAGTAAACTACCTTTATCTAA
CTGAGTTATCTGTCCTGTGAGACATAGAAGGATTATCTCATTAACTCATTCAATCAGGAAGAAGT
TTAGTCATAACGATCAGGCTATTTCAGTAGTTTTAACCCTACCCTAAGAGCGTGTCTGTCCCTAT
ATTATTTCCTCTAAAGTGGAGTCATGTCTATAGACGATAGGATCTTACGCTCATGGGAGACCGGC
TCTATGCAAGCCGCAGCTCTGAACGCATATAGCTCTACTGGGCGTGAGTTTCTCGTTCCATGTGG
GATAGCTTGCTCTAGTTGACACCCCGAACTATCACATCTTCCGTC
Right flanking sequence: Indices 24126 -- 24625
CTGAGATACGAGCTTGACAACCACATAGTAATATCCTTTCAAGTACTCCTACAGGGATAGGATTT
TCCTTCTTTTTTCGACAACCAGTATAGAAAGTATCTCGCCCCTCTGTAATTCTTATCCGTCCCCA
GATGCTGAATGAGCTAATCCTGATCTTTCTCTCATAGGGTGAGAACAAGCTCGACCACTCTTAAG
CTAGCCCGAAGCTTGATCCCGCGGCCCCGATGCTACACATCAGTTCAGAACTCTACACATAAGTT
CCTTGGCTCTGCTCGCGAATCCATTGCAATTGGGGCGAAATAAATAAAATCCCTTTTTTCTCTGT
CTGTGCGCTTAGCATCGCTTTAGCCGCATTGCTATTGCTATCTGGGAATCGGGGATCATTCCTTA
GCGCTTCACACTAAGTAAGCAAGCTACCTCTCCCTATGTCGAGCAAGTAAACTACCTCTTACTCT
GCCTCAACAGGATCTGGGCTCCGCTTGTCTTGGTCCTTAAGTGGA
Found at i:39192 original size:22 final size:23
Alignment explanation
Indices: 39153--39198 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
39143 CTTTGAGACT
**
39153 TTCTTCTCTTTGCTAGAAT-CGC
1 TTCTTCTCTTTGAAAGAATGCGC
39175 TTCTTCTCTTTGAAAGAATGCGC
1 TTCTTCTCTTTGAAAGAATGCGC
39198 T
1 T
39199 GTGATCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.17, C:0.24, G:0.15, T:0.43
Consensus pattern (23 bp):
TTCTTCTCTTTGAAAGAATGCGC
Left flanking sequence: Indices 38653 -- 39152
CGGAAAGGAATGGAATTTCTTTAAGCTTCACTCCGCTATCAGACTAGTTGCGAAGCGTTGGGATA
ACTAAAGTGGAATATGCCTCAACTAGTTGCCCAGGATGAGGCCATTGCAGCCACTAGCACGGCCA
AGTCACCAACCTATGGCTCCGGGGAAGCCGGCAGGGAGGAAGGATGATAATCCAACCAAAGGAAT
TAGCCACTCGTTCTATCAATAGGCGCCGTGGGCCTATGAGCTTCTGGGCCTGTACGATTTCCTGT
CCTCAACAGTTCAAAACGCTTGACACTGAGAGCTTTGGTGAATATTTTGCCTTTTGGTTATGGAG
TCTTTCCTTCCTTCCAAGCCGCTTTCAAAGCAGTAGGCAGTCTCTTCTTTCTTCTTATACGGTAG
CCAGTCTTTTTTAGAATGGTTGAATAGAGCCTCCCTTCTGTCTCCCAGTCTGTCTTATAAGAAGA
TAGTAGTAAGTCAGTTGTAGGTTTACGAATGGCTTCTTTGAGACT
Right flanking sequence: Indices 39199 -- 39698
GTGATCTTTTCAAGTTCATCCTAGCTATCATCTCAATCATTCTTCATTCACTTCGAGCCCTCGGG
TAGTTTTCTCATCCAGGAGAGTAGTCTTAGAGGCGGTCTCCTCCCTGTCCTTCTTAGATGGTATC
CTCTCTGTCCTTCCCCTTTCCCGGACTCGAGAACCCCTGAAGCGCACTGGAAGCATCTCAAGGAA
AAGAGAGAAGTCAAATATCGTAGGCTTTAGATAAGATTCCCTAGTAGATAGCTAAGCTAAGAGAG
TGCTCCGGAAGAGCTAATATTAAAAATTCTTTCCCTTTCTTTCACCGAGGAGGCTAACTAGATAG
ATGGTGGGTCTAAGGAAGAGAAGAATATGAGCTATATTTTCATCCCCTTTCAGTCCCTTTCCTTA
TCCTTAGAACAGTAGGGTTTGAAGCTGGCAAAGTCAATCAATCCAGCAGTCAAAGGGGCAAGTGC
AGTCACTCAACCAACGCCTTTCAAGCAATATCTTAAGTAGGGGTA
Found at i:48161 original size:25 final size:25
Alignment explanation
Indices: 48123--48172 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
48113 TTCCCTACTT
** *
48123 CTGTACTTGGTTGCCTGTCTCTAAG
1 CTGTACTTCCTTGCCTGTATCTAAG
48148 CTGTACTTCCTTGCCTGTATCTAAG
1 CTGTACTTCCTTGCCTGTATCTAAG
48173 TAGGTACGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.40
Consensus pattern (25 bp):
CTGTACTTCCTTGCCTGTATCTAAG
Left flanking sequence: Indices 47623 -- 48122
GCCCGTTGATTCAGTACGTTCCTATCCCCTTGGGAAGTTTGATCAATCTTCCTCTCCCTCTCCCT
CTCCTATGGTCGAGTGAGTCCCTACCTTTGGTCGAGCAAGTAACCTCCCTTCTCCCCAAAGGTCG
AGTGAGTCCCTACCTTCGATGCCCATTTGTTGATTAATCTGGGGCGGTATTCATCCCCGGCTTTG
GTGCCTTTCCTCGCCCTCTTTCATTTGGTAATACCCTTTGATTGACTGCATTTGCTTATCCTGGT
ATATAGGTAGTGAACTTCTGTCCTGTCGTATTGTCCTTATTGAGTTATCCTAGCAAGAATCCCCC
ATCGACTAAGAAAGCTATGTATTGATTACTATAAGAAGGAAGCCCCGCTATCTATCTCTGCTTTC
CTGTCTTCCTATCTTTCTGCCTATCTGTCTTTCCTCTTTCTGCTTTGTCTTTCTCGCTGTCGGTA
GAGATTAGTATTTCCTAAGTTGTCTGAGGCTGAGCTTCCCTACTT
Right flanking sequence: Indices 48173 -- 48672
TAGGTACGTCTCGCTTCGCTCCTCATTTCCTTGCCGTCTTTCAATTCTGACTATTGAGAAATATC
CATGAGTCTGTCCCCCCGCGAGTAAATAAGCTAACCTTGGCTTCCCCTTCGACTGAGGCGGACTT
GAGCCTAGTTATTGACTTCCTGAACCTTAAACAAGTTATCAAAGAAGTGGATTTGCTCACAGCTT
CTCCTTCGTTCCTAGACCAACAGCTTAGCTTACCTTAGCCCAGCCGTACGTCCTACTGCTTACCT
TAGCCCAACCATAGGTCCTACAGCTTCGATGGCAGAATGATTGACCGGGCCGCTTGGCCCACTTG
AACTAGCAGCCCTACCTGCTGCCGTACCTGTCTGTGAATGAACTTCTGGATATTCACCTACCAAC
ACAACCCGGGCCACGCCGGGACTTTCTTTATCCATTCAATCAAACTAGGGAAGTGGTTAGAGAAG
CAGTAGCTGCTATGCGAGTTAGATCGGTCAAGTTTTGATGTAGAT
Found at i:48431 original size:30 final size:30
Alignment explanation
Indices: 48394--48458 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
48384 CCAACAGCTT
* *
48394 AGCTTACCTTAGCCCAGCCGTACGTCCTAC
1 AGCTTACCTTAGCCCAACCATACGTCCTAC
* *
48424 TGCTTACCTTAGCCCAACCATAGGTCCTAC
1 AGCTTACCTTAGCCCAACCATACGTCCTAC
48454 AGCTT
1 AGCTT
48459 CGATGGCAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.22, C:0.37, G:0.15, T:0.26
Consensus pattern (30 bp):
AGCTTACCTTAGCCCAACCATACGTCCTAC
Left flanking sequence: Indices 47894 -- 48393
GAACTTCTGTCCTGTCGTATTGTCCTTATTGAGTTATCCTAGCAAGAATCCCCCATCGACTAAGA
AAGCTATGTATTGATTACTATAAGAAGGAAGCCCCGCTATCTATCTCTGCTTTCCTGTCTTCCTA
TCTTTCTGCCTATCTGTCTTTCCTCTTTCTGCTTTGTCTTTCTCGCTGTCGGTAGAGATTAGTAT
TTCCTAAGTTGTCTGAGGCTGAGCTTCCCTACTTCTGTACTTGGTTGCCTGTCTCTAAGCTGTAC
TTCCTTGCCTGTATCTAAGTAGGTACGTCTCGCTTCGCTCCTCATTTCCTTGCCGTCTTTCAATT
CTGACTATTGAGAAATATCCATGAGTCTGTCCCCCCGCGAGTAAATAAGCTAACCTTGGCTTCCC
CTTCGACTGAGGCGGACTTGAGCCTAGTTATTGACTTCCTGAACCTTAAACAAGTTATCAAAGAA
GTGGATTTGCTCACAGCTTCTCCTTCGTTCCTAGACCAACAGCTT
Right flanking sequence: Indices 48459 -- 48958
CGATGGCAGAATGATTGACCGGGCCGCTTGGCCCACTTGAACTAGCAGCCCTACCTGCTGCCGTA
CCTGTCTGTGAATGAACTTCTGGATATTCACCTACCAACACAACCCGGGCCACGCCGGGACTTTC
TTTATCCATTCAATCAAACTAGGGAAGTGGTTAGAGAAGCAGTAGCTGCTATGCGAGTTAGATCG
GTCAAGTTTTGATGTAGATATAGTCGCCCTCTTCTCTATGTCATAAAGTCGCTTATAATTAATGG
TTGTTCACTTCAGATGTGATACGTTGTTCACTTCGGATGTGGTGGATGAACCCTGATCGATGCGG
TTCAGGCCGTTTGATTGAACTACGCTAAGCTGAGACTTTCTCTTGTGCTTCGGGCGATCATAGTG
GATTTGATAATAGAAATAGCGAGCGGTCCGCCTTCCTTCTTCGCCTTTTCAATTTCAAGTAATGA
TAGGACTCATGGGCCAAAAGGATATTGTCTTGAATTTGTCTTTCA
Found at i:71729 original size:27 final size:21
Alignment explanation
Indices: 71677--71718 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
71667 GAGGGGTAAT
71677 AAATATAGTTTTGAGTTTGAG
1 AAATATAGTTTTGAGTTTGAG
71698 AAATATAGTTTTGAGTTTGAG
1 AAATATAGTTTTGAGTTTGAG
71719 GTGGCACAAT
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:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (21 bp):
AAATATAGTTTTGAGTTTGAG
Left flanking sequence: Indices 71177 -- 71676
GGCGGAGTGAAGGCTCCTTCTTTAATCAAAGAAAGGATAGGGATCAAGATCAATATCGAGCTTTA
GTGGTAATGGGGTAACCCGAAAGCAGAGAATCTGGGTTTTGGTAGAGGGGGTATATGACTGAGTG
AAACTCTTTGGATTCTTTACCAGTGAAGCCCTTAGGAAGAAAAGAACTAAACCTTGCTCTACTAA
GCAGCCACTGAACTCGAGGTGGGTCTTTCCTCACAGGAGAGGAGGGACGAAGCTCTTAGTTTTTC
TAGGTTCAAAGATTCCTCGCCAAGGTGCCATCTAAGCAAAAGAGAAAGAAGCTGGACCTTGGAGC
CGGAGCCTCTTCACTGCCTTTCCCTTCCGCTGGGTTGAGAACCAATACCAAGGTATATCCTAACT
AGTTCCTTTCTTTAGCGAGAGGGGGTGAGAACAGAGATTCCGCCGATCTACAGGATTCCTCTTCT
CCAGCAACTGATCCTCCGGTACCGTAGAAAGAGGGGAGGGGTAAT
Right flanking sequence: Indices 71719 -- 72218
GTGGCACAATACCTTACCTTTAGGTAGAGGAAAGACGTAGCTGGCACAAGCACAATCAGTAGCCC
TTGGCCTTGGAGGGCGGATCAAGCAAGAGCTTTTGCCTTGTGTGTGGTACTTACTCGACTACCCT
GGGAGGAGGTAGAAGGACAGGAGGTGTATGTAGGCTTGACTTCGAAATAGTAAAGTAGACAAAAA
GATGAAATAGCGGCAGGAAACTCATCCCCCGAAACCGGAACATAGGCTTCAAAATAAGCTGCAGG
AGGATTACCCCGAAAGAGAAACTGAATCAGGAAAGGAAGTGGCTTTATACTAGCTATATTGATAG
AAGAGGTAGTGAATCTTACCTGTAGTTAAAAATACCCCTTACTAATATAAGGGTATTTTCTTTCT
TGATTCTAGCTGCTAGAATTGGATGCTTTCCTGGTCTGAGTCAATGCCCCGAAAGTTCAAAATTC
ACCAGATGAAAGAGACAAAATGCAATAGCAAGACCTCTACTCATA
Found at i:75515 original size:14 final size:14
Alignment explanation
Indices: 75496--75525 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
75486 CTGACCCATG
*
75496 AGACCTATTAAGGA
1 AGACCTATTAAAGA
75510 AGACCTATTAAAGA
1 AGACCTATTAAAGA
75524 AG
1 AG
75526 GGGAACTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (14 bp):
AGACCTATTAAAGA
Left flanking sequence: Indices 74996 -- 75495
TACTCTTCCCCAATAGCTCGCTGGCCGCTATCACTTCATTCGTTCGTTTCGTACACTCCACTTGC
TTTAGTGCTCGCTCCGGTACACTCTTGGGTTGGATATACAGATGGAAAACAAGGTTTTCAGACAG
CATGAAAGATTCCCTTGAGAAGACCGATCTTAAAGCGGAAATTAATAACTCTCGCCTCATTTCTG
GCCGGGTCATAAACCCTCGTTTTTATGGTAGAAAGATGCCCTGTATCCAAATCTTCATCCGTAGC
AAAAGGAGAATCCGCAGTTTAAGACGCAACCGGAGAATCAGCTGAAACAAGAGACGCATTGGCAT
CCAAAGAAGCAAGGGATGAAGGGGAGGAGTTTCATACTGAAATCGATTCACTAAGCTAGCTTAAC
TCTTTAACTACTTGAACTAGAGGAGCGGTACGAGCTACTAATAGGCTTACTACAAAAGAAAGAAA
GGCTATTTGAGATCCTTTTTCAAGGCTCAAGTACTCTGACCCATG
Right flanking sequence: Indices 75526 -- 76025
GGGAACTAATTCCAGATATCGATTAACTGCTTGCCAACCTATCCCTAGACCGACGGATTGACCTG
CTGACCCCGCGACTTCATTGACTTCACGGACCTTGCTTTGATTTCCAATCACTGACTTAACAAAA
TAAAAGACCAGATATAAGTGGTGAACGGGACGACCGTCCCTATTCGAAGCGGAAAACGTTGATTG
ACCGTTCCCATCGTGACCCAGTTCCTTTGTTTGCTTGTGCGCGTGTTGCCTATTCAAAATACGAG
GTGAAAGAGAGACGAGTACGAGCTTCAGAACTTCTAGACAAGGGGATTCTTATAGGCCAATACGC
CTATTCCGATTATGACGATTGCGATTGAAGCTCCCGCTGGTGTGTTTGGTCAAGCTCAAAAGAAA
AGTTCCTCTTTTCGGAAGAGTCACTGTGCCCGGAACTTCAAATACCGAGTTCGGTTGCTGATGCG
ATTTAGGTTTAGGTTGCTGTCCCTGCGCTAGCTGCGGGAAGTGTG
Found at i:78472 original size:20 final size:20
Alignment explanation
Indices: 78438--78475 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
78428 CTCATAGCTG
78438 CTAGCAACTCCTAGCTACAA
1 CTAGCAACTCCTAGCTACAA
78458 CTAG-AACTCCTTAGCTAC
1 CTAGCAACTCC-TAGCTAC
78476 TAAAACAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.32, C:0.34, G:0.11, T:0.24
Consensus pattern (20 bp):
CTAGCAACTCCTAGCTACAA
Left flanking sequence: Indices 77938 -- 78437
CTGGCTACTCCACCCCAAGTCGGGATGGGTGCCACAAACACAGCTTGTACTGGCTTCTCCTATCT
TTCCATTTGAAGGAGTCTATCCCACTGCTTAAGTATGACAAATGTCTGACACTACTATATCGGAC
GTAAAGTCTTGCCCGGCCTCACTGAGTGGATCTGGTGCCCACACCGTAGCTAGTCCTCTTAGCTT
TATTGGAGCAGGTGCCCAAGCTTCTTTGGCTAAAGCACATCTCCTGTCTGAACCCTTGACCTATT
TGAAAGACAAATGCACAAACCCAAATTGAAGAAAGAGATGCTCGAGTCTCTTACGCCATCCTAGG
CGGTTCTCCCGTAGCGTCTCCGCCGGCTACTTTCTAAGGTTCAGGGTTGTCTGCCTATCCTAGGT
GACCATCTTCGTCTACTACAACGAGGGGTGTGTGCCATAGAGTGTGGTACAGGTGTCACCAGTCC
CAGACAGATTTGTTTATGATCTCGTCAACTCGGAACTCATAGCTG
Right flanking sequence: Indices 78476 -- 78975
TAAAACAAGAGCTCTTTCACTCGGGCTACTTTTATTTCTTATTGGGCAAGTTCCATTGTTCGATA
CCCTAACTATAGTAAGTAGCTTAATCTGTCGAGAAGAACCATCCCTACCGGAAAGGGGCAAGAGC
ACCTTTTGAACGGATTCAGGTCGGTCTGCTAATGTAGCTTGTTGCTTCTTTGAAGCGTATGGGGC
AGCTTGTACCCTTGTTCTGGTTGCAGCTCGAAGCGTAGATCTGCTTTCAGTTGGTCTCGTTGAAC
CAGTGGATTCAGAATCTGTCAGATAGATGGGAAGTGACTAAGTATGGTTCAGTTCACGAAAAAAC
AGAATAAGCTTATAGAGGGCGGCTCGCCCGACGAATGTCAAACAACTAAAATATGTGGCTCAGTC
TTTACTACACAGTTATAATAGCCAGACTCAAAAGTAGGCGAACGCTCATGCTTATACTCAGAAGG
GACTATGGCTATAGTACTAACTGCCTCCTTAGCCCCGGTAGACCC
Found at i:105363 original size:22 final size:21
Alignment explanation
Indices: 105319--105365 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
105309 CACTCCAGCG
*
105319 TTCTTTTTTCAGTCTTTTTCT
1 TTCTTTTTTCAGTCTCTTTCT
105340 TTCTTTTGTTCCA-TCTCTTTCT
1 TTCTTTT-TT-CAGTCTCTTTCT
105362 TTCT
1 TTCT
105366 CATTGAGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 14 0.61
23 2 0.09
ACGTcount: A:0.04, C:0.23, G:0.04, T:0.68
Consensus pattern (21 bp):
TTCTTTTTTCAGTCTCTTTCT
Left flanking sequence: Indices 104819 -- 105318
TAAGGTAGCTTAAGTACTCCTCTTAATAGAGCAACTGGTGGTACCTATTTAATATTAAATAGAAG
AAAGGAAGAAGCTCCTCCCAGGCGCAACTTCCCCACCTTTGTTGCCTACGCCCGCATTCTGTCCC
CCGCCTCTGTTGCCTGTGTGTTGCGCCTCCTACTTCTCACCTTTCGTTTTTCCATTAAGGCGGTG
GTTTACCTTTTGGTTTATTTTCCAAACCCTTTCGGTTTCTTTCCTTTCCATGGTTTGCCTTTATT
CTTTTTCTTGGAAGGTTTGTGGTCATATAGTTTAGGTTGTTTAGCTTTGACTTCATCTTTTATGG
CTTGTAGTTGTTCTTTGGTCAATTCATTTTTGTTCTTTAGTGCAGTGGTGGTATCGTGTACACCA
TTATCTCTTAGTGTTTCATCCCTGACAGTAAGATCGTATTTTCCTTCTTCTTTCCATTGATCTGT
CCCACCTTCATGTTCTTTATATTCTTTATAAAGTTCACTCCAGCG
Right flanking sequence: Indices 105366 -- 105865
CATTGAGGTATAGTTTGTATAGTATTGTCTGTGCCTCATCTATCCGGCTCGTGATTAGTTCGTTA
AGTTGTCCTTGCATCCTCTCTTTGTCTGCTAGTAGCTCATCTAACATCTGTTCTTTCACAGTTTT
AGGGAGACCGTCATTCATATGCTTCTCTTCGGACTGGACTTCAGTAGTCTCTTTCATTGTTTTGT
CTATTTCTTCTTTCCCCGTAGTTGTTTCAGCATCTCTTCTCTTTCTTTGACGCAGATCCCTTTCG
GGAATTGAATTTATGCAATCTTCCCGCTTATTCGCTTATTCTTTCATTGGACTCTCCTTAAAAAA
AGAAAAAATCTCGTATGTAAGCAAGCATCTCTGTTAACAGCTGATATGCGATAGCAGGAAGCAGG
ATGGGCTGTTACGTAATGGACAGCTACTCAGTCTTCTAGTGTTTATAGTGCATAAACGGCCTACC
GGTCTGCGACCCTTTATTCATCAATACTATCTTGATTCATTCATA
Found at i:110616 original size:19 final size:19
Alignment explanation
Indices: 110592--110629 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
110582 GGAGTTTCCA
*
110592 GCAGTAACCCCAAAGGGTT
1 GCAGTAACACCAAAGGGTT
110611 GCAGTAACACCAAAGGGTT
1 GCAGTAACACCAAAGGGTT
110630 TCAGATTCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.24, G:0.26, T:0.16
Consensus pattern (19 bp):
GCAGTAACACCAAAGGGTT
Left flanking sequence: Indices 110092 -- 110591
CTCGTTCCTAGGAACTCAGTAACGTGGCCAGTAAGTCAGCGAGCATTGAGGCAGGCAGACAGATA
TTATTAACTGCTTTAAGTCGGTAAGGCAAGGAGGGCGGATTTCACCGATCATTCCTACTTGACGC
TTTGGACGAGTATTTTCAAAACCTTAGTTCACTATCATTAAGGGAACTTCTTGGATCGCCGCTTT
GAGTCTTGTCTTAAGGCGACGGAAGGCAGAAGAGGGAAAGTCGCTCCTTAAATACGAGGAGTTTC
AAGAACCCGGCTGATCAGTGTTCTGTTACTAATATGTTGATGACTTCGGCCAGTTCCTCGGTTAA
GTTGCTTAGCATAATTGGTAACTACATGGTGTTGCTGCTATGGCCCTGGAGAGAGATTCCTACTT
ATACCGGGCAGCTCTACCAGCACTAAATTCCCTTCTTTCCGACCAGGACGTATGTTTCTTTAGCT
TGTATATCCTCTTACCATGCAGAGTTATATGTTCAGGAGTTTCCA
Right flanking sequence: Indices 110630 -- 111129
TCAGATTCCGGACTGATCTCGTAGTCGGCTAGCTCATTCGAGCGTATCTCGTTTGGCCTCTTTTT
CTCACCCTTACCTTTCCATTTCAAGCTTCATATCCTACTAATAGCCCCCCTTGTCGTTGAATCTC
TTGTAGAAACCACCATTGAATAAAATCAAAGGGTTAGTCTTCTTTGATAGAGGAAAGGTTGAATG
CTGCCCCCTTCCTCTGACCCCGAATCATTCTTTCAACCTTCGGCCAGGCGCCTAACTAACCTAAA
AATTCGGAAGCTCCTGAAGATCTGACCGAAATCGGATTTACTTTTCGCGCCAGATTTGTTGAATG
GCCTAGGAGTGAAGTTCAAGGGCTTGGCTTTTTGGCTCAGATTCCGTATCGGCTGTTTGTTCATC
AAGCCTATTCTCGAGCCTATATCTACTCTCTTTTCTTTTAGAGGCGTACCTCTCCACGAGATCGA
ACACTTTACCAAGGATTGAATCCAAAAGCAAGAACTCGGTTGACA
Found at i:114360 original size:14 final size:14
Alignment explanation
Indices: 114341--114367 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
114331 CAGCTTATCG
114341 TTAGAACGCTTTCA
1 TTAGAACGCTTTCA
114355 TTAGAACGCTTTC
1 TTAGAACGCTTTC
114368 TCGGGATAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (14 bp):
TTAGAACGCTTTCA
Left flanking sequence: Indices 113841 -- 114340
GCGGGGACAGAGAAGGATAACCTCTTTGAAAAGGACAGAGCCGCTTGGCCGCTACTTACACATCT
GGAGTTCCGGACTGAACTACGGAACGGAATTCAAGGGCTGGGCTTAGAAGCCCCTTAGATAGCAC
TTCCTCTATGAATAGAAGAGATTTTCTTTCTAGTAGAGCTCATCACGACCATCATAACCTAACTC
CAGGACTGCTACGGGCACTGATCCTTCTATTTTCTATTCAAAGTTTCGTTTCTCCTGTTGAATGT
AGTTTCTCCGGAAGCGAGCTACTGACTAGCGGCAATCGGGACGGAGAGAAGACTAGAAAACTCCG
GAAGGCGCTAACAAACCGACTCTGCTTACCTACTGAGCCCTTGAACACTGAATCCTATACTATAG
AAATGGCATTTGACCCACTTCCTTCAGCTTGCCTAAACCGTCGGTAGCGAAGGGGAAGGGTCGGT
CTGTCATTCTGTCCTGAGAGTTTAGTAAGGACTTTCAGCTTATCG
Right flanking sequence: Indices 114368 -- 114867
TCGGGATAGCTGTCCAGGGCTTTCGTCTCGGGGTAGCAACCGAATCTTAGAAAAGCGCAGACGGG
ATTAGTGGGAAGGGCTTGGTCGATAGAGATTGCTTTTTCTTTAGAATCCCTATGGAATTGGGCGA
GGAACCCTCTTCTACTCATTCATGGGCTAGGCTACTCAAGGGTTGCTGACTCTGATATTGATTCT
CAAAGTGGGCATCCTCCAGCTGGGTCTCTAGTCTTTCTCATGTATTCACTTTCACTTTCAGCAAA
GAGGTTTCAAGCAATCGAAGGAGCAATCCGTGGCAGCTCAGCTCGCTTCTCACCCTAGTTACACA
GTCCTCTTTTTTAGGAAGAATAAGAAAAATCTTACCTCCGTTTTCAAGTTTCAGTCTTTCCAGTG
GGCAAGCGAGTTTCCCTCTTACTTAAGTAAGAGTAAGCTCCCATCGAAGGTAATTTATTATTCTC
AGGCGAAGGGGAAGAACAAGCAGCGAAACGGTAATAGGAAATGGG
Found at i:115609 original size:18 final size:17
Alignment explanation
Indices: 115565--115622 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
115555 TAGTCTTACA
*
115565 TTTAAGTGGTTTGACTTTC
1 TTTAAG-GGTTTGAC-CTC
*
115584 TTTCAGGGTTTGACCTC
1 TTTAAGGGTTTGACCTC
*
115601 GTTTAAGGGTTTAACCTC
1 -TTTAAGGGTTTGACCTC
115619 TTTA
1 TTTA
115623 TGTAATTGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 6 0.18
18 23 0.68
19 5 0.15
ACGTcount: A:0.17, C:0.16, G:0.21, T:0.47
Consensus pattern (17 bp):
TTTAAGGGTTTGACCTC
Left flanking sequence: Indices 115065 -- 115564
TAAAGATTCAATCTCAAAGCGATACTAAAAATTAGGCAAAAGCAGAACTAGAACTCGAATTCTTC
GCCCCTCCCCTTGTACCAAGAAGCAAGTTCAAAACAGAAGGATAATGGGCTCGTCTATTATAAGT
TATTAGTTGACGGGGCTATCTCAGATATCTCGAGTAAGGAAACGGGCTTGATGGGGAAACATAAT
CGATTTCATAGGAAGACGTGCGCCAATCCACTTCTTTTCGAACGGTGAAGAAGGAGAATCGAATA
AGTCAAGGCGGTTCGCTTCCTCTGCTCTGGCAGCTCCTTCAGCTAGCAAGCTATGTTGGTTGGGA
CATTTCCAATCTCCACCGGCTATTAGTAATCGCCGTTTGTTCTCTCTTCTCGTTTGGGATCAAAA
AGAAATGAGTCCTTTGCCCTTCTCTGGGCCTCGTCCGCCATGGGCGAGTAGCTACATCTTCTTTA
CAAGTTAGCTCGCAAAGCGGGCTGGATTGAATCCATAGTCTTACA
Right flanking sequence: Indices 115623 -- 116122
TGTAATTGGTTAATTGAAAGGAAGGGGATGTAATGAGGTAAAATACAGTTGGTTAACCTTGTTCC
TCATTCCCTGGCTGCTCTGCTATTGTCTGATTTCTGGTCTTCTATTCTAATAACAAGTTCCATCC
ATGATTACTCTATTTCGAAAGTTGTGCTTACAGTCCGATCCTCGAAATCATCCCATTTTCGTAGG
TCCGTCCTATTCCGACTCGATCGCTCCGCCTTTCGAGGGTCGAGTTCGTGTTCACGGCTCCGACT
CGGTCTATCCTGTGACCAGTCGTATGCCGCTTCCGTTCCATACACGTACCCGTGGTTGGCGTGCT
CAAGCACCCCTTTGGTTTCGTGTGAACAAGAATCCCATTTCTTCTGCTCTTCCGGGTAGTCAAAT
TTATATCCAGGATCCGGATACAGGTGACAAAGCTGTGCTGACTTATGGCTTCTCTCGTTGGATAC
CTTACGCGATCAGGAGGTCCCAGCTTCCGTTCGTGCTTTCTTTTT
Found at i:132551 original size:30 final size:30
Alignment explanation
Indices: 132515--132576 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
132505 CCTTAACTAA
132515 TACTTAGTTAAGCCCTAAAGCCCTCCTTCT
1 TACTTAGTTAAGCCCTAAAGCCCTCCTTCT
132545 TACTTAGTTAAGCCCTAAAGCCCTCCTTCT
1 TACTTAGTTAAGCCCTAAAGCCCTCCTTCT
132575 TA
1 TA
132577 TAAGAAGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.34
Consensus pattern (30 bp):
TACTTAGTTAAGCCCTAAAGCCCTCCTTCT
Left flanking sequence: Indices 132015 -- 132514
CGCTCCAATGCAGCATTCGAGGGAAGGGGGCACCCTTTAAGAAAGAGCTTCCGAGAATTCATTAC
TCGTTGCAGCTACAGCCGTAGCCTATTCGTTAACTGGATCTCCTACCTCCACTTTTAGGGAAGGT
TGTATTGAGGGCACCACACTTAAGAAAAGAGCATATGACTTCCTTAGCGTTTCACACTAAGCTCT
TCGATCCTTAGCGCAAGCAAGCACTAAGCAAGTAAACTACCTTTGAGGAGAAGCCTCTTTTGTTT
TTAGACTACCCATTCAGCCTTAACGCACCAATGGCTAAGAAGGGTACGTACCATAAGGTCTACTT
CTTTTTGGGAAAGAAGGACTAAAAGCCAACCCTTATGCTACACATAAGCCTTATCCACGCCAACC
CTGATGCAAGCCGTCTCTACTACCTTTACTTAGATAAGTCAAGCCCTTTCCGCTACCGATAGCAG
CTCCCGCTGACCTTCACTTACTAGAAGTTCCGAGCCCTTAACTAA
Right flanking sequence: Indices 132577 -- 133076
TAAGAAGAAGCCCGTAACACCCTCTTTCAGTACTCCCACCGGGATAGGAGGAGATGATGTTTAAG
CTATCCCACCGTCCGAGTAAACTATCTCTTATAATCAGCCTGGAACTAGAGCATCCGCCTTCTGC
TACTGCTATCACATCTTCCTTCTAGTTCTGATCGTAGACAACCCTGGAAAAAACCTTATCTTCTA
ATCAGCCTTCTAGTTGACAACCCTGGAACTCTCACTGAAGCCTTCAACCCGGTCAGTCTTAACGG
GAAGATTGAAGTTCTCTATTAGCTAGGCTGGGGGAGGACCCCCAAACCCCCCCTGATGGTACCCT
CGAGTCTCACTACTGATATTACCTTCTTGCTTATCCTCTCCTCTTCTTCTGCTAGACATCATTGA
GCACTCCCGGATGTAACACATATGCCTTCTCGTAGAGCACTCCCAGAAGCTACCCTGAAGCCCGA
TCGTTCTGATCTACGACCAACCCTTCTCCGCAAATAAGACTTTTG
Found at i:132588 original size:30 final size:30
Alignment explanation
Indices: 132524--132589 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
132514 ATACTTAGTT
* **
132524 AAGCCCTAAAGCCCTCCTTCTTACTTAGTT
1 AAGCCCTAAAGCCCTCCTTCTTACTAAGAG
132554 AAGCCCTAAAGCCCTCCTTCTTA-TAAGAAG
1 AAGCCCTAAAGCCCTCCTTCTTACTAAG-AG
132584 AAGCCC
1 AAGCCC
132590 GTAACACCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 3 0.09
30 29 0.91
ACGTcount: A:0.29, C:0.33, G:0.12, T:0.26
Consensus pattern (30 bp):
AAGCCCTAAAGCCCTCCTTCTTACTAAGAG
Left flanking sequence: Indices 132024 -- 132523
GCAGCATTCGAGGGAAGGGGGCACCCTTTAAGAAAGAGCTTCCGAGAATTCATTACTCGTTGCAG
CTACAGCCGTAGCCTATTCGTTAACTGGATCTCCTACCTCCACTTTTAGGGAAGGTTGTATTGAG
GGCACCACACTTAAGAAAAGAGCATATGACTTCCTTAGCGTTTCACACTAAGCTCTTCGATCCTT
AGCGCAAGCAAGCACTAAGCAAGTAAACTACCTTTGAGGAGAAGCCTCTTTTGTTTTTAGACTAC
CCATTCAGCCTTAACGCACCAATGGCTAAGAAGGGTACGTACCATAAGGTCTACTTCTTTTTGGG
AAAGAAGGACTAAAAGCCAACCCTTATGCTACACATAAGCCTTATCCACGCCAACCCTGATGCAA
GCCGTCTCTACTACCTTTACTTAGATAAGTCAAGCCCTTTCCGCTACCGATAGCAGCTCCCGCTG
ACCTTCACTTACTAGAAGTTCCGAGCCCTTAACTAATACTTAGTT
Right flanking sequence: Indices 132590 -- 133089
GTAACACCCTCTTTCAGTACTCCCACCGGGATAGGAGGAGATGATGTTTAAGCTATCCCACCGTC
CGAGTAAACTATCTCTTATAATCAGCCTGGAACTAGAGCATCCGCCTTCTGCTACTGCTATCACA
TCTTCCTTCTAGTTCTGATCGTAGACAACCCTGGAAAAAACCTTATCTTCTAATCAGCCTTCTAG
TTGACAACCCTGGAACTCTCACTGAAGCCTTCAACCCGGTCAGTCTTAACGGGAAGATTGAAGTT
CTCTATTAGCTAGGCTGGGGGAGGACCCCCAAACCCCCCCTGATGGTACCCTCGAGTCTCACTAC
TGATATTACCTTCTTGCTTATCCTCTCCTCTTCTTCTGCTAGACATCATTGAGCACTCCCGGATG
TAACACATATGCCTTCTCGTAGAGCACTCCCAGAAGCTACCCTGAAGCCCGATCGTTCTGATCTA
CGACCAACCCTTCTCCGCAAATAAGACTTTTGAGTACCGGGGCGG
Found at i:162598 original size:19 final size:19
Alignment explanation
Indices: 162562--162616 Score: 62
Period size: 17 Copynumber: 3.0 Consensus size: 19
162552 ACTAAAGGGG
*
162562 TTATGAGTTAGAAG-AGTTA
1 TTATGAGTTA-TAGCAGTTA
162581 TTATGAGTTATAGCAG-T-
1 TTATGAGTTATAGCAGTTA
*
162598 TTAAGAGTTATAGCAGTTA
1 TTATGAGTTATAGCAGTTA
162617 GGGAGTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 15 0.48
18 4 0.13
19 12 0.39
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.38
Consensus pattern (19 bp):
TTATGAGTTATAGCAGTTA
Left flanking sequence: Indices 162062 -- 162561
CACTGATTTAAAGTTAGGGGAGCAGTGTAACTGCCATCAACTCCTATAACTCTTTTCCTTAAGTT
TAGGTTAGTTCCCTCTTAATTAGGTATTATGCAGAGTTCCTACCTAGAACTCCCTTATAAACTAG
AAAGCTAACTCGAACTCGTAACTCAATTAATTTAAGTTACAGGTATGATAAATATAAGTTACTGT
TATTAGGCGCATCCTTCTTTCTTGTCCTTGTTGGGGAATCCTATATCTTTTAAGAAAAAATAAGT
TTGAAGTCCTCTCCTTTGCAGTCGAGTTACTTTATTCCTCATAGCTTCACTCTTTTCTTTTAGTT
CCCTACGGGGTTAAGTTAAAGTCTTATTATTATTGATATTCCCCCTACGGGGAGGTTACCGTTAT
TATTATTAATAGAATTCTAATTAGTTACCAGTAAAGTATTATTAGGTATTAAAAGTCTTTTTAGT
TAGGGGTGTAACTGGGGGCACTCCCCCGGAACTAAACTAAAGGGG
Right flanking sequence: Indices 162617 -- 163116
GGGAGTTATGAGTTGCTAATTGTCATTCTCTTTAGTTCCCTACGGGGTAGTTACAGGTATGATAA
ATATAAATCTTAGTTACCGGTATTAGAAATATAAGTAATATAAATATATTGGTAGTTACAGATAT
TCTTAATTTGGTGGAACTGGGGGGTCTGGCGCAGTGTAACTGCCCCCGGAACTGGTTTAAAGAAG
AGTTAATTGTCTTAATCTTTAGAAACTAATAGCTAGAAAAACAGGCTATTCCATCTAAGGCATAA
CATGAACCGAGGAATCCAACCAAATAGGAATGAATAGGCATGTGGGAACAGCATTGCTTGCATTG
ATTCAATTGATTTGAAGCGGCGGTTATACTATACATACAGACATAGTTTTCACTAGGGGTTTTTA
CCGAGTTGGTCACAAGCCCGTCAGAAGCAACCTCAGCAGAAAGCCACTCTTCCAGAGTCTCGTCC
ATCGTCTGCTTAGGCGACTATTTAATAGCCTTTAGATCTGCCTGT
Found at i:181652 original size:39 final size:39
Alignment explanation
Indices: 181609--181687 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
181599 CGATTTTCTA
* *
181609 TTCACTCATGATCTGGCCTGGTCGACTCGATCATGATAT
1 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
181648 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
1 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
181687 T
1 T
181688 GAAGGATGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.33
Consensus pattern (39 bp):
TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
Left flanking sequence: Indices 181109 -- 181608
GCCCACACCTGTGTAGAGTGGATCGTTCAACACCTGCGGCACAAACCCATTTTTGACCTATTGGT
CCTAGTATCATAGGCGACCGAACGGCCGCCCCCTAATTACTAGACCAACCTGCTATAATAATTCC
ATAAACACCTAGCGAAGATATGGCAAACAAATAAAGTAGCCCTATGTTCGAATCTGACAATACCA
TACCATAATCAAAAGGTACAACGGCCCGAGCAACCAGACTTAACATAAATGTAGTCACTGGAGCC
ATTCTAAAAAGGGAGAAATTAGCACTACTTGGTGAAATAGGTTCTTTTAGAATCAATTTCAAACC
ATCTGCTAGAGGTTGTAACAATCCGAACGATCCCACTACATCAGGACCCTTTCGACGTTGCACAA
AAGCCATTACTTTACGTTCAGCTAGCACTAAAAAGGCTACTCCTAGTAGAAGTGGTAGAATTATT
CCAAGTATTTCGGCTGGAACAGCTATGTACGTTTTCGATTTTCTA
Right flanking sequence: Indices 181688 -- 182187
GAAGGATGGGACCTTTTCTCGAAAAACTCCGGATCCAGAGAAGAGTTGAAGATGGTGCAACATCG
TTCCCCTCTACGTTCTGTTAAAATGAAAAAACTTGCTAGAGCGAAAGCACTAACGCCAGAGCTTG
GGCAAAGTGGGGACTCTGCGTGCCCTGATTGACCAGATCTAAATAGATCTGGTTCAGACATTGAA
AGCTCTCGTCGCGAAAAAAAAGATGTTCGGATAACTCTTGGAGATTTACTTCTGCGGGTAGGTTC
ACGTTCCCATCCGGAGTAGTATCTCTATAGACTCTAAAAATTATTGAGAGTTGTTCCACTATTTT
TTCTTTAATAACATTCATGGTTACATCAGTAACCTTTGTTTCTATATTCATACTATCCATTAGAT
GGAGCATTTGGCCAGCTCTAACGGCTACAAGAATAGCTACAGGCAAAGCCAAACCCATCCTAGAT
ATAAAATCCGTAATCAGGTGATCCATATCCGCTATTATATCGTAG
Found at i:196671 original size:25 final size:25
Alignment explanation
Indices: 196643--196804 Score: 324
Period size: 25 Copynumber: 6.5 Consensus size: 25
196633 AAAGAATCTT
196643 TCGAAGAGGGGCTTGCTAAAGAGGC
1 TCGAAGAGGGGCTTGCTAAAGAGGC
196668 TCGAAGAGGGGCTTGCTAAAGAGGC
1 TCGAAGAGGGGCTTGCTAAAGAGGC
196693 TCGAAGAGGGGCTTGCTAAAGAGGC
1 TCGAAGAGGGGCTTGCTAAAGAGGC
196718 TCGAAGAGGGGCTTGCTAAAGAGGC
1 TCGAAGAGGGGCTTGCTAAAGAGGC
196743 TCGAAGAGGGGCTTGCTAAAGAGGC
1 TCGAAGAGGGGCTTGCTAAAGAGGC
196768 TCGAAGAGGGGCTTGCTAAAGAGGC
1 TCGAAGAGGGGCTTGCTAAAGAGGC
196793 TCGAAGAGGGGC
1 TCGAAGAGGGGC
196805 GGCGAAGGAA
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 137 1.00
ACGTcount: A:0.28, C:0.16, G:0.41, T:0.15
Consensus pattern (25 bp):
TCGAAGAGGGGCTTGCTAAAGAGGC
Left flanking sequence: Indices 196143 -- 196642
TTTTATTCATTTTGCATATAGGTGGAACGAACCTTTTTTCATTGTTCGGCCCGATAAGAAGTTTA
TGTCGAATCTAGCCGCGGGGGTCTCCGCTTTCCGGCTAAGCAAGTGATAAAGGAGTAGCGGATCC
CTTTGTCTGTCGCATGATACCGGGGAGGCCTTCTTTTAGCACCGGTAGCTATGAGTCAGTCGGGG
TAGTCACTCCCAAGAGAAGGTAAAGATGGGATCGTTTGTATGCGCCATACCTATAAGAGGGGAGA
GAAGGTCGAACGCTAATTCCTGACTGAAGGGCTGAGAATGAACACAAGACTTTGAAGACCAGACT
CAGGAAAGCGGACGGGAACAACAACGACGTAGTGACGTTGACTAAATACGAGATTTCGCTTAAAG
TACATAAGCGGGCCAACGGACGGCAATGAATAGTCAGACTAGCCAACCGGGGCTTCCTTCACAGG
CCAACAAGCAATACCGGGCCAAAGAGAGAAAGCCGAAAGAATCTT
Right flanking sequence: Indices 196805 -- 197304
GGCGAAGGAATACACTAAGGCAGGTTTCAGAGCTCGATAAAGCAGACTAATACTTCTAGGTAACT
AAGCGCCTGTTATCCCGGAAAGTATAATCGCAAGCCAACGGGCGGCAACAGTAAGTATGGCAAGC
TAACTGCTGGGAGAACTGTTAGTATACCAACAACTGAGGGAGGCAGTCCAGGTGGCATAAAAGAT
AGGTAATCTAATGAATGCTCGGATGCTATGCCGCTTGATTAAGGTTAGTAAGTTAAACGACTATT
GTATGAGGATTCGATCACAGTCCCTGTGTAAACGCAATCTCATTCTCAACTTCCGGGGCTTAACC
CTTCTCATAACTACAGTATTTACCCAATCTTTAAAGCGAAACCATCAAAGTTCCATCTGCTCACG
ATACATAGAGCCGACCGCCGGCTCGCTTCCAATCGGGTTAGGAGGTTAGAAGTCAGAAGTCAACA
AAAAAAAAAAAAAAAAAAACTCGATCTCAGGGTCCACCCGAGTGT
Found at i:206023 original size:22 final size:22
Alignment explanation
Indices: 205983--206026 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
205973 TATAAATCAA
*
205983 ATATAGATGAGTAATTCAAAGT
1 ATATAGATGAGTAAATCAAAGT
206005 ATATAGATGA-TGAAATCAAAGT
1 ATATAGATGAGT-AAATCAAAGT
206027 CAGTCGTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.48, C:0.05, G:0.18, T:0.30
Consensus pattern (22 bp):
ATATAGATGAGTAAATCAAAGT
Left flanking sequence: Indices 205483 -- 205982
ATTTCATCAAGGTGGCTTTAGCAACCATAGATAGACTGAAGAGCCAAGCACCTAAATTCCTCTCT
GGAGTGACCGGCGGGCTTATTTAGTTGTGGGGGTTCCATCCTTTGAGTTCCCTGTGGTCTTTTTA
TTCAATCTTTCCCACTTGAGCCTATTACTTAGGCTCATGGATCACCTTCCAAGTACCTGCTTTAT
TTATGTATTGCTCCAGGTTCCCCAGACGGGATATAAGGGACTTTCCCGAGCGAAGTGAACCACCC
GAACCACGCGGACTGAATCTAAGTAATCTGCTCTGATTGGAATGGTTATTTCTGCTTATTGGCCT
TTAAAGTAGTCTTTGTACCAGGTACACTGAACAAAAAAAAAGATTTCGAGAAAGAGGCTATAAAC
CATTGAATTGTGTCGATTCGAGCTAGCTTCAGGTCTTCTTCAATCAGAAAGTCATGCCTTTTCAC
TATAGTAAGGGATTCGATCCATATCACAAAACATATATAAATCAA
Right flanking sequence: Indices 206027 -- 206526
CAGTCGTCTATCAGTTATGGAGTTGAGAGTCACCTTTGTTGCTTCTTTTGTCTCCTACGGTTATG
CTAAGATATATTAAAATGTGCATTCAACCTATATTTCCCCTTTTCTATTGTACAGATGCCTATTC
ATTTCTGCGTAAAGCTCCCCCTTTCCTTTCTTCAAATATCTCATTTCTCAGTCTTGACTACTTCG
GGCACGGCGCGCAACGGAACAGAAAATGAAAGCAAAGAAATCTAGCCTCGTATTCCAAATAATCG
ACCAAGGAATGAAGGGATCCGTTTTGATAGATCCCGTTTTGGCTTTCATATGGCAGATGGTCCGG
TGCCTTTTCATATATGTAATGATGGCGCCCTAGGATTACACACCACGCAAGGCGGGCAAAGCCAT
TCAAATTTCACTACCTAACGGAGGAGCGTGATAACCTCTTTGTAATAAAGGAATTCATTCACCCT
TTCCATCGGCTAGGAACAGTTGTTTGGATTGGACATACGTCACAG
Found at i:207621 original size:14 final size:14
Alignment explanation
Indices: 207602--207629 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
207592 CCATCCCTTC
207602 TTCTCGAATATGTA
1 TTCTCGAATATGTA
207616 TTCTCGAATATGTA
1 TTCTCGAATATGTA
207630 CTCTTATTTC
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:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
TTCTCGAATATGTA
Left flanking sequence: Indices 207102 -- 207601
AACCTTTTATTTGCTGTGATCTCGATCCTGTTCCGATTCGGATTTCCTTTTGTAGTGGATAGCAT
CCCCTTATTGTCTTCACTAGCGTTTTCTTTTTATGTCCCGGAGCAGTCGCCTTATTCAAAACTAT
AACGATTATAGCTGCTGTACAAGAAATAGATTATATTAGTAGTAAACTATAAGACTTTTGCTTCT
AATATTGAAAATGAAGCTTCATCTCTTACCTGCGGATTTTAGTGCTTTTGAAGTGCATCTCGCGG
CCAACAAGCTCTAGTGACTGCCTCGATCAAAAGCCCTTAACCTCCTTCCTATTTGAGGATGATAC
CCGGGAACAATCCTAGATCAATGAAAGCAACCGAAGCATAGCAAGGGGAGCTTTAGCTTCTTCAT
CATGTCATTCTTCTGCTAGATGAGCCCATAAGCAATCGTAGGGCTTCCAAGCCCGACTATACTAG
ATTGGACCCTTCTGTATCTACTCTACAGAAAATAACCATCCCTTC
Right flanking sequence: Indices 207630 -- 208129
CTCTTATTTCATAGAAATGAACCATCTCGCCTTTCTCTACGCTGCCCGGTTCGTCAGGAAGGTAG
ACAATTACCACATAATAAGCAAGCAAGGCCTCATCCTCGGGTAGCATTCATCGGTGGTAGGGTGG
CGTCCCTGAAATAATAACTCTTTAATAGGCACCGCCTCGTCGAAGAAAGATATCTATTGAGTATG
TTCGCGATTCCTCTTCTTTACTCCTCCTTACTTGAAGATTGAACCTCAAAACTCTTTTATTTCGA
CCTCTATTAAGCTAGTTTTACAGGGTGATCCTGACTAAACCAAAGTACCGTGACTCAAGGGGCAT
GATCGCAAGGCCGAATCTTTTAATGTAGGGACTTCACCAGACCCGAACTTATCCTCTTAACTATG
AGTCGCCATCTTCAATTTTCTTTGTAGCCGATATCTTTCCTCCGCACCTACAAGGAGCTATATGC
ACCTCTTGTCTAATTGATCACAAGTCAAGGAAGAAGAATCTCTGG
Found at i:275532 original size:22 final size:22
Alignment explanation
Indices: 275504--275588 Score: 80
Period size: 22 Copynumber: 3.5 Consensus size: 22
275494 AGAAAACAAG
275504 CTCGACCATAGGTAGGGACTCA
1 CTCGACCATAGGTAGGGACTCA
* **
275526 CTCGACCATAGGAGAGGGAGTGAAACTTG
1 CTCGACCATAGG-TA--G-G-G--ACTCA
275555 CTCGACCATAGGTAGGGACTCA
1 CTCGACCATAGGTAGGGACTCA
275577 CTCGACCATAGG
1 CTCGACCATAGG
275589 AGAGGGAGAG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
22 27 0.54
23 1 0.02
24 1 0.02
25 2 0.04
26 2 0.04
27 1 0.02
28 1 0.02
29 15 0.30
ACGTcount: A:0.28, C:0.25, G:0.29, T:0.18
Consensus pattern (22 bp):
CTCGACCATAGGTAGGGACTCA
Left flanking sequence: Indices 275004 -- 275503
ACACTGAGCGAGAACGGTAAGGGGCGCACAAACAATGTCGTTGCGCGGGGATGCGATTCGCCAAG
CTGGGGCAAACAAAGCCGTCCGGCCCCCCACCGGATTAGGAATGCGAAGGCCTCTCCTTTTTTCT
AATTTTGTTTGAGGCTAGAGAATGAAATGCAGAAATAGGGGAAGGGTTCCAAACCTTTTTTGGTT
TAAGGGCTGCTCGCCCTACCGAAGTACCAAAGGCTTTCGAGGCTTACACCTTACCTTCCTATTAC
ACGACCTAAAAAAAGGCTTTCAGTAGCGCCCTTAGAATCTACGAAGCCTTTTGAAGCGCCAGTGG
TTGTAGCTGTGGGTAGAACTTTCGTTCTTATCGCTCTGGGTTTCGATCTATATGACCTCCGGGCG
GTACAAAGTACACCTCTTCCGTAGAGGCAGGTAGTAACCTAACCTTTAAGAGTCTGTTCAAGGTA
GCTTGCTTACTTAGTGCTTGCGCTAAGGTTCTGAAAGAAAACAAG
Right flanking sequence: Indices 275589 -- 276088
AGAGGGAGAGGGAGAGGTAGTTTACTTGCTTAGTGTGAAACGCTAAGAGAGGAGCCCTCTTACCT
ATCAATGGAAAGATCTACGTGCGTGGCGTGATAAGGAATCCTAGAAAAGATCTCATGAGACCCGC
CCACTATTACTACGAAAAAAGTACTGCCCTTTTCCGTCGCTGCTAGGAGAGTCAGCTACTTCTAT
TAGCGCCGGACCTTGAGTCGAATTGATCGTGTCATGTGCAACGTCCATCAATGATGGTTCATTAA
TGTCCATTGATTTAGACTCCTTCCCCCCTCCCAACTACGAATAAGATCGAGAGGAGCCCGAAAGC
CCCCAAACCAAGAACGGAAACGGAAGCCTTTCGATTCACTCCCCATTCTCTCTTAAATAAAGCTC
ACCCTCGAGCCCTGGGCAGGTCGGCCGGGTCTTTCCCTGTTGTTCTGTTCCCGCCACGAGAAAGA
CGCACAGAAGAGGTATGCCCAGCGCGCGGAGGATCCGTTGAGAGT
Found at i:313155 original size:36 final size:36
Alignment explanation
Indices: 313106--313175 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 36
313096 TTGGACGGCC
*
313106 CAGCTTCCTGGGAACC-CGCTGGATTCGCGGGCGGTA
1 CAGCTTCCCGGGAACCTC-CTGGATTCGCGGGCGGTA
313142 CAGCTTCCCGGGAACCTCCTGGATTCGCGGGCGG
1 CAGCTTCCCGGGAACCTCCTGGATTCGCGGGCGG
313176 CGCAGCCTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 31 0.97
37 1 0.03
ACGTcount: A:0.13, C:0.33, G:0.36, T:0.19
Consensus pattern (36 bp):
CAGCTTCCCGGGAACCTCCTGGATTCGCGGGCGGTA
Left flanking sequence: Indices 312606 -- 313105
CAAATGGAAAAGGAACACCGAGTGGGATCAAAGAAACTAGCGGACTGATCACTAAATAGATACAA
ATAGGTGCAAATTCTGACATCACCACAGCCCACTTGGTTCTTTCGCTCCTTGCTCGCGGAGCGGC
ATAACGGAAAAAAAGTCGGAATTCTACAATTTCGTGGTCAGCTTAGCGAACGCCTCCGACTGGCG
TCCGCCCTCCCGGAGTGCGTCCAATATCGCGAAAAGCCTCTCGAGGGACTCCTCCCCCGGGGGTT
ATCGAGCGCCCGAGCACCGCGTTCCAACCAAGGCCCTTCTGGGTCGAGGCGTGACATTTCCCCGA
GAATCTCTGCTTTGACCTCAAAGAGGTCCTCGGCCCTTATGCGGGCGAACTCGCAGACCTCGTAG
GTCAGCCTCGTGCCCCGACAAGAGTCGCCTCTTTATGGTCTCGACACTATCGCCCCCTATCACCT
GATCTGGTTGATACGGATAGGGAGCGGGGCCTTGGTTGGACGGCC
Right flanking sequence: Indices 313176 -- 313675
CGCAGCCTCAGAAGGGGCGGGCTCCCCCCCGGGCTGTTCCACCGAGTCTCTAAAGAGAGACTCCC
CGCTTATGCCCGGGGAAGAGATTTCGAGCGGCGAACCAGGAAGCCGCTGCCCGACTCCCTGAGAA
GGCTGCGAATTTCCTTCTTCCCCCGGTTCGGGGGTATTTTGAACCCAGGCGGAAATACCCTAAAA
AAAGGAAGAGGAAGGATGGTCATCCCCCCCGGCCCCATAAGCATTCATCATAATACACGTAGAGG
AAAAAATGGCCCCTACGGCAATAAAGAAAGAACTTCGGATCCAAAAAAAGTAAAAAAAAACAAAA
TGAGATGCACGATTAGCTTCAATTGAAAGGGCATCTTTCTCCTTCTCCAATAAAGCCATAGATAG
ATAAAGATCAAAGCTAACAGAAAAACAGTAAGAAGCATGCAGTCAAATGGATTGAAATCAATAAT
ATTCTGCAAATTTCTACGCAGCCACATGGATGAGCATGTACTTAT
Found at i:317359 original size:21 final size:21
Alignment explanation
Indices: 317335--317382 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
317325 TTTTCTTCTT
317335 TCTTAGGTATCTTCTCGTCTG
1 TCTTAGGTATCTTCTCGTCTG
* * *
317356 TCTTAGGTATCTTTTGGTCTT
1 TCTTAGGTATCTTCTCGTCTG
317377 TCTTAG
1 TCTTAG
317383 TTTTCTCGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.10, C:0.19, G:0.19, T:0.52
Consensus pattern (21 bp):
TCTTAGGTATCTTCTCGTCTG
Left flanking sequence: Indices 316835 -- 317334
CCCCAACAGACGTAGGTTGCGTATGAGCCTCCAGTAGGACTCTGGCACCCGAACTGTAGAAATGG
GTCCCGAACTAGAGGTGGTTTGATGGGTGCTCTTTGGGTTCTTAGATCCGGCGGCTACTTTACTC
ACTTAGCACCCTACGTAGGCGGGGGGAATCAACACCCCCCTCAACTGCCAATGGCCAAATCCTTA
CCCATACGAGAACTTGACTGAGCGAAATTAGCGACTTTTCGATCTGCTGTGGCCTACTAAAGAAA
CTCTAACCTTACAATGTTCATTATAGAATACTGCGTATCCATTTTTCCTCCCTTTCATTTCATAA
TACGATTAGCCTAATCTGCGAAGGTCGGTGAAATGCAGAAATGCAGGATGACCAAAAACGAACTC
ACGGAAGTTCGATCAACTATTCCCCCCTAAGGCTGAGGTCTTTGATGCGCTTCTTCATCAGTTCT
TTCGTCAGTTATCAATTGTCTTTCAAGGCGGTTTCTTTTCTTCTT
Right flanking sequence: Indices 317383 -- 317882
TTTTCTCGTCGTTAGTCACCTCTGTTTGTTCTTGTTCTTCTTTATCTAATAGCGTTCTTTCTTCA
GTAAGACTTTTCTGTCTCTCTGTAGTGTATTGAGTGTGCATCCTTTTATCTGTATTCTTCTTAGC
ATCAAACTGTGATATCATCTCTTTGTATCTCTCGGCAAACTCTCTTTCCTTCTTAGATAATTTCT
CATTTAGAATTTCATTTTCAGTCTGTAGTTGTATTAAAGCATTCCCTAGTGATTTTTTTTTTTGT
TTTCCTGGCTAGACAAGTCTTGGATATCAATTGGATCAGTATCCACCCAGACATCTCTGTGATAT
ACTGGTATCCTCTTGGTCCCCAGCTGAAGCCCAACCCTGACCATTGTGTCTTTCTTGATGATGTT
AAGAGTGTGCCAATCAATCCGGAAGTTGGCTTCCACCGGTACCTGTTTTGTACGAGATGGGTCCG
CGTACTGTGACTCAAACCATTCTTGATTGACCTGGTTTTTCGCTG
Found at i:323016 original size:51 final size:51
Alignment explanation
Indices: 322957--323053 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
322947 ACTGAAATTA
*
322957 GCTTGAGATTCCTTCG-CTGAAATTCGATTCCTTCGCCTGAGATTCCCTGCG
1 GCTTGAGATTCCTT-GTCAGAAATTCGATTCCTTCGCCTGAGATTCCCTGCG
* *
323008 GCTTGAGATTCCTTGTCAGAAATTCGATTCCTTGGCTTGAGATTCC
1 GCTTGAGATTCCTTGTCAGAAATTCGATTCCTTCGCCTGAGATTCC
323054 TTTGCTATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
50 1 0.02
51 41 0.98
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.35
Consensus pattern (51 bp):
GCTTGAGATTCCTTGTCAGAAATTCGATTCCTTCGCCTGAGATTCCCTGCG
Left flanking sequence: Indices 322457 -- 322956
AAAACATACTTAGTACATGAACTATTAATGCCTCAATCGTATATTGACCGAACTCTGAAAGCAAT
TCAAGATCATCCTTTTCGAATGGCCTTCTCCTGAGAAAATCCTTAGCACTTTCCTCATTTTCCCT
GATTAAGATTTTGATTATGTCGGAAGCTGACCTAAAAATAGATTTCTCATCGAACCATATAGTAA
TCTCCTCAATTTGCTTTTGGATCTCACTTAATTCATCTACACTTAATGGTAATCTTGTTTTTGCT
TCTTCCAAAATATCGAAGGCGGTTTCCTTATACTGAACTGAGTGACTCTTACCATGTTGTCCACT
CTTGTTAGTATTTTGCAATAAATAAGTGTAAAACTCATTCCAAAACCTTATTAGTTCCTTTTTGT
CTTCCTCTTTTCTAGGCATATCATCCAATGATCGAGTAAGCCAGTTTTTGTGATTCATGTCTTTC
CTTTTTTTTCAGTTTGAAGTAAAACATGGGATTTCACTGAAATTA
Right flanking sequence: Indices 323054 -- 323553
TTTGCTATTAATTTTTCAGTTGTCGCTACCCATTACTGGACGATCAGTATTCTTTATACCACACC
TCGCTATACTATATTAATGAAGTGGGGGAGAACCCTAGCCACGCTCAGGCTTTGAGTGGAATAAA
TATGAAGCATTGAACCGATCGAGAAATAGGGAAGGCTCGAGAGACCTGCATATAGTTGGCAGGGC
CAACCAATTACGCTTACCAATGAATGATATGGGTTTTCAAAATGCTTAGGCCTCCTTCGGTTCAT
CAAGGAAAAACCCTACCCTCCCTTTCTGTCCTTGAGGCTGGGTTAATTGAACTAATCAAAGTGTC
GCGGAAGCCCCTACTACAACCTTTGTTTGCTCAGGCTTACAGGAGCTAACGTTGAAACGTCTCCC
CGGATCGAGATTCGAATCTTCCGCTCTCCGCCAGCTCCTGCACAAATCTCTTCTGCCACCGTTGG
TTCTATCTTTAACATGCAAGCCTTTGAATTCGGTTCCTATCTACC
Found at i:338555 original size:17 final size:17
Alignment explanation
Indices: 338533--338567 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
338523 AAGAGGAACC
338533 TGAAGTGACTAGTCCTA
1 TGAAGTGACTAGTCCTA
*
338550 TGAAGTGACTCGTCCTA
1 TGAAGTGACTAGTCCTA
338567 T
1 T
338568 ATAGTTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (17 bp):
TGAAGTGACTAGTCCTA
Left flanking sequence: Indices 338033 -- 338532
CTTGTATACAAATTTCTCACATACCAGATTCCCGAGGAAGAAAGAGAGCTTCTTGCTTTCATGCA
TAGCAGACTAACAGAAAAGTGATCTCGCTGTACCCGATCTCCCAGCACTGACATTGAGAGAAGAG
TGGAACGGGACTTGCTTTATATTATAGGGGACTTCCCTGGATACTTTTCAACTCATATCGGAGCA
AGGAAGCAAGTGGCTAAAATGGTGGAAGTTACTTCAGCGCTTGGGGGAAGAGGACTCTCTACCAC
TGCTGATTGGATCCGGGGATGCTCAAACGGATAACAACAAAAAGAAGAGTGAGGGTTCTATGGTA
TGGATGGCTTTGGTGAGCATAGCAGGAAAGACCGACGAGAAATTGATGTCTGTAGAAGAAGGAAT
TGAAAGCTAGGATAGACCTTCAAATCAGCGAGCTAGGAAGGCCAAGGAAAGTATCCAGAACCCAG
TTGTGAAGGAAAGGCAGGAATTAGTAAGAAATCTCAAGAGGAACC
Right flanking sequence: Indices 338568 -- 339067
ATAGTTGGAAGTGGGCATGACGAACCACAAAACATGAGGAAAGATCCTTAGGGGCAGATGCTTTG
CTACAGTCCCATGCATGTGTGGGTTTCAAGGAAATGAAGGAAAATTTAAACGTATCCAGGGCGGG
AATAAAAAGTGGCTCTCTAGAGACGGAAAGGAGACCCTCATAACATAAAAGAAGTGGCCCAGGCG
ATTCTCTCGTATGCAATGAGTTGGTTAGTTTCATTAGCAGGTTATGGGGGCGGGGTAATAATTAT
AAGCTAAGGAAAAGAAAATGCATTGGATGGGCTGGAATAGAATTGCATCCAAAAGAAGAATGGCG
GGCTAGGTTTCCTAGACCTTAAAGCTTTTTTCCATGCAATGCTAGCAAAGCAAGGTTGGAGGCTT
ACAAAGGCTCCGGAGTCATTATGTGCGCGTGTGCTGAAGGCAAAATCTTTCCCAGCTTGTTTTTT
TCTTTTTTGGAAGCGAAGAAGTTGGGTTGGGCTCGTGCCCTTCGT
Found at i:379181 original size:21 final size:21
Alignment explanation
Indices: 379155--379217 Score: 126
Period size: 21 Copynumber: 3.0 Consensus size: 21
379145 AGAAAGGGTC
379155 CATAGGCTTCTCTCTCAAGAA
1 CATAGGCTTCTCTCTCAAGAA
379176 CATAGGCTTCTCTCTCAAGAA
1 CATAGGCTTCTCTCTCAAGAA
379197 CATAGGCTTCTCTCTCAAGAA
1 CATAGGCTTCTCTCTCAAGAA
379218 AGCGGGTCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (21 bp):
CATAGGCTTCTCTCTCAAGAA
Left flanking sequence: Indices 378655 -- 379154
ATTTTCTCGTTCATGATCTCTAATCCTTTGAGTAGATTGGGCAGGGGTAAGACTATGCACATAGC
TTCGGTTCCGTCTTGTTTGCCAAGGAGATATGGTTGCTTTTCCTTCTTCAGTAGGCTTTCCCGCA
GGTTCGGTTACAGATAGGATACGCGGGTCAAAGGGAAGGCTTGAGTTCAGAGACGAAGTTGGCTT
TGAAGGGACAAACTTTCAGACAGTTCCTTACTTTCTATTCTCTAATCTCTCGCTTCCGACTCCTA
TATTGAAACTCTAAGGTACGAAACTATATATTTAGTCTCTGTCCCGGACTACACAAATTCCATAA
ACCCCGTGTTTTTTGATGCAAATTGTGTCAAGAGAGTAGTTTCCGCAAGATATTCCATAGGTGGA
TTTAAGCGGAAGATCTGCGTGATCTGATCTTTCTTGAGGACTAGTAACTGGTCCTGTAGCTAGAA
GTCCCCATGAGCTCCCTCAATTCCTATTGAGATTGAGAAAGGGTC
Right flanking sequence: Indices 379218 -- 379717
AGCGGGTCTTAGTGGGTAGTATAGTGCCGTTCAAGCGTACTCCCTGCGGGTAGGGTCTAATACCC
CTTATTGGCATGAGGAACTGGGCTCCCAATTCTTCATCCTCCTTTTTGAGCTGTAAGACCAGGCA
AGGGATCCCGCTTAGTGGGTTCGAGTTCAGTAACAGAACCTCCTAGCCTGCCCTTTTTTAATAGA
TATCTAGGGTTGTCGGCACCCTTCCTCTCCCTCTCCCTACCTTTGGTCGAGCTAGTAAACTTCCT
CAACTGGAGAGGGAAGAATAAGCTGCAAAGCTCTGCTGGTGAATAGCAGATGATGCTCGATTAGG
TATGCCAATCCGGCAGCTTGAAGGCGCGTGTCTGATGTTTCGGTAGGATGTTGCTATGTCCGCTT
TCAGCCCGTAAATCGAAGGCTGTTCTTCCCATAAGGGGGATGACGTTATAGGGTTCAAATTAAAG
AATCTTATAGGTGGAACTAGACATCGAATAAATATTCGTGCATCT
Found at i:384515 original size:15 final size:16
Alignment explanation
Indices: 384473--384515 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
384463 TCCTACCTTA
384473 ACAGTCGATCATGCGCTC
1 ACAGTCGATCATGCG--C
*
384491 ACACTCGATCATGCG-
1 ACAGTCGATCATGCGC
384506 ACAGTCGATC
1 ACAGTCGATC
384516 TGTCCATCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 9 0.39
18 14 0.61
ACGTcount: A:0.26, C:0.33, G:0.21, T:0.21
Consensus pattern (16 bp):
ACAGTCGATCATGCGC
Left flanking sequence: Indices 383973 -- 384472
GCCACATAAGAAGCTTTTATTGACCTTTTTTGCCTTTCCTCCGTCTTCGTCACCTGATGACTTTC
CTGCTTTACTTTGTCGGCTTTGGTAGGGTGGTAGCATGTCCTTTAGCAAGGCTAGGCACCTTCCT
TAAAGGAGGCAGCATCCGATCTTTAGCATCCTAGCCAGGGAAATCCCCAAATCGCGAGTCCGGGG
CATATACTTTTTCTTTATCCCCCAGAGAATCCGACAAGAAAGAAGATAAAATAAAGTACATATAT
ATGGGCAAGATCCATATTCCATTTCTAACAGTTCCTTACTTTCTATTCTCTAATCTCGTATGGCA
GCTTTCAGTCTCATCTTCAGTTTCGGGACATTGTTCCTATGCCTCTTTGAAGTGAAGCCCTTATA
TCGAATGATTCAAGACATTTGATTTTATAATAGAAATGAGAGGACAGCCGAATTGACAGAAAATA
GTCTGAACTTGTTGATCAACTCTCTTTGTTGAAGGTCCTACCTTA
Right flanking sequence: Indices 384516 -- 385015
TGTCCATCCGACTACATTCACTGGGGGGTGAGGTTGTCCAATTTCAATTATGTGCCGCTCGTTGA
CATCTAGTTTCCATTGCCGGTGTGAGAGATCTTCCTTCGGTTCTAGTCAAGTATGGCAGCTTGAG
GTCTCCTATTTCACTTTCACCAGCCATTGGGAACTCAAATAAACTTTCATTTAACGGCAGGCGAG
AAAGGTTCTGAAAGAAAGAAAGGTAGAAGGGGGGTTTGCTCCCGTTTCGGGGTTCTCTTGTGGAC
TGGCTGTTGACTGGCCTTTGCCTGGGGAGAAAACCGGTGCTTTTAGCTTAAACGGATTTTAACTG
GATCGGAGCCTTTCGGAAATCCTCCCTTTTTGGCTTCACTTGAGCGGTTGACGCAATCCAAGAGG
AAGAGGAAGCTAAACCCGTGCTGACGAATAACCAAACCCCTTAATTCGTCGAGTAAAGTAAATAA
GGAAGGTATAGTAATGCTATGAATGACCCAGTATCGAATACTGGT
Found at i:387562 original size:31 final size:31
Alignment explanation
Indices: 387524--387595 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
387514 CTTTGGCTGC
387524 CTCCTCTTCCTTGCCAGTTGAGCTACTTCCA
1 CTCCTCTTCCTTGCCAGTTGAGCTACTTCCA
387555 CTCCTCTTCCTTGCCAGTTGAGCTACTTCCA
1 CTCCTCTTCCTTGCCAGTTGAGCTACTTCCA
387586 CTCCTCTTCC
1 CTCCTCTTCC
387596 AATTTGAGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.11, C:0.42, G:0.11, T:0.36
Consensus pattern (31 bp):
CTCCTCTTCCTTGCCAGTTGAGCTACTTCCA
Left flanking sequence: Indices 387024 -- 387523
AAAAGACACTCCGGCCTAACATAACAGCACTTTCCTTACCCGTTGTGCTCTGTCTGAGATAAGGA
GCAAAAGGCTAGACGGAAGACCTCTAATCTACCAATCAATCTAGCTAGCATCCTATGATTTTTGT
TCCAGAGGCCAATAACCCGAAAGTAAGTATTTACATCTCCTGCCAGGTGTAAGATAGAGGTTTAA
AGCTCTCTTGGCAGCCTCTACGCTACGCCCGGTTCACTCTTTTCATAAGGGCTTTACCCGCTCAA
CCATCAGAAGGGGGCTTTTCCCATCATGCCATGGAGTGAGTAACTAGCTCGGCTAACCACTAAGT
CGCTCATGCACAAATTCTTACAAAAAGGGGAGCCCCGCGAAGGGTGGAGATGAATCTATATCTGT
CAATCACAAAGCCAAGACATCCCCCAAACGTAGATTGTAACAACCAACGAATTTCTTTTCTATTC
CTGTCTGGTCTAACCAATTCTCGAGGTTTAATGGCCTTTGGCTGC
Right flanking sequence: Indices 387596 -- 388095
AATTTGAGTTTCCTCCTCTGTTTAGTTTGAAACTGAAAGGCATAGAAGCTCTCTAGAGAGCTACC
GTATCCATGAGGGGCAAGCCAATGCTTTAGAGCTCTTTAGCTGCCTCTGCACGAATTCTTCTTCC
GGTTGGAAAACTATACCTCTTCTTTCGTCTTGCGATTGGATGAACCAGCAAGTGTTTTTCATGCA
TTGACCTCGGTATCGTAAACACATATCTACTGCTTGCTGCCCTTGAAAGTCCCAAAACAGCCTAT
TTTAGACCCTAATTTAACGTTGCGCCGAGAGTTATCGTTAAATCCAATGGCAAGAGCCCTAACCT
CGGCTGCTGCCCCGGGCTGTCATATGTTGGGATCGCCTGCCCGAAGGGCCTAGATCTGAGTCTCC
TATTCTGTTTCTGTTTTAGAGAGATAAACCCCCTTTACTTTACTAAGTCTGGTGCCTCTGTTCCT
TGGGCCCTATCATCAATAGTAAGCTAATCCAATTATGCATGTGTT
Found at i:429206 original size:20 final size:20
Alignment explanation
Indices: 429181--429220 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
429171 TATCTTCATT
429181 CCTTCCCATAGGCATTAGCC
1 CCTTCCCATAGGCATTAGCC
429201 CCTTCCCATAGGCATTAGCC
1 CCTTCCCATAGGCATTAGCC
429221 TCAGAATCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.40, G:0.15, T:0.25
Consensus pattern (20 bp):
CCTTCCCATAGGCATTAGCC
Left flanking sequence: Indices 428681 -- 429180
TGGAATCTTTGAATCATGCAGCTTTGCTCAAGCACATATGGCACCTCCGCTCAGATGGGGATCAT
GGTCTCCCCTCCGGATCTTTGTTGTCCTCCTCAACCAACATATTGATATACTAAGGACTGGCGAA
TTCACACTTCTTCAAGTTCAGCCCCGTGCTTCAAGGCAGGCATCCGAAACAGATCTGGGACTTTG
CACATGCTCTTACCATGTCCCACTGAAAACCGGGATGTTGAGGATACCAATACAGAGTGAGAACA
GTATGGTAACCTACATAACTCATCAGCCTCATGGATGGACACGATCCCTTACCCTGTGCTATAAG
TCGCGCCTTAGCCTATCTTGAGAAGGAAGAAATAGTTAGGTTGGACGGCCGAGGTACCTTACTTC
CCAACTGAAGGAGATGTCTAAATGTCATTAGATACGGAATTGGAAGATAGAAAGGATGGTTCGGT
CCCCCCATAAAAATCGCCTTAGCATTTAGCATCTCTATCTTCATT
Right flanking sequence: Indices 429221 -- 429720
TCAGAATCTCCATCTGATCTGAATCCCATTCACATCGTGTGAAGCCAAATCTGAAGTTTGATTCA
GAGCTAGTTTCAAACTATAGGGTAGGGGCTCTTCCCGCGCTATTGCGTACGTACTTAGCTTAGCT
AGTTTAGGGCTTCTATCGCGCTATTATAGCTAATTTTAGGCTAAAAACACGGGGTTTTAAAGCTA
GAGACGTTCAATTCATGCTTTTTTATGATAGCTATTTAATCTTGTTAGTTAATCCATGCCCCCCG
TCACAAAGTTGCTAATGGCTTTCGGTACGCCGTGCGCACGAAAGGATCTCAACTGGTGTAGGGTT
CTCGTCCCACAGACCCCATTTCGGTGCCATTGCAGTGGGCTCACTGGGCCCTCCAGTTTTTCCGA
TCGCTCTTCTTGCGCGCGAAGTACAGCAAGCTATAGCCACTTTGCTTCCAAGCGCGGATCGCTAA
TCAAGTTGAGAGATCGGTCCTGACGTCGAACAGGTTGCCTCCCTA
Found at i:435988 original size:18 final size:18
Alignment explanation
Indices: 435948--435990 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
435938 ACCGCCCTGC
435948 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
435967 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
435984 CATAGTC
1 CATAGTC
435991 AACAAGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
18 16 0.73
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.35
Consensus pattern (18 bp):
CATAGTCGCGAGCTGTTT
Left flanking sequence: Indices 435448 -- 435947
GAAAGCTTCTTTTTCAAGTGTCAGTAGCGGAACGTTCTGTCAATCGGGGAAGGTTTTTGGTGACA
ACACCTGGAGATATCAGAAGTGAGAATGCTGACATGAGTAACGATAAATCCTGTGAAAAACACGA
TCGCCTGCCAGTGGAAGGCTTTCTGCGTTCAGTCAATCTACGCAGAGTGAATCGGTCCCTAAGGA
ACCCCCGAAAGGGCTGCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACC
ATGCCTATCTGTTGGAGCGAATTGGATGATCGGGCCGAGGGCTGCCCCCTCTTCCCCTCACTCTC
CTTTCCCTAATATGAACCTTGAGTCATCAAAGCCTTTCTGACTCGGCCTGGCCCGGTCGCCCTAC
GCGACTGGCGCTTCAAAAGGCGAAACTCTCGTCGTAGTTTGGCGACCTAAGGGGCCCTTAGTCTT
TTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGTACCGCCCTGC
Right flanking sequence: Indices 435991 -- 436490
AACAAGGTTGAAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATAGCCCCGTAACTTCGGGAGAAGGGTGCTCTCCTATCTTTTGATTAGGAAA
GCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACACG
ATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAGAAGTGTTATAAGCTTTGAA
TGGAAGCCCCGGTGAACGGCGGCCGTAACTATAACGGTCCTAAGGTAGCGAAATTCCTTGTCGCA
TAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAAA
TTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTAA
Found at i:437396 original size:21 final size:21
Alignment explanation
Indices: 437370--437411 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
437360 CTTCCTCATT
437370 CGACTACCACAAGAAAGAGAA
1 CGACTACCACAAGAAAGAGAA
437391 CGACTACCACAAGAAAGAGAA
1 CGACTACCACAAGAAAGAGAA
437412 GTGGAAGAAG
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:0.52, C:0.24, G:0.19, T:0.05
Consensus pattern (21 bp):
CGACTACCACAAGAAAGAGAA
Left flanking sequence: Indices 436870 -- 437369
CAGGCTGATCTTCCCCAAGAGCTCACATCGACGGGAAGGTTTGGCACCTCGATGTCGGCTCTTCG
CCACCTGGGGCTGTAGTATGTTCCAAGGGTTGGGCTGTTCGCCCATTAAAGCGGTACGTGAGCTG
GGTTCAGAACGTCGTGAGACAGTTCGGTTCCTATCTACCGTTGGTGTTAAAGGGAGAACTGCGAG
GAGCCAACCCTAGTACGAGAGGACTGGGTTGGGCCAACCTATGGTGTACCGGTTGTTATGCCAAT
AGCAGCGCCGGGCAGCTAAGTTGGTATGGAAGAACTGCAGCTCTGCGGGAAATCCTTCTCTATAC
AAGTTCTCGGAAGAGGTTTTAGAACAGAACTTCGATAGGCGAGAGGTGTAAGCACCGCGAGGTGT
GAAGCGATCTCGTACTAAACAACTTTACATAACTGAAAGAAAGTCAAACTCTTACTGCAATTGCG
GTCAGTCTCGATAACTCTTTAGTTGCCGCAACATACTTCCTCATT
Right flanking sequence: Indices 437412 -- 437911
GTGGAAGAAGCGGGGTAGAGGAATTGGTCGACTCATCAGGCTCATGCCCTGAAGACTGCAGGTTC
GAATCCTGTCCCCGCCTAATAAAATAACTCAAATTACTTGAGATGCATTTGTAGGTATTGGTCGG
TTACAGCTGGTGTATTTCTACACGCCATAGATAGCATGGATTGGGAAAGAGTACGGCTGATTTAT
CACCCTTCAGTTGAAGTAGGTTTTATTTGTGACGAAAGTTGTCACAAATAAAACCTATCGTTACG
AACAAATGGCATAGAAACCCTTTACCCACACCTAAGCTAAGGAAGTCAAAGGGGAAAGAGCCTAG
AGGACGCTTTGTTACCAGTTGAAAGTAGACACTTCCGAGAATGGTACCCATTGATCTCACAAAGC
AAACCCCCATTAGAAGACCCCAACCTACCCCCTAGACAACACCTTGCTGCAACACATTGACTAGG
CAGAGTTCAGAGACTTCACAGCAGCCTCGGGGGGTACTATTATTA
Found at i:464220 original size:21 final size:20
Alignment explanation
Indices: 464190--464229 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
464180 CAAGCCGACC
464190 TAACCAACCTACGATATATAG
1 TAACCAACCTACGA-ATATAG
*
464211 TAACCGACCTACGAATATA
1 TAACCAACCTACGAATATA
464230 ACTTTGGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (20 bp):
TAACCAACCTACGAATATAG
Left flanking sequence: Indices 463690 -- 464189
AGACTCACCCTTGCCATGGGCGATAGCGGCTATGTCTAAGCAGCTGCTTTCCCATTCATTCCATA
GGTAAGTCTTATTTTTTGCTGTAAACGAAGAAGGAATGATTCAATATCATATCATAAAAGACCTA
GATGCTCTAGCTCCAAGAAAAGACTAAGAAAACTCCTTAAAAAGAGAAGAGTCAATCCTCAGCGT
CGGATTCTTCTTATGCTGATTGACCTAGCCGTGCGTTTCCAACTGTTATGACTGGGAGCTAGGCG
CTATTTAGCCCTCCATTTCTAAAGCAAGCAGGGGAGCTAGACTCGCTCGACTGAAAGGAACGAAG
TAGCTTGATTGATGAAAGGAACGAAGTAGCTTGACCGCGGGCGCAGGGAAAGGAGAGGGAGTCAC
CGAAGAGAAAAAATAAAGGTTCAAGACAATGAAAAATATAAACGCAGGAAGGAACAAAAGTCAAG
TATGTAATCTAGCAGTCATGAGAGCAGGTTAGAGGCAAGCCGACC
Right flanking sequence: Indices 464230 -- 464729
ACTTTGGGTTAGGTTGAAAAGTCTAGTTGGAAAAACAGATCAATCGCATCCCAAAGGGTCAAGGG
CTGAGTTGCACATTCTATTTTGGCCTCTTTTCTTAAGTAGAATGAAATGTTCGGCCTAATCTATG
ATATTGTGATTATGTTACTGTTATTTGGTCTTTTTCAAGCTTCCCAGAGTTGTCCTTCAGCAAGC
AATTATAGGGGTTGAAGGGGTACCCTTCTAGGTCGTCGCTTTAGTGGTCTAATTTCGGTCTTTTT
ACGTTATGGAGTTTACTCACTTCTTTTTTATATTATTAGAGTTGAGTCTGGTATCGATAGATTGG
CAACCTCTAGGGTACAAGCCCCTCCAGGTACACATATATGGGCTCTAATCCCAGGTTAAACTATC
CAGTCGAACTACGTAATCAAATAATCCATGGAAGACAGGGGTTGATCGAGTTTTGTACCCTTTAT
CGTTTTTGGGTATAGGCTGATAGTTAGGCGGTGACTCACGTATCC
Done.