Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_035618
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: 329613
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Found at i:1771 original size:23 final size:23
Alignment explanation
Indices: 1727--1791 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
1717 ACTCGTGGGA
* *
1727 TGTAATAGCTAAAGCTATGCTTT
1 TGTAATAGCTAAAGCGAAGCTTT
* *
1750 TGTAATCGCTTAAGCGAAGCTTTCGGT
1 TGTAATAGCTAAAGCGAAGC-TT---T
1777 TGTAATAGCTAAAGC
1 TGTAATAGCTAAAGC
1792 TTTTGGAAGG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
23 16 0.50
24 2 0.06
27 14 0.44
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (23 bp):
TGTAATAGCTAAAGCGAAGCTTT
Left flanking sequence: Indices 1227 -- 1726
GTAACAACCGGGTCTGGACTCTCTCATAAGAGATAGTAGAAAACCGTCGAGCTAAAACTATTCAA
AGGATTTAGTCGCTCGGCTCTCCTAACCTCCCAAGGTAGGAGACGATAAGGGTACAAGAAGGAAG
AGACCTCGAACAAAGACAACTAGCCCAGAAAAGAAGCGAGGATCTTTCATTCATAAGACACGAGA
ACAGATCTTCTTTAGCAGACACTCTATAGGGTAAGGCTTAAGGGATGAGACTTTGTTGCCTAAAA
TTCCAAATGCTTGTGATGTTAAGAATTTTATACCCATTGAATTAATTTCATAAGATGGGTCGAGT
CTTCTACGGCGTTGCACTATTGTCAGTTCTTTATTCCTAACATTTCCTGAAAGTAGGTATGCTTT
ACCGCCAATAGCACGGTTTTCTTAATAAAGAGCATAAGCAGGAGTATGAGGAATAAGAATGAATC
TATACCATACTGCAAAACAATGCAAGTTGATTTCCACTCGTGGGA
Right flanking sequence: Indices 1792 -- 2291
TTTTGGAAGGACATTCTATTTTATTTAATTGCATCTCTACCATCCTGTAAAACGTTGCAAGCCTG
TTTTCGGGCAGAAGTGGTATCTCGAATTGAATCAGCCCAACTCTCCTATACTGCAAAACCTTGTG
TTTTTGCTTGTTTCACTCGTTAGCTGGCTTTAGCAGCAGGAGATAGTTTAGTTAATTAGTCTTTA
ACAAAAGGAACAATAGCTGCATTAAGGTATACTAGTTCAATACTAGCTTCTTCCTAATCGAGAGA
GCACTTCCTCCAATAACAACTAAGAAACGGGTTTAGGAAAGATAGCAAAAACATGATTTCGAATT
CTCGTCAGAGATAGCAGAAACTCATCGAGCTAAAACCCCTAAACGACAGATCATTAGAGAAGTAT
ATCAATTTTCTCTAAGACCCTTATCAAATCAAAGGCATATCTTCATGGGAATTGGTTAACCCTGG
GAAGAGTGTAGGTTCAACCCCTACTATGCTTGATGTCAACCCATT
Found at i:7842 original size:18 final size:18
Alignment explanation
Indices: 7809--7844 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7799 CTTTAGCGAC
* *
7809 TTCAAAAGCTTCGCTTTA
1 TTCAAAAGCATAGCTTTA
7827 TTCAAAAGCATAGCTTTA
1 TTCAAAAGCATAGCTTTA
7845 GCTATTACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.36
Consensus pattern (18 bp):
TTCAAAAGCATAGCTTTA
Left flanking sequence: Indices 7309 -- 7808
AGCAATTCCTCGCACATAATTAAGGGAGCCATTGAAAGGTGACTAAAACACCAGAAACGGCGACT
ACCCGAGCTAATGATAGAGGCAAGAACACTTTCCGGCCAAGTCCCATTAATTGATCATAACGATA
TCGTGGAAATGCTGCACGGACCCATATATATAGAAAGAGAAAGAGAATCACCTTGATACTAAACC
AGATCGAGCCCGGGATCCTATTGGAAATGGGAAGATCTAGGATAGGCGGCCAACCTCCTGGAGAA
AGCGATGTGCATAGACCAGGTGAGTAAGGATGCAGCTCCGTGGACCGCTCGTCGGGCCTGATAGG
TGGTGGTATCACACCCTTCTCAAAGGAACCGTACGTGACACTCTCGCGTCATACGGCTCCGTCCC
GGAATCAGGACCCCTCTTTCCTTTGACCAAGGGGTTCTCTAACCAACCTGTCTTCCTTTGGTAAG
CATTTCTTTCAAAATGAAACAATCCAAAAGCTTCGCTTTAGCGAC
Right flanking sequence: Indices 7845 -- 8344
GCTATTACATTCCTATTTATGCTTTTATACATGCTGAAGTTCCTTTCAAACCTAGCTCTTGGTGC
CTGCTTTAGCTTGTCGGAGGTCGTCAATTTCTTGAGCTTGCATACTAACTTCAGATTCCTAGGAG
AAGAGAAGCCAGGAGTTGGAGGAGGCTGAATAGAAAGAATGGAATTCCCTCCCTTCCCAAAAGCT
TCTAATAAGCTTAAGCGATTACATTCCTTTCCTTTATAGGGGTTCTAATATAGAAGATGCTAATA
ATAAAAAGATAAGAAAGAAAAAAACGAAGGAAGAGCCTAGTTGTTTGACTAAGGATCTAGTTCCT
GTCTTACCTTCTAGTTATCCAAGTGGAGATGATTATAATCAAAAATGTTAATAATATGTTATTAC
ATTCCCAAGCTAGCTGGTATCAAGTAAAGGCGTGGCTGCACTATTGGTTAATTATCCTTCACAGC
TTCAATTGTGCACTATTGCGAAAATGTTCACTATATAAATGTATG
Found at i:17522 original size:25 final size:25
Alignment explanation
Indices: 17493--17557 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
17483 AATATTCGCG
* *
17493 AAAGCGAAGTTTTTGTTTACTCGCT
1 AAAGCGAAGCTTTTGTTTACACGCT
*
17518 TAAGCGAAGCTTTTGTTTACACGCT
1 AAAGCGAAGCTTTTGTTTACACGCT
* *
17543 AAAGCTATGCTTTTG
1 AAAGCGAAGCTTTTG
17558 GAAGGAATGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (25 bp):
AAAGCGAAGCTTTTGTTTACACGCT
Left flanking sequence: Indices 16993 -- 17492
GCGCCTATTTGTATCTATTTAGTGATCAGTCTGCTAGTTTCTTTGATCCCACTCGGTGTTCCTTT
TCCATTTTCTTCTAATACTTCGACTTATCCAGAAAAATTGTCGGCCTACGAATGTGGTTTCGATC
CTTTCGGTGATGCCAGAAGTCGTTTCGATATACGATTTTATCTTGTTTCAATTTTATTTATTATC
CTTGATCCGGAAGTCACCTTTTTCTTTCCTTGGGCAGTACCTCTCAACAAGATTGATCCGTTTGG
ATCTTGGTCCATGATGGCCTTTTTATTGATTTTAACGATAGGATTTCTCTATGAATGGAAAAGGG
GTGCTTCGGATCGGGAGTAATCACTAGTGATAGGGAATAAATAGGGTGCTGAAAAACCCAAATCG
ACTAAGCTAGTTCACGCGCTGAGTCTTTTTGCATCCAAGCTAAGGAATGCAAAACTCGGCTCTAG
TAAGGAAATAGGTGAACAACTATTCCTTACTTTCAAATATTCGCG
Right flanking sequence: Indices 17558 -- 18057
GAAGGAATGATAGTTTCTGTGCTTTGTATCAACAGTTTGCCTTTAAGCTGTAAGAACCTACATCG
GTCATCAGTCTGTTTAGTCTAGCATAGTTCAGTTTGCTAGACCAGCTAGTCAGTTCAAGTTGCTA
TAGCTGCTAAGGAATGGTAAGGAAAGGAATGTAATCGCTTAAGCGAAGCTTAAGGAATGGAGAAA
GGCCAGACCATGCTAGACAAGCTATGGCCGAAGGATTAAAGCCTGTTTTGAAATCCTTACCTGCT
GCTAAAGCAAGCTCTAAATCCTAAACCTATGGCAGCTCAAGCTTGTTTAACAGCCTAAGGAAGTT
CCTAACACAGGGGCTGCTATTATTCAACTAGTAGCGATCCATTCAAGCGCCTGGTAAGCTAGCAA
GAAGAAGCAAAAAGAGAGTCTAGTAAAAGCTCAAGGGTTTCATCACGTACGTAGTCGCTTAAGCG
AAGGGAATTAGATAACAACAGCTACTGCCTCTTTTCCTGACTGGC
Found at i:18174 original size:28 final size:28
Alignment explanation
Indices: 18142--18268 Score: 254
Period size: 28 Copynumber: 4.5 Consensus size: 28
18132 TCCATTGGAC
18142 GTATGAAATCGCTTATGCGAAGCTTAAG
1 GTATGAAATCGCTTATGCGAAGCTTAAG
18170 GTATGAAATCGCTTATGCGAAGCTTAAG
1 GTATGAAATCGCTTATGCGAAGCTTAAG
18198 GTATGAAATCGCTTATGCGAAGCTTAAG
1 GTATGAAATCGCTTATGCGAAGCTTAAG
18226 GTATGAAATCGCTTATGCGAAGCTTAAG
1 GTATGAAATCGCTTATGCGAAGCTTAAG
18254 GTATGAAATCGCTTA
1 GTATGAAATCGCTTA
18269 GTGCATTAAG
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 99 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.29
Consensus pattern (28 bp):
GTATGAAATCGCTTATGCGAAGCTTAAG
Left flanking sequence: Indices 17642 -- 18141
TAGCATAGTTCAGTTTGCTAGACCAGCTAGTCAGTTCAAGTTGCTATAGCTGCTAAGGAATGGTA
AGGAAAGGAATGTAATCGCTTAAGCGAAGCTTAAGGAATGGAGAAAGGCCAGACCATGCTAGACA
AGCTATGGCCGAAGGATTAAAGCCTGTTTTGAAATCCTTACCTGCTGCTAAAGCAAGCTCTAAAT
CCTAAACCTATGGCAGCTCAAGCTTGTTTAACAGCCTAAGGAAGTTCCTAACACAGGGGCTGCTA
TTATTCAACTAGTAGCGATCCATTCAAGCGCCTGGTAAGCTAGCAAGAAGAAGCAAAAAGAGAGT
CTAGTAAAAGCTCAAGGGTTTCATCACGTACGTAGTCGCTTAAGCGAAGGGAATTAGATAACAAC
AGCTACTGCCTCTTTTCCTGACTGGCGATAGGATAGGCTGATAATCGGGGAAGAACCTAATTACG
AAAGAGAGACTGTTGATTAGCCTAGAATCAAGAGGTCCATTGGAC
Right flanking sequence: Indices 18269 -- 18768
GTGCATTAAGAATGAAGCGAAGCTTTTGGCGCGTTGATCCTTTTTCGAAGCATTCGGTGGATACT
CTTGGTCTCGGAGATATTTGAGGATATCTGTGAACCAAGGAGTTTCTTCATCATTTTTCTCGTTG
TCGAGCACATTGACATAGGCCGCCTCTTGACGTCTTTCGATGACTAGAGGCATTTCGGTCAAACC
ATTAGGAATTCGAATCATGGATGCCAATTTTGCAAGAGCATCCGCAAATGGATTTTCCTCTCGAG
GCAAGTAGGTATACTCTACTTCTCCGATTTGACTTGCGTCAGTCTCGAGGTAAGCCTGGTAGGGA
GCAAGACTTTCACTCCGAACTTTCCATCTTCCGGAAATTTGATTGATGATCAAAGATGAATCACC
ATAAACTCGTAGTTTTTGAATGCCAAGAGCTACGGCTGCTTCCATTCCAACTATGCAAGCTTCAT
ATTCTGCGGCGTTGTTGGTTACATCGAAATCTAGTTTTACGGAGA
Found at i:40091 original size:39 final size:39
Alignment explanation
Indices: 40036--40111 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
40026 CCCATCCTTC
*
40036 AATATCATGATTGGGTCAACCAGGCCAGATCATGAGTCA
1 AATATCATGATCGGGTCAACCAGGCCAGATCATGAGTCA
*
40075 AATATCATGATCGGGTCGACCAGGCCAGATCATGAGT
1 AATATCATGATCGGGTCAACCAGGCCAGATCATGAGT
40112 GAATAGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (39 bp):
AATATCATGATCGGGTCAACCAGGCCAGATCATGAGTCA
Left flanking sequence: Indices 39536 -- 40035
TTGTACTGGAGTGCTTCATCGTCAAAAGAACAACAATGGGTTGTAGCATTTTATATTGATTTGTC
TAGAGGATGTAAAAGAGGGCTTTCTCGTCTAAAGGGGGGGGGGTGAGCTTTATCACTATAGAATT
CGCACTACGAACGAAAGACCAACGAGGATTCAGGAGGAGTAGGAGCTAGCTTTCATTGAAGTAGA
GGCACGAAGTAGCGAAGAATTTCAAAGAAAGGGAAAAGTGTGAAGAACTAAAATGGAAAATCCTT
TCCATCCCAAAAGCATAGCTTTAGCTATTACATCCCACGAATCCAAAACGAATTTTTCCGAGGAA
GCACTTCGCTCACCACGCCACTGATTTCTCCAACGAAAGCAATCGACATGATGATTCCTAGCGAA
AACTCGCGAAAAGGAATCAAGCCGAAAGCTTCGATTGAAGAGATTCGATCTTGCACCATCTTCCA
CTTTTATCGAGATCCGGAGTTTTTCGAGAAAAGGTCCCATCCTTC
Right flanking sequence: Indices 40112 -- 40611
GAATAGAAAATCGAAAACGTACATAGCTGTTCCAGCTGAAATACTTGGAATAATTCTACCACTTC
TACTAGGAGTAGCCTTTTTAGTGCTAGCTGAACGTAAAGTAATGGCTTTTGTGCAACGTCGAAAA
GGTCCTGATGTAGTGGGATCGTTCGGATTGTTACAACCTCTAGCAGATGGTTCGAAATTGATGCT
AAAAGAACCTATTTCACCAAGTAGTGCTAATTTCTCCCTTTTTAGAATGGCTCCAGTCACTACAT
TTATGCTAAGTCTGGTTGCTCGGGCCGTTGTACCTTTTGATTATGGTATGGTATTGTCAGATCCG
AACATAGGGCTACTTTATTTGTTTGCCATATCTTCGCTAGGTGTTTATGGAATTATTATAGCAGG
TTGGTCTAGTAATTATAGGGGGCGGCCGTTCGGTCGCCTATGATACTAGGACCAATAGGTCAAAA
ATTTCTTTGTGCCGCAGGTGTTGAACGATCTACTCTACACAGGTG
Found at i:57977 original size:18 final size:18
Alignment explanation
Indices: 57954--57996 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
57944 CGCCCTTGTT
57954 GACTATGACAACAG-TCGC
1 GACTATGA-AACAGATCGC
57972 GACTAT-AAACAGACTCGC
1 GACTATGAAACAGA-TCGC
57990 GACTATG
1 GACTATG
57997 GTAGGTTCTG
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:0.35, C:0.26, G:0.21, T:0.19
Consensus pattern (18 bp):
GACTATGAAACAGATCGC
Left flanking sequence: Indices 57454 -- 57953
CGTCTAGCCGTTGGTACTCCGCATCTTCACGGAGAATTCAATTTCACCGGGTCCATGTCGGAGAC
AGCGGGGCAGTCGTTACACCATTCGTGCAGGTCGCTACTTATGCGACAAGGAATTTCGCTACCTT
AGGACAGTTAGAGTTACTGCCGCCGTTTACTGGGGCTTCCATTCAAAGCTTATAACACTTTTCCT
TCCGACCTTCCAGCACCGGGCAGGTGTCAGACTCTATACATCGTGTTACCACTTAGCAGAGTCCT
GTGTTTTTAATAAACAGTCGCTACCCCCTGGTATGTGCCGCTTTCCTAATCAAAAGATAGGAGAG
CACCCCTTCTCCCGAAGTTACGGGGTCATTTTGCCGAGTTCCTTCGACATGGTTCTCTCAAGCGC
CCTAGTATACTCTACTTGTTCACCTGTGTCGGTTTGGGGTACGGTCAGTTCACCGGGAGGATCGC
CCTCCCAATTCGAAGTTTTTTCCTGGAAGCCTAAACGCCCTTGTT
Right flanking sequence: Indices 57997 -- 58496
GTAGGTTCTGCTTGCTGAAACCTCTACTCTAATCAAAAGACTAAACCTTGAGCTGACATCAGCTC
AAGCTCGAGCACTGAAATGAGAAAGGCTTGTAGACTCGTAAGGCGAAGGAACTCGACTACTTGCT
TACTTGAATGAGTAAGGTAATGCCAATTCACTGACTCGTTAGAGTATGGATGAACGACACATTCT
AAAACTAAAGCGCACACTAGAAAGTGCTTCGAAAGGTGTCAGCAGGTGCGCGGAGCCGGAGCCCG
GCATGTTCGCCCGCTGGGCCGAGTGTTCGCCCACTGATCAGTCTTCGCCTTTAGATAACAAAAAG
TCCCCAAAAGCATAGCTTTAGCTATTACATCCGTTGTAGCCAAACTACGACGTATGAAGTCGCTA
AAGCGAAGCTTTTGGAGAGTTTCGCCTTATAAATAGAAAGTCAAGTAAGCAAGTAGAAACTTTTG
AAGCGCCAGTCGCGTAGGGCGACCGGGCCAAGTCAGAAAGGCTTT
Found at i:75634 original size:26 final size:26
Alignment explanation
Indices: 75598--75647 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
75588 AAAACGAATC
*
75598 CGCTTGTCAATTATTGGTGTAATACT
1 CGCTCGTCAATTATTGGTGTAATACT
*
75624 CGCTCGTCAATTCTTGGTGTAATA
1 CGCTCGTCAATTATTGGTGTAATA
75648 ATTTGACACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (26 bp):
CGCTCGTCAATTATTGGTGTAATACT
Left flanking sequence: Indices 75098 -- 75597
TTAAGCTTTTGGTGAGATCTGATGGTTCTAGGTGCTCAAATCAGATGCAGATTAAGGAAGAAGTA
AGATCCTTTTATCAGGGTCTTATGGGTAGTGCTGCTGAGGCTATCCCTATGGTTGATAAGAGTCT
CATTGCTAGAGGTCCTACTCTTTGTCACCATCAGCAAATCCAGCTTTGTGCTCCTCCCTCTTCTC
AGGAAATAAAGCAGGTTTAGTATGGACTCAAGCAAAGCTCCAACAAGCATAAAAGCAACTATAGA
GCTAGCGCGAAGTTTGAGTTAGTCACTCAATTTTCTTGGTGGTCTTTTTTTTTTTTAAGTGGAGG
AGCATGCATGAATCAAATCGGATATCTTCTATGCGAATGTTCTTGCTTTCAAAAGACGAGTAAGG
GACGGGGAGTTTCGGGAACAACCGGATTTGAAAGTTCACCCTTACCCTATAGTAGACTTTCTTTT
CCCTATATAAGCTATATCAACATAGCCAACTAAAAAAAACGAATC
Right flanking sequence: Indices 75648 -- 76147
ATTTGACACTGATCAGGTGTTCTCAGTCTCATCCGTGTAATAATTAGGAATTATTCTTCCAACTC
GTCCCAGAATGGGCGTTATGGCAAAGAACAAGAAGAAAAGAACAGAAGGAATTTGTCCAATAGTA
ACAAAGGGTGCTTCCACAGGTTGACATCCGATCCAACCTAGTAGTAAGCAATCCGCCAAAAGCAA
CCAAAAGAGTCCTTGGTAAATAGGGCGAAAACTTGAACTACGTACATACATACTTTTAAAAAAAG
GTAAAGCCAAGAGACATATAAAAACGGGTGCTATTGCGGCTACACCTCCCGCTTTGTCAGGTATA
CTACGAAGAATGGCATAGATGGGTAAGAAATACCATTCCGGCACAATATGAGGCGGGGTGGGCAT
CGGATTAGCAGGTATATAATTGTCGGGATGCCCCAAAACATTAGGAGCATAAAAAATCCAAAAGG
AAAAAAAGATAGCAAAAGCTACCCAACCTACTAGATCCTTTACAT
Found at i:88561 original size:25 final size:25
Alignment explanation
Indices: 88527--88599 Score: 74
Period size: 26 Copynumber: 2.9 Consensus size: 25
88517 CTAACCAATC
*
88527 CAAAAACTTCGCTTTAGCGAGTAAA
1 CAAAAGCTTCGCTTTAGCGAGTAAA
* * *
88552 CAAATGCTTCGCACTAAGCGAGTAAA
1 CAAAAGCTTCGC-TTTAGCGAGTAAA
***
88578 CAAAAGCAGAGCTTTAGCGAGT
1 CAAAAGCTTCGCTTTAGCGAGT
88600 CAACTTCCTC
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 18 0.49
26 19 0.51
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (25 bp):
CAAAAGCTTCGCTTTAGCGAGTAAA
Left flanking sequence: Indices 88027 -- 88526
GAAAATAGAATAGCGATAGATCTTTATAAACTAACAAACGGAATAGAATCCGAGACCTACGATTT
CAATTGAGTTAAGTCAATTGCCCCTTACCCGCTCGCCAGTTACACAGTATATCAGACACCCATAC
ACGACTTCTAACATCGCCATTCAATATTTCTAGCACTGAACTCACTTAAGCCGAAAGCTGCTAAA
GCAACATCGAGTGAGTACCATTACTGCCTAGCCCAAAGAGGAACCCGGCCCGAAATAGAAAGAAG
GAATAGAACTCCGAGGCTTTGAAAAGAATATATGAGAAAGGAAAACTTCTTGTGAGCCGAATGAG
TCTCATAGACATCTCTTTAGCATCCTAGCCCAAAGACTCCCATCATGGGTGAAAGCGCAATCACA
ACTGTCTCGTGCTTAAAGGGTTTCGGGGTACTTGCTTTATTTTATGTCTTTCCTTCTTCCCTTCC
TCGCTCAGGAAAGCTGTCCAACCTACCTAAAATGGCTAACCAATC
Right flanking sequence: Indices 88600 -- 89099
CAACTTCCTCTAGTTGAAGAGTAATAGGACGGTAAAGAGGAGCGGCCTCCGTGTTGGCAGAGGCC
ATTCAAGATATTCTGAGGCAGAGCAGTAGCACTGGAACTTTGGCGGCTAGCATTTCGACCTTTGG
CAAGGCCAGAAGTCATCATTTCAACGGCAAACTCTATTCCCTTTTCCTATATCTCCGCTCTCGCT
TCCGTACTCTTTTTCCTATCTGGGATATCTCATTTGATCTCAGCAAGCCGCTTCGCGCTCAAAGG
GAGAACTAGAGCTTCAAAAGAAGGCGTAGCGAGGGTTGGTAGTGTGGCCAGAGGCCCAGTTCATC
TGCACCTTCCCTTCTAACTTTTCTTAATTCTTCTAATCCTGCCTGCTATACCAAGAGAAAGAAGA
CGGCTACCTTCTCATTTTTCTCTGTCTTAGCTGGAGATAAAGTCGCTACATCCAGCTCATAGAGG
ACGCAATGACTCAGATTCGCTACTTATGCCTTTCTTTTCTACATG
Found at i:92633 original size:42 final size:42
Alignment explanation
Indices: 92587--92670 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
92577 GGTTCACCGG
92587 GTAAGAATGCGGAGAAGAAGCAAAACAGAATGGTTCCGCCGA
1 GTAAGAATGCGGAGAAGAAGCAAAACAGAATGGTTCCGCCGA
* *
92629 GTAAGAATGTGGAGAAGAAGCAAAACGGAATGGTTCCGCCGA
1 GTAAGAATGCGGAGAAGAAGCAAAACAGAATGGTTCCGCCGA
92671 CTCAAAACTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.39, C:0.15, G:0.32, T:0.13
Consensus pattern (42 bp):
GTAAGAATGCGGAGAAGAAGCAAAACAGAATGGTTCCGCCGA
Left flanking sequence: Indices 92087 -- 92586
AAACTTGCCGTCTACTTTCAGGAAATGTTCGGAATAAGGAACTTACAATAGTTCAACGCCGCATT
CTCCGAAATTTGAGAATGAAGAAAAGATCTATTAAGAAAAAGATTTATCCTAGAAAAAACCGTAA
CAGTTACATACAATTACAAACTACACGAAAGTTGTCCCTTTTTCATGGTAATTTACCCATCACAA
AGATGCACAGAAGAACAAAACGAACTTCATATATCCCTTTTCTACTCAATCCAGAAACAAGATTG
GACGTTATTCTGGTTCGTCTACATTTTTGTGAAACTATTCCTCAAGCAAGGCAGCCGATAAGTCA
TCGAAAAGTGTGTGTGAATAATGGAATAGTAAACATTCGTCATTTGAAAGTTTCCCACGGCGATA
TAATATCTTTTCAAGAAAATTACGCGAGAACCCGCGGTAAAGAAATAAGGAGATTTTTCTATATC
AAAATATCAGTTGAAAAAATCATAGGCAAATTAAGGGTTCACCGG
Right flanking sequence: Indices 92671 -- 93170
CTCAAAACTAAGAAGAAATGCCGCCTACTACTAAAAGACAAAGACCAGTTTTTGCAAAAGTTACA
TTCTTCTATGCAAAAAGAAGACTTAAAAAGAACAAAGAAGTTTGGATCCGACGCTGAGCACAACA
GAATGAAGAGGAATTTTGATCACTCCGTGACCTTATCGAAGAAGAGAAGGAAGAGAAGAATCAAA
AGGATAGAACTACCTACTCATTATTCGGAGGTCAATCATAGAACACTAAAAGCTGTGGTATCTTA
TGGACCTAACATAGATCACATCCCTCACCACATAAGATTGAAAGATCCAAACCTTCCTCTTCGGA
GCGGAAAGGGGCGTGGCCAAAACACATAAAGATCGGCGTAGTAGCTCATAGGGACATAACATATC
TATCCGGATAGAGATAAGGACAGGGATCCATCTAGATAAAATATTGAACCGGTTTTCTTTTTTTT
CTTGATTCTGATTGATTTTTTTTTACGACAAGTTTGAAATCTTAA
Found at i:120561 original size:26 final size:26
Alignment explanation
Indices: 120531--120589 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
120521 GTAAAAAGGA
*
120531 GGAGAAGTCGCTAAAGCGAAGTTTTT
1 GGAGAAGTCGCTAAAGCGAAGCTTTT
* *
120557 GGAGAAGTCGCTAAAGCTATGCTTTT
1 GGAGAAGTCGCTAAAGCGAAGCTTTT
120583 GGAGAAG
1 GGAGAAG
120590 AAGCTGGACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.31, C:0.12, G:0.32, T:0.25
Consensus pattern (26 bp):
GGAGAAGTCGCTAAAGCGAAGCTTTT
Left flanking sequence: Indices 120031 -- 120530
AGTTGGTATCCCATGCTAAATGATGGTATGAGAGTTTGGTTTGCTGTAAGTGAGGTTCTTAGAAA
GGTTTGCCCTGGGTAGAGACACCCCTACAGATTTTGATACCGTATCGGGTCAAAGCCCAGTCATA
GCTGAATGAAAACAAAAGAAAGAAAAGAATGAGAAATCCTTTGAAGAAAACTTATCCTCTTTATG
ATTTTAGTTGGATAGACCATTTCGTCGACGATTACAACTACTCGGAAGAGAATCGTGTGAGTTTT
CTTCCATTTTCGTGTGTTTAGAGAGGTTTTGTTAGTACCAAATGGGAAGGGTGATTTCTCAGGTT
ATTCTTCTTCAGATGATTGGGATGGTCCTTCTTCATCTTCTGATTCACTCTCTGATGAGGAGGTT
TCCCGGATCAATCTTGCTCTTACGAGTAAGGAATTCTTTCAAACTCCGTATAAAATGAAGAAGGA
GTATAGGAATAGAGTGTTACAGAAGCTTTTAGATGGTAAAAAGGA
Right flanking sequence: Indices 120590 -- 121089
AAGCTGGACTTTGCCGGTTTGAGAAAGCTCCAGGAGGACATAGAAAAAGTGACTATGTCGTACCA
AGAGGAATCCTTCTACCATAATCGCGCTGATGAGGCTGTTCATTAAAAGCTATTTACCTAGTGCT
AAGAATGACCTTAAAGGTAAATATAAGGTGGATAGGAGGGGTGATAGCGCTTCAAGGATTAAGAT
AGTGCCGGATTCTACTGGGACTGGTTGTGAGAAAGGTTTATAAGGATTTACTTACTCCCGAAGAA
AAGGTTATGCTTTCTGTGTTTGGTCCCTATACGCTTGAATTTGAATTCATGTCTTAAGCAGCTTG
TTCAGCATAGAGGATTGCGTAAGGTGTGCTTCTCTGGTCGAAAGGATTGACTCGCTGGTGCGTCG
AAACGCACAAATATTGCTTCAAGAGCAAGCTGTTAAAGGAGGTACAGGGAGCTCAGTTCCCGTAG
TAAGTCAAAAGCGTTCTAATGACTCTCTTAGTTACCCATTCGGTA
Found at i:122307 original size:18 final size:18
Alignment explanation
Indices: 122284--122324 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
122274 TCTTATAATG
*
122284 GGTTCTCCTTCGGGGGAT
1 GGTTCTCCTTCGGAGGAT
122302 GGTTCTCCTTCGGAGGAT
1 GGTTCTCCTTCGGAGGAT
*
122320 AGTTC
1 GGTTC
122325 GAAAGAGGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.22, G:0.34, T:0.34
Consensus pattern (18 bp):
GGTTCTCCTTCGGAGGAT
Left flanking sequence: Indices 121784 -- 122283
TTCTTGACTTCCGAGGTCGAATCTATCGGAGTGGAATCTTTCATTTCCACGAGCGGGATCTGGCT
CGGAGTCTTATTCTCTTTGATGAGTCTTATACTCATTCTGGTTATAAGCCCGAGGATTTTCCAGG
TGTACAAGAAACCTATATTACGGCTGGTGGGTTCCATGGTCGGTCTTTCACCTCTAATGAGGATG
CTCATCGGTATTTTTATACCGAACTAGTGGAACTTGAATCATTTGGTTCTAAGGATATGGAGTGT
AATGAATTGCGTCCTTCCGTTCATGAATGTAAAAACAGGGATCAAGCTTTAGTTATGTATTCTTT
GGGTGCTAAACACCCCTTTCAATACATGATGTTTCTGTGGGGCCCTATACAGAAATGTTCTCTCG
AATACTATTACTGTGTCCCTATTACCCAAGACGCATCGGCGAGTGCCTACCAAATAATCTCATAT
TTGCTGTTGGATGTTACCATGGCCCAAAAAACGAATCTTATAATG
Right flanking sequence: Indices 122325 -- 122824
GAAAGAGGAGGTTGGTCTAATAGCTGACGTTTATGTTTATATTATGAAAGATTGAAAGTCCTTCC
TTCAGAAGGAAGATCTGTCCGAATCCTTAATTGGCACTGTTGATAAGCATTTTGATCGAAAATTG
GTGAAAAGTTTTTTTATGCCTATTATCTATGGTAAGACTCAAAAGAGTACGGCGGATGATATCCG
AAGAGTTTTGAAACCGTACTTGTTTGCCCCTTACAAAGCAATTTTGGAAAGGTAAAGAGGGTGGG
TGGGATCGCGATCGACTAAAAGGGATGTAATAGCTAAAGCTATGCTTTTGGAAAGTCGCCCGGAG
ATATTGGTTCAAATCCAATTCGTGAGACCAGAAGAAAGGTCGGTGTAGAGAAGCTCGGTCAGTGA
TAGTCTTCCCCCGCCCTACCCCTACACAGGATTGGATACTGAACCTGATAGACCGATCGGTGCGT
AAGATGATAGTATAGCACTAGGTTTTCTCTCGCTACCTACTACGT
Found at i:132638 original size:25 final size:25
Alignment explanation
Indices: 132604--132693 Score: 93
Period size: 25 Copynumber: 3.7 Consensus size: 25
132594 AGGAATGTAA
132604 TCGCTAAAGCGAAGCTTTTGTTGAC
1 TCGCTAAAGCGAAGCTTTTGTTGAC
*
132629 TCGCTAAAGCTCGAAG---TTGGT-A-
1 TCGCTAAAG--CGAAGCTTTTGTTGAC
*
132651 T-GAATAAAGCGAAGCTTTTGTTGAC
1 TCG-CTAAAGCGAAGCTTTTGTTGAC
132676 TCGCTAAAGCGAAGCTTT
1 TCGCTAAAGCGAAGCTTT
132694 CGGTTTGCTG
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
20 5 0.10
21 1 0.02
22 6 0.12
23 5 0.10
24 5 0.10
25 24 0.46
26 1 0.02
27 5 0.10
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (25 bp):
TCGCTAAAGCGAAGCTTTTGTTGAC
Left flanking sequence: Indices 132104 -- 132603
TTTGACTGCCGCTCGGGGATGTAGTTGTAGATATGTTAGTCTTAGTGGGTCGTTGGCTCCACCTC
TTATCTCCTTCTACGACATGCTGTTGTCGTTGCCATATTCTATATGTCACTTAGTCATCTCTGCT
TCGCTGCGGGTCAGCATCTCCGAAAGAAACGGAGGACTTCATTCAGTGACTCCGCGATCGCCCTC
TAAACGATCAAAATAAGGTAAAGCTTGAAGATAAGTTTTGTACTCTATTAATTTCTCAGTCCCTC
TAGTCGGGTGGGCGCCGGCCGGTCTTTCGACCAGATCCCCCTAAAAACCGTACGTGCGGGTCTCC
CCGCATGCGGCTCACGCCATTCGAGGTGGCCCAGCATTCCTACGTACCTTCAAATTCATTGAGAC
TGCTCGACCTCGGAAGAAAATTCGCGTGTAGGCAGCGCTGTCTGTTGTACCGTTGACTCTATCTG
TTCATGGAATTTTCTTTTTTACATTATCATTATATAGGAATGTAA
Right flanking sequence: Indices 132694 -- 133193
CGGTTTGCTGACAAAGCAAAATAAAACTTCCTTCCAAAAGCTTCGCATAAGCTCAAAAGCTCGAA
GAGCTTTAGCGAGTAAACTACCGAAAGCTTCGCTTAAGCTCAAAAGCTCGAAGAAGGTTGTTTAC
ATGCTTAAACTTCGCTCCGATCGCTTAAGCGACTACGTTCCTTTACCCCATAGGGCCTTCCATTT
CCGTCAAATGACCTGGCCTCTCCTGGTTCTTCCACCGTCCGGGTTCCTCCCTATGCTCCCTCGGC
GCGGGCCTACCACGCTTCGCGCCTGCGGCGTTTTCGCCAGACGGTCTTTGCCAGTAGTGCCATCC
TCCCCGCTGGCTGTATGGGCGGGTTGTCCCTCGCTGCTGCGTTCTGTTAGGCTATGGATTAGAGG
AACAAATGTAGTTAAATGGGACAGCAGGCGGGTTACACGTTCCACTGTGCCGAGATGTGAGGTGC
AGGTGGTGATGATCACCCCGGGGTATGCGCTAGCGCCCTTGACAG
Found at i:161334 original size:29 final size:29
Alignment explanation
Indices: 161292--161364 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
161282 GAAGTGGCTA
* *
161292 AAGCGCAGCTTTTGGTAGTTTACTCGCTT
1 AAGCGAAGATTTTGGTAGTTTACTCGCTT
161321 AAGCGAAGATTTTGGTAGTTTACTCGCTT
1 AAGCGAAGATTTTGGTAGTTTACTCGCTT
161350 AAGCGAAGATTTTGG
1 AAGCGAAGATTTTGG
161365 AAAGAAAGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (29 bp):
AAGCGAAGATTTTGGTAGTTTACTCGCTT
Left flanking sequence: Indices 160792 -- 161291
TCTAGATTTTCGGACATGAGAGCCCTCTGATCAGCAAAGCTAGGGTCACTAAACGGCTCCACCTT
TTCTTGCAGGAAGTAGTATGCCTCCTTCCTAATTTGAATTGTGGAGGCAGAGTTCATAAATCCTT
TGTAAATTGGGTTGGCTGAGCATGAGCTCAAAGAGCCTATCTTGCAAGACTTTTGCTCTAATACC
CTTCAAAGGTCTCCCTGTCAAAGATAAGCAGATAGTGATTAACGGTTAGAGCCTGATCAAAGTGC
TCCCGTACGATAGTTTCATATTCTCCCTCGTTATTTTGAGGAGGGAGATTTGAGTATAGGGTTGC
CTCGAGGGCACGGATGCGCTGATAGATCTGCGCCTCGTTCTCGGCCGCTATGATATTCCGATAGG
TGGCCAAGGACTCCGTGCTTGACGAGGATTCCAAAGGTGGAGGACCACTCAATTCGCCGCTACTA
GACGCGGATGAGACATTCTTATGAAAAAAAAAGATGAAGTGGCTA
Right flanking sequence: Indices 161365 -- 161864
AAAGAAAGCAAAGGAATTCACCTGTGTGAAAACCTTTTCTCAAGATATCTTCCAAACTCTTGGGC
TCCTTATCACTACCAAAGACAACAATCCCTACATTACGTACGGACCCTCCTAGGAGATCAATGTA
ACGGCAGACCTGTTCGCAAATTAATGCGTTCTTGCCATTAATAAGAAGGTCCAAGGCGATGGTGT
AATACCGGTAGTTGAAAGGAATCGGTGTGTAGGTAAAGTCGAAGAGTCGGCCCGATCATCCAATT
CGCTCCAACAGACAGGCATGGTTCTGTAGTCAAAGCAACTAGATGATTCGACATCGGATAGCCGC
ATACCTTGAATCTGCCCTAGGCTAAGAGTTTTCTTCTATTATGTTTTGATCGAGAGCGGTACACT
TCTCCCCAATATGAGATAGGTTGCAGCTATAGGAAGAACTGAACCTGACTAATTTCGTAATGTTG
ACCCCACGGAGCGGTAGCGAAGGAGGCAGCAAATGGATTGAAATT
Found at i:198119 original size:25 final size:25
Alignment explanation
Indices: 198087--198134 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
198077 ACACCATCTG
* *
198087 TAGTCTTATCACTCATATTCTTCCT
1 TAGTCTTACCACTCATATCCTTCCT
198112 TAGTCTTACCACTCATATCCTTC
1 TAGTCTTACCACTCATATCCTTC
198135 TTCACCTGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.21, C:0.31, G:0.04, T:0.44
Consensus pattern (25 bp):
TAGTCTTACCACTCATATCCTTCCT
Left flanking sequence: Indices 197587 -- 198086
AGTAAGGTAATTCCTATTTGCTTACTCTAACGAGTAAGGTATGATATGAAGTCGCTAAAGCGAAG
TTGGTATGAATAAAGCGAAGCTTTTGTTGACTCCCTAAAGCTTCGCATAAGCGACTTCAAAAGCT
TCGCTTTAGCTATTAAACAAGCAACGGGTGACGCGAAAGCCGTTGTGCGTTACGTTAGTCAAGCA
AGAAGCATAAGGATTAGCCCGATAGCTCGAAAACCGTTGCTGGTTAGTACCACGCTATAGCTTTC
TTAATACCCAAGATGCTCTTTCTTCTCTGTTAAGCTGGGTTAAGTCTGGTAAACCGGCCAATCCC
ATCCCCATTCATAGTGTTTATTGGGATTTGGCCCAACACTTGAGCAAGTTGTATTTCTCATTCAC
AAATCCAGCCCTTGATGTTTCCTGCCCTAATCCCGATCCTTATCGGAAGACCCCCTAATCTTTTC
TTAGGTATCCGATGATATCAGCTCTCGTATCTCTCACACCATCTG
Right flanking sequence: Indices 198135 -- 198634
TTCACCTGACTTTGGCAACTAAGAAGCTCCTTCTTATCCTGAGTCTTGCTAGTCTGCTCCTTCGG
ACCCTTCTTTTTCTTGTCCTTCATTCCCAAAGGCTTGTATGTCTTTGAGACATTCGAAGGTAGAT
ACCTTCTAGAGCGGGTTATAACCGTAGTTAAGGAGCTATAGCGTATCAGAATACCCCATACTGTT
AAAGAAGGCATAAATGATATCCAACAATAAGAAGGTATATCCTAGCTACAGGAAGAAGGTAGCTA
CATAAACAAAGAAGAAAGAGCAGCAAAATACAATAGCTACATTAGCTGCAGGATAAGGAACTGCC
CCTTATCGGGGTCAGATTAGCTACATTAACAAGGAAATCCTAGCTACAGTGTACTCATTAGGGAC
TCCTAAGGAGCACTCGTTCCTTACTTGCTTCTTCGTTAACGTGAGTTAGCCCGCAGCGGTCTACC
TAACTTCTGTCAAAGCGGAATAGGAACACAGTAACAAGAGAACAT
Found at i:242898 original size:34 final size:33
Alignment explanation
Indices: 242859--242922 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
242849 TTAAAGGTAG
*
242859 TTTACTTGCTTACTCTCTTGAGAGT-AAGGGAGTT
1 TTTACTTACTTACT-TCTT-AGAGTAAAGGGAGTT
*
242893 TTTACTTACTTACTTGTTAGAGTAAAGGGA
1 TTTACTTACTTACTTCTTAGAGTAAAGGGA
242923 ATCCGCTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 5 0.19
33 9 0.33
34 13 0.48
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (33 bp):
TTTACTTACTTACTTCTTAGAGTAAAGGGAGTT
Left flanking sequence: Indices 242359 -- 242858
ATCAGACAGGTAGCGGAAGCAGAATATAAAGACCGGCGTTCCTCCACCCAGCCCTACGTCTAAAC
TCATAATGCAGGGGGTATTTTAGCTACACCCATTCCCAGATTCTATTTCATAGATAGAAAGAAAG
GAGAGCTCAGATAGAGCTGCAGTTCCAGGTTCTGAGGGTCAAAAAGCCAAAACGCTTCTACTACT
TCGTTGAGACTACTCTTAGTATCAAATTTCCTCAATGCTTCCGGTTCATCAACCAATTGCTGCCC
ATAAAAGAGACTTGTCGTAGATAAGCTCTGCTTTTTAGTCAAAGACTAAGTAAAAAATTATGAGT
GAGAAGGTTCCACTCGGAAAGGCCTTCGAGTCTAAACTAATACTATCACTTAAATTACTTGATCG
AATTGGCACAGCTCCTCCAGTCTCAGATCCCATTGCTTTCGATCAGTCGCTCCTTGATAGACTTG
TAAAGTGCTTTATCTCGTGAAATCAATAATAGTTCTTAAAGGTAG
Right flanking sequence: Indices 242923 -- 243422
ATCCGCTCATAAGTCGAAGACTAGATCCGCTTTTTTTGACTATGTATACTCCCCGGATCAGTCGG
TAGATCTTAGACCTTCTCAAAAAAGGAAAGGTGTGAAAGCGGTTAAGAATTCTTTCTATTCTAAT
AGAGAAAATCAGTCCTTAAGCTTCGCTTAAGCGATTACATACGTTCATACCGGGTCTAGGCCTTT
CTTTGTGTAGTTCCTATCAGAATCAGAGCTCCTCTTTCTTTGCTATTGCTTCTGTTGAATGGTTG
GGGGGCGAGTACAGTCTCTTGATCCTCTATCCCTGCCCGAATTGGGCATTTAGCTACGAGAAGAA
CTCATCATCATCTCCTTTGATCCCGCTCGAGTGGGAATATAGGAAAGGTGAATACCCCGATGAGA
CCATTCTTGAATCTTGAACCCGACCAAAAGCTTCGCTTAAGCGACGTAGTACCTTTTCTGCGTCA
TCGTCTTCCGGAGCGCCGGGCTCGGCTGGCCCGCGTGGAGCCGAG
Found at i:294638 original size:18 final size:18
Alignment explanation
Indices: 294615--294657 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
294605 CGCCCTTGTT
294615 GACTATGACAACAG-TCGC
1 GACTATGA-AACAGATCGC
294633 GACTAT-AAACAGACTCGC
1 GACTATGAAACAGA-TCGC
294651 GACTATG
1 GACTATG
294658 GTAGGTTCTG
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:0.35, C:0.26, G:0.21, T:0.19
Consensus pattern (18 bp):
GACTATGAAACAGATCGC
Left flanking sequence: Indices 294115 -- 294614
CGTCTAGCCGTTGGTACTCCGCATCTTCACGGAGAATTCAATTTCACCGGGTCCATGTCGGAGAC
AGCGGGGCAGTCGTTACACCATTCGTGCAGGTCGCTACTTATGCGACAAGGAATTTCGCTACCTT
AGGACAGTTAGAGTTACTGCCGCCGTTTACTGGGGCTTCCATTCAAAGCTTATAACACTTTTCCT
TCCGACCTTCCAGCACCGGGCAGGTGTCAGACTCTATACATCGTGTTACCACTTAGCAGAGTCCT
GTGTTTTTAATAAACAGTCGCTACCCCCTGGTATGTGCCGCTTTCCTAATCAAAAGATAGGAGAG
CACCCCTTCTCCCGAAGTTACGGGGTCATTTTGCCGAGTTCCTTCGACATGGTTCTCTCAAGCGC
CCTAGTATACTCTACTTGTTCACCTGTGTCGGTTTGGGGTACGGTCAGTTCACCGGGAGGATCGC
CCTCCCAATTCGAAGTTTTTTCCTGGAAGCCTAAACGCCCTTGTT
Right flanking sequence: Indices 294658 -- 295157
GTAGGTTCTGCTTGCTGAAACCTCTACTCTAATCAAAAGACTAAACCTTGAGCTGACATCAGCTC
AAGCTCGAGCACTGAAATGAGAAAGGCTTGTAGACTCGTAAGGCGAAGGAACTCGACTACTTGCT
TACTTGAATGAGTAAGGTAATGCCAATTCACTGACTCGTTAGAGTATGGATGAACGACACATTCT
AAAACTAAAGCGCACACTAGAAAGTGCTTCGAAAGGTGTCAGCAGGTGCGCGGAGCCGGAGCCCG
GCATGTTCGCCCGCTGGGCCGAGTGTTCGCCCACTGATCAGTCTTCGCCTTTAGATAACAAAAAG
TCCCCAAAAGCATAGCTTTAGCTATTACATCCGTTGTAGCCAAACTACGACGTATGAAGTCGCTA
AAGCGAAGCTTTTGGAGAGTTTCGCCTTATAAATAGAAAGTCAAGTAAGCAAGTAGAAACTTTTG
AAGCGCCAGTCGCGTAGGGCGACCGGGCCAAGTCAGAAAGGCTTT
Found at i:319573 original size:2 final size:2
Alignment explanation
Indices: 319566--319612 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
319556 TTGCCCATAC
*
319566 AT AT AT AT AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
319608 AT AT A
1 AT AT A
319613 AAGAACCTAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 319066 -- 319565
CCAGCTGAAAAATGTTAGAGAGAGAATCTCCTCCAAAAGCATAGCTTTAGCTATTACATCCGAAA
GCTTCGCTTAAGCTCAAAAGCTCGAAGAGCTTTAGGTTGTTTACATGCTTAATGCAAGCACTAAG
CAAGTAAACTACCTCGAATCAAAAAATGGATTTTCGGATCGCCTAATTCAATAGCTCAAAAATAG
GTGAAGTTCGCCCTGTGAAGCATAGTAAAGTGTTGCAACAGGGAGGTTAGGTTGTTCAGCGAACG
GAAAGCAAAGTCTCCATACTAACATTGAAGGCTTCGCTGCTATCCAGAAGAGAGCCTTACTCTAT
GGGAGTGCTAGCGCTTTACTACTAGAATCAAAAAGTAAAGGCTCTTCTCATCGAGAGTAGGTTCT
TTTCAGATACAAAAAGAAAAGAAACATTTTATACTTCTTCTGACTTTCCGTTTTCCAACAGCAAT
TACACATTCTCTCGGCCTCTGATTACAGTCGAACATTGCCCATAC
Right flanking sequence: Indices 319613 -- 320112
AAGAACCTAGTTCTTCAATCATATCTGCACTAAATTCTTCTTTTCGGAAAAAATATGATGCGACG
ATCTACCAACTATCTGAAATGTCGGCAAACGGGGTCTATAGTAGTGACCAACACTATCTTTTCCT
GATCATCATTTTTCCCTTTGTCCCTCTTTTATGTCAAAACGAAACTTTCTTCTTGCAAGATCAAG
ACTCTTTTCAGGTCCTTCTGCACTCACTTTGTGCTTATTCTTCTTTTGAAACATATTCTTTTGCG
CAGCATTAGTCTTTTCAGACTGCTGTTCAAATCTCTTTTCTTTCAGAACCTAAAGAAAATGGTCA
GATCAATCATAGTTAAAGAAAGAAGGAGTTTCACGGGAAAGAGTGGTTGTCAAAGACTCAAAGGA
CTTCAGCAGACTTCCTGGTCACTGATCACGATCAATCATTTTGACTCTCACTGCTACCAATTCTT
TGATGATCCTCTTTATCTTGTCTAAGTGCTGAGACAATTTCATTG
Found at i:324373 original size:28 final size:28
Alignment explanation
Indices: 324333--324413 Score: 153
Period size: 28 Copynumber: 2.9 Consensus size: 28
324323 AAAGGTAAGA
324333 AGTCGCTTAAGCGAAGCTTTCGGAACGT
1 AGTCGCTTAAGCGAAGCTTTCGGAACGT
324361 AGTCGCTTAAGCGAAGCTTTCGGAACGT
1 AGTCGCTTAAGCGAAGCTTTCGGAACGT
*
324389 AGTCGCTTAAGCGAAGCTTTTGGAA
1 AGTCGCTTAAGCGAAGCTTTCGGAA
324414 AGTTTACTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (28 bp):
AGTCGCTTAAGCGAAGCTTTCGGAACGT
Left flanking sequence: Indices 323833 -- 324332
AAAACTACCTTTTGCCCAACATGATCACTAACGAAGACAGAAAATTGCGTAGATAGGAGGAGGAA
ACGAACCAACCCACTTGTCCTGATCGGAACGATTGAAGAAAGAAAGAGAATGGTGGCCCCTTCCG
TCCAGGGGACACCGTCGGAGAACAATGTCTGGGACAGGGTGAGAACCTTCCGTTGGTTACGCCCT
TTAAGTGTTGGTTCTTCTATATTTCGATTCTGCTTTCAAGATCTATGAACAAGAGAGACCCCTAA
ATATATCCATTTTAAAAAAGAGATGAATAGATAGGGCGGAGCCACCCGAAGGAAGAGATCGACGA
TCCCCTGCAATCTTTCTAAAGCAAGAAGCGAGAAACTTGACTTTGATAAAGAAGGGCATTCTATT
AGAAAGTAAAGGCTCCTTATACTATCAATAGCGATCCCTATAGAAAGGCTACCCTTTCTTGTTCG
TTAGCGCCCTCGCCCTATTATATTAGTTTAGTCATAAAGGTAAGA
Right flanking sequence: Indices 324414 -- 324913
AGTTTACTTTCGCCTTTTGACAATCTTACTGACTGAAAGGGGTATCCGCTCAAACATGCGAAGAA
CGTCCGAGACGCCTTATAGAAACTTTGCGCGGGCTTCTCATTACCATACGAGAAATGATAGGGCT
CCAGGGATCTCCGGTTTTTGTTTGATAATGGGGGAAAGGGACGAAGACTAAGGTTCTGCTTTTCC
AAAAACTTCGCTCCGATCGCTTAAGCTCAACTTCGAGCTTTAGGGAGTCAACTACCTTTTGGATT
TTTTTTTGAATAGAAAAGTAGGGGCTTCAAAGCGTTTTAGGGGTGCGCTTCGCTTTTGTTGCGGA
GCTTGCTGCTTTTCATTTTGTTAGGAGTAGGTGCTTGCTGCTCGCTCGCTGTCTACTAAATGAGC
CTTCACTGCCCGCCTGCCCCCTATCTTTACTTGAATCTTAAGTGAAGTAAAATGAATGAAGTGAA
CAGCCCAACCTTTGAAGCTTTGCCAGGCAATCGGTATCGATTGTT
Done.