Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 123 of 182
Found at i:37848784 original size:12 final size:12
Alignment explanation
Indices: 37848767--37848793 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
37848757 TCAGTGACTT
37848767 ACATGGCCTAGC
1 ACATGGCCTAGC
37848779 ACATGGCCTAGC
1 ACATGGCCTAGC
37848791 ACA
1 ACA
37848794 CGGGCGTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.33, G:0.22, T:0.15
Consensus pattern (12 bp):
ACATGGCCTAGC
Found at i:37849887 original size:13 final size:13
Alignment explanation
Indices: 37849869--37849895 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37849859 GAAGTTGTGT
37849869 GTCACAACACAGG
1 GTCACAACACAGG
37849882 GTCACAACACAGG
1 GTCACAACACAGG
37849895 G
1 G
37849896 GTACCCATAT
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:0.37, C:0.30, G:0.26, T:0.07
Consensus pattern (13 bp):
GTCACAACACAGG
Found at i:37856176 original size:11 final size:13
Alignment explanation
Indices: 37856160--37856191 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
37856150 TTCACAAAAT
37856160 AATTTCG-T-AAA
1 AATTTCGATCAAA
37856171 AATTTCGATCAAA
1 AATTTCGATCAAA
37856184 AATTTCGA
1 AATTTCGA
37856192 CGTTTGGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 1 0.05
13 11 0.58
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34
Consensus pattern (13 bp):
AATTTCGATCAAA
Found at i:37863292 original size:26 final size:26
Alignment explanation
Indices: 37863256--37863305 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
37863246 ATTGGATAAA
*
37863256 AAGGGGTTGCTAAGTGCAGATTCCCC
1 AAGGGCTTGCTAAGTGCAGATTCCCC
*
37863282 AAGGGCTTGCTAAGTGCTGATTCC
1 AAGGGCTTGCTAAGTGCAGATTCC
37863306 ATAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (26 bp):
AAGGGCTTGCTAAGTGCAGATTCCCC
Found at i:37863428 original size:84 final size:84
Alignment explanation
Indices: 37863323--37863763 Score: 792
Period size: 84 Copynumber: 5.2 Consensus size: 84
37863313 ATTGATTCTA
*
37863323 AAGGTGGTTGCTAAGTGCTGATTCGACCGTATATTTGATTTTGAAAGGGGTTGCTATGTGCTGAT
1 AAGGTGGTTGCTAAGTGCTGATTCGACCGTATATTTGATTTTGGAAGGGGTTGCTATGTGCTGAT
37863388 TCCCCGTATCCCTGAATTT
66 TCCCCGTATCCCTGAATTT
37863407 AAGGTGGTTGCTAAGTGCTGATTCGACCGTATATTTGATTTTGGAAGGGGTTGCTATGTGCTGAT
1 AAGGTGGTTGCTAAGTGCTGATTCGACCGTATATTTGATTTTGGAAGGGGTTGCTATGTGCTGAT
37863472 TCCCCGTATCCCTGAATTT
66 TCCCCGTATCCCTGAATTT
37863491 AAGGTGGTTGCTAAGTGCTGATTCGACCGTATATTTGATTTTGGAAGGGGTTGCTATGTGCTGAT
1 AAGGTGGTTGCTAAGTGCTGATTCGACCGTATATTTGATTTTGGAAGGGGTTGCTATGTGCTGAT
37863556 TCCCCGTATCCCTGAATTT
66 TCCCCGTATCCCTGAATTT
37863575 AAGGTGGTTGCTAAGTGCTGATTCGACCGTATATTTGATTTTGGAAGGGGTTGCTATGTGCTGAT
1 AAGGTGGTTGCTAAGTGCTGATTCGACCGTATATTTGATTTTGGAAGGGGTTGCTATGTGCTGAT
** *
37863640 TCCCCGTATAACTGAATAT
66 TCCCCGTATCCCTGAATTT
* * * * *
37863659 AAGGTGGTTGCTAAGTGCTGATTCTACCGTATCTTTGACTGTGAAAGGGGTTGCTATGTGCTGAT
1 AAGGTGGTTGCTAAGTGCTGATTCGACCGTATATTTGATTTTGGAAGGGGTTGCTATGTGCTGAT
*
37863724 TCCCCGTATCACTGAATTT
66 TCCCCGTATCCCTGAATTT
37863743 AAGGTGGTTGCTAAGTGCTGA
1 AAGGTGGTTGCTAAGTGCTGA
37863764 ATCCACCGAG
Statistics
Matches: 346, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 346 1.00
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.36
Consensus pattern (84 bp):
AAGGTGGTTGCTAAGTGCTGATTCGACCGTATATTTGATTTTGGAAGGGGTTGCTATGTGCTGAT
TCCCCGTATCCCTGAATTT
Found at i:37864501 original size:18 final size:18
Alignment explanation
Indices: 37864478--37864513 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
37864468 CTATAAAATG
37864478 TATATACATAAAGGATGT
1 TATATACATAAAGGATGT
37864496 TATATACATAAAGGATGT
1 TATATACATAAAGGATGT
37864514 GGGATGGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (18 bp):
TATATACATAAAGGATGT
Found at i:37883411 original size:26 final size:27
Alignment explanation
Indices: 37883382--37883438 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
37883372 TAAAATGATA
37883382 ATTTTA-CCTCCAAGGGTATTTTGGTC
1 ATTTTACCCTCCAAGGGTATTTTGGTC
* *
37883408 ATTTTACCCTTCAATGGTATTTTGGTC
1 ATTTTACCCTCCAAGGGTATTTTGGTC
37883435 ATTT
1 ATTT
37883439 AGCAACCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (27 bp):
ATTTTACCCTCCAAGGGTATTTTGGTC
Found at i:37883834 original size:16 final size:16
Alignment explanation
Indices: 37883815--37883849 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
37883805 CTTTTTTACT
*
37883815 TTTCGACTTTTCGGCA
1 TTTCGACATTTCGGCA
*
37883831 TTTCGAGATTTCGGCA
1 TTTCGACATTTCGGCA
37883847 TTT
1 TTT
37883850 TTCGATCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.46
Consensus pattern (16 bp):
TTTCGACATTTCGGCA
Found at i:37888489 original size:46 final size:48
Alignment explanation
Indices: 37888436--37888587 Score: 157
Period size: 50 Copynumber: 3.1 Consensus size: 48
37888426 AAAACCAAAT
*
37888436 AAGCCTTTGTGGCTA-TCTA-G-AAAGCTTATGTGGCATATTATTTGGA
1 AAGCCTTTGTGGCTAGT-TATGAAAAGCCTATGTGGCATATTATTTGGA
*
37888482 AAGCCTTTGTGGCTAGTTATTTGAAAAGCCTATGTGGCATATTATTTGGG
1 AAGCCTTTGTGGCTAGTTA--TGAAAAGCCTATGTGGCATATTATTTGGA
* * * ** * *
37888532 AAGCCTTTGTGCCTTGTTATTTAAAAAGCCTATGTAACTTATTATTTGGG
1 AAGCCTTTGTGGCTAGTTA--TGAAAAGCCTATGTGGCATATTATTTGGA
37888582 AAGCCT
1 AAGCCT
37888588 AAGTGGCCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
46 17 0.18
47 1 0.01
49 1 0.01
50 74 0.80
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (48 bp):
AAGCCTTTGTGGCTAGTTATGAAAAGCCTATGTGGCATATTATTTGGA
Found at i:37888521 original size:50 final size:50
Alignment explanation
Indices: 37888456--37888587 Score: 192
Period size: 50 Copynumber: 2.6 Consensus size: 50
37888446 GGCTATCTAG
* * * *
37888456 AAAGCTTATGTGGCATATTATTTGGAAAGCCTTTGTGGCTAGTTATTTGA
1 AAAGCCTATGTGGCATATTATTTGGGAAGCCTTTGTGCCTAGTTATTTAA
*
37888506 AAAGCCTATGTGGCATATTATTTGGGAAGCCTTTGTGCCTTGTTATTTAA
1 AAAGCCTATGTGGCATATTATTTGGGAAGCCTTTGTGCCTAGTTATTTAA
** *
37888556 AAAGCCTATGTAACTTATTATTTGGGAAGCCT
1 AAAGCCTATGTGGCATATTATTTGGGAAGCCT
37888588 AAGTGGCCAA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.39
Consensus pattern (50 bp):
AAAGCCTATGTGGCATATTATTTGGGAAGCCTTTGTGCCTAGTTATTTAA
Found at i:37888588 original size:25 final size:25
Alignment explanation
Indices: 37888455--37888594 Score: 129
Period size: 25 Copynumber: 5.6 Consensus size: 25
37888445 TGGCTATCTA
* *
37888455 GAAAGCTTATGTGGCATATTATTTG
1 GAAAGCCTATGTGGCTTATTATTTG
*
37888480 GAAAGCCTTTGTGGC-TAGTTATTTG
1 GAAAGCCTATGTGGCTTA-TTATTTG
* *
37888505 AAAAGCCTATGTGGCATATTATTTG
1 GAAAGCCTATGTGGCTTATTATTTG
* * * * *
37888530 GGAAGCCTTTGTGCCTTGTTATTTA
1 GAAAGCCTATGTGGCTTATTATTTG
* **
37888555 AAAAGCCTATGTAACTTATTATTTG
1 GAAAGCCTATGTGGCTTATTATTTG
* *
37888580 GGAAGCCTAAGTGGC
1 GAAAGCCTATGTGGC
37888595 CAAGTTATCT
Statistics
Matches: 90, Mismatches: 23, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
24 2 0.02
25 86 0.96
26 2 0.02
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (25 bp):
GAAAGCCTATGTGGCTTATTATTTG
Found at i:37890625 original size:20 final size:20
Alignment explanation
Indices: 37890588--37890704 Score: 87
Period size: 20 Copynumber: 5.8 Consensus size: 20
37890578 GTAAAACAAA
** *
37890588 CAAGAGCATAAATATGCTAT
1 CAAGAGCACGAATGTGCTAT
* *
37890608 CAGGAGCACGAATGTGCTTT
1 CAAGAGCACGAATGTGCTAT
* *
37890628 CAAGAGCATCGTA-GTGCTAA
1 CAAGAGCA-CGAATGTGCTAT
*
37890648 CATGAGCACGAATGTGCTAT
1 CAAGAGCACGAATGTGCTAT
* * *
37890668 TAAGAGCATCGTA-GTACTAAT
1 CAAGAGCA-CGAATGTGCT-AT
37890689 -AAGAGCACGAATGTGC
1 CAAGAGCACGAATGTGC
37890705 ACTCAGGATC
Statistics
Matches: 74, Mismatches: 18, Indels: 10
0.73 0.18 0.10
Matches are distributed among these distances:
19 6 0.08
20 60 0.81
21 8 0.11
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (20 bp):
CAAGAGCACGAATGTGCTAT
Found at i:37890646 original size:40 final size:40
Alignment explanation
Indices: 37890602--37890704 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
37890592 AGCATAAATA
*
37890602 TGCTATCAGGAGCACGAATGTGCT-TTCAAGAGCATCGTAG
1 TGCTATCAAGAGCACGAATGTGCTATT-AAGAGCATCGTAG
* *
37890642 TGCTAACATGAGCACGAATGTGCTATTAAGAGCATCGTAG
1 TGCTATCAAGAGCACGAATGTGCTATTAAGAGCATCGTAG
*
37890682 TACTAAT-AAGAGCACGAATGTGC
1 TGCT-ATCAAGAGCACGAATGTGC
37890705 ACTCAGGATC
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
40 53 0.95
41 3 0.05
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (40 bp):
TGCTATCAAGAGCACGAATGTGCTATTAAGAGCATCGTAG
Found at i:37893963 original size:7 final size:8
Alignment explanation
Indices: 37893944--37894017 Score: 94
Period size: 8 Copynumber: 8.6 Consensus size: 8
37893934 GGACCAAGGA
37893944 AAAAATTC
1 AAAAATTC
37893952 AAAAATTC
1 AAAAATTC
*
37893960 AAAAATTTGGGA
1 AAAAA-TT---C
37893972 AAAAATTC
1 AAAAATTC
37893980 AAAAATTC
1 AAAAATTC
37893988 AAAAATTC
1 AAAAATTC
37893996 AAAAATTC
1 AAAAATTC
37894004 AAAAATTC
1 AAAAATTC
37894012 GAAAAA
1 -AAAAA
37894018 ACTTGGGAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
8 45 0.76
9 7 0.12
11 2 0.03
12 5 0.08
ACGTcount: A:0.62, C:0.09, G:0.05, T:0.23
Consensus pattern (8 bp):
AAAAATTC
Found at i:37893981 original size:28 final size:27
Alignment explanation
Indices: 37893941--37894027 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 27
37893931 GTTGGACCAA
37893941 GGAAAAAATTCAAAAATTCAAAAATTTG
1 GGAAAAAATTCAAAAATTCAAAAA-TTG
37893969 GGAAAAAATTCAAAAATTCAAAAATT-
1 GGAAAAAATTCAAAAATTCAAAAATTG
*
37893995 --CAAAAATTCAAAAATTCGAAAAAACTTG
1 GGAAAAAATTCAAAAATTC--AAAAA-TTG
37894023 GGAAA
1 GGAAA
37894028 TAAGGGTCAC
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
24 16 0.31
26 5 0.10
27 4 0.08
28 24 0.47
30 2 0.04
ACGTcount: A:0.59, C:0.09, G:0.10, T:0.22
Consensus pattern (27 bp):
GGAAAAAATTCAAAAATTCAAAAATTG
Found at i:37895543 original size:46 final size:45
Alignment explanation
Indices: 37895442--37895644 Score: 196
Period size: 46 Copynumber: 4.5 Consensus size: 45
37895432 GATGTCATGT
* *
37895442 TGTCTTTCAACCATGGTCTTATTTA--TTCTCCACTTGATGCCATAA
1 TGTCTTTCAACCATGGTCTTATTCACTTTCT-GA-TTGATGCCATAA
* * * *
37895487 TGCCTTTCAACCATGGTCTTAGTCACTTTCTGATATGATGCAATAG
1 TGTCTTTCAACCATGGTCTTATTCACTTTCTGAT-TGATGCCATAA
* * *
37895533 TGTCTTTCAACCATGGTCTTATTCACTTTCCGATATGATGCCACAG
1 TGTCTTTCAACCATGGTCTTATTCACTTTCTGAT-TGATGCCATAA
* * * * * *
37895579 TGCCTTTCCACTATGGTCTTATTCATTTTC-AATTGGATGCTATAA
1 TGTCTTTCAACCATGGTCTTATTCACTTTCTGATT-GATGCCATAA
*
37895624 TGTCTTTCAACTATGGTCTTA
1 TGTCTTTCAACCATGGTCTTA
37895645 CTCATCTGAA
Statistics
Matches: 133, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
44 1 0.01
45 51 0.38
46 77 0.58
47 4 0.03
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (45 bp):
TGTCTTTCAACCATGGTCTTATTCACTTTCTGATTGATGCCATAA
Found at i:37895618 original size:91 final size:91
Alignment explanation
Indices: 37895442--37895649 Score: 244
Period size: 91 Copynumber: 2.3 Consensus size: 91
37895432 GATGTCATGT
* *
37895442 TGTCTTTCAACCATGGTCTTATTTATTCTCCACTTGATGCCATAATGCCTTTCAACCATGGTCTT
1 TGTCTTTCAACCATGGTCTTATTCATTCTCCACTTGATGCCACAATGCCTTTCAACCATGGTCTT
* *
37895507 AGTCACTTTCTGATATGATGCAATAG
66 AGTCACTTTCTAATATGATGCAATAA
* * *
37895533 TGTCTTTCAACCATGGTCTTATTCACTT-TCCGA-TATGATGCCACAGTGCCTTTCCACTATGGT
1 TGTCTTTCAACCATGGTCTTATTCA-TTCTCC-ACT-TGATGCCACAATGCCTTTCAACCATGGT
* * *
37895596 CTTATTCATTTTC-AAT-TGGATGCTATAA
63 CTTAGTCACTTTCTAATAT-GATGCAATAA
* *
37895624 TGTCTTTCAACTATGGTCTTACTCAT
1 TGTCTTTCAACCATGGTCTTATTCAT
37895650 CTGAATCATG
Statistics
Matches: 101, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
90 2 0.02
91 61 0.60
92 38 0.38
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (91 bp):
TGTCTTTCAACCATGGTCTTATTCATTCTCCACTTGATGCCACAATGCCTTTCAACCATGGTCTT
AGTCACTTTCTAATATGATGCAATAA
Found at i:37895719 original size:90 final size:90
Alignment explanation
Indices: 37895614--37895879 Score: 361
Period size: 90 Copynumber: 2.9 Consensus size: 90
37895604 TTTTCAATTG
* * * * *
37895614 GATGCTATAATGTCTTTCAACTATGGTCTTACTCATCTGAATCATGATTCCATAGCATCTTTCAG
1 GATGCCATAACGTCTTTCAGCTATGGTCTTACTCATCTGAATAATGATGCCATAGCATCTTTCAG
**
37895679 CTATGCACTTACTTGTTTGAATAAT
66 CTATGGTCTTACTTGTTTGAATAAT
* * * *
37895704 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCATCTGAATAATGATGCCATAACGTCTTTCAA
1 GATGCCATAACGTCTTTCAGCTATGGTCTTACTCATCTGAATAATGATGCCATAGCATCTTTCAG
* * *
37895769 CTATGGTCTTTCTCGTCTGAATAAT
66 CTATGGTCTTACTTGTTTGAATAAT
* * * *
37895794 GATGTCATAACGTCTTTCAGCTCTAGTCTTACTCATTTGAATAATGATGCCATAGCATCTTTCAG
1 GATGCCATAACGTCTTTCAGCTATGGTCTTACTCATCTGAATAATGATGCCATAGCATCTTTCAG
37895859 CTATGGTCTTACTTGTCTTGA
66 CTATGGTCTTACTTGT-TTGA
37895880 TCTTGATGAA
Statistics
Matches: 150, Mismatches: 25, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
90 147 0.98
91 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (90 bp):
GATGCCATAACGTCTTTCAGCTATGGTCTTACTCATCTGAATAATGATGCCATAGCATCTTTCAG
CTATGGTCTTACTTGTTTGAATAAT
Found at i:37895887 original size:45 final size:45
Alignment explanation
Indices: 37895625--37895871 Score: 323
Period size: 45 Copynumber: 5.5 Consensus size: 45
37895615 ATGCTATAAT
* * *
37895625 GTCTTTCAACTATGGTCTTACTCATCTGAATCATGATTCCATAGC
1 GTCTTTCAGCTATGGTCTTACTCATCTGAATAATGATGCCATAGC
* ** ** *
37895670 ATCTTTCAGCTATGCACTTACTTGTTTGAATAATGATGCCATAGC
1 GTCTTTCAGCTATGGTCTTACTCATCTGAATAATGATGCCATAGC
*
37895715 GTCTTTCAGCTATGGTCTTACTCATCTGAATAATGATGCCATAAC
1 GTCTTTCAGCTATGGTCTTACTCATCTGAATAATGATGCCATAGC
* * * * *
37895760 GTCTTTCAACTATGGTCTTTCTCGTCTGAATAATGATGTCATAAC
1 GTCTTTCAGCTATGGTCTTACTCATCTGAATAATGATGCCATAGC
* * *
37895805 GTCTTTCAGCTCTAGTCTTACTCATTTGAATAATGATGCCATAGC
1 GTCTTTCAGCTATGGTCTTACTCATCTGAATAATGATGCCATAGC
*
37895850 ATCTTTCAGCTATGGTCTTACT
1 GTCTTTCAGCTATGGTCTTACT
37895872 TGTCTTGATC
Statistics
Matches: 171, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 171 1.00
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (45 bp):
GTCTTTCAGCTATGGTCTTACTCATCTGAATAATGATGCCATAGC
Found at i:37895887 original size:135 final size:135
Alignment explanation
Indices: 37895614--37895871 Score: 376
Period size: 135 Copynumber: 1.9 Consensus size: 135
37895604 TTTTCAATTG
* * * *
37895614 GATGCTATAATGTCTTTCAACTATGGTCTTACTCATCTGAATCATGATTCCATAGCATCTTTCAG
1 GATGCCATAACGTCTTTCAACTATGGTCTTACTCATCTGAATAATGATTCCATAACATCTTTCAG
** *
37895679 CTATGCACTTACTTGTTTGAATAATGATGCCATAGCGTCTTTCAGCTATGGTCTTACTCATCTGA
66 CTATGCACTTACTCATTTGAATAATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCATCTGA
37895744 ATAAT
131 ATAAT
* * *
37895749 GATGCCATAACGTCTTTCAACTATGGTCTTTCTCGTCTGAATAATGATGT-CATAACGTCTTTCA
1 GATGCCATAACGTCTTTCAACTATGGTCTTACTCATCTGAATAATGAT-TCCATAACATCTTTCA
* *
37895813 GCTCTAG-TCTTACTCATTTGAATAATGATGCCATAGCATCTTTCAGCTATGGTCTTACT
65 GCTAT-GCACTTACTCATTTGAATAATGATGCCATAGCATCTTTCAGCTATGGTCTTACT
37895872 TGTCTTGATC
Statistics
Matches: 109, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
135 107 0.98
136 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (135 bp):
GATGCCATAACGTCTTTCAACTATGGTCTTACTCATCTGAATAATGATTCCATAACATCTTTCAG
CTATGCACTTACTCATTTGAATAATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCATCTGA
ATAAT
Found at i:37901135 original size:18 final size:18
Alignment explanation
Indices: 37901114--37901150 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
37901104 CTTCATCCTT
37901114 TAATCATCCCTCATTTCA
1 TAATCATCCCTCATTTCA
**
37901132 TAATCATTTCTCATTTCA
1 TAATCATCCCTCATTTCA
37901150 T
1 T
37901151 TCTTTCATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATCATCCCTCATTTCA
Found at i:37901523 original size:3 final size:3
Alignment explanation
Indices: 37901517--37901553 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
37901507 GGGACATTAG
37901517 TAA TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
37901554 GAGACTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:37905152 original size:22 final size:21
Alignment explanation
Indices: 37905108--37905152 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
37905098 TAAATGCTAA
*
37905108 AAATATCAATACTTTGTTAGC
1 AAATATCAATACTTTGGTAGC
* *
37905129 AAATATTAATACTTTTGGTCGC
1 AAATATCAATAC-TTTGGTAGC
37905151 AA
1 AA
37905153 GTGAATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (21 bp):
AAATATCAATACTTTGGTAGC
Found at i:37907546 original size:37 final size:38
Alignment explanation
Indices: 37907505--37907580 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
37907495 TTGGGAGGGC
37907505 TAAAAGG-ATTTTTTTCCCATTTAACCAAGGAGGATAA
1 TAAAAGGAATTTTTTTCCCATTTAACCAAGGAGGATAA
37907542 TAAAAGGAATTTTTTTCCCATTTAACCAAGGAGGATAA
1 TAAAAGGAATTTTTTTCCCATTTAACCAAGGAGGATAA
37907580 T
1 T
37907581 GACTCTTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 7 0.18
38 31 0.82
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (38 bp):
TAAAAGGAATTTTTTTCCCATTTAACCAAGGAGGATAA
Found at i:37910987 original size:30 final size:31
Alignment explanation
Indices: 37910953--37911011 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
37910943 TTAACTAGGA
*
37910953 AAAG-TTACAATTAGGTCACTAAACTATTTG
1 AAAGTTTACAATTAAGTCACTAAACTATTTG
* * *
37910983 AAAGTTTTCATTTAAGTCACTTAACTATT
1 AAAGTTTACAATTAAGTCACTAAACTATT
37911012 CATAAGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (31 bp):
AAAGTTTACAATTAAGTCACTAAACTATTTG
Found at i:37911003 original size:31 final size:31
Alignment explanation
Indices: 37910967--37911032 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
37910957 TTACAATTAG
*
37910967 GTCACTAAACTATTTGA-AAGTTTTCATTTAA
1 GTCACTAAACTA-TTCATAAGTTTTCATTTAA
* *
37910998 GTCACTTAACTATTCATAAGTTTTTATTTAA
1 GTCACTAAACTATTCATAAGTTTTCATTTAA
37911029 GTCA
1 GTCA
37911033 TTAGATTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 3 0.10
31 28 0.90
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (31 bp):
GTCACTAAACTATTCATAAGTTTTCATTTAA
Found at i:37912758 original size:42 final size:41
Alignment explanation
Indices: 37912707--37912992 Score: 310
Period size: 42 Copynumber: 6.8 Consensus size: 41
37912697 GCGTTTACAG
* * *
37912707 AAAAAACGCCGCTAAAGGTCATGTTCTTTAGCAGCACTTGGA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-GA
*
37912749 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTATTA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCT-TGA
* * * * *
37912791 TCACAAACTCCGCTAAA-AGTAATGTTCTTTAGCGGCGCTTAA
1 -AAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTGA
*
37912833 AAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGT
1 AAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTGA
* *
37912876 AAAAAACGCCGCTAAAGATCATGTCCTTTAGCGGCGCTTTTA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTGA
* * *
37912918 TCACAAACGCCG-TGAAA-AGTAATGTTCTTTAGCGGCGCTT-A
1 -AAAAAACGCCGCT-AAAGA-TCATGTTCTTTAGCGGCGCTTGA
37912959 AAAAAGACGCCGCTAAAGATCATGTTCTTTAGCG
1 AAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCG
37912993 CTGCTTTTTA
Statistics
Matches: 207, Mismatches: 25, Indels: 25
0.81 0.10 0.10
Matches are distributed among these distances:
40 3 0.01
41 27 0.13
42 107 0.52
43 70 0.34
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (41 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGA
Found at i:37912928 original size:85 final size:84
Alignment explanation
Indices: 37912707--37913105 Score: 341
Period size: 85 Copynumber: 4.7 Consensus size: 84
37912697 GCGTTTACAG
* * * ** *
37912707 AAAAAACGCCGCTAAAGGTCATGTTCTTTAGCAGCACTTGGA-AAAAAACGCCGCT-AAAGATCA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAAG-TAA
37912770 TGTTCTTTAGCGGCGCTATTAT
65 TGTTCTTTAGCGGCGCT-TT-T
* * * * *
37912792 CACAAACTCCGCTAAA-AGTAATGTTCTTTAGCGGCGC--TTAAAAAAAGACGCCGCT-AAAGAT
1 AAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTTTATAAAAA-ACGCCGCTAAAAG-T
*
37912853 CATGTTCTTTAGCGGCGCTTTGT
63 AATGTTCTTTAGCGGCGCTTT-T
* * *
37912876 AAAAAACGCCGCTAAAGATCATGTCCTTTAGCGGCGCTTTTATCACAAACGCCG-TGAAAAGTAA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTATAAAAAACGCCGCT-AAAAGTAA
*
37912940 TGTTCTTTAGCGGCGC-TTA
65 TGTTCTTTAGCGGCGCTTTT
*** *
37912959 AAAAAGACGCCGCTAAAGATCATGTTCTTTAGC-GCTGCTTTTTATCTCAAACGCCGCGAAAAGT
1 AAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGC-GC-TTTTATAAAAAACGCCGCTAAAAGT
37913023 AATGTTCTTTAGCGGCGCTTTCTT
63 AATGTTCTTTAGCGGCGC-TT-TT
* * * * * * * *
37913047 GACAAACGCCGCTATAGAACATAATT-TTTAACGGCTCTTTTATAAAAAAACGCCACTAA
1 AAAAAACGCCGCTAAAGATCAT-GTTCTTTAGCGGCGCTTTTAT-AAAAAACGCCGCTAA
37913106 TTTTGGGATT
Statistics
Matches: 260, Mismatches: 36, Indels: 34
0.79 0.11 0.10
Matches are distributed among these distances:
83 8 0.03
84 69 0.27
85 127 0.49
86 16 0.06
87 32 0.12
88 8 0.03
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (84 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAAGTAAT
GTTCTTTAGCGGCGCTTTT
Found at i:37912938 original size:127 final size:125
Alignment explanation
Indices: 37912707--37913060 Score: 482
Period size: 127 Copynumber: 2.8 Consensus size: 125
37912697 GCGTTTACAG
* * * *
37912707 AAAAA-ACGCCGCTAAAGGTCATGTTCTTTAGCAGCACTTGGAAAAAAACGCCGCTAAAGATCAT
1 AAAAAGACGCCGCTAAAGATCATGTTCTTTAGC-GCGCTTTGTAAAAAACGCCGCTAAAGATCAT
* *
37912771 GTTCTTTAGCGGCGCTATTATCACAAACTCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAA
65 GTTCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTT-A
37912833 AAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGTAAAAAACGCCGCTAAAGATCAT
1 AAAAAGACGCCGCTAAAGATCATGTTCTTTAGC-GCGCTTTGTAAAAAACGCCGCTAAAGATCAT
*
37912898 GTCCTTTAGCGGCGCTTTTATCACAAACGCCG-TGAAAAGTAATGTTCTTTAGCGGCGCTTA
65 GTTCTTTAGCGGCGCTTTTATCACAAACGCCGCT-AAAAGTAATGTTCTTTAGCGGCGCTTA
* ** *
37912959 AAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGCTGCTTTTTATCTCAAACGCCGCGAAA-AGT
1 AAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGC-GCTTTGTA--AAAAACGCCGCTAAAGA-T
* *
37913023 AATGTTCTTTAGCGGCGCTTTCT-TGACAAACGCCGCTA
62 CATGTTCTTTAGCGGCGCTTT-TATCACAAACGCCGCTA
37913061 TAGAACATAA
Statistics
Matches: 205, Mismatches: 15, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
125 2 0.01
126 47 0.23
127 110 0.54
128 44 0.21
129 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (125 bp):
AAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGCGCTTTGTAAAAAACGCCGCTAAAGATCATG
TTCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTA
Found at i:37913028 original size:44 final size:43
Alignment explanation
Indices: 37912752--37913058 Score: 269
Period size: 43 Copynumber: 7.2 Consensus size: 43
37912742 ACTTGGAAAA
* * *
37912752 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTATTATCAC
1 AAACGCCGCAAAAGATAATGTTCTTTAGCGGCGCTTTTATCAC
* ** *
37912795 AAACTCCGCTAAAAG-TAATGTTCTTTAGCGGCGC--TTAAAAA
1 AAACGCCGC-AAAAGATAATGTTCTTTAGCGGCGCTTTTATCAC
* * *
37912836 AAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGTA--AA
1 AA-ACGCCGCAAAAGATAATGTTCTTTAGCGGCGCTTT-TATCAC
* * *
37912879 AAACGCCGCTAAAGATCATGTCCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCAAAAGATAATGTTCTTTAGCGGCGCTTTTATCAC
* * *
37912922 AAACGCCGTGAAAAG-TAATGTTCTTTAGCGGCGC--TTA-AAA
1 AAACGCCG-CAAAAGATAATGTTCTTTAGCGGCGCTTTTATCAC
* * *
37912962 AAGACGCCGCTAAAGATCATGTTCTTTAGC-GCTGCTTTTTATCTC
1 AA-ACGCCGCAAAAGATAATGTTCTTTAGCGGC-GC-TTTTATCAC
*
37913007 AAACGCCGCGAAAAG-TAATGTTCTTTAGCGGCGCTTTCT-TGAC
1 AAACGCCGC-AAAAGATAATGTTCTTTAGCGGCGCTTT-TATCAC
37913050 AAACGCCGC
1 AAACGCCGC
37913059 TATAGAACAT
Statistics
Matches: 218, Mismatches: 27, Indels: 38
0.77 0.10 0.13
Matches are distributed among these distances:
40 9 0.04
41 36 0.17
42 58 0.27
43 70 0.32
44 35 0.16
45 10 0.05
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (43 bp):
AAACGCCGCAAAAGATAATGTTCTTTAGCGGCGCTTTTATCAC
Found at i:37913555 original size:21 final size:21
Alignment explanation
Indices: 37913493--37913558 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
37913483 TCTCTCACTA
* *
37913493 CTTCTCTCGCTGCAGCCTGTA
1 CTTCTCTCGCTGCAGCCTCTG
37913514 CTTCTCTCGCTGCAGCCTCTG
1 CTTCTCTCGCTGCAGCCTCTG
* *
37913535 CTTCCCTCGCTGCCGCCTCTG
1 CTTCTCTCGCTGCAGCCTCTG
37913556 CTT
1 CTT
37913559 TAAGTTGTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.05, C:0.44, G:0.18, T:0.33
Consensus pattern (21 bp):
CTTCTCTCGCTGCAGCCTCTG
Found at i:37916936 original size:23 final size:23
Alignment explanation
Indices: 37916906--37916960 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
37916896 TTATAAAGTA
*
37916906 TATAAAAAAATATAT-TTGCATTTT
1 TATAAAAAAA-ATATGTT-CATATT
*
37916930 TTTAAAAAAAATATGTTCATATT
1 TATAAAAAAAATATGTTCATATT
37916953 TATAAAAA
1 TATAAAAA
37916961 TTAGTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (23 bp):
TATAAAAAAAATATGTTCATATT
Found at i:37920879 original size:8 final size:8
Alignment explanation
Indices: 37920866--37920937 Score: 57
Period size: 8 Copynumber: 9.8 Consensus size: 8
37920856 GCATTAACTA
37920866 TAAACCCC
1 TAAACCCC
37920874 TAAACCCC
1 TAAACCCC
37920882 TAAACCCC
1 TAAACCCC
*
37920890 T-AACCCA
1 TAAACCCC
37920897 T-AA-CCC
1 TAAACCCC
* *
37920903 TTAACCCA
1 TAAACCCC
37920911 TAAA-CCC
1 TAAACCCC
*
37920918 TTAACCCC
1 TAAACCCC
*
37920926 --AACCCT
1 TAAACCCC
37920932 TAAACC
1 TAAACC
37920938 ATAATCCATA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
6 8 0.15
7 15 0.29
8 29 0.56
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.17
Consensus pattern (8 bp):
TAAACCCC
Found at i:37920900 original size:7 final size:7
Alignment explanation
Indices: 37920884--37920962 Score: 54
Period size: 7 Copynumber: 11.1 Consensus size: 7
37920874 TAAACCCCTA
*
37920884 AACCCCT
1 AACCCAT
37920891 AACCCAT
1 AACCCAT
*
37920898 AACCCTT
1 AACCCAT
37920905 AACCCAT
1 AACCCAT
*
37920912 AAACCCTT
1 -AACCCAT
*
37920920 AACCC-C
1 AACCCAT
*
37920926 AACCCTT
1 AACCCAT
*
37920933 AAACCAT
1 AACCCAT
*
37920940 AATCCAT
1 AACCCAT
37920947 AAGCCTC-T
1 AA-CC-CAT
37920955 AACCCAT
1 AACCCAT
37920962 A
1 A
37920963 TCCCTTAAAC
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
6 6 0.11
7 40 0.70
8 10 0.18
9 1 0.02
ACGTcount: A:0.38, C:0.42, G:0.01, T:0.19
Consensus pattern (7 bp):
AACCCAT
Found at i:37920907 original size:14 final size:14
Alignment explanation
Indices: 37920884--37920941 Score: 73
Period size: 14 Copynumber: 4.1 Consensus size: 14
37920874 TAAACCCCTA
*
37920884 AACCCCTAACCCAT
1 AACCCTTAACCCAT
37920898 AACCCTTAACCCAT
1 AACCCTTAACCCAT
*
37920912 AAACCCTTAACCC-C
1 -AACCCTTAACCCAT
*
37920926 AACCCTTAAACCAT
1 AACCCTTAACCCAT
37920940 AA
1 AA
37920942 TCCATAAGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
13 11 0.29
14 15 0.39
15 12 0.32
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (14 bp):
AACCCTTAACCCAT
Found at i:37920908 original size:21 final size:21
Alignment explanation
Indices: 37920879--37920970 Score: 69
Period size: 22 Copynumber: 4.3 Consensus size: 21
37920869 ACCCCTAAAC
*
37920879 CCCTAAACCCCTAACCCATAA
1 CCCTTAACCCCTAACCCATAA
* *
37920900 CCCTTAACCCATAAACCCTTAA
1 CCCTTAACCCCT-AACCCATAA
* * *
37920922 CCC-CAACCCTTAAACCATAA
1 CCCTTAACCCCTAACCCATAA
* * * *
37920942 TCCATAAGCCTCTAACCCATAT
1 CCCTTAA-CCCCTAACCCATAA
37920964 CCCTTAA
1 CCCTTAA
37920971 ACCTTGAATC
Statistics
Matches: 53, Mismatches: 15, Indels: 5
0.73 0.21 0.07
Matches are distributed among these distances:
20 9 0.17
21 18 0.34
22 26 0.49
ACGTcount: A:0.36, C:0.42, G:0.01, T:0.21
Consensus pattern (21 bp):
CCCTTAACCCCTAACCCATAA
Found at i:37920914 original size:29 final size:28
Alignment explanation
Indices: 37920871--37920941 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 28
37920861 AACTATAAAC
* * *
37920871 CCCTAAACCCCTAAACCCCTAACCCATAA
1 CCCTTAACCCATAAACCCCTAACCC-CAA
*
37920900 CCCTTAACCCATAAACCCTTAACCCCAA
1 CCCTTAACCCATAAACCCCTAACCCCAA
*
37920928 CCCTTAAACCATAA
1 CCCTTAACCCATAA
37920942 TCCATAAGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 15 0.41
29 22 0.59
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.17
Consensus pattern (28 bp):
CCCTTAACCCATAAACCCCTAACCCCAA
Found at i:37921157 original size:28 final size:28
Alignment explanation
Indices: 37921102--37921159 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
37921092 ATTAACTATA
*
37921102 AACCCCTAAACCCCTAACCCCAGCCCTT
1 AACCCCTAAACCCCTAACCCCAACCCTT
* *
37921130 AACCCCTAAACCCTTAACCCCAATCCTT
1 AACCCCTAAACCCCTAACCCCAACCCTT
37921158 AA
1 AA
37921160 ACCATATCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.48, G:0.02, T:0.17
Consensus pattern (28 bp):
AACCCCTAAACCCCTAACCCCAACCCTT
Found at i:37921159 original size:13 final size:13
Alignment explanation
Indices: 37921110--37921159 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
37921100 TAAACCCCTA
*
37921110 AACCCCTAACCCC
1 AACCCTTAACCCC
*
37921123 AGCCCTTAACCCC
1 AACCCTTAACCCC
37921136 TAAACCCTTAACCCC
1 --AACCCTTAACCCC
*
37921151 AATCCTTAA
1 AACCCTTAA
37921160 ACCATATCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 19 0.61
15 12 0.39
ACGTcount: A:0.32, C:0.48, G:0.02, T:0.18
Consensus pattern (13 bp):
AACCCTTAACCCC
Found at i:37922058 original size:114 final size:115
Alignment explanation
Indices: 37921836--37922123 Score: 336
Period size: 114 Copynumber: 2.5 Consensus size: 115
37921826 ATTTTTAGAC
* * *
37921836 AAGCGCCACTAACGTCTCTAAAACCTAAACT-AAAAACGACATCGTTTTCTTAACAGTTTTGCGG
1 AAGCGCCACTAACGTCTCCAAAACCTAAACTGAAAAACGACAACGTTTTCTTAACAGTTTTACGG
* * * *
37921900 CGCTTCTGATAAAGTGCCACTAAAGCTTCGCTACTGCGGTGTTTT-CTGAA
66 CGCTTATGATAAAGCGCCACTAAAGCTTCGCTACTGCGGCGTTTTCCAG-A
* * **
37921950 AATCGCCACTAACGTCTCGAAAAGATAAA-TGAAAAACGACAACGTTTTCTTAACAGTTTTACGG
1 AAGCGCCACTAACGTCTCCAAAACCTAAACTGAAAAACGACAACGTTTTCTTAACAGTTTTACGG
* ** *
37922014 CGCTTATGATAAAGCGCCGCTAATTCTT-GACTA-TAGCGGCGTTTTCCAGT
66 CGCTTATGATAAAGCGCCACTAAAGCTTCG-CTACT-GCGGCGTTTTCCAGA
* * * *
37922064 AAGCGCCACTAAAGTCCCCAAAACCTAAACTG-AAAACGGCAGCGTTTTCTTAACAGTTTT
1 AAGCGCCACTAACGTCTCCAAAACCTAAACTGAAAAACGACAACGTTTTCTTAACAGTTTT
37922124 TGCAACGTTT
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
113 3 0.02
114 140 0.95
115 4 0.03
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (115 bp):
AAGCGCCACTAACGTCTCCAAAACCTAAACTGAAAAACGACAACGTTTTCTTAACAGTTTTACGG
CGCTTATGATAAAGCGCCACTAAAGCTTCGCTACTGCGGCGTTTTCCAGA
Found at i:37923830 original size:74 final size:72
Alignment explanation
Indices: 37923697--37923834 Score: 204
Period size: 74 Copynumber: 1.9 Consensus size: 72
37923687 ATTAAAAAGT
* *
37923697 ATAAAGTTTATAAAAATATAATTTGTAATTTTAAACAATTAATTAATTGCTAACGTGGCATACAT
1 ATAAAGTTTATAAAAATATAATTTGTAATTTTAAAAAATTAACTAATTGCTAACGTGGCATACAT
37923762 TTTAATA
66 TTTAATA
* * * *
37923769 ATAAAGTTTATAAAAATATATTTTTTATTTTTTAAAAAAATTAACTAATTGCTAACTTGGCATAC
1 ATAAAGTTTATAAAAATATAATTTGTA-ATTTT-AAAAAATTAACTAATTGCTAACGTGGCATAC
37923834 A
64 A
37923835 CATGGATGCC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
72 25 0.43
73 4 0.07
74 29 0.50
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (72 bp):
ATAAAGTTTATAAAAATATAATTTGTAATTTTAAAAAATTAACTAATTGCTAACGTGGCATACAT
TTTAATA
Found at i:37930631 original size:17 final size:17
Alignment explanation
Indices: 37930609--37930642 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
37930599 ATCGGTGGTT
*
37930609 GAGTAGACCTTGTTTAA
1 GAGTAGACCTTGCTTAA
*
37930626 GAGTAGATCTTGCTTAA
1 GAGTAGACCTTGCTTAA
37930643 TTGAGTGGAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (17 bp):
GAGTAGACCTTGCTTAA
Found at i:37933833 original size:15 final size:15
Alignment explanation
Indices: 37933813--37933846 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
37933803 TGTTATAAAT
37933813 GAACCGAGCTTGAAC
1 GAACCGAGCTTGAAC
37933828 GAACCGAGCTTGAAC
1 GAACCGAGCTTGAAC
37933843 GAAC
1 GAAC
37933847 AAATCCCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.35, C:0.26, G:0.26, T:0.12
Consensus pattern (15 bp):
GAACCGAGCTTGAAC
Found at i:37934021 original size:23 final size:23
Alignment explanation
Indices: 37933995--37934040 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
37933985 TTCATTTAAC
* *
37933995 TTAATCAAACATGTTCACGAACA
1 TTAAACAAACATGTTCACAAACA
*
37934018 TTAAACGAACATGTTCACAAACA
1 TTAAACAAACATGTTCACAAACA
37934041 ATATTAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.24
Consensus pattern (23 bp):
TTAAACAAACATGTTCACAAACA
Found at i:37937389 original size:84 final size:84
Alignment explanation
Indices: 37937246--37937417 Score: 308
Period size: 84 Copynumber: 2.0 Consensus size: 84
37937236 GATTTAAATG
37937246 ATATTATGTTATTTATCATATTATGCTTCAACAAAAAATCCAACGATGTTACGACGACTATCGAG
1 ATATTATGTTATTTATCATATTATGCTTCAACAAAAAATCCAACGATGTTACGACGACTATCGAG
*
37937311 CCCCGTTTGAACCTTATGA
66 CCCCGTTTGAACCTTAGGA
* * *
37937330 ATATTATGTTATTTATCATATTATGCTTCGACAGAAAATCCAACGATGTTACGATGACTATCGAG
1 ATATTATGTTATTTATCATATTATGCTTCAACAAAAAATCCAACGATGTTACGACGACTATCGAG
37937395 CCCCGTTTGAACCTTAGGA
66 CCCCGTTTGAACCTTAGGA
37937414 ATAT
1 ATAT
37937418 ATAGGATACA
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.34
Consensus pattern (84 bp):
ATATTATGTTATTTATCATATTATGCTTCAACAAAAAATCCAACGATGTTACGACGACTATCGAG
CCCCGTTTGAACCTTAGGA
Found at i:37942759 original size:21 final size:20
Alignment explanation
Indices: 37942720--37942763 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
37942710 GAATATTGTG
*
37942720 ATTTTTTATGTTAAATTATGA
1 ATTTTTAATGTTAAATTAT-A
* *
37942741 ATTTTTAATGTTTATTTATA
1 ATTTTTAATGTTAAATTATA
37942761 ATT
1 ATT
37942764 AAAAGTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (20 bp):
ATTTTTAATGTTAAATTATA
Found at i:37943631 original size:20 final size:20
Alignment explanation
Indices: 37943606--37943685 Score: 88
Period size: 20 Copynumber: 4.0 Consensus size: 20
37943596 ACGGGATTTT
*
37943606 CACTTCGGTGCCCTTGTTTG
1 CACTTCGGTGCCCCTGTTTG
* *
37943626 CACTTCGGTGCCCCTGTATA
1 CACTTCGGTGCCCCTGTTTG
* * * *
37943646 CACTTCGATGTCTCTATTTG
1 CACTTCGGTGCCCCTGTTTG
*
37943666 CACTACGGTGCCCCTGTTTG
1 CACTTCGGTGCCCCTGTTTG
37943686 TATAGTCAAG
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.11, C:0.31, G:0.21, T:0.36
Consensus pattern (20 bp):
CACTTCGGTGCCCCTGTTTG
Found at i:37946010 original size:12 final size:12
Alignment explanation
Indices: 37945993--37946022 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
37945983 CTTTTCCATC
37945993 TTTCTTCTTTAT
1 TTTCTTCTTTAT
37946005 TTTCTTCTTTAT
1 TTTCTTCTTTAT
37946017 TGTTCT
1 T-TTCT
37946023 AATATTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.07, C:0.17, G:0.03, T:0.73
Consensus pattern (12 bp):
TTTCTTCTTTAT
Found at i:37948110 original size:15 final size:15
Alignment explanation
Indices: 37948090--37948123 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
37948080 AGGTTTGTAC
37948090 GTTTCATACATTTAG
1 GTTTCATACATTTAG
37948105 GTTTCATACATTTAG
1 GTTTCATACATTTAG
37948120 GTTT
1 GTTT
37948124 ATTTTCTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.50
Consensus pattern (15 bp):
GTTTCATACATTTAG
Found at i:37948786 original size:39 final size:39
Alignment explanation
Indices: 37948737--37948820 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 39
37948727 CAACAAAGAA
*
37948737 CAACATCATGACAACACGAACGGGGACATTGCGATATGG
1 CAACATCATGACAACACGAACGGGGACATTGCGACATGG
* * ** * *
37948776 CAACGTCATGACGACGTGAATGGGGGCATTGCGACATGG
1 CAACATCATGACAACACGAACGGGGACATTGCGACATGG
*
37948815 CGACAT
1 CAACAT
37948821 GTTCGCCACA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.31, C:0.23, G:0.30, T:0.17
Consensus pattern (39 bp):
CAACATCATGACAACACGAACGGGGACATTGCGACATGG
Found at i:37951792 original size:21 final size:21
Alignment explanation
Indices: 37951763--37951818 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
37951753 AACAGCGGTG
* *
37951763 ACGGCGAGATTAGTTACTGTA
1 ACGGTGAGATTAGATACTGTA
*
37951784 ACGGTGAGATTGGATACTGTA
1 ACGGTGAGATTAGATACTGTA
*
37951805 GCGGTGAGATTAGA
1 ACGGTGAGATTAGA
37951819 AACAATGGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.11, G:0.34, T:0.27
Consensus pattern (21 bp):
ACGGTGAGATTAGATACTGTA
Found at i:37960688 original size:31 final size:29
Alignment explanation
Indices: 37960653--37960710 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
37960643 GAAGTGTAGG
*
37960653 GACTAAAATTTACCAATTTGAAAAATACAAT
1 GACTAAAATTAACCAATTT--AAAATACAAT
* *
37960684 GACTAATATTAATCAATTTAAAATACA
1 GACTAAAATTAACCAATTTAAAATACA
37960711 GGTGCTACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.33
31 16 0.67
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (29 bp):
GACTAAAATTAACCAATTTAAAATACAAT
Found at i:37962859 original size:39 final size:39
Alignment explanation
Indices: 37962816--37962893 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
37962806 ATAATTACAT
**
37962816 TAAAAAAATTATTATATTTATTTGTGTTTTTTAATATAA
1 TAAAAAAATTATTATATTTATAGGTGTTTTTTAATATAA
* *
37962855 TAAAATATTTATTATATTTATAGGTGTTTTTTAATATAA
1 TAAAAAAATTATTATATTTATAGGTGTTTTTTAATATAA
37962894 ATATTTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (39 bp):
TAAAAAAATTATTATATTTATAGGTGTTTTTTAATATAA
Found at i:37964094 original size:20 final size:20
Alignment explanation
Indices: 37964069--37964106 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
37964059 TCAGTACTTG
*
37964069 TAAAATTATATTGATACCCA
1 TAAAATTATATCGATACCCA
37964089 TAAAATTATATCGATACC
1 TAAAATTATATCGATACC
37964107 TTTTATCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (20 bp):
TAAAATTATATCGATACCCA
Found at i:37975736 original size:28 final size:28
Alignment explanation
Indices: 37975683--37975742 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
37975673 GTCATAATGT
* * * *
37975683 TTTTTTATTAATTAATATTTTTCCTTTG
1 TTTTATATTAATTAATATTCTGCCTTTA
*
37975711 TTTTATATTGATTAATATTCTGCCTTTA
1 TTTTATATTAATTAATATTCTGCCTTTA
37975739 TTTT
1 TTTT
37975743 CTTCAAGGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.65
Consensus pattern (28 bp):
TTTTATATTAATTAATATTCTGCCTTTA
Found at i:37977962 original size:21 final size:22
Alignment explanation
Indices: 37977936--37977979 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
37977926 AAAATGCAGT
37977936 AAAT-AAAATATTTTAATATAA
1 AAATAAAAATATTTTAATATAA
*
37977957 AAATAAAAAATCTTTTAATATAA
1 AAAT-AAAAATATTTTAATATAA
37977980 TTTAATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
23 16 0.80
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AAATAAAAATATTTTAATATAA
Found at i:37978009 original size:21 final size:22
Alignment explanation
Indices: 37977985--37978062 Score: 81
Period size: 21 Copynumber: 3.5 Consensus size: 22
37977975 TATAATTTAA
37977985 TATAA-AATAATTTTATTAAAT
1 TATAATAATAATTTTATTAAAT
* *
37978006 TAT-ATATTATTTTTATTAAAT
1 TATAATAATAATTTTATTAAAT
*
37978027 TATTTAATAATAATCTTATTAAAAT
1 TA--TAATAATAATTTTATT-AAAT
37978052 T-TAATAATAAT
1 TATAATAATAAT
37978063 AATCAATTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 1 0.02
21 19 0.40
22 10 0.21
23 1 0.02
24 11 0.23
25 5 0.11
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (22 bp):
TATAATAATAATTTTATTAAAT
Found at i:37978056 original size:22 final size:23
Alignment explanation
Indices: 37978018--37978062 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
37978008 TATATTATTT
37978018 TTATTAAATTATTTAATAATAATC
1 TTATTAAA-TATTTAATAATAATC
37978042 TTATTAAA-ATTTAATAATAAT
1 TTATTAAATATTTAATAATAAT
37978063 AATCAATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 13 0.62
24 8 0.38
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TTATTAAATATTTAATAATAATC
Found at i:37980268 original size:61 final size:63
Alignment explanation
Indices: 37980186--37980315 Score: 187
Period size: 61 Copynumber: 2.1 Consensus size: 63
37980176 GCAACATAAA
*
37980186 CTAATATAAAGTAGTATCTAAATATTAATTTGGT-AAAAA-TAAAGCTT-AATAATTACAATAT
1 CTAATATAAAGTAGTATCTAAATATTAATTAGGTAAAAAATTAAA-CTTAAATAATTACAATAT
* *
37980247 CTAAGTATAAA-TGGTATCTAAATATTAATTAGGTAAAAAATTAAACTTAAATAATTATAATAT
1 CTAA-TATAAAGTAGTATCTAAATATTAATTAGGTAAAAAATTAAACTTAAATAATTACAATAT
37980310 CTAATA
1 CTAATA
37980316 CAAATTCAGC
Statistics
Matches: 62, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
61 25 0.40
62 16 0.26
63 21 0.34
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (63 bp):
CTAATATAAAGTAGTATCTAAATATTAATTAGGTAAAAAATTAAACTTAAATAATTACAATAT
Found at i:37981354 original size:17 final size:17
Alignment explanation
Indices: 37981332--37981365 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
37981322 AAGTTTTAAC
37981332 CTTTATGTAGTAAACAA
1 CTTTATGTAGTAAACAA
37981349 CTTTATGTAGTAAACAA
1 CTTTATGTAGTAAACAA
37981366 TAAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
CTTTATGTAGTAAACAA
Found at i:37990249 original size:124 final size:125
Alignment explanation
Indices: 37989890--37990271 Score: 570
Period size: 125 Copynumber: 3.1 Consensus size: 125
37989880 TTAGGCTTAT
* * * **
37989890 TACAGTATGTCTTGAAAAAATAATTTTGAGTTGACTTTTCTGAACAAATAGTATAAAAATTGCTT
1 TACAGTAGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAACAAATAGTATAAAAACCGCTT
* * *
37989955 CAAGCAAGATGCTTTATCAGAAGAATTTTTGAAATCGCACTCACGTGGACGCGTTTTTGC
66 CAAGCAGGATGCTTTATCAGAAGAATTTTTGAAATCGCTCCCACGTGGACGCGTTTTTGC
* **
37990015 TACAGTAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGTAAATAGTATAAAAACCGCTT
1 TACAGTAGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAACAAATAGTATAAAAACCGCTT
* * * *
37990080 CAACCAGGAT-CTTTTATCAGAAGAATTTTTGAAATTGCTCCCACGTAGACGCGCTTTTGC
66 CAAGCAGGATGC-TTTATCAGAAGAATTTTTGAAATCGCTCCCACGTGGACGCGTTTTTGC
*
37990140 TACAGTAGGTCCTAAAAAAATAATTTTGAGTTGACGTTTCTGAACAAATAGTATAAAAA-CGCTT
1 TACAGTAGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAACAAATAGTATAAAAACCGCTT
* * *
37990204 CAAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCACTCCCACGTGGACGCGTTTTTGA
66 CAAGCAGGATGCTTTATCAGAAGAATTTTTGAAATCGCTCCCACGTGGACGCGTTTTTGC
37990264 TACAGTAG
1 TACAGTAG
37990272 CATGTTTGGA
Statistics
Matches: 229, Mismatches: 26, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
124 65 0.28
125 164 0.72
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (125 bp):
TACAGTAGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAACAAATAGTATAAAAACCGCTT
CAAGCAGGATGCTTTATCAGAAGAATTTTTGAAATCGCTCCCACGTGGACGCGTTTTTGC
Found at i:37993643 original size:49 final size:49
Alignment explanation
Indices: 37993476--37993645 Score: 270
Period size: 49 Copynumber: 3.5 Consensus size: 49
37993466 TAAGAATATT
* *
37993476 AACTATTTTGTATTTTATTA-AACAAAATAACATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATC-AAATAATATCAAAATATTCAAAATA
* * * *
37993525 AACTATTTTTTATTTTATTAAATGAAATAATATCAAACTATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
37993574 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
37993623 AACTATTTTGTATTTTATTACAT
1 AACTATTTTGTATTTTATTACAT
37993646 TAATATAAAC
Statistics
Matches: 111, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
49 110 0.99
50 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.42
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
Found at i:37993802 original size:21 final size:22
Alignment explanation
Indices: 37993761--37993803 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
37993751 TCTTTGTCCA
37993761 GCTTCCGGCAGGGGTTATGGTT
1 GCTTCCGGCAGGGGTTATGGTT
*
37993783 GCTT-CGGC-GGGGATTCTGGTT
1 GCTTCCGGCAGGGG-TTATGGTT
37993804 CATCAGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.07, C:0.19, G:0.42, T:0.33
Consensus pattern (22 bp):
GCTTCCGGCAGGGGTTATGGTT
Found at i:37994068 original size:18 final size:18
Alignment explanation
Indices: 37994042--37994084 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
37994032 GAGTAGAAAA
* *
37994042 AGGAAACATAAAAGGGTT
1 AGGATACATAAAAGGGCT
37994060 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
37994078 AGGATAC
1 AGGATAC
37994085 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:37998077 original size:3 final size:3
Alignment explanation
Indices: 37998065--37998098 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
37998055 CTGCTGCTGC
*
37998065 TGA TGT TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
37998099 AAATGATCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.38
Consensus pattern (3 bp):
TGA
Found at i:38001373 original size:41 final size:41
Alignment explanation
Indices: 38001292--38001526 Score: 290
Period size: 41 Copynumber: 5.7 Consensus size: 41
38001282 CCTTTCGGGG
* * *
38001292 CTTTAGCGACGTTTTTAAAAAAAGCGTCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTT-GAAAAAGCGCCGCTAATGCTCAGAT
* * *
38001334 CTTTAGCTGCGTTTTTGAAAATGGGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
38001375 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
* * ** * **
38001416 CTTTAGCGGTGTTTTTGGAAAAGCGCCATTAATGCTCGGGG
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
* * * **
38001457 CTTTAGCGGTGTTTTTTAAAAAGCGCCGCTAATGCTCGGGG
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
*
38001498 CTTTAGCGGCGTTTTTGAAAAAGTGCCGC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGC
38001527 AAAAACATTT
Statistics
Matches: 170, Mismatches: 23, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
41 156 0.92
42 14 0.08
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
Found at i:38001967 original size:14 final size:15
Alignment explanation
Indices: 38001934--38001967 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
38001924 TAAGGTTTAT
38001934 AGATTATGGAATTAA
1 AGATTATGGAATTAA
*
38001949 GGATTATGG-ATTAA
1 AGATTATGGAATTAA
38001963 AGATT
1 AGATT
38001968 CTGATTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAA
Found at i:38002004 original size:14 final size:13
Alignment explanation
Indices: 38001987--38002044 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
38001977 GGGTTGTGAT
38001987 TTAAGGTTTATGGG
1 TTAAGGTTTA-GGG
*
38002001 TTAAGGGTTAGGGG
1 TTAAGGTTTA-GGG
* *
38002015 TTAGAGGTTAAGAG
1 TTA-AGGTTTAGGG
38002029 TTAAGGATTTAGGG
1 TTAAGG-TTTAGGG
38002043 TT
1 TT
38002045 TATGTATTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
13 3 0.09
14 27 0.77
15 5 0.14
ACGTcount: A:0.26, C:0.00, G:0.38, T:0.36
Consensus pattern (13 bp):
TTAAGGTTTAGGG
Found at i:38002044 original size:21 final size:20
Alignment explanation
Indices: 38001987--38002044 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
38001977 GGGTTGTGAT
*
38001987 TTAAGGTTTATGGGTTAAGGG
1 TTAAGGTTTA-GGGTTAAGAG
* *
38002008 TTAGGGGTTAGAGGTTAAGAG
1 TTAAGGTTTAG-GGTTAAGAG
38002029 TTAAGGATTTAGGGTT
1 TTAAGG-TTTAGGGTT
38002045 TATGTATTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.03
21 25 0.83
22 4 0.13
ACGTcount: A:0.26, C:0.00, G:0.38, T:0.36
Consensus pattern (20 bp):
TTAAGGTTTAGGGTTAAGAG
Found at i:38003280 original size:22 final size:22
Alignment explanation
Indices: 38003247--38003312 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
38003237 ATAAAATCCC
38003247 TCCCCCC-GAAATCCCCAACTT
1 TCCCCCCTGAAATCCCCAACTT
*
38003268 TCCCCCCTAAAATCCCCAACTT
1 TCCCCCCTGAAATCCCCAACTT
* *
38003290 TCCCCCTTGAAACCCCCAACTT
1 TCCCCCCTGAAATCCCCAACTT
38003312 T
1 T
38003313 ACAAACATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 7 0.17
22 33 0.82
ACGTcount: A:0.24, C:0.50, G:0.03, T:0.23
Consensus pattern (22 bp):
TCCCCCCTGAAATCCCCAACTT
Found at i:38006766 original size:43 final size:43
Alignment explanation
Indices: 38006661--38006937 Score: 294
Period size: 43 Copynumber: 6.5 Consensus size: 43
38006651 TTTTTAAAAA
* ** * * *
38006661 GTCATG-TTTTTAGCGGCGTTTGT-CAAAAAGCGCTGTTAAAA
1 GTCATGATCTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAG
* * * *
38006702 GTCAT-CT-TGTTAGTGGCGTTTGTGGTATAAGCGTCGCTAAAG
1 GTCATGATCT-TTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAG
* * * * *
38006744 GTTATGTTCTTTAGCGACGTTTGTGGTAGAAGCGCCGTTAAAG
1 GTCATGATCTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAG
*
38006787 GTCATGATCTTTAGCGGCGTTAGTGGTAAAAGCGCCGCTAAAG
1 GTCATGATCTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAG
* *
38006830 GTCATGATCTTTAGCGGCGTTTGTGGTAGAAGCACCGCTAAAG
1 GTCATGATCTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAG
* * *
38006873 GTCTTGTTCTTTAGCGGGGTTTGTGAG-AAAAGCGCCGCTAAAG
1 GTCATGATCTTTAGCGGCGTTTGTG-GTAAAAGCGCCGCTAAAG
* *
38006916 ATCATGATCTATAGCGGCGTTT
1 GTCATGATCTTTAGCGGCGTTT
38006938 ATTTTAAAAA
Statistics
Matches: 196, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
40 1 0.01
41 19 0.10
42 15 0.08
43 159 0.81
44 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (43 bp):
GTCATGATCTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAG
Found at i:38012189 original size:13 final size:13
Alignment explanation
Indices: 38012171--38012197 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38012161 CTAGTTTAGT
38012171 AATACTTTTGAAA
1 AATACTTTTGAAA
38012184 AATACTTTTGAAA
1 AATACTTTTGAAA
38012197 A
1 A
38012198 GTGTTTTTAA
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:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (13 bp):
AATACTTTTGAAA
Found at i:38019831 original size:18 final size:18
Alignment explanation
Indices: 38019808--38019852 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
38019798 TTGATATGGT
*
38019808 TGGTGGTGAAGAAGAAGA
1 TGGTGGCGAAGAAGAAGA
*
38019826 TGGTGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGA
38019844 TGGTGGCGA
1 TGGTGGCGA
38019853 TCATTGGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.31, C:0.04, G:0.49, T:0.16
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGA
Found at i:38022966 original size:7 final size:8
Alignment explanation
Indices: 38022939--38022971 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
38022929 TACTTTAAAA
38022939 AATTTCAT
1 AATTTCAT
38022947 AATTTCAT
1 AATTTCAT
38022955 AATTTC-T
1 AATTTCAT
*
38022962 AATTTTAT
1 AATTTCAT
38022970 AA
1 AA
38022972 ATTTATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (8 bp):
AATTTCAT
Found at i:38022966 original size:15 final size:16
Alignment explanation
Indices: 38022939--38022971 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
38022929 TACTTTAAAA
38022939 AATTTCATAATTTCAT
1 AATTTCATAATTTCAT
*
38022955 AATTTC-TAATTTTAT
1 AATTTCATAATTTCAT
38022970 AA
1 AA
38022972 ATTTATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTTCATAATTTCAT
Found at i:38022974 original size:16 final size:17
Alignment explanation
Indices: 38022938--38022975 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
38022928 TTACTTTAAA
38022938 AAATTTCATAATTTCAT
1 AAATTTCATAATTTCAT
*
38022955 -AATTTC-TAATTTTAT
1 AAATTTCATAATTTCAT
38022970 AAATTT
1 AAATTT
38022976 ATTAATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATTTCATAATTTCAT
Found at i:38023434 original size:286 final size:285
Alignment explanation
Indices: 38022580--38024980 Score: 3982
Period size: 286 Copynumber: 8.3 Consensus size: 285
38022570 GCATGTTGAA
* * * *
38022580 AAAAAAGTTAGTAAAACACTCTTACCTCGGCCATTTCTTCGTTTTTTTTTCTCTGCATTTTATTA
1 AAAAAATTTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
* *
38022645 CTTTAAAAAATATCATAATTTCTAATTTTATAAATTTATTAATTTAGTATGTTTTTTAAATTAAT
66 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTG-TTTTTAAATTAAT
* * *
38022710 TTAGTGTAAAAAAAACCCTTATTCCTGCCATTTGCTCGTATTATTTTCCCAAATTTTATTACTTT
130 TTAGTGTAAAAAAAA-TCTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTACTTT
38022775 CAATAAAA-AATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAAT
194 CAATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAAT
38022839 ATTTGTATTAATTATTTCTGAATTTTT
259 ATTTGTATTAATTATTTCTGAATTTTT
* * *
38022866 AAAAAATTTTGTAAAACACTCTTACATCGGCCATTTCTTCGTATTTTTTTCTCTGTATTTTATTA
1 AAAAAATTTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
38022931 CTTTAAAAAATTTCATAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTA
66 CTTT---AAA----A-AATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTA
*
38022996 AATTAATTTAGTGT-AAAAAAATCCTTATTCCAGCCATTTGCTCGTATTATTTT-CTCAAATTTT
123 AATTAATTTAGTGTAAAAAAAAT-CTTATTCCCGCCATTTGCTCGTATTATTTTCCT-AAATTTT
*
38023059 ATTACTTTCAATAAAATAATTTTATTTTCATATTTTATTATTTTATATTATTTCAGTACATTTTG
186 ATTACTTTCAATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTG
38023124 TTTCAAATATTTGTATTAATTATTTCTGAATTTTT
251 TTTCAAATATTTGTATTAATTATTTCTGAATTTTT
* * *
38023159 AAAAAAATTTGTAAAACACTCTTACCTCGACCATTTCTTCGTATTTTTTTCTCCACATTTTATTA
1 AAAAAATTTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
*
38023224 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTATTTTTAAAATTAAT
66 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTT-AAATTAAT
38023289 TTAGTGTAAAAAAAATCTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTACTTTC
130 TTAGTGTAAAAAAAATCTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTACTTTC
38023354 AATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATA
195 AATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATA
38023419 TTTGTATTAATTATTTCTGAATTTTT
260 TTTGTATTAATTATTTCTGAATTTTT
* * *
38023445 AAAAAATTTTGTAAAACACTCTTACATCGGCCATTTCTTCGTATTTTTTTCTCTGTATTTTATTA
1 AAAAAATTTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
38023510 CTTTAAAAAATTTCATAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTA
66 CTTT---AAA----A-AATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTA
*
38023575 AATTAATTTAGTGT-AAAAAAATCCTTATTCCAGCCATTTGCTCGTATTATTTT-CTCAAATTTT
123 AATTAATTTAGTGTAAAAAAAAT-CTTATTCCCGCCATTTGCTCGTATTATTTTCCT-AAATTTT
*
38023638 ATTACTTTCAATAAAATAATTTTATTTTCATATTTTATTATTTTATATTATTTCAGTACATTTTG
186 ATTACTTTCAATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTG
38023703 TTTCAAATATTTGTATTAATTATTTCTGAATTTTT
251 TTTCAAATATTTGTATTAATTATTTCTGAATTTTT
* * *
38023738 AAAAAATTTTGTAAAACACTCTTACATCGGCCATTTCTTCGTATTTTTTTCTCTGTATTTTATTA
1 AAAAAATTTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
38023803 CTTTAAAAAATTTCATAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTA
66 CTTT---AAA----A-AATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTA
*
38023868 AATTAATTTAGTGT-AAAAAAATCCTTATTCCAGCCATTTGCTCGTATTATTTT-CTCAAATTTT
123 AATTAATTTAGTGTAAAAAAAAT-CTTATTCCCGCCATTTGCTCGTATTATTTTCCT-AAATTTT
*
38023931 ATTACTTTCAATAAAATAATTTTATTTTCATATTTTATTATTTTATATTATTTCAGTACATTTTG
186 ATTACTTTCAATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTG
38023996 TTTCAAATATTTGTATTAATTATTTCTGAATTTTT
251 TTTCAAATATTTGTATTAATTATTTCTGAATTTTT
* *
38024031 AAAAAATTTTGTAAAACACTCTTACCTCGACCATTTCTTCGTATTTTTTTCTCCACATTTTATTA
1 AAAAAATTTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
*
38024096 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTATTTTTAAAATTAAT
66 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTT-AAATTAAT
38024161 TTAGTGTAAAAAAAATCTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTACTTTC
130 TTAGTGTAAAAAAAATCTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTACTTTC
38024226 AATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATA
195 AATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATA
38024291 TTTGTATTAATTATTTCTGAATTTTT
260 TTTGTATTAATTATTTCTGAATTTTT
* * *
38024317 AAAAAAATTTGTAAAACACTCTTACCTCGACCATTTCTTCGTATTTTTTTCTCCACATTTTATTA
1 AAAAAATTTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
*
38024382 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTATTTTTAAAATTAAT
66 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTT-AAATTAAT
38024447 TTAGTGTAAAAAAAATCTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTACTTTC
130 TTAGTGTAAAAAAAATCTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTACTTTC
38024512 AATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATA
195 AATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATA
38024577 TTTGTATTAATTATTTCTGAATTTTT
260 TTTGTATTAATTATTTCTGAATTTTT
38024603 AAAAAATTTTGTAAAACACTCTTA---C--CCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
1 AAAAAATTTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
38024663 CTTTAAAAAA-TTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTTTAAATTAA
66 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTG--TTTTTAAATTAA
** * * *
38024727 TTTAGTGTAAAAAAACCCTTATTCACGCCATTTTCTCGTATTATTTTCCTGAATTTTATTACTTT
129 TTTAGTGTAAAAAAAATCTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTACTTT
38024792 CAATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAAT
194 CAATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAAT
*
38024857 ATCTGTATTAATTATTTCTGAATTTTT
259 ATTTGTATTAATTATTTCTGAATTTTT
**
38024884 AAAAAATTTTGTAAAACACTCTTACCTCGGTTATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
1 AAAAAATTTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
*
38024949 CTTTAAAAAAATTCATAATTTCTAATTTTATA
66 CTTTAAAAAATTTCATAATTTCTAATTTTATA
38024981 CTTTTACTTT
Statistics
Matches: 2031, Mismatches: 49, Indels: 69
0.95 0.02 0.03
Matches are distributed among these distances:
280 39 0.02
281 226 0.11
282 5 0.00
283 1 0.00
284 1 0.00
285 94 0.05
286 780 0.38
287 41 0.02
289 6 0.00
290 6 0.00
291 1 0.00
292 69 0.03
293 674 0.33
294 88 0.04
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.51
Consensus pattern (285 bp):
AAAAAATTTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTAAATTAATT
TAGTGTAAAAAAAATCTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTACTTTCA
ATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATAT
TTGTATTAATTATTTCTGAATTTTT
Found at i:38023545 original size:7 final size:8
Alignment explanation
Indices: 38023518--38023550 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
38023508 TACTTTAAAA
38023518 AATTTCAT
1 AATTTCAT
38023526 AATTTCAT
1 AATTTCAT
38023534 AATTTC-T
1 AATTTCAT
*
38023541 AATTTTAT
1 AATTTCAT
38023549 AA
1 AA
38023551 ATTTATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (8 bp):
AATTTCAT
Found at i:38023545 original size:15 final size:16
Alignment explanation
Indices: 38023518--38023550 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
38023508 TACTTTAAAA
38023518 AATTTCATAATTTCAT
1 AATTTCATAATTTCAT
*
38023534 AATTTC-TAATTTTAT
1 AATTTCATAATTTCAT
38023549 AA
1 AA
38023551 ATTTATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTTCATAATTTCAT
Found at i:38023553 original size:16 final size:17
Alignment explanation
Indices: 38023517--38023554 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
38023507 TTACTTTAAA
38023517 AAATTTCATAATTTCAT
1 AAATTTCATAATTTCAT
*
38023534 -AATTTC-TAATTTTAT
1 AAATTTCATAATTTCAT
38023549 AAATTT
1 AAATTT
38023555 ATTAATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATTTCATAATTTCAT
Found at i:38023688 original size:579 final size:571
Alignment explanation
Indices: 38022579--38024980 Score: 4031
Period size: 579 Copynumber: 4.2 Consensus size: 571
38022569 TGCATGTTGA
* * *
38022579 AAAAAAAGTTAGTAAAACACTCTTACCTCGGCCATTTCTTCGTTTTTTTTTCTCTGCATTTTATT
1 AAAAAAA-TTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATT
* * * *
38022644 ACTTTAAAAAATATCATAATTTCTAATTTTATAAATTTATTAATTTAGTATGTTTTTTAAATTAA
65 ACTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTATTTTTAAAATTAA
* * *
38022709 TTTAGTGTAAAAAAAACCCTTATTCCTGCCATTTGCTCGTATTATTTTCCCAAATTTTATTACTT
130 TTTAGTGTAAAAAAAA-TCTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTACTT
38022774 TCAATAAAA-AATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAA
194 TCAATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAA
38022838 TATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACATCGGCCATTTC
259 TATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACATCGGCCATTTC
* *
38022903 TTCGTATTTTTTTCTCTGTATTTTATTACTTTAAAAAATTTCATAATTTCATAATTTCTAATTTT
324 TTCGTATTTTTTTCTCCGCATTTTATTACTTT---AAA----A-AATTTCATAATTTCTAATTTT
38022968 ATAAATTTATTAATTTAGTGTGTTTTTAAATTAATTTAGTGTAAAAAAATCCTTATTCCAGCCAT
381 ATAAATTTATTAATTTAGTGTGTTTTTAAATTAATTTAGTGTAAAAAAATCCTTATTCCAGCCAT
38023033 TTGCTCGTATTATTTT-CTCAAATTTTATTACTTTCAATAAAATAATTTTATTTTCATATTTTAT
446 TTGCTCGTATTATTTTCCT-AAATTTTATTACTTTCAATAAAATAATTTTATTTTCATATTTTAT
38023097 TATTTTATATTATTTCAGTACATTTTGTTTCAAATATTTGTATTAATTATTTCTGAATTTTT
510 TATTTTATATTATTTCAGTACATTTTGTTTCAAATATTTGTATTAATTATTTCTGAATTTTT
* *
38023159 AAAAAAATTTGTAAAACACTCTTACCTCGACCATTTCTTCGTATTTTTTTCTCCACATTTTATTA
1 AAAAAAATTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
38023224 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTATTTTTAAAATTAAT
66 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTATTTTTAAAATTAAT
38023289 TTAGTGTAAAAAAAATCTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTACTTTC
131 TTAGTGTAAAAAAAATCTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTACTTTC
38023354 AATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATA
196 AATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATA
38023419 TTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACATCGGCCATTTCTT
261 TTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACATCGGCCATTTCTT
* *
38023484 CGTATTTTTTTCTCTGTATTTTATTACTTTAAAAAATTTCATAATTTCATAATTTCTAATTTTAT
326 CGTATTTTTTTCTCCGCATTTTATTACTTT---AAA----A-AATTTCATAATTTCTAATTTTAT
38023549 AAATTTATTAATTTAGTGTGTTTTTAAATTAATTTAGTGTAAAAAAATCCTTATTCCAGCCATTT
383 AAATTTATTAATTTAGTGTGTTTTTAAATTAATTTAGTGTAAAAAAATCCTTATTCCAGCCATTT
38023614 GCTCGTATTATTTT-CTCAAATTTTATTACTTTCAATAAAATAATTTTATTTTCATATTTTATTA
448 GCTCGTATTATTTTCCT-AAATTTTATTACTTTCAATAAAATAATTTTATTTTCATATTTTATTA
38023678 TTTTATATTATTTCAGTACATTTTGTTTCAAATATTTGTATTAATTATTTCTGAATTTTT
512 TTTTATATTATTTCAGTACATTTTGTTTCAAATATTTGTATTAATTATTTCTGAATTTTT
* * * *
38023738 AAAAAATTTTGTAAAACACTCTTACATCGGCCATTTCTTCGTATTTTTTTCTCTGTATTTTATTA
1 AAAAAAATTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
*
38023803 CTTTAAAAAATTTCATAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTT-
66 CTTT---AAA----A-AATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTATTTTTA
*
38023867 AAATTAATTTAGTGT-AAAAAAATCCTTATTCCAGCCATTTGCTCGTATTATTTT-CTCAAATTT
123 AAATTAATTTAGTGTAAAAAAAAT-CTTATTCCCGCCATTTGCTCGTATTATTTTCCT-AAATTT
*
38023930 TATTACTTTCAATAAAATAATTTTATTTTCATATTTTATTATTTTATATTATTTCAGTACATTTT
186 TATTACTTTCAATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTT
*
38023995 GTTTCAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACCTCG
251 GTTTCAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACATCG
* *
38024060 ACCATTTCTTCGTATTTTTTTCTCCACATTTTATTACTTTAAAAAATTTCATAATTTCTAATTTT
316 GCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATTTCATAATTTCTAATTTT
* *
38024125 ATAAATTTATTAATTTAGTGTATTTTTAAAATTAATTTAGTGTAAAAAAAAT-CTTATTCCCGCC
381 ATAAATTTATTAATTTAGTGTGTTTTT-AAATTAATTTAGTGT-AAAAAAATCCTTATTCCAGCC
*
38024189 ATTTGCTCGTATTATTTTCCTAAATTTTATTACTTTCAATAAAATAATTTTATTTTCGTATTTTA
444 ATTTGCTCGTATTATTTTCCTAAATTTTATTACTTTCAATAAAATAATTTTATTTTCATATTTTA
38024254 TTATTTTATATTATTTCAGTACATTTTGTTTCAAATATTTGTATTAATTATTTCTGAATTTTT
509 TTATTTTATATTATTTCAGTACATTTTGTTTCAAATATTTGTATTAATTATTTCTGAATTTTT
* *
38024317 AAAAAAATTTGTAAAACACTCTTACCTCGACCATTTCTTCGTATTTTTTTCTCCACATTTTATTA
1 AAAAAAATTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
38024382 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTATTTTTAAAATTAAT
66 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTATTTTTAAAATTAAT
38024447 TTAGTGTAAAAAAAATCTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTACTTTC
131 TTAGTGTAAAAAAAATCTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTACTTTC
38024512 AATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATA
196 AATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATA
38024577 TTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTT--A-C--CCATTTCTT
261 TTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACATCGGCCATTTCTT
38024637 CGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAA-TTCATAATTTCTAATTTTATAAATTTAT
326 CGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTAT
* *
38024701 TAATTTAGTGTGTTTTTTTAAATTAATTTAGTGTAAAAAAACCCTTATT-CACGCCATTTTCTCG
391 TAATTTAGTGTG--TTTTTAAATTAATTTAGTGTAAAAAAATCCTTATTCCA-GCCATTTGCTCG
* *
38024765 TATTATTTTCCTGAATTTTATTACTTTCAATAAAATAATTTTATTTTCGTATTTTATTATTTTAT
453 TATTATTTTCCTAAATTTTATTACTTTCAATAAAATAATTTTATTTTCATATTTTATTATTTTAT
*
38024830 ATTATTTCAGTACATTTTGTTTCAAATATCTGTATTAATTATTTCTGAATTTTT
518 ATTATTTCAGTACATTTTGTTTCAAATATTTGTATTAATTATTTCTGAATTTTT
* **
38024884 AAAAAATTTTGTAAAACACTCTTACCTCGGTTATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
1 AAAAAAATTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
*
38024949 CTTTAAAAAAATTCATAATTTCTAATTTTATA
66 CTTTAAAAAATTTCATAATTTCTAATTTTATA
38024981 CTTTTACTTT
Statistics
Matches: 1749, Mismatches: 52, Indels: 55
0.94 0.03 0.03
Matches are distributed among these distances:
566 47 0.03
567 284 0.16
568 5 0.00
569 1 0.00
571 47 0.03
572 174 0.10
573 10 0.01
576 3 0.00
578 101 0.06
579 782 0.45
580 17 0.01
582 3 0.00
583 3 0.00
585 10 0.01
586 215 0.12
587 47 0.03
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.51
Consensus pattern (571 bp):
AAAAAAATTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTATTTTTAAAATTAAT
TTAGTGTAAAAAAAATCTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTACTTTC
AATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATA
TTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACATCGGCCATTTCTT
CGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTAT
TAATTTAGTGTGTTTTTAAATTAATTTAGTGTAAAAAAATCCTTATTCCAGCCATTTGCTCGTAT
TATTTTCCTAAATTTTATTACTTTCAATAAAATAATTTTATTTTCATATTTTATTATTTTATATT
ATTTCAGTACATTTTGTTTCAAATATTTGTATTAATTATTTCTGAATTTTT
Found at i:38023838 original size:7 final size:8
Alignment explanation
Indices: 38023811--38023843 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
38023801 TACTTTAAAA
38023811 AATTTCAT
1 AATTTCAT
38023819 AATTTCAT
1 AATTTCAT
38023827 AATTTC-T
1 AATTTCAT
*
38023834 AATTTTAT
1 AATTTCAT
38023842 AA
1 AA
38023844 ATTTATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (8 bp):
AATTTCAT
Found at i:38023838 original size:15 final size:16
Alignment explanation
Indices: 38023811--38023843 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
38023801 TACTTTAAAA
38023811 AATTTCATAATTTCAT
1 AATTTCATAATTTCAT
*
38023827 AATTTC-TAATTTTAT
1 AATTTCATAATTTCAT
38023842 AA
1 AA
38023844 ATTTATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTTCATAATTTCAT
Found at i:38023846 original size:16 final size:17
Alignment explanation
Indices: 38023810--38023847 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
38023800 TTACTTTAAA
38023810 AAATTTCATAATTTCAT
1 AAATTTCATAATTTCAT
*
38023827 -AATTTC-TAATTTTAT
1 AAATTTCATAATTTCAT
38023842 AAATTT
1 AAATTT
38023848 ATTAATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATTTCATAATTTCAT
Found at i:38024381 original size:872 final size:867
Alignment explanation
Indices: 38022579--38024980 Score: 4251
Period size: 872 Copynumber: 2.8 Consensus size: 867
38022569 TGCATGTTGA
* *
38022579 AAAAAAAGTTAGTAAAACACTCTTACCTCGGCCATTTCTTCGTTTTTTTTTCTCTGCATTTTATT
1 AAAAAAA-TTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCTGCATTTTATT
*
38022644 ACTTTAAAAAAT-A--TCATAATTTCTAATTTTATAAATTTATTAATTTAGTATGTTTTTTAAAT
65 ACTTTAAAAAATAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTG-TTTTTAAAT
* *
38022706 TAATTTAGTGTAAAAAAAACCCTTATTCCTGCCATTTGCTCGTATTATTTTCCCAAATTTTATTA
129 TAATTTAGTGTAAAAAAAATCCTTATTCCAGCCATTTGCTCGTATTATTTT-CCAAATTTTATTA
38022771 CTTTCAATAAAA-AATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTC
193 CTTTCAATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTC
38022835 AAATATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACATCGGCCAT
258 AAATATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACATCGGCCAT
38022900 TTCTTCGTATTTTTTTCTCTGTATTTTATTACTTTAAAAAATTTCATAATTTCATAATTTCTAAT
323 TTCTTCGTATTTTTTTCTCTGTATTTTATTACTTTAAAAAATTTCATAATTTCATAATTTCTAAT
38022965 TTTATAAATTTATTAATTTAGTGTGTTTTTAAATTAATTTAGTGTAAAAAAATCCTTATTCCAGC
388 TTTATAAATTTATTAATTTAGTGTGTTTTTAAATTAATTTAGTGTAAAAAAATCCTTATTCCAGC
38023030 CATTTGCTCGTATTATTTTCTCAAATTTTATTACTTTCAATAAAATAATTTTATTTTCATATTTT
453 CATTTGCTCGTATTATTTTCTCAAATTTTATTACTTTCAATAAAATAATTTTATTTTCATATTTT
38023095 ATTATTTTATATTATTTCAGTACATTTTGTTTCAAATATTTGTATTAATTATTTCTGAATTTTTA
518 ATTATTTTATATTATTTCAGTACATTTTGTTTCAAATATTTGTATTAATTATTTCTGAATTTTTA
*
38023160 AAAAAATTTGTAAAACACTCTTACCTCGACCATTTCTTCGTATTTTTTTCTCCACATTTTATTAC
583 AAAAATTTTGTAAAACACTCTTACCTCGACCATTTCTTCGTATTTTTTTCTCCACATTTTATTAC
38023225 TTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTATTTTTAAAATTAATT
648 TTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTATTTTTAAAATTAATT
38023290 TAGTGTAAAAAAAATCTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTACTTTCA
713 TAGTGTAAAAAAAATCTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTACTTTCA
38023355 ATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATAT
778 ATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATAT
38023420 TTGTATTAATTATTTCTGAATTTTT
843 TTGTATTAATTATTTCTGAATTTTT
* * *
38023445 AAAAAATTTTGTAAAACACTCTTACATCGGCCATTTCTTCGTATTTTTTTCTCTGTATTTTATTA
1 AAAAAAATTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCTGCATTTTATTA
38023510 CTTTAAAAAATTTCATAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTA
66 CTTT-AAAAA----ATAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTA
38023575 AATTAATTTAGTGT-AAAAAAATCCTTATTCCAGCCATTTGCTCGTATTATTTTCTCAAATTTTA
126 AATTAATTTAGTGTAAAAAAAATCCTTATTCCAGCCATTTGCTCGTATTATTTTC-CAAATTTTA
*
38023639 TTACTTTCAATAAAATAATTTTATTTTCATATTTTATTATTTTATATTATTTCAGTACATTTTGT
190 TTACTTTCAATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGT
38023704 TTCAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACATCGGC
255 TTCAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACATCGGC
38023769 CATTTCTTCGTATTTTTTTCTCTGTATTTTATTACTTTAAAAAATTTCATAATTTCATAATTTCT
320 CATTTCTTCGTATTTTTTTCTCTGTATTTTATTACTTTAAAAAATTTCATAATTTCATAATTTCT
38023834 AATTTTATAAATTTATTAATTTAGTGTGTTTTTAAATTAATTTAGTGTAAAAAAATCCTTATTCC
385 AATTTTATAAATTTATTAATTTAGTGTGTTTTTAAATTAATTTAGTGTAAAAAAATCCTTATTCC
38023899 AGCCATTTGCTCGTATTATTTTCTCAAATTTTATTACTTTCAATAAAATAATTTTATTTTCATAT
450 AGCCATTTGCTCGTATTATTTTCTCAAATTTTATTACTTTCAATAAAATAATTTTATTTTCATAT
38023964 TTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATATTTGTATTAATTATTTCTGAATTT
515 TTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATATTTGTATTAATTATTTCTGAATTT
38024029 TTAAAAAATTTTGTAAAACACTCTTACCTCGACCATTTCTTCGTATTTTTTTCTCCACATTTTAT
580 TTAAAAAATTTTGTAAAACACTCTTACCTCGACCATTTCTTCGTATTTTTTTCTCCACATTTTAT
38024094 TACTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTATTTTTAAAATTA
645 TACTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTATTTTTAAAATTA
38024159 ATTTAGTGTAAAAAAAATCTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTACTT
710 ATTTAGTGTAAAAAAAATCTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTACTT
38024224 TCAATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAA
775 TCAATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAA
38024289 TATTTGTATTAATTATTTCTGAATTTTT
840 TATTTGTATTAATTATTTCTGAATTTTT
* **
38024317 AAAAAAATTTGTAAAACACTCTTACCTCGACCATTTCTTCGTATTTTTTTCTCCACATTTTATTA
1 AAAAAAATTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCTGCATTTTATTA
*
38024382 CTTT--AAAA-AATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTATTTTTAAAATT
66 CTTTAAAAAATAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTT-AAATT
*
38024444 AATTTAGTGTAAAAAAAAT-CTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTAC
130 AATTTAGTGTAAAAAAAATCCTTATTCCAGCCATTTGCTCGTATTATTTTCC-AAATTTTATTAC
38024508 TTTCAATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCA
194 TTTCAATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCA
38024573 AATATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTT--A-C--CCATT
259 AATATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACATCGGCCATT
* *
38024633 TCTTCGTATTTTTTTCTCCGCATTTTATTACTTT---AAA----A-AA-TTCATAATTTCTAATT
324 TCTTCGTATTTTTTTCTCTGTATTTTATTACTTTAAAAAATTTCATAATTTCATAATTTCTAATT
*
38024689 TTATAAATTTATTAATTTAGTGTGTTTTTTTAAATTAATTTAGTGTAAAAAAACCCTTATT-CAC
389 TTATAAATTTATTAATTTAGTGTG--TTTTTAAATTAATTTAGTGTAAAAAAATCCTTATTCCA-
* * *
38024753 GCCATTTTCTCGTATTATTTTC-CTGAATTTTATTACTTTCAATAAAATAATTTTATTTTCGTAT
451 GCCATTTGCTCGTATTATTTTCTC-AAATTTTATTACTTTCAATAAAATAATTTTATTTTCATAT
*
38024817 TTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATATCTGTATTAATTATTTCTGAATTT
515 TTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATATTTGTATTAATTATTTCTGAATTT
*** *
38024882 TTAAAAAATTTTGTAAAACACTCTTACCTCGGTTATTTCTTCGTATTTTTTTCTCCGCATTTTAT
580 TTAAAAAATTTTGTAAAACACTCTTACCTCGACCATTTCTTCGTATTTTTTTCTCCACATTTTAT
*
38024947 TACTTTAAAAAAATTCATAATTTCTAATTTTATA
645 TACTTTAAAAAATTTCATAATTTCTAATTTTATA
38024981 CTTTTACTTT
Statistics
Matches: 1488, Mismatches: 31, Indels: 47
0.95 0.02 0.03
Matches are distributed among these distances:
851 40 0.03
852 5 0.00
853 252 0.17
857 3 0.00
860 37 0.02
862 1 0.00
863 1 0.00
864 48 0.03
865 233 0.16
866 19 0.01
869 3 0.00
870 3 0.00
871 62 0.04
872 743 0.50
873 38 0.03
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.51
Consensus pattern (867 bp):
AAAAAAATTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCTGCATTTTATTA
CTTTAAAAAATAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTAAATTA
ATTTAGTGTAAAAAAAATCCTTATTCCAGCCATTTGCTCGTATTATTTTCCAAATTTTATTACTT
TCAATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAA
TATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACATCGGCCATTTC
TTCGTATTTTTTTCTCTGTATTTTATTACTTTAAAAAATTTCATAATTTCATAATTTCTAATTTT
ATAAATTTATTAATTTAGTGTGTTTTTAAATTAATTTAGTGTAAAAAAATCCTTATTCCAGCCAT
TTGCTCGTATTATTTTCTCAAATTTTATTACTTTCAATAAAATAATTTTATTTTCATATTTTATT
ATTTTATATTATTTCAGTACATTTTGTTTCAAATATTTGTATTAATTATTTCTGAATTTTTAAAA
AATTTTGTAAAACACTCTTACCTCGACCATTTCTTCGTATTTTTTTCTCCACATTTTATTACTTT
AAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTATTTTTAAAATTAATTTAG
TGTAAAAAAAATCTTATTCCCGCCATTTGCTCGTATTATTTTCCTAAATTTTATTACTTTCAATA
AAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATATTTG
TATTAATTATTTCTGAATTTTT
Found at i:38025272 original size:27 final size:28
Alignment explanation
Indices: 38025220--38025273 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
38025210 ACATGAATTT
* *
38025220 TTTCATAAATTTTGTCATGCTAAATAAA
1 TTTCATAAAATTTATCATGCTAAATAAA
*
38025248 TTTCATAAAATTTAT-ATGCTCAATAA
1 TTTCATAAAATTTATCATGCTAAATAA
38025274 CATAATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.43
Consensus pattern (28 bp):
TTTCATAAAATTTATCATGCTAAATAAA
Found at i:38025433 original size:10 final size:11
Alignment explanation
Indices: 38025420--38025511 Score: 88
Period size: 10 Copynumber: 8.5 Consensus size: 11
38025410 TTCTCGTCTC
38025420 CTTTCCTT-TT
1 CTTTCCTTCTT
38025430 CTTTCCTTCTT
1 CTTTCCTTCTT
38025441 -TTTCCTTCTT
1 CTTTCCTTCTT
*
38025451 -TTTTCTTCTTAT
1 CTTTCCTTC-T-T
38025463 CCTTTCCTT-TT
1 -CTTTCCTTCTT
38025474 CTTTCCTTCTT
1 CTTTCCTTCTT
*
38025485 -TTTCTTTCTTT
1 CTTTCCTTC-TT
38025496 CTTT-CTTCTT
1 CTTTCCTTCTT
38025506 CTTTCC
1 CTTTCC
38025512 CTCTCCTTCT
Statistics
Matches: 69, Mismatches: 4, Indels: 17
0.77 0.04 0.19
Matches are distributed among these distances:
10 46 0.67
11 12 0.17
12 5 0.07
14 6 0.09
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.68
Consensus pattern (11 bp):
CTTTCCTTCTT
Found at i:38025468 original size:24 final size:23
Alignment explanation
Indices: 38025418--38025521 Score: 74
Period size: 24 Copynumber: 4.5 Consensus size: 23
38025408 TCTTCTCGTC
*
38025418 TCCTTTCCTT-TTCTTTCCTTC-T
1 TCCTTTCCTTCTT-TTTTCTTCTT
38025440 T--TTTCCTTCTTTTTTCTTCTT
1 TCCTTTCCTTCTTTTTTCTTCTT
*
38025461 ATCCTTTCCTT-TTCTTTCCTTCTTT
1 -TCCTTTCCTTCTT-TTTTCTTC-TT
* * *
38025486 TTCTTTCTTTCTTTCTTCTTCTT
1 TCCTTTCCTTCTTTTTTCTTCTT
*
38025509 TCCCTCTCCTTCT
1 T-CCTTTCCTTCT
38025522 GTTCCCCCCA
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
20 14 0.22
21 3 0.05
22 2 0.03
23 5 0.08
24 36 0.56
25 4 0.06
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (23 bp):
TCCTTTCCTTCTTTTTTCTTCTT
Found at i:38025469 original size:34 final size:33
Alignment explanation
Indices: 38025427--38025511 Score: 115
Period size: 34 Copynumber: 2.6 Consensus size: 33
38025417 CTCCTTTCCT
38025427 TTTCTTTCCTTCTT-TTTCCTTCTTTTT-TCTTC
1 TTTCTTTCCTTCTTCTTTCCTTCTTTTTCT-TTC
38025459 TTATCCTTTCCTT-TTCTTTCCTTCTTTTTCTTTC
1 TT-T-CTTTCCTTCTTCTTTCCTTCTTTTTCTTTC
38025493 TTTCTTT-CTTCTTCTTTCC
1 TTTCTTTCCTTCTTCTTTCC
38025512 CTCTCCTTCT
Statistics
Matches: 48, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
31 3 0.06
32 14 0.29
33 4 0.08
34 26 0.54
35 1 0.02
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.69
Consensus pattern (33 bp):
TTTCTTTCCTTCTTCTTTCCTTCTTTTTCTTTC
Found at i:38025471 original size:44 final size:45
Alignment explanation
Indices: 38025418--38025505 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 45
38025408 TCTTCTCGTC
38025418 TCCTTTCCTTTTCTTTCCTTCTTTTTCCTTCTTT-TTTCTTCTTA
1 TCCTTTCCTTTTCTTTCCTTCTTTTTCCTTCTTTCTTTCTTCTTA
*
38025462 TCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCTTTCTTCTT
1 TCCTTTCCTTTTCTTTCCTTCTTTTTCCTTCTTTCTTTCTTCTT
38025506 CTTTCCCTCT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 33 0.79
45 9 0.21
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (45 bp):
TCCTTTCCTTTTCTTTCCTTCTTTTTCCTTCTTTCTTTCTTCTTA
Found at i:38025507 original size:14 final size:14
Alignment explanation
Indices: 38025428--38025510 Score: 62
Period size: 14 Copynumber: 5.8 Consensus size: 14
38025418 TCCTTTCCTT
* *
38025428 TTCTTTCCTTCTTT
1 TTCTTTCTTTCTTC
* *
38025442 TTCCTTCTTTTTTC
1 TTCTTTCTTTCTTC
38025456 TTCTTATCCTTTCCTT-
1 TTCTT-T-CTTT-CTTC
* *
38025472 TTCTTTCCTTCTTT
1 TTCTTTCTTTCTTC
38025486 TTCTTTCTTTCTTTC
1 TTCTTTCTTTC-TTC
38025501 TTC-TTCTTTC
1 TTCTTTCTTTC
38025511 CCTCTCCTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
13 3 0.05
14 34 0.62
15 7 0.13
16 9 0.16
17 2 0.04
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (14 bp):
TTCTTTCTTTCTTC
Found at i:38025519 original size:48 final size:47
Alignment explanation
Indices: 38025389--38025519 Score: 153
Period size: 44 Copynumber: 2.8 Consensus size: 47
38025379 CTTCCTCCCC
* * *
38025389 TCTTCTTCTTTTTTTTTTC-TCTTCTCGTCTCCTTTCCTTTTCTTTCCT
1 TCTTTTTCTTTCTTTTTTCTTCTTCT-ATC-CCTTTCCTTTTCTTTCCT
*
38025437 TCTTTTTCCTTCTTTTTTCTTC-T-TAT-CCTTTCCTTTTCTTTCCT
1 TCTTTTTCTTTCTTTTTTCTTCTTCTATCCCTTTCCTTTTCTTTCCT
* *
38025481 TCTTTTTCTTTCTTTCTTTCTTCTTCTTTCCCTCTCCTT
1 TCTTTTTCTTTCTTT-TTTCTTCTTCTATCCCTTTCCTT
38025520 CTGTTCCCCC
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
44 32 0.45
45 7 0.10
46 2 0.03
47 3 0.04
48 25 0.35
49 2 0.03
ACGTcount: A:0.01, C:0.31, G:0.01, T:0.67
Consensus pattern (47 bp):
TCTTTTTCTTTCTTTTTTCTTCTTCTATCCCTTTCCTTTTCTTTCCT
Found at i:38026318 original size:31 final size:30
Alignment explanation
Indices: 38026274--38026339 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
38026264 AAAACAAATC
*
38026274 AATAATTTAAATAAAAATTTTCAAATAATTT
1 AATAACTTAAAT-AAAATTTTCAAATAATTT
* * *
38026305 AATAACTTGAATAAATTTTTTAAATAATTT
1 AATAACTTAAATAAAATTTTCAAATAATTT
38026335 AATAA
1 AATAA
38026340 TTATTTAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 21 0.68
31 10 0.32
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (30 bp):
AATAACTTAAATAAAATTTTCAAATAATTT
Found at i:38034400 original size:3 final size:3
Alignment explanation
Indices: 38034387--38034420 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
38034377 CTGAAAAGGA
*
38034387 TTC TTC TTTC TTC TTC TTC TTC TTC TTG TTC TTC
1 TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC
38034421 CTCAAGTGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.00, C:0.29, G:0.03, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:38035295 original size:27 final size:27
Alignment explanation
Indices: 38035254--38035350 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 27
38035244 GACAATTAAT
* *
38035254 AATAGCCTTTATGGCGAACTTTGAAAG
1 AATAACCTTTATGGCGAACTCTGAAAG
* * *
38035281 AATAACCTTTGTGGCAAACTCTAAAAG
1 AATAACCTTTATGGCGAACTCTGAAAG
** *
38035308 AATAGTCTTTATGGTGAACTCTGAAAG
1 AATAACCTTTATGGCGAACTCTGAAAG
*
38035335 AACT-ACCTTTTTGGCG
1 AA-TAACCTTTATGGCG
38035351 TATTCAATAC
Statistics
Matches: 54, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (27 bp):
AATAACCTTTATGGCGAACTCTGAAAG
Found at i:38040450 original size:41 final size:40
Alignment explanation
Indices: 38040381--38040482 Score: 132
Period size: 41 Copynumber: 2.5 Consensus size: 40
38040371 ACTGGCATAA
* * *
38040381 AGCCTGCTAGACACAAAGGCCGAAACATTTCACCGGCGCAG
1 AGCCTGCTAGGCATAAA-GCCGAAACATTTCACCGGCACAG
* *
38040422 AGCCTGCTAGGCATAAAGCCTGATACATTTCACCGGCATAG
1 AGCCTGCTAGGCATAAAGCC-GAAACATTTCACCGGCACAG
*
38040463 AGCCTACTAGGCATAAAGCC
1 AGCCTGCTAGGCATAAAGCC
38040483 CGAACTTACA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 3 0.06
41 51 0.94
ACGTcount: A:0.31, C:0.29, G:0.23, T:0.17
Consensus pattern (40 bp):
AGCCTGCTAGGCATAAAGCCGAAACATTTCACCGGCACAG
Found at i:38040667 original size:47 final size:47
Alignment explanation
Indices: 38040616--38041070 Score: 291
Period size: 47 Copynumber: 8.9 Consensus size: 47
38040606 TAACATATAT
38040616 ATATACATTCGGCCATAGTTTAATTCATTTCTCTGCATAACAATTAC
1 ATATACATTCGGCCATAGTTTAATTCATTTCTCTGCATAACAATTAC
* * * * * *
38040663 ATATACATTCAGCTATAGATTAATTCATTTCAATGCATAACAAATATATATATATATAT
1 ATATACATTCGGCCATAGTTTAATTCATTTC--T-C-T-GC----ATA-ACA-AT-TAC
* *
38040722 ATATACATTCGGCCATAGTTTAATTTATTTCTCTGCATAACAAGTAC
1 ATATACATTCGGCCATAGTTTAATTCATTTCTCTGCATAACAATTAC
* * * ** * *
38040769 ATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATATATAT
1 ATATACATTCGGCCATAGTTTAATTCATTTCTCTGCATAAC--A-AT-TAC
*
38040820 ATATACATTCGGCCATAGTTTAATTTATTTCTCTGCATAACAATTAC
1 ATATACATTCGGCCATAGTTTAATTCATTTCTCTGCATAACAATTAC
* * * ** * *
38040867 ATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATATATATAT
1 ATATACATTCGGCCATAGTTTAATTCATTTCTCTGCATAAC----A-AT-TAC
* * * *
38040920 ATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGCATAACAAATAT
1 ATATACATTCGGCCAT-A-GT-T-TAA-TTC-----A-TT-TCTC--TGCATAACAATTAC
38040981 ATATACATTCGGCCATAGTTTAATTCATTTCTCTGCATAACAATTAC
1 ATATACATTCGGCCATAGTTTAATTCATTTCTCTGCATAACAATTAC
* * **
38041028 ATATACATTCAGCTATAAATTAATTCATTT-TCATGCATAACAA
1 ATATACATTCGGCCATAGTTTAATTCATTTCTC-TGCATAACAA
38041071 ATATATTTAT
Statistics
Matches: 315, Mismatches: 56, Indels: 74
0.71 0.13 0.17
Matches are distributed among these distances:
46 2 0.01
47 148 0.47
48 3 0.01
49 8 0.03
50 7 0.02
51 39 0.12
52 3 0.01
53 16 0.05
54 2 0.01
55 1 0.00
56 8 0.03
57 9 0.03
58 6 0.02
59 30 0.10
60 1 0.00
61 19 0.06
62 1 0.00
63 2 0.01
64 2 0.01
65 1 0.00
67 7 0.02
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.38
Consensus pattern (47 bp):
ATATACATTCGGCCATAGTTTAATTCATTTCTCTGCATAACAATTAC
Found at i:38040837 original size:98 final size:100
Alignment explanation
Indices: 38040610--38040936 Score: 550
Period size: 98 Copynumber: 3.2 Consensus size: 100
38040600 AATGTGTAAC
* *
38040610 ATATATATATACATTCGGCCATAGTTTAATTCATTTCTCTGCATAACAATTACATATACATTCAG
1 ATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGCATAACAAGTACATATACATTCAG
*
38040675 CTATAGATTAATTCATTTCAATGCATAACAAATATATATAT
66 CTATAGATTAATTCATTTCAATGTATAAC----A-A-ATAT
38040716 ATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGCATAACAAGTACATATACATTCAG
1 ATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGCATAACAAGTACATATACATTCAG
38040781 CTATAGATTAATTCATTTCAATGTATAAC-AA-AT
66 CTATAGATTAATTCATTTCAATGTATAACAAATAT
*
38040814 ATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGCATAACAATTACATATACATTCAG
1 ATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGCATAACAAGTACATATACATTCAG
38040879 CTATAGATTAATTCATTTCAATGTATAACAAATAT
66 CTATAGATTAATTCATTTCAATGTATAACAAATAT
38040914 ATATATATATACATTCGGCCATA
1 ATATATATATACATTCGGCCATA
38040937 ACCTATGTAA
Statistics
Matches: 215, Mismatches: 4, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
98 95 0.44
99 3 0.01
100 26 0.12
106 91 0.42
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (100 bp):
ATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGCATAACAAGTACATATACATTCAG
CTATAGATTAATTCATTTCAATGTATAACAAATAT
Found at i:38041013 original size:161 final size:164
Alignment explanation
Indices: 38040789--38041091 Score: 506
Period size: 161 Copynumber: 1.9 Consensus size: 164
38040779 AGCTATAGAT
* *
38040789 TAATTCATTTCAATGTATAACAAATATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
1 TAATTCATTTCAATGCATAAC-AATATATATATATACATTCGGCCATAGTTTAATTCATTTCTCT
* *
38040854 GCATAACAATTACATATACATTCAGCTATAGATTAATTCA-TTTCAATGTATAACAAATATATAT
65 GCATAACAATTACATATACATTCAGCTATAAATTAATTCATTTTC-ATGCATAACAAATATATAT
38040918 ATATATACATTCGGCCATAACCTATGTAATTTCAAA
129 ATATATACATTCGGCCATAACCTATGTAATTTCAAA
*
38040954 TAATTTATTTCAATGCATAAC-A-A-ATATATATACATTCGGCCATAGTTTAATTCATTTCTCTG
1 TAATTCATTTCAATGCATAACAATATATATATATACATTCGGCCATAGTTTAATTCATTTCTCTG
*
38041016 CATAACAATTACATATACATTCAGCTATAAATTAATTCATTTTCATGCATAACAAATATATTTAT
66 CATAACAATTACATATACATTCAGCTATAAATTAATTCATTTTCATGCATAACAAATATATATAT
38041081 ATATACATTCG
131 ATATACATTCG
38041092 TAGTTAATTT
Statistics
Matches: 131, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
161 106 0.81
162 5 0.04
163 1 0.01
165 19 0.15
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (164 bp):
TAATTCATTTCAATGCATAACAATATATATATATACATTCGGCCATAGTTTAATTCATTTCTCTG
CATAACAATTACATATACATTCAGCTATAAATTAATTCATTTTCATGCATAACAAATATATATAT
ATATACATTCGGCCATAACCTATGTAATTTCAAA
Found at i:38043365 original size:17 final size:18
Alignment explanation
Indices: 38043332--38043365 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
38043322 TTCACCACTA
38043332 TTGCTTCTTTGCCTTCTG
1 TTGCTTCTTTGCCTTCTG
*
38043350 TTGCTT-TTTGCTTTCT
1 TTGCTTCTTTGCCTTCT
38043366 TGCTACTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.00, C:0.24, G:0.15, T:0.62
Consensus pattern (18 bp):
TTGCTTCTTTGCCTTCTG
Found at i:38047172 original size:41 final size:41
Alignment explanation
Indices: 38047127--38047230 Score: 154
Period size: 41 Copynumber: 2.5 Consensus size: 41
38047117 CCTCTCGGGG
* * *
38047127 AATCTACACTTAGTAACCCCTTTTTGATTAGTGATTCGAAA
1 AATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCGAAA
***
38047168 AATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCGGGG
1 AATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCGAAA
38047209 AATCTGCACTTAGCAACCCCTT
1 AATCTGCACTTAGCAACCCCTT
38047231 ACATTCAATG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (41 bp):
AATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCGAAA
Found at i:38052512 original size:30 final size:30
Alignment explanation
Indices: 38052468--38052538 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
38052458 CCAGAAAATG
* *
38052468 AAAGTCTTTATGGCAA-ATCTCTGTAAAGAA
1 AAAGCCTTTGTGGCAAGA-CTCTGTAAAGAA
*
38052498 AAAGCCTTTGTGGCAAGACTCTGTAAAGGA
1 AAAGCCTTTGTGGCAAGACTCTGTAAAGAA
*
38052528 AAAGCTTTTGT
1 AAAGCCTTTGT
38052539 AAACCTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 35 0.97
31 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (30 bp):
AAAGCCTTTGTGGCAAGACTCTGTAAAGAA
Found at i:38052667 original size:28 final size:26
Alignment explanation
Indices: 38052610--38052671 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
38052600 CTTGGATAAA
*
38052610 GAAAGCCTCATGGCAATATCTAAAATG
1 GAAAGCCTCATGGAAATATCTAAAA-G
* *
38052637 AAAAGCCTCTATGGAAAT-TCATGAAAG
1 GAAAGCCTC-ATGGAAATATC-TAAAAG
38052664 GAAAGCCT
1 GAAAGCCT
38052672 TAATGGCGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 18 0.62
28 11 0.38
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (26 bp):
GAAAGCCTCATGGAAATATCTAAAAG
Found at i:38054988 original size:24 final size:27
Alignment explanation
Indices: 38054956--38055020 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 27
38054946 CATGACTTCT
*
38054956 AAGAGTAGCCTTTGTGGCG-A-T-TGA
1 AAGAATAGCCTTTGTGGCGAACTGTGA
*
38054980 AAGAATAGCCTTTGTGGTGAACTGTGA
1 AAGAATAGCCTTTGTGGCGAACTGTGA
*
38055007 AAGAATTGCCTTTG
1 AAGAATAGCCTTTG
38055021 AAGCGTATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 17 0.49
25 1 0.03
26 1 0.03
27 16 0.46
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.31
Consensus pattern (27 bp):
AAGAATAGCCTTTGTGGCGAACTGTGA
Found at i:38058138 original size:9 final size:9
Alignment explanation
Indices: 38058121--38058157 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
38058111 TGAGTTTTCG
38058121 AATTCGAAT
1 AATTCGAAT
*
38058130 AACTCGAAT
1 AATTCGAAT
38058139 AATTCGAAT
1 AATTCGAAT
38058148 AATTCGAAT
1 AATTCGAAT
38058157 A
1 A
38058158 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:38058419 original size:30 final size:31
Alignment explanation
Indices: 38058371--38058430 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
38058361 AAACCTTTTA
* *
38058371 TTTTCCCCCAATATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
38058401 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
38058431 TCCCACCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.18, C:0.40, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:38064346 original size:61 final size:61
Alignment explanation
Indices: 38064255--38064537 Score: 219
Period size: 61 Copynumber: 4.7 Consensus size: 61
38064245 AAAGGATAGG
* * *
38064255 CTTTATGGCAAAACTCTAGACAGGAAAGCCTTTGTGGCAAGTATTGGATGTAAAGGACAAC
1 CTTTGTGGCAAAACTCTGGACAGGAAAGCCTTTGTGGCAAGTACTGGATGTAAAGGACAAC
* * * ** * * *
38064316 CTTTGTGGTAAAACTTTGGACATGAAAGCCTTTGTGGTGAGTACTAGATGTACAGGAAAAC
1 CTTTGTGGCAAAACTCTGGACAGGAAAGCCTTTGTGGCAAGTACTGGATGTAAAGGACAAC
* * * * ** * *
38064377 TTTTGTGGCAAAACTCCGGATAGGAAAACCTTTGTGGTGAGTACTGGATGTAAAGAAC-AG
1 CTTTGTGGCAAAACTCTGGACAGGAAAGCCTTTGTGGCAAGTACTGGATGTAAAGGACAAC
** * * ** * * * * **
38064437 CTTCTGCAGTAAATCTCTGGACAGGAAAGTGTTTGTGGCTAGTATTGAATGTAAAAGA-TGC
1 CTT-TGTGGCAAAACTCTGGACAGGAAAGCCTTTGTGGCAAGTACTGGATGTAAAGGACAAC
* * * * *
38064498 TTTTGTGGCAAAACTTTGGAAAGGTAGGCCTTTGTGGCAA
1 CTTTGTGGCAAAACTCTGGACAGGAAAGCCTTTGTGGCAA
38064538 CCTTTGTTAA
Statistics
Matches: 167, Mismatches: 53, Indels: 5
0.74 0.24 0.02
Matches are distributed among these distances:
60 29 0.17
61 138 0.83
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (61 bp):
CTTTGTGGCAAAACTCTGGACAGGAAAGCCTTTGTGGCAAGTACTGGATGTAAAGGACAAC
Found at i:38064489 original size:122 final size:121
Alignment explanation
Indices: 38064260--38064512 Score: 260
Period size: 122 Copynumber: 2.1 Consensus size: 121
38064250 ATAGGCTTTA
* * * * **
38064260 TGGCAAAACTCTAGACAGGAAAGCCTTTGTGGCAAGTATTGGATGTAAAGGACAACCTTTGTGGT
1 TGGCAAAACTCCAGACAGGAAAACCTTTGTGGCAAGTACTGGATGTAAAGAACAACCTTTGCAGT
* * * *
38064325 AAAACTTTGGACATGAAAGCCTTTGTGGTGAGTACTAGATGTACAGGAAAACTTTTG
66 AAAACTCTGGACAGGAAAGCCTTTGTGGTGAGTACTAGATGTAAAAG-AAACTTTTG
* * ** *
38064382 TGGCAAAACTCCGGATAGGAAAACCTTTGTGGTGAGTACTGGATGTAAAGAAC-AGCTTCTGCAG
1 TGGCAAAACTCCAGACAGGAAAACCTTTGTGGCAAGTACTGGATGTAAAGAACAACCTT-TGCAG
* ** * **
38064446 TAAATCTCTGGACAGGAAAGTGTTTGTGGCT-AGTA-TTGAATGTAAAAGATGCTTTTG
65 TAAAACTCTGGACAGGAAAGCCTTTGTGG-TGAGTACTAG-ATGTAAAAGAAACTTTTG
38064503 TGGCAAAACT
1 TGGCAAAACT
38064513 TTGGAAAGGT
Statistics
Matches: 107, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
121 23 0.21
122 83 0.78
123 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (121 bp):
TGGCAAAACTCCAGACAGGAAAACCTTTGTGGCAAGTACTGGATGTAAAGAACAACCTTTGCAGT
AAAACTCTGGACAGGAAAGCCTTTGTGGTGAGTACTAGATGTAAAAGAAACTTTTG
Found at i:38064549 original size:29 final size:28
Alignment explanation
Indices: 38064499--38064566 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
38064489 AAAAGATGCT
*
38064499 TTTGTGGCAAAACTTTGGAAAGGTAGGCC
1 TTTGTGGCAAAACTTTGGAAA-GAAGGCC
* * *
38064528 TTTGTGGC-AACCTTTGTTAAAGAATGCC
1 TTTGTGGCAAAACTTTG-GAAAGAAGGCC
38064556 TTTGTGG-AAAA
1 TTTGTGGCAAAA
38064567 TCTCTACAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 21 0.66
29 11 0.34
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.32
Consensus pattern (28 bp):
TTTGTGGCAAAACTTTGGAAAGAAGGCC
Found at i:38064614 original size:29 final size:29
Alignment explanation
Indices: 38064517--38064625 Score: 89
Period size: 29 Copynumber: 3.8 Consensus size: 29
38064507 AAAACTTTGG
* * * * *
38064517 AAAGGTAGGCCTTTGTGGCAACCTTTGTT
1 AAAGGAAGGCCTTTGTGGAAATCTTTATC
* *
38064546 AAA-GAATGCCTTTGTGGAAAATCTCTA-C
1 AAAGGAAGGCCTTTGTGG-AAATCTTTATC
* *
38064574 -AAGGAAACGCCTTTGTGGGAATCTTTATC
1 AAAGG-AAGGCCTTTGTGGAAATCTTTATC
*
38064603 AAAGGAAGGCCTCTGTGGAAATC
1 AAAGGAAGGCCTTTGTGGAAATC
38064626 CCAGTAAAGG
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
27 2 0.03
28 20 0.32
29 36 0.58
30 4 0.06
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (29 bp):
AAAGGAAGGCCTTTGTGGAAATCTTTATC
Found at i:38068208 original size:20 final size:20
Alignment explanation
Indices: 38068171--38068208 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
38068161 CCTTCAAACC
*
38068171 TTTAGTTAATTTCTCATAAG
1 TTTAGTTAATCTCTCATAAG
38068191 TTTA-TTAATCTCTACATA
1 TTTAGTTAATCTCT-CATA
38068209 CCAACACTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTAGTTAATCTCTCATAAG
Found at i:38072078 original size:26 final size:26
Alignment explanation
Indices: 38072049--38072098 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
38072039 TTTAAACCAA
38072049 ACTTTTCAAAAGCA-TTTCTCAAAAGT
1 ACTTTTCAAAAGCACTTT-TCAAAAGT
* *
38072075 ACTTTTCTACAGCACTTTTCAAAA
1 ACTTTTCAAAAGCACTTTTCAAAA
38072099 ACAATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTTTCAAAAGT
Found at i:38073632 original size:23 final size:25
Alignment explanation
Indices: 38073586--38073646 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
38073576 TCTAAATTTC
38073586 GGGTTTTTTTT--TGTTTTCTCGA-
1 GGGTTTTTTTTGGTGTTTTCTCGAG
38073608 GGGTTTTTTTTGGTGTTGTT-T-GAG
1 GGGTTTTTTTTGGTGTT-TTCTCGAG
38073632 GGGTTTTTGTTTGGT
1 GGGTTTTT-TTTGGT
38073647 TTCCTAGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
22 11 0.32
23 2 0.06
24 13 0.38
25 8 0.24
ACGTcount: A:0.03, C:0.03, G:0.33, T:0.61
Consensus pattern (25 bp):
GGGTTTTTTTTGGTGTTTTCTCGAG
Found at i:38078097 original size:44 final size:44
Alignment explanation
Indices: 38077961--38078109 Score: 131
Period size: 44 Copynumber: 3.4 Consensus size: 44
38077951 TCACTAATCC
* * * *
38077961 TATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACAGATCT
*** * * * * *
38078005 TATCTGTGTGAAGTTCCAATGGAGCAGA-CAGAAAAAACCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AAACAA-CAGATCT
* *
38078049 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACTACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACAGATCT
*
38078093 TATCTCTCTGAAGTTGC
1 TATCTCCCTGAAGTTGC
38078110 TGGTAGCTAT
Statistics
Matches: 77, Mismatches: 24, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
43 3 0.04
44 71 0.92
45 3 0.04
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACAGATCT
Found at i:38081188 original size:26 final size:26
Alignment explanation
Indices: 38081159--38081208 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
38081149 TTTAAACCAA
38081159 ACTTTTCAAAAGCA-TTTCTCAAAAGT
1 ACTTTTCAAAAGCACTTT-TCAAAAGT
* *
38081185 ACTTTTCTACAGCACTTTTCAAAA
1 ACTTTTCAAAAGCACTTTTCAAAA
38081209 ACAATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTTTCAAAAGT
Found at i:38082742 original size:23 final size:25
Alignment explanation
Indices: 38082696--38082756 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
38082686 TCTAAATTTC
38082696 GGGTTTTTTTT--TGTTTTCTCGA-
1 GGGTTTTTTTTGGTGTTTTCTCGAG
38082718 GGGTTTTTTTTGGTGTTGTT-T-GAG
1 GGGTTTTTTTTGGTGTT-TTCTCGAG
38082742 GGGTTTTTGTTTGGT
1 GGGTTTTT-TTTGGT
38082757 TTCCTAGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
22 11 0.32
23 2 0.06
24 13 0.38
25 8 0.24
ACGTcount: A:0.03, C:0.03, G:0.33, T:0.61
Consensus pattern (25 bp):
GGGTTTTTTTTGGTGTTTTCTCGAG
Found at i:38090901 original size:20 final size:20
Alignment explanation
Indices: 38090873--38090915 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
38090863 AACCACTTAC
*
38090873 TTACATACTTGT-CTTTCCAT
1 TTACATACTT-TCCATTCCAT
*
38090893 TTACTTACTTTCCATTCCAT
1 TTACATACTTTCCATTCCAT
38090913 TTA
1 TTA
38090916 TTTAGCATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.21, C:0.26, G:0.02, T:0.51
Consensus pattern (20 bp):
TTACATACTTTCCATTCCAT
Found at i:38094571 original size:20 final size:20
Alignment explanation
Indices: 38094548--38094602 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
38094538 GTATACAGAA
38094548 GCACCGAAGTGCAAAAAGAG
1 GCACCGAAGTGCAAAAAGAG
* * *
38094568 GCACTGAAGTGCACATAGAG
1 GCACCGAAGTGCAAAAAGAG
* *
38094588 GAACCAAAGTGCAAA
1 GCACCGAAGTGCAAA
38094603 CCCATACAAG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.20, G:0.27, T:0.09
Consensus pattern (20 bp):
GCACCGAAGTGCAAAAAGAG
Found at i:38099474 original size:20 final size:20
Alignment explanation
Indices: 38099449--38099508 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
38099439 CATTAAATTA
38099449 AATTTAATATTAAGATAATC
1 AATTTAATATTAAGATAATC
*
38099469 AATTTAGTATTAA-ATTAAT-
1 AATTTAATATTAAGA-TAATC
** *
38099488 AAAATACTATTAAGATAATC
1 AATTTAATATTAAGATAATC
38099508 A
1 A
38099509 TTAAATTCTC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (20 bp):
AATTTAATATTAAGATAATC
Found at i:38099506 original size:19 final size:20
Alignment explanation
Indices: 38099456--38099508 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
38099446 TTAAATTTAA
** *
38099456 TATTAAGATAATCAATTTAG
1 TATTAAGATAATCAAAATAC
38099476 TATTAA-ATTAAT-AAAATAC
1 TATTAAGA-TAATCAAAATAC
38099495 TATTAAGATAATCA
1 TATTAAGATAATCA
38099509 TTAAATTCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.38
Consensus pattern (20 bp):
TATTAAGATAATCAAAATAC
Done.