Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold198
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1648337
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 5 of 11
Found at i:591951 original size:79 final size:79
Alignment explanation
Indices: 591859--592243 Score: 337
Period size: 79 Copynumber: 4.9 Consensus size: 79
591849 TTCATCTCAA
* * * * * *
591859 GGATACTCTAACCCCAATTTTATTTCCAAAACATTAATTTTTCATAATTGGGGATACTCTAATCC
1 GGATACTCCAACCCCGATTTTATTTCCAAAACATTGATTTTTCATAATCGGGGATACTCCAACCC
591924 CGTTATTTTTGAGG
66 CGTTATTTTTGAGG
* * * * * *
591938 GGATACTCCAACCCCTG-CTTTATTTCTAAAATATTGATTTCTCACAATTGGGGATACTCCAACC
1 GGATACTCCAACCCC-GATTTTATTTCCAAAACATTGATTTTTCATAATCGGGGATACTCCAACC
* * * *
592002 CCATTCTTTTGGCGG
65 CCGTTATTTTTGAGG
*** * * * *
592017 GGATACTCCAACCCCGGCCTTATTTCTAAAGC-TTCGA-TTTTCTACAATCAGGGATACTCCAAC
1 GGATACTCCAACCCCGATTTTATTTCCAAAACATT-GATTTTTC-ATAATCGGGGATACTCCAAC
* *
592080 CCCATTATTTTTAAGG
64 CCCGTTATTTTTGAGG
** * * * * *
592096 GGCCACTCTAACCCCGATTTTATTTTCAAAACGTCGA-TTTTCTATAATCAGGGATACTCCAACC
1 GGATACTCCAACCCCGATTTTATTTCCAAAACATTGATTTTTC-ATAATCGGGGATACTCCAACC
** * *
592160 TTGTTATTTTCGAAG
65 CCGTTATTTTTGAGG
* * ** *
592175 GGATACTCCAACCCCGATTTTATTTCCAGAATACCGATTTTCCATAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCCGATTTTATTTCCAAAACATTGATTTTTCATAATCGGGGATACTCCAACCC
592240 CGTT
66 CGTT
592244 GTTATCCCCA
Statistics
Matches: 247, Mismatches: 53, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
78 7 0.03
79 235 0.95
80 5 0.02
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.34
Consensus pattern (79 bp):
GGATACTCCAACCCCGATTTTATTTCCAAAACATTGATTTTTCATAATCGGGGATACTCCAACCC
CGTTATTTTTGAGG
Found at i:593269 original size:20 final size:20
Alignment explanation
Indices: 593246--593289 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
593236 ATTTATCAGC
* *
593246 ACATTGAAGAATGTATCGAT
1 ACATTGAAAAATATATCGAT
*
593266 ACATTGAAAAATATATTGAT
1 ACATTGAAAAATATATCGAT
593286 ACAT
1 ACAT
593290 CTGAGAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (20 bp):
ACATTGAAAAATATATCGAT
Found at i:595401 original size:21 final size:20
Alignment explanation
Indices: 595376--595428 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 20
595366 TACAAGCCAA
*
595376 TGTATCGATACAATTTTTTTG
1 TGTATCGATACAA-TATTTTG
595397 TGTATCGATAC-ATATTTTG
1 TGTATCGATACAATATTTTG
595416 TGTATCGATACAA
1 TGTATCGATACAA
595429 GTTTGGCTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 17 0.57
20 2 0.07
21 11 0.37
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.45
Consensus pattern (20 bp):
TGTATCGATACAATATTTTG
Found at i:595504 original size:20 final size:20
Alignment explanation
Indices: 595458--595531 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
595448 ATCCCAATGA
***
595458 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
595479 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
595499 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
595519 TATGTATCGATAC
1 CATGTATCGATAC
595532 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 15 0.33
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:597962 original size:13 final size:13
Alignment explanation
Indices: 597944--597968 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
597934 ATAATCCCCC
597944 TGTATCGATACAT
1 TGTATCGATACAT
597957 TGTATCGATACA
1 TGTATCGATACA
597969 AAGAAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:601923 original size:21 final size:20
Alignment explanation
Indices: 601877--601925 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
601867 TATGCAAGTT
* *
601877 TTTATTTTTCTTAGCTAACTC
1 TTTA-TTTTCATAGCCAACTC
*
601898 ATTATTTTCATAGCCAACTTC
1 TTTATTTTCATAGCCAAC-TC
601919 TTTATTT
1 TTTATTT
601926 CAACTTGCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.55
Consensus pattern (20 bp):
TTTATTTTCATAGCCAACTC
Found at i:605388 original size:20 final size:21
Alignment explanation
Indices: 605363--605417 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
605353 GTATCGATAC
**
605363 AATGTATCGATACATG-ACTA
1 AATGTATCGATACATGAAAAA
*
605383 AATGTATCGATACTTGAAAAA
1 AATGTATCGATACATGAAAAA
605404 AATGTATCGATACA
1 AATGTATCGATACA
605418 AGTCATTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:605477 original size:13 final size:13
Alignment explanation
Indices: 605459--605484 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
605449 ACACACAATA
605459 TGTATCGATACAT
1 TGTATCGATACAT
605472 TGTATCGATACAT
1 TGTATCGATACAT
605485 CACAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:605495 original size:33 final size:32
Alignment explanation
Indices: 605439--605506 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 32
605429 GTAGCTAAAT
*
605439 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
605471 TTGTATCGATACATCACAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
605504 TTG
1 TTG
605507 GCTTGTAACG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.38
33 21 0.62
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:611662 original size:13 final size:13
Alignment explanation
Indices: 611644--611679 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
611634 GCATTCTCTA
*
611644 TATCGATACATTG
1 TATCGATACACTG
611657 TATCGATACACTG
1 TATCGATACACTG
*
611670 TATCAATACA
1 TATCGATACA
611680 AGGGGTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (13 bp):
TATCGATACACTG
Found at i:614215 original size:20 final size:22
Alignment explanation
Indices: 614190--614244 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
614180 GTATCGATAC
**
614190 AATGTATCGATACAT-G-ACTA
1 AATGTATCGATACATGGAAAAA
614210 AATGTATCGATAC-TGGAAAAA
1 AATGTATCGATACATGGAAAAA
614231 AATGTATCGATACA
1 AATGTATCGATACA
614245 AGTTGTAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 14 0.47
21 15 0.50
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (22 bp):
AATGTATCGATACATGGAAAAA
Found at i:614555 original size:33 final size:33
Alignment explanation
Indices: 614512--614576 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
614502 CAAGGAAATG
***
614512 TATCGATACATTTTTCTGTGTATCGATACATTA
1 TATCGATACATGGATCTGTGTATCGATACATTA
* *
614545 TATCGTTACATGGATCTTTGTATCGATACATT
1 TATCGATACATGGATCTGTGTATCGATACATT
614577 TGGGAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (33 bp):
TATCGATACATGGATCTGTGTATCGATACATTA
Found at i:616977 original size:51 final size:51
Alignment explanation
Indices: 616920--617299 Score: 178
Period size: 51 Copynumber: 7.3 Consensus size: 51
616910 AATTCTCCGC
* ** * *
616920 AATCGGGGATATTCTCACTCCGATTTTGTTTTC-AAAACACTAA-TTTTCTAT
1 AATCGGGGATACTCAAACTCCGATTTT-ATTTCAAAAACACCAATTTTTC-AT
616971 AATCGGGGATACTCAAACTCCGATTTTATTTCGAAAAACACCAATTTTTCAT
1 AATCGGGGATACTCAAACTCCGATTTTATTTC-AAAAACACCAATTTTTCAT
* * * * ** * * * * *
617023 AATCGAGGATACTCCAAC-CTCG-TTGTACTCATCGGGGATACTCCAACCCTGTTACCT
1 AATCGGGGATACTCAAACTC-CGATTTTA-T-TTC--AAAAACACCAA---TTTTTCAT
**** * * ** * * * *** *
617080 CCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCAT
1 AATCGGGGATACTCAAACTCCGATTTTATTTCAAAAACACCAATTTTTCAT
* * * * *
617131 AATCGGGGATACTCCAAC-CTCGGTTTTATTTCTAAAACACTAATTTTTCAC
1 AATCGGGGATACTCAAACTC-CGATTTTATTTCAAAAACACCAATTTTTCAT
* * * * * *
617182 AATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAATACCAATTTTCCTTT
1 AATCGGGGATACTCAAACTCCGATTTTA-TTTCAAAAACACCAATTTTTC-AT
* *
617234 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACCAATTTCTCAT
1 AATCGGGGATACTCAAACTCCGATTTTA-TTTCAAAAACACCAATTTTTCAT
*
617286 AATTGGGGATACTC
1 AATCGGGGATACTC
617300 CAACCCCGTT
Statistics
Matches: 251, Mismatches: 61, Indels: 33
0.73 0.18 0.10
Matches are distributed among these distances:
50 5 0.02
51 109 0.43
52 80 0.32
53 20 0.08
54 11 0.04
56 1 0.00
57 21 0.08
58 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
AATCGGGGATACTCAAACTCCGATTTTATTTCAAAAACACCAATTTTTCAT
Found at i:617033 original size:52 final size:51
Alignment explanation
Indices: 616936--617036 Score: 134
Period size: 52 Copynumber: 2.0 Consensus size: 51
616926 GGATATTCTC
* * *
616936 ACTCCGATTTTGTTTTCAAAACACTAATTTTCTATAATCGGGGATACTCAA
1 ACTCCGATTTTGATTTCAAAACACCAATTTTCTATAATCGAGGATACTCAA
616987 ACTCCGATTTT-ATTTCGAAAAACACCAATTTT-TCATAATCGAGGATACTC
1 ACTCCGATTTTGATTTC--AAAACACCAATTTTCT-ATAATCGAGGATACTC
617037 CAACCTCGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
50 4 0.09
51 12 0.27
52 28 0.64
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.36
Consensus pattern (51 bp):
ACTCCGATTTTGATTTCAAAACACCAATTTTCTATAATCGAGGATACTCAA
Found at i:617211 original size:102 final size:104
Alignment explanation
Indices: 617084--617307 Score: 285
Period size: 104 Copynumber: 2.2 Consensus size: 104
617074 TTACCTCCGA
***
617084 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGA-TTT-CTCATAATCGGGGATACTCCA
1 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATACCAATTTTCCT-ATAATCGGGGATACTCCA
* * * *
617147 AC-CTCGGTTTTA-TTTCTAAAACACTAATTTTTCACAATC
65 ACTC-CGATTTTATTTTCAAAAACACCAATTTCTCACAATC
* ** *
617186 GGGGATACTCCAACCCCGGTTTTATTTTCAAAATACCAATTTTCCTTTAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATACCAATTTTCCTATAATCGGGGATACTCCAA
* *
617251 CTCCGATTTTATTTTCAAAAACACCAATTTCTCATAATT
66 CTCCGATTTTATTTTCAAAAACACCAATTTCTCACAATC
617290 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
617308 TTATTTCTGA
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
102 33 0.31
103 29 0.28
104 43 0.41
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.33
Consensus pattern (104 bp):
GGGGATACTCCAACCCCGGCTTTATTCCCAAAATACCAATTTTCCTATAATCGGGGATACTCCAA
CTCCGATTTTATTTTCAAAAACACCAATTTCTCACAATC
Found at i:617251 original size:52 final size:52
Alignment explanation
Indices: 617084--617307 Score: 249
Period size: 51 Copynumber: 4.3 Consensus size: 52
617074 TTACCTCCGA
* * * * ***
617084 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAAACACCAATTTCTCATAATC
* * * * *
617135 GGGGATACTCCAACCTCGGTTTTA-TTTCTAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAAACACCAATTTCTCATAATC
* *
617186 GGGGATACTCCAACCCCGGTTTTATTTTC-AAAATACCAATTT-TCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAAACACCAATTTCT-C-ATAATC
* * *
617238 GGGGATACTCCAACTCCGATTTTATTTTCAAAAACACCAATTTCTCATAATT
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAAACACCAATTTCTCATAATC
617290 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
617308 TTATTTCTGA
Statistics
Matches: 148, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
50 1 0.01
51 77 0.52
52 56 0.38
53 13 0.09
54 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.33
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGGTTTTATTTTCAAAAACACCAATTTCTCATAATC
Found at i:618458 original size:13 final size:13
Alignment explanation
Indices: 618440--618465 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
618430 ACACACAATA
618440 TGTATCGATACAT
1 TGTATCGATACAT
618453 TGTATCGATACAT
1 TGTATCGATACAT
618466 CACAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:618476 original size:33 final size:32
Alignment explanation
Indices: 618420--618487 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 32
618410 GTAGCTAAAT
*
618420 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
618452 TTGTATCGATACATCACAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
618485 TTG
1 TTG
618488 GCTTGTAACG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.38
33 21 0.62
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:621967 original size:20 final size:20
Alignment explanation
Indices: 621921--621974 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
621911 CTATCACTGT
*
621921 TTGTATCGATACATGGTACA
1 TTGTATCGATACATGATACA
* *
621941 ATATATCGATACATGATGA-A
1 TTGTATCGATACATGAT-ACA
621961 TTGTATCGATACAT
1 TTGTATCGATACAT
621975 AGCTTGAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATGATACA
Found at i:622065 original size:72 final size:72
Alignment explanation
Indices: 621939--622118 Score: 333
Period size: 72 Copynumber: 2.5 Consensus size: 72
621929 ATACATGGTA
* *
621939 CAATATATCGATACATGATGAATTGTATCGATACATAGCTTGAAACGGCTATAAACGGCTATAAT
1 CAATGTATCGATACATTATGAATTGTATCGATACATAGCTTGAAACGGCTATAAACGGCTATAAT
622004 TTCAAAT
66 TTCAAAT
*
622011 CAATGTATTGATACATTATGAATTGTATCGATACATAGCTTGAAACGGCTATAAACGGCTATAAT
1 CAATGTATCGATACATTATGAATTGTATCGATACATAGCTTGAAACGGCTATAAACGGCTATAAT
622076 TTCAAAT
66 TTCAAAT
622083 CAATGTATCGATACATTATGAATTGTATCGATACAT
1 CAATGTATCGATACATTATGAATTGTATCGATACAT
622119 GTCTACGGGA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 104 1.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (72 bp):
CAATGTATCGATACATTATGAATTGTATCGATACATAGCTTGAAACGGCTATAAACGGCTATAAT
TTCAAAT
Found at i:633800 original size:8 final size:8
Alignment explanation
Indices: 633774--633820 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
633764 CCACCTTTTT
633774 AAAAAAA-
1 AAAAAAAC
* *
633781 AAAATAAG
1 AAAAAAAC
633789 AAAAAAAC
1 AAAAAAAC
633797 AAAAAAAC
1 AAAAAAAC
*
633805 AAAACAAAG
1 AAAA-AAAC
633814 AAAAAAA
1 AAAAAAA
633821 TGAGAGAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
7 6 0.18
8 21 0.62
9 7 0.21
ACGTcount: A:0.87, C:0.06, G:0.04, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:635797 original size:52 final size:51
Alignment explanation
Indices: 635733--635901 Score: 178
Period size: 52 Copynumber: 3.3 Consensus size: 51
635723 GAAATAACGA
* * * *
635733 GGTTAGAGTATCCTCAATTGTGAAAAATTGGTGTTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAATTGGTG-TTTTGAAAATAAAATCGG
* ** * **
635785 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAGAATAAAGCCGG
1 GGTTGGAGTATCCCCGATT-GTGGAAAATTGGTGTTTTGAAAATAAAATCGG
*** *
635837 GGTTGGAGTATCCCCGATTGTGGAAAATCAATGATTTG-AAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGAAAATAAAATCGG
*
635887 GGTTGGAGCATCCCC
1 GGTTGGAGTATCCCC
635902 TCGGAGATAA
Statistics
Matches: 95, Mismatches: 21, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
50 23 0.24
51 13 0.14
52 48 0.51
53 11 0.12
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGAAAATAAAATCGG
Found at i:636003 original size:80 final size:78
Alignment explanation
Indices: 635834--636012 Score: 245
Period size: 80 Copynumber: 2.3 Consensus size: 78
635824 AGAATAAAGC
* *
635834 CGGGGTTGGAGTATCCCCGATTGTGGAAAATCAATGATTTGAAATAAAATCGGGGTTGGAGCATC
1 CGGGGTTGGAGTATCCCCGATTATGGAAAATCAATGATTTGAAATAAAACCGGGGTTGGAGCATC
* *
635899 CCCTCGGAGATAA
66 CCCTCGAAAATAA
*
635912 CGGGGTTGGAGTATCCCCGATTAT-GAGAAATCAAT-ATTTTAGAAATAAAGCCGGGGGTTGGAG
1 CGGGGTTGGAGTATCCCCGATTATGGA-AAATCAATGA-TTT-GAAATAAAACC-GGGGTTGGAG
*
635975 TATCCCCTCGAAAATAA
62 CATCCCCTCGAAAATAA
*
635992 TGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
636013 GAAAAATTGA
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
77 3 0.03
78 34 0.38
79 9 0.10
80 44 0.49
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCGATTATGGAAAATCAATGATTTGAAATAAAACCGGGGTTGGAGCATC
CCCTCGAAAATAA
Found at i:636054 original size:48 final size:51
Alignment explanation
Indices: 635996--636099 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 51
635986 AAATAATGGG
635996 GTTGGAGTATCCCCGA-T-GA-AAAATT-GATGTTTT-AGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAGAGAAAATTAG-TGTTTTGA-AAATAAAATCGGA
*
636044 GTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAGAGAAAATTAGTGTTTTGAAAATAAAATCGGA
636095 GTTGG
1 GTTGG
636100 GATATTCTCA
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
48 16 0.32
49 1 0.02
50 1 0.02
51 30 0.60
52 2 0.04
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTAGAGAAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:638493 original size:13 final size:13
Alignment explanation
Indices: 638475--638500 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
638465 ACAAAGATCC
638475 ATGTATCGATACA
1 ATGTATCGATACA
638488 ATGTATCGATACA
1 ATGTATCGATACA
638501 TAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:638496 original size:33 final size:33
Alignment explanation
Indices: 638454--638520 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
638444 AAAATTCCCA
***
638454 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
638487 AATGTATCGATACATAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
638520 A
1 A
638521 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:639528 original size:62 final size:62
Alignment explanation
Indices: 639426--640131 Score: 864
Period size: 61 Copynumber: 11.5 Consensus size: 62
639416 TTCACCCTTC
* * *
639426 AGTCCTTAAAGAGCAAGACGCCTTTTCCTTTTAAAACCCACACAAGTTGGTGGCACTTTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCT
*
639488 AGTCCTCAAAGAGCATGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCT
* * * *
639550 AGTCCTCGAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTAGTGGCACTTCTC-
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCT
* * *
639611 AGTCCTC-AAGAAGCAGGATGCCTTTTTCTTTTTAAAGGCCACACAAGTTGGTGGCACTTTTCT
1 AGTCCTCAAAG-AGCAGGACGCC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCT
* *
639674 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCT
* * * *
639735 AGTCTTCAAAGAGCAGGACACCTTTT-CTTTTAAAGCCTACACATGTTGGTGGCAAC--TTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC-ACTTTTCT
* * * * *
639795 AGTCCTCAAAGAGCAGGATGTCTTTTCCTTTTAAAGCCCACACAAGCTGGCGGCAC-CTTC-
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCT
* * * * **
639855 AGTCCTCAAAGAGCAAGACGCTTTTTCCTTTTCAAAGCCCACATATGTTGGTGGCACCCTT-T
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCT
* * ** * **
639917 AGTCCTCAAAGAGCAGGTCACCTTTTTTTTTTAAAGCCCACACAAGTTGCTGGCACCGTT-T
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCT
* * * *
639978 AGTCCTCAAAGAGCAAGACGCC-TTTCTTTTTCAAAGCCCACACGAGTTGGTGGCACTGTT-T
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCT
* *
640039 AGTCCTCAAAGAGCAGGGCGCC-TTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTC-
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCT
* * *
640100 AGTCCTCAAAGAGCAGGGCGTCTTTGCCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
640132 CTCCTTTGTC
Statistics
Matches: 568, Mismatches: 63, Indels: 26
0.86 0.10 0.04
Matches are distributed among these distances:
60 91 0.16
61 238 0.42
62 219 0.39
63 17 0.03
64 3 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (62 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCT
Found at i:640254 original size:41 final size:41
Alignment explanation
Indices: 640127--640408 Score: 241
Period size: 42 Copynumber: 6.6 Consensus size: 41
640117 GCGTCTTTGC
* *
640127 CTTTTCTCCTTTGTCCTCAAAGAGCAAGA--CACATTTCATTT
1 CTTTTTTCCTTTGTCCTCAAAGAGCAGGATGCAC-TTT-ATTT
*
640168 CCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGATGC-CTTTTTTT
1 -CTT-TTTT-CC-TTTGTCCTCAAAGAGCAGGATGCACTTTATTT
* *
640212 CTTTTTTCCTTTATCCTCAAAGAGCAGGATGCACTTCATTT
1 CTTTTTTCCTTTGTCCTCAAAGAGCAGGATGCACTTTATTT
* * *
640253 CTTTCTTTTAGCTTCTAGTTCTCAAAGAGCAAGATGCACTTTATTCT
1 C-TT-TTTT-CCTT-T-GTCCTCAAAGAGCAGGATGCACTTTATT-T
* *
640300 CTTTTTTCCTCTGTCCTCAAAAAGCAGGA--CACATTTAATTT
1 CTTTTTTCCTTTGTCCTCAAAGAGCAGGATGCAC-TTT-ATTT
* * * * *
640341 CTTTTTTCCTTTGTCTTCAAAGGGCATGATGCATTTTATATC
1 CTTTTTTCCTTTGTCCTCAAAGAGCAGGATGCACTTTAT-TT
* *
640383 CTTTTTTCCTTTGTCCTTAAGGAGCA
1 CTTTTTTCCTTTGTCCTCAAAGAGCA
640409 AGACCCATTT
Statistics
Matches: 196, Mismatches: 27, Indels: 34
0.76 0.11 0.13
Matches are distributed among these distances:
40 25 0.13
41 39 0.20
42 52 0.27
43 13 0.07
44 10 0.05
45 27 0.14
46 27 0.14
47 3 0.02
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.43
Consensus pattern (41 bp):
CTTTTTTCCTTTGTCCTCAAAGAGCAGGATGCACTTTATTT
Found at i:640388 original size:42 final size:41
Alignment explanation
Indices: 640101--640452 Score: 228
Period size: 42 Copynumber: 8.4 Consensus size: 41
640091 GCACTTTTCA
* * * *
640101 GTCCTCAAAGAGCAGG--GCGTCTT-TGCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGATGCATTTTATTCCTTTTTTCCTTT
* ** *
640139 GTCCTCAAAGAGCAAGACACATTTCATTTCCTTCTTTTCCCTTTT
1 GTCCTCAAAGAGCAGGATGCATTTTA-TTCCTT-TTTT-CC-TTT
* *
640184 GTCCTCAAAGAGCAGGATGCCTTTT-TTTCTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGATGCATTTTATTCCTTTTTTCCTTT
* * * * *
640224 ATCCTCAAAGAGCAGGATGCACTTCATTTCTTTCTTTTAGCTTCT
1 GTCCTCAAAGAGCAGGATGCATTTTA-TTCCTT-TTTT-CCTT-T
* * * *
640269 AGTTCTCAAAGAGCAAGATGCACTTTATTCTCTTTTTTCCTCT
1 -GTCCTCAAAGAGCAGGATGCATTTTATTC-CTTTTTTCCTTT
* ** * *
640312 GTCCTCAAAAAGCAGGACACATTTAATTTCTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGATGCATTTTATTCCTTTTTTCCTTT
* * *
640353 GTCTTCAAAGGGCATGATGCATTTTATATCCTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGATGCATTTTAT-TCCTTTTTTCCTTT
* * * ** * * *
640395 GTCCTTAAGGAGCAAGACCCATTTCATT-CTCCTGTTCCTTT
1 GTCCTCAAAGAGCAGGATGCATTTTATTCCT-TTTTTCCTTT
* *
640436 GTCTTTAAAGAGCAGGA
1 GTCCTCAAAGAGCAGGA
640453 CGCCCCATTG
Statistics
Matches: 241, Mismatches: 57, Indels: 29
0.74 0.17 0.09
Matches are distributed among these distances:
38 15 0.06
40 29 0.12
41 56 0.23
42 66 0.27
43 13 0.05
44 7 0.03
45 31 0.13
46 24 0.10
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (41 bp):
GTCCTCAAAGAGCAGGATGCATTTTATTCCTTTTTTCCTTT
Found at i:640418 original size:83 final size:84
Alignment explanation
Indices: 640126--640449 Score: 309
Period size: 83 Copynumber: 3.8 Consensus size: 84
640116 GGCGTCTTTG
* * *
640126 CCTTTTCTCCTTTGTCCTCAAAGAGCAAGACACATTTCATTTCCTTCTTTTCCCTTTTGTCCTCA
1 CCTTTTTTCCTTTGTCCTCAAAGAGCAAGACACATTTCATTT-CTTCTTTTACC-TTTGTCTTCA
* *
640191 AAGAGCAGGATGCCTTTT-TT
64 AAGAGCAAGATGCATTTTATT
* * * ** * *
640211 TCTTTTTTCCTTTATCCTCAAAGAGCAGGATGCACTTCATTTCTTTCTTTTAGCTTCTAGT-TCT
1 CCTTTTTTCCTTTGTCCTCAAAGAGCAAGACACATTTCATTTC-TTCTTTTACCTT-T-GTCT-T
*
640275 CAAAGAGCAAGATGCACTTTATT
62 CAAAGAGCAAGATGCATTTTATT
* * * *
640298 CTCTTTTTTCCTCTGTCCTCAAAAAGCAGGACACATTTAATTTCTT-TTTT-CCTTTGTCTTCAA
1 C-CTTTTTTCCTTTGTCCTCAAAGAGCAAGACACATTTCATTTCTTCTTTTACCTTTGTCTTCAA
* *
640361 AGGGCATGATGCATTTTATAT
65 AGAGCAAGATGCATTTTAT-T
* * * * * *
640382 CCTTTTTTCCTTTGTCCTTAAGGAGCAAGACCCATTTCA-TTCTCCTGTT-CCTTTGTCTTTAAA
1 CCTTTTTTCCTTTGTCCTCAAAGAGCAAGACACATTTCATTTCTTCTTTTACCTTTGTCTTCAAA
640445 GAGCA
66 GAGCA
640450 GGACGCCCCA
Statistics
Matches: 194, Mismatches: 36, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
82 4 0.02
83 73 0.38
84 7 0.04
85 47 0.24
86 24 0.12
87 4 0.02
88 35 0.18
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.42
Consensus pattern (84 bp):
CCTTTTTTCCTTTGTCCTCAAAGAGCAAGACACATTTCATTTCTTCTTTTACCTTTGTCTTCAAA
GAGCAAGATGCATTTTATT
Found at i:640900 original size:20 final size:21
Alignment explanation
Indices: 640875--640929 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
640865 TTTTTATAAT
640875 TTGTATCGATACATTG-TTCA
1 TTGTATCGATACATTGTTTCA
*
640895 TTGTATCGATACA-GGTTTCA
1 TTGTATCGATACATTGTTTCA
* *
640915 ATGTATCAATACATT
1 TTGTATCGATACATT
640930 CAGGCATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (21 bp):
TTGTATCGATACATTGTTTCA
Found at i:649686 original size:73 final size:73
Alignment explanation
Indices: 649567--649747 Score: 301
Period size: 73 Copynumber: 2.5 Consensus size: 73
649557 TTCCCATGTA
* * *
649567 AATGTATCGATACAATTTGTGATGTATCGATACATGCATTTGAAAATATAGTCGTTTATAGCCGT
1 AATGTATCGATACAATTGGTGATGTATCGATACATGCATTTGAAAATATAGCCATTTATAGCCGT
649632 TACAAGCC
66 TACAAGCC
649640 AATGTATCGATACAATTGGTGATGTATCGATACATGCATTTGAAAATATAGCCATTTATAGCCGT
1 AATGTATCGATACAATTGGTGATGTATCGATACATGCATTTGAAAATATAGCCATTTATAGCCGT
649705 TACAAGCC
66 TACAAGCC
* *
649713 AATGTATCGATATATTTTGG-GATGTATCGATACAT
1 AATGTATCGATACA-ATTGGTGATGTATCGATACAT
649748 ATTGTGTGTA
Statistics
Matches: 102, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
73 98 0.96
74 4 0.04
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.34
Consensus pattern (73 bp):
AATGTATCGATACAATTGGTGATGTATCGATACATGCATTTGAAAATATAGCCATTTATAGCCGT
TACAAGCC
Found at i:649759 original size:19 final size:20
Alignment explanation
Indices: 649714--649765 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
649704 TTACAAGCCA
* *
649714 ATGTATCGATATATTTTGGG
1 ATGTATCGATACATATTGGG
*
649734 ATGTATCGATACATATTGTG
1 ATGTATCGATACATATTGGG
649754 -TGTATCGATACA
1 ATGTATCGATACA
649766 AATTTGGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATATTGGG
Found at i:649845 original size:20 final size:21
Alignment explanation
Indices: 649798--649850 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
649788 GCCAATGACC
**
649798 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
649819 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
649839 TGTATCGATACA
1 TGTATCGATACA
649851 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:649856 original size:13 final size:13
Alignment explanation
Indices: 649838--649862 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
649828 ACATTTGGTC
649838 ATGTATCGATACA
1 ATGTATCGATACA
649851 ATGTATCGATAC
1 ATGTATCGATAC
649863 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:654387 original size:52 final size:52
Alignment explanation
Indices: 654236--654366 Score: 235
Period size: 52 Copynumber: 2.5 Consensus size: 52
654226 CTCGAAATAT
654236 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGG
* *
654288 GAAAATTTGCTTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGG
*
654340 GCAAATTTGCCTGCATGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACA
654367 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGG
Found at i:655643 original size:55 final size:53
Alignment explanation
Indices: 655561--658157 Score: 2598
Period size: 55 Copynumber: 46.0 Consensus size: 53
655551 TCCGTCCGCT
*
655561 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCAGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCAC
* *
655615 TTTCCAGTCCTCAGAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCCC
1 TTT-CAGTCCTCAAAGAGCAGGACACC-TTTAAAGCCCACACAAGTTGGTGGCAC
* *
655670 CTTCAGTCCTCAGAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCAC
* *
655724 CTTCAGTCCTCAGAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCAC
* *
655778 CTTCAGTCCTCAAAGAGCGGGACACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACAC-----C-TTTAAAGCCCACACAAGTTGGTGGCAC
* * * * * *
655837 CTTAAGTCCTCAAATAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGAC-AC----C-TTTAAAGCCCACACAAGTTGGTGGCA-C
* * **
655897 TTT-AGTCCTCAAAGAGCAGGATGCTTTGTCTTTTCAAAGCCCACACAAGTTGGTGG-TG
1 TTTCAGTCCTCAAAGAGCAGGA--C----ACCTTT-AAAGCCCACACAAGTTGGTGGCAC
* *
655955 TCTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACATAAGTTGGTGGCGCC
1 T-TTC-AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGC-AC
* *
656012 TTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCA-C
*
656067 TTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCAC
* *
656121 CTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAT
1 TTTCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCAC
* * *
656175 TTTCCGATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATT
1 TTTCAG-TCCTCAAAGAGCAGGACACC-TTTAAAGCCCACACAAGTTGGTGGCA-C
* * *
656231 TTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCAGTCCTCAAAGAGCAGGA--C----ACCTTT-AAAGCCCACACAAGTTGGTGGCAC
*
656291 TTTCCAGTCCTCAGAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
1 TTT-CAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCAC
* *
656346 CTTCAGTCCTCAAAGAGCGGGACACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACAC-----C-TTTAAAGCCCACACAAGTTGGTGGCAC
* * * * *
656405 CTTCAGTCCTCAAATAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGAC-AC----C-TTTAAAGCCCACACAAGTTGGTGGCA-C
* * *
656465 TTT-AGTCCTCAAAGAGCAGGATGCTTTGTCTTTTCAAAGCCCACACAAGTTGGTGGCGTC
1 TTTCAGTCCTCAAAGAGCAGGA--C----ACCTTT-AAAGCCCACACAAGTTGGTGGC-AC
* * *
656525 TTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCGCC
1 TTTCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGC-AC
* *
656580 TTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCA-C
* * *
656635 TTTCAGCCCCCAAAGAGCAGGACACCTTTCAAAGCCCACCCAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCAC
* *
656689 TTTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAT
1 -TTTCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCAC
* * * *
656744 TTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGCTGGTGGCATT
1 TTT-CAGTCCTCAAAGAGCAGGACACC-TTTAAAGCCCACACAAGTTGGTGGCA-C
* *
656800 TTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGA--C----ACCTTT-AAAGCCCACACAAGTTGGTGGCAC
* *
656860 CTTCAGTCCTCAGAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCAC
* *
656914 CTTCAGTCCTCAGAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCAC
* *
656968 CTTCAGTCCTCAAAGAGCGGGACACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACAC-----C-TTTAAAGCCCACACAAGTTGGTGGCAC
* * * * * *
657027 CTTAAGTCCTCAAATAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGAC-AC----C-TTTAAAGCCCACACAAGTTGGTGGCA-C
* * *
657087 TTT-AGTCCTCAAAGAGCAGGATGCTTTGTCTTTTCAAAGCCCACACAAGTTGGTGGCGTC
1 TTTCAGTCCTCAAAGAGCAGGA--C----ACCTTT-AAAGCCCACACAAGTTGGTGGC-AC
* *
657147 TTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCC
1 TTTCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGC-AC
* * *
657202 TTCCAGTCCTCAAAGAGCATGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCA-C
*
657257 TTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCAC
* *
657311 CTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAT
1 TTTCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCAC
* * *
657365 TTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATT
1 TTT-CAGTCCTCAAAGAGCAGGACACC-TTTAAAGCCCACACAAGTTGGTGGCA-C
* * * *
657421 TTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAATCCCACACAAGTTGGTGGCAT
1 TTTCAGTCCTCAAAGAGCAGGA--C----ACCTTT-AAAGCCCACACAAGTTGGTGGCAC
*
657481 TTTCCAGTCCTCAGAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
1 TTT-CAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCAC
*
657536 CTTCAGTCCTCAAAGAGC-GAGACACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAG-GACAC-----C-TTTAAAGCCCACACAAGTTGGTGGCAC
* * * * * *
657595 CTTCAGTCCTCAAATACCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGAC-AC----C-TTTAAAGCCCACACAAGTTGGTGGCA-C
* * *
657655 TTT-AGTCCTCAAAGAGCAGGATGCTTTGTCTTTTCAAAGCCCACACAAGTTGGTGGCGTC
1 TTTCAGTCCTCAAAGAGCAGGA--C----ACCTTT-AAAGCCCACACAAGTTGGTGGC-AC
* * *
657715 TTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCGC
1 TTTCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCAC
* *
657769 CTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACC
1 TTTC-AGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCA-C
* *
657825 TTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACCCAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCAC
* *
657879 TTTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAT
1 -TTTCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCAC
* * *
657934 TTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATT
1 TTT-CAGTCCTCAAAGAGCAGGACACC-TTTAAAGCCCACACAAGTTGGTGGCA-C
* *
657990 TTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGA--C----ACCTTT-AAAGCCCACACAAGTTGGTGGCA-C
*
658051 TTTCAGTCCTCAAAGAGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-
1 TTTCAGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCAC
*
658104 TTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTAGTGGCA
1 TTT-CAGTCCTCAAAGAGCAGGACACC-TTTAAAGCCCACACAAGTTGGTGGCA
658158 AACCTTCCCA
Statistics
Matches: 2242, Mismatches: 167, Indels: 268
0.84 0.06 0.10
Matches are distributed among these distances:
53 5 0.00
54 439 0.20
55 961 0.43
56 47 0.02
57 5 0.00
58 2 0.00
59 399 0.18
60 153 0.07
61 223 0.10
64 8 0.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (53 bp):
TTTCAGTCCTCAAAGAGCAGGACACCTTTAAAGCCCACACAAGTTGGTGGCAC
Found at i:656066 original size:29 final size:29
Alignment explanation
Indices: 656034--656122 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 29
656024 AAGAGCAGGA
656034 CACCTCTTAAAGCCCACAAAAGTTGGTGG
1 CACCTCTTAAAGCCCACAAAAGTTGGTGG
* ** *
656063 CACCT-TT-CAGTCCC-CAAAGAG-CAG-GA
1 CACCTCTTAAAG-CCCACAAA-AGTTGGTGG
*
656089 CACCTCTTAAAGCCCACACAAGTTGGTGG
1 CACCTCTTAAAGCCCACAAAAGTTGGTGG
656118 CACCT
1 CACCT
656123 TCAGTCCTCA
Statistics
Matches: 44, Mismatches: 9, Indels: 14
0.66 0.13 0.21
Matches are distributed among these distances:
26 6 0.14
27 14 0.32
28 13 0.30
29 11 0.25
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (29 bp):
CACCTCTTAAAGCCCACAAAAGTTGGTGG
Found at i:656630 original size:568 final size:558
Alignment explanation
Indices: 655561--658157 Score: 3566
Period size: 568 Copynumber: 4.6 Consensus size: 558
655551 TCCGTCCGCT
*
655561 TTTCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC-AGTC
1 TTTCAGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCCGA-TC
* *** *
655624 CTCAGAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGC-CCCTTCAGTCCTCAGAGAGC
64 CTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGC
* **
655688 AGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAGAGAGCAGGACACCTCT
129 AGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAGAGAGCAGGACACCTCT
*
655753 TAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACACATTTTCTTTTAAAGC
194 TAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACAC-----CTTTTAAAGC
* * * *
655818 CCACACAAGTTGGTGGCACCTTAAGTCCTCAAATAGCGGGACGCCTTTTCTTTTAAAGCCCACCC
254 CCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACACCTTTTCTTTTAAAGCCCACAC
*
655883 AAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATG-CTTTGTCTTTTCAAAGCCCACACAAGT
319 AAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTT-TCTTTT-AAAGCCCACACAAGT
*** *
655947 TGGTGGTGTCTTCTAGTCCTCAAAGAGCAGGA-C-ACCTCTT-AAAGCCCACATAAGTTGGTGGC
382 TGGTGGCACCTT-TAGTCCTCAAAGAGCAGGAGCTACCTCTTCAAAGCCCACACAAGTTGGTGGC
656009 GCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACCTTTCAGT
446 GCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACCTTTCAGT
*
656074 CCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACC
511 CCCCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACC
*
656122 -TTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCGATCCT
1 TTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCGATCCT
*
656186 CAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAG
66 CAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAG
**
656251 GATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAGAGAGCAGGACA
131 GA--C---ACCTTTT-AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAGAGAGCAGGACA
*
656316 CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACACATTTTCTTTT
189 CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACAC-----CTTTT
* *
656381 AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAATAGCGGGACGCCTTTTCTTTTAAAGCC
249 AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACACCTTTTCTTTTAAAGCC
* *
656446 CACCCAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATG-CTTTGTCTTTTCAAAGCCCACA
314 CACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTT-TCTTTT-AAAGCCCACA
** * *
656510 CAAGTTGGTGGCGTCTTCCAGTCCTCAAAGAGCAGGA-C-ACCTCTT-AAAGCCCACAAAAGTTG
377 CAAGTTGGTGGCACCTT-TAGTCCTCAAAGAGCAGGAGCTACCTCTTCAAAGCCCACACAAGTTG
656572 GTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACCTT
441 GTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACCTT
* ** *
656637 TCAGCCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCACT
506 TCAGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACAAAAGTTGGTGGCACC
*
656690 TTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCT
1 TTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCGATCCT
* *
656755 CAAAGAGCAGGACACCTTTTAAAGCCCACACAGGCTGGTGGCATTTTTCAGTCCTCAAAGAGCAG
66 CAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAG
** **
656820 GATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAGAGAGCAGGACAC
131 GA--C---ACCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAGAGAGCAGGACAC
* *
656885 CTCTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAGAGAGCAGGACACCTCTTAAAGCC
190 CTCTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCC
*
656950 CACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACACATTTTCTTTTAAAGCCCACACA
255 CACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACACCTTTTCTTTTAAAGCCCACACA
* * * *
657015 AGTTGGTGGCACCTTAAGTCCTCAAATAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGG
320 AGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGG
** *
657080 TGGCACCTTTAGTCCTCAAAGAGCAGGATGCTTTGTCTTTTCAAAGCCCACACAAGTTGGTGGCG
385 TGGCACCTTTAGTCCTCAAAGAGCAGGA-GC--TACCTCTTCAAAGCCCACACAAGTTGGTGGCG
* * * *
657145 TCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCCAGTC
447 CCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACCTTTCAGTC
* *
657210 CTCAAAGAGCATGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACC
512 CCCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACC
** *
657257 TTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCAG-TCCT
1 TTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCGATCCT
* * *
657321 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAG
66 CAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAG
* * **
657386 GACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTT
131 GACACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAGAGAGCAGGA--C---AC
* * ** * *
657451 CTTTTCAAATCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAGAGAGCAGGACACCTCTTAAAG
190 CTCTT-AAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACACCTTTTAAAG
* *
657516 CCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGAGACACATTTTCTTTTAAAGCCCACA
253 CCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACACCTTTTCTTTTAAAGCCCACA
* * * * *
657581 CAAGTTGGTGGCACCTTCAGTCCTCAAATACCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTT
318 CAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTT
** *
657646 GGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCTTTGTCTTTTCAAAGCCCACACAAGTTGGTGG
383 GGTGGCACCTTTAGTCCTCAAAGAGCAGGA-GC--TACCTCTTCAAAGCCCACACAAGTTGGTGG
* *
657711 CGTCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCGCC-TTCTA
445 CGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACCTTTC-A
*
657775 GTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACC
509 GTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACC
* *
657825 TTTCAGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCACTTTTCAG-TC
1 TTTCAGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCCGATC
* * * *
657888 CCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGC
64 CTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGC
* *
657953 AGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTT
129 AGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAGAGAGCAGGA--C---
** * * *
658018 TTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAAGACACCTTTCAA
188 ACCTCTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACACCTTTTAA
* *
658083 AGCCCACACAAGTTGGTGGCA-TTTCCAGTCCTCAAAGAGCAGGACA-C----CTTTTAAAGCCC
251 AGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGACACCTTTTCTTTTAAAGCCC
*
658142 ACACAAGTTAGTGGCA
315 ACACAAGTTGGTGGCA
658158 AACCTTCCCA
Statistics
Matches: 1908, Mismatches: 95, Indels: 63
0.92 0.05 0.03
Matches are distributed among these distances:
560 121 0.06
561 66 0.03
562 24 0.01
563 112 0.06
564 32 0.02
566 78 0.04
567 232 0.12
568 843 0.44
569 398 0.21
570 2 0.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (558 bp):
TTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCGATCCT
CAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAG
GACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAGAGAGCAGGACACCTCTTA
AAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACA
AGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACACCTTTTCTTTTAAAGCCCACACAAGTTGG
TGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
CTTTAGTCCTCAAAGAGCAGGAGCTACCTCTTCAAAGCCCACACAAGTTGGTGGCGCCTTCCAGT
CCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACCTTTCAGTCCCCAAAGAG
CAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACC
Found at i:656660 original size:26 final size:26
Alignment explanation
Indices: 656631--656716 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
656621 AAGTTGGTGG
656631 CACCTTTCAGCCCCCAAAGAGCAGGA
1 CACCTTTCAGCCCCCAAAGAGCAGGA
* * **
656657 CACCTTTCAAAGCCCACCCAAGTTGGTGG-
1 CACCTTTC--AGCCC-CCAAAG-AGCAGGA
* *
656686 CACTTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGCCCCCAAAGAGCAGGA
656712 CACCT
1 CACCT
656717 CTTAAAGCCC
Statistics
Matches: 44, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
25 3 0.07
26 17 0.39
27 4 0.09
28 5 0.11
29 12 0.27
30 3 0.07
ACGTcount: A:0.28, C:0.36, G:0.19, T:0.17
Consensus pattern (26 bp):
CACCTTTCAGCCCCCAAAGAGCAGGA
Found at i:657116 original size:622 final size:617
Alignment explanation
Indices: 655560--658157 Score: 3698
Period size: 622 Copynumber: 4.2 Consensus size: 617
655550 CTCCGTCCGC
* *
655560 TTTTCAGTCCTCAAAGAGCAGGAC-ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
1 TTTTCAGTCCTCAAAGAGCAGGACTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
*
655624 CTCAGAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCCCCTTCAGTCCTCAGAGAGCA
66 CTCAGAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAGAGAGCA
* *
655689 GGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAGAGAGCAGGACAC-----
131 GGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACACATTTT
* * *
655749 CTCTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACACATTTTCTTTTA
196 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTA
* * * *
655814 AAGCCCACACAAGTTGGTGGCACCTTAAGTCCTCAAATAGCGGGACGCCTTT-TCTTTTAAAGCC
261 AAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATG-CTTTGTCTTTTAAAGCC
* * * ** *
655878 CACCCAAGTTGGTGGCACCTT-TAGTCCTCAAAGAGCAGGATGCTTTGTCTTTTCAAAGCCCACA
325 CACACAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGA--C---ACCTCTT-AAAGCCCACA
* * * * *
655942 CAAGTTGGTGGTGTCTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACATAAGTTGGTG
384 AAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTG
* * * * *
656007 GCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACCTTTCA
449 GCACCTTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTTCA
** *
656072 GTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAG
514 GTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAG
*
656136 AGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-
579 AGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCAT
* ** * *
656174 TTTTCCGATCCTCAAAGAGCAGGACACCTTTT-AAAGCCCACACAGGTTGGTGGCATTTTTCAGT
1 TTTTCAG-TCCTCAAAGAGCAGGACTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
* ** **
656238 CCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
65 CCTCAGAGAGCAGGA--C---ACCTTTT-AAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTC
656303 AGAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGA
123 AGAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGA
*
656368 CACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAATAGCGGGACGCCTT
188 CACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTT
*
656433 TTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCTTTGTCTTT
253 TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCTTTGTCTTT
*
656498 TCAAAGCCCACACAAGTTGGTGGCGTCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCA
318 T-AAAGCCCACACAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCA
656563 CAAAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGG
382 CAAAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGG
* *
656628 TGGCACCTTTCAGCCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCACTTT
447 TGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTT
656692 TCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCA
511 TCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCA
* *
656757 AAGAGCAGGACACCTTTTAAAGCCCACACAGGCTGGTGGCAT
576 AAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCAT
**
656799 TTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT-
1 TTTTCAGTCCTCAAAGAGCAGGA--C---TTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
*
656863 CAGTCCTCAGAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAGA
61 CAGTCCTCAGAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAGA
656928 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACAC
126 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACAC
* *
656993 ATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTAAGTCCTCAAATAGCGGGACGCCTTTTC
191 ATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTC
*
657058 TTTTAAAGCCCACCCAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCTTTGTCTTTTCA
256 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCTTTGTCTTTT-A
* *
657123 AAGCCCACACAAGTTGGTGGCGTCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAC
320 AAGCCCACACAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAA
*
657188 AAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCATGACACCTCTTAAAGCCCACAAAAGTTGGTGG
385 AAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGG
*
657253 CACCTTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC-CTTCAG
450 CACCTTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTTCAG
*
657317 TCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGA
515 TCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGA
*
657382 GCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCAT
580 GCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCAT
*
657420 TTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAATCCCACACAAGTTGGTGGCATTTTC
1 TTTTCAGTCCTCAAAGAGCAGGA--C---TTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
* *
657485 CAGTCCTCAGAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
61 CAGTCCTCAGAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAGA
* * *
657550 GAGC-GAGACACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAATACCG
126 GAGCAG-GACAC-----CTCTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCG
* * * * * *
657614 GGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATG-
185 GGACACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGC
** *
657678 CTTTGTCTTTTCAAAGCCCACACAAGTTGGTGGCGTCTTCCAGTCCTCAAAGAGCAGGA--C---
250 CTTT-TCTTTT-AAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTCAAAGAGCAGGATGCTTT
** * * *
657738 ACCTCTTAAAGCCCACAAAAGTTGGTGGCGCCTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAA
312 GTCTTTTAAAGCCCACACAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAA
* * * **
657803 GCCCACAAAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCA
377 GCCCACAAAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACAAA
*
657867 AGTTGGTGGCACTTTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGC
441 AGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGC
* * * * * *
657932 A-TTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAG
506 ACTTTT-CAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAA
** *
657996 TCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAC
570 TCCTCAAAGAGCAGGA--C---ACCTTTT-AAAGCCCACACAAGTTGGTGGCAT
* * * *
658050 CTTTCAGTCCTCAAAGAGCAAGAC-ACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTCCAGTC
1 TTTTCAGTCCTCAAAGAGCAGGACTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
* *
658113 CTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTAGTGGCA
66 CTCAGAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
658158 AACCTTCCCA
Statistics
Matches: 1821, Mismatches: 117, Indels: 83
0.90 0.06 0.04
Matches are distributed among these distances:
614 6 0.00
615 61 0.03
616 4 0.00
617 1 0.00
620 5 0.00
621 192 0.11
622 537 0.29
623 429 0.24
624 170 0.09
625 6 0.00
626 10 0.01
627 220 0.12
628 49 0.03
629 64 0.04
630 67 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (617 bp):
TTTTCAGTCCTCAAAGAGCAGGACTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
CTCAGAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAGAGAGCA
GGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACACATTTT
CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTA
AAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCTTTGTCTTTTAAAGCCC
ACACAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTG
GTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACCTT
TCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCCCA
AAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGA
CACCTTTTAAAGCCCACACAAGTTGGTGGCAT
Found at i:657256 original size:29 final size:29
Alignment explanation
Indices: 657224--657312 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 29
657214 AAGAGCATGA
657224 CACCTCTTAAAGCCCACAAAAGTTGGTGG
1 CACCTCTTAAAGCCCACAAAAGTTGGTGG
* ** *
657253 CACCT-TT-CAGTCCC-CAAAGAG-CAG-GA
1 CACCTCTTAAAG-CCCACAAA-AGTTGGTGG
*
657279 CACCTCTTAAAGCCCACACAAGTTGGTGG
1 CACCTCTTAAAGCCCACAAAAGTTGGTGG
657308 CACCT
1 CACCT
657313 TCAGTCCTCA
Statistics
Matches: 44, Mismatches: 9, Indels: 14
0.66 0.13 0.21
Matches are distributed among these distances:
26 6 0.14
27 14 0.32
28 13 0.30
29 11 0.25
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (29 bp):
CACCTCTTAAAGCCCACAAAAGTTGGTGG
Found at i:657824 original size:29 final size:29
Alignment explanation
Indices: 657737--657825 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 29
657727 AAGAGCAGGA
657737 CACCTCTTAAAGCCCACAAAAGTTGGTGG
1 CACCTCTTAAAGCCCACAAAAGTTGGTGG
* * * ** *
657766 CGCCT-TCT--AGTCCTCAAAGAG-CAG-GA
1 CACCTCT-TAAAGCCCACAAA-AGTTGGTGG
657792 CACCTCTTAAAGCCCACAAAAGTTGGTGG
1 CACCTCTTAAAGCCCACAAAAGTTGGTGG
657821 CACCT
1 CACCT
657826 TTCAGTCCCC
Statistics
Matches: 41, Mismatches: 12, Indels: 14
0.61 0.18 0.21
Matches are distributed among these distances:
26 6 0.15
27 12 0.29
28 12 0.29
29 11 0.27
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (29 bp):
CACCTCTTAAAGCCCACAAAAGTTGGTGG
Found at i:657850 original size:26 final size:26
Alignment explanation
Indices: 657821--657906 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
657811 AAGTTGGTGG
657821 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCCCAAAGAGCAGGA
* * * **
657847 CACCTTTCAAAGCCCACCCAAGTTGGTGG-
1 CACCTTTC--AGTCC-CCAAAG-AGCAGGA
*
657876 CACTTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCCCAAAGAGCAGGA
657902 CACCT
1 CACCT
657907 CTTAAAGCCC
Statistics
Matches: 43, Mismatches: 12, Indels: 10
0.66 0.18 0.15
Matches are distributed among these distances:
25 3 0.07
26 17 0.40
27 4 0.09
28 4 0.09
29 12 0.28
30 3 0.07
ACGTcount: A:0.28, C:0.35, G:0.19, T:0.19
Consensus pattern (26 bp):
CACCTTTCAGTCCCCAAAGAGCAGGA
Found at i:658530 original size:21 final size:21
Alignment explanation
Indices: 658506--658558 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
658496 GGGGACGAAT
658506 TGTATCGATACATTGTTTGAA
1 TGTATCGATACATTGTTTGAA
658527 TGTATCGATACATTGTTTGAA
1 TGTATCGATACATTGTTTGAA
658548 TGTATCGATAC
1 TGTATCGATAC
658559 TAATTTTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTGTTTGAA
Found at i:658781 original size:19 final size:19
Alignment explanation
Indices: 658757--658824 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
658747 AATTCAACGA
658757 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
658776 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
658791 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
658808 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
658825 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:658795 original size:32 final size:32
Alignment explanation
Indices: 658759--658821 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
658749 TTCAACGATT
*
658759 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
658791 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
658822 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:658796 original size:13 final size:13
Alignment explanation
Indices: 658778--658802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
658768 ACATAAGTTT
658778 TGTATCGATACAA
1 TGTATCGATACAA
658791 TGTATCGATACA
1 TGTATCGATACA
658803 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:658882 original size:13 final size:13
Alignment explanation
Indices: 658864--658889 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
658854 CATTTTTCTG
658864 TGTATCGATACAT
1 TGTATCGATACAT
658877 TGTATCGATACAT
1 TGTATCGATACAT
658890 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:658886 original size:33 final size:33
Alignment explanation
Indices: 658844--658910 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
658834 GCCAAGGAAA
***
658844 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
658877 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
658910 T
1 T
658911 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:661495 original size:52 final size:51
Alignment explanation
Indices: 661422--661591 Score: 175
Period size: 52 Copynumber: 3.3 Consensus size: 51
661412 TTATTTCCGA
*
661422 GGGGATACTCCAACTCCGGTTTTATCGCTAAAACACTAATTTTTCCATAATC
1 GGGGATACTCCAACTCCGGTTTTATC-CTAAAACACCAATTTTTCCATAATC
** * *
661474 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTATCCT-AAAACACCAATTTTTCC-ATAATC
* * * *
661526 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTA--TCCTAAAACACCAATTTTTCCATAATC
*
661578 GAGGATACTCCAAC
1 GGGGATACTCCAAC
661592 CTCGTTATTT
Statistics
Matches: 97, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
51 10 0.10
52 70 0.72
53 12 0.12
54 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGGTTTTATCCTAAAACACCAATTTTTCCATAATC
Found at i:661578 original size:104 final size:103
Alignment explanation
Indices: 661254--661590 Score: 299
Period size: 104 Copynumber: 3.2 Consensus size: 103
661244 ATCAATTCTC
* * * *
661254 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGGGGATACTCCAA-TCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
661318 ACTCTAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCC--AAAAACACCAATTT-TT
* * * ** * * ** * *
661360 CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGAGATACTCCAA--CCCCGTTATTTCCGA
1 CACAATCGGGGATACTCCAATCCGGTTTTATTTTC--A-AAACACCAATTTTCCTTTA-AT-C--
* * *
661422 GGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAATTTTT
59 GGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAATTTTT
* *
661466 CCATAATCGGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGGGGATACTCCAATCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
*
661531 TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
*
661571 CACAATCGAGGATACTCCAA
1 CACAATCGGGGATACTCCAA
661591 CCTCGTTATT
Statistics
Matches: 178, Mismatches: 37, Indels: 34
0.71 0.15 0.14
Matches are distributed among these distances:
104 47 0.26
105 16 0.09
106 35 0.20
107 42 0.24
108 9 0.05
109 7 0.04
110 22 0.12
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (103 bp):
CACAATCGGGGATACTCCAATCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:661611 original size:28 final size:28
Alignment explanation
Indices: 661575--661651 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
661565 ATTTTTCACA
* * *
661575 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
661603 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
661631 CGGGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
661652 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.22, C:0.34, G:0.21, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:661640 original size:212 final size:212
Alignment explanation
Indices: 661249--661698 Score: 622
Period size: 212 Copynumber: 2.1 Consensus size: 212
661239 AGTTTATCAA
* * *
661249 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGG
1 TTCTCCATAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGG
* *
661314 GGATACTCTAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTCCA
66 GGATACTCCAACTCCGATTTTATTTCC-AAAAAACACCAATTTCTTCACAATCGAGGATACTCCA
* * *
661379 ACCCCGTTAATCATCGGAGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGGTTT
130 ACCCCGTTAATCATCGGAGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTT
*
661444 TA-TCGCTAAAACACTAAT
195 TATTC-CCAAAACACTAAT
* * * *
661462 TTTTCCATAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATC
1 TTCTCCATAATCGGGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATC
*
661526 GGGGATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCC
64 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCC
* * * *
661589 AACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGGGGGGATACTCCAACCCCGGC
129 AACCCCGTTA-ATCATCGGAGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGC
* * *
661654 TTTATTCCCAAAATATTGAT
193 TTTATTCCCAAAACACTAAT
*
661674 TTCT-CATAATTGGGGATACTCCAAC
1 TTCTCCATAATCGGGGATACTCCAAC
661699 CCCGTTATTT
Statistics
Matches: 209, Mismatches: 23, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
211 47 0.22
212 80 0.38
213 47 0.22
214 35 0.17
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (212 bp):
TTCTCCATAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGG
GGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAA
CCCCGTTAATCATCGGAGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
ATTCCCAAAACACTAAT
Found at i:661718 original size:107 final size:107
Alignment explanation
Indices: 661312--661730 Score: 271
Period size: 107 Copynumber: 3.9 Consensus size: 107
661302 TTCTATAATC
* * * * *
661312 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTC
1 GGGGATACTCCAACCCCGACTTTATTTCC--AAAAATACCAATTTC-TCACAATCGAGGATACTC
* * * * *
661377 CAACCCCGTTAATCATCGGAGATACTCCAACCCCGTTATTTCCGA
63 CAACCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGG
* * * * * * * * *
661422 GGGGATACTCCAACTCCG-GTTT-TATCGCTAAAACACTAATTTTTCCATAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGACTTTATTTC-CAAAAATACCAATTTCT-CACAATCGAGGATACTCC
* * * ***** * * ** * *
661485 AATCCTGGT-TTTATTTTCAAAACGCCAATTTTCCTTTA-AT-C--
64 AACCCCGTTATTTATCGGGGATACTCCAA--CCCCGTTACTTCCGG
* * *
661526 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
661591 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGG
66 CCCCGTTATTT-ATCGGGGATACTCCAACCCCGTTACTTCCGG
* * *** * * *
661634 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
661698 CCCCGTTATTT-TCGAAGGGATACTCCAATCCCG
66 CCCCGTTATTTATCG--GGGATACTCCAACCCCG
661731 ATTTTTTTTC
Statistics
Matches: 237, Mismatches: 58, Indels: 31
0.73 0.18 0.10
Matches are distributed among these distances:
104 44 0.19
105 24 0.10
106 25 0.11
107 94 0.40
108 29 0.12
109 4 0.02
110 17 0.07
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGG
Found at i:674249 original size:16 final size:14
Alignment explanation
Indices: 674228--674266 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 14
674218 CATTCTCTTC
674228 AAAAAAAAAGGCAAA
1 AAAAAAAAAGG-AAA
674243 AAAAAAAAAGGAAA
1 AAAAAAAAAGGAAA
674257 AAAACAAAAA
1 AAAA-AAAAA
674267 AACAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGGAAA
Found at i:674258 original size:22 final size:22
Alignment explanation
Indices: 674230--674273 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
674220 TTCTCTTCAA
674230 AAAAAAAGGCAAAAAAAAAAAAGG
1 AAAAAAA--CAAAAAAAAAAAAGG
*
674254 AAAAAAACAAAAAAACAAAA
1 AAAAAAACAAAAAAAAAAAA
674274 CAAAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
24 7 0.37
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (22 bp):
AAAAAAACAAAAAAAAAAAAGG
Found at i:674282 original size:22 final size:22
Alignment explanation
Indices: 674230--674282 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
674220 TTCTCTTCAA
*
674230 AAAAAAAGGCAAAAAAAAAAAAGG
1 AAAAAAA--CAAAAAAAAAAAAGC
*
674254 AAAAAAACAAAAAAACAAAA-C
1 AAAAAAACAAAAAAAAAAAAGC
674275 AAAGAAAA
1 AAA-AAAA
674283 AGAGAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 3 0.12
22 16 0.62
24 7 0.27
ACGTcount: A:0.83, C:0.08, G:0.09, T:0.00
Consensus pattern (22 bp):
AAAAAAACAAAAAAAAAAAAGC
Found at i:675310 original size:55 final size:54
Alignment explanation
Indices: 675221--676573 Score: 1487
Period size: 55 Copynumber: 24.0 Consensus size: 54
675211 TCCGTCCGCT
*
675221 TTTCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCAC
675275 TTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
1 TTT-CAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
* *
675330 CTTCAGTCCTCAGAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
* * * *
675384 CTTCAGTCCTCAAAGAGCGGGACACATTTTCTTTTAAAGCCCACACAAGTTGGTGCCAC
1 TTTCAGTCCTCAAAGAGCAGGACAC-----CTCTTAAAGCCCACACAAGTTGGTGGCAC
* * * * *
675443 CTTCAGTCCTCAAATAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCA-C
** * * *
675503 TTT-AGTCCTCAAAGAGCAGGATGCTTTGTCTTTTCAAAGCCCATACAAGTTGGTGGCGTC
1 TTTCAGTCCTCAAAGAGCAGGA--C---ACCTCTT-AAAGCCCACACAAGTTGGTGGC-AC
* *
675563 TTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCC
1 TTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGC-AC
* *
675618 TTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-C
* *
675673 TTTCAGTCCCCAAAGAGTAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
* * *
675727 CTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCCCACAAGTTGGTGGCAT
1 TTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
* * * *
675781 TTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATT
1 TTT-CAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-C
** * *
675837 TTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCAGTCCTCAAAGAGCAGGA--C---ACCTCTT-AAAGCCCACACAAGTTGGTGGCAC
*
675897 TTTCCAGTCCTCAGAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
1 TTT-CAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
* * *
675952 CTTCAGTCCTCAAAGAGCGGGACACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACAC-----CTCTTAAAGCCCACACAAGTTGGTGGCAC
* * * * * *
676011 CTTCAGTCCTCAAATAGCGGGACGCCTTTTCTTTTAAAGCCTACCCAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCA-C
** * *
676071 TTT-AGTCCTCAAAGAGCAGGATGCTTTGTCTTTTCAAAGCCCACACAAGTTGGTGGCGTC
1 TTTCAGTCCTCAAAGAGCAGGA--C---ACCTCTT-AAAGCCCACACAAGTTGGTGGC-AC
* *
676131 TTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCC
1 TTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGC-AC
* *
676186 TTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACAAAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-C
* *
676241 TTTCAGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCAC
*
676295 TTTTCAGTCC-CTAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAT
1 -TTTCAGTCCTC-AAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
* * * *
676350 TTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATT
1 TTT-CAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-C
** *
676406 TTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGA--C---ACCTCTT-AAAGCCCACACAAGTTGGTGGCA-C
*
676467 TTTCAGTCCTCAAAGAGCAAGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-
1 TTTCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCAC
* *
676520 TTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTAGTGGCA
1 TTT-CAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
676574 AACCTTCCCA
Statistics
Matches: 1138, Mismatches: 95, Indels: 132
0.83 0.07 0.10
Matches are distributed among these distances:
53 3 0.00
54 202 0.18
55 522 0.46
56 27 0.02
57 4 0.00
59 187 0.16
60 66 0.06
61 123 0.11
64 4 0.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (54 bp):
TTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
Found at i:675672 original size:29 final size:29
Alignment explanation
Indices: 675640--675728 Score: 89
Period size: 27 Copynumber: 3.2 Consensus size: 29
675630 AAGAGCAGGA
675640 CACCTCTTAAAGCCCACAAAAGTTGGTGG
1 CACCTCTTAAAGCCCACAAAAGTTGGTGG
* * *
675669 CACCT-TT-CAGTCCC-CAAAGAG-TAG-GA
1 CACCTCTTAAAG-CCCACAAA-AGTTGGTGG
*
675695 CACCTCTTAAAGCCCACACAAGTTGGTGG
1 CACCTCTTAAAGCCCACAAAAGTTGGTGG
675724 CACCT
1 CACCT
675729 TCAGTCCTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
26 6 0.13
27 15 0.33
28 14 0.30
29 11 0.24
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.20
Consensus pattern (29 bp):
CACCTCTTAAAGCCCACAAAAGTTGGTGG
Found at i:676278 original size:26 final size:26
Alignment explanation
Indices: 676196--676278 Score: 60
Period size: 26 Copynumber: 3.1 Consensus size: 26
676186 TTCCAGTCCT
676196 CAAAGAGCAGGACACCTCTT-AAAGCC
1 CAAAGAGCAGGACACCT-TTCAAAGCC
* ** * ***
676222 CACAAAAGTTGGTGGCACCTTTCAGTCCC
1 CA-AAGAG-CAG-GACACCTTTCAAAGCC
676251 CAAAGAGCAGGACACCTTTCAAAGCC
1 CAAAGAGCAGGACACCTTTCAAAGCC
676277 CA
1 CA
676279 CCCAAGTTGG
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
26 16 0.41
27 5 0.13
28 7 0.18
29 11 0.28
ACGTcount: A:0.34, C:0.31, G:0.19, T:0.16
Consensus pattern (26 bp):
CAAAGAGCAGGACACCTTTCAAAGCC
Found at i:676946 original size:21 final size:21
Alignment explanation
Indices: 676922--676974 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
676912 GGGGACGAAT
676922 TGTATCGATACATTGTTTGAA
1 TGTATCGATACATTGTTTGAA
676943 TGTATCGATACATTGTTTGAA
1 TGTATCGATACATTGTTTGAA
676964 TGTATCGATAC
1 TGTATCGATAC
676975 TAATTTTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTGTTTGAA
Found at i:677197 original size:19 final size:19
Alignment explanation
Indices: 677173--677240 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
677163 AATTCAACGA
677173 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
677192 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
677207 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
677224 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
677241 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:677211 original size:32 final size:32
Alignment explanation
Indices: 677175--677237 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
677165 TTCAACGATT
*
677175 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
677207 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
677238 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:677212 original size:13 final size:13
Alignment explanation
Indices: 677194--677218 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
677184 ACATAAGTTT
677194 TGTATCGATACAA
1 TGTATCGATACAA
677207 TGTATCGATACA
1 TGTATCGATACA
677219 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:677298 original size:13 final size:13
Alignment explanation
Indices: 677280--677305 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
677270 CATTTTTCTG
677280 TGTATCGATACAT
1 TGTATCGATACAT
677293 TGTATCGATACAT
1 TGTATCGATACAT
677306 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:677302 original size:33 final size:33
Alignment explanation
Indices: 677260--677326 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
677250 GCCAAGGAAA
***
677260 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
677293 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
677326 T
1 T
677327 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:679893 original size:107 final size:104
Alignment explanation
Indices: 679728--680121 Score: 305
Period size: 107 Copynumber: 3.7 Consensus size: 104
679718 TTCTATAATC
* *
679728 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTC
1 GGGGATACTCCAACTCCGGTTTTA-TTCC--AAAAACACCAATTT-TTCACAATCGGGGATACTC
679793 CAACCCCGTTAATCATCGGAGATACTCCAACCCCGTTATTTCCG
62 CAACCCCGTTAATCATCGGAGATACTCCAACCCCGTTA-TTCCG
* *
679837 AGGGGATACTCCAACTCCGGTTTTA-TCGCTAAAACACTAATTTTTCCACAATCGGGGATACTCC
1 -GGGGATACTCCAACTCCGGTTTTATTC-CAAAAACACCAATTTTT-CACAATCGGGGATACTCC
** * ** * * ** * *
679901 AATCCTGGTTTTATTTTC--A-AAACGCCAATTTTCCTTTAAT-C-
63 AA-CCCCG-TTAATCATCGGAGATACTCCAA--CCCCGTTATTCCG
* * * **
679942 GGGGATACTCGAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCAAGGATACTCCAA
1 GGGGATACTCCAACTCCGGTTTTA-TTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
* * *
680007 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGG
65 CCCCGTTA-ATCATCGGAGATACTCCAACCCCGTTA-TTCC-G
* * * * *** * * *
680050 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACTCCGGTTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
680115 CCCGTTA
66 CCCGTTA
680122 TTTTCGAAGG
Statistics
Matches: 220, Mismatches: 48, Indels: 35
0.73 0.16 0.12
Matches are distributed among these distances:
102 2 0.01
103 7 0.03
104 45 0.20
105 15 0.07
106 20 0.09
107 72 0.33
108 30 0.14
109 7 0.03
110 22 0.10
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.30
Consensus pattern (104 bp):
GGGGATACTCCAACTCCGGTTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTAATCATCGGAGATACTCCAACCCCGTTATTCCG
Found at i:679923 original size:52 final size:53
Alignment explanation
Indices: 679838--680007 Score: 172
Period size: 52 Copynumber: 3.3 Consensus size: 53
679828 TTATTTCCGA
* *
679838 GGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTATTTC-CAAAAACACCAATTTTTCCACAATC
* * **
679890 GGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTATTTCCAAAAACACCAATTTTTCC-ACAATC
* * *
679942 GGGGATACTCGAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTATTTCCAAAAACACCAATTTTTCCACAATC
**
679994 AAGGATACTCCAAC
1 GGGGATACTCCAAC
680008 CTCGTTATTT
Statistics
Matches: 96, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
51 9 0.09
52 69 0.72
53 13 0.14
54 5 0.05
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (53 bp):
GGGGATACTCCAACTCCGGTTTTATTTCCAAAAACACCAATTTTTCCACAATC
Found at i:680028 original size:28 final size:28
Alignment explanation
Indices: 679996--680067 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
679986 TCACAATCAA
* * *
679996 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGCGG
* *
680024 GGATACTCCAACCCCGTTACTTCCGGGG
1 GGATACTCCAACCCCGTTACTTCAGCGG
680052 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
680068 GCTTTATTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.21, C:0.35, G:0.21, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGCGG
Found at i:680056 original size:212 final size:212
Alignment explanation
Indices: 679668--680074 Score: 613
Period size: 212 Copynumber: 1.9 Consensus size: 212
679658 TTATCAATTC
* *
679668 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* **
679733 TACTCTAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
66 TACTCGAACTCCGATTTTATTTCC-AAAAAACACCAATTTCTTCACAATCAAGGATACTCCAACC
* * *
679798 CCGTTAATCATCGGAGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGGTTTTAT
130 CCGTTAATCATCGGAGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTAT
679863 CGCTAAAACACTAATTTT
195 CGCTAAAACACTAATTTT
* * *
679881 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
679945 GATACTCGAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCAAGGATACTCCAAC
64 GATACTCGAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCAAGGATACTCCAAC
* * * *
680008 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGGGGGGATACTCCAACCCCGGCTTT
129 CCCGTTA-ATCATCGGAGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
680073 AT
193 AT
680075 TCCCAAAATA
Statistics
Matches: 175, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
211 27 0.15
212 69 0.39
213 44 0.25
214 35 0.20
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (212 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCGAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCAAGGATACTCCAACCC
CGTTAATCATCGGAGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
GCTAAAACACTAATTTT
Found at i:681236 original size:13 final size:13
Alignment explanation
Indices: 681218--681242 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
681208 ACAACACTTA
681218 TGTATCGATACAT
1 TGTATCGATACAT
681231 TGTATCGATACA
1 TGTATCGATACA
681243 AATCATTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:682370 original size:3 final size:3
Alignment explanation
Indices: 682362--682406 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
682352 TTAACTTTTC
*
682362 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CTT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
682407 TATCTTTGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (3 bp):
CAT
Found at i:682411 original size:9 final size:9
Alignment explanation
Indices: 682362--682412 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
682352 TTAACTTTTC
*
682362 CATCATCAT
1 CATCTTCAT
*
682371 CATCATCAT
1 CATCTTCAT
*
682380 CATCATCAT
1 CATCTTCAT
*
682389 CATCATCAT
1 CATCTTCAT
682398 CATCTTCAT
1 CATCTTCAT
*
682407 TATCTT
1 CATCTT
682413 TGATGGTTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.39
Consensus pattern (9 bp):
CATCTTCAT
Found at i:684114 original size:19 final size:19
Alignment explanation
Indices: 684071--684126 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
684061 CTGCAAGTTT
684071 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAG
* *
684091 TATGTATCGGTACAATGAG
1 CATGTATCGATACAATGAG
684110 CATGTATCGATACAATG
1 CATGTATCGATACAATG
684127 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:684129 original size:13 final size:13
Alignment explanation
Indices: 684111--684137 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
684101 TACAATGAGC
684111 ATGTATCGATACA
1 ATGTATCGATACA
684124 ATGTATCGATACA
1 ATGTATCGATACA
684137 A
1 A
684138 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:686757 original size:20 final size:21
Alignment explanation
Indices: 686722--686760 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
686712 AGGTTAAAAC
686722 CCTAGAAAGAATCGATACAAG
1 CCTAGAAAGAATCGATACAAG
*
686743 CCTAG-AAGTATCGATACA
1 CCTAGAAAGAATCGATACA
686761 TATTGCTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.18
Consensus pattern (21 bp):
CCTAGAAAGAATCGATACAAG
Found at i:686792 original size:19 final size:21
Alignment explanation
Indices: 686750--686802 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
686740 AAGCCTAGAA
*
686750 GTATCGATACAT-ATTGCTTT
1 GTATCGATACATGATTGCATT
686770 GTATCGATACATGA-T-CATT
1 GTATCGATACATGATTGCATT
686789 GTATCGATACATGA
1 GTATCGATACATGA
686803 AACTGGCAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 17 0.55
20 13 0.42
21 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
GTATCGATACATGATTGCATT
Found at i:686884 original size:20 final size:20
Alignment explanation
Indices: 686859--686896 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
686849 ATTGTATCAA
686859 TAAAATGTATCGATACATAG
1 TAAAATGTATCGATACATAG
686879 TAAAATGTATCGATACAT
1 TAAAATGTATCGATACAT
686897 TGTGCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (20 bp):
TAAAATGTATCGATACATAG
Found at i:698500 original size:80 final size:79
Alignment explanation
Indices: 698308--698608 Score: 308
Period size: 80 Copynumber: 3.8 Consensus size: 79
698298 ATGAGCACTC
* * * * * *
698308 CAACCCCATTTTTACTTTCAAAATATTGAATTTTTCATCTCTGGGTATGCTCCAACCCCACCATC
1 CAACCCCATTTTTACTTCCAAAACACTGAATTTTTCATCTCCGGGGATACTCCAACCCCACCATC
698373 TCCAAGGCGATAC-T
66 TCCAAGG-GATACTT
* * *
698387 C-A---CATTTTTACCTCTAAAACACTGAATTTTTCGTCTCCGGGGATACTCCAACCCCACCATC
1 CAACCCCATTTTTACTTCCAAAACACTGAATTTTTCATCTCCGGGGATACTCCAACCCCACCATC
698448 TCCAAGGGAATACTT
66 TCCAAGGG-ATACTT
* ** ** *
698463 CAACCCCATTTTTACTTCCAAAACACTGAATTTTTCGTCTCCGAAGATACTCCAGTCCCACTATC
1 CAACCCCATTTTTACTTCCAAAACACTGAATTTTTCATCTCCGGGGATACTCCAACCCCACCATC
* *
698528 TTCGAAGGGATACTC
66 -TCCAAGGGATACTT
* * ** * * *
698543 CAACCTCACTTTTACTTCC-AAACTACCAAATTTTTCATCTCCGGGTATTCTTCAACCCCACCAT
1 CAACCCCATTTTTACTTCCAAAAC-ACTGAATTTTTCATCTCCGGGGATACTCCAACCCCACCAT
698607 CT
65 CT
698609 TCGAAGATAT
Statistics
Matches: 183, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
74 1 0.01
75 61 0.33
76 2 0.01
77 1 0.01
78 1 0.01
79 6 0.03
80 104 0.57
81 7 0.04
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.31
Consensus pattern (79 bp):
CAACCCCATTTTTACTTCCAAAACACTGAATTTTTCATCTCCGGGGATACTCCAACCCCACCATC
TCCAAGGGATACTT
Found at i:701339 original size:156 final size:156
Alignment explanation
Indices: 700938--701326 Score: 430
Period size: 156 Copynumber: 2.5 Consensus size: 156
700928 AAGAGTGATG
* ** * *
700938 ACCTAGGATTCAATTCT-AAAAAATTACAAAAATACCCTTAGAGGATACCTTCAACGTAGAAGTG
1 ACCTAGGACTCAATTCTGAAAAAATTATGAAAATACCCTTAGGGGATACCTTCAACATAGAAGTG
** * * *
701002 TTCGATA-CCTCTAAAAGACTTAAAAAGGATTATAGATAGGATGAACCTATCCTAAATACCCACT
66 CCCGATACCCT-TAAAGGACTTAAAAAGGATTATAGATAGGATGAACCTATCCTAAAAACCCACC
* *
701066 TTTAGCATAAAAGCAGACTCGATGACA
130 TTCAGCATAAAAGCAGACTCGATAACA
* * * ** * *
701093 ACCTAGGACTTAGTTC-GAAAAAATTATGAAAATGCCCCCAAGGGATACCTTCGACATAGAAGTG
1 ACCTAGGACTCAATTCTGAAAAAATTATGAAAATACCCTTAGGGGATACCTTCAACATAGAAGTG
* * * *
701157 CCTGATTATCCC-TAAAGGACTTAAAAAGTATTATATATGGGATGAACCTATCCTAAAAACCCAC
66 CCCGA-TA-CCCTTAAAGGACTTAAAAAGGATTATAGATAGGATGAACCTATCCTAAAAACCCAC
* * *
701221 CTTCGGCATAAAAAGGA-ACCTCG-TAATA
129 CTTCAGCAT-AAAAGCAGA-CTCGATAACA
* * *
701249 ACCTAGGACTCGATTCTGAAAAAATTATGAAAATACCCTTAGGGGATACCTTCAACTTAGAAGTA
1 ACCTAGGACTCAATTCTGAAAAAATTATGAAAATACCCTTAGGGGATACCTTCAACATAGAAGTG
701314 CCCGATACCCTTA
66 CCCGATACCCTTA
701327 CAGGGCTCAA
Statistics
Matches: 189, Mismatches: 37, Indels: 15
0.78 0.15 0.06
Matches are distributed among these distances:
155 56 0.30
156 76 0.40
157 55 0.29
158 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (156 bp):
ACCTAGGACTCAATTCTGAAAAAATTATGAAAATACCCTTAGGGGATACCTTCAACATAGAAGTG
CCCGATACCCTTAAAGGACTTAAAAAGGATTATAGATAGGATGAACCTATCCTAAAAACCCACCT
TCAGCATAAAAGCAGACTCGATAACA
Found at i:701876 original size:165 final size:162
Alignment explanation
Indices: 701689--702036 Score: 540
Period size: 165 Copynumber: 2.1 Consensus size: 162
701679 ACCCTTACAA
* * *
701689 ATAACCATAGGAATACTAGAAGTTATAGAAACATCAAAGATTTGTTTTTAAAAGGTTCG-TGTTA
1 ATAACCATAAGAATAATAGAAGTTATAGAAACATCAAAGATTTATTTTTAAAAGGTTCGAT-TTA
* *
701753 TTATTATTTATTTTTATTTTATTATAAAAAAAGCCATTTCGCA-CTCGACGAAAAACCGAGAGGA
65 TTATTATTTATTTTTATTTTATTATAAAAAAAACCATTTCACACCT-GACG-AAAACCGAGAGGA
701817 TACGAAAGGTTTTGAATATTTCCCCATA-CTCTTACGG
128 TACGAAAGGTTTTGAATATTT--CCATATCT-TTACGG
* * *
701854 ATAACCATAAGAATATTAGAAGTTATAGAAACATGAAAGATTTATTTTTACAAGGTTCGATTTAT
1 ATAACCATAAGAATAATAGAAGTTATAGAAACATCAAAGATTTATTTTTAAAAGGTTCGATTTAT
701919 TATTATTTATTTTTATTTTATTATAAAAAAAACCATTTCACACCTGACGAAAACCGAGAGGATAC
66 TATTATTTATTTTTATTTTATTATAAAAAAAACCATTTCACACCTGACGAAAACCGAGAGGATAC
*
701984 GAAAGGTTTTGAATATTTCTATATCTTTACGG
131 GAAAGGTTTTGAATATTTCCATATCTTTACGG
702016 ATAACCATAAGAATAATAGAA
1 ATAACCATAAGAATAATAGAA
702037 ATATATATAA
Statistics
Matches: 171, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
162 30 0.18
163 2 0.01
164 34 0.20
165 102 0.60
166 3 0.02
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (162 bp):
ATAACCATAAGAATAATAGAAGTTATAGAAACATCAAAGATTTATTTTTAAAAGGTTCGATTTAT
TATTATTTATTTTTATTTTATTATAAAAAAAACCATTTCACACCTGACGAAAACCGAGAGGATAC
GAAAGGTTTTGAATATTTCCATATCTTTACGG
Found at i:703321 original size:13 final size:13
Alignment explanation
Indices: 703303--703329 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
703293 TATAATAAAC
703303 ATGTATCGATACA
1 ATGTATCGATACA
703316 ATGTATCGATACA
1 ATGTATCGATACA
703329 A
1 A
703330 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:704428 original size:13 final size:13
Alignment explanation
Indices: 704410--704434 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
704400 ATTACTTAAA
704410 TGTATCGATACAT
1 TGTATCGATACAT
704423 TGTATCGATACA
1 TGTATCGATACA
704435 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:709303 original size:13 final size:13
Alignment explanation
Indices: 709285--709321 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
709275 GTAACCCATG
709285 TATCGATACAATC
1 TATCGATACAATC
*
709298 TATCGATACAATG
1 TATCGATACAATC
*
709311 TATTGATACAA
1 TATCGATACAA
709322 AGAACATTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (13 bp):
TATCGATACAATC
Found at i:715048 original size:33 final size:33
Alignment explanation
Indices: 715010--715076 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
715000 AAGTGCACTA
*
715010 AAGTGCTCA-TCCATGCGCTGC-AAGAGTGAAGTG
1 AAGTGCTCACT-CATGCGCTGCGAA-AGTAAAGTG
*
715043 AAGTGCTCACTCATGTGCTGCGAAAGTAAAGTG
1 AAGTGCTCACTCATGCGCTGCGAAAGTAAAGTG
715076 A
1 A
715077 TCAACTCTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.22
Consensus pattern (33 bp):
AAGTGCTCACTCATGCGCTGCGAAAGTAAAGTG
Found at i:721825 original size:19 final size:19
Alignment explanation
Indices: 721801--721912 Score: 122
Period size: 19 Copynumber: 6.5 Consensus size: 19
721791 ACAGTAACTA
721801 TATCGATACATAAGTGTTG
1 TATCGATACATAAGTGTTG
721820 TATCGATAC--AA----TG
1 TATCGATACATAAGTGTTG
*
721833 TATCGATACATAGGTGTTG
1 TATCGATACATAAGTGTTG
721852 TATCGATACATAAGTGTTG
1 TATCGATACATAAGTGTTG
*
721871 TATC-A-ATATAA----TG
1 TATCGATACATAAGTGTTG
721884 TATCGATACATAAGTGTTG
1 TATCGATACATAAGTGTTG
721903 TATCGATACA
1 TATCGATACA
721913 ATGTATCGCT
Statistics
Matches: 77, Mismatches: 4, Indels: 24
0.73 0.04 0.23
Matches are distributed among these distances:
13 17 0.22
14 1 0.01
15 6 0.08
17 7 0.09
18 1 0.01
19 45 0.58
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.36
Consensus pattern (19 bp):
TATCGATACATAAGTGTTG
Found at i:721836 original size:13 final size:13
Alignment explanation
Indices: 721818--721842 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
721808 ACATAAGTGT
721818 TGTATCGATACAA
1 TGTATCGATACAA
721831 TGTATCGATACA
1 TGTATCGATACA
721843 TAGGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:721837 original size:32 final size:32
Alignment explanation
Indices: 721801--721861 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
721791 ACAGTAACTA
721801 TATCGATACATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
*
721833 TATCGATACATAGGTGTTGTATCGATACA
1 TATCGATACATAAGTGTTGTATCGATACA
721862 TAAGTGTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (32 bp):
TATCGATACATAAGTGTTGTATCGATACAATG
Found at i:721863 original size:51 final size:51
Alignment explanation
Indices: 721801--721912 Score: 197
Period size: 51 Copynumber: 2.2 Consensus size: 51
721791 ACAGTAACTA
* *
721801 TATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAGGTGTTG
1 TATCGATACATAAGTGTTGTATCAATACAATGTATCGATACATAAGTGTTG
*
721852 TATCGATACATAAGTGTTGTATCAATATAATGTATCGATACATAAGTGTTG
1 TATCGATACATAAGTGTTGTATCAATACAATGTATCGATACATAAGTGTTG
721903 TATCGATACA
1 TATCGATACA
721913 ATGTATCGCT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.36
Consensus pattern (51 bp):
TATCGATACATAAGTGTTGTATCAATACAATGTATCGATACATAAGTGTTG
Found at i:721886 original size:32 final size:32
Alignment explanation
Indices: 721850--721920 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
721840 ACATAGGTGT
*
721850 TGTATCGATACATAAGTGTTGTATCAATATAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
*
721882 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
721914 TGTATCG
1 TGTATCG
721921 CTACGAAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCAATACAA
Found at i:722041 original size:20 final size:21
Alignment explanation
Indices: 722008--722049 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
721998 TCTGAAAATT
722008 TTACTCAGATGTATCGATACA
1 TTACTCAGATGTATCGATACA
722029 TTACTCA-ATGTATCGATACA
1 TTACTCAGATGTATCGATACA
722049 T
1 T
722050 GTAGGCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (21 bp):
TTACTCAGATGTATCGATACA
Found at i:727052 original size:26 final size:26
Alignment explanation
Indices: 727016--727067 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
727006 TAGGCATCCG
727016 ATCATGCCTAGCCCGAAATGATCGGT
1 ATCATGCCTAGCCCGAAATGATCGGT
727042 ATCATGCCTAGCCCGAAATGATCGGT
1 ATCATGCCTAGCCCGAAATGATCGGT
727068 GGCGACTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (26 bp):
ATCATGCCTAGCCCGAAATGATCGGT
Found at i:727249 original size:252 final size:252
Alignment explanation
Indices: 726790--727256 Score: 808
Period size: 252 Copynumber: 1.9 Consensus size: 252
726780 TGGGCATCCG
*
726790 ATCATGCCTAGCCCGAAATGATCGGTGGCGACTCCAAAATTTTGGTCACTTCGTAGTGACCATTG
1 ATCATGCCTAGCCCGAAATGATCGGTGGCGACTCCAAAATTTCGGTCACTTCGTAGTGACCATTG
*
726855 AAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCCCTTTAATCAACATACTTTTCATCAT
66 AAGATCAATTAGATGGGCGATTCATCTACTAATCTTCCCCCTTTAATCAACATACTTTTCATCAT
* * *
726920 GCCACAGAAATCCCCAATCGCTAGGGATATTAAGTCGAGCGCGCCTCATTTACCCTATCGCCGAG
131 GCCACAGAAATCCCCAATCGCGAGGGATATTAAGTCGAGCACGCCTCATTTACCCTATCACCGAG
* *
726985 GTCGAGCGCACGTTACGACAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGT
196 GTCCAACGCACGTTACGACAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGT
727042 ATCATGCCTAGCCCGAAATGATCGGTGGCGACTCCAAAATTTCGGTCACTTCGTAGTGACCATTG
1 ATCATGCCTAGCCCGAAATGATCGGTGGCGACTCCAAAATTTCGGTCACTTCGTAGTGACCATTG
* *
727107 AAGATCAATTAGATGGGCGATTCATCTACTAATCTTCTCCCTTTAATCAACATACTTTTCGTCAT
66 AAGATCAATTAGATGGGCGATTCATCTACTAATCTTCCCCCTTTAATCAACATACTTTTCATCAT
* * * * *
727172 GCCACATAAATCCCCAATCGCGAGGGATATTAAGTCGGGCACGCCTCATTTGCCCTATCACTGGG
131 GCCACAGAAATCCCCAATCGCGAGGGATATTAAGTCGAGCACGCCTCATTTACCCTATCACCGAG
727237 GTCCAACGCACGTTACGACA
196 GTCCAACGCACGTTACGACA
727257 GCTTGGCGAC
Statistics
Matches: 201, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
252 201 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (252 bp):
ATCATGCCTAGCCCGAAATGATCGGTGGCGACTCCAAAATTTCGGTCACTTCGTAGTGACCATTG
AAGATCAATTAGATGGGCGATTCATCTACTAATCTTCCCCCTTTAATCAACATACTTTTCATCAT
GCCACAGAAATCCCCAATCGCGAGGGATATTAAGTCGAGCACGCCTCATTTACCCTATCACCGAG
GTCCAACGCACGTTACGACAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGT
Found at i:733507 original size:12 final size:12
Alignment explanation
Indices: 733490--733514 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
733480 GATGTATCGA
733490 TACATTGTTCAT
1 TACATTGTTCAT
733502 TACATTGTTCAT
1 TACATTGTTCAT
733514 T
1 T
733515 GTATCGATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TACATTGTTCAT
Found at i:733532 original size:13 final size:13
Alignment explanation
Indices: 733514--733538 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
733504 CATTGTTCAT
733514 TGTATCGATACAA
1 TGTATCGATACAA
733527 TGTATCGATACA
1 TGTATCGATACA
733539 TTGTTCATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:733544 original size:33 final size:32
Alignment explanation
Indices: 733482--733558 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 32
733472 TTTACCTAGA
*
733482 TGTATCGATACATTGTTCATTACATTGTTCAT
1 TGTATCGATACAATGTTCATTACATTGTTCAT
733514 TGTATCGATACAATGTATCGA-TACATTGTTCAT
1 TGTATCGATACAATGT-TC-ATTACATTGTTCAT
733547 TGTATCGATACA
1 TGTATCGATACA
733559 TTTTGGGTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
32 15 0.36
33 26 0.62
34 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.42
Consensus pattern (32 bp):
TGTATCGATACAATGTTCATTACATTGTTCAT
Found at i:733552 original size:20 final size:20
Alignment explanation
Indices: 733502--733560 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
733492 CATTGTTCAT
733502 TACATTGTTCATTGTATCGA
1 TACATTGTTCATTGTATCGA
733522 TACA------A-TGTATCGA
1 TACATTGTTCATTGTATCGA
733535 TACATTGTTCATTGTATCGA
1 TACATTGTTCATTGTATCGA
733555 TACATT
1 TACATT
733561 TTGGGTTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
13 12 0.38
14 1 0.03
19 1 0.03
20 18 0.56
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (20 bp):
TACATTGTTCATTGTATCGA
Found at i:737370 original size:12 final size:12
Alignment explanation
Indices: 737353--737377 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
737343 GATGTATCGA
737353 TACATTGTTCAT
1 TACATTGTTCAT
737365 TACATTGTTCAT
1 TACATTGTTCAT
737377 T
1 T
737378 GTATCGATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TACATTGTTCAT
Found at i:737395 original size:13 final size:13
Alignment explanation
Indices: 737377--737401 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
737367 CATTGTTCAT
737377 TGTATCGATACAA
1 TGTATCGATACAA
737390 TGTATCGATACA
1 TGTATCGATACA
737402 TTGTTCATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:737407 original size:33 final size:32
Alignment explanation
Indices: 737345--737421 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 32
737335 TTTACCTAGA
*
737345 TGTATCGATACATTGTTCATTACATTGTTCAT
1 TGTATCGATACAATGTTCATTACATTGTTCAT
737377 TGTATCGATACAATGTATCGA-TACATTGTTCAT
1 TGTATCGATACAATGT-TC-ATTACATTGTTCAT
737410 TGTATCGATACA
1 TGTATCGATACA
737422 TTTGGGTTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
32 15 0.36
33 26 0.62
34 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.42
Consensus pattern (32 bp):
TGTATCGATACAATGTTCATTACATTGTTCAT
Found at i:737415 original size:20 final size:20
Alignment explanation
Indices: 737365--737423 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
737355 CATTGTTCAT
737365 TACATTGTTCATTGTATCGA
1 TACATTGTTCATTGTATCGA
737385 TACA------A-TGTATCGA
1 TACATTGTTCATTGTATCGA
737398 TACATTGTTCATTGTATCGA
1 TACATTGTTCATTGTATCGA
737418 TACATT
1 TACATT
737424 TGGGTTTACC
Statistics
Matches: 32, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
13 12 0.38
14 1 0.03
19 1 0.03
20 18 0.56
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (20 bp):
TACATTGTTCATTGTATCGA
Found at i:741231 original size:12 final size:12
Alignment explanation
Indices: 741214--741238 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
741204 GATGTATCGA
741214 TACATTGTTCAT
1 TACATTGTTCAT
741226 TACATTGTTCAT
1 TACATTGTTCAT
741238 T
1 T
741239 GTATCGATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TACATTGTTCAT
Found at i:743219 original size:52 final size:51
Alignment explanation
Indices: 743101--743219 Score: 150
Period size: 52 Copynumber: 2.3 Consensus size: 51
743091 GAAAATAACA
*
743101 AGGTTGGAGTATCCCTGATTATAGAAAATTGGTATTTTGAAAATAAAATCG
1 AGGTTGGAGTATCCCCGATTATAGAAAATTGGTATTTTGAAAATAAAATCG
* * * *
743152 AAGTTGAAGTATCCCCGATTTGTGGAAAATTGGTATTTT-AGAAATAAAATCG
1 AGGTTGGAGTATCCCCGA-TTATAGAAAATTGGTATTTTGA-AAATAAAATCG
* *
743204 GGGTTGGAGTCTCCCC
1 AGGTTGGAGTATCCCC
743220 TCAGAAATAA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
51 16 0.28
52 41 0.72
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.32
Consensus pattern (51 bp):
AGGTTGGAGTATCCCCGATTATAGAAAATTGGTATTTTGAAAATAAAATCG
Found at i:743269 original size:28 final size:28
Alignment explanation
Indices: 743202--743275 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
743192 GAAATAAAAT
*
743202 CGGGGTTGGAGTCTCCCCTCAGAAATAA
1 CGGGGTTGGAGTATCCCCTCAGAAATAA
* * *
743230 CGGGATTAGAGTATCCCC-GATGAAATAA
1 CGGGGTTGGAGTATCCCCTCA-GAAATAA
*
743258 CGGGGTTGGAGTACCCCC
1 CGGGGTTGGAGTATCCCC
743276 AATTATGAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 1 0.03
28 37 0.97
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCAGAAATAA
Found at i:743361 original size:28 final size:28
Alignment explanation
Indices: 743308--743376 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
743298 GATATAAAGC
743308 CGGGGTTGGAGTATCCCCTCGAAAATAA
1 CGGGGTTGGAGTATCCCCTCGAAAATAA
*
743336 TGGGGTTGGAGTAT-CCC-CGATGAAATAA
1 CGGGGTTGGAGTATCCCCTCGA--AAATAA
*
743364 CGGGGTTAGAGTA
1 CGGGGTTGGAGTA
743377 CCTTCGATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 3 0.08
27 3 0.08
28 30 0.83
ACGTcount: A:0.28, C:0.16, G:0.33, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAA
Found at i:743361 original size:106 final size:105
Alignment explanation
Indices: 743185--743393 Score: 294
Period size: 106 Copynumber: 2.0 Consensus size: 105
743175 GGAAAATTGG
* *
743185 TATTTTAGAAATAAAATCGGGGTTGGAGTCTCCCCTCAGAAATAACGGGATTAGAGTATCCCCGA
1 TATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGATTAGAGTATCCCCGA
*
743250 TGAAATAACGGGGTTGGAGTACCCCCAATTATGAAAAAAA
66 TGAAATAACGGGGTTAGAGTACCCCCAATTATGAAAAAAA
* * * * *
743290 TATTATTAGATATAAAGCCGGGGTTGGAGTATCCCCTC-GAAAATAATGGGGTTGGAGTATCCCC
1 TATT-TTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAG-AAATAACGGGATTAGAGTATCCCC
** *
743354 GATGAAATAACGGGGTTAGAGTACCTTCGATTATGAAAAA
64 GATGAAATAACGGGGTTAGAGTACCCCCAATTATGAAAAA
743394 TTGGTGTTTT
Statistics
Matches: 91, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
105 5 0.05
106 86 0.95
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (105 bp):
TATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGATTAGAGTATCCCCGA
TGAAATAACGGGGTTAGAGTACCCCCAATTATGAAAAAAA
Found at i:745545 original size:20 final size:19
Alignment explanation
Indices: 745500--745553 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
745490 GATACATTTT
745500 AAAATGTATCGATACAATG
1 AAAATGTATCGATACAATG
*
745519 AGCAATGTATCGATACAATG
1 A-AAATGTATCGATACAATG
*
745539 CAAAATGTATTGATA
1 -AAAATGTATCGATA
745554 AATCTGGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (19 bp):
AAAATGTATCGATACAATG
Found at i:746388 original size:42 final size:42
Alignment explanation
Indices: 746317--746491 Score: 174
Period size: 42 Copynumber: 4.1 Consensus size: 42
746307 GATAAAGAAA
*
746317 AAAAGGAAA-AGGAAAATGAAA-TGCATCCTGCTCTTTGAGGAC
1 AAAA-GAAAGAGGAAAAT-AAAGTGCGTCCTGCTCTTTGAGGAC
746359 AAAAGAAAGAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC
1 AAAAGAAAGAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC
* * ** * * *
746401 AGAAGAAAAAATAAGGGAATGAAGTGTGTCCTGCTCTTTAAGGAC
1 AAAAGAAAGAGGAA---AATAAAGTGCGTCCTGCTCTTTGAGGAC
* * * * *
746446 AAAGGAGAGAGAAAAATAAAGTACGTCCTACTCTTTGAGGAC
1 AAAAGAAAGAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC
746488 AAAA
1 AAAA
746492 AAGTGCCACC
Statistics
Matches: 108, Mismatches: 20, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
41 7 0.06
42 68 0.63
45 33 0.31
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.19
Consensus pattern (42 bp):
AAAAGAAAGAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC
Found at i:746560 original size:61 final size:62
Alignment explanation
Indices: 746471--746643 Score: 214
Period size: 61 Copynumber: 2.8 Consensus size: 62
746461 ATAAAGTACG
* * *
746471 TCCTACTCTTTGAGGAC-AAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAAG-AAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAGGCA
* *
746532 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGGGTGGGCTTTG-AAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAGGCA
* *
746593 TCCTGCTCTTTTAGGACTTAGAAAAGTG--ACCAACTTGTGTGGGCTTT-AAAA
1 TCCTGCTCTTTGAGGAC-T-GAAAAATGCCACCAACTTGTGTGGGCTTTGAAAA
746644 GGTCTCCAGC
Statistics
Matches: 99, Mismatches: 8, Indels: 10
0.85 0.07 0.09
Matches are distributed among these distances:
60 4 0.04
61 82 0.83
62 6 0.06
63 7 0.07
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (62 bp):
TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAGGCA
Found at i:746703 original size:94 final size:93
Alignment explanation
Indices: 746585--746858 Score: 308
Period size: 94 Copynumber: 2.9 Consensus size: 93
746575 CTTTGAAAGG
* *
746585 AAAAG-GCATCCTGCTCTTTTAGGACTTAGAAAAGTG-ACCAACTTGTGTGGGCTTTAAAAGGTC
1 AAAAGAGCGTCCTGCTCTTTGAGGAC-TAG-AAAGTGCACCAACTTGTGTGGGCTTTAAAAGG-C
*
746648 -TCCAGCTCTTTGAGGACTATAGGGCGAAAA-
63 ATCCAGCTCTTTGAGGACTAAAGGGC-AAAAT
* * * * *
746678 AAAAGAGCTTCTTGCTCTTTGAGGACTAGAAAGTGCCACAAACTTGTGTGGACTTTAGAAGGCAT
1 AAAAGAGCGTCCTGCTCTTTGAGGACTAGAAAGTG-CACCAACTTGTGTGGGCTTTAAAAGGCAT
*
746743 CCTA-CTATTTGAGGACTAAAGGGCAAAAT
65 CC-AGCTCTTTGAGGACTAAAGGGCAAAAT
* * * *
746772 GAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGCAT
1 AAAAGAGCGTCCTGCTCTTTGAGGACTAGAAAGTG-CACCAACTTGTGTGGGCTTTAAAAGGCAT
*
746836 CCTGCTCTTTGAGGACTGAAAGG
65 CCAGCTCTTTGAGGACT-AAAGG
746859 TGCCACCAAC
Statistics
Matches: 154, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
92 6 0.04
93 34 0.22
94 113 0.73
95 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (93 bp):
AAAAGAGCGTCCTGCTCTTTGAGGACTAGAAAGTGCACCAACTTGTGTGGGCTTTAAAAGGCATC
CAGCTCTTTGAGGACTAAAGGGCAAAAT
Found at i:746863 original size:54 final size:55
Alignment explanation
Indices: 746780--746915 Score: 181
Period size: 54 Copynumber: 2.5 Consensus size: 55
746770 ATGAGAGAGC
* *
746780 GTCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAGGCA
1 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTATGTGGGCTTTGAAA-GCA
*
746835 -TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTGAAAGTA
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTGAAAGCA
*
746889 GTCATGCTCTTTGAGGACT-AAATGGTG
1 GTCCTGCTCTTTGAGGACTGAAA-GGTG
746916 AAAGGAGAGA
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
53 3 0.04
54 46 0.63
55 24 0.33
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTGAAAGCA
Found at i:746958 original size:148 final size:148
Alignment explanation
Indices: 746690--746978 Score: 404
Period size: 148 Copynumber: 2.0 Consensus size: 148
746680 AAGAGCTTCT
* * *
746690 TGCTCTTTGAGGACTAGAAAGTGCCACAAACTTGTGTGGACTTTAGAAGGCATCCTACTATTTGA
1 TGCTCTTTGAGGACTAGAAAGTGCCACAAACTTATGTGGACTTTAGAAAGCATCATACTATTTGA
* * *
746755 GGACTAAAGGGCAAAATGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTG
66 GGACTAAAGGGCAAAAGGAGAGAGCGTCCTGCTCTTTAAGGACTGAGAAGTGCCACCAACTTGTG
746820 TGGGCTTTAAAGGCATCC
131 TGGGCTTTAAAGGCATCC
* * * * *
746838 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTATGTGGGCTTT-GAAAGTAGTCATGCTCTTT
1 TGCTCTTTGAGGACTAGAAA-GTGCCACAAACTTATGTGGACTTTAGAAAGCA-TCATACTATTT
* **
746901 GAGGACTAAATGGTGAAAGGAGAGAGCGTCCTGCTCTTTAAGGACT-AGAAGGTGCCACCAACTT
64 GAGGACTAAAGGGCAAAAGGAGAGAGCGTCCTGCTCTTTAAGGACTGAGAA-GTGCCACCAACTT
746965 GTGTGGGCTTTAAA
128 GTGTGGGCTTTAAA
746979 AGAAAAAGGC
Statistics
Matches: 124, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
147 12 0.10
148 112 0.90
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (148 bp):
TGCTCTTTGAGGACTAGAAAGTGCCACAAACTTATGTGGACTTTAGAAAGCATCATACTATTTGA
GGACTAAAGGGCAAAAGGAGAGAGCGTCCTGCTCTTTAAGGACTGAGAAGTGCCACCAACTTGTG
TGGGCTTTAAAGGCATCC
Found at i:746966 original size:242 final size:243
Alignment explanation
Indices: 746532--746976 Score: 576
Period size: 242 Copynumber: 1.8 Consensus size: 243
746522 AAGAAAGGCA
746532 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGAAAAGGCATCCT
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGGGTGGGCTTT------AAAAGGCATCCT
* *
746597 GCTCTTTTAGGACTTAGAAAAGTGACCAACTTGTGTGGGCTTTAAAAGGTCTCCAGCTCTTTGAG
60 GCTCTTTGAGGACTTAGAAAAGTGACCAACTTATGTGGGCTTTAAAAGGTCTCCAGCTCTTTGAG
* * * *
746662 GACTATAGGGCGAAAAAAAAGAGCTTCTTGCTCTTTGAGGACTAGAAAGTGCCACAAACTTGTGT
125 GACTAAAGGGCGAAAAAAAAGAGCGTCCTGCTCTTTAAGGACTAGAAAGTGCCACAAACTTGTGT
746727 GGACTTTAGAAGGCATCCTACTATTTGAGGACTAAAGGGCAAAATGAGAGAGCG
190 GGACTTTAGAAGGCATCCTACTATTTGAGGACTAAAGGGCAAAATGAGAGAGCG
** * *
746781 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGCATCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGGGTGGGCTTTAAAAGGCATCCTGCTCTT
* * *
746845 TGAGGAC-T-GAAAGGTGCCACCAACTTATGTGGGCTTTGAAA-GTAGT-CATGCTCTTTGAGGA
66 TGAGGACTTAGAAAAGTG--ACCAACTTATGTGGGCTTTAAAAGGT-CTCCA-GCTCTTTGAGGA
* * ** * * *
746906 CTAAATGGTGAAAGGAGAGAGCGTCCTGCTCTTTAAGGACTAGAAGGTGCCACCAACTTGTGTGG
127 CTAAAGGGCGAAAAAAAAGAGCGTCCTGCTCTTTAAGGACTAGAAAGTGCCACAAACTTGTGTGG
*
746971 GCTTTA
192 ACTTTA
746977 AAAGAAAAAG
Statistics
Matches: 171, Mismatches: 21, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
240 7 0.04
241 5 0.03
242 116 0.68
249 43 0.25
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (243 bp):
TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGGGTGGGCTTTAAAAGGCATCCTGCTCTT
TGAGGACTTAGAAAAGTGACCAACTTATGTGGGCTTTAAAAGGTCTCCAGCTCTTTGAGGACTAA
AGGGCGAAAAAAAAGAGCGTCCTGCTCTTTAAGGACTAGAAAGTGCCACAAACTTGTGTGGACTT
TAGAAGGCATCCTACTATTTGAGGACTAAAGGGCAAAATGAGAGAGCG
Found at i:747992 original size:1 final size:1
Alignment explanation
Indices: 747986--748058 Score: 56
Period size: 1 Copynumber: 73.0 Consensus size: 1
747976 CAGATTCTTC
* * * * * * * * * *
747986 TTTTTTTCTCTTTTTTCTTTGTTTTGTTTTTTTTTTTTTGTTTTTTTGTTTTTTTGTTGTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
748051 TTTTTTTT
1 TTTTTTTT
748059 AAAAAAGAAT
Statistics
Matches: 52, Mismatches: 20, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (1 bp):
T
Found at i:748018 original size:8 final size:8
Alignment explanation
Indices: 747986--748057 Score: 85
Period size: 8 Copynumber: 8.9 Consensus size: 8
747976 CAGATTCTTC
*
747986 TTTTTTTC
1 TTTTTTTG
*
747994 TCTTTTTTC
1 T-TTTTTTG
748003 TTTGTTTTG
1 TTT-TTTTG
748012 -TTTTTT-
1 TTTTTTTG
748018 TTTTTTTG
1 TTTTTTTG
748026 TTTTTTTG
1 TTTTTTTG
748034 TTTTTTTG
1 TTTTTTTG
748042 TTGTTTTTG
1 TT-TTTTTG
748051 TTTTTTT
1 TTTTTTT
748058 TAAAAAAGAA
Statistics
Matches: 58, Mismatches: 1, Indels: 10
0.84 0.01 0.14
Matches are distributed among these distances:
7 10 0.17
8 28 0.48
9 20 0.34
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (8 bp):
TTTTTTTG
Found at i:748018 original size:19 final size:18
Alignment explanation
Indices: 747996--748058 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 18
747986 TTTTTTTCTC
*
747996 TTTTTTCTTTGTTTTGTTT
1 TTTTTTTTTTGTTTTG-TT
748015 TTTTTTTTTTGTTTT-TT
1 TTTTTTTTTTGTTTTGTT
748032 TGTTTTTTTGTTGTTTTTGTT
1 T-TTTTTTT-TTG-TTTTGTT
748053 TTTTTT
1 TTTTTT
748059 AAAAAAGAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
17 3 0.08
18 7 0.18
19 17 0.44
20 9 0.23
21 3 0.08
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (18 bp):
TTTTTTTTTTGTTTTGTT
Found at i:748022 original size:30 final size:31
Alignment explanation
Indices: 747986--748054 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 31
747976 CAGATTCTTC
747986 TTTTTTTCTCTTTTTTCT-TTGTTTTGTT-TT
1 TTTTTTTCTCTTTTTT-TGTTGTTTTGTTGTT
* * *
748016 TTTTTTTTTGTTTTTTTGTTTTTTTGTTGTT
1 TTTTTTTCTCTTTTTTTGTTGTTTTGTTGTT
748047 TTTGTTTT
1 TTT-TTTT
748055 TTTTAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 23 0.70
31 5 0.15
32 4 0.12
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (31 bp):
TTTTTTTCTCTTTTTTTGTTGTTTTGTTGTT
Found at i:749270 original size:13 final size:13
Alignment explanation
Indices: 749252--749276 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
749242 ATGTTGCACA
749252 GTATCGATACATT
1 GTATCGATACATT
749265 GTATCGATACAT
1 GTATCGATACAT
749277 GTTGCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:749271 original size:33 final size:33
Alignment explanation
Indices: 749229--749294 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
749219 TACACATTTA
749229 ATTGTATCGATACATGTTGCACAGTATCGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
**
749262 ATTGTATCGATACATGTTGCATTGTATCGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
749295 TTGAAAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACATGTTGCACAGTATCGATAC
Done.