Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 219 of 276
Found at i:72780924 original size:26 final size:27
Alignment explanation
Indices: 72780889--72780952 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
72780879 ACTGGCTTTG
* *
72780889 CCACATTATCTGT-TCTGGTGCCTCTA
1 CCACAATATCTGTATCTGGTGACTCTA
*
72780915 CCACAATATCTGTATCTGGTGACTCTG
1 CCACAATATCTGTATCTGGTGACTCTA
*
72780942 TCACAATATCT
1 CCACAATATCT
72780953 AATAACTGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 12 0.36
27 21 0.64
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (27 bp):
CCACAATATCTGTATCTGGTGACTCTA
Found at i:72781107 original size:6 final size:6
Alignment explanation
Indices: 72781098--72781194 Score: 92
Period size: 6 Copynumber: 15.8 Consensus size: 6
72781088 ACATTTTTAC
* * *
72781098 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
*
72781147 CTGATT CTG-TCAC CTGATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
72781195 AATGTTTCTT
Statistics
Matches: 76, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
5 4 0.05
6 63 0.83
7 7 0.09
8 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:72781129 original size:31 final size:31
Alignment explanation
Indices: 72781094--72781210 Score: 157
Period size: 31 Copynumber: 3.8 Consensus size: 31
72781084 ATTTACATTT
*
72781094 TTACCTGATACTGATTCTGATTTTGATTCTG
1 TTACCTGATACTGATTCTGATTCTGATTCTG
72781125 TTACCTGATACTGATTCTGATTCTGATTCTG
1 TTACCTGATACTGATTCTGATTCTGATTCTG
* *
72781156 TCACCTGATTCTGATTCTGATTCTGATTCTAG
1 TTACCTGATACTGATTCTGATTCTGATTCT-G
* * *
72781188 TT--CTGATAATGTTTCTTATTCTG
1 TTACCTGATACTGATTCTGATTCTG
72781211 TAATGGGTTA
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
30 17 0.22
31 58 0.75
32 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (31 bp):
TTACCTGATACTGATTCTGATTCTGATTCTG
Found at i:72782911 original size:27 final size:27
Alignment explanation
Indices: 72782867--72783552 Score: 427
Period size: 27 Copynumber: 25.5 Consensus size: 27
72782857 ACTCCAGTCT
*
72782867 CCAAAATACCCCTGGTTTGTAAAATTA
1 CCAAAATACCCCTTGTTTGTAAAATTA
* * * *
72782894 CTAAAATACCCTTTGTTTATTAAATTA
1 CCAAAATACCCCTTGTTTGTAAAATTA
72782921 CCAAAATACCCCTTGTTTGTAAAATTA
1 CCAAAATACCCCTTGTTTGTAAAATTA
*
72782948 CCAAAATACCCCTAGTTTGTAAAATTA
1 CCAAAATACCCCTTGTTTGTAAAATTA
*
72782975 CCAAAATACCCCTAGTTTGTAAAATTA
1 CCAAAATACCCCTTGTTTGTAAAATTA
*
72783002 CCAAAATA-CCCTTAATTTGTAAAATTA
1 CCAAAATACCCCTT-GTTTGTAAAATTA
*
72783029 CCAAAATACCCC-TGATTTGTGAAATTA
1 CCAAAATACCCCTTG-TTTGTAAAATTA
** * **
72783056 CTGAAATA-CCCTCGACCTGTAAAATTA
1 CCAAAATACCCCTTG-TTTGTAAAATTA
** * *
72783083 TTAAAATA-CCCTCGACTTGTAAAATTA
1 CCAAAATACCCCTTG-TTTGTAAAATTA
* * *
72783110 CCAAAGTA-CCATTGATTTGTAGAATTA
1 CCAAAATACCCCTTG-TTTGTAAAATTA
* **** **
72783137 TCGTCTTA--CCTTCGATTTACAAAATTA
1 CCAAAATACCCCTT-G-TTTGTAAAATTA
*** * *
72783164 CCATTTTA-CCCTCGATT-TACAGAATTA
1 CCAAAATACCCCTTGTTTGTA-A-AATTA
*** * *
72783191 CCATTTTA-CCCTCGATTTATAAAATTA
1 CCAAAATACCCCTTG-TTTGTAAAATTA
** * **
72783218 CTTAAATA-CCTTTGGTTTACAAAATTA
1 CCAAAATACCCCTT-GTTTGTAAAATTA
** ***
72783245 CCAAAATA-CCCTCAATCAATAAAATTA
1 CCAAAATACCCCT-TGTTTGTAAAATTA
*
72783272 CCAAAATACCCCTGGTTTGTAAAATTA
1 CCAAAATACCCCTTGTTTGTAAAATTA
* *
72783299 CCAAAATACCCCTTGTTTATTAAATTA
1 CCAAAATACCCCTTGTTTGTAAAATTA
72783326 CCAAAATACCCCTTGTTTGTAAAATTA
1 CCAAAATACCCCTTGTTTGTAAAATTA
*
72783353 CCAAAATACCCCTAGTTTGTAAAATTA
1 CCAAAATACCCCTTGTTTGTAAAATTA
** *
72783380 CCAAAATACCCCTAATTTGTGAAATTA
1 CCAAAATACCCCTTGTTTGTAAAATTA
* ** *
72783407 CCGAAATACCCC-TGTAGGGTAGAATTA
1 CCAAAATACCCCTTGT-TTGTAAAATTA
* ** *
72783434 CCGAAATA-CCCTTGTAGGGTGAAA-TA
1 CCAAAATACCCCTTGT-TTGTAAAATTA
* ** *
72783460 CCGAAATA-CCCTTGTAGGGTAGAATTA
1 CCAAAATACCCCTTGT-TTGTAAAATTA
* **
72783487 CCGAAATACCCC-TGTAGGGTAAAATTA
1 CCAAAATACCCCTTGT-TTGTAAAATTA
* ** *
72783514 TCAAAATACCCC-TGTAGGTAGAATTA
1 CCAAAATACCCCTTGTTTGTAAAATTA
*
72783540 CCGAAATACCCCT
1 CCAAAATACCCCT
72783553 ATAGGGTAGA
Statistics
Matches: 548, Mismatches: 93, Indels: 36
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.00
26 60 0.11
27 468 0.85
28 17 0.03
29 2 0.00
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (27 bp):
CCAAAATACCCCTTGTTTGTAAAATTA
Found at i:72783480 original size:53 final size:53
Alignment explanation
Indices: 72783398--72783671 Score: 336
Period size: 53 Copynumber: 5.1 Consensus size: 53
72783388 CCCCTAATTT
72783398 GTGAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
1 GTGAAA-TACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
* *
72783452 GTGAAATACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
1 GTGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
* * * * *
72783505 GTAAAATTATCAAAATACCCCTGTA-GGTAGAATTACCGAAATACCCCTATAGG
1 GTGAAA-TACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
* * * *
72783558 GTAGAATTATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGG
1 GT-GAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
* ** * * *
72783612 GTAGAATTACTAAAATACCCCTGTAGGGTGGAATTACCGAGATA-CCTTGTGGG
1 GT-GAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
*
72783665 GTAAAAT
1 GTGAAAT
72783672 TACCATTTTG
Statistics
Matches: 195, Mismatches: 22, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
52 3 0.02
53 104 0.53
54 88 0.45
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (53 bp):
GTGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
Found at i:72783498 original size:80 final size:81
Alignment explanation
Indices: 72783402--72783675 Score: 374
Period size: 80 Copynumber: 3.4 Consensus size: 81
72783392 TAATTTGTGA
* *
72783402 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGT-GAAATACCGAAA
1 AATTACCGAAATACCCCTGTAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAA
*
72783466 TACCCTTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * *
72783482 AATTACCGAAATACCCCTGTAGGGTAAAATTATCAAAATACCCCTGTA-GGTAGAATTACCGAAA
1 AATTACCGAAATACCCCTGTAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAA
*
72783546 TACCCCTATAGGGTAG
66 TACCCCTGTAGGGTAG
* * * * **
72783562 AATTATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAATTACTAAAA
1 AATTACCGAAATACCCCTGTAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAA
*
72783627 TACCCCTGTAGGGTGG
66 TACCCCTGTAGGGTAG
* * *
72783643 AATTACCGAGATA-CCTTGTGGGGTAAAATTACC
1 AATTACCGAAATACCCCTGTAGGGTAAAATTACC
72783676 ATTTTGCCCT
Statistics
Matches: 168, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
79 3 0.02
80 127 0.76
81 38 0.23
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (81 bp):
AATTACCGAAATACCCCTGTAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAA
TACCCCTGTAGGGTAG
Found at i:72783574 original size:27 final size:27
Alignment explanation
Indices: 72783402--72783675 Score: 365
Period size: 27 Copynumber: 10.3 Consensus size: 27
72783392 TAATTTGTGA
72783402 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
72783429 AATTACCGAAATACCCTTGTAGGGT-G
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
72783455 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
72783482 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
72783509 AATTATCAAAATACCCCTGTA-GGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
72783535 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
72783562 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
72783589 AATTACCGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
72783616 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
72783643 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
72783669 AATTACC
1 AATTACC
72783676 ATTTTGCCCT
Statistics
Matches: 215, Mismatches: 30, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
26 63 0.29
27 152 0.71
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:72784154 original size:22 final size:22
Alignment explanation
Indices: 72784103--72784166 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
72784093 TAAAGCCTTT
* *
72784103 TGATTATGGCTTTGTGTCAACC
1 TGATTATGGCTCTGTGCCAACC
*
72784125 T-ACATATGGCTCTGTGCCAACC
1 TGA-TTATGGCTCTGTGCCAACC
*
72784147 TGATTATGGCTGTGTGCCAA
1 TGATTATGGCTCTGTGCCAA
72784167 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.34
Consensus pattern (22 bp):
TGATTATGGCTCTGTGCCAACC
Found at i:72784362 original size:26 final size:27
Alignment explanation
Indices: 72784331--72784394 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
72784321 TTAGTAGCTT
* *
72784331 TGCCACATTATCTGT-TCTGGTGGCTC
1 TGCCACAATATCTGTATCTGGTGACTC
72784357 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGACTC
*
72784384 TGTCACAATAT
1 TGCCACAATAT
72784395 TTGATAACTG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 14 0.41
27 20 0.59
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGACTC
Found at i:72784567 original size:19 final size:19
Alignment explanation
Indices: 72784545--72784602 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
72784535 TTCTGATTTT
72784545 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
72784564 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
72784576 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
72784595 TGATTCTG
1 TGATTCTG
72784603 ATTCTGATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:72784572 original size:6 final size:6
Alignment explanation
Indices: 72784534--72784641 Score: 62
Period size: 6 Copynumber: 17.3 Consensus size: 6
72784524 TTGCATTCAC
* * *
72784534 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
72784584 -TTACCTG ATACTG ATTCTG ATTCTG ATTTCGTC A-CCTG ATTCTG ATTCT-
1 ATT--CTG ATTCTG ATTCTG ATTCTG A-TTC-TG ATTCTG ATTCTG ATTCTG
72784633 AGTTCTG AT
1 A-TTCTG AT
72784642 AATGTTTCTT
Statistics
Matches: 78, Mismatches: 12, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
5 7 0.09
6 52 0.67
7 15 0.19
8 4 0.05
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:72784580 original size:31 final size:31
Alignment explanation
Indices: 72784534--72784632 Score: 146
Period size: 31 Copynumber: 3.2 Consensus size: 31
72784524 TTGCATTCAC
72784534 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
72784566 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * *
72784597 ATTCTGATTCTGATT-TCGTCACCTGATTCTG
1 ATTCTGATTTTGATTCT-GTTACCTGATACTG
72784628 ATTCT
1 ATTCT
72784633 AGTTCTGATA
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
30 1 0.02
31 55 0.87
32 7 0.11
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:72790225 original size:20 final size:20
Alignment explanation
Indices: 72790200--72790244 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
72790190 GCTATGCCTA
*
72790200 TTGGAAATTTTGGCTAACAC
1 TTGGAAATTTCGGCTAACAC
72790220 TTGGAAATTTCGGCTAACAC
1 TTGGAAATTTCGGCTAACAC
72790240 TTGGA
1 TTGGA
72790245 GAAGATGAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (20 bp):
TTGGAAATTTCGGCTAACAC
Found at i:72791017 original size:44 final size:44
Alignment explanation
Indices: 72790954--72791044 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
72790944 TTCTAACTCA
72790954 AATGGTAAAGGCAATCGATAAGCAACAGGCCCTATCCTTTCGGT
1 AATGGTAAAGGCAATCGATAAGCAACAGGCCCTATCCTTTCGGT
72790998 AATGGTAAAGGCAATCGATAAGCAACAGGCCCTATCCTTTCGGT
1 AATGGTAAAGGCAATCGATAAGCAACAGGCCCTATCCTTTCGGT
72791042 AAT
1 AAT
72791045 CTCATATGGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (44 bp):
AATGGTAAAGGCAATCGATAAGCAACAGGCCCTATCCTTTCGGT
Found at i:72799013 original size:80 final size:80
Alignment explanation
Indices: 72798920--72799080 Score: 288
Period size: 80 Copynumber: 2.0 Consensus size: 80
72798910 TAAATAGCTT
72798920 AAGAGTCTAATGAGAAAGGATTTAAAAGGAAATTAGACCCAAAATTTATTTGGGCTGGACGG-AA
1 AAGAGTCTAATGAGAAAGGATTTAAAAGGAAATTAGACCCAAAATTTATTTGGGCTGGACGGCAA
72798984 GGGGCATGAAATCAGC
66 -GGGCATGAAATCAGC
*
72799000 AAGAGTCTAATGAGAAAGGATTTAAAAGGCAATTAGACCCAAAATTTATTTGGGCTGGACGGCAA
1 AAGAGTCTAATGAGAAAGGATTTAAAAGGAAATTAGACCCAAAATTTATTTGGGCTGGACGGCAA
*
72799065 GGGTATGAAATCAGC
66 GGGCATGAAATCAGC
72799080 A
1 A
72799081 GGAAAATTGA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
80 76 0.97
81 2 0.03
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.22
Consensus pattern (80 bp):
AAGAGTCTAATGAGAAAGGATTTAAAAGGAAATTAGACCCAAAATTTATTTGGGCTGGACGGCAA
GGGCATGAAATCAGC
Found at i:72806741 original size:23 final size:23
Alignment explanation
Indices: 72806715--72806759 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
72806705 TGGGTATGTG
*
72806715 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
72806738 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
72806760 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:72810738 original size:13 final size:13
Alignment explanation
Indices: 72810707--72810740 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
72810697 TTTGAATTTC
72810707 AATTT-ATTTAAT
1 AATTTAATTTAAT
72810719 AATTTTAATTTAAT
1 AA-TTTAATTTAAT
72810733 AATTTAAT
1 AATTTAAT
72810741 CCAAGGAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 9 0.45
14 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTTAATTTAAT
Found at i:72814928 original size:21 final size:22
Alignment explanation
Indices: 72814899--72814945 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
72814889 CAGAAGGAGT
*
72814899 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
72814921 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
72814942 GAGT
1 GAGT
72814946 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:72816899 original size:21 final size:22
Alignment explanation
Indices: 72816873--72816914 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
72816863 GTTTCATGTT
72816873 TCATTTACAGATAC-TCACATC
1 TCATTTACAGATACATCACATC
* *
72816894 TCATTTCCATATACATCACAT
1 TCATTTACAGATACATCACAT
72816915 AACATTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.33, C:0.29, G:0.02, T:0.36
Consensus pattern (22 bp):
TCATTTACAGATACATCACATC
Found at i:72827013 original size:21 final size:20
Alignment explanation
Indices: 72826976--72827025 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
72826966 ATCAGTTCAC
72826976 TTGAGCTCAATTCAGCTCAT
1 TTGAGCTCAATTCAGCTCAT
* * *
72826996 TTGAGTTCGAATTTAGCTCGT
1 TTGAGCTC-AATTCAGCTCAT
*
72827017 TTCAGCTCA
1 TTGAGCTCA
72827026 TTCCTACTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (20 bp):
TTGAGCTCAATTCAGCTCAT
Found at i:72827574 original size:41 final size:41
Alignment explanation
Indices: 72827517--72827600 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
72827507 AGTTCCATGT
*
72827517 ACAGCCGATGCATGTGGGAGGACCCTTGGAGTTTCCTAAGC
1 ACAGCCGATGCATGTGGGAAGACCCTTGGAGTTTCCTAAGC
72827558 ACAGCCGATGCATGTGGGAAGACCCTTGGAGTTTCCTAAGC
1 ACAGCCGATGCATGTGGGAAGACCCTTGGAGTTTCCTAAGC
72827599 AC
1 AC
72827601 TTATTAGGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.24, C:0.25, G:0.30, T:0.21
Consensus pattern (41 bp):
ACAGCCGATGCATGTGGGAAGACCCTTGGAGTTTCCTAAGC
Found at i:72831650 original size:46 final size:45
Alignment explanation
Indices: 72831600--72831775 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
72831590 TGGTTGAGCA
72831600 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
72831646 TCCGAACTCGTTGAGTTGAGTTCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
72831693 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
72831739 CCCGAGCTTGTTGAGTTGATTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
72831776 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 67 0.63
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:72831756 original size:93 final size:93
Alignment explanation
Indices: 72831597--72831767 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
72831587 GGATGGTTGA
* * *
72831597 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
72831662 TGAGTT-CGAGTTCGAGAGATGTAACTAG
66 TGA-TTCCGAGTTCGAGAGATGTAACTAG
* * * *
72831690 GCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
72831755 TGATTCCGAGTTC
66 TGATTCCGAGTTC
72831768 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
TGATTCCGAGTTCGAGAGATGTAACTAG
Found at i:72836806 original size:56 final size:56
Alignment explanation
Indices: 72836732--72836839 Score: 207
Period size: 56 Copynumber: 1.9 Consensus size: 56
72836722 AATGCCGGTC
72836732 GGATCTGTTGAAGCGTCAGAATGACTTGGCCAACATTCACGTATAGAGCCTTGGTT
1 GGATCTGTTGAAGCGTCAGAATGACTTGGCCAACATTCACGTATAGAGCCTTGGTT
*
72836788 GGATCTGTTGAAGTGTCAGAATGACTTGGCCAACATTCACGTATAGAGCCTT
1 GGATCTGTTGAAGCGTCAGAATGACTTGGCCAACATTCACGTATAGAGCCTT
72836840 CGCCTATAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (56 bp):
GGATCTGTTGAAGCGTCAGAATGACTTGGCCAACATTCACGTATAGAGCCTTGGTT
Found at i:72837988 original size:27 final size:27
Alignment explanation
Indices: 72837950--72838001 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
72837940 ACCAACAAGC
72837950 TGCTGACACCGAGATCATCCATAAAGT
1 TGCTGACACCGAGATCATCCATAAAGT
72837977 TGCTGACACCGAGATCATCCATAAA
1 TGCTGACACCGAGATCATCCATAAA
72838002 CTTTTTATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (27 bp):
TGCTGACACCGAGATCATCCATAAAGT
Found at i:72848821 original size:17 final size:17
Alignment explanation
Indices: 72848796--72848834 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
72848786 TTTGAAAAGG
*
72848796 AAACAAATGAATCTTAA
1 AAACGAATGAATCTTAA
72848813 AAACGAATGAATCTTAA
1 AAACGAATGAATCTTAA
72848830 AAACG
1 AAACG
72848835 TAATAAAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.56, C:0.13, G:0.10, T:0.21
Consensus pattern (17 bp):
AAACGAATGAATCTTAA
Found at i:72852265 original size:40 final size:40
Alignment explanation
Indices: 72852219--72852443 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 40
72852209 CTTGCGCAAG
* * * *
72852219 GCCTTCGGGTCTTAGCCCAGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
72852259 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * **
72852299 GCCTTCGGGTTTTAGCCCGAATATAATTGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
72852339 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
72852379 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
72852420 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
72852444 CATTCGAATA
Statistics
Matches: 154, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
40 125 0.81
41 29 0.19
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:72852314 original size:80 final size:79
Alignment explanation
Indices: 72852183--72852443 Score: 267
Period size: 80 Copynumber: 3.3 Consensus size: 79
72852173 CTCAAGTAAT
* * * * * * * *
72852183 CTTCGGGATTTAG-CCGGATATAACTACTTGCGC-AAGGCCTTCGGGTCTTAGCCCAGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCC-GATATAGT
*
72852246 CACTAGCATAAATGC
65 CACTAGCACAAATGC
* * *
72852261 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGAATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCG-ATATAG
**
72852325 TTGCTAGCACAAATGC
64 TCACTAGCACAAATGC
* * * * * *
72852341 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAG-CCCGATATAGT
*
72852406 CACCTAGCACAAAAGC
65 CA-CTAGCACAAATGC
72852422 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
72852444 CATTCGAATA
Statistics
Matches: 150, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
78 12 0.08
79 16 0.11
80 86 0.57
81 36 0.24
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGATATAGTC
ACTAGCACAAATGC
Found at i:72852404 original size:120 final size:121
Alignment explanation
Indices: 72852219--72852443 Score: 294
Period size: 120 Copynumber: 1.9 Consensus size: 121
72852209 CTTGCGCAAG
* * *
72852219 GCCTTCGGGTCTTAGCCCAGATGTGGTCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATA
1 GCCTTCGGGTCTTAGCCCAGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
* * **
72852284 GTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGAATATAATTGCTAGCACAAAT
66 GTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGAATATAATTGCTAGCACAAAT
* * * * *
72852339 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGCCTTC-GGATCTTAGTCCGGTTA
1 GCCTTCGGGTCTTAGCCCAGATATAGTC-ACTAGCACAAATGCCTTCGGGA-CTTAGCCCGGATA
*
72852402 TAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
64 TAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGAATAT
72852444 CATTCGAATA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 4 0.04
120 54 0.61
121 31 0.35
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (121 bp):
GCCTTCGGGTCTTAGCCCAGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
GTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGAATATAATTGCTAGCACAAAT
Found at i:72857254 original size:6 final size:6
Alignment explanation
Indices: 72857235--72857280 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
72857225 GAAGTAAAGA
* * *
72857235 AAGCTC AAGATC AAGTTC AAACTC AAGCTC AAGCTC AAGCTAC AAG
1 AAGCTC AAGCTC AAGCTC AAGCTC AAGCTC AAGCTC AAGCT-C AAG
72857281 GGTAAGAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
6 30 0.88
7 4 0.12
ACGTcount: A:0.41, C:0.26, G:0.15, T:0.17
Consensus pattern (6 bp):
AAGCTC
Found at i:72860839 original size:22 final size:19
Alignment explanation
Indices: 72860814--72860861 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 19
72860804 TACCGTTTCG
72860814 ATTAAATTCTTGTCAAAAAATA
1 ATTAAATT-TT-T-AAAAAATA
*
72860836 ATT-AATTTTTATAAAATA
1 ATTAAATTTTTAAAAAATA
72860854 ATTAAATT
1 ATTAAATT
72860862 ATACTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 10 0.42
19 5 0.21
20 2 0.08
21 4 0.17
22 3 0.12
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTAAATTTTTAAAAAATA
Found at i:72863179 original size:55 final size:54
Alignment explanation
Indices: 72863051--72863237 Score: 200
Period size: 55 Copynumber: 3.5 Consensus size: 54
72863041 CTTACCATTA
* * * *
72863051 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCTTTAT-GT-ACTCACCAATG
1 CCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGTAACTCATCAATG
* * * *
72863104 CCATGCCTTGGCATGTTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAATG
1 CCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAGTAACTCATCAATG
* * * * *
72863159 GCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAG-AACTCATTAATG
1 CCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGTAACTCATCAATG
*
72863213 CCATGCCTTGGCATGGTCTTACATG
1 CCATGCCTTGACATGGTCTTACATG
72863238 ATATCCTTAT
Statistics
Matches: 110, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
52 2 0.02
53 30 0.27
54 35 0.32
55 41 0.37
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGTAACTCATCAATG
Found at i:72863232 original size:54 final size:54
Alignment explanation
Indices: 72863051--72863245 Score: 214
Period size: 54 Copynumber: 3.6 Consensus size: 54
72863041 CTTACCATTA
* * * * * *
72863051 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCTTTAT-GTACTCACCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATG
* * ** *
72863104 CCATGCCTTGGCATGTTCTTACATGGGA-CCTTTTCCTTATAGTAACTCATCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAATG
* * * *
72863159 GCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTCATTAATG
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATG
*
72863213 CCATGCCTTGGCATGGTCTTACATGATATCCTT
1 CCATGCCTTGACATGGTCTTACATGATATCCTT
72863246 ATCTTACCAA
Statistics
Matches: 116, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
52 2 0.02
53 30 0.26
54 41 0.35
55 41 0.35
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATG
Found at i:72863276 original size:47 final size:47
Alignment explanation
Indices: 72863224--72863327 Score: 156
Period size: 47 Copynumber: 2.2 Consensus size: 47
72863214 CATGCCTTGG
72863224 CATGGTCTTACATGATATCCTT-ATCTTACCAAATACCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGA-CTTACCAAATACCATGTTCCAAA
* * *
72863271 CATGGTCTTACATGGTATCCTTGACTTACCAAATGCCATGTTCCAAG
1 CATGGTCTTACATGATATCCTTGACTTACCAAATACCATGTTCCAAA
*
72863318 CATGCTCTTA
1 CATGGTCTTA
72863328 TACGGTGTCC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 51 0.98
48 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTGACTTACCAAATACCATGTTCCAAA
Found at i:72863339 original size:47 final size:47
Alignment explanation
Indices: 72863224--72863345 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 47
72863214 CATGCCTTGG
* * *
72863224 CATGGTCTTACATGATATCCTT-ATCTTACCAAATACCATGTTCCAAA
1 CATGCTCTTACACGGTATCCTTGA-CTTACCAAATACCATGTTCCAAA
* * * *
72863271 CATGGTCTTACATGGTATCCTTGACTTACCAAATGCCATGTTCCAAG
1 CATGCTCTTACACGGTATCCTTGACTTACCAAATACCATGTTCCAAA
* * *
72863318 CATGCTCTTATACGGTGTCCTTGTCTTA
1 CATGCTCTTACACGGTATCCTTGACTTA
72863346 GTGCCAATGC
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
47 65 0.98
48 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (47 bp):
CATGCTCTTACACGGTATCCTTGACTTACCAAATACCATGTTCCAAA
Found at i:72867250 original size:19 final size:16
Alignment explanation
Indices: 72867226--72867269 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 16
72867216 TATATTAAAT
72867226 TTTAATTAAATCCAATTAA
1 TTTAATTAAA-CC-ATT-A
72867245 TTTAATT-AACCATTA
1 TTTAATTAAACCATTA
72867260 TTTAATTAAA
1 TTTAATTAAA
72867270 AAAATTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.33
16 5 0.21
17 2 0.08
18 2 0.08
19 7 0.29
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTAATTAAACCATTA
Found at i:72869932 original size:27 final size:28
Alignment explanation
Indices: 72869902--72870042 Score: 195
Period size: 27 Copynumber: 5.2 Consensus size: 28
72869892 GTGATGAAGT
72869902 CACCAGATACAGAT-ATTGTGGCAGAGC
1 CACCAGATACAGATAATTGTGGCAGAGC
*
72869929 CACCAGA-ACAAAT-ATATGTGGCAGAGC
1 CACCAGATACAGATAAT-TGTGGCAGAGC
* *
72869956 CACCAGAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGATAATTGTGGCAGAGC
72869983 CACCAGA-ACAGATAATTGTGGCAGAGC
1 CACCAGATACAGATAATTGTGGCAGAGC
*
72870010 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGATAATTGTGGCAGAGC
72870037 CACCAG
1 CACCAG
72870043 GACGCTTCCT
Statistics
Matches: 102, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
26 7 0.07
27 93 0.91
28 2 0.02
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (28 bp):
CACCAGATACAGATAATTGTGGCAGAGC
Found at i:72869984 original size:54 final size:54
Alignment explanation
Indices: 72869902--72870042 Score: 223
Period size: 54 Copynumber: 2.6 Consensus size: 54
72869892 GTGATGAAGT
*
72869902 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAAAT-ATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAAATAAT-TGTGGCAGAGC
* *
72869956 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATAATTGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAAATAATTGTGGCAGAGC
72870010 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
72870043 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
53 5 0.06
54 74 0.91
55 2 0.02
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAAATAATTGTGGCAGAGC
Found at i:72871700 original size:26 final size:26
Alignment explanation
Indices: 72871664--72871719 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
72871654 TGAAATTCCC
*
72871664 ATCATAGAACATTTACCTAACGCATT
1 ATCATAGAACATTTACCTAACCCATT
*
72871690 ATCATGGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAACCCATT
72871716 ATCA
1 ATCA
72871720 ATTTGTATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATAGAACATTTACCTAACCCATT
Found at i:72877438 original size:27 final size:27
Alignment explanation
Indices: 72877390--72877548 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
72877380 GCGAGGCTGC
* *
72877390 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
72877417 CAGATATTGTGGTAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
72877443 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
72877470 CAGATAATCGTGGTATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
72877497 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
72877524 TAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
72877549 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 97 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:72877483 original size:54 final size:54
Alignment explanation
Indices: 72877408--72877548 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
72877398 GTGACGAAGT
*
72877408 CACCAGATACAGAT-ATTGTGGTAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGTATAGCCACCAGAACAGATATATGTGGCAGAGC
*
72877462 CACCAGATCAGATAATCGTGGTATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGTATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
72877516 CACCAGATTAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGTATAGCCACCAG
72877549 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGTATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:72879198 original size:26 final size:26
Alignment explanation
Indices: 72879168--72879223 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
72879158 TGAAATTCCC
*
72879168 ATCATGGAACCTTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
72879194 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
72879220 ATCA
1 ATCA
72879224 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.29, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:72882898 original size:27 final size:28
Alignment explanation
Indices: 72882867--72882919 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
72882857 AGCACAATTT
72882867 GGGCCTAAGCCC-TTTCAGTAACAGTTA
1 GGGCCTAAGCCCATTTCAGTAACAGTTA
*
72882894 GGGCCTTAGCCCATTTCAGTAACAGT
1 GGGCCTAAGCCCATTTCAGTAACAGT
72882920 AGCGATTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (28 bp):
GGGCCTAAGCCCATTTCAGTAACAGTTA
Found at i:72893968 original size:64 final size:65
Alignment explanation
Indices: 72893808--72893974 Score: 178
Period size: 68 Copynumber: 2.5 Consensus size: 65
72893798 ATACATATAG
* * * *
72893808 TATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACAAGACAT
1 TATGTAGCTAGGTCGCATGTGT-GTACTAAGTGCACACCATGTGTACAAGAGAGCTAC-AGACAT
72893873 TA
64 TA
* * * **
72893875 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTAC-GGGA
1 T-ATGTAGCTAGGTCGCATGTGTG-TACTAAGTGCACACCATGT-GTACAAGAGAGCTACAGACA
72893938 -TA
63 TTA
72893940 TATGTAGCTAGGTCGCATGTGTAGTACTAAGTGCA
1 TATGTAGCTAGGTCGCATGTGT-GTACTAAGTGCA
72893975 GGCTACTATG
Statistics
Matches: 84, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
64 29 0.35
65 4 0.05
66 2 0.02
67 2 0.02
68 46 0.55
69 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (65 bp):
TATGTAGCTAGGTCGCATGTGTGTACTAAGTGCACACCATGTGTACAAGAGAGCTACAGACATTA
Found at i:72894017 original size:51 final size:49
Alignment explanation
Indices: 72893955--72894095 Score: 167
Period size: 49 Copynumber: 2.8 Consensus size: 49
72893945 AGCTAGGTCG
72893955 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCAATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAA-TT-AATCA
* * * * ** *
72894006 CGTGTGTAGTACTAAGTGCAGGCTACAACGTGTA-CCGAATAATTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-ATAATTAATCA
* *
72894055 CATGTGTAGTACGAAGTGCAGGCTACTATGCGTACCAGATA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATA
72894096 GTTTGGCTAC
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
49 34 0.45
50 7 0.09
51 34 0.45
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAATTAATCA
Found at i:72894080 original size:49 final size:51
Alignment explanation
Indices: 72893950--72894095 Score: 163
Period size: 51 Copynumber: 2.9 Consensus size: 51
72893940 TATGTAGCTA
* *
72893950 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACAACGCGTACCCGATAACTTC
** * * *
72894001 AATCACGTGTGTAGTACTAAGTGCAGGCTACAACGTGTA-CCGAATAA-TT-
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACAACGCGTACCCG-ATAACTTC
* * * *
72894050 GGTCGCATGTGTAGTACGAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACAACGCGTACCCGATA
72894096 GTTTGGCTAC
Statistics
Matches: 77, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
49 34 0.44
50 7 0.09
51 36 0.47
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACAACGCGTACCCGATAACTTC
Found at i:72897897 original size:40 final size:40
Alignment explanation
Indices: 72897837--72898061 Score: 342
Period size: 40 Copynumber: 5.6 Consensus size: 40
72897827 CAATTGAGGA
* *
72897837 TTATATCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
72897877 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
72897917 TTATTCCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
72897957 TTATTTCCAGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
72897997 CTATTTCTGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
** * *
72898037 TTACATCCGGGCTAAATCCCGAAGG
1 TTATTTCCGGGTTAAGTCCCGAAGG
72898062 TAATTGGGTT
Statistics
Matches: 168, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 168 1.00
ACGTcount: A:0.18, C:0.21, G:0.28, T:0.33
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:72904778 original size:27 final size:26
Alignment explanation
Indices: 72904748--72904808 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
72904738 GATTCAAAAA
*
72904748 TATATATTAAGTC-CGCACACTCAGTG
1 TATATAATAA-TCTCGCACACTCAGTG
* *
72904774 CTATATAATCATCTCGCACACTTAGTG
1 -TATATAATAATCTCGCACACTCAGTG
72904801 TATATAAT
1 TATATAAT
72904809 CAAATTGCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 10 0.33
27 20 0.67
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (26 bp):
TATATAATAATCTCGCACACTCAGTG
Found at i:72904818 original size:26 final size:27
Alignment explanation
Indices: 72904761--72904856 Score: 95
Period size: 26 Copynumber: 3.5 Consensus size: 27
72904751 ATATTAAGTC
* **
72904761 CGCACACTCAGTGCTATATAATCATCT
1 CGCACACTTAGTGCTATATAATCAAAT
72904788 CGCACACTTAGTG-TATATAATCAAAT
1 CGCACACTTAGTGCTATATAATCAAAT
* * * * *
72904814 TGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAA-T
72904843 CGCACACTTAGTGC
1 CGCACACTTAGTGC
72904857 CAATCTCATG
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 23 0.40
27 17 0.30
28 4 0.07
29 13 0.23
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAAAT
Found at i:72911682 original size:43 final size:40
Alignment explanation
Indices: 72911550--72911752 Score: 135
Period size: 41 Copynumber: 5.0 Consensus size: 40
72911540 CGACTCTTAG
* *
72911550 CACTGGCTCAAAAGCCCTTCGAGACCAAG-CTCGGATTA-GA
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTC-CGG-TTATGA
** * * * *
72911590 CCACTGGCTCGCAGGCCCTTTGGAACCAAGTCCGGTTATGA
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTCCGGTTATGA
* * *
72911631 CACTGGCTCTAAAAAGTCCTTCGAAACTAAGTTCGGTTATTA
1 CACTGGCTC--AAAAGCCCTTCGAAACTAAGTCCGGTTATGA
* * *
72911673 GCACTGGCTCAAAAGCCCTTCGAGACCAAG-CTCGGATTA-AA
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTC-CGG-TTATGA
** * *
72911714 CCACTGGCTCGCAGGCCCTTCGGAACTAAGTCCGGTTAT
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTCCGGTTAT
72911753 CCACAAGATT
Statistics
Matches: 126, Mismatches: 27, Indels: 18
0.74 0.16 0.11
Matches are distributed among these distances:
40 15 0.12
41 75 0.60
42 27 0.21
43 9 0.07
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTCCGGTTATGA
Found at i:72911735 original size:41 final size:41
Alignment explanation
Indices: 72911550--72911723 Score: 160
Period size: 41 Copynumber: 4.2 Consensus size: 41
72911540 CGACTCTTAG
72911550 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTA-GAC
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG-TTATGAC
** * *
72911591 CACTGGCTCGCAGGCCCTTTG-GAACCAAG-TCCGGTTATGA-
1 CACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGTTATGAC
* * * * * *
72911631 CACTGGCTCTAAAAAGTCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGGTTATGAC
*
72911674 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTA-AAC
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG-TTATGAC
72911715 CACTGGCTC
1 CACTGGCTC
72911724 GCAGGCCCTT
Statistics
Matches: 106, Mismatches: 18, Indels: 18
0.75 0.13 0.13
Matches are distributed among these distances:
40 14 0.13
41 59 0.56
42 23 0.22
43 10 0.09
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGTTATGAC
Found at i:72913744 original size:40 final size:40
Alignment explanation
Indices: 72913667--72913847 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
72913657 ACCCAAGTAT
*
72913667 CTTCGGGACTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
72913706 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
72913746 CTTCGGGAATTAGCCCGGATATAATCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
72913786 CTTCGGGACTTAGCCCGGGTATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
72913826 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
72913848 CATCCGAATA
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 12 0.09
40 114 0.90
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:72917361 original size:81 final size:81
Alignment explanation
Indices: 72917246--72918226 Score: 1899
Period size: 81 Copynumber: 12.1 Consensus size: 81
72917236 TACTGAAATG
*
72917246 CCCTTGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
72917311 CAAAATTATCGTTTTA
66 CAAAATTATCGTTTTA
72917327 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
72917392 CAAAATTATCGTTTTA
66 CAAAATTATCGTTTTA
72917408 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
72917473 CAAAATTATCGTTTTA
66 CAAAATTATCGTTTTA
72917489 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
72917554 CAAAATTATCGTTTTA
66 CAAAATTATCGTTTTA
72917570 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
72917635 CAAAATTATCGTTTTA
66 CAAAATTATCGTTTTA
72917651 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
72917716 CAAAATTATCGTTTTA
66 CAAAATTATCGTTTTA
72917732 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
72917797 CAAAATTATCGTTTTA
66 CAAAATTATCGTTTTA
72917813 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
72917878 CAAAATTATCGTTTTA
66 CAAAATTATCGTTTTA
72917894 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
72917959 CAAAATTATCGTTTTA
66 CAAAATTATCGTTTTA
72917975 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
72918040 CAAAATTATCGTTTTA
66 CAAAATTATCGTTTTA
*
72918056 CCCTTGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
72918121 CAAAATTATCGTTTTA
66 CAAAATTATCGTTTTA
* *
72918137 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
1 CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
* *
72918202 CAAAATTACCATTTTA
66 CAAAATTATCGTTTTA
*
72918218 CCCTCGATT
1 CCCTTGATT
72918227 GTGAAATTAC
Statistics
Matches: 892, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 892 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.41
Consensus pattern (81 bp):
CCCTTGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
CAAAATTATCGTTTTA
Found at i:72918299 original size:54 final size:53
Alignment explanation
Indices: 72918225--72918357 Score: 151
Period size: 54 Copynumber: 2.5 Consensus size: 53
72918215 TTACCCTCGA
* *
72918225 TTGTGAAATTACTGAAATACCCCTGTTGGAT-AGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACTGAAATACCCCTGTTGG-TGA-AATTACCAAAATACCCCTAAT
* * * *
72918279 TTGTAAAATTACTGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTTAAT
1 TTGTAAAATTACTGAAATACCCCT-GTTGGTGAAATTACCAAAATACCCCTAAT
* **
72918333 TTGAAAAATTACCAAAATACCCCTG
1 TTGTAAAATTACTGAAATACCCCTG
72918358 ATTTACAAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
53 1 0.01
54 61 0.91
55 5 0.07
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.30
Consensus pattern (53 bp):
TTGTAAAATTACTGAAATACCCCTGTTGGTGAAATTACCAAAATACCCCTAAT
Found at i:72918361 original size:27 final size:27
Alignment explanation
Indices: 72918230--72918437 Score: 127
Period size: 27 Copynumber: 7.6 Consensus size: 27
72918220 CTCGATTGTG
* *
72918230 AAATTACTGAAATACCCCTG-TTGGATA
1 AAATTACCGAAATACCCCTGATTTGA-A
* * *
72918257 GAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCGAAATACCCCTGA-TTTGAA
* * * **
72918284 AAATTACTGAAATACCACTGGTTTGTG
1 AAATTACCGAAATACCCCTGATTTGAA
* *
72918311 AAATTACCGAAATACCCTTAATTTGAA
1 AAATTACCGAAATACCCCTGATTTGAA
*
72918338 AAATTACCAAAATACCCCTGATTT-ACA
1 AAATTACCGAAATACCCCTGATTTGA-A
** * *
72918365 AAATTATAGAAATACCCTTGACTTTCTAA
1 AAATTACCGAAATACCCCTGA-TTT-GAA
** ** *
72918394 AAATTATAGAAATACCATTGGTTT-ACA
1 AAATTACCGAAATACCCCTGATTTGA-A
*
72918421 AAATTACTGAAATACCC
1 AAATTACCGAAATACCC
72918438 TTGGTTTGTA
Statistics
Matches: 143, Mismatches: 30, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
26 2 0.01
27 111 0.78
28 9 0.06
29 20 0.14
30 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACCGAAATACCCCTGATTTGAA
Found at i:72918368 original size:81 final size:81
Alignment explanation
Indices: 72918225--72918380 Score: 201
Period size: 81 Copynumber: 1.9 Consensus size: 81
72918215 TTACCCTCGA
* * * **
72918225 TTGTGAAATTACTGAAATACCCCTGTTGGATAGAATTACCAAAATACCCCTAGTTTGTAAAATTA
1 TTGTGAAATTACCGAAATACCCCTATTGGATAAAATTACCAAAATACCCCTAGTTTACAAAATTA
72918290 CT-GAAATACCACTGGT
66 -TAGAAATACCACTGGT
* *
72918306 TTGTGAAATTACCGAAATACCCTTAATTTGA-AAAATTACCAAAATACCCCT-GATTTACAAAAT
1 TTGTGAAATTACCGAAATACCCCT-ATTGGATAAAATTACCAAAATACCCCTAG-TTTACAAAAT
72918369 TATAGAAATACC
64 TATAGAAATACC
72918381 CTTGACTTTC
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
80 2 0.03
81 59 0.91
82 4 0.06
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.30
Consensus pattern (81 bp):
TTGTGAAATTACCGAAATACCCCTATTGGATAAAATTACCAAAATACCCCTAGTTTACAAAATTA
TAGAAATACCACTGGT
Found at i:72918369 original size:54 final size:54
Alignment explanation
Indices: 72918258--72918439 Score: 177
Period size: 54 Copynumber: 3.3 Consensus size: 54
72918248 TGTTGGATAG
* * * * * ***
72918258 AATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCACTGGTTTGTGA
1 AATTACCGAAATACCCTTAATTTGAAAAATTACTAAAATACCACTGGTTTACAA
* * *
72918312 AATTACCGAAATACCCTTAATTTGAAAAATTACCAAAATACCCCTGATTTACAA
1 AATTACCGAAATACCCTTAATTTGAAAAATTACTAAAATACCACTGGTTTACAA
** * * *
72918366 AATTATAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCGAAATACCCTT-AATTT-GAAAAATTACTA-AAATACCACTGGTTTACAA
*
72918422 AATTACTGAAATACCCTT
1 AATTACCGAAATACCCTT
72918440 GGTTTGTAGA
Statistics
Matches: 104, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
54 59 0.57
55 5 0.05
56 40 0.38
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (54 bp):
AATTACCGAAATACCCTTAATTTGAAAAATTACTAAAATACCACTGGTTTACAA
Found at i:72920618 original size:39 final size:39
Alignment explanation
Indices: 72920574--72920732 Score: 255
Period size: 39 Copynumber: 4.1 Consensus size: 39
72920564 ATTATATTAT
* *
72920574 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
72920613 CAGCACGAAGCCTGTGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
72920652 CAGCATGAAGCCTGCGGGATTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
72920691 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
72920730 CAG
1 CAG
72920733 TGTCTTGCAT
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 108 1.00
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:72922510 original size:28 final size:28
Alignment explanation
Indices: 72922447--72922628 Score: 285
Period size: 28 Copynumber: 6.5 Consensus size: 28
72922437 ATATTAAGTC
* *
72922447 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
72922474 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
72922502 CCCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
72922530 CGCACACCTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
*
72922558 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
72922586 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
72922614 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
72922629 GTACAATTTA
Statistics
Matches: 145, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
27 22 0.15
28 123 0.85
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:72926390 original size:40 final size:40
Alignment explanation
Indices: 72926346--72926422 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
72926336 TTGACAATTG
*
72926346 TAATGAACATGGAAAACATTGAA-TTTTGGTAAAATTATTA
1 TAATGAACATGGAAAACACT-AATTTTTGGTAAAATTATTA
*
72926386 TAATGAACATGGAAAACCCTAATTTTTGGTAAAATTA
1 TAATGAACATGGAAAACACTAATTTTTGGTAAAATTA
72926423 CGAAAATACC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 2 0.06
40 32 0.94
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (40 bp):
TAATGAACATGGAAAACACTAATTTTTGGTAAAATTATTA
Found at i:72926669 original size:25 final size:24
Alignment explanation
Indices: 72926631--72926700 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
72926621 AGGAAGTGCT
* *
72926631 AAAAAGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
72926655 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
72926680 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
72926701 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:72926713 original size:24 final size:24
Alignment explanation
Indices: 72926630--72926713 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
72926620 GAGGAAGTGC
* * *
72926630 TAAAAAGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
72926655 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
72926679 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
72926703 TAAAAGAGGCT
1 TAAAAG-GGCT
72926714 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.20
25 37 0.73
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:72926956 original size:31 final size:31
Alignment explanation
Indices: 72926921--72927004 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
72926911 CGTTTACAGT
72926921 AAAGGCTTCGGCCGAGTGATATGATTTATGA
1 AAAGGCTTCGGCCGAGTGATATGATTTATGA
* *
72926952 AAAGGTTTCGGCTGAGTGATATGATTTATGA
1 AAAGGCTTCGGCCGAGTGATATGATTTATGA
*
72926983 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCGAGTGATATG
72927005 TCAAGACTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCGAGTGATATGATTTATGA
Found at i:72938711 original size:43 final size:43
Alignment explanation
Indices: 72938643--72938728 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
72938633 ATCACATGTA
* * *
72938643 TCGCATCCATTATGAACTCGGACCACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAAATCGAACCACTCAACGAGCTCGGATGC
*
72938686 TCGCATCTATAATGAAATCGAACCACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAAATCGAACCACTCAACGAGCTCGGATGC
72938729 CACAAATATC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (43 bp):
TCGCATCCATAATGAAATCGAACCACTCAACGAGCTCGGATGC
Found at i:72950776 original size:46 final size:48
Alignment explanation
Indices: 72950709--72950805 Score: 126
Period size: 46 Copynumber: 2.1 Consensus size: 48
72950699 ACAGGATAGA
* * * *
72950709 AATGAGCCATGTATGTCCATATCA-GT-TATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGACCATATCATATATATATGGCATTGGAGACAGG
* *
72950755 AATGAGCCATGTAAGACCATATTATATATATATGGCATTGGAGATAGG
1 AATGAGCCATGTAAGACCATATCATATATATATGGCATTGGAGACAGG
72950803 AAT
1 AAT
72950806 AATTCATGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 21 0.49
47 1 0.02
48 21 0.49
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (48 bp):
AATGAGCCATGTAAGACCATATCATATATATATGGCATTGGAGACAGG
Found at i:72958496 original size:17 final size:18
Alignment explanation
Indices: 72958469--72958502 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
72958459 AATTAAATAT
72958469 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
72958487 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
72958503 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:72970156 original size:39 final size:39
Alignment explanation
Indices: 72970091--72970214 Score: 160
Period size: 39 Copynumber: 3.2 Consensus size: 39
72970081 CAGTGATGTT
*
72970091 TATCCGGACTT-AGGATCCGCAAGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGG-TCCGCAGGCTATGTGCTGGAATTA
* *
72970130 TATCCGGACTTAAGGTCTGCAGGCTATGTGCTGAAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * * *
72970169 TAACCGGACTTAAGATCCGCAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
*
72970208 TGTCCGG
1 TATCCGG
72970215 GCTAAAGTCC
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 70 0.96
40 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:72970248 original size:78 final size:78
Alignment explanation
Indices: 72970094--72970240 Score: 172
Period size: 78 Copynumber: 1.9 Consensus size: 78
72970084 TGATGTTTAT
* * * * * **
72970094 CCGGACTTAGGATCCGCAAGCTATGTGCTGGAATTATATCCGGACTTAAGGTCTGCAGGCTATGT
1 CCGGACTTAAGATCCGCAAGCTACGTGCTGGAAATATATCCGGACTTAAAGTCTGCAAGCTATAA
72970159 GCTGAAATTATAA
66 GCTGAAATTATAA
* * *
72970172 CCGGACTTAAGATCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCTGCAAGCT-TC
1 CCGGACTTAAGATCCGCAAGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CTGCAAGCTAT-
72970235 AAGCTG
64 AAGCTG
72970241 GTATTATACC
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
77 6 0.11
78 51 0.89
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGACTTAAGATCCGCAAGCTACGTGCTGGAAATATATCCGGACTTAAAGTCTGCAAGCTATAA
GCTGAAATTATAA
Found at i:72979406 original size:24 final size:24
Alignment explanation
Indices: 72979345--72979429 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
72979335 CACCGGCTCA
** *
72979345 AAGCCTGATAGACGATATTGGCAC
1 AAGCCTGATAGATAACATTGGCAC
* *
72979369 AAGGCTTGATAGATAACATCGGCAC
1 AA-GCCTGATAGATAACATTGGCAC
*
72979394 AAGCCTGATAGATAAACATTGACAC
1 AAGCCTGATAGAT-AACATTGGCAC
72979419 AAAGCCTGATA
1 -AAGCCTGATA
72979430 TTTAGTTACA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
24 12 0.24
25 28 0.56
26 10 0.20
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (24 bp):
AAGCCTGATAGATAACATTGGCAC
Found at i:72983195 original size:17 final size:16
Alignment explanation
Indices: 72983128--72983207 Score: 74
Period size: 17 Copynumber: 4.9 Consensus size: 16
72983118 TCTTAACCGT
*
72983128 TTTTCTTTTCTCTTTTTT
1 TTTTC-TTTC-CTTTTTA
*
72983146 TTTTCCTTCCTTTTTA
1 TTTTCTTTCCTTTTTA
** *
72983162 --TTCTTTTGTTCTTA
1 TTTTCTTTCCTTTTTA
72983176 TTTTCTTTCCTCTTTTA
1 TTTTCTTTCCT-TTTTA
72983193 TTTTCTTTCCTTTTT
1 TTTTCTTTCCTTTTT
72983208 CTTACTTCTG
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
14 10 0.20
16 17 0.34
17 18 0.36
18 5 0.10
ACGTcount: A:0.04, C:0.20, G:0.01, T:0.75
Consensus pattern (16 bp):
TTTTCTTTCCTTTTTA
Found at i:72983918 original size:63 final size:63
Alignment explanation
Indices: 72983782--72983904 Score: 167
Period size: 63 Copynumber: 2.0 Consensus size: 63
72983772 ATTCACACCA
* * *
72983782 GCCAAGGACACGGACGTGTGTCCAGGCCGTGTAACACACTGCTTGTACATTGGAACCACATAG
1 GCCAATGACACGGACCTGTGTCCAGGCCATGTAACACACTGCTTGTACATTGGAACCACATAG
* * **
72983845 GCCAATGACACGGGCCTGTGTCTAGGCCATGTAACACACTTTTTGTACATTAGG-ACCACA
1 GCCAATGACACGGACCTGTGTCCAGGCCATGTAACACACTGCTTGTACATT-GGAACCACA
72983905 CGGGTAAGTG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
63 50 0.96
64 2 0.04
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (63 bp):
GCCAATGACACGGACCTGTGTCCAGGCCATGTAACACACTGCTTGTACATTGGAACCACATAG
Found at i:72988090 original size:18 final size:18
Alignment explanation
Indices: 72988067--72988102 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
72988057 GTAAATGAGT
72988067 AGTGTTATACACATATGA
1 AGTGTTATACACATATGA
72988085 AGTGTTATACACATATGA
1 AGTGTTATACACATATGA
72988103 TCTATTTGGT
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:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (18 bp):
AGTGTTATACACATATGA
Found at i:72988843 original size:40 final size:40
Alignment explanation
Indices: 72988788--72988905 Score: 209
Period size: 40 Copynumber: 3.0 Consensus size: 40
72988778 GAAAAAAAAA
72988788 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
72988828 TATAACCGGGTTAAGTCCCGAAGGCATTCATGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
72988868 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
72988906 GTTACATCCG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:72997746 original size:25 final size:25
Alignment explanation
Indices: 72997710--72997759 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
72997700 AGGATGATAG
*
72997710 AGCGTCGCCGTGGATTCGATCCTCC
1 AGCGTCGCCGTGGATTAGATCCTCC
* *
72997735 AGCGTCGTCGTGGGTTAGATCCTCC
1 AGCGTCGCCGTGGATTAGATCCTCC
72997760 TCAATACCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.32, G:0.30, T:0.26
Consensus pattern (25 bp):
AGCGTCGCCGTGGATTAGATCCTCC
Found at i:72998121 original size:29 final size:29
Alignment explanation
Indices: 72998060--72998124 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
72998050 TTTAAGTTCA
**
72998060 TTTATTTTTCAATTTGTTTTTCTTTTTAT
1 TTTATTTTTCAATTTGCATTTCTTTTTAT
* *
72998089 TTTATTTTT-ATTTTGCATTTCTTTTTGT
1 TTTATTTTTCAATTTGCATTTCTTTTTAT
72998117 CTTTATTT
1 -TTTATTT
72998125 ATCATTTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.12, C:0.08, G:0.05, T:0.75
Consensus pattern (29 bp):
TTTATTTTTCAATTTGCATTTCTTTTTAT
Found at i:73002688 original size:30 final size:30
Alignment explanation
Indices: 73002642--73002702 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
73002632 TTCCCGAGCC
73002642 TAGGGGAAAAACTGTAAATATGCAAAAGTT
1 TAGGGGAAAAACTGTAAATATGCAAAAGTT
* * * *
73002672 TAGGGGTAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGAAAAACTGTAAATATGCAAAAGTT
73002702 T
1 T
73002703 TGAGTTAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGAAAAACTGTAAATATGCAAAAGTT
Found at i:73007384 original size:16 final size:17
Alignment explanation
Indices: 73007363--73007401 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
73007353 TTCATTTTTC
* *
73007363 TTCTTTTGTTCTTC-TT
1 TTCTTTTCTCCTTCATT
73007379 TTCTTTTCTCCTTCATT
1 TTCTTTTCTCCTTCATT
73007396 TTCTTT
1 TTCTTT
73007402 CTTTTCTCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.03, C:0.23, G:0.03, T:0.72
Consensus pattern (17 bp):
TTCTTTTCTCCTTCATT
Found at i:73014450 original size:36 final size:36
Alignment explanation
Indices: 73014403--73014472 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 36
73014393 TCGATAAAGT
*
73014403 TATCTTTTGTAGTGCCT-CTAAATGCGCTCTCGAGTC
1 TATCTTTTGTAGTGCCTAC-AAATGCACTCTCGAGTC
73014439 TATCTTTTGTAGTGCCTACAAATGCACTCTCGAG
1 TATCTTTTGTAGTGCCTACAAATGCACTCTCGAG
73014473 CGCCATACAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 31 0.97
37 1 0.03
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (36 bp):
TATCTTTTGTAGTGCCTACAAATGCACTCTCGAGTC
Found at i:73016291 original size:21 final size:21
Alignment explanation
Indices: 73016265--73016305 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
73016255 ATCTGCTCAA
* *
73016265 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
73016286 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
73016306 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:73025036 original size:26 final size:25
Alignment explanation
Indices: 73025007--73025057 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
73024997 TACATTGTCA
*
73025007 TTTCAAGTTCCCTACCCCTTAACAT
1 TTTCAAGTTCCCTACACCTTAACAT
*
73025032 NTTTCAATTTCCCTACACCTTAACAT
1 -TTTCAAGTTCCCTACACCTTAACAT
73025058 GCATGTAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.33, G:0.02, T:0.37
Consensus pattern (25 bp):
TTTCAAGTTCCCTACACCTTAACAT
Found at i:73027973 original size:16 final size:18
Alignment explanation
Indices: 73027952--73027984 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
73027942 AATTTATGTA
73027952 TATTA-TTAA-TTTATAC
1 TATTATTTAAGTTTATAC
73027968 TATTATTTAAGTTTATA
1 TATTATTTAAGTTTATA
73027985 ATTAATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (18 bp):
TATTATTTAAGTTTATAC
Found at i:73032347 original size:30 final size:30
Alignment explanation
Indices: 73032313--73032378 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
73032303 TTCAAATACT
* *
73032313 AAATTGGGTACCCAACTAA-AAATAAGTATC
1 AAATTGGATACCAAACTAAGAAA-AAGTATC
*
73032343 AAATTTGGATACCAAATTAAGAAAAAGTATC
1 AAA-TTGGATACCAAACTAAGAAAAAGTATC
73032374 AAATT
1 AAATT
73032379 CAAGTACCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 5 0.16
31 23 0.74
32 3 0.10
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (30 bp):
AAATTGGATACCAAACTAAGAAAAAGTATC
Found at i:73039310 original size:4 final size:4
Alignment explanation
Indices: 73039301--73039353 Score: 52
Period size: 4 Copynumber: 13.2 Consensus size: 4
73039291 TTTTCCTTTG
* * * * * *
73039301 TATT TATT TATC TATT TATA TATT TATA CATT TATC TATT TATT TCTT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
73039349 TATT T
1 TATT T
73039354 CTTTTTGTGT
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (4 bp):
TATT
Found at i:73039565 original size:3 final size:3
Alignment explanation
Indices: 73039559--73039604 Score: 60
Period size: 3 Copynumber: 15.3 Consensus size: 3
73039549 TTTATGTGCA
73039559 TAT TAT TAT TAT TAT TATT TAT T-T TAT TATT TAT T-T TAT TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT
73039604 T
1 T
73039605 TTTTCCTTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 4 0.10
3 29 0.74
4 6 0.15
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TAT
Found at i:73039579 original size:27 final size:27
Alignment explanation
Indices: 73039549--73039605 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
73039539 GTAATCTTTT
73039549 TTTATGTGCA-TA-TTATTATTATTATTA
1 TTTAT-TGCATTATTTATT-TTATTATTA
**
73039576 TTTATTTTATTATTTATTTTATTATTA
1 TTTATTGCATTATTTATTTTATTATTA
73039603 TTT
1 TTT
73039606 TTTCCTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 2 0.08
27 19 0.73
28 5 0.19
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (27 bp):
TTTATTGCATTATTTATTTTATTATTA
Found at i:73039607 original size:12 final size:12
Alignment explanation
Indices: 73039559--73039606 Score: 73
Period size: 12 Copynumber: 4.1 Consensus size: 12
73039549 TTTATGTGCA
73039559 TATTA-TTATTAT
1 TATTATTTATT-T
73039571 TATTATTTATTT
1 TATTATTTATTT
73039583 TATTATTTATTT
1 TATTATTTATTT
73039595 TATTA-TTATTT
1 TATTATTTATTT
73039606 T
1 T
73039607 TTCCTTTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.20
12 23 0.66
13 5 0.14
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TATTATTTATTT
Found at i:73044617 original size:46 final size:46
Alignment explanation
Indices: 73044525--73044617 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
73044515 ATAATCTCAC
* * * *
73044525 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAATGAACTCGGAACACAAATCAACGAGCTCAGATGTTCGCAT
* *
73044571 CCATAATGAACTCGGAGCACAAATCAACGAGTTCAGATGCTT-GCAT
1 CCATAATGAACTCGGAACACAAATCAACGAGCTCAGATG-TTCGCAT
73044617 C
1 C
73044618 TATAGGTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
46 38 0.95
47 2 0.05
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAATGAACTCGGAACACAAATCAACGAGCTCAGATGTTCGCAT
Found at i:73050820 original size:21 final size:21
Alignment explanation
Indices: 73050794--73050837 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
73050784 AAGTCAATTC
*
73050794 CATGTCCCAAACATGGTCTTA
1 CATGTCCCAAACATGGTATTA
73050815 CATGTCCCAAACATGGTATTA
1 CATGTCCCAAACATGGTATTA
73050836 CA
1 CA
73050838 CTGACTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (21 bp):
CATGTCCCAAACATGGTATTA
Found at i:73051051 original size:46 final size:47
Alignment explanation
Indices: 73050815--73051077 Score: 202
Period size: 46 Copynumber: 5.6 Consensus size: 47
73050805 CATGGTCTTA
* * * * *
73050815 CATGTCCCAAACATGGTATTACACTGACTATCATCATCGAGGCCGACGC
1 CATGTCCCAGACATGGTCTTACACTG-CTCTCATC-TCGATGCCGATGC
* *
73050864 CATGTCCCAGACATGGTATTACACTAGCTCTCACATATCCG-TGCCGATGC
1 CATGTCCCAGACATGGTCTTACACT-GCTCT--CATCT-CGATGCCGATGC
** *
73050914 CATGTCCCAGACATGGTCTTACAC-GGACACATCTCG-TAGCCGATG-
1 CATGTCCCAGACATGGTCTTACACTGCTCTCATCTCGAT-GCCGATGC
* * * *
73050959 CATGTCCCAGATAT-GTCTTATACTGGCT-T-ATGTCTCGAGGCTGATG-
1 CATGTCCCAGACATGGTCTTACACT-GCTCTCA--TCTCGATGCCGATGC
* *
73051005 CATGTCCCAAACAT-GTCTTACACTAGCTCTCATCTCAATGCCGATGC
1 CATGTCCCAGACATGGTCTTACACT-GCTCTCATCTCGATGCCGATGC
* *
73051052 CATGTCCTAGACATGATCTTACACTG
1 CATGTCCCAGACATGGTCTTACACTG
73051078 GCTTATAATA
Statistics
Matches: 173, Mismatches: 27, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
44 9 0.05
45 16 0.09
46 58 0.34
47 14 0.08
48 12 0.07
49 27 0.16
50 32 0.18
51 5 0.03
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGCTCTCATCTCGATGCCGATGC
Found at i:73053986 original size:44 final size:44
Alignment explanation
Indices: 73053923--73054767 Score: 520
Period size: 44 Copynumber: 18.6 Consensus size: 44
73053913 CATTATGGCG
* * * ** *
73053923 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTGAAGCCACT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* *
73053967 AATCTTATCTTCCTGAAGTTCCGGTGGAGCAGATTGAAGCA-ACA
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAG-ATACA
* *
73054011 AATCCTATAC-CCCTGAAGTTGCAGTGG-G-ATGGATTGAA-ATCATCA
1 AATCTTAT-CTTCCTGAAGTTGCAGTGGAGCA--GATTGAAGAT-A-CA
* * *
73054056 TGGCGAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCTA-A
1 -----AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * *
73054104 TAATCTTAT-TTCCTTAAAGTTGTAGTGGAGCATATTGAAGATGCG
1 -AATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * * *
73054149 AATCTTGT-TTCCCTAAAGTTGCAGTGGAACAAATTTAAATTTCAAGTTACA
1 AATCTTATCTT-CCTGAAGTTGCAGTGGAGC------AGA-TTGAAGATACA
* * *
73054200 AATCTTATC-TCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTACA
1 AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * *
73054244 AATCTTATCTCCCTGAAGCTGTAGTGGAGCAGATTGAAGATAGCA
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * * * * *
73054289 AATCTTATC-TCTCTAAAGTTGCAGTAGAGCGGGTTAAAGTTATCA
1 AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
** * * * *
73054334 AATCTTATC-TCTCAAAAGTTGTAGTAGAGTAGATTGAAGTTACA
1 AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTGAAGATACA
73054378 AATCTTATC-TCACTGAAGTTGC-GATGGAGCAGATTGAAGATATCA
1 AATCTTATCTTC-CTGAAGTTGCAG-TGGAGCAGATTGAAGATA-CA
*
73054423 AATCTTATC-TCACTGAAGTTGCAATGGAGCAGATTGAAGATATCA
1 AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * * *
73054468 AATCTTATC-TCTTTGAAGTTGCAGTAGAGTAGATTGAAGTTACA
1 AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * *
73054512 AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGATAGCA
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * * ** *
73054557 AATCTTATCTCCCTAAAGTTGCAATGGAAAAGATTGAAGATAACG
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACA
* ** * *
73054602 AATCTTAGT-TCCCCAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTA-TCTTCCTGAAGTTGCAGTGGAGCAGATT---G----AAGATACA
* * * * *
73054653 ACTCTTATC-TCCATGAAGTTGTAGTGAAGCAGATTGAAGATGCG
1 AATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * **
73054697 AATCTTATTTTCCTGAAGTTGCAGTGGAGTAGATTGAAGCGACA
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* *
73054741 AATCCTATACCT-CTGAAGTTGCAGTGG
1 AATCTTAT-CTTCCTGAAGTTGCAGTGG
73054768 GTTAGAATGG
Statistics
Matches: 643, Mismatches: 109, Indels: 98
0.76 0.13 0.12
Matches are distributed among these distances:
42 2 0.00
43 5 0.01
44 297 0.46
45 234 0.36
46 2 0.00
48 3 0.00
49 1 0.00
50 37 0.06
51 57 0.09
52 5 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (44 bp):
AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
Found at i:73054124 original size:138 final size:138
Alignment explanation
Indices: 73053872--73054143 Score: 411
Period size: 138 Copynumber: 2.0 Consensus size: 138
73053862 GAGAAACCAT
* *
73053872 AAATCTTATACCCCTGAAGTTGCAGTGGGATGGATTAAAATCATTATGGCGAATCTTATCTCCCT
1 AAATCCTATACCCCTGAAGTTGCAGTGGGATGGATTAAAATCATCATGGCGAATCTTATCTCCCT
* * * *
73053937 AAAGTTGCAGTGGAGCAAATTGAAGCCACTAATCTTATCTTCCTGAAGTTCCGGTGGAGCAGATT
66 AAAGTTGCAATGGAGCAAATTGAAGCCAATAATCTTATCTTCCTAAAGTTCCAGTGGAGCAGATT
73054002 GAAGCAAC
131 GAAGCAAC
*
73054010 AAATCCTATACCCCTGAAGTTGCAGTGGGATGGATTGAAATCATCATGGCGAATCTTATCTCCCT
1 AAATCCTATACCCCTGAAGTTGCAGTGGGATGGATTAAAATCATCATGGCGAATCTTATCTCCCT
* * * ** *
73054075 GAAGTTGCAATGGAGCAGATTGAAGCTAATAATCTTAT-TTCCTTAAAGTTGTAGTGGAGCATAT
66 AAAGTTGCAATGGAGCAAATTGAAGCCAATAATCTTATCTTCC-TAAAGTTCCAGTGGAGCAGAT
73054139 TGAAG
130 TGAAG
73054144 ATGCGAATCT
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
137 4 0.03
138 116 0.97
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (138 bp):
AAATCCTATACCCCTGAAGTTGCAGTGGGATGGATTAAAATCATCATGGCGAATCTTATCTCCCT
AAAGTTGCAATGGAGCAAATTGAAGCCAATAATCTTATCTTCCTAAAGTTCCAGTGGAGCAGATT
GAAGCAAC
Found at i:73054168 original size:138 final size:137
Alignment explanation
Indices: 73053872--73054723 Score: 507
Period size: 134 Copynumber: 6.2 Consensus size: 137
73053862 GAGAAACCAT
* * *
73053872 AAATCTTATACCCCTGAAGTTGCAGTGGGATGGATTAAAATCATTATGGCGAATCTTATCTCCCT
1 AAATCTTATATCCCTAAAGTTGCAGTGGGATGGATTAAAATCATCATGGCGAATCTTATCTCCCT
* * * * ***
73053937 AAAGTTGCAGTGGAGCAAATTGAAGCCACTAATCTTATCTTCCTGAAGTTCCGGTGGAGCAGATT
66 GAAGTTGCAGTGGAGCAGATTGAAGCTAATAATCTTAT-TTCCTGAAGTTGTAGTGGAGCAGATT
*
73054002 GAAGCA-AC
130 GAAG-ATGC
* * * *
73054010 AAATCCTATACCCCTGAAGTTGCAGTGGGATGGATTGAAATCATCATGGCGAATCTTATCTCCCT
1 AAATCTTATATCCCTAAAGTTGCAGTGGGATGGATTAAAATCATCATGGCGAATCTTATCTCCCT
* * *
73054075 GAAGTTGCAATGGAGCAGATTGAAGCTAATAATCTTATTTCCTTAAAGTTGTAGTGGAGCATATT
66 GAAGTTGCAGTGGAGCAGATTGAAGCTAATAATCTTATTTCC-TGAAGTTGTAGTGGAGCAGATT
73054140 GAAGATGC
130 GAAGATGC
* * * * *** * * ** * *
73054148 GAATCTTGTTTCCCTAAAGTTGCAGTGGAACAAATTTAAAT-TTCAAGTTACAAATCTTATCTCT
1 AAATCTTATATCCCTAAAGTTGCAGTGGGATGGATTAAAATCATC-A-TGGCGAATCTTATCTCC
* * * * *
73054212 CTGAAGTTGCAGTAGAGCAGATTAAAGTTACA-AATCTTATCTCCCTGAAGCTGTAGTGGAGCAG
64 CTGAAGTTGCAGTGGAGCAGATTGAAGCTA-ATAATCTTAT-TTCCTGAAGTTGTAGTGGAGCAG
73054276 ATTGAAGATAGC
127 ATTGAAGAT-GC
* * * * * * * *
73054288 AAATCTTATCTCTCTAAAGTTGCAGT-AGAGCGGGTTAAAGT--T-AT--CAAATCTTATCTCTC
1 AAATCTTATATCCCTAAAGTTGCAGTGGGA-TGGATTAAAATCATCATGGCGAATCTTATCTCCC
** * * * * * *
73054347 AAAAGTTGTAGTAGAGTAGATTGAAGTTACA-AATCTTATCTCACTGAAGTTG-CGATGGAGCAG
65 TGAAGTTGCAGTGGAGCAGATTGAAGCTA-ATAATCTTATTTC-CTGAAGTTGTAG-TGGAGCAG
*
73054410 ATTGAAGATATC
127 ATTGAAGAT-GC
* * * * *
73054422 AAATCTTATCTCACTGAAGTTGCAAT-GGA-GCAGATTGAAGAT-ATCA-----AATCTTATCTC
1 AAATCTTATATCCCTAAAGTTGCAGTGGGATG--GATT-AAAATCATCATGGCGAATCTTATCTC
** * * * * * * *
73054479 TTTGAAGTTGCAGTAGAGTAGATTGAAGTTACA-AATCTTATCTCCCTGAAGTTGCAGTAGAGTA
63 CCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-ATAATCTTAT-TTCCTGAAGTTGTAGTGGAGCA
73054543 GATTGAAGATAGC
126 GATTGAAGAT-GC
* * * ** *
73054556 AAATCTTATCTCCCTAAAGTTGCAATGGAAAAGATTGAAGAT-A--A---CGAATCTTAGT-TCC
1 AAATCTTATATCCCTAAAGTTGCAGTGGGATGGATT-AAAATCATCATGGCGAATCTTA-TCTCC
** * * *
73054614 CCAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAACTCTTATCTCCATGAAGTTGTAGTG
64 CTGAAGTTGCAGTGGAGCAGATTGAAGCT--AA--T--AA-TCTTATTTCC-TGAAGTTGTAGTG
*
73054679 AAGCAGATTGAAGATGC
121 GAGCAGATTGAAGATGC
* * * *
73054696 GAATCTTATTTTCCTGAAGTTGCAGTGG
1 AAATCTTATATCCCTAAAGTTGCAGTGG
73054724 AGTAGATTGA
Statistics
Matches: 583, Mismatches: 100, Indels: 60
0.78 0.13 0.08
Matches are distributed among these distances:
132 2 0.00
133 2 0.00
134 243 0.42
135 9 0.02
136 3 0.01
137 9 0.02
138 148 0.25
139 74 0.13
140 63 0.11
141 30 0.05
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (137 bp):
AAATCTTATATCCCTAAAGTTGCAGTGGGATGGATTAAAATCATCATGGCGAATCTTATCTCCCT
GAAGTTGCAGTGGAGCAGATTGAAGCTAATAATCTTATTTCCTGAAGTTGTAGTGGAGCAGATTG
AAGATGC
Found at i:73054336 original size:45 final size:44
Alignment explanation
Indices: 73054192--73054765 Score: 485
Period size: 45 Copynumber: 12.8 Consensus size: 44
73054182 TTTAAATTTC
*
73054192 AAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTA
1 AAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTG
* * * *
73054236 AAGTTACAAATCTTATCTCCCTGAAGCTGTAGTGGAGCAGATTG
1 AAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTG
* * * * *
73054280 AAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCGGGTTA
1 AAGTTA-CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTG
** * *
73054325 AAGTTATCAAATCTTATCTCTCAAAAGTTGTAGTAGAGTAGATTG
1 AAGTTA-CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTG
* *
73054370 AAGTTACAAATCTTATCTCACTGAAGTTGC-GATGGAGCAGATTG
1 AAGTTACAAATCTTATCTCTCTGAAGTTGCAG-TAGAGCAGATTG
* * * *
73054414 AAGATATCAAATCTTATCTCACTGAAGTTGCAATGGAGCAGATTG
1 AAGTTA-CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTG
* * *
73054459 AAGATATCAAATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATTG
1 AAGTTA-CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTG
* *
73054504 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTG
1 AAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTG
* * * * * **
73054548 AAGATAGCAAATCTTATCTCCCTAAAGTTGCAATGGAAAAGATTG
1 AAGTTA-CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTG
* * * ** * *
73054593 AAGATAACGAATCTTAGT-TCCCCAAAGTTGCAGTGGAACAGATTAAAG
1 AAG-TTACAAATCTTA-TCTCTCTGAAGTTGCAGTAGAGCAGATT---G
* *
73054641 CTACAAGTTACAACTCTTATCTC-CATGAAGTTGTAGT-GAAGCAGATTG
1 ----AAGTTACAAATCTTATCTCTC-TGAAGTTGCAGTAG-AGCAGATTG
* * * * * *
73054689 AAGATGCGAATCTTAT-TTTCCTGAAGTTGCAGTGGAGTAGATTG
1 AAGTTACAAATCTTATCTCT-CTGAAGTTGCAGTAGAGCAGATTG
** *
73054733 AAGCGACAAATCCTATAC-CTCTGAAGTTGCAGT
1 AAGTTACAAATCTTAT-CTCTCTGAAGTTGCAGT
73054766 GGGTTAGAAT
Statistics
Matches: 438, Mismatches: 70, Indels: 44
0.79 0.13 0.08
Matches are distributed among these distances:
43 2 0.00
44 175 0.40
45 224 0.51
46 2 0.00
48 2 0.00
50 3 0.01
51 27 0.06
52 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (44 bp):
AAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTG
Found at i:73054376 original size:134 final size:133
Alignment explanation
Indices: 73054061--73054765 Score: 578
Period size: 134 Copynumber: 5.2 Consensus size: 133
73054051 CATCATGGCG
* * * * * * * *
73054061 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCTA-ATAATCTTATTTCCTTAAAGTT
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTTACA-AATCTTATCTCCCTGAAGTT
* * * * * * * * * *
73054125 GTAGTGGAGCATATTGAAGAT-GCGAATCTTGTTTCCCTAAAGTTGCAGTGGAACAAATTTAAAT
65 G-AGTGGAGCAGATTGAAGATAGCAAATCTTATCTCACTAAAGTTGCAATAGAGCAGA-TTAAAG
73054189 TTCAAGTTACA
128 TT--A--T-CA
* * *
73054200 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGCTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
* * * *
73054265 TAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCGGGTTAAAGTT
66 -AGTGGAGCAGATTGAAGATAGCAAATCTTATCTCACTAAAGTTGCAATAGAGCAGATTAAAGTT
73054330 ATCA
130 ATCA
** * *
73054334 AATCTTATCTCTCAAAAGTTGTAGTAGAGTAGATTGAAGTTACAAATCTTATCTCACTGAAGTTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
* * * * * *
73054399 CGATGGAGCAGATTGAAGATATCAAATCTTATCTCACTGAAGTTGCAATGGAGCAGATTGAAGAT
66 AG-TGGAGCAGATTGAAGATAGCAAATCTTATCTCACTAAAGTTGCAATAGAGCAGATTAAAGTT
73054464 ATCA
130 ATCA
*
73054468 AATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
* * * * ** * *
73054533 CAGTAGAGTAGATTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAATGGAAAAGATTGAAGAT
66 -AGTGGAGCAGATTGAAGATAGCAAATCTTATCTCACTAAAGTTGCAATAGAGCAGATTAAAGTT
* *
73054598 AACG
130 ATCA
* ** * ** * *
73054602 AATCTTAGT-TCCCCAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAACTCTTATCTCCA
1 AATCTTA-TCTCTCTGAAGTTGCAGTAGAGTAGATT---G----AAGTTACAAATCTTATCTCCC
* * * * * * *
73054666 TGAAGTTGTAGTGAAGCAGATTGAAGAT-GCGAATCTTATTTTC-CTGAAGTTGCAGTGGAGTAG
58 TGAAGTTG-AGTGGAGCAGATTGAAGATAGCAAATCTTA-TCTCACTAAAGTTGCAATAGAGCAG
* **
73054729 ATTGAAGCGA-CA
121 ATTAAAGTTATCA
*
73054741 AATCCTATAC-CTCTGAAGTTGCAGT
1 AATCTTAT-CTCTCTGAAGTTGCAGT
73054766 GGGTTAGAAT
Statistics
Matches: 473, Mismatches: 78, Indels: 30
0.81 0.13 0.05
Matches are distributed among these distances:
133 1 0.00
134 260 0.55
135 3 0.01
137 2 0.00
138 1 0.00
139 99 0.21
140 61 0.13
141 46 0.10
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (133 bp):
AATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
AGTGGAGCAGATTGAAGATAGCAAATCTTATCTCACTAAAGTTGCAATAGAGCAGATTAAAGTTA
TCA
Found at i:73054591 original size:89 final size:89
Alignment explanation
Indices: 73053923--73054765 Score: 521
Period size: 89 Copynumber: 9.3 Consensus size: 89
73053913 CATTATGGCG
* * * * ** * * *
73053923 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTGAAGCCACTAATCTTATCTTCCTGAAGTTC
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
* *
73053988 CGGTGGAGCAGATTGAAGCA-A-CA
66 CAGTAGAGCAGATTGAAG-ATAGCA
* * * * *
73054011 AATCCTATAC-CCCTGAAGTTGCAGT-G-GGATGGATTGAAATCATCATGGCGAATCTTATCTCC
1 AATCTTAT-CTCTCTGAAGTTGCAGTAGAGCA--GATTGAAGT--T-A---CAAATCTTATCTCC
* * *
73054073 CTGAAGTTGCAATGGAGCAGATTGAAGCTA--A
57 CTGAAGTTGCAGTAGAGCAGATTGAAGATAGCA
* * * * * * * * * * *
73054104 TAATCTTATTTC-CTTAAAGTTGTAGTGGAGCATATTGAAGATGCGAATCTTGTTTCCCTAAAGT
1 -AATCTTATCTCTC-TGAAGTTGCAGTAGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGT
* * * *
73054168 TGCAGTGGAACAAATTTAA-ATTTCAAGTTACA
64 TGCAGTAGAGCAGATTGAAGA--T--AG---CA
* *
73054200 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGCTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
* *
73054265 TAGTGGAGCAGATTGAAGATAGCA
66 CAGTAGAGCAGATTGAAGATAGCA
* * * * * **
73054289 AATCTTATCTCTCTAAAGTTGCAGTAGAGCGGGTTAAAGTTATCAAATCTTATCTCTCAAAAGTT
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGTTA-CAAATCTTATCTCCCTGAAGTT
* * *
73054354 GTAGTAGAGTAGATTGAAGTTA-CA
65 GCAGTAGAGCAGATTGAAGATAGCA
* * * *
73054378 AATCTTATCTCACTGAAGTTGC-GATGGAGCAGATTGAAGATATCAAATCTTATCTCACTGAAGT
1 AATCTTATCTCTCTGAAGTTGCAG-TAGAGCAGATTGAAGTTA-CAAATCTTATCTCCCTGAAGT
* * *
73054442 TGCAATGGAGCAGATTGAAGATATCA
64 TGCAGTAGAGCAGATTGAAGATAGCA
* *
73054468 AATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
*
73054533 CAGTAGAGTAGATTGAAGATAGCA
66 CAGTAGAGCAGATTGAAGATAGCA
* * * * ** * * **
73054557 AATCTTATCTCCCTAAAGTTGCAATGGAAAAGATTGAAGATAACGAATCTTAGT-TCCCCAAAGT
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAG-TTACAAATCTTA-TCTCCCTGAAGT
* * * *
73054621 TGCAGTGGAACAGATTAAAGCTACAAGTTACA
64 TGCAGTAGAGCAGATTGAAG--A-TAG---CA
* * * * * * *
73054653 ACTCTTATCTC-CATGAAGTTGTAGT-GAAGCAGATTGAAGATGCGAATCTTATTTTCCTGAAGT
1 AATCTTATCTCTC-TGAAGTTGCAGTAG-AGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGT
* * **
73054716 TGCAGTGGAGTAGATTGAAGCGA-CA
64 TGCAGTAGAGCAGATTGAAGATAGCA
*
73054741 AATCCTATAC-CTCTGAAGTTGCAGT
1 AATCTTAT-CTCTCTGAAGTTGCAGT
73054766 GGGTTAGAAT
Statistics
Matches: 594, Mismatches: 118, Indels: 86
0.74 0.15 0.11
Matches are distributed among these distances:
86 2 0.00
87 1 0.00
88 81 0.14
89 191 0.32
90 108 0.18
91 4 0.01
92 5 0.01
93 4 0.01
94 63 0.11
95 99 0.17
96 36 0.06
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (89 bp):
AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
CAGTAGAGCAGATTGAAGATAGCA
Found at i:73056374 original size:3 final size:3
Alignment explanation
Indices: 73056366--73056429 Score: 103
Period size: 3 Copynumber: 21.3 Consensus size: 3
73056356 TCTTTCTCAC
*
73056366 TAT TAT TAT TAT TAT TAT TAT T-T TAT CTAT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
73056411 TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
73056430 TATGTATTTC
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
2 2 0.04
3 52 0.91
4 3 0.05
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:73056615 original size:3 final size:3
Alignment explanation
Indices: 73056607--73056659 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
73056597 ATATTTTGTC
*
73056607 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTTT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
73056652 -TT ATT ATT
1 ATT ATT ATT
73056660 TTCCTTTGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 4 0.09
3 40 0.87
4 2 0.04
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:73061028 original size:7 final size:7
Alignment explanation
Indices: 73061016--73061043 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
73061006 CTCATGTCTA
73061016 TATAGAT
1 TATAGAT
73061023 TATAGAT
1 TATAGAT
73061030 TATAGAT
1 TATAGAT
73061037 TATAGAT
1 TATAGAT
73061044 AGATTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (7 bp):
TATAGAT
Found at i:73064364 original size:56 final size:50
Alignment explanation
Indices: 73064177--73064365 Score: 202
Period size: 50 Copynumber: 3.6 Consensus size: 50
73064167 GATAATAACA
* * **
73064177 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGT-TC-TCGTGATGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATC-T-A-GG
* * *
73064228 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTAGG
*
73064278 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-AGG
*
73064333 ATGCCAATGCCATATCCCAGACATGGTCTTACA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACA
73064366 TAGGATCTCT
Statistics
Matches: 117, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
50 42 0.36
51 34 0.29
52 3 0.03
53 5 0.04
54 1 0.01
55 2 0.02
56 30 0.26
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTAGG
Found at i:73064491 original size:13 final size:13
Alignment explanation
Indices: 73064470--73064501 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
73064460 GCTTGGATCA
*
73064470 TCATCAAATAAAT
1 TCATAAAATAAAT
73064483 TCATAAAATAAAT
1 TCATAAAATAAAT
73064496 TCATAA
1 TCATAA
73064502 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:73064747 original size:30 final size:30
Alignment explanation
Indices: 73064712--73064769 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
73064702 CCTCGACTCT
*
73064712 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
73064742 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
73064770 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:73071317 original size:33 final size:33
Alignment explanation
Indices: 73071275--73071343 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
73071265 TAAAAATTAG
*
73071275 ATTATTTATT-TTCTTTATTTGTACATATATTATT
1 ATTATTTATTATT-TTCATTTGTACATATATT-TT
**
73071309 ATTA-TTATTATTTTCATTTGTTTATATATTTT
1 ATTATTTATTATTTTCATTTGTACATATATTTT
73071341 ATT
1 ATT
73071344 TCAAATTACG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
32 5 0.16
33 20 0.65
34 6 0.19
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (33 bp):
ATTATTTATTATTTTCATTTGTACATATATTTT
Found at i:73072210 original size:35 final size:35
Alignment explanation
Indices: 73072164--73072443 Score: 218
Period size: 35 Copynumber: 7.5 Consensus size: 35
73072154 CGGTATATCC
*
73072164 GACTAGTGCTAGGCACAACTTTTGTCAGTTTGTCT
1 GACTAGTGCTGGGCACAACTTTTGTCAGTTTGTCT
* * ** *
73072199 GACTAGTGCTAGGCACACTCTCTATATTTGTCAGTTCATCC
1 GACTAGTGCTGGGCACA---AC--T-TTTGTCAGTTTGTCT
* *
73072240 AACTAGTGCTGGGCGCAACTTTTGTCAGTTTGTCT
1 GACTAGTGCTGGGCACAACTTTTGTCAGTTTGTCT
* ** *
73072275 GACTAGTGCTGGGCACACTCTCTATATTTGTCAGTTCATCC
1 GACTAGTGCTGGGCACA---AC--T-TTTGTCAGTTTGTCT
* *
73072316 AACTAGTGCTGGGCGCAACTTTTGTCAGTTTGTCT
1 GACTAGTGCTGGGCACAACTTTTGTCAGTTTGTCT
* ** *
73072351 GACTAGTGCTGGGCACACTCTCTATATTTGTCAGTTCATCC
1 GACTAGTGCTGGGCACA---AC--T-TTTGTCAGTTTGTCT
* *
73072392 AACTAGTGCTGGGCGCAACTTTTGTCAGTTTGTCT
1 GACTAGTGCTGGGCACAACTTTTGTCAGTTTGTCT
73072427 GACTAGTGCTGGGCACA
1 GACTAGTGCTGGGCACA
73072444 CTCTCTATAT
Statistics
Matches: 190, Mismatches: 37, Indels: 36
0.72 0.14 0.14
Matches are distributed among these distances:
35 98 0.52
36 3 0.02
38 6 0.03
40 3 0.02
41 80 0.42
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (35 bp):
GACTAGTGCTGGGCACAACTTTTGTCAGTTTGTCT
Found at i:73072245 original size:41 final size:41
Alignment explanation
Indices: 73072200--73072484 Score: 264
Period size: 41 Copynumber: 7.4 Consensus size: 41
73072190 AGTTTGTCTG
*
73072200 ACTAGTGCTAGGCACACTCTCTATATTTGTCAGTTCATCCA
1 ACTAGTGCTGGGCACACTCTCTATATTTGTCAGTTCATCCA
* * ** **
73072241 ACTAGTGCTGGGCGCA---AC--T-TTTGTCAGTTTGTCTG
1 ACTAGTGCTGGGCACACTCTCTATATTTGTCAGTTCATCCA
73072276 ACTAGTGCTGGGCACACTCTCTATATTTGTCAGTTCATCCA
1 ACTAGTGCTGGGCACACTCTCTATATTTGTCAGTTCATCCA
* * ** **
73072317 ACTAGTGCTGGGCGCA---AC--T-TTTGTCAGTTTGTCTG
1 ACTAGTGCTGGGCACACTCTCTATATTTGTCAGTTCATCCA
73072352 ACTAGTGCTGGGCACACTCTCTATATTTGTCAGTTCATCCA
1 ACTAGTGCTGGGCACACTCTCTATATTTGTCAGTTCATCCA
* * ** **
73072393 ACTAGTGCTGGGCGCA---AC--T-TTTGTCAGTTTGTCTG
1 ACTAGTGCTGGGCACACTCTCTATATTTGTCAGTTCATCCA
73072428 ACTAGTGCTGGGCACACTCTCTATATTTGTCAGTTCATCCA
1 ACTAGTGCTGGGCACACTCTCTATATTTGTCAGTTCATCCA
*
73072469 ACTAGCGCTGGGCACA
1 ACTAGTGCTGGGCACA
73072485 AAGTTTAGTT
Statistics
Matches: 188, Mismatches: 38, Indels: 36
0.72 0.15 0.14
Matches are distributed among these distances:
35 81 0.43
36 3 0.02
38 6 0.03
40 3 0.02
41 95 0.51
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.34
Consensus pattern (41 bp):
ACTAGTGCTGGGCACACTCTCTATATTTGTCAGTTCATCCA
Found at i:73072265 original size:76 final size:76
Alignment explanation
Indices: 73072160--73072481 Score: 599
Period size: 76 Copynumber: 4.2 Consensus size: 76
73072150 TCGTCGGTAT
* * * *
73072160 ATCCGACTAGTGCTAGGCACAACTTTTGTCAGTTTGTCTGACTAGTGCTAGGCACACTCTCTATA
1 ATCCAACTAGTGCTGGGCGCAACTTTTGTCAGTTTGTCTGACTAGTGCTGGGCACACTCTCTATA
73072225 TTTGTCAGTTC
66 TTTGTCAGTTC
73072236 ATCCAACTAGTGCTGGGCGCAACTTTTGTCAGTTTGTCTGACTAGTGCTGGGCACACTCTCTATA
1 ATCCAACTAGTGCTGGGCGCAACTTTTGTCAGTTTGTCTGACTAGTGCTGGGCACACTCTCTATA
73072301 TTTGTCAGTTC
66 TTTGTCAGTTC
73072312 ATCCAACTAGTGCTGGGCGCAACTTTTGTCAGTTTGTCTGACTAGTGCTGGGCACACTCTCTATA
1 ATCCAACTAGTGCTGGGCGCAACTTTTGTCAGTTTGTCTGACTAGTGCTGGGCACACTCTCTATA
73072377 TTTGTCAGTTC
66 TTTGTCAGTTC
73072388 ATCCAACTAGTGCTGGGCGCAACTTTTGTCAGTTTGTCTGACTAGTGCTGGGCACACTCTCTATA
1 ATCCAACTAGTGCTGGGCGCAACTTTTGTCAGTTTGTCTGACTAGTGCTGGGCACACTCTCTATA
73072453 TTTGTCAGTTC
66 TTTGTCAGTTC
*
73072464 ATCCAACTAGCGCTGGGC
1 ATCCAACTAGTGCTGGGC
73072482 ACAAAGTTTA
Statistics
Matches: 241, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 241 1.00
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.34
Consensus pattern (76 bp):
ATCCAACTAGTGCTGGGCGCAACTTTTGTCAGTTTGTCTGACTAGTGCTGGGCACACTCTCTATA
TTTGTCAGTTC
Found at i:73075090 original size:34 final size:34
Alignment explanation
Indices: 73075034--73075114 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
73075024 CCATCTCAGT
* * *
73075034 ACAGTATCAAATATGCAGTAGGGCTTTAGCCTATA
1 ACAGTATC-AGTATGCAGTAGGGATTTAGCCCATA
* *
73075069 ACAGTATCAGTATGCATTAGGGATTTAGCCCATT
1 ACAGTATCAGTATGCAGTAGGGATTTAGCCCATA
*
73075103 ACAGTATTAGTA
1 ACAGTATCAGTA
73075115 GCAATCATGC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
34 32 0.80
35 8 0.20
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (34 bp):
ACAGTATCAGTATGCAGTAGGGATTTAGCCCATA
Found at i:73078827 original size:25 final size:25
Alignment explanation
Indices: 73078777--73078827 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
73078767 CTATTAAAAA
* *
73078777 TTAGCTTTTTAAATTTATTGATTGT
1 TTAGATTTTTAAATTTATTGAATGT
*
73078802 TTAGATTTTTAAAATTT-TTTAATGT
1 TTAGATTTTT-AAATTTATTGAATGT
73078827 T
1 T
73078828 ATTATAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (25 bp):
TTAGATTTTTAAATTTATTGAATGT
Found at i:73085660 original size:13 final size:13
Alignment explanation
Indices: 73085642--73085689 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
73085632 TTTTCATTGT
73085642 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
* *
73085655 TTTTGAGAAGTAC
1 TTTTGAAAAGTGC
*
73085668 TTTTGAGAAGTG-
1 TTTTGAAAAGTGC
73085680 TTTTGGAAAA
1 TTTT-GAAAA
73085690 ATTTAAGTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 4 0.13
13 26 0.87
ACGTcount: A:0.31, C:0.04, G:0.25, T:0.40
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:73096092 original size:38 final size:38
Alignment explanation
Indices: 73096050--73096257 Score: 244
Period size: 38 Copynumber: 5.5 Consensus size: 38
73096040 GCAGGCTATA
* *
73096050 TGCTGGAATTATATCCGGGATAAATCCCGTAGGCTTCG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
** *
73096088 TGCTGGTAA-TATATTTGGGTTAAATCCTGCAGGCTTCG
1 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
* *
73096126 TGCTGGTATTATATCCGGGATAAA-CCTCGCAGG-TTCG
1 TGCTGGAATTATATCCGGGTTAAATCC-CGCAGGCTTCG
73096163 TGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * * *
73096201 TGCTGGTATTATATCCGGGTTAAATCCCGTAGGCCTAG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
* *
73096239 TGCTGGTATTATATTCGGG
1 TGCTGGAATTATATCCGGG
73096258 CCTTTAAGCC
Statistics
Matches: 146, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
37 34 0.23
38 110 0.75
39 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (38 bp):
TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:73096195 original size:75 final size:76
Alignment explanation
Indices: 73096050--73096257 Score: 294
Period size: 75 Copynumber: 2.8 Consensus size: 76
73096040 GCAGGCTATA
* * **
73096050 TGCTGGAATTATATCCGGGATAAATCCCGTAGGCTTCGTGCTGGTAATATATTTGGGTTAAATCC
1 TGCTGGTATTATATCCGGGATAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
*
73096115 TGCAGGCTTCG
66 CGCAGGCTTCG
73096126 TGCTGGTATTATATCCGGGATAAA-CCTCGCAGG-TTCGTGCTGGTAATATATCCGGGTTAAATC
1 TGCTGGTATTATATCCGGGATAAATCC-CGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATC
73096189 CCGCAGGCTTCG
65 CCGCAGGCTTCG
* * * * * *
73096201 TGCTGGTATTATATCCGGGTTAAATCCCGTAGGCCTAGTGCTGGTATTATATTCGGG
1 TGCTGGTATTATATCCGGGATAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGG
73096258 CCTTTAAGCC
Statistics
Matches: 118, Mismatches: 11, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
75 69 0.58
76 49 0.42
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (76 bp):
TGCTGGTATTATATCCGGGATAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
CGCAGGCTTCG
Found at i:73096248 original size:113 final size:113
Alignment explanation
Indices: 73096050--73096257 Score: 310
Period size: 113 Copynumber: 1.8 Consensus size: 113
73096040 GCAGGCTATA
* **
73096050 TGCTGGAATTATATCCGGGATAAATCCCGTAGGCTTCGTGCTGGTAATATATTTGGGTTAAATCC
1 TGCTGGAATTATATCCGGGATAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
* * *
73096115 TGCAGGCTTCGTGCTGGTATTATATCCGGGATAAACCTCGCAGGTTCG
66 CGCAGGCCTAGTGCTGGTATTATATCCGGGATAAACCTCGCAGGTTCG
* *
73096163 TGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATC
1 TGCTGG-AATTATATCCGGGATAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATC
* *
73096227 CCGTAGGCCTAGTGCTGGTATTATATTCGGG
65 CCGCAGGCCTAGTGCTGGTATTATATCCGGG
73096258 CCTTTAAGCC
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
113 82 0.98
114 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (113 bp):
TGCTGGAATTATATCCGGGATAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
CGCAGGCCTAGTGCTGGTATTATATCCGGGATAAACCTCGCAGGTTCG
Found at i:73102749 original size:47 final size:45
Alignment explanation
Indices: 73102642--73102900 Score: 163
Period size: 47 Copynumber: 5.6 Consensus size: 45
73102632 TTTTTGCGCC
* * * * * *
73102642 AGTGTAAGACATGTCTGGGACATGCTTCGTCCA-CATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCG-GCATCA-GACGAGGGCT
73102688 AGTGTAA-ATCCATGTCTGGGACATGGCATCGGCATCCAGACGAGGGCT
1 AGTGTAAGA--CATGTCTGGGACAT-GCATCGGCAT-CAGACGAGGGCT
* * * *
73102736 AGTGTAAGACATGTCTGGGACATGC-TCCAGCTAT-ATTATGAGTGCT
1 AGTGTAAGACATGTCTGGGACATGCAT-CGGC-ATCA-GACGAGGGCT
* * * * *
73102782 AGAGTAAAACATGTCTGGGACATGCATTGGCCTC-GACAGAGGTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCAGAC-GAGG--GCT
* * * * * *
73102829 AGTGTAAGACGTGTCTGGGACACGCAGCGGC-TAAGA-GTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCAGACG-AGGGCT
73102873 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
73102901 AGCGCGCATA
Statistics
Matches: 165, Mismatches: 32, Indels: 34
0.71 0.14 0.15
Matches are distributed among these distances:
44 28 0.17
45 8 0.05
46 46 0.28
47 62 0.38
48 18 0.11
49 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCAGACGAGGGCT
Found at i:73105248 original size:16 final size:16
Alignment explanation
Indices: 73105229--73105268 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
73105219 TTCGAGTGAG
*
73105229 ATTGAATTCGAATCGA
1 ATTGAATCCGAATCGA
*
73105245 ATTGAATCCGAATTGA
1 ATTGAATCCGAATCGA
73105261 ATTGAATC
1 ATTGAATC
73105269 AAATATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (16 bp):
ATTGAATCCGAATCGA
Found at i:73105625 original size:18 final size:19
Alignment explanation
Indices: 73105579--73105628 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
73105569 TGAGGTGATC
73105579 AATAATTCAATTAATAGAATA
1 AATAATTCAA-T-ATAGAATA
*
73105600 AA-AATTCAATAT-GATTA
1 AATAATTCAATATAGAATA
73105617 AATAATTCAATA
1 AATAATTCAATA
73105629 ATATAAATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 6 0.22
18 11 0.41
19 1 0.04
20 7 0.26
21 2 0.07
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (19 bp):
AATAATTCAATATAGAATA
Found at i:73111441 original size:11 final size:11
Alignment explanation
Indices: 73111425--73111449 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
73111415 ATTTTGTCTA
73111425 TTTTTGGCTCG
1 TTTTTGGCTCG
73111436 TTTTTGGCTCG
1 TTTTTGGCTCG
73111447 TTT
1 TTT
73111450 CTTGCTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.24, T:0.60
Consensus pattern (11 bp):
TTTTTGGCTCG
Found at i:73113264 original size:6 final size:6
Alignment explanation
Indices: 73113255--73113316 Score: 72
Period size: 6 Copynumber: 10.3 Consensus size: 6
73113245 ACATAAAAGG
* * *
73113255 AAAAAT AAAAAT -AAAAT AAAAGAT AAAAAT AAAGAT AAAGAT AAACAT
1 AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT
*
73113303 AAACAT AAAAAT AA
1 AAAAAT AAAAAT AA
73113317 TCGGACTCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
5 5 0.10
6 40 0.78
7 6 0.12
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:73113268 original size:18 final size:18
Alignment explanation
Indices: 73113247--73113305 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
73113237 CAAAATAGAC
73113247 ATAAAAGGAAAA-ATAAAA
1 ATAAAA-GAAAAGATAAAA
*
73113265 ATAAAATAAAAGATAAAA
1 ATAAAAGAAAAGATAAAA
*
73113283 AT-AAAGATAAAGATAAAC
1 ATAAAAGA-AAAGATAAAA
73113301 ATAAA
1 ATAAA
73113306 CATAAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 8 0.23
18 25 0.71
19 2 0.06
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (18 bp):
ATAAAAGAAAAGATAAAA
Found at i:73116226 original size:31 final size:31
Alignment explanation
Indices: 73116191--73116252 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
73116181 GGCAACACGA
*
73116191 GGGTCTACTTCATCTAACAGTACTTTGTCTC
1 GGGTCTACTTCATCTAACACTACTTTGTCTC
73116222 GGGTCTACTTCATCTAACACTACTTTGTCTC
1 GGGTCTACTTCATCTAACACTACTTTGTCTC
73116253 CAACCTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.39
Consensus pattern (31 bp):
GGGTCTACTTCATCTAACACTACTTTGTCTC
Found at i:73122835 original size:33 final size:34
Alignment explanation
Indices: 73122778--73122841 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
73122768 GAGCTTGTAC
*
73122778 CAAATCCATTTGATCCTCGATTTAATTACTTTTA
1 CAAAGCCATTTGATCCTCGATTTAATTACTTTTA
*
73122812 CAAAGCCATTTGAT-GTCGATTTAATTACTT
1 CAAAGCCATTTGATCCTCGATTTAATTACTT
73122842 GTAAGTGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 15 0.54
34 13 0.46
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (34 bp):
CAAAGCCATTTGATCCTCGATTTAATTACTTTTA
Found at i:73128895 original size:18 final size:18
Alignment explanation
Indices: 73128872--73128909 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
73128862 TCGTGAAATT
73128872 ATTCGTAACAACATGAGC
1 ATTCGTAACAACATGAGC
73128890 ATTCGTAACAACATGAGC
1 ATTCGTAACAACATGAGC
73128908 AT
1 AT
73128910 GGGTTTAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (18 bp):
ATTCGTAACAACATGAGC
Done.