Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_060635
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: 198476
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Found at i:6881 original size:18 final size:18
Alignment explanation
Indices: 6858--6930 Score: 112
Period size: 18 Copynumber: 4.1 Consensus size: 18
6848 GAAGAAATTA
*
6858 ACTGATCAGAAAACCA-AG
1 ACTGATAAGAAAA-CAGAG
*
6876 ACTGATCAGAAAACAGAG
1 ACTGATAAGAAAACAGAG
6894 ACTGATAAGAAAACAGAG
1 ACTGATAAGAAAACAGAG
6912 ACTGATAAGAAAACAGAG
1 ACTGATAAGAAAACAGAG
6930 A
1 A
6931 GGAAAAACCA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
17 2 0.04
18 51 0.96
ACGTcount: A:0.53, C:0.15, G:0.21, T:0.11
Consensus pattern (18 bp):
ACTGATAAGAAAACAGAG
Left flanking sequence: Indices 6358 -- 6857
TAGCCCCTAAATCTTATGGATACATAGAGAAAGACGCGGATGGAAAGATTGTTCTCAAGCACAAA
GGTGCTGCTAAAAGCTTAGTGACACTGGAATGGTTTCAGTCACAGTACGATGACCCATCTCGGAA
ACAACTGGTCTCGGTTACTTCCAGCTTTAAAGTCAATTGGAAAGAACTGGAAATCCATAAGCAAG
AAAGTTTATACAAGTTAGGTCTTAGCATGGATTCTAAAAGGTTACCAGTATATATCAAGAATATA
TGGATTGATACCGAACCTATTCATATCAGAAATCTGTCTAACGTTAGTCCTCTTTTGGGAGATAG
AATCTTATTCTTTCTCAGGAAAGAAATGAATCACCTTCAGACTAAGAGTGAGATTCTTAGTGAAA
AACTCTCTCAAAGGGATAGAGAGATGATCAGCATCATTTCAGAGAAGGATAGAGAGATCTCCGAG
ATGAAAAGTAAGATTGATCATCTTCAAGATGAGATGAAGAAATTA
Right flanking sequence: Indices 6931 -- 7430
GGAAAAACCAGACTGACAAGGGGAAACCCCCGTAAAACCACTCCATTCACAAAACTAGAGGGAAT
AGAATATAATATAAGGGTTGCTAAACAGGTCTTTTAAGAGCCTACAGTGGTCTTAGAATGTGATT
TAGCCCGAGACATGTAAACTATAAGCAGGTTATGAAGGTTGATAGATTGGTTTAGTCAAGCCAGG
AACTGGTAAGGAAGACACCATGGATAATTGAAAGGGAGTGCTACGTACTGACTGTTAGGCCCTGG
GAGGCATTGCTTGTTCGTATTGCTTCCGTACCCTTACCAACTAGCTTTATCCTTTCACAAACTGA
AGTACCACATCGACAGGCCCCTACCCTATTATTTTCTTTATTACATTTCTGCCTCAACTATTCCA
AAAAGGGTAACAAATGGGTCTAATTCTGAGTCATTTCACATCCCTGATTCGGAAACTGCTGCAGT
GGGAACTCTACTTGCCATTCCTCCTTCCGAAGTAAAAGTTTTCAT
Found at i:14749 original size:45 final size:45
Alignment explanation
Indices: 14685--14774 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
14675 TAGTGCGAGA
14685 CTTTCAACTAATGAAATCTAAACCAGCTAGTTCAGTCAGATACCG
1 CTTTCAACTAATGAAATCTAAACCAGCTAGTTCAGTCAGATACCG
14730 CTTTCAACTAATGAAATCTAAACCAGCTAGTTCAGTCAGATACCG
1 CTTTCAACTAATGAAATCTAAACCAGCTAGTTCAGTCAGATACCG
14775 GCTAAGCAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (45 bp):
CTTTCAACTAATGAAATCTAAACCAGCTAGTTCAGTCAGATACCG
Left flanking sequence: Indices 14185 -- 14684
TTCTTTTTCAGCCGACTTGAAAGGTGCTCTCAGTGTACCGCCATACGCACCCAGACATTAGACCA
AGCAGGAACCGGGGATCAAAGTTCCATTGATTCATCTATCTCAAATAGGGAAAAAACGGAATCAA
GAAGGGGTCGGCTGAGCTCTAACTGGTTAAACCCGCTTTGGTGGCCTCTTGCCCATAGCTGACTT
CTTTGCTAGATGATATCGAATAGTACGACTAGAGTTCAATCCCTCAGAAAGTCATAGTACGACTA
CAGGGAAAGAGATCTGAAAGCAGCCTTTTACCCCGTTATTCGATGGTGAACGCAGCCTAGCTCTC
CCCCTTCAATAGGCTAAGCCTATCCCTTTGCCGTAAAGCTAAGACAGAACTCAGCTAGGACCGAA
GAGAGCATTGCCAGTTTCATTCCATTTCTCAATTGAGAAGTCAACCAACAGGTCAATCCTTCCCT
TATATCATATCCCTTTTACACAGTCTTTGTTTAAATAGTGCGAGA
Right flanking sequence: Indices 14775 -- 15274
GCTAAGCAACCTCTAAAGCAGCTATCGGAGCAGTAGCAGCTTGAAATTCGCATACCAAAGACGAA
GGAATTCCCCACTTTCTAATGCAATACGGCAAAGCTTAGGGAGTCAGCTAGTCCAACATCAGTCA
TTCTAATGGAATATCTGGAATATCGAACTAGGAAATGAAAGACTTTCTTTCTTTATATACGAGTC
AATTACATACCGGAAATATCGAACAGTAAATGCTATACCGGAAATGCGATATCTAAAGTCAATCT
CAGTGAATTCCGTACCAAGCAGCCCAACCAAAACCTAACAGTATATCAGATCTATCCTATAAAGG
TAGTCCAACACAAGTAATCGATACTACGCCTTCGCCCTTTGAGAAGTTACTTTGTGAAATAGGAT
TGCTCCCTTGTACAATTTCTTCATTTTAGATAGCTAGAGCTAAGCCTGTCCTAAGTATGAGTCGG
GTAGGACCTTTCAGTCAAGTGCCTTGCCTTCCTTGCCTATTCATT
Found at i:17533 original size:17 final size:18
Alignment explanation
Indices: 17511--17544 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
17501 TACGCAATAT
17511 AAAATAAAAAGA-GAAGA
1 AAAATAAAAAGATGAAGA
*
17528 AAAATAGAAAGATGAAG
1 AAAATAAAAAGATGAAG
17545 GAACAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.09
Consensus pattern (18 bp):
AAAATAAAAAGATGAAGA
Left flanking sequence: Indices 17011 -- 17510
TGTGATCTCCATTACTGATGGACAAATCTGTTCGGAAACAGAGCTCTTTTATCGCGGAATTAGAC
CTGCTATTAACGTCGGCTTATCTGTCAGTCGTGTTGGGTCTGCCGCTCAGTTGAAAACTATGAAA
CAAGTCTGCGGTAGTTCAAAACTGGAATTGGCACAATATCGCGAAGTGGCCGCCCTTGCTCAATT
TGGGTCAGACCTGGATGCTGCGACTCAGGCATTACTCAATAGAGGTGCAAGGCTTACAGAAGTAC
CGAAACAACCACAATATGCACCACTTCCAATTGAAAAACAAATTTTAGTCATTTATGCAGCTGTC
AATGGATTCTGTGATCGAATGCCACTAGACAGAATTTCTCATTATGAGAGAGCCATTTTAAAGAG
TATAAAAACAGAATTACTACAATCCCTTTTAGAAAAAGGTGGCTTAACTAACGAAAGAAAAATGG
AACCAGATACATTCTTAAAGGAAAGCGCTTTGCCTTACGCAATAT
Right flanking sequence: Indices 17545 -- 18044
GAACAAAGTTGACACAATCCCTTTCTTTCCGTTGGTCAACAACCAACAAAACAAAATCGTTTTGT
TCTTCACTACTCGTACAGGAAGGCCTCTCTTTCTGTATGGGGGGAATCCTTTATTCTCAATCAAG
ATGCCTCAACTGGATAAATTCACTTATTTCACACAATTCTTCTGGTCATGCCTTTTCCTCTTTAC
TTTCTATATTGCCATATGCAATGATGGAGATGGACTACTTGGGATCAGCAGAATTCTAAAACTAC
GTAACCAACTGCTTTCACACCGTACGAACAACATCCGGAGCAAGGACCCCAACAGTTTGGAAGAT
ATCTTGAGAAAAGGTTTTAGCACCGGTCTCTCCTATATGTACTCCAGTTTATTCGAAGTCTCCCA
ATGGTGTAAGGCCGTCGACTTATTGGGAAAAAGGAGGAAGATCACTTTGATCTCTTGTTTCGGAG
AAATCAGTGGCTCACGAGGAATGGAAAGGAACATATTCTATTTGA
Found at i:24605 original size:20 final size:20
Alignment explanation
Indices: 24580--24619 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
24570 TCTAGAGTCC
24580 CTAAGAAATTACTGTAAGAT
1 CTAAGAAATTACTGTAAGAT
24600 CTAAGAAATTACTGTAAGAT
1 CTAAGAAATTACTGTAAGAT
24620 GTGAATGATG
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:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (20 bp):
CTAAGAAATTACTGTAAGAT
Left flanking sequence: Indices 24080 -- 24579
ACCGATGGGTCTTGTTCTAAGCCCAACCCTCTCGTCTTAGGGTAGGATATCCATAAACCTTCAAT
CACGGGAACCCTACGGCATCCTTAAGAGGCTCAAAGATCTTGAAAAAAGAACGAGTGAGGACGTG
TCCAATCTGAACCAAGCTCAAAGCTAAAAAAGAATAAGGAAACACACTCTTTGTCGGAACGAGGA
AGAACTGTTGACGTAAAACCCGCTTTTCCGCTCTTTCCCTCTCTTCTTTGCGACAAGCTTCGGAA
CCTAAGTCAGAGAGATGAGATCTCATTGCTAGTGTTCTTAGATAGTAGGGACCTGCTTGTGCCAA
TAGCAAAAAACCAGATCGTTGCCCGAACTACCCCTCTCAATGCCTGTTTTCTTACTTTCATTTCT
ATTGAGTAGTCAACGGCTCGCTCAAAGGAAAATCTAACAAGCCAATGTTTGCATTCGGGCGAGTG
CATAGCCATCGATCTCGAGTGATCCCAGTCTATGATCTAGAGTCC
Right flanking sequence: Indices 24620 -- 25119
GTGAATGATGCTTTTCTTTTTACTTTCCCTAAGATGAAGCTAGAGTCGTCAAAGTCCATAGTCGA
CGAAGAAAGAATGATTTAGTTCCGATTCCCTGTCTTCCTCTTTTCTATAAAAAGGCTTCCATTTA
TCTAGAGTACGAGAGAAATTCAAAGAGGACTAGATTGACCCTGAGAAAGAAGATTTTTTGGTAGA
ATGCTAAACTGAGAAGGCTAAGTAAGCAATGAATCGCGGAGAAAGCTCTTTGGTTCCCTTAACTT
AGTTTAAGTAAGAAAGACAGTCCGATTTCCTATGCCGAAAGATCGCTCTGGTTTAGCACTTTTCA
TTTTTTCTTTTCTTCTTTAATAATGTAAGCTATAATTAGTGAGACTGTCATTATCCATTCTGAAC
TTGAAATTGTTCAGATTATCTCGATAAGCAAGAAGACAGTGTTCAATTTGAGCATGGTTCTGCCC
AGGGTAATTGTTTTGGCATAAATATATAGTATAGGTTTGGTAAGA
Found at i:35448 original size:18 final size:18
Alignment explanation
Indices: 35408--35450 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
35398 ACCGCCCTGC
35408 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
35427 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
35444 CATAGTC
1 CATAGTC
35451 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 34908 -- 35407
AGGGCTGCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACCATGCCTGTC
TGTTGGAGCGAATTGGATGATCGGGCCGAGGGCTGCCCCCTCTTCCCCTCACTCTCCTTTCCCTA
ATATGAACCTTGAGTCATCAAAGCCTTTCTGACTCGGCCTGGCCCGGTCGCCCTACGCGGCTGGC
GCTTCAAAAGGCGAAACTCTCGTCGTAGTTTGGCGACCTAAGGGGCGGACACTTTTTGTTATCTA
AAGGCGAAGACTCGGAAGTGGGCGAACACTCGGCCCAGCGGGCGAACATGCCGGGCTCCGGCTCC
GCGCACCTGCTGACACCTTTCGAAGCACTTTCTAGTGTGCGCTTTAGTTTTCGAATGTCTCGTTC
AGCGTCACGAGTCTACAAGCCTTTCTCATTTCAGTGCTCGCCCTTTGAATCGGGCCTTTAGTCTT
TTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGTACCGCCCTGC
Right flanking sequence: Indices 35451 -- 35950
AACAAGGTTGAAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAAGTCGGAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGTCGC
ATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTA
Found at i:52099 original size:18 final size:18
Alignment explanation
Indices: 52073--52113 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
52063 GACTGCAGTG
*
52073 TTGAACTGATTCTAATCC
1 TTGAACTGATTCGAATCC
* *
52091 TTGAGCTGATTGGAATCC
1 TTGAACTGATTCGAATCC
52109 TTGAA
1 TTGAA
52114 TTCGACCAGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (18 bp):
TTGAACTGATTCGAATCC
Left flanking sequence: Indices 51573 -- 52072
GAAGTCAAACCGTGATCGGGCTTGCCAAGAAGGCTCTTGTCCGCTGTCTCGGTTCTTTCTTTCAA
TGAAAGTTGACTAATATGAAATCGACGTTCTTAGACGTCCACGTATGATTTTGATGTCAGAGACC
ACCAATGAGGTTTTGGCTTTAGTAACCTTTACTGAGAATTGCAAAACTATCCCTTGGTCGAAGGC
AACAATGAAGTTAACGATTCCAATTAAACGCTAGGCTGTGGTTCCTCAGTCCAGCTAATCCATTA
CGGGTTTCTGGAAGGCCTTTGAAGAAGAGAGGTTAAAAGAGCCCAATCCAGGTTTAGCTGTCTCA
GGCAAGAGTTGCTTAAAATGAGTGTTCGAGGCCCTTTTCAGGCGTGTGCTTCTGATTATAAGGGT
GGTTTACATGATCTGCTCGATACTCGAGATTTTGAATGGAATTGAATCGATTTTGAGCGCTAGCC
AGAGATGACCCTCTTTGAAGATCTAGCCTCACATGGACTGCAGTG
Right flanking sequence: Indices 52114 -- 52613
TTCGACCAGGGAATAGGTATCATCTCATTTTTCGTCTGATCGTCTGCGTCTTGTGCCTAGCTTCC
TACGAGCGGAGGGTGCAAGTCCTCTCAACAAACTCCATATCTGCAGAAAAAATGCCACTATTCTA
AATTCAATATAGTAAGGCGTTTCTATTCTTCCTCGCAGCAAGACTTCTGAAAGCCAGTTGCTAAG
AAAAAGATTAGAACAAGAGGGCTCTGGCGATTTCGGAACTAGCTTGACTCATTCCACCCAGTCTG
GGGTGAACGAGAACTAGTTCATCACCAACATGCTTAACTCCTAGGACTTTTGGGATTGAATACTC
TTACTCTTTTTGACCAAAAGATGGTGAAGAGAGGAGCTAGATAGAAGTAGTTTTGAATGAGGAGA
GGGAAATCTGGCCAATAGTTAAGTCATTTTTTGTTTGGTCATAAGTTGGTTAGAGAAAAGTAATT
AGTTCAGTTTTAGGCATACACTAATAGTAGGTTACGATTCAAAAG
Found at i:86925 original size:6 final size:7
Alignment explanation
Indices: 86908--86939 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
86898 AATCAGGCAT
86908 TTTTTTC
1 TTTTTTC
86915 TTTTTTC
1 TTTTTTC
86922 TTTTTTC
1 TTTTTTC
*
86929 TTTTTTA
1 TTTTTTC
86936 TTTT
1 TTTT
86940 CATTTTAAGG
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:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Left flanking sequence: Indices 86408 -- 86907
AAGGTTACGAAGTAAGGTCAACTGGTTAAGGAAAGCTCAGGTTATGAAAAAGTTTAGCCATTAAT
GAATTAATTAAGTAGTAGTGAGACGGAGTTGCGTCAGCTGTGGATATAGACTAGGCTAAGGGGCG
GACTTCATCTCTTCTATTCTCTTCACTTACACCTTACACTTCTGCTGAGTCTAACGAGGCTCAGG
TGCGGAGCCTTCCGCTGTCACTGTGGAGCGAGACTGCGCAAAGGTAGAACATCATAGAAACTTCG
CTGACTTTCTCCATAAACCTTGATTTCGCTACGCTCAATAAGAAGCCGGAATAGCTTAAATTGGT
TCGTGTTCCGTTTCCAAAGTCAGTCGTCTTTACCCAAGTGTGAACTTCAGACGACTCTCAAGCGG
TTCCATTCCTTCTTACTGTACTTCTGGGTCAACCCAACCCGAATGGGAAGAAGGGGGTCAGCCAA
ACAGCGGTCCACTTTGTACGTTTGCTGAGCAGACCAATCAGGCAT
Right flanking sequence: Indices 86940 -- 87439
CATTTTAAGGAAGGGAACTTCTCACCGAAGGAGGCAGTAGGAATGAAGGAGGCGGGAAGCTACCG
CTTCTTCTAGAAGGGTTGCTTATCCTTCACTTTTTTTAGAGCGTATCGCTATGAAAAAGAAAAAG
TTTATGTAATCGGAAAAAGGGTTACGGTTGCGGAAACCAGAGAAAGTCGGGAACCATCGGTTACC
TTTTGAATCAAAGTAGCGACGAGCCGAGTATTACGACTACAGGGGGAGAAGCAAAGCTTCGTAGA
CAGCTTCGCTTCCTCGTCGCTTCTTTCTAGCGACCAGCTTCTCAAGTGGGTGGCTTGGTAAGCAA
GCTACCTTCAGCATCGGTAAAATCCCTATAATAGGCCGGAATGGCGGAGAAGGAAGCCCTCTCTA
CTTCAATGGAAAGGGGGGAAGAGCCCTTTCACAGCCGCTCCTCTACAACTTTCGCCCAACATGAT
CACGAACGAAGACAGAGAATTGCGTAGATAGGAGGACGAAACGAA
Found at i:99723 original size:21 final size:21
Alignment explanation
Indices: 99697--99743 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
99687 TATGAAGGCT
* *
99697 CTAGTGGGCGTACTGTTTTAC
1 CTAGTGGGCGTACTGTCTGAC
99718 CTAGTGGGCGTACTGTCTGAC
1 CTAGTGGGCGTACTGTCTGAC
99739 CTAGT
1 CTAGT
99744 CCACTCAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.30, T:0.34
Consensus pattern (21 bp):
CTAGTGGGCGTACTGTCTGAC
Left flanking sequence: Indices 99197 -- 99696
CTTTCAGGGGGAGCAGGATCATCATTTCCACTAAAGTCGTGGAACCGGCTTCCATCTAAAAAAAA
GATGATTAGTTTCATCTATATAAATGGATCATTCTTAAATGGCCGAAGGCAAACGACCTAATGAA
CCCAACTACGGCAGGGAAGCCTTTATTCTGGGTGTAGGAATGAAAGGTTACCCGGCCAGAAACTT
CAATCAATCCTATGGCATTGTGAAATCTCTAATCGGAGGCATTAGCAGTTCAACTATAGGGACAA
CGCCAAGCGGAGGAGTCGGTTTCAACAACAACCCGTGAAGACGAAGGTCTGCAATAAGACTTTGT
AACTCTAAATTTTTTAAAAGAATAAATTAGCGTATCAAGTCTTGCTTACTTTCTCCTAAGCTAAG
TGAGAAAGGATTGCAGGCTAGATTCAAGGTATGCGAGTTTATTGATTCCACTCCGCTTTCAAGCA
AGATTGGGTGAGTGTTCAGTGTACTTGAGTAATAGTATGAAGGCT
Right flanking sequence: Indices 99744 -- 100243
CCACTCAAGGCAAGCAAATTTTTTTGAAAAGCGCTAGAAATCGTGGTCCACAATACTACAAATCT
GTTCTACACTAGATAGATTGCTCTGATTTTTTTTTACAATTCTCTTTTTTAAAGCAGATAGTTCA
CAGTGCTCATTCTATCGATACTGGGAAAAATCATAAATAAAATAAAAAATCATAAAGCAAAAAAA
ATGTTTACACTCAATTTTCATTACGAAGATGTATCACGTCAGGATCCGTTGCTCAAACCGAATCA
CGCCAACGTTATGGAAGTTCCTGGATCGTGTAAAATAAGAGTACTACCAAAGGCAGCACCTTCTG
ATTTCATAATAAAAAATGGAAAATTGGCTATGGAGATTCCGTGCGGGCAGAAATTAATACAGACA
CAAAGGGCTTCGACAGGAAAGTCGTTTCGATCCAATCCATTCTTGGGGTCAAATAAAGAAAAAAA
AGGATATGTCAGTGACCCAGCACGGCAAAGCACTCTCCGAGGTCA
Found at i:99939 original size:19 final size:19
Alignment explanation
Indices: 99899--99939 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
99889 CGATACTGGG
*
99899 AAAAATCATAAATAAAATA
1 AAAAATCATAAACAAAATA
99918 AAAAATCATAAAGCAAAA-A
1 AAAAATCATAAA-CAAAATA
99937 AAA
1 AAA
99940 TGTTTACACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (19 bp):
AAAAATCATAAACAAAATA
Left flanking sequence: Indices 99399 -- 99898
TCCTATGGCATTGTGAAATCTCTAATCGGAGGCATTAGCAGTTCAACTATAGGGACAACGCCAAG
CGGAGGAGTCGGTTTCAACAACAACCCGTGAAGACGAAGGTCTGCAATAAGACTTTGTAACTCTA
AATTTTTTAAAAGAATAAATTAGCGTATCAAGTCTTGCTTACTTTCTCCTAAGCTAAGTGAGAAA
GGATTGCAGGCTAGATTCAAGGTATGCGAGTTTATTGATTCCACTCCGCTTTCAAGCAAGATTGG
GTGAGTGTTCAGTGTACTTGAGTAATAGTATGAAGGCTCTAGTGGGCGTACTGTTTTACCTAGTG
GGCGTACTGTCTGACCTAGTCCACTCAAGGCAAGCAAATTTTTTTGAAAAGCGCTAGAAATCGTG
GTCCACAATACTACAAATCTGTTCTACACTAGATAGATTGCTCTGATTTTTTTTTACAATTCTCT
TTTTTAAAGCAGATAGTTCACAGTGCTCATTCTATCGATACTGGG
Right flanking sequence: Indices 99940 -- 100439
TGTTTACACTCAATTTTCATTACGAAGATGTATCACGTCAGGATCCGTTGCTCAAACCGAATCAC
GCCAACGTTATGGAAGTTCCTGGATCGTGTAAAATAAGAGTACTACCAAAGGCAGCACCTTCTGA
TTTCATAATAAAAAATGGAAAATTGGCTATGGAGATTCCGTGCGGGCAGAAATTAATACAGACAC
AAAGGGCTTCGACAGGAAAGTCGTTTCGATCCAATCCATTCTTGGGGTCAAATAAAGAAAAAAAA
GGATATGTCAGTGACCCAGCACGGCAAAGCACTCTCCGAGGTCATGGAATGTCTCATTTTTTGGT
AAAAATCTCCGCAGTAATGTCTCTGTTAGATTTTCCGGTCGAAATACGGGAAAAGTCCATTCAAT
TCTTGATGGAAATGGAGTTTTGCGAATTCTCCCCGGAACTGGAAGATCATTTCGAGATCTTCGAA
CATATTAGGGGGTTCCATGTAACTATTTTAACTTCGGCCAACACA
Found at i:105783 original size:15 final size:16
Alignment explanation
Indices: 105765--105799 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
105755 ACCTTTTTTA
*
105765 TTTTCTTTC-TTTTCT
1 TTTTCTATCTTTTTCT
105780 TTTTCTATCTTTTTCT
1 TTTTCTATCTTTTTCT
105796 TTTT
1 TTTT
105800 TGATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTATCTTTTTCT
Left flanking sequence: Indices 105265 -- 105764
AACCATCAAACCAGAGACCAAAGCAAGGCTCGACAAAACAGAAAGTATCATAGTACGTCGTCCTT
CCCTGTTCTAGTGCTTGCATACCCATAAGGATACACTTATATACCCGAATTTCGCCGGATTGTAG
GAAGGATAACTGATCATTTGATCAGAAAACTAAGGGAGCTGGGCATAAAGAAACTGGAAAAAGGT
TTCTAAGCAAAGTTGCTGAGTAAAGGTCTCGTGTGCTTGCTACATATACGAGTCACGAGTAAGAG
GAAGTGGTAACGGTCGATGGATGTTCATATTTGAGTATTTGCTGACGGAATGCCTCACATCAAGG
TGACAGGATTCGAACCTATGGCCCTCTGTACCCAAAACAGATGCGCTGACCAGACTGCGCTACAC
CTCGTCTCACCACCCCGGAGCATATAGATCCACCCGATCGATGAACACTCAAACCGAACTCACCC
TTCCTTTTGGGCACAGGGACGCGAGAACCTAAGAAACCTTTTTTA
Right flanking sequence: Indices 105800 -- 106299
TGATATATTTTCTAGAATTTCATTTAAAATATATAAATATTTTGAAAACGCCTCCAGCAAGATAG
GGCGACGCAAAAAGCCGTATAGTGCAGGAGCGCTCACATTTTTTGGCTTACTCTTGCACTTGAAT
TTGAAAATCCGGCCTTTGGACCCTTGGCCCGCTTAGAAGTGGATTCGAACCACTGACACAAGGAT
TTTCAGTCCTTTGCTCTAACCAGCTGAGCTACCTGAACCACTTTCCTAAAAGATGTTTTCTTCAT
CGAATAGCGCCCTACCTTACCACTTGACTAGTAAAAAGCCCTTGTACTAAAAAGAATATTATATA
TAGGCCTTTTTCGCTTCTTCGTCAAGCTTTCGAGCAGCTCTTTCAACTGCCGCCTAATCCCCCTC
AAGAACCGAGAGCCGCCCAGCCCCTGGACAGCCGGAGGGAGCTTGCTTATAGAAAGAAGGAAGAT
AGGCCGATCAAACAAAAAGAACGCGCAAAGGTATCTCCGCTCCTA
Found at i:105783 original size:21 final size:21
Alignment explanation
Indices: 105757--105798 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
105747 CCTAAGAAAC
*
105757 CTTTTT-TATTTTCTTTCTTTT
1 CTTTTTCTATCTT-TTTCTTTT
105778 CTTTTTCTATCTTTTTCTTTT
1 CTTTTTCTATCTTTTTCTTTT
105799 TTGATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.79
Consensus pattern (21 bp):
CTTTTTCTATCTTTTTCTTTT
Left flanking sequence: Indices 105257 -- 105756
GCACGTACAACCATCAAACCAGAGACCAAAGCAAGGCTCGACAAAACAGAAAGTATCATAGTACG
TCGTCCTTCCCTGTTCTAGTGCTTGCATACCCATAAGGATACACTTATATACCCGAATTTCGCCG
GATTGTAGGAAGGATAACTGATCATTTGATCAGAAAACTAAGGGAGCTGGGCATAAAGAAACTGG
AAAAAGGTTTCTAAGCAAAGTTGCTGAGTAAAGGTCTCGTGTGCTTGCTACATATACGAGTCACG
AGTAAGAGGAAGTGGTAACGGTCGATGGATGTTCATATTTGAGTATTTGCTGACGGAATGCCTCA
CATCAAGGTGACAGGATTCGAACCTATGGCCCTCTGTACCCAAAACAGATGCGCTGACCAGACTG
CGCTACACCTCGTCTCACCACCCCGGAGCATATAGATCCACCCGATCGATGAACACTCAAACCGA
ACTCACCCTTCCTTTTGGGCACAGGGACGCGAGAACCTAAGAAAC
Right flanking sequence: Indices 105799 -- 106298
TTGATATATTTTCTAGAATTTCATTTAAAATATATAAATATTTTGAAAACGCCTCCAGCAAGATA
GGGCGACGCAAAAAGCCGTATAGTGCAGGAGCGCTCACATTTTTTGGCTTACTCTTGCACTTGAA
TTTGAAAATCCGGCCTTTGGACCCTTGGCCCGCTTAGAAGTGGATTCGAACCACTGACACAAGGA
TTTTCAGTCCTTTGCTCTAACCAGCTGAGCTACCTGAACCACTTTCCTAAAAGATGTTTTCTTCA
TCGAATAGCGCCCTACCTTACCACTTGACTAGTAAAAAGCCCTTGTACTAAAAAGAATATTATAT
ATAGGCCTTTTTCGCTTCTTCGTCAAGCTTTCGAGCAGCTCTTTCAACTGCCGCCTAATCCCCCT
CAAGAACCGAGAGCCGCCCAGCCCCTGGACAGCCGGAGGGAGCTTGCTTATAGAAAGAAGGAAGA
TAGGCCGATCAAACAAAAAGAACGCGCAAAGGTATCTCCGCTCCT
Found at i:109749 original size:25 final size:25
Alignment explanation
Indices: 109715--109765 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
109705 AGCGGTACGT
109715 TTCAACCAATTAAACTATAAGCCCC
1 TTCAACCAATTAAACTATAAGCCCC
109740 TTCAACCAATTAAACTATAAGCCCC
1 TTCAACCAATTAAACTATAAGCCCC
109765 T
1 T
109766 ACGGATCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.31, G:0.04, T:0.25
Consensus pattern (25 bp):
TTCAACCAATTAAACTATAAGCCCC
Left flanking sequence: Indices 109215 -- 109714
GGATGTAACTATTCAGATTTTTTCTCGAATAAATCATTCTCTTAAAAGATCTCGTCTTGTTCCTC
AATCTTCGAAGAATGCGGCGTTGTATTATTGTAAGTTCCCTGTTCCAAACATTTCCTTCAAGTAG
ACGACAAGTTTTAAATCTTAATGCGGGCATTCCTCCCTCACATGCATTTGCAACAGATTCTTACT
AAGACCGGTAATCCCCATAGACACGGCCATTCTCGGCATCTTCACTGTTGCCCCTCTTCTCAAAG
CCTTTCGAATACCCCTTCCTACTTCTTCATCCTAGCTCTCCAACTGACTGTCTGACTCCAGCTTT
CATTTCAGTTACTGATTCGCCTATCCTCTCCCTTCCGGTCGAGCTAGTTTTTATTCCTCTATCTA
GGCCAACATTCATTCTAAGACTTTCACCAGCAAGGGCTGAAAGAGAAGAGCAGGGGGTGGTAGGC
TTAGTAGGGCTCGAACCTACAATATCACCGTTATGAGCGGTACGT
Right flanking sequence: Indices 109766 -- 110265
ACGGATCTCTACATGCAATTCGCTCACTTCGGGAAGAGCGAACGGAAAGAGGAGGCCTTTGCTCT
ATCTGCTTCTTCCTCTCCCCAGGAATGAACAATTGGAAAAGAAAAAATTAGAAATATCTTTTTTT
TAGATAGATAAAGAATTATATTTTATATATATAGAGAATTCTTTTTTAATCTAGAAAAATGAAGT
TAAGCAAGCGGCCCTTTCGCGACTCAAACTGCCGGTACGCTTTCCGGCTCGCAACCGGGCGGAGG
CTCTCTATTTGCTTGCAATGCCGGCTCTTCGCCTTTAGTTAGAAGTAGAAGTAGAGGGCGCCGTT
TGCCCCCCACACTTCCTAAAAAGTAAAAAAGTATGGATGAAGTAAGAAAAAGTACAAAAGGAATG
CTAAAGAAAAACTTGGTTACGGGAACCGAAGGTTAGGCCAATTTAGTATAGCTACACCTATAAAA
GTGTATTCCTACCCTTTCCCCTTTCTGTCAATGTTGCCAATTCCC
Found at i:109942 original size:23 final size:23
Alignment explanation
Indices: 109891--109943 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
109881 GAAATATCTT
109891 TTTTTTAGATAGATAAAGAATTA
1 TTTTTTAGATAGATAAAGAATTA
* * * * *
109914 TATTTTATATATATAGAGAATTC
1 TTTTTTAGATAGATAAAGAATTA
109937 TTTTTTA
1 TTTTTTA
109944 ATCTAGAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (23 bp):
TTTTTTAGATAGATAAAGAATTA
Left flanking sequence: Indices 109391 -- 109890
TTTGCAACAGATTCTTACTAAGACCGGTAATCCCCATAGACACGGCCATTCTCGGCATCTTCACT
GTTGCCCCTCTTCTCAAAGCCTTTCGAATACCCCTTCCTACTTCTTCATCCTAGCTCTCCAACTG
ACTGTCTGACTCCAGCTTTCATTTCAGTTACTGATTCGCCTATCCTCTCCCTTCCGGTCGAGCTA
GTTTTTATTCCTCTATCTAGGCCAACATTCATTCTAAGACTTTCACCAGCAAGGGCTGAAAGAGA
AGAGCAGGGGGTGGTAGGCTTAGTAGGGCTCGAACCTACAATATCACCGTTATGAGCGGTACGTT
TCAACCAATTAAACTATAAGCCCCTTCAACCAATTAAACTATAAGCCCCTACGGATCTCTACATG
CAATTCGCTCACTTCGGGAAGAGCGAACGGAAAGAGGAGGCCTTTGCTCTATCTGCTTCTTCCTC
TCCCCAGGAATGAACAATTGGAAAAGAAAAAATTAGAAATATCTT
Right flanking sequence: Indices 109944 -- 110443
ATCTAGAAAAATGAAGTTAAGCAAGCGGCCCTTTCGCGACTCAAACTGCCGGTACGCTTTCCGGC
TCGCAACCGGGCGGAGGCTCTCTATTTGCTTGCAATGCCGGCTCTTCGCCTTTAGTTAGAAGTAG
AAGTAGAGGGCGCCGTTTGCCCCCCACACTTCCTAAAAAGTAAAAAAGTATGGATGAAGTAAGAA
AAAGTACAAAAGGAATGCTAAAGAAAAACTTGGTTACGGGAACCGAAGGTTAGGCCAATTTAGTA
TAGCTACACCTATAAAAGTGTATTCCTACCCTTTCCCCTTTCTGTCAATGTTGCCAATTCCCAGA
AGACTAATGTACCCTCGTGTATACAGTTGTCCAACTACTTTCTTCCTCCGACTTCTTTAGCCACT
TCCGGCTTCCCCACTTCCGCATCTGTCGTTTCGGGAGAGCTTGCTTCGTGGCGGAGCATTTAGCA
ATGCTAGCAGCCTGGTGAGGGCTGGCTGTCTGGGGACATTTTAAG
Found at i:113956 original size:31 final size:31
Alignment explanation
Indices: 113918--113979 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
113908 AGATGACATC
113918 ACGCAAAGTATGACACTCTTCGATGGTACGG
1 ACGCAAAGTATGACACTCTTCGATGGTACGG
113949 ACGCAAAGTATGACACTCTTCGATGGTACGG
1 ACGCAAAGTATGACACTCTTCGATGGTACGG
113980 CCTGCGTATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (31 bp):
ACGCAAAGTATGACACTCTTCGATGGTACGG
Left flanking sequence: Indices 113418 -- 113917
GGGTATTAAAAAAAAGGGCTCTTTTCACCTGCCCATGCATTCGTTCGGATCCATTCTTCCTTCTT
TACCTTTTCAACCCACCCTTACTAGCTAATAGGGCTTACTAAAAAAACGAATTTGCCTCTTCCTG
GTAATGAATTAAGCGGCAGCGAGGAGGTCCGGTTCCATAGTGATTTCGTCTGCTTTTGGAACTTA
GATTCCTAGGGACAAAGAAAGTGACTTCGGACTTTTGAATTCTCAGAACCTCCTTCGAATGAAAG
AACTTGAGAGGGTCTCACAGGCATCTCTCTTCGAGCGGCAGTGCAAGCTCGGATGGTGTTAGCGC
TGGCAGAAAGTCCTGGATTAGTTTGTACCGGTGTAGGTCCCTGAGTGGTGACTTGTCCCCCTTGA
TGTTGTGGCATTGGATTAGTATAGATCCCCAGTAGCTTCAGTGACATTGGCGGCTTTAAGGTATG
CCTTAACTTCGTTCCAATTGAGAAGATTTTCATCTAGATGACATC
Right flanking sequence: Indices 113980 -- 114479
CCTGCGTATCGGTGAAATGGACAGAACTTTGAATAGTCGAGACCAGGAGGCCAGGGGAGTGGTTT
ATCTCTGGGCAGAGAAAGTTTTACAGGGCAGAAGGTGGAGAAGGCTGGGCCGTAGCTACTATACT
AGGAGAAAAGTATGACCTCTTTAAGATCTGGGATAGATCTTTCCGATGATATCCATGGCCCACCC
TCGAAACGGCCAAGGCTTTATAATCGGGTATAACTCGGAAGCCGGCTTGTGCTGGATTCCTGCAA
ACCTCTGGCAGGCATCGCAGCTCTTAGCATGTGCTACGTAATCTGCATGCAAGGACCGTAGGCCA
GTAGTGGCCATGTCTCCGGATCTCTCGAATTTCCCTCAGCGCGCTCGATCTACCTATCTTTCTGA
GTTTGATTGGTTTTCGCTCTAGCTGACCTTTCCCTTTAATCACTGACAAAACCTACCTTTCATTT
CTTCTTACCCTAGGAGCTTTCAGCAAAGGACAGATTTCTTGGTCC
Found at i:114770 original size:39 final size:39
Alignment explanation
Indices: 114715--114793 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
114705 CCCATCCTTC
*
114715 AATATCATGATTGGGTCGACCAGGCCAGATCATGAGTGA
1 AATATCATGATCGGGTCGACCAGGCCAGATCATGAGTGA
114754 AATATCATGATCGGGTCGACCAGGCCAGATCATGAGTGA
1 AATATCATGATCGGGTCGACCAGGCCAGATCATGAGTGA
114793 A
1 A
114794 TAGAAAATAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.22
Consensus pattern (39 bp):
AATATCATGATCGGGTCGACCAGGCCAGATCATGAGTGA
Left flanking sequence: Indices 114215 -- 114714
GCCGGCTTGTGCTGGATTCCTGCAAACCTCTGGCAGGCATCGCAGCTCTTAGCATGTGCTACGTA
ATCTGCATGCAAGGACCGTAGGCCAGTAGTGGCCATGTCTCCGGATCTCTCGAATTTCCCTCAGC
GCGCTCGATCTACCTATCTTTCTGAGTTTGATTGGTTTTCGCTCTAGCTGACCTTTCCCTTTAAT
CACTGACAAAACCTACCTTTCATTTCTTCTTACCCTAGGAGCTTTCAGCAAAGGACAGATTTCTT
GGTCCATTGACATCGATCAACGAAATAGACCTCCTTCTTTCACTTTTGTCGTTGTCTTCCAAATC
AAAGAGCCCCATTAAGTGAGTGTTCCGCGAGAAAAGAGAGGCTGACATCTTTTCTTATCTATCTA
TTTTCGTAAATGAAGAAGATAAGTGAGAGCTTACTGACTGCATCTTCTAAGAAGGGCTTGGAAGA
AGAAATAGAATCTCCTTTCGAGTTCGAGAAAAGGTCCCATCCTTC
Right flanking sequence: Indices 114794 -- 115293
TAGAAAATAGAAAATGTACATAGCAGTTCCAGCTGAAATACTTGGAATAATTCTACCACTTCTAC
TAGGAGTAGCCTTTTTAGTGCTAGCTGAACGTAAAGTAATGGCTTTTGTGCAACGTCGAAAGGGT
CCTGATGTAGTGGGATCGTTTGGATTGTTACAACCTCTAGCAGATGGTTTTAAATTGATTATAAA
AGAACCTATTTCACCAAGTAGTGCAAATTTCTCCCTTTTTAGAATGGCTCCAGTGGCTACATTTA
TGTTAAGTCTGGTCGCTCGGGCCGTTGTACCTTTTGATTATGGTATGGTATTGTCAGATCCGAAC
ATAGGGCTACTTTATTTGTTTGCCATATCTTCGCTAGGTGTTTATGGAATTATTATAGCAGGTCG
GTCTAGTAATTAGGGGGCGGCCGTTCGGTCGCCTATGATACTAGGACCAATAGGTCAAAAATGGG
TTTGTGCCGCAGGTGTTGAACGATCCACTCTACACAGGTGTGGGC
Found at i:125248 original size:14 final size:14
Alignment explanation
Indices: 125231--125258 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
125221 ACTCTACTTA
125231 TTATTACTTACTAG
1 TTATTACTTACTAG
125245 TTATTACTTACTAG
1 TTATTACTTACTAG
125259 CGCCCTTCAC
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:0.07, T:0.50
Consensus pattern (14 bp):
TTATTACTTACTAG
Left flanking sequence: Indices 124731 -- 125230
AAGCAAGGTTTTTCTCACTACTGGCAAGAAGCCTTAAGAGAAAAGCTCTTTCTAGTGGAAGAGGC
TGGGCAAGCACATCAAAGGGCCAGGTTTTTAGTAGTTCAGGGTTGCCGAGAGCCCCAGTATAGAA
CTTTTATCTGACTAGGAGCAGCTAAGCCCCTACCTATATAGTCAAGAGGGATGGAGCCCCGAAAG
AAGTAAGGCTAGTCGATTTCCAAGATTTTAGTAGCTCAGGTAGGGTTCCCGGGATTGGAGTGGGT
CTATTAGCACAGGGACAGAGCCTGTTGAGTAATCTCCTTTCCTTGGTTGAGTTCCCCGCTTTGCC
CTCCCTCTCTCTTAAGTATCTACCGCACCGGAGGGAAGTGAGAAACTGGGAGGACTAAGGCCGTT
GCGGGTGGCTTGAGAATCTAGCTAGGTCCCTTTTCCCGACAACAGATCGGAGATCTTACTTTCTC
AAGTCATACGTCTTTTGTTCAGCCAACAGTGTTCCACTCTACTTA
Right flanking sequence: Indices 125259 -- 125758
CGCCCTTCACTTCAACTCATACTACTTGACTTTCAGCTTATTCCCAAATCAAAGCTACTTGCTTA
TAAGAGAAGAGCAAGGTGCGTAGCTGGCTTGTTAAAGCATGGAAAGGTATCCAGAAAGCACAGTA
ACAGCTATAGCTAGTAAGCTAGTATACACGCATTTGCCCGATTGCTTTAACAGACGCGTTACCTC
CTGGTTCCCACCTGTCCTGTCCAAAAACTAAGGAACTCCTCTGAAAAGTCGATTTGCTAGATCAG
AACGTGAACTCTGAGAATAGGGGTATACAAGTGAACCACCTAGAATCGATCCATGACCGCTAAAC
TAAAGAAAGGAGTCCTTTACCAAGTAAGCTAGGCAACCTTACCCGCCTCAACCGATCTTAGCTCG
GACATGCCAACAGCCAATACTTACTCTTTTCCCTGGGACAGCTAATAAAAACTAATACGGCCCCT
TCTCAAAGAGACTGCCCTTAGGACTCTATTAAGTGAAGTCATTTA
Found at i:136551 original size:21 final size:22
Alignment explanation
Indices: 136527--136567 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
136517 GACGATTTGG
136527 CTAATTATA-AAGACTTCTTTA
1 CTAATTATATAAGACTTCTTTA
* *
136548 CTAATTCTATTAGACTTCTT
1 CTAATTATATAAGACTTCTT
136568 CTATTATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.32, C:0.17, G:0.05, T:0.46
Consensus pattern (22 bp):
CTAATTATATAAGACTTCTTTA
Left flanking sequence: Indices 136027 -- 136526
TGAGCTTGGAAGCAACCTGCTATCTATCGATAGGCGAGAACAGACTGCTATTGGCTGCTTCGCCT
ATCGATTCGATTATGGCCGGCTTGGAGACATCAGAGGAAGACTATCATCTCTATCCGGGTACGAT
CATAGCATAGCTTCATTCATTCGTTGAACCTTGGGGATAACCATTAGCATTGAGGTCAATCACCA
CACCACCTCTATCATACATACGACATTACACGACGCGAGAGTGCATGGCCAACACACACCTAAAG
CGCCTACGTTCCGCTTGCAGCCAATACAACCACAACCTAACTTGCACGAGATTCAACAACCGAAG
CTACTGGTAGTCCCGAGGGGACGGAATCCTCCAATAATAGTTAGCAGTACTGAACAAGCGAGTCA
TCGGTCCGGGGAAAGAAAAGGACTGCCTTTGAAAAAAGAAAAAAGGAACTCGCTTAACTCGCTAG
GCCTTCGGAACAAAGGCGATTCTGTTCATGCTTCAGACGATTTGG
Right flanking sequence: Indices 136568 -- 137067
CTATTATAAAAAGAAAGGCGAACCTTTAGGCCTGTTTAGCGCCTTTCCAAAGTAAACCTAAAAAA
ACCTTTGCTTTGGGAAGTAAGGACCGAGTGAAAAATGTAAAACGTCCGCTAACGCCCACGGGAGA
AGATCTTTTTTAGATCAGCAACGAATGTCTTGTATCTATGAAGAAAGATTTATCCCTGGGTTAAG
ACCCTGAATGCCATACCTTGCTGAAGGCGATTCACGAGAGAATCGCGCACAGTTCCCTTTGGCCG
AGATGTGAATGCCCATGATTTGCTCGGTATAGTGATGGATTTCATGGCCGACGTCTAACCGGCAC
GAATACGCTATCCTAGATGGAAACGACTTCCCCGCGGAGCATTTTCTCTTTCGTCCTCGGACGAT
CTCCTAATTGCTAGTCCGAATCAAGGGCTAAAGTCCGAACTCACGATTTGACGGAAGCTGTACGA
CTGAGCAGCGGATCTCCTGACTCGACTAAAAAAGAATGGACGCGC
Found at i:140469 original size:17 final size:18
Alignment explanation
Indices: 140438--140471 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
140428 AACTTTGTTC
140438 CTTCATCTTTCTATTTTT
1 CTTCATCTTTCTATTTTT
*
140456 CTTC-TCTTTTTATTTT
1 CTTCATCTTTCTATTTT
140472 ATATTGCGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.71
Consensus pattern (18 bp):
CTTCATCTTTCTATTTTT
Left flanking sequence: Indices 139938 -- 140437
AAGAATCCCCGGAGGGGCCGGGTAGTGGATTCATCCTGCTGCCCCCCGACGCAGCTAGGAAAGGA
ACCACTGCATGATAGAGTTCGTTCATGAACAATCTGGAAAGCACAAGAAGCAAGATAAGAATAAG
AATGTGCTTCCTTTTCAAAAAAGTCAAATCAAGCCCCCTTCTTTTTAATTGCATTTTAATTTGGA
AAGAAAGGAGGATGACAAAAACAGATATGTGAAGCGTGCCTTCACTGAACCCACTTAAAATCTTT
ACTAAATTATGACCGGCCATCATATTAGCAAATAAACGTATTCCTAAGCTGAGGAAAAGGCATGA
CCAGAAGAATTGTGTGAAATAAGTGAATTTATCCAGTTGAGGCATCTTGATTGAGAATAAAGGAT
TCCCCCCATACAGAAAGAGAGGCCTTCCTGTACGAGTAGTGAAGAACAAAACGATTTTGTTTTGT
TGGTTGTTGACCAACGGAAAGAAAGGGATTGTGTCAACTTTGTTC
Right flanking sequence: Indices 140472 -- 140971
ATATTGCGTAAGGCAAAGCGCTTTCCTTTAAGAATGTATCTGGTTCCATTTTTCTTTCGTTAGTT
AAGCCACCTTTTTCTAAAAGGGATTGTAGTAATTCTGTTTTTATACTCTTTAAAATGGCTCTCTC
ATAATGAGAAATTCTGTCTATTCTTAGCTATTTAGAAGAATAAATCAATCTTTAAAGCTTTTATT
TTTCTAAGAATTTTGCAATGTGGCTTGCTGCGAGTAGGGTTCTTTTGAATTTCTTTTAAATAAGA
ATCCAAAGTTTTTTCCTTCAGTGGAACTCCCTTTCTATAAAAGAGACATTCCCTTATCTCATACC
GCTTTTCGAAAATGCGATCTCTACGAAAATCACCTATGAGCAGCTCTTCCTCCACGCTTTTTTCG
ATGATATGTTGTTTTTCCACCATATCATCGAAGGCCATTCTATTGCTCGTTTCACTCCCCCCAAC
GAAGTGCCGCTTGAGGCGATCCTCAAGTTCGTCGTACCTTTGCCC
Found at i:148240 original size:11 final size:11
Alignment explanation
Indices: 148226--148266 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
148216 CTAAAAAGAA
148226 AAAGAAAGAAA-
1 AAAGAAA-AAAG
148237 AAAGAAAAAAG
1 AAAGAAAAAAG
148248 AAAGAAAAAAG
1 AAAGAAAAAAG
148259 AGAAGAAA
1 A-AAGAAA
148267 GGTTTGGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 3 0.11
11 19 0.68
12 6 0.21
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAG
Left flanking sequence: Indices 147726 -- 148225
CCTCTCTAGGAAGATTGTGTCCAGGATCTGGTAATCTAAAGCCTTGCTTCTTCTGGTCGGCTCGT
ATTAGCCTGTGCTTTATTACAGGTAGTCATTCCCCCGTTCCTTTAGTCTTTTCAACGGTACTTGA
ATCTTAAGTCGCGGTCATGTCTCGCCCCCCGGTATAGTGACCGGTTCCTTGTTTTACCCGAATTT
CATCAGTTCCAGGCTCAAGTGCCTGTTCATCCATCTTCATTCCAAAGGCGAGCATATCCATTGAG
TGACTGTAACTGCTATCGTTTACAGTCAATAGTTCTTAACCAACCCTTTTTAGAGCTTTATAAAG
CTTTAAGAGAGAATAGGGAGTAAGGGGGACCTTCGCTTCATTAGAAATTGGACCCGGACCTTCTT
TCTTCTCCTGCGGAGCCCTGATAAAGTAACCGGCGGCAGGTTAGTACAGTTCTCCTGCTTGCGGA
TTTTTCCCTGCGCTGATTCAGGAGCCTTCTTCTTTCTAAAAAGAA
Right flanking sequence: Indices 148267 -- 148766
GGTTTGGTTACGGGAACCAACGGTGACGAAGGTTACCTACTTTCGGTGGACGTGGAGCCAACGAG
TTCAGTCGAACAGCGTAACGAGTCTAAGGTTACAGAAGCGTTCGCCAACTTTGATAGGCATAGCA
TTGCAAGCAAATAGAGCAGAGAGCTTACCCTTTCTTTCTATTAGAGTCGTGAACTTGTTGTAGTC
GGTCCTAAAGGGAGAACCTTTCTGCTTACTTGCTATATCCCCGCGTCCTTGCGCGGCTCGGCTCG
TTCTTCGAGCCCTGCTTCCCCCTTCCCCCTCTCCCCGTTTACCGTCCAAAACAGGCCGTATGGAG
TATAGCCAAGTGGTAAGGCATCGGTTTTTGGTACCGGCATGCAAAGGTTCGAATCCTTTTACTCC
AGATTATGAACACCCGATCGGATCTGTCAAAAACGAGCTGACGACTACAGGGGAAGCGGCTGACT
GCAGTCCCTGAGCCCAGCTTGTAGCAAGCCAAAAGTTTGACTTGA
Found at i:148245 original size:18 final size:18
Alignment explanation
Indices: 148218--148259 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
148208 TCTTCTTTCT
148218 AAAAAG-AAAAAGAAAGA
1 AAAAAGAAAAAAGAAAGA
148235 AAAAAGAAAAAAGAAAGA
1 AAAAAGAAAAAAGAAAGA
148253 AAAAAGA
1 AAAAAGA
148260 GAAGAAAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAAGAAAGA
Left flanking sequence: Indices 147718 -- 148217
GGGGCTCTCCTCTCTAGGAAGATTGTGTCCAGGATCTGGTAATCTAAAGCCTTGCTTCTTCTGGT
CGGCTCGTATTAGCCTGTGCTTTATTACAGGTAGTCATTCCCCCGTTCCTTTAGTCTTTTCAACG
GTACTTGAATCTTAAGTCGCGGTCATGTCTCGCCCCCCGGTATAGTGACCGGTTCCTTGTTTTAC
CCGAATTTCATCAGTTCCAGGCTCAAGTGCCTGTTCATCCATCTTCATTCCAAAGGCGAGCATAT
CCATTGAGTGACTGTAACTGCTATCGTTTACAGTCAATAGTTCTTAACCAACCCTTTTTAGAGCT
TTATAAAGCTTTAAGAGAGAATAGGGAGTAAGGGGGACCTTCGCTTCATTAGAAATTGGACCCGG
ACCTTCTTTCTTCTCCTGCGGAGCCCTGATAAAGTAACCGGCGGCAGGTTAGTACAGTTCTCCTG
CTTGCGGATTTTTCCCTGCGCTGATTCAGGAGCCTTCTTCTTTCT
Right flanking sequence: Indices 148260 -- 148759
GAAGAAAGGTTTGGTTACGGGAACCAACGGTGACGAAGGTTACCTACTTTCGGTGGACGTGGAGC
CAACGAGTTCAGTCGAACAGCGTAACGAGTCTAAGGTTACAGAAGCGTTCGCCAACTTTGATAGG
CATAGCATTGCAAGCAAATAGAGCAGAGAGCTTACCCTTTCTTTCTATTAGAGTCGTGAACTTGT
TGTAGTCGGTCCTAAAGGGAGAACCTTTCTGCTTACTTGCTATATCCCCGCGTCCTTGCGCGGCT
CGGCTCGTTCTTCGAGCCCTGCTTCCCCCTTCCCCCTCTCCCCGTTTACCGTCCAAAACAGGCCG
TATGGAGTATAGCCAAGTGGTAAGGCATCGGTTTTTGGTACCGGCATGCAAAGGTTCGAATCCTT
TTACTCCAGATTATGAACACCCGATCGGATCTGTCAAAAACGAGCTGACGACTACAGGGGAAGCG
GCTGACTGCAGTCCCTGAGCCCAGCTTGTAGCAAGCCAAAAGTTT
Found at i:158497 original size:19 final size:19
Alignment explanation
Indices: 158460--158500 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
158450 TTTAGTAAGC
* *
158460 GTGTATAAGCAGCTGTTTA
1 GTGTATAAGCAACTCTTTA
*
158479 GTGTATAAGCAATTCTTTA
1 GTGTATAAGCAACTCTTTA
158498 GTG
1 GTG
158501 GTCGCACCGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (19 bp):
GTGTATAAGCAACTCTTTA
Left flanking sequence: Indices 157960 -- 158459
TCGCTCAGGTCAGCGAGGACTCACTCACCTACTCCTTATCTAATACTTTCTTCTATCTACTGAAT
TAAAAAGGCGACCCGCCGCGCCGGGCTATAAGATAAGATACAGTGTACTACTTGACTGGTAAGAA
AGAGCTTCCGTAAGAACTGGAAGACTCTTGTATGTACGGTAACCCTATCTTCCGCTACTGGTGGA
CTGTTGCACATAAAGGCCGACAGAAGCAACCTTTCTTAGCGCGCTTTTCAAGCGCTTAGCTTCTG
CTAGAAAAAGGCGGCAAGGCCATAAAGTAAGTGAAGTCGCAAGCCTAAGCCAAGAAGGTACGAAC
GAAGTGACGGGCCCTTTTAGAGATAGGGGGCGGCTTTCTTGTGGTAGTCATTGCGAACATCTCTC
CTCTTCTCTTAGCGTGCACAGTTTGCTTACGCCTTAGGCACATCTATCTTTCTTAGTTTCACGCT
GGCCTAATGAATTGAATATGAATAAAAGTCAGTCTTTTAGTAAGC
Right flanking sequence: Indices 158501 -- 159000
GTCGCACCGGTACGATGGAGGTTGGTTGAAGATGATGTTACGCGGCGTTCAGAACCAGTCTTGAA
GTGAATGAATTAGAAAGAACGAAGAAGTAAGGAAATGAGACGACTCTTTCTTGAACTATATTATA
AACAGACCTTCCCCTCCACACCAATCACGAGTTTTTCTCCATTCCTCTCATATATCGTCGTAACG
CCCTTAATGCTAGGTTTTGAAAAAGACTTTTCATGTCATTCCCATTTAGGTCCGATTCGGATCCC
TCCGTTGTTTCCTTTTCCTTCCGCACCTTTTCCTCGAAATGAGAAAGAAGATGGTACACTTGAAT
TGTATTATTTAAGTGCTTATTGCTTGCCAAAAATCCTACTTCTACAATTGGTAGGTCACCGGGTT
ATTCAAATAAGTCGTGTTTTCCGTGGTTTTCCCATGTTACAACTTCCGTACCAATTCGGTCGATC
CGGAATGGATCGGTTAAACATTCCATTAGGGAGCCTGGTCTTGAC
Found at i:172218 original size:15 final size:15
Alignment explanation
Indices: 172195--172228 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
172185 TGGGGCCTTT
*
172195 AGAAAAAAAAGAAAAA
1 AGAAAAAAAA-ACAAA
172211 AGAAAAAAAAACAAA
1 AGAAAAAAAAACAAA
172226 AGA
1 AGA
172229 TCTCAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (15 bp):
AGAAAAAAAAACAAA
Left flanking sequence: Indices 171695 -- 172194
CTGACCCCAAGGTGGTACGTATCCTATAAAAGCTGTCACAATCATTAATAGTAAGATTACAACTC
CGAGACACCGAACAAATTCCCTAGGACTGCTATAACTCGCATGATATAGACCACGAAAAAGATGA
AGGTAAACCACAATGAGAAACATACTTGCCCCATTAGCATGCATATAACGGAGCAACCAGCCCCC
TTCAACATCTCTCATAATGTGTTCTACGCTGTTGAAAGCTAGATCCACATGAGGTGTGTAATGCA
TAGCTAAAAAAACGCCAGTCACTATCTGAATGACTAAACAAATACCAGCTAACGGACCGAACCCC
CACCAATAACTAAGATTGCTCGGGGTTGGATAATCTATCAAATGCTGATTCAGTGTGGAGAAGAT
AGGTTGTTTAAGAATCGAGAATCGTTGGTTCCTTATAGTCACTTATTTTTCTTTTTATTTTTTAG
AAAGAGAACTTGGGTTCCCTCACCTTTTAGCGTTCTGGGGCCTTT
Right flanking sequence: Indices 172229 -- 172728
TCTCAAAATCTTTAAAGTACCCTTAGCGTAGGCCGAAAGAAAGTCAATATGAGATTTGCGTTTTT
CCAACGAAACAGTGAAAGATGCTGTTTTATCCTTATCCATGGATGGAGGGAGTGGATGGGGTCGC
ATCCGCGTATACGCCGAATTGCCTACATATCTTCTTCAAAAGAATCAGACCATTGTAGTTCAGTT
AAAAAGACGTTTTAAAAAGCAATCAAAGATAAGATCGAAGAGAATGAAACGCACGTAGTGGTCAT
TATAGCGGTTCCTTCTGATCCTAGAAAACGTCCGAAAAACCCTGCTACGGAACTACCGAGCAGGG
GCAAAAATATGATAAGTAGATACATAATTTCGAGTGTGATCAGACAACCAAAAATCAGACAATGA
CAGAGCGGCCTGTGATTCAGGATTGATCGACGCCCGAGGAACGCTCTGCCCCTTCACCTGCAAAA
GGATCCGTTACCGGAGTGCTGCGCTTCTCAGGGCCGTCTGAGTCA
Done.