Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_052880
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: 384977
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Found at i:1710 original size:14 final size:14
Alignment explanation
Indices: 1685--1718 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1675 AATCGCTCAT
1685 CCGTCC-ACGAATA
1 CCGTCCTACGAATA
1698 CCGTCCTACGAATA
1 CCGTCCTACGAATA
*
1712 CTGTCCT
1 CCGTCCT
1719 CTAGCTTCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.24
Consensus pattern (14 bp):
CCGTCCTACGAATA
Left flanking sequence: Indices 1185 -- 1684
GGATTAAAGCAAGGAAGCAAGAAAAGAGATAAGCGTTAGAGGGAGGTGGGAGGGTTCACTCTTGC
TATGCCGCACTCTCATACTTTTGAGTAAGGAATTCCCTGCAAGGCAGTTAACGGCTGTCGGATAG
GGCATCGGGAAGAACATATGGAAAAGAGAACCTGCGAGTACTATTCAGTTAGGATGTGCCCCCCT
GAAATTGTTAGATATTTGCCTTTATGACTTGTCTTCTTTTATAGGGTCTATCCGGGGATACTAAG
CCTGGAATAAGTTTCGATCTATGGCAATTTCTTTGTAGTGGCCAGTTAAAGCTATCAGATATAGG
AGAGACTACCTACTTCAAGTTCAAGGCAGGCTAGCTCAGTACACGATTCCCTTCCTTTAATGTGC
AATTCCCGTCCTTTAAATAGAGCGACTTCCCGCTCTTCTGCCTGTCATCTGTCAACTGGTAACGG
TCGCATCTGTCCAGTAACTGTCCTATAGGCGGTCCAATCGCTCAT
Right flanking sequence: Indices 1719 -- 2218
CTAGCTTCTGTTATGAGTGAATTTCTATGGCCTATTTTATCTAAAAAGAAGCCCTGTGAAAGCGT
CTGTAATGGGGAGCGGTCCATTAACGTTGCTTAATTGGCCTTAGCGTTTCGCACTAAGTAAGCAA
GCTACCTTATTTATGTGCTCTAGTCGAACAAGCAAGCCAGCCTAGCAGAGTAAGCCTTCCCTCTT
CTCTTCACTGGCTCTGATCTCATCAGACTCGTATCCAGCCTCTCTTTCCTCGGTCTCGGTGCTCG
GTCCAGGAGAAGAGAAAGACTCGGATCCAGGGAGGGAAAAATACCGGTATCCCAGCTCCATTTCA
AGCCTAAGCTCTCCCTCCGCTTCTCGATCCCCAGCTTCCGCTGCTAAGCAACCATCTTCTCTCTC
TTCGTCTCCCACTCCTTCTCCCATCACTGGGTATTGGACACCAAGAGGCGGGTACTGAACCCCGA
GAGTGAAGGCGATTCGCCGAAACCACAAGTGTTATCACGTATCTA
Found at i:18948 original size:39 final size:39
Alignment explanation
Indices: 18886--18964 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
18876 CGATTTTCTA
* * *
18886 TTCATTCATGATCTGGCCTGGTCGACCCGATCATGATAT
1 TTCACTCATGATCTGGCCCGGTCGACCCAATCATGATAT
18925 TTCACTCATGATCTGGCCCGGTCGACCCAATCATGATAT
1 TTCACTCATGATCTGGCCCGGTCGACCCAATCATGATAT
18964 T
1 T
18965 GAAGGATGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.32
Consensus pattern (39 bp):
TTCACTCATGATCTGGCCCGGTCGACCCAATCATGATAT
Left flanking sequence: Indices 18386 -- 18885
GCCCACACCTGTGTAGAGTAGATCGTTCAACACCTGCGGCACAAACCCATTTTTGACCTATTGGT
CCTAGTATCATAGGCGACCGAACGGCCGCCCCCTAATTACTAGACCAACCTGCTATAATAATTCC
ATAAACACCTAGCGAAGATATGGCAAACAAATAAAGTAGCCCTATGTTCGAATCTGACAATACCA
TACCATAATCAAAAGGTACAACGGCCCGAGCAACCAGACTTAACATAAATGTAGTCACTGGAGCC
ATTCTAAAAAGGGAGAAATTAGCACTACTTGGTGAAATAGGTTCTTTTAGAATCAATTTCAAACC
ATCTGCTAGAGGTTGTAACAATCCGAACGATCCCACTACATCAGGACCCTTTCGACGTTGCACAA
AAGCCATTACTTTACGTTCAGCTAGCACTAAAAAGGCTACTCCTAGTAGAAGTGGTAGAATTATT
CCAAGTATTTCGGCTGGAACTGCTATGTACGTTTTCGATTTTCTA
Right flanking sequence: Indices 18965 -- 19464
GAAGGATGGGACCTTTTCTCGAAAAACTCCGGATCCAGAGAAGAGTTGAAGATGGTGCAACATCG
AATCCTGTCACCTTACTTCGAATGGAATCTTAGCCCGCCTCACTTGCTTTCTGTACTGCATAAGG
GCCATAAGGGCATAAGCGAAGTCAAGGGATTTCCTTCTAACTAGTGGCTGAGAGTAAGCAAGCTA
CCTTCATTCAACAGATTTGTGGTTGAGTCAATAACATGCTCTGGGTCGGGAATCTTTGCTCTTCT
CTTTTGCATTTCCGCTGCCTGCGTTCTTCTTCGTGTCCGTCCGTATCGCAAAGCTGGTCGACGCC
AGCTGTAATGGTTGAAAATAGGGGGCCAACCAAGACCCTACCCTAATAAAGCTTTGTTCGATAAA
GCAAACGATTCGTTCCGACAACTTCGGACCAGATTAACCCTTTTGAATTAGCCGATCTTACAAAA
TGGATCGGGCGGGCTGGTTGGGAAGGGGTGATTTGCGGAGAAAAG
Found at i:55302 original size:13 final size:13
Alignment explanation
Indices: 55284--55309 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55274 CCCCGCCCTA
55284 TAGAATGAATAAG
1 TAGAATGAATAAG
55297 TAGAATGAATAAG
1 TAGAATGAATAAG
55310 GAGAGGCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (13 bp):
TAGAATGAATAAG
Left flanking sequence: Indices 54784 -- 55283
TGTCCAGCGGTGTTGTCCACCAGAACATCGATGTGCGGAAGAGAAAAAGAATCTTTTCGGCTTGC
CTTGTTTAGGGTCTTTTGACTCACGGAACCTGCTTTATGAGGGAAAAACCGTTCTCGAAAAGCGT
GACCATCCCGTTGAATCTCGTTACCCTCCCGTGTGGTTATGGGGGCGCGCCCGCTTTCCACTATT
ATGGAGCCGGGCCGCAAGCAAGTGAATGCGATCCCGCCCTCCATCAGCCGGTGTGTGTGAGCTTC
GCTCCTTATAGCTCTACACCGCCGCCGGCCACTTTAGCTCCTCTACCATATGATTCATTCTTTGG
AAGTTAGGCACGTGACTCGATAGCGCAGGCACAAGACCTTTGAATGCAAACAAAGAATGGCGAGA
CCGCATATAGTTTGGAACCCAAGCTTACCTTATTATTATTCAAAGGGGAAGGTTTGATAAAGGAG
CTTTTAAGCCCTTTTGCTGAATTGTTGGTCCGCAGCCCCGCCCTA
Right flanking sequence: Indices 55310 -- 55809
GAGAGGCCTGTTGATGACCGAGCCACTCTTATACTACTCCTTACCTCACCCCCCCCCCTTGTCAC
TTAAAGGGCGAAGTCGCTGAAGCGAGTCTAAAGGCCAAAGAGTGATCTTTGAACGCTACTACGCA
TCCTTACTAATAGTATAGTGTAAGGTAGGTTTGGGTATAGCAGGACTTGAACCTGCGACCATTAG
GTTAAAAGCCCAATGCTCTACCAACTGAGCTATACACCCCCAAAATATATAGTAAAAAATAAGGA
TTGGTGCGGAAAAAAAAGGGGGCAGCCGCGGTCGAACTCTAATTCTGGAAAAAAGTCGGGGCCCC
TTTTCCAAGTCTACCAGATAGAAGATGATAGAGGGCCATATCGTTGCGTTGGACAAGACGGCGCC
GTCTCACTTCGAGTTCCTTCCTTCGTAGTAAAATCAGATGATACGCTTCGGCGATGTTACCTACC
AAATTTTAGGCCTGCTAGGTGATCGAAATTGCTCAGGTCAGTGAG
Found at i:79887 original size:22 final size:22
Alignment explanation
Indices: 79859--79912 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
79849 CAACTCGACC
*
79859 GTAGGGA-GAGGGAGAAGCTAGT
1 GTAGGGACGAGGGAG-ACCTAGT
*
79881 GTAGGGACGAGGGTGACCTAGT
1 GTAGGGACGAGGGAGACCTAGT
79903 GTA-GGACGAG
1 GTAGGGACGAG
79913 AGTAACCTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 7 0.24
22 16 0.55
23 6 0.21
ACGTcount: A:0.28, C:0.09, G:0.48, T:0.15
Consensus pattern (22 bp):
GTAGGGACGAGGGAGACCTAGT
Left flanking sequence: Indices 79359 -- 79858
CCCGGCTTTCCGGTAAGGATTTCTCTTCCTTAGCGTTCACATTAAACAATTAAACCTATTCCTAA
AGTGGAAGGCTTCGATCCGTATAGCGCGGGATGATGGATATCTTGAGTTAATAGAGCCAACCAAA
GCTTGCTTACTTAGTGTGTAAAGATTACAGCTCCGGAAGATACCGGGCATCTGTGAAAGCGTCTG
CACTCTCCTCATTCTACTCAGAAGGAGCTCCAATTCCTATTGGTTTTGGCAGAGGCAAGAAAGAA
AGAAGCTAGGCTTCACCCAATCTTCCAATCAAAATCTTACGCCGAGAGGGCAAAAAGCTATAGGG
AAATCGATCGATAGGATTGCATCCCTGGCCATAAACCGTAGAAACGTCCAGAAATGGTCATACAA
TCAATTTAGCTATCTGGACCTAGCTCGATATCAGTAGAAGATAGAGCCGCTAGCTCGACTGGGGA
TGGTTACGTGCTTGTCTGAGAGGAAATGGGCGGGGCAACTCGACC
Right flanking sequence: Indices 79913 -- 80412
AGTAACCTCCCCTTTTCTTCGTAACGAGTGTTCCCCGAGCAGCGGAGCATTTATGAGTGGATGTA
GCTGTGATAGCTTAGAGTTTCACTGATTGGTATGCCAAAAGACTTTTTATAATATCTTATAAAAA
GAGAGTTACTAAGAGTATTGCTAGAAATTATACGTAAGATAATAGAAGTCAAACTCTTTTGCAGC
TCTGGAGAAGGGGTAGCAAGTCGGAGACTCCCATGGATTGATCTATAACAACTACTGTGCCCGAA
GCGCCTGCATTTAGACCGGTCGCAGTTTAAGGTGAAGGTTCAATTGATCTTGCCTTGTAGGTAGG
CAGCGCCTCGAGAAAGACCATAAACATAAAAAAGAGGAACTCAAGCAGAGGCTGAAAGGCCCTTT
CTCTTTCCTTACCGTCTAGCGATACCATTTACATTTGTAGGAATGCATGGGACTACTTTCTATAA
AGCACTTTAGGTGGCTCTACTACTTCCATAGGCGGCCGGAGGAGC
Found at i:79920 original size:21 final size:22
Alignment explanation
Indices: 79876--79920 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
79866 GAGGGAGAAG
* *
79876 CTAGTGTAGGGACGAGGGTGAC
1 CTAGTGTAGGGACGAGAGTAAC
79898 CTAGTGTA-GGACGAGAGTAAC
1 CTAGTGTAGGGACGAGAGTAAC
79919 CT
1 CT
79921 CCCCTTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.27, C:0.16, G:0.38, T:0.20
Consensus pattern (22 bp):
CTAGTGTAGGGACGAGAGTAAC
Left flanking sequence: Indices 79376 -- 79875
GATTTCTCTTCCTTAGCGTTCACATTAAACAATTAAACCTATTCCTAAAGTGGAAGGCTTCGATC
CGTATAGCGCGGGATGATGGATATCTTGAGTTAATAGAGCCAACCAAAGCTTGCTTACTTAGTGT
GTAAAGATTACAGCTCCGGAAGATACCGGGCATCTGTGAAAGCGTCTGCACTCTCCTCATTCTAC
TCAGAAGGAGCTCCAATTCCTATTGGTTTTGGCAGAGGCAAGAAAGAAAGAAGCTAGGCTTCACC
CAATCTTCCAATCAAAATCTTACGCCGAGAGGGCAAAAAGCTATAGGGAAATCGATCGATAGGAT
TGCATCCCTGGCCATAAACCGTAGAAACGTCCAGAAATGGTCATACAATCAATTTAGCTATCTGG
ACCTAGCTCGATATCAGTAGAAGATAGAGCCGCTAGCTCGACTGGGGATGGTTACGTGCTTGTCT
GAGAGGAAATGGGCGGGGCAACTCGACCGTAGGGAGAGGGAGAAG
Right flanking sequence: Indices 79921 -- 80420
CCCCTTTTCTTCGTAACGAGTGTTCCCCGAGCAGCGGAGCATTTATGAGTGGATGTAGCTGTGAT
AGCTTAGAGTTTCACTGATTGGTATGCCAAAAGACTTTTTATAATATCTTATAAAAAGAGAGTTA
CTAAGAGTATTGCTAGAAATTATACGTAAGATAATAGAAGTCAAACTCTTTTGCAGCTCTGGAGA
AGGGGTAGCAAGTCGGAGACTCCCATGGATTGATCTATAACAACTACTGTGCCCGAAGCGCCTGC
ATTTAGACCGGTCGCAGTTTAAGGTGAAGGTTCAATTGATCTTGCCTTGTAGGTAGGCAGCGCCT
CGAGAAAGACCATAAACATAAAAAAGAGGAACTCAAGCAGAGGCTGAAAGGCCCTTTCTCTTTCC
TTACCGTCTAGCGATACCATTTACATTTGTAGGAATGCATGGGACTACTTTCTATAAAGCACTTT
AGGTGGCTCTACTACTTCCATAGGCGGCCGGAGGAGCTGAATAGG
Found at i:103740 original size:15 final size:15
Alignment explanation
Indices: 103720--103759 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 15
103710 AAGGCTAGGG
103720 AAGGCTAGGGCATAA
1 AAGGCTAGGGCATAA
103735 AAGGCTAGTAGGGCATAA
1 AAGGC---TAGGGCATAA
103753 AAGGCTA
1 AAGGCTA
103760 ACAGCTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.32
18 15 0.68
ACGTcount: A:0.40, C:0.12, G:0.33, T:0.15
Consensus pattern (15 bp):
AAGGCTAGGGCATAA
Left flanking sequence: Indices 103220 -- 103719
GTGAAGCTTTCGGAGCGTAGTGAGGTGAGCCAGTGCCTGTTGGTGGTCAAGTCCCAGTGGAAGTG
GAAGTTGTTGGGCGTTCAGGTTGCAAAGGAAGTTGGTGGGCTAACGGTGGTCCAGGTAAGGTAGG
TGGGGAAGGCTCGCCACGAGATCGACCGATAGCTTTGACCCAACCCCGGAAGCGGAAGTGCCAGA
GAGACGATCTTTGTGAGGCAGAGTGACATTCCAAGGTCAGGTATAAGGTGCTACGGGAACGATGT
CTCAAAGGTCAGTGCCAAGGGCTCAACGCGGAAGCAATCCGCTGCTCACAGGGACCGTGCGGGCT
GACGCTCTTCTCTCTCAGGCAAAGAAATGTGATTTTAACTTTCGCTGGTTCAAGGTAGGCTGCTT
AAGCAGAGGTTGTTGTTGTTGTTGGCGTGAGTGAAGGCGTTCCTTCCGGTGGGCATGACGAAGCT
AAGCTGGAACTAATTACGAAAGCATAATCGTTTTCAAGGCTAGGG
Right flanking sequence: Indices 103760 -- 104259
ACAGCTTTTCCGAGTCAAAAGCGGCTAAAAACACTCAGCCATAAGTTCCGGTTTCACCACAGTAC
AGGGCTAAATAAAGGGGCTCAAGGTTGGCATGACGAAGCGTCGGGCATCAAAGCTACCGGTTTCA
AAGTTCAGTTCTAACGGGCGTTCGGAAAGGCTTGAAATCGTAACGTACAGGTAGACTTTGCCAAG
GCAAGGAAAGTAGTAAGAAAGATATCGATGGAGCGGGCAGAACCTCGAGTAAGACAACCAACCCT
GGAGGCCATGGCTTGGCTTTATCCCGTAGGTAGTAAGAACAGAGAGAGCCTTCTGTGCTAGCAAT
ACAGAGAGGTGGGGATTGAATGAGGCGAGCGCTGACTGCAGCAAGACCACCAGACCCTAAAAAGA
ATAATAACAACGTTCAGCAAGCCGAAGCCAGCCAGACAGGCACCACCAGATACAGGGCGGGCAGT
TACTCCACCGAATCAGAGGGCAGATACCCGGACCAAAAGGAGTGA
Found at i:103748 original size:18 final size:18
Alignment explanation
Indices: 103725--103759 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
103715 TAGGGAAGGC
103725 TAGGGCATAAAAGGCTAG
1 TAGGGCATAAAAGGCTAG
103743 TAGGGCATAAAAGGCTA
1 TAGGGCATAAAAGGCTA
103760 ACAGCTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.31, T:0.17
Consensus pattern (18 bp):
TAGGGCATAAAAGGCTAG
Left flanking sequence: Indices 103225 -- 103724
GCTTTCGGAGCGTAGTGAGGTGAGCCAGTGCCTGTTGGTGGTCAAGTCCCAGTGGAAGTGGAAGT
TGTTGGGCGTTCAGGTTGCAAAGGAAGTTGGTGGGCTAACGGTGGTCCAGGTAAGGTAGGTGGGG
AAGGCTCGCCACGAGATCGACCGATAGCTTTGACCCAACCCCGGAAGCGGAAGTGCCAGAGAGAC
GATCTTTGTGAGGCAGAGTGACATTCCAAGGTCAGGTATAAGGTGCTACGGGAACGATGTCTCAA
AGGTCAGTGCCAAGGGCTCAACGCGGAAGCAATCCGCTGCTCACAGGGACCGTGCGGGCTGACGC
TCTTCTCTCTCAGGCAAAGAAATGTGATTTTAACTTTCGCTGGTTCAAGGTAGGCTGCTTAAGCA
GAGGTTGTTGTTGTTGTTGGCGTGAGTGAAGGCGTTCCTTCCGGTGGGCATGACGAAGCTAAGCT
GGAACTAATTACGAAAGCATAATCGTTTTCAAGGCTAGGGAAGGC
Right flanking sequence: Indices 103760 -- 104259
ACAGCTTTTCCGAGTCAAAAGCGGCTAAAAACACTCAGCCATAAGTTCCGGTTTCACCACAGTAC
AGGGCTAAATAAAGGGGCTCAAGGTTGGCATGACGAAGCGTCGGGCATCAAAGCTACCGGTTTCA
AAGTTCAGTTCTAACGGGCGTTCGGAAAGGCTTGAAATCGTAACGTACAGGTAGACTTTGCCAAG
GCAAGGAAAGTAGTAAGAAAGATATCGATGGAGCGGGCAGAACCTCGAGTAAGACAACCAACCCT
GGAGGCCATGGCTTGGCTTTATCCCGTAGGTAGTAAGAACAGAGAGAGCCTTCTGTGCTAGCAAT
ACAGAGAGGTGGGGATTGAATGAGGCGAGCGCTGACTGCAGCAAGACCACCAGACCCTAAAAAGA
ATAATAACAACGTTCAGCAAGCCGAAGCCAGCCAGACAGGCACCACCAGATACAGGGCGGGCAGT
TACTCCACCGAATCAGAGGGCAGATACCCGGACCAAAAGGAGTGA
Found at i:114712 original size:20 final size:20
Alignment explanation
Indices: 114678--114715 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
114668 CTCATAGCTG
114678 CTAGCAACTCCTAGCTACAA
1 CTAGCAACTCCTAGCTACAA
114698 CTAG-AACTCCTTAGCTAC
1 CTAGCAACTCC-TAGCTAC
114716 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 114178 -- 114677
TCCTGGCTACTCCACCCGGATGGGTGCCACAAACACAGCTTGTACTGGCTAAACATCTCCTATCT
TTCCATTTGAAGGAGTCTATCCCACTGCTTAAGTATGACAAATGTCTGACACTACTATATCGGAC
GTAAAGTCTTGCCCGGCCTCACTGAGTGGATCTGGTGCCCACACCGTAGCTAGTCCTCTTAGCTT
TATTGGAGCAGGTGCCCAAGCTTCTTTGGCTAAAGCACATCTCCTGTCTGAACCCTTGACCTATT
TGAAAGACAAATGCACAAACCCAAATTGAAGAAAGAGATGCTCGAGTCTCTTACGCCATCCTAGG
CGGTTCTCCCGTAGCGTCTCCGCCGGCGACTTTCTAAGGTTCAGGGTTGTCTGCCTATCCTAGGT
GACCATCTTCGTCTACTACAACGAGGGGTGTGTGCCATAGAGTGTGGTACAGGTGTCACCAGTCC
CAGACAGATTTGTTTATGATCTCGTCAACTCGGAACTCATAGCTG
Right flanking sequence: Indices 114716 -- 115215
TAAAACAAGAGCTCTTTCACTCGGGCGACTTTTCTTATTGGGCAAGTTGCCACCCGTTGTTCAAT
ACCCTAACTATAGTAAGTAGCTTAATCTGTCGAGAAGAACCATCCCTACCGGATCGGACATGTAA
CCAGTCTTCTCCGCTTGAGAGGGAAAGACGGCTGCTCTGTGAACAAAACAACCCTAGTTGCTGGT
CCTGCTCCTGCTGCTGTCTGAACTGCCACCTCTGCTCCAATACATAAAGCAGCTCCAGCTTGAAG
CTATTGTAGCAGCTCTGTCCCATTCATCACTGCTTTCTGTTAAAAAGAAAAGAGCTGCTCCTCTC
CGATCTAAGTCCTCTCTCTAGTCAGAAATTGCGTAAGTTAATCAGGATGGATCGACAGGCTTTCC
AAACCTACAGGTCTCTTCCTCGGACCTAGCATTGCTGCCTGGCCCATCACTTCTTCTTTTCTTGA
CTTCGATGATTTGCCTGCAGGAGGATCATCGAAGGTTGGAGAAAA
Found at i:170928 original size:18 final size:18
Alignment explanation
Indices: 170907--170943 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
170897 AATAGAATTA
*
170907 CAACTCGAAAAGGAAAAG
1 CAACTAGAAAAGGAAAAG
170925 CAACTAGAAAAGGAAAAG
1 CAACTAGAAAAGGAAAAG
170943 C
1 C
170944 TATTAAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.57, C:0.16, G:0.22, T:0.05
Consensus pattern (18 bp):
CAACTAGAAAAGGAAAAG
Left flanking sequence: Indices 170407 -- 170906
CTGTCTCAACCCTGACTGACGACTAGCTTTACTTGATAGAGTTGCCTTCCATGCCCGGTTAAGTT
CGCCCTTAGGGGAAAAAGCCTTTCCTTGCCTTACCGGACAGTAAGAATTTAATTGCCTTGAAAAC
AAAACAGAAGTACTACTTTGGATACGCTATGATTCGCATCTCTCATTAAACTTTTATAATACAAT
CTATGTCCTACTCTTTTAGTTTTAGCTTTCTTCATTGAGTAAAAGGAAATTAGCCTTTCAAACAG
AAGGCATATGATAGCTCATTCCCGGACTTATTTATATCGTAAGAGAGAGAGAGAACCTCCTATGC
CCAAAGACTCCCATGCTTTCCGTTGGTCAACAACCAACCACAACTCACTATAATTCTTCACTACT
CGTACAGGAAGGTAAGAAAAACTTGCTTTTCTGGAGGGAATCAAAATGACGTAAATCCCAATTTT
ATGACCCAGGAACAGATTTTGCTATTACAAGTAGAAATAGAATTA
Right flanking sequence: Indices 170944 -- 171443
TATTAAAACTAGAAAAGCTATTAAAATTACAACTAGAAAAGGAATTAAAAGTAGAAATAGAATTA
CAACTCGAAAAGGAAAAGCTATTAAAATTACAAGTAGAAAAGGAAAAGCTATTAAAATCGCTTGA
GTCGCTGCCTTGTGAAAGAAAACATCATATGTAAGTAAGTAGCATCTCGAATAGAAATATCCCTT
CCAAATATCTAATATAAAGTTAGATTTCTATTCAAAAATAATAAATAGAAATTGCGTAGCGTAAG
AGAAGAAAATGCCCAAAAGTCCCATGTTTTTCTTGGTTGGAAAAGCCCAACCGGCGACTTCCGTC
TTCCTGAATTGGGAGAGCAAGAACAAGTCTCTCTTCTTTTTTTTGGGGGGGGGCGGAGCAGTTAA
AGAATGAACCAACCCAAATGATTGTTCTAGAATGGCTATTCCTCACAATTGTTCCTTGTGATGCA
GCGGAACCATGGCAATTAGGATTTCAAGACGCAGCAACACCTATG
Found at i:170972 original size:24 final size:24
Alignment explanation
Indices: 170945--170993 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
170935 AGGAAAAGCT
*
170945 ATTAAAACTAGAAAAGCTATTAAA
1 ATTAAAACTAGAAAAGCAATTAAA
* *
170969 ATTACAACTAGAAAAGGAATTAAA
1 ATTAAAACTAGAAAAGCAATTAAA
170993 A
1 A
170994 GTAGAAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.59, C:0.08, G:0.10, T:0.22
Consensus pattern (24 bp):
ATTAAAACTAGAAAAGCAATTAAA
Left flanking sequence: Indices 170445 -- 170944
GAGTTGCCTTCCATGCCCGGTTAAGTTCGCCCTTAGGGGAAAAAGCCTTTCCTTGCCTTACCGGA
CAGTAAGAATTTAATTGCCTTGAAAACAAAACAGAAGTACTACTTTGGATACGCTATGATTCGCA
TCTCTCATTAAACTTTTATAATACAATCTATGTCCTACTCTTTTAGTTTTAGCTTTCTTCATTGA
GTAAAAGGAAATTAGCCTTTCAAACAGAAGGCATATGATAGCTCATTCCCGGACTTATTTATATC
GTAAGAGAGAGAGAGAACCTCCTATGCCCAAAGACTCCCATGCTTTCCGTTGGTCAACAACCAAC
CACAACTCACTATAATTCTTCACTACTCGTACAGGAAGGTAAGAAAAACTTGCTTTTCTGGAGGG
AATCAAAATGACGTAAATCCCAATTTTATGACCCAGGAACAGATTTTGCTATTACAAGTAGAAAT
AGAATTACAACTCGAAAAGGAAAAGCAACTAGAAAAGGAAAAGCT
Right flanking sequence: Indices 170994 -- 171493
GTAGAAATAGAATTACAACTCGAAAAGGAAAAGCTATTAAAATTACAAGTAGAAAAGGAAAAGCT
ATTAAAATCGCTTGAGTCGCTGCCTTGTGAAAGAAAACATCATATGTAAGTAAGTAGCATCTCGA
ATAGAAATATCCCTTCCAAATATCTAATATAAAGTTAGATTTCTATTCAAAAATAATAAATAGAA
ATTGCGTAGCGTAAGAGAAGAAAATGCCCAAAAGTCCCATGTTTTTCTTGGTTGGAAAAGCCCAA
CCGGCGACTTCCGTCTTCCTGAATTGGGAGAGCAAGAACAAGTCTCTCTTCTTTTTTTTGGGGGG
GGGCGGAGCAGTTAAAGAATGAACCAACCCAAATGATTGTTCTAGAATGGCTATTCCTCACAATT
GTTCCTTGTGATGCAGCGGAACCATGGCAATTAGGATTTCAAGACGCAGCAACACCTATGATGCA
AGGAATAATGGACTTACATCACGATATCTTTTTCTTCCTCATTCT
Found at i:170998 original size:18 final size:18
Alignment explanation
Indices: 170968--171023 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
170958 AAGCTATTAA
*
170968 AATTACAACTAGAAAAGG
1 AATTAAAACTAGAAAAGG
*
170986 AATTAAAAGTAGAAATA-G
1 AATTAAAACTAGAAA-AGG
* *
171004 AATTACAACTCGAAAAGG
1 AATTAAAACTAGAAAAGG
171022 AA
1 AA
171024 AAGCTATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 1 0.03
18 29 0.94
19 1 0.03
ACGTcount: A:0.57, C:0.09, G:0.16, T:0.18
Consensus pattern (18 bp):
AATTAAAACTAGAAAAGG
Left flanking sequence: Indices 170468 -- 170967
AGTTCGCCCTTAGGGGAAAAAGCCTTTCCTTGCCTTACCGGACAGTAAGAATTTAATTGCCTTGA
AAACAAAACAGAAGTACTACTTTGGATACGCTATGATTCGCATCTCTCATTAAACTTTTATAATA
CAATCTATGTCCTACTCTTTTAGTTTTAGCTTTCTTCATTGAGTAAAAGGAAATTAGCCTTTCAA
ACAGAAGGCATATGATAGCTCATTCCCGGACTTATTTATATCGTAAGAGAGAGAGAGAACCTCCT
ATGCCCAAAGACTCCCATGCTTTCCGTTGGTCAACAACCAACCACAACTCACTATAATTCTTCAC
TACTCGTACAGGAAGGTAAGAAAAACTTGCTTTTCTGGAGGGAATCAAAATGACGTAAATCCCAA
TTTTATGACCCAGGAACAGATTTTGCTATTACAAGTAGAAATAGAATTACAACTCGAAAAGGAAA
AGCAACTAGAAAAGGAAAAGCTATTAAAACTAGAAAAGCTATTAA
Right flanking sequence: Indices 171024 -- 171523
AAGCTATTAAAATTACAAGTAGAAAAGGAAAAGCTATTAAAATCGCTTGAGTCGCTGCCTTGTGA
AAGAAAACATCATATGTAAGTAAGTAGCATCTCGAATAGAAATATCCCTTCCAAATATCTAATAT
AAAGTTAGATTTCTATTCAAAAATAATAAATAGAAATTGCGTAGCGTAAGAGAAGAAAATGCCCA
AAAGTCCCATGTTTTTCTTGGTTGGAAAAGCCCAACCGGCGACTTCCGTCTTCCTGAATTGGGAG
AGCAAGAACAAGTCTCTCTTCTTTTTTTTGGGGGGGGGCGGAGCAGTTAAAGAATGAACCAACCC
AAATGATTGTTCTAGAATGGCTATTCCTCACAATTGTTCCTTGTGATGCAGCGGAACCATGGCAA
TTAGGATTTCAAGACGCAGCAACACCTATGATGCAAGGAATAATGGACTTACATCACGATATCTT
TTTCTTCCTCATTCTGATTTTGGTTTTCGTATCACGGATCTTGGT
Found at i:171004 original size:24 final size:24
Alignment explanation
Indices: 170953--171005 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
170943 CTATTAAAAC
* * *
170953 TAGAAAAGCTATTAAAATTACAAC
1 TAGAAAAGCAATTAAAAGTACAAA
* *
170977 TAGAAAAGGAATTAAAAGTAGAAA
1 TAGAAAAGCAATTAAAAGTACAAA
171001 TAGAA
1 TAGAA
171006 TTACAACTCG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.06, G:0.15, T:0.21
Consensus pattern (24 bp):
TAGAAAAGCAATTAAAAGTACAAA
Left flanking sequence: Indices 170453 -- 170952
TTCCATGCCCGGTTAAGTTCGCCCTTAGGGGAAAAAGCCTTTCCTTGCCTTACCGGACAGTAAGA
ATTTAATTGCCTTGAAAACAAAACAGAAGTACTACTTTGGATACGCTATGATTCGCATCTCTCAT
TAAACTTTTATAATACAATCTATGTCCTACTCTTTTAGTTTTAGCTTTCTTCATTGAGTAAAAGG
AAATTAGCCTTTCAAACAGAAGGCATATGATAGCTCATTCCCGGACTTATTTATATCGTAAGAGA
GAGAGAGAACCTCCTATGCCCAAAGACTCCCATGCTTTCCGTTGGTCAACAACCAACCACAACTC
ACTATAATTCTTCACTACTCGTACAGGAAGGTAAGAAAAACTTGCTTTTCTGGAGGGAATCAAAA
TGACGTAAATCCCAATTTTATGACCCAGGAACAGATTTTGCTATTACAAGTAGAAATAGAATTAC
AACTCGAAAAGGAAAAGCAACTAGAAAAGGAAAAGCTATTAAAAC
Right flanking sequence: Indices 171006 -- 171505
TTACAACTCGAAAAGGAAAAGCTATTAAAATTACAAGTAGAAAAGGAAAAGCTATTAAAATCGCT
TGAGTCGCTGCCTTGTGAAAGAAAACATCATATGTAAGTAAGTAGCATCTCGAATAGAAATATCC
CTTCCAAATATCTAATATAAAGTTAGATTTCTATTCAAAAATAATAAATAGAAATTGCGTAGCGT
AAGAGAAGAAAATGCCCAAAAGTCCCATGTTTTTCTTGGTTGGAAAAGCCCAACCGGCGACTTCC
GTCTTCCTGAATTGGGAGAGCAAGAACAAGTCTCTCTTCTTTTTTTTGGGGGGGGGCGGAGCAGT
TAAAGAATGAACCAACCCAAATGATTGTTCTAGAATGGCTATTCCTCACAATTGTTCCTTGTGAT
GCAGCGGAACCATGGCAATTAGGATTTCAAGACGCAGCAACACCTATGATGCAAGGAATAATGGA
CTTACATCACGATATCTTTTTCTTCCTCATTCTGATTTTGGTTTT
Found at i:171038 original size:30 final size:30
Alignment explanation
Indices: 170955--171066 Score: 118
Period size: 30 Copynumber: 3.5 Consensus size: 30
170945 ATTAAAACTA
170955 GAAAAGCTATTAAAATTACAACTAGAAAAG
1 GAAAAGCTATTAAAATTACAACTAGAAAAG
* * *
170985 GAATTAAAAG-TAGAAATAGAATTACAACTCGAAAAG
1 G----AAAAGCT---ATTAAAATTACAACTAGAAAAG
*
171021 GAAAAGCTATTAAAATTACAAGTAGAAAAG
1 GAAAAGCTATTAAAATTACAACTAGAAAAG
171051 GAAAAGCTATTAAAAT
1 GAAAAGCTATTAAAAT
171067 CGCTTGAGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
30 35 0.52
32 5 0.07
33 2 0.03
34 5 0.07
36 20 0.30
ACGTcount: A:0.56, C:0.08, G:0.15, T:0.21
Consensus pattern (30 bp):
GAAAAGCTATTAAAATTACAACTAGAAAAG
Left flanking sequence: Indices 170455 -- 170954
CCATGCCCGGTTAAGTTCGCCCTTAGGGGAAAAAGCCTTTCCTTGCCTTACCGGACAGTAAGAAT
TTAATTGCCTTGAAAACAAAACAGAAGTACTACTTTGGATACGCTATGATTCGCATCTCTCATTA
AACTTTTATAATACAATCTATGTCCTACTCTTTTAGTTTTAGCTTTCTTCATTGAGTAAAAGGAA
ATTAGCCTTTCAAACAGAAGGCATATGATAGCTCATTCCCGGACTTATTTATATCGTAAGAGAGA
GAGAGAACCTCCTATGCCCAAAGACTCCCATGCTTTCCGTTGGTCAACAACCAACCACAACTCAC
TATAATTCTTCACTACTCGTACAGGAAGGTAAGAAAAACTTGCTTTTCTGGAGGGAATCAAAATG
ACGTAAATCCCAATTTTATGACCCAGGAACAGATTTTGCTATTACAAGTAGAAATAGAATTACAA
CTCGAAAAGGAAAAGCAACTAGAAAAGGAAAAGCTATTAAAACTA
Right flanking sequence: Indices 171067 -- 171566
CGCTTGAGTCGCTGCCTTGTGAAAGAAAACATCATATGTAAGTAAGTAGCATCTCGAATAGAAAT
ATCCCTTCCAAATATCTAATATAAAGTTAGATTTCTATTCAAAAATAATAAATAGAAATTGCGTA
GCGTAAGAGAAGAAAATGCCCAAAAGTCCCATGTTTTTCTTGGTTGGAAAAGCCCAACCGGCGAC
TTCCGTCTTCCTGAATTGGGAGAGCAAGAACAAGTCTCTCTTCTTTTTTTTGGGGGGGGGCGGAG
CAGTTAAAGAATGAACCAACCCAAATGATTGTTCTAGAATGGCTATTCCTCACAATTGTTCCTTG
TGATGCAGCGGAACCATGGCAATTAGGATTTCAAGACGCAGCAACACCTATGATGCAAGGAATAA
TGGACTTACATCACGATATCTTTTTCTTCCTCATTCTGATTTTGGTTTTCGTATCACGGATCTTG
GTTCGCGCTTTATGGCATTTCCACTATAAAAAAAATCCAATCCCG
Found at i:202725 original size:24 final size:24
Alignment explanation
Indices: 202698--202750 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
202688 AAGAGCTCCG
*
202698 GCGGGTCGGGGAAGAACAAATCGC
1 GCGGATCGGGGAAGAACAAATCGC
202722 GCGGATCGGGGAAGAACAAATCGC
1 GCGGATCGGGGAAGAACAAATCGC
202746 GCGGA
1 GCGGA
202751 CCGACGCCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.30, C:0.21, G:0.42, T:0.08
Consensus pattern (24 bp):
GCGGATCGGGGAAGAACAAATCGC
Left flanking sequence: Indices 202198 -- 202697
ATAGTCAAGATGGGTGGAGTAGGGCTGGTCTAAGACAAGACAGACCGATCTCTATTCTCCTGCTC
GCGTTTACAAGGTTTCCCACTCACTCTATTGAGTTACAGCCCTTGTTGGGTTCTGCAAGGAAGCA
TCTCGATAGGTCCGCAACCTGTGCTGTGGTTGATGCCCCGCCCGAGCTCTAATTCCATACTCGAT
TTGCCGGTTCTTCGTCCGAGCGCCCTGAATGAATAATAAATGGACAGCATAGGTAATCAATGATT
CTTATTCAACCGAGTTGAAGCTAGCAACATGTCGATTACACACCGGAGGTTGGTAAGAACTGGGG
TAAATGCCTTCTTAGCAATTGAATCAACTCCTGGTGATGAAGAAGAAGAAGGCGCTGTTAGGAAG
GGAATGATTGCACTAGTCCCACTGGAGGAAATTCGTCGGCTAAACCGGGAGAGCGCGGCGCTCCA
GAGAGTGCTATTCGACGAGCTCGAGAGGGTCGAAGAAGAGCTCCG
Right flanking sequence: Indices 202751 -- 203250
CCGACGCCTTGATCTAGCCAAAGAGCTAGATCAAGCGCGGGAACGGGCAGTGTCCCAGTACCAAC
AGCAACGTGATGCGGACTATTCTCGCATCACGGCGTTGGAAACGGAATTGCAAACGGAAAATGGC
CGGATGCGGTGGCAATTTAATACCAAAAGCTGCTTCCGGTGGTAGGACAATAATAAAAAAGCCCC
GCTCCCTAAGGGCCCCTCTCTGACAAGGAAAGAAACGAAAAAATCTCAATTTTATGACACGATGG
ATGTTCTCCACTAACCACAAGGATACAGGGACTCTATATTTCATCTTCGGTGCTATTGCTGGAGT
GATGGGCACATGCTTCTCAGTACTGATTCGTATGGAATTAGCACGACCCGGCGATCAAATTCTTG
GTGGTAATCATCAACTTTATAATGTTTTAATAACGGCTCACGCTTTTTTAATGATCTTTTTTATG
GTTATGCCGGCGATGATAGGCGGATCTGGTAATTGGTCTTTTCCT
Found at i:227800 original size:8 final size:8
Alignment explanation
Indices: 227787--227826 Score: 53
Period size: 8 Copynumber: 4.6 Consensus size: 8
227777 AAATAATAGA
227787 TATATAAT
1 TATATAAT
227795 TATATAAT
1 TATATAAT
227803 AGATATATAAT
1 ---TATATAAT
227814 TATATAAT
1 TATATAAT
227822 TATAT
1 TATAT
227827 CTATAAACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 21 0.72
11 8 0.28
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (8 bp):
TATATAAT
Left flanking sequence: Indices 227287 -- 227786
CAGCCTTAACCTGTCCCCAGACAGCCAGCCCTCACCAGGCTGCTGGAATTGCTAAATGCTCCGCC
ACGAAGCAAGCTCTCCCGATCCCGAAGACGACAGATGCGGAAGTGGCTAAAGAAGTCGGAGGAAG
AAAGTTGTTGGGCAATTGTATGCGCGAGGGTACATTATAAGTATTCTGAGAATTGGCAACATTGA
CAGAAAGGGGAAGAAAAGGGGGTAGGAATAAACTTTTTTAGGTGTAGCTATACTAAAGTAAGTAG
TCGGCCTAACCTTCGGTTCCCGTAACCAAGTTTTTCTTTCTCACTCCTTATGTTATGTACTTTTT
CTTACTTAATCCATACTTTTTTACCTTTTCTGAAGTGTGGGGCAAAGGGTGCCCTCTACTTATAC
TTCTAACTAAAGGCGAACTGCAGGCATTGCAAGCAAACAAAGCGCCCCCGCCCGTTTGAGTCGCG
AAGGGGCCGCTTGCTTAAAAAATTTATTTTATATAAAATAATAGA
Right flanking sequence: Indices 227827 -- 228326
CTATAAACTAAGAAAATCCGTTTTTTTTATCCAATTGTTCATTCCCGGGAAGAGGAAGAAGCAGA
TAGAGCAAAGGCCTCCTCTTTCCTTCCGTCCGCTCTTCCCGAAGTGGGCGAATTGCATGTAGAGA
TCCGCAGGGGCTTATAGTTTAATTGGTTGAAACGTACCGCTCATAACGGTTATATTGTAGGTTCG
AGCCCTACTAAGCCTACCACCCCCTTCTCTGCACCCGATACAAGGCAGTCGAAGTCCTCGCCACC
CTGCAGATCTCAATCTAGCGACGGCACCTGGAACCGCACAGCTTCCGCTGCCCTTCGGGCACGCC
TCCTACGCTCTTGCGGCATGCCCCCTTCGGGCAATACGGCTTTCGTGAGTAATACGCGAAGCAGC
TGAGCGATAGCTCTCTTCGATCGCTATATTCTTGCGATAGCGAAGGCGTAGTTCATCCTCTAAGA
GAGAGTAGATGCGAAGATTCGGATCGAAGATCTTCGCTTGGGCCG
Found at i:227803 original size:19 final size:19
Alignment explanation
Indices: 227779--227821 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
227769 TTTATATAAA
227779 ATAATAGATATATAATTAT
1 ATAATAGATATATAATTAT
227798 ATAATAGATATATAATTAT
1 ATAATAGATATATAATTAT
227817 ATAAT
1 ATAAT
227822 TATATCTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
ATAATAGATATATAATTAT
Left flanking sequence: Indices 227279 -- 227778
AGCAGGCCCAGCCTTAACCTGTCCCCAGACAGCCAGCCCTCACCAGGCTGCTGGAATTGCTAAAT
GCTCCGCCACGAAGCAAGCTCTCCCGATCCCGAAGACGACAGATGCGGAAGTGGCTAAAGAAGTC
GGAGGAAGAAAGTTGTTGGGCAATTGTATGCGCGAGGGTACATTATAAGTATTCTGAGAATTGGC
AACATTGACAGAAAGGGGAAGAAAAGGGGGTAGGAATAAACTTTTTTAGGTGTAGCTATACTAAA
GTAAGTAGTCGGCCTAACCTTCGGTTCCCGTAACCAAGTTTTTCTTTCTCACTCCTTATGTTATG
TACTTTTTCTTACTTAATCCATACTTTTTTACCTTTTCTGAAGTGTGGGGCAAAGGGTGCCCTCT
ACTTATACTTCTAACTAAAGGCGAACTGCAGGCATTGCAAGCAAACAAAGCGCCCCCGCCCGTTT
GAGTCGCGAAGGGGCCGCTTGCTTAAAAAATTTATTTTATATAAA
Right flanking sequence: Indices 227822 -- 228321
TATATCTATAAACTAAGAAAATCCGTTTTTTTTATCCAATTGTTCATTCCCGGGAAGAGGAAGAA
GCAGATAGAGCAAAGGCCTCCTCTTTCCTTCCGTCCGCTCTTCCCGAAGTGGGCGAATTGCATGT
AGAGATCCGCAGGGGCTTATAGTTTAATTGGTTGAAACGTACCGCTCATAACGGTTATATTGTAG
GTTCGAGCCCTACTAAGCCTACCACCCCCTTCTCTGCACCCGATACAAGGCAGTCGAAGTCCTCG
CCACCCTGCAGATCTCAATCTAGCGACGGCACCTGGAACCGCACAGCTTCCGCTGCCCTTCGGGC
ACGCCTCCTACGCTCTTGCGGCATGCCCCCTTCGGGCAATACGGCTTTCGTGAGTAATACGCGAA
GCAGCTGAGCGATAGCTCTCTTCGATCGCTATATTCTTGCGATAGCGAAGGCGTAGTTCATCCTC
TAAGAGAGAGTAGATGCGAAGATTCGGATCGAAGATCTTCGCTTG
Found at i:235532 original size:13 final size:13
Alignment explanation
Indices: 235514--235539 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
235504 GGACGAGGAC
235514 TCATGTTTCTGAG
1 TCATGTTTCTGAG
235527 TCATGTTTCTGAG
1 TCATGTTTCTGAG
235540 ATTGATTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (13 bp):
TCATGTTTCTGAG
Left flanking sequence: Indices 235014 -- 235513
TGACCCTGCCAACCAAAAAAAGAAAGAAGAGAACGAAAGGAGAAGAGAACTTCTTTGTAATTCTC
TAGGAGTCACTACAGCTACCTTGTTTTGCCACCTAGACCAACCACACCTATAATTCTACACACTA
GCCCTCTTCTACTATAATCACTTCAAATGCCCTTTTCTTGCTTTTGCACTAGGTTTTTCTTTCTA
TTTTATATAAAAAGTGAATTCCACCTCTCTTTCCTCTTGTAGCTAAGGAAAGCGATTTCAGTCAA
GATCCAATCCAGGTTTCTTGTTTTCATTGATGTCTAATTCGAGAGTAAAGAGCTACGAACTGCTA
ACTCGAAGAAAGAGAAAGAATTCCTAGACCGGGAATGGAACTAGTGAAGGCAGCTATGGAATCGA
ACTCTTGGAAGACAGAGATTCTATACCATTCTCTTCTGTATGTGAATCAGTACGAGGATTTCAGA
GCATTCTTCGTTTAAGCAAATTCTCCGTTTCTTTAGGACGAGGAC
Right flanking sequence: Indices 235540 -- 236039
ATTGATTGTTAGGTATCGAAAGTAGCTTCTCCTGCTGCTTCTGAGCTGGCAGTTCCTCTTTCTTA
CTATAAAAACCTGCTTTAGTAGATCTAGAATAAGCAGGTGCAGCTGCCTCATCTATATAAATCAG
TAAGAACAAGAACCATGAATCTCACTCTTTGCATACAATAGTTTGCACGAGAATCCTCCGTCTTT
TGAATGCCAGTAGCAAGGGCGCTGTCTGCCTGCTCTCATTTTCCACCCCTAACCCTAAAACCCTA
AGGGCATTCGAAATCCATGTGTTAAGCAAATAACAAGCACACCGGTTTCCTTGACCGGGTTTAGA
CCCATTTGATTCTTATACTCCCAGGAAAGAGAGGAACATCCACTGATTTAGGATCGCAGCCTTAC
GAATCCATACTGACACCAGTTGGTGTTTCAAGCGCTTCCACTAGCTGTTTGACATCAAGACACTG
ATAACAGGGAATCTAACTATTTCAGACAGATATCGCAACACTGAT
Found at i:237028 original size:18 final size:17
Alignment explanation
Indices: 237001--237041 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
236991 GGAGTCGTGC
237001 TAGCTGGAGACTGAGACT
1 TAGCTGGAGACTGA-ACT
*
237019 TAGCTTGAGACTGAACT
1 TAGCTGGAGACTGAACT
237036 TGAGCT
1 T-AGCT
237042 AGAAGCCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (17 bp):
TAGCTGGAGACTGAACT
Left flanking sequence: Indices 236501 -- 237000
GGAGACTGGACCAACTATTGCAAGAGGCCGGCTTCCCGGTCAAATTGAAGGGTATTTCCAAGAAG
GAGAGTTGAGTAATGGCGGGTTTCGGGACTTAATGACTTTTCTGGTGGTTCACTGGCAGGTTGGG
AATCCGAATATCCCACAATGACAGAGTTCACCGAAATAGGATTTCAAGATATAGTGACTGAGCGT
GTACCCTATCTAGTTGTTGCTAGTTTGGCTTGTGATGATAGTTTACTAGTATAAAATAAGTCAAG
TATAGTACAAGTACGGAAGGAAGAAGAGAGGAATCCACTCCAAGTCCCTTTTGTGTGTGGATCTT
ATGGATCTCCTGTATCGACCGGACTAATAGTAAAATAAGGTTAGATTGCCTTACCACCAGTAGTT
GAAAGACAGCGTTTCAGGTCCATAGTTGTATTCAGTAAGTTGGGTAGCTCAATTCCAATCTTTCA
GCCTAGGACTTATTCTTACTGGAAAAGCGATGCCAGGAGTCGTGC
Right flanking sequence: Indices 237042 -- 237541
AGAAGCCGAACCGCTTACCAACAGTTATTTTTTCCCGCTTTCTAACCGCAAGAGGAAAGGAAGAG
GTTTAGGGAGAGGGAAGGGGACCGAGAAGCAGGGATCGGACATTCAGTTCAAGGTGGAGAACCTA
TAGTTACGTTCAACACAGCAAACTACTTGTCTTTGGGGTTACCCTTCTGTCATTAAAACAGATTC
AGATACGATTGGAGTCACTTGACAGGGGCATCTCTATTGGATCCCCGGGTTGGCACTAAAGAAGG
AGGGTTCCACTTAAGTTTCATTCCGTTCCGTCAGGGGCTCCCAAAACTCTTTCTATTGCGGGCTT
GAGCATCTACTTCTTTGTCCGTAATCACTGGCTGTCAAGGTGTATACTTAGAGCAAAAGGAATGA
AACCAAAGTTCACTTTTTGTTGGATACCAGGGAAGTACTTACAGCTAGGCCTTCTTGCACTTCAA
ACCCTTCTTTCTTTTCTGGTGTACCTATGCGTGCGAGTCCACAAA
Found at i:262332 original size:15 final size:16
Alignment explanation
Indices: 262290--262332 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
262280 TCCTACCTTA
262290 ACAGTCGATCATGCGCTC
1 ACAGTCGATCATGCG--C
*
262308 ACACTCGATCATGCG-
1 ACAGTCGATCATGCGC
262323 ACAGTCGATC
1 ACAGTCGATC
262333 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 261790 -- 262289
TTGCATGAAAAAACTAAAAAAAGAATAGGTGATCGTAGGTCAGCCCGTGGGTAAGTTCCGGGCTT
TCATTGATATTTTCTCGTTCATGATCTCTAATCCTTTGAGTAGATTGGGCAGGGGTAAGACTATG
CACATAGCTTCGGTTCCGTCTTGTTTGCCAAGGAGATATGGTTGCTTTTCCTTCTTCAGTAGGCT
TTCCCGCGGGTTCGGTTACAGATAGGATACACGGGTCAAAGGGAAGGCTTGAGTTCAGAGACGAA
GTTGGCTTTGAAGGTACAAACTTTCAGACAGTTCCTTACTTTCTATTCTCTAATCTCGTATGGCA
GCTTTCAGTCCCATCTTCAGTTTCGGGATATTGCTCCTATGCCTCTTCGAAGTGAAGCCCTTATA
TCGAATGATTCAAGACATTTTATTTTATAATAGAAATGAGAGGACAGCCGAATTGACAGAAAATA
GTCTGAATTTGTTGATCAACTCTCTTTGTTGAAGGTCCTACCTTA
Right flanking sequence: Indices 262333 -- 262832
TGTCCATCCGACTACATTCACTGGGGGGTGAGGTTGTCCAATTTCAATTATGTGCCGCTCGTTGA
CATCTAGTTTCCATTGCCGGTGTGAGAGATCTTCCTTCGGTTCTAGTTAAGTATGGCAGCTTGAG
GTCTCCTATTTAACTTTCACCAGCCATTGGGAACTCAAATAAACTTTCATTTAACGGCAGGCGAG
AAAGGTTCTAAAAGAAAGAAAGGTAGAAGGGGGGTTTTCTCCCGTTTCGGGGTTCTCTTGTGGAC
TGGCTGTTGACTGGCCGGGAGAAAACCGGTGCTTTTAGCTTAAACGGATTTTCACTGGATCGGAG
CCTTTCGGAAATCCTCCCCTTTTGGCTTCACTTGAGCGGTTGACGCAATCCAAGAGGAAGAGGAA
GCTAAACCCGTGCTGACGAATAACCAAACCCCTTAATTCGTCGAGTAAAGTAAATAGGGAAGATA
TAGGTTTGTTATGAATGACCCCGTATCGAATACAGGTAATAATAT
Found at i:279531 original size:17 final size:17
Alignment explanation
Indices: 279509--279543 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
279499 ATCATCTCTT
279509 TCAAGAAGCCAACTCAA
1 TCAAGAAGCCAACTCAA
279526 TCAAGAAGCCAACTCAA
1 TCAAGAAGCCAACTCAA
279543 T
1 T
279544 AGCTTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.29, G:0.11, T:0.14
Consensus pattern (17 bp):
TCAAGAAGCCAACTCAA
Left flanking sequence: Indices 279009 -- 279508
TGCGCTCTCACTAGACTTTTGATTTTATGTCTACGCCGCCTCGATTCACTCAGATTTAATGGTTT
GGTAACCTGCAACATCTTTGGTTCGGCTAGCTTTCATTTTTTTGATCGAAGTCGGTTGTCTTATT
AATCGATTGGAACTCGTAGCTCCAACTATGTATTCCCACTGCCCTGACATGGACAACTTCGCTTT
TACCTAGGTTTATTCACGAAGCATAGGGCATACTTTCTATATAATTTATGCTTTCGTCCAGCCGG
AATCTTAACTGGACGTCTATTGAAAAGGACGGTAAATTGAGAAAAAAAGCATTTCATTAAAAAAA
AGAGTGGATTCTTGAGGTTACATTCCGCTATAGTAGCTTGACCAACGTGAAAGTGGAACAAGTGC
ATGCCCCATACACGAAATTTAATATTAGAGTATAAATCTCATATCGGTATGAGGCTTCCAGTCGA
ATATCTGACTCCGCCTATCACTTTATTCTGCTTCCATCATCTCTT
Right flanking sequence: Indices 279544 -- 280043
AGCTTCTTTTAGAACCGCTATGCCCTCTGCTGCAACTGAGCTAGTTATTGGGAACAGATGGGGAC
TACAAGCGAAGCTTCGCTTGCTTATACCACGTAATTCAACCTCAACAGGAAGGCAAATGGTAAGA
TCCGGGTAAGAGGTTTCGCAGATCTGCTTATTACTGTACCAAACAACAAGACGAAAGCGTCAAAG
GCGAAGCCATGGCGTCACACAATTATCATACAAAATTCTCATTAAGCCACTGTGAGAGAAGGTTG
CTGATCGACGATAATAGGTAGCTTGCAACTATAACATAAAGTGGACGAGCTGACTCAGTGGAGCC
TAAAAATAGCACAAGGTAGTACTAGAAATGATATACAGATGAGATCAAAGGATGGATACACGCAC
GGAGGGAACCAGAACCGGGATAAGCCGCCCTTATTGGGCGCGGTAGAAGCTTACTCTGTAGTTGG
TCTGAAGGAGGTGTTCCACTTCTCACCATCGATTATGATTCGTAT
Found at i:308251 original size:15 final size:17
Alignment explanation
Indices: 308216--308252 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
308206 ACCGGTATCG
308216 TATAATATATATATATA
1 TATAATATATATATATA
308233 TATAATATATAT-TAT-
1 TATAATATATATATATA
308248 TATAA
1 TATAA
308253 AAGTCGCGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 3 0.15
17 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATAATATATATATATA
Left flanking sequence: Indices 307716 -- 308215
CTGCCTCTATCATCTACGTCAATTTCTTCTTCAATAGATTCCCTCACTTCTGGCCCGAGAGAAAG
TAGGCCAAAAACGTGGGATGTAAAAAAAGGTGTATTCTAGGGCCAGGTGATGTCAGGTATACAGG
ATGAGTATCACAGTCCCCACAGCCTCCACGCGAGAACGCATCCCCTTTTCCGTGATGATGCTTTG
TTAATCCTTTACTGGAAGTCTGCTTTTAAGAAAACCCTGCATAGAATAGGTCACATAAAGTGAAG
GCTGGTACCCGAATCAATCCACCATGCATAAGTAGATAAGTAAAAAAAAGCAACTTTTCAGAAAC
AAGGGCATAGTGATTGCCTTCCTTCACTCCTTAAAAAACCGAAGCTTTGAACTAAATATCGTACA
ATCCTTTTTTATAGTTGCAAAGCATAGCGAGAGAAAAAGAACAAGAAAGTTGACCGTGACGGTCG
TAGCTCTATCAAGTAGGTACGCTAAACACTCATAGACCGGTATCG
Right flanking sequence: Indices 308253 -- 308752
AAGTCGCGGTGGAATCCATTGCGATCTTGGGCATCGCCAAAGAAGGGTGTTCTCAGCGCCTATGC
TTAACACGGCTCCCATGATAGTAGCAGAAAACGAGTTGTGCTGGTGATGTGATCGGACCATTTCC
CCCCGGGAAATACGGTCACAAGTTCATACTTTCTTTTTTACTAGTAATTTTTTACTATAGTAAGT
CAAGATCAGAGCAGGCACAACGACGCAATTCTCAGGGGCGTGTCTGGTGCTATCGTATATAAGAG
AAAGGTTGGGTTGCATTTAGGAAGGATCTTTCTCTTTAACTAGAAATATCTTAAGATAAGAAAGC
GTAAAAAAGAAAGGTTTTGATTCGACCTGATTAAACAAAGAAAAAAAAGCTTTCTCCGCGTCAGG
CTGTTGATGTAGTTGCTTGTACTTTTAATTTTATGTCATATTTAGTTGGTGTTCAGTCTACCGCA
GCTTGTGTAGCCTATGCGAAGCAAGCCTACATAGGATACAAAATA
Found at i:324394 original size:30 final size:30
Alignment explanation
Indices: 324358--324469 Score: 118
Period size: 30 Copynumber: 3.5 Consensus size: 30
324348 GACTCAAGCG
*
324358 ATTTTAATAGCTTTTCCTTTTCTACTTGTA
1 ATTTTAATAGCTTTTCCTTTTCTAGTTGTA
*
324388 ATTTTAATAGCTTTTCCTTTTCGAGTTGTA
1 ATTTTAATAGCTTTTCCTTTTCTAGTTGTA
**
324418 ATTCTATTTCTA-CTTTTAATTCCTTTTCTAGTTGTA
1 A-T-T-TTAATAGC--TT--TTCCTTTTCTAGTTGTA
324454 ATTTTAATAGCTTTTC
1 ATTTTAATAGCTTTTC
324470 TAGTTTTAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
30 32 0.48
31 1 0.01
32 4 0.06
33 8 0.12
34 4 0.06
35 1 0.01
36 17 0.25
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.56
Consensus pattern (30 bp):
ATTTTAATAGCTTTTCCTTTTCTAGTTGTA
Left flanking sequence: Indices 323858 -- 324357
CGGGATTGGATTTTTTTTATAGTGGAAATGCCATAAAGCGCGAACCAAGATCCGTGATACGAAAA
CCAAAATCAGAATGAGGAAGAAAAAGATATCGTGATGTAAGTCCATTATTCCTTGCATCATAGGT
GTTGCTGCGTCTTGAAATCCTAATTGCCATGGTTCCGCTGCATCACAAGGAACAATTGTGAGGAA
TAGCCATTCTAGAACAATCATTTGGGTTGGTTCATTCTTTAACTGCTCCGCCCCCCCCCAAAAAA
AAGAAGAGAGACTTGTTCTTGCTCTCCCAATTCAGGAAGACGGAAGTCGCCGGTTGGGCTTTTCC
AACCAAGAAAAACATGGGACTTTTGGGCATTTTCTTCTCTTACGCTACGCAATTTCTATTTATTA
TTTTTGAATAGAAATCTAACTTTATATTAGATATTTGGAAGGGATATTTCTATTCGAGATGCTAC
TTACTTACATATGATGTTTTCTTTCACAAGGCAGCGACTCAAGCG
Right flanking sequence: Indices 324470 -- 324969
TAGTTTTAATAGCTTTTCCTTTTCTAGTTGCTTTTCCTTTTCGAGTTGTAATTCTATTTCTACTT
GTAATAGCAAAATCTGTTCCTGGGTCATAAAATTGGGATTTACGTCATTTTGATTCCCTCCAGAA
AAGCAAGTTTTTCTTACCTTCCTGTACGAGTAGTGAAGAATTATAGTGAGTTGTGGTTGGTTGTT
GACCAACGGAAAGCATGGGAGTCTTTGGGCATAGGAGGTTCTCTCTCTCTCTTACGATATAAATA
AGTCCGGGAATGAGCTATCATATGCCTTCTGTTTGAAAGGCTAATTTCCTTTTACTCAATGAAGA
AAGCTAAAACTAAAAGAGTAGGACATAGATTGTATTATAAAAGTTTAATGAGAGATGCGAATCAT
AGCGTATCCAAAGTAGTACTTCTGTTTTGTTTTCAAGGCAATTAAATTCTTACTGTCCGGTAAGG
CAAGGAAAGGCTTTTTCCCCTAAGGGCGAACTTAACCGGGCATGG
Found at i:324436 original size:42 final size:42
Alignment explanation
Indices: 324389--324499 Score: 102
Period size: 42 Copynumber: 2.6 Consensus size: 42
324379 CTACTTGTAA
*
324389 TTTTAATAGCTTTTCCTTTTCGAGTTGTAAT-TCTATTTCTAC
1 TTTTAATAGCTTTTCCTTTTCGAGTTGTAATAGCT-TTTCTAC
** * * * *
324431 TTTTAATTCCTTTT-CTAGTT-GTAATTTTAATAGCTTTTCTAG
1 TTTTAATAGCTTTTCCT-TTTCG-AGTTGTAATAGCTTTTCTAC
*
324473 TTTTAATAGCTTTTCCTTTTCTAGTTG
1 TTTTAATAGCTTTTCCTTTTCGAGTTG
324500 CTTTTCCTTT
Statistics
Matches: 51, Mismatches: 13, Indels: 10
0.69 0.18 0.14
Matches are distributed among these distances:
41 3 0.06
42 44 0.86
43 4 0.08
ACGTcount: A:0.19, C:0.14, G:0.10, T:0.57
Consensus pattern (42 bp):
TTTTAATAGCTTTTCCTTTTCGAGTTGTAATAGCTTTTCTAC
Left flanking sequence: Indices 323889 -- 324388
CATAAAGCGCGAACCAAGATCCGTGATACGAAAACCAAAATCAGAATGAGGAAGAAAAAGATATC
GTGATGTAAGTCCATTATTCCTTGCATCATAGGTGTTGCTGCGTCTTGAAATCCTAATTGCCATG
GTTCCGCTGCATCACAAGGAACAATTGTGAGGAATAGCCATTCTAGAACAATCATTTGGGTTGGT
TCATTCTTTAACTGCTCCGCCCCCCCCCAAAAAAAAGAAGAGAGACTTGTTCTTGCTCTCCCAAT
TCAGGAAGACGGAAGTCGCCGGTTGGGCTTTTCCAACCAAGAAAAACATGGGACTTTTGGGCATT
TTCTTCTCTTACGCTACGCAATTTCTATTTATTATTTTTGAATAGAAATCTAACTTTATATTAGA
TATTTGGAAGGGATATTTCTATTCGAGATGCTACTTACTTACATATGATGTTTTCTTTCACAAGG
CAGCGACTCAAGCGATTTTAATAGCTTTTCCTTTTCTACTTGTAA
Right flanking sequence: Indices 324500 -- 324999
CTTTTCCTTTTCGAGTTGTAATTCTATTTCTACTTGTAATAGCAAAATCTGTTCCTGGGTCATAA
AATTGGGATTTACGTCATTTTGATTCCCTCCAGAAAAGCAAGTTTTTCTTACCTTCCTGTACGAG
TAGTGAAGAATTATAGTGAGTTGTGGTTGGTTGTTGACCAACGGAAAGCATGGGAGTCTTTGGGC
ATAGGAGGTTCTCTCTCTCTCTTACGATATAAATAAGTCCGGGAATGAGCTATCATATGCCTTCT
GTTTGAAAGGCTAATTTCCTTTTACTCAATGAAGAAAGCTAAAACTAAAAGAGTAGGACATAGAT
TGTATTATAAAAGTTTAATGAGAGATGCGAATCATAGCGTATCCAAAGTAGTACTTCTGTTTTGT
TTTCAAGGCAATTAAATTCTTACTGTCCGGTAAGGCAAGGAAAGGCTTTTTCCCCTAAGGGCGAA
CTTAACCGGGCATGGAAGGCAACTCTATCAAGTAAAGCTAGTCGT
Found at i:324445 original size:18 final size:18
Alignment explanation
Indices: 324401--324456 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
324391 TTAATAGCTT
* *
324401 TTCCTTTTCGAGTTGTAA
1 TTCCTTTTCTACTTGTAA
*
324419 TT-CTATTTCTACTTTTAA
1 TTCCT-TTTCTACTTGTAA
*
324437 TTCCTTTTCTAGTTGTAA
1 TTCCTTTTCTACTTGTAA
324455 TT
1 TT
324457 TTAATAGCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 2 0.06
18 27 0.87
19 2 0.06
ACGTcount: A:0.18, C:0.16, G:0.09, T:0.57
Consensus pattern (18 bp):
TTCCTTTTCTACTTGTAA
Left flanking sequence: Indices 323901 -- 324400
ACCAAGATCCGTGATACGAAAACCAAAATCAGAATGAGGAAGAAAAAGATATCGTGATGTAAGTC
CATTATTCCTTGCATCATAGGTGTTGCTGCGTCTTGAAATCCTAATTGCCATGGTTCCGCTGCAT
CACAAGGAACAATTGTGAGGAATAGCCATTCTAGAACAATCATTTGGGTTGGTTCATTCTTTAAC
TGCTCCGCCCCCCCCCAAAAAAAAGAAGAGAGACTTGTTCTTGCTCTCCCAATTCAGGAAGACGG
AAGTCGCCGGTTGGGCTTTTCCAACCAAGAAAAACATGGGACTTTTGGGCATTTTCTTCTCTTAC
GCTACGCAATTTCTATTTATTATTTTTGAATAGAAATCTAACTTTATATTAGATATTTGGAAGGG
ATATTTCTATTCGAGATGCTACTTACTTACATATGATGTTTTCTTTCACAAGGCAGCGACTCAAG
CGATTTTAATAGCTTTTCCTTTTCTACTTGTAATTTTAATAGCTT
Right flanking sequence: Indices 324457 -- 324956
TTAATAGCTTTTCTAGTTTTAATAGCTTTTCCTTTTCTAGTTGCTTTTCCTTTTCGAGTTGTAAT
TCTATTTCTACTTGTAATAGCAAAATCTGTTCCTGGGTCATAAAATTGGGATTTACGTCATTTTG
ATTCCCTCCAGAAAAGCAAGTTTTTCTTACCTTCCTGTACGAGTAGTGAAGAATTATAGTGAGTT
GTGGTTGGTTGTTGACCAACGGAAAGCATGGGAGTCTTTGGGCATAGGAGGTTCTCTCTCTCTCT
TACGATATAAATAAGTCCGGGAATGAGCTATCATATGCCTTCTGTTTGAAAGGCTAATTTCCTTT
TACTCAATGAAGAAAGCTAAAACTAAAAGAGTAGGACATAGATTGTATTATAAAAGTTTAATGAG
AGATGCGAATCATAGCGTATCCAAAGTAGTACTTCTGTTTTGTTTTCAAGGCAATTAAATTCTTA
CTGTCCGGTAAGGCAAGGAAAGGCTTTTTCCCCTAAGGGCGAACT
Found at i:324446 original size:24 final size:24
Alignment explanation
Indices: 324419--324479 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
324409 CGAGTTGTAA
* * *
324419 TTCTATTTCTACTTTTAATTCCTT
1 TTCTAGTTCTAATTTTAATACCTT
* *
324443 TTCTAGTTGTAATTTTAATAGCTT
1 TTCTAGTTCTAATTTTAATACCTT
*
324467 TTCTAGTTTTAAT
1 TTCTAGTTCTAAT
324480 AGCTTTTCCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.07, T:0.59
Consensus pattern (24 bp):
TTCTAGTTCTAATTTTAATACCTT
Left flanking sequence: Indices 323919 -- 324418
AAAACCAAAATCAGAATGAGGAAGAAAAAGATATCGTGATGTAAGTCCATTATTCCTTGCATCAT
AGGTGTTGCTGCGTCTTGAAATCCTAATTGCCATGGTTCCGCTGCATCACAAGGAACAATTGTGA
GGAATAGCCATTCTAGAACAATCATTTGGGTTGGTTCATTCTTTAACTGCTCCGCCCCCCCCCAA
AAAAAAGAAGAGAGACTTGTTCTTGCTCTCCCAATTCAGGAAGACGGAAGTCGCCGGTTGGGCTT
TTCCAACCAAGAAAAACATGGGACTTTTGGGCATTTTCTTCTCTTACGCTACGCAATTTCTATTT
ATTATTTTTGAATAGAAATCTAACTTTATATTAGATATTTGGAAGGGATATTTCTATTCGAGATG
CTACTTACTTACATATGATGTTTTCTTTCACAAGGCAGCGACTCAAGCGATTTTAATAGCTTTTC
CTTTTCTACTTGTAATTTTAATAGCTTTTCCTTTTCGAGTTGTAA
Right flanking sequence: Indices 324480 -- 324979
AGCTTTTCCTTTTCTAGTTGCTTTTCCTTTTCGAGTTGTAATTCTATTTCTACTTGTAATAGCAA
AATCTGTTCCTGGGTCATAAAATTGGGATTTACGTCATTTTGATTCCCTCCAGAAAAGCAAGTTT
TTCTTACCTTCCTGTACGAGTAGTGAAGAATTATAGTGAGTTGTGGTTGGTTGTTGACCAACGGA
AAGCATGGGAGTCTTTGGGCATAGGAGGTTCTCTCTCTCTCTTACGATATAAATAAGTCCGGGAA
TGAGCTATCATATGCCTTCTGTTTGAAAGGCTAATTTCCTTTTACTCAATGAAGAAAGCTAAAAC
TAAAAGAGTAGGACATAGATTGTATTATAAAAGTTTAATGAGAGATGCGAATCATAGCGTATCCA
AAGTAGTACTTCTGTTTTGTTTTCAAGGCAATTAAATTCTTACTGTCCGGTAAGGCAAGGAAAGG
CTTTTTCCCCTAAGGGCGAACTTAACCGGGCATGGAAGGCAACTC
Found at i:324502 original size:18 final size:18
Alignment explanation
Indices: 324481--324517 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
324471 AGTTTTAATA
*
324481 GCTTTTCCTTTTCTAGTT
1 GCTTTTCCTTTTCGAGTT
324499 GCTTTTCCTTTTCGAGTT
1 GCTTTTCCTTTTCGAGTT
324517 G
1 G
324518 TAATTCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.05, C:0.22, G:0.16, T:0.57
Consensus pattern (18 bp):
GCTTTTCCTTTTCGAGTT
Left flanking sequence: Indices 323981 -- 324480
CATAGGTGTTGCTGCGTCTTGAAATCCTAATTGCCATGGTTCCGCTGCATCACAAGGAACAATTG
TGAGGAATAGCCATTCTAGAACAATCATTTGGGTTGGTTCATTCTTTAACTGCTCCGCCCCCCCC
CAAAAAAAAGAAGAGAGACTTGTTCTTGCTCTCCCAATTCAGGAAGACGGAAGTCGCCGGTTGGG
CTTTTCCAACCAAGAAAAACATGGGACTTTTGGGCATTTTCTTCTCTTACGCTACGCAATTTCTA
TTTATTATTTTTGAATAGAAATCTAACTTTATATTAGATATTTGGAAGGGATATTTCTATTCGAG
ATGCTACTTACTTACATATGATGTTTTCTTTCACAAGGCAGCGACTCAAGCGATTTTAATAGCTT
TTCCTTTTCTACTTGTAATTTTAATAGCTTTTCCTTTTCGAGTTGTAATTCTATTTCTACTTTTA
ATTCCTTTTCTAGTTGTAATTTTAATAGCTTTTCTAGTTTTAATA
Right flanking sequence: Indices 324518 -- 325017
TAATTCTATTTCTACTTGTAATAGCAAAATCTGTTCCTGGGTCATAAAATTGGGATTTACGTCAT
TTTGATTCCCTCCAGAAAAGCAAGTTTTTCTTACCTTCCTGTACGAGTAGTGAAGAATTATAGTG
AGTTGTGGTTGGTTGTTGACCAACGGAAAGCATGGGAGTCTTTGGGCATAGGAGGTTCTCTCTCT
CTCTTACGATATAAATAAGTCCGGGAATGAGCTATCATATGCCTTCTGTTTGAAAGGCTAATTTC
CTTTTACTCAATGAAGAAAGCTAAAACTAAAAGAGTAGGACATAGATTGTATTATAAAAGTTTAA
TGAGAGATGCGAATCATAGCGTATCCAAAGTAGTACTTCTGTTTTGTTTTCAAGGCAATTAAATT
CTTACTGTCCGGTAAGGCAAGGAAAGGCTTTTTCCCCTAAGGGCGAACTTAACCGGGCATGGAAG
GCAACTCTATCAAGTAAAGCTAGTCGTCAGTCAGGGTTGAGACAG
Done.