Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 261 of 297
Found at i:89079581 original size:67 final size:66
Alignment explanation
Indices: 89079505--89079638 Score: 214
Period size: 67 Copynumber: 2.0 Consensus size: 66
89079495 TAGGTAATGT
* ** *
89079505 TAAAATAAAATAAAATAAAATATTGAAATTATTTTTCGTGATTCAAATTAAATGAAATATTTAAA
1 TAAAATAAAATAAAATAAAATATTAAAATTATTTTTCGTGATTCAAAAAAAATAAAATATTTAAA
89079570 A
66 A
*
89079571 TAAAATTAAAATAAAATAAAATGTTAAAATTATTTTTCGTGATTCAAAAAAAATAAAATATTTAA
1 TAAAA-TAAAATAAAATAAAATATTAAAATTATTTTTCGTGATTCAAAAAAAATAAAATATTTAA
89079636 AA
65 AA
89079638 T
1 T
89079639 GAAACTTTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
66 5 0.08
67 57 0.92
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (66 bp):
TAAAATAAAATAAAATAAAATATTAAAATTATTTTTCGTGATTCAAAAAAAATAAAATATTTAAA
A
Found at i:89082310 original size:93 final size:93
Alignment explanation
Indices: 89082201--89082373 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
89082191 CGCCCATAAG
* * *
89082201 CGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
89082266 ACGAGCTCAGATGCCTAGTTACATCTCT
66 ACGAGCTCAGATGCCTAGTTACATCTCT
* *
89082294 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
* *
89082359 ACGAGTTCGGATGCC
66 ACGAGCTCAGATGCC
89082374 CAAATATCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATCTCT
Found at i:89082369 original size:46 final size:46
Alignment explanation
Indices: 89082194--89082369 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
89082184 TGTAACCCGC
* * *
89082194 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
89082240 CCATAAGTGAACTCGAACTCAACTCAACGAGCTC--AGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
89082286 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
89082333 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
89082370 TGCCCAAATA
Statistics
Matches: 103, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 64 0.62
47 28 0.27
49 5 0.05
50 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:89084797 original size:30 final size:28
Alignment explanation
Indices: 89084755--89084840 Score: 95
Period size: 30 Copynumber: 3.0 Consensus size: 28
89084745 AAATAACAAG
89084755 AAAACCA-AATAAAGAAATCCAAGATAGA
1 AAAACCAGAATAAAGAAATCCAAGATA-A
89084783 AAAACCCAGAATAAAGAAATCC-AGAATAA
1 AAAA-CCAGAATAAAGAAATCCAAG-ATAA
* *
89084812 AAAGATCCAGGATAAAGAAACCCAAGATA
1 AAA-A-CCAGAATAAAGAAATCCAAGATA
89084841 TGATACTATG
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
28 4 0.08
29 9 0.18
30 35 0.70
31 2 0.04
ACGTcount: A:0.60, C:0.16, G:0.13, T:0.10
Consensus pattern (28 bp):
AAAACCAGAATAAAGAAATCCAAGATAA
Found at i:89084808 original size:15 final size:15
Alignment explanation
Indices: 89084752--89084831 Score: 78
Period size: 15 Copynumber: 5.4 Consensus size: 15
89084742 TAAAAATAAC
*
89084752 AAGAAAACCA-AATA
1 AAGAAATCCAGAATA
89084766 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
89084781 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
89084796 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
89084811 AA-AAGATCCAGGATA
1 AAGAA-ATCCAGAATA
89084826 AAGAAA
1 AAGAAA
89084832 CCCAAGATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
14 14 0.25
15 37 0.66
16 5 0.09
ACGTcount: A:0.62, C:0.14, G:0.14, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:89084840 original size:15 final size:15
Alignment explanation
Indices: 89084752--89084840 Score: 71
Period size: 15 Copynumber: 6.0 Consensus size: 15
89084742 TAAAAATAAC
*
89084752 AAGAAAACCAA-ATA
1 AAGAAATCCAAGATA
89084766 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
*
89084781 GAA-AAA-CCCAGAATA
1 -AAGAAATCCAAG-ATA
89084796 AAGAAATCC-AGAATA
1 AAGAAATCCAAG-ATA
*
89084811 AA-AAGATCCAGGATA
1 AAGAA-ATCCAAGATA
*
89084826 AAGAAACCCAAGATA
1 AAGAAATCCAAGATA
89084841 TGATACTATG
Statistics
Matches: 62, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
14 18 0.29
15 37 0.60
16 7 0.11
ACGTcount: A:0.61, C:0.16, G:0.13, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:89091967 original size:23 final size:23
Alignment explanation
Indices: 89091924--89091967 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
89091914 GCCCAAACTA
*
89091924 TAAACTCTAAAAATAATTAACCC
1 TAAACTCTAAAAATAAATAACCC
*
89091947 TAAA-TCTTAAAATAACATAAC
1 TAAACTCTAAAAATAA-ATAAC
89091968 ATTTTGTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (23 bp):
TAAACTCTAAAAATAAATAACCC
Found at i:89092158 original size:105 final size:104
Alignment explanation
Indices: 89091968--89092247 Score: 375
Period size: 105 Copynumber: 2.7 Consensus size: 104
89091958 ATAACATAAC
* * *
89091968 ATTTTGTGGTGTTTT-AGAACAAACGCCGTTAATTATGATATATTGCGGCGTTTTACATACAAAC
1 ATTTTGCGGCGTTTTAAG-ACAAACGCCGCTAATTATGATATATTGCGGCGTTTTACATA-AAAC
89092032 GCCACTAATGCCTCCACATAACGACGCCGTTTTCCTCAACA
64 GCCACTAATGCCTCCACATAACGACGCCGTTTTCCTCAACA
*
89092073 ATTTTGCGGCGTTTTAAGACAAACACCGCTAATTATGATATATTGCGGCGTTTTACATTAAAACG
1 ATTTTGCGGCGTTTTAAGACAAACGCCGCTAATTATGATATATTGCGGCGTTTTACA-TAAAACG
* **
89092138 CCACTAATGCC-CCTCTATAACGACGCCGTTTTGGTCAACA
65 CCACTAATGCCTCCAC-ATAACGACGCCGTTTTCCTCAACA
* * * ** * * *
89092178 ATTTAGCGGCGTTTTATGGCAAACGCCGCTAATGCTGAAATATTGCTGCGTTTTATATAAAACGC
1 ATTTTGCGGCGTTTTAAGACAAACGCCGCTAATTATGATATATTGCGGCGTTTTACATAAAACGC
89092243 CACTA
66 CACTA
89092248 GTGCATATAC
Statistics
Matches: 156, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
104 16 0.10
105 136 0.87
106 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (104 bp):
ATTTTGCGGCGTTTTAAGACAAACGCCGCTAATTATGATATATTGCGGCGTTTTACATAAAACGC
CACTAATGCCTCCACATAACGACGCCGTTTTCCTCAACA
Found at i:89098666 original size:27 final size:27
Alignment explanation
Indices: 89098636--89098986 Score: 429
Period size: 27 Copynumber: 13.0 Consensus size: 27
89098626 AAAGTACTCC
*
89098636 CGATTTATAGATTTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
89098663 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * *
89098690 CGATTTTTAAAATTATCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
89098717 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
89098744 C-AGTTTATAGAATTACCGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
*
89098771 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
89098798 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
* *
89098825 TGATTTATAGAATTATCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
89098852 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
89098879 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * * * *
89098906 TGATTTACAGAATTACTGGTTTACCGT
1 CGATTTATAGAATTACCGTTTTACCCT
* * * *
89098933 C-AGTTTACAAAATTATCGTTTTACTCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
**
89098960 CGATTTATAGAATTATTGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
89098987 ATAATGTAGA
Statistics
Matches: 277, Mismatches: 41, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.01
27 271 0.98
28 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (27 bp):
CGATTTATAGAATTACCGTTTTACCCT
Found at i:89099022 original size:27 final size:27
Alignment explanation
Indices: 89098992--89099244 Score: 317
Period size: 27 Copynumber: 9.4 Consensus size: 27
89098982 ACCCTATAAT
*
89098992 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
89099019 GTAGGATTTCCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
89099046 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
89099073 GTAGGATTTCCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
89099100 GTAGAATTACTGAAATACCCTTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
89099127 ATAGAATTACCAAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
89099154 GTAGAATTATCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
89099181 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
89099208 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
89099235 GTAAAATTAC
1 GTAGAATTAC
89099245 GATTTTGCCC
Statistics
Matches: 193, Mismatches: 33, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 193 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:89099050 original size:54 final size:54
Alignment explanation
Indices: 89098983--89099244 Score: 355
Period size: 54 Copynumber: 4.9 Consensus size: 54
89098973 TATTGTTTTA
** * * *
89098983 CCCTATAATGTAGAATTACTGAAATACCCCTGTAGGGTAGGATTTCCGAAATAC
1 CCCTATAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATAC
* * *
89099037 CCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGGATTTCCGAAATAC
1 CCCTATAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATAC
* * *
89099091 CCCTATAGGGTAGAATTACTGAAATACCCTTATAGGATAGAATTACCAAAATAC
1 CCCTATAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATAC
*
89099145 CCCTATAGGGTAGAATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATAC
1 CCCTATAGGGTAGAATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATAC
* * * * *
89099199 CCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTAC
1 CCCTATAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTAC
89099245 GATTTTGCCC
Statistics
Matches: 188, Mismatches: 18, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
53 1 0.01
54 187 0.99
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (54 bp):
CCCTATAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATAC
Found at i:89099505 original size:27 final size:26
Alignment explanation
Indices: 89099444--89099521 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 26
89099434 CGGAGGAAGC
* * *
89099444 GTTCTGGTGGCTATGCCATAAATATCT
1 GTTCTGGTGGCTCTGCCA-CAATATAT
89099471 GTTCTGGTGGCTCTGCCACAATATAT
1 GTTCTGGTGGCTCTGCCACAATATAT
* * *
89099497 GTATTTGGTGACTCTGTCACAATAT
1 GT-TCTGGTGGCTCTGCCACAATAT
89099522 CTATTGACCG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.18
27 36 0.82
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATAT
Found at i:89099646 original size:22 final size:22
Alignment explanation
Indices: 89099614--89099672 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
89099604 CCCGTTATTA
*
89099614 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
89099636 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
89099658 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
89099673 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:89099844 original size:27 final size:26
Alignment explanation
Indices: 89099812--89099885 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
89099802 TATGGCTTTG
*
89099812 TGCCACAGTATCTGATTCTGGTGGCTC
1 TGCCACAGTATCTG-TTCTGGTGACTC
*
89099839 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAGTATCTGT-TCTGGTGACTC
*
89099866 TGTCAC-GATATCTGTTCTGG
1 TGCCACAG-TATCTGTTCTGG
89099886 CAGCCATGCT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 6 0.15
27 35 0.85
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
TGCCACAGTATCTGTTCTGGTGACTC
Found at i:89100012 original size:6 final size:6
Alignment explanation
Indices: 89100003--89100195 Score: 116
Period size: 6 Copynumber: 31.8 Consensus size: 6
89099993 TTGCATTCAC
* * *
89100003 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
89100052 ATTCTG -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTTTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
* * * *
89100100 ATTCTG ATTCTG -TCACCTA ATTCTT ATTTTG ATTCTG ATTCTG -TTAC-G
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
* *
89100148 AACATT-T- ATTCTG ATTATG ATTCTG -TTACTG ATTCTG ATTCTA ATTCT
1 ---ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
89100196 CATTTTGGTT
Statistics
Matches: 145, Mismatches: 22, Indels: 40
0.70 0.11 0.19
Matches are distributed among these distances:
4 3 0.02
5 12 0.08
6 117 0.81
7 9 0.06
8 2 0.01
9 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:89100073 original size:30 final size:30
Alignment explanation
Indices: 89100037--89100195 Score: 141
Period size: 30 Copynumber: 5.5 Consensus size: 30
89100027 AATTCTGATT
*
89100037 CTGATTCTAATTCTGATTCTGTTACTAATA
1 CTGATTCTGATTCTGATTCTGTTACTAATA
89100067 CTGATTCTGATTCTGATTCTG----T--TA
1 CTGATTCTGATTCTGATTCTGTTACTAATA
* * *
89100091 CTGATTTTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGATTCTGTTA-CTAATA
* * * *
89100122 CTTATTTTGATTCTGATTCTGTTACGAACA
1 CTGATTCTGATTCTGATTCTGTTACTAATA
* * * * *
89100152 TTTATTCTGATTATGATTCTGTTACTGATT
1 CTGATTCTGATTCTGATTCTGTTACTAATA
*
89100182 CTGATTCTAATTCT
1 CTGATTCTGATTCT
89100196 CATTTTGGTT
Statistics
Matches: 103, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
24 22 0.21
26 1 0.01
29 1 0.01
30 56 0.54
31 23 0.22
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (30 bp):
CTGATTCTGATTCTGATTCTGTTACTAATA
Found at i:89100162 original size:91 final size:91
Alignment explanation
Indices: 89100007--89100195 Score: 221
Period size: 91 Copynumber: 2.1 Consensus size: 91
89099997 ATTCACATTC
* *
89100007 TGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTAATTCTGATTCTGTTACTAATACTGAT
1 TGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTCTGATTCTGTAACTAATACTGAT
*
89100072 TCTGATTCTGATTCTGTTACTGATTT
66 TATGATTCTGATTCTGTTACTGATTT
* * * *
89100098 TGATTCTGATTCTGTCACCTAATTCTTATTTTGATTCTGATTCTG-TTAC-G-AAC--AT--TTA
1 TGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTCTGATT-CTGTAACTAATACTGA
* * *
89100156 TTCTGATTATGATTCTGTTACTGATTC
65 TTATGATTCTGATTCTGTTACTGATTT
*
89100183 TGATTCTAATTCT
1 TGATTCTGATTCT
89100196 CATTTTGGTT
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
85 39 0.44
87 2 0.02
89 2 0.02
90 3 0.03
91 42 0.48
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.49
Consensus pattern (91 bp):
TGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATTCTGATTCTGTAACTAATACTGAT
TATGATTCTGATTCTGTTACTGATTT
Found at i:89102243 original size:27 final size:27
Alignment explanation
Indices: 89102213--89102400 Score: 188
Period size: 27 Copynumber: 7.0 Consensus size: 27
89102203 AAAGTACTCC
*
89102213 CGATTTAAAGAATTACCGTTTTACCTT
1 CGATTTAAAGAATTACCGTTTTACCCT
* *
89102240 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTAAAGAATTACCGTTTTACCCT
* *
89102267 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTAAAGAATTACCGTTTTACCCT
* *
89102294 C-ATTTTGTAA-AATTACCGTTTTACCAT
1 CGA-TTT-AAAGAATTACCGTTTTACCCT
* * *
89102321 TGATTTACAA-AATTACTGGTTTACCCT
1 CGATTTA-AAGAATTACCGTTTTACCCT
*
89102348 C-AGTTTACAA-AATTATCGTTTTACCCT
1 CGA-TTTA-AAGAATTACCGTTTTACCCT
*
89102375 CGATTTACAGAATTACCGTTTTACCC
1 CGATTTAAAGAATTACCGTTTTACCC
89102401 CTGTAATGTA
Statistics
Matches: 134, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
26 3 0.02
27 128 0.96
28 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTAAAGAATTACCGTTTTACCCT
Found at i:89102271 original size:54 final size:54
Alignment explanation
Indices: 89102213--89102400 Score: 218
Period size: 54 Copynumber: 3.5 Consensus size: 54
89102203 AAAGTACTCC
* * *
89102213 CGATTTAAAGAATTACCGTTTTACCTTC-GATTTATAGAATTACCATTTTACCCT
1 CGATTTAAAGAATTACCGTTTTACCCTCAG-TTTATAAAATTACCGTTTTACCCT
* * * * *
89102267 CGATTTATAGAATTACTGTTTTACCCTCATTTTGTAAAATTACCGTTTTACCAT
1 CGATTTAAAGAATTACCGTTTTACCCTCAGTTTATAAAATTACCGTTTTACCCT
* * * * *
89102321 TGATTTACAA-AATTACTGGTTTACCCTCAGTTTACAAAATTATCGTTTTACCCT
1 CGATTTA-AAGAATTACCGTTTTACCCTCAGTTTATAAAATTACCGTTTTACCCT
*
89102375 CGATTTACAGAATTACCGTTTTACCC
1 CGATTTAAAGAATTACCGTTTTACCC
89102401 CTGTAATGTA
Statistics
Matches: 111, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 109 0.98
55 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.41
Consensus pattern (54 bp):
CGATTTAAAGAATTACCGTTTTACCCTCAGTTTATAAAATTACCGTTTTACCCT
Found at i:89102426 original size:27 final size:27
Alignment explanation
Indices: 89102396--89102660 Score: 323
Period size: 27 Copynumber: 9.8 Consensus size: 27
89102386 ATTACCGTTT
** *
89102396 TACCCCTGTAATGTAGAATTACTGAAA
1 TACCCCTGTAGGGTAGAATTACCGAAA
* *
89102423 TACCCCTGTAGGGTAGGATTTCCGAAA
1 TACCCCTGTAGGGTAGAATTACCGAAA
* *
89102450 TACCCCTATAGGGTAGAATTACTGAAA
1 TACCCCTGTAGGGTAGAATTACCGAAA
* *
89102477 TACCCCTGTAGGGTAGGATTTCCGAAA
1 TACCCCTGTAGGGTAGAATTACCGAAA
* *
89102504 TACCCCTATAGGGTAGAATTACTGAAA
1 TACCCCTGTAGGGTAGAATTACCGAAA
* * * *
89102531 TACCCTTATAGGATAGAATTACCAAAA
1 TACCCCTGTAGGGTAGAATTACCGAAA
* *
89102558 TACCCCTATAGGGTAGAATTATCGAAA
1 TACCCCTGTAGGGTAGAATTACCGAAA
* *
89102585 TACCCTTGTAGGGTAGAAATACCGAAA
1 TACCCCTGTAGGGTAGAATTACCGAAA
*
89102612 TACCCCTGTAGGGTAGAATTACCGAGA
1 TACCCCTGTAGGGTAGAATTACCGAAA
* * *
89102639 TACCCTTGTGGGGTAAAATTAC
1 TACCCCTGTAGGGTAGAATTAC
89102661 GATTTTGCCC
Statistics
Matches: 203, Mismatches: 35, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 203 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
TACCCCTGTAGGGTAGAATTACCGAAA
Found at i:89102898 original size:27 final size:26
Alignment explanation
Indices: 89102860--89102942 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
89102850 CGGAGGAAGC
*
89102860 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
89102887 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
89102913 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
89102940 GTT
1 GTT
89102943 AACCAATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:89103275 original size:27 final size:27
Alignment explanation
Indices: 89103245--89103326 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
89103235 TATTCTGTTA
* *
89103245 GGTGGGTTTGCCACATTATCTG-ATTCT
1 GGTGGCTTTGCCACAATATCTGTA-TCT
89103272 GGTGGCTTTGCCACAATATCTGTATCT
1 GGTGGCTTTGCCACAATATCTGTATCT
* * *
89103299 GGTGGCTCTGTCACGATATCTGT-TCT
1 GGTGGCTTTGCCACAATATCTGTATCT
89103325 GG
1 GG
89103327 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.10
27 43 0.88
28 1 0.02
ACGTcount: A:0.15, C:0.21, G:0.27, T:0.38
Consensus pattern (27 bp):
GGTGGCTTTGCCACAATATCTGTATCT
Found at i:89103453 original size:6 final size:6
Alignment explanation
Indices: 89103444--89103630 Score: 147
Period size: 6 Copynumber: 30.8 Consensus size: 6
89103434 TTGCATTCAC
* *
89103444 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
89103493 -TTACTA ATACTG ATTCTG GTTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * *
89103541 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTAC-G A-ACATTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTC--TG
*
89103590 ATTCTG ATTTTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
89103631 CATTTTGGTT
Statistics
Matches: 145, Mismatches: 18, Indels: 36
0.73 0.09 0.18
Matches are distributed among these distances:
4 1 0.01
5 11 0.08
6 119 0.82
7 11 0.08
8 3 0.02
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:89103563 original size:25 final size:24
Alignment explanation
Indices: 89103505--89103571 Score: 98
Period size: 25 Copynumber: 2.8 Consensus size: 24
89103495 ACTAATACTG
* * *
89103505 ATTCTGGTTCTGATTCTGTTACTG
1 ATTCTGATTCTGATTCTGTCACTA
89103529 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCA-CTA
89103554 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
89103572 ATTCTGTTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
24 19 0.49
25 20 0.51
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (24 bp):
ATTCTGATTCTGATTCTGTCACTA
Found at i:89103592 original size:85 final size:85
Alignment explanation
Indices: 89103444--89103630 Score: 320
Period size: 85 Copynumber: 2.2 Consensus size: 85
89103434 TTGCATTCAC
* * *
89103444 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACGAACACTGATTC
*
89103509 TGGTTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
*
89103529 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACGAACATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACGAACACTGATTC
*
89103594 TGATTTTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
89103614 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
89103631 CATTTTGGTT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 96 1.00
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.48
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACGAACACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:89104571 original size:27 final size:27
Alignment explanation
Indices: 89104533--89104594 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
89104523 ATATGGAATG
89104533 GCCTTTGTGGCAAACCATGAAAAGAAA
1 GCCTTTGTGGCAAACCATGAAAAGAAA
* *
89104560 GCCTTTGTGGCAAATCATGAAATGAAA
1 GCCTTTGTGGCAAACCATGAAAAGAAA
*
89104587 GCATTTGT
1 GCCTTTGT
89104595 AGCGATCTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (27 bp):
GCCTTTGTGGCAAACCATGAAAAGAAA
Found at i:89106104 original size:13 final size:13
Alignment explanation
Indices: 89106088--89106112 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89106078 GGCCAACAGA
89106088 CATGGCCGTGTGC
1 CATGGCCGTGTGC
89106101 CATGGCCGTGTG
1 CATGGCCGTGTG
89106113 ATACTTGGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.28, G:0.40, T:0.24
Consensus pattern (13 bp):
CATGGCCGTGTGC
Found at i:89116625 original size:42 final size:43
Alignment explanation
Indices: 89116546--89116647 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
89116536 TCCTAGATGT
* * * *
89116546 GGTCTTACATGTAATTCAGTATCGATGCCTCTATCCCAGATAG
1 GGTCTTACACGTAAATCAGTATCGATGCCTATATCCCAGACAG
* *
89116589 GGTCTTACACG-AAATCAG-ATACGATGCCTATGTCCCAGACAT
1 GGTCTTACACGTAAATCAGTAT-CGATGCCTATATCCCAGACAG
*
89116631 GGTCTTACATGTAAATC
1 GGTCTTACACGTAAATC
89116648 TCAAATCGAG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.04
42 33 0.66
43 15 0.30
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAGTATCGATGCCTATATCCCAGACAG
Found at i:89122649 original size:54 final size:54
Alignment explanation
Indices: 89122561--89122676 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 54
89122551 TGTGGTAAGG
* *
89122561 GGGTTCGCCAATTGGTTTTGTAGAATGGCATTCGCCAGTTGATTTGGAGAACCA
1 GGGTTCACCAATTGGTTTGGTAGAATGGCATTCGCCAGTTGATTTGGAGAACCA
* * ** * ** *
89122615 GGGTTCACCAATTGGTTTGGTGGACTGGGGTTCGCCAGTTGGTTTGGCTAACTA
1 GGGTTCACCAATTGGTTTGGTAGAATGGCATTCGCCAGTTGATTTGGAGAACCA
89122669 GGGTTCAC
1 GGGTTCAC
89122677 TAGTTAAAGT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.18, C:0.17, G:0.33, T:0.32
Consensus pattern (54 bp):
GGGTTCACCAATTGGTTTGGTAGAATGGCATTCGCCAGTTGATTTGGAGAACCA
Found at i:89122681 original size:27 final size:27
Alignment explanation
Indices: 89122595--89122681 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
89122585 ATGGCATTCG
* * *
89122595 CCAGTTGATTTGGAGAACCAGGGTTCA
1 CCAGTTGGTTTGGTGAACTAGGGTTCA
* * * *
89122622 CCAATTGGTTTGGTGGACTGGGGTTCG
1 CCAGTTGGTTTGGTGAACTAGGGTTCA
89122649 CCAGTTGGTTTGGCT-AACTAGGGTTCA
1 CCAGTTGGTTTGG-TGAACTAGGGTTCA
*
89122676 CTAGTT
1 CCAGTT
89122682 AAAGTTGAGT
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
27 46 0.98
28 1 0.02
ACGTcount: A:0.18, C:0.17, G:0.32, T:0.32
Consensus pattern (27 bp):
CCAGTTGGTTTGGTGAACTAGGGTTCA
Found at i:89130253 original size:10 final size:10
Alignment explanation
Indices: 89130238--89130284 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
89130228 GAACTTGTTG
89130238 AATTTTAATT
1 AATTTTAATT
*
89130248 AATTTTATATCA
1 AATTTTA-AT-T
89130260 AATTTTAATT
1 AATTTTAATT
*
89130270 AATTTTTATT
1 AATTTTAATT
89130280 -ATTTT
1 AATTTT
89130285 CGACAGATTG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 5 0.16
10 16 0.50
11 4 0.12
12 7 0.22
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
AATTTTAATT
Found at i:89139438 original size:23 final size:23
Alignment explanation
Indices: 89139387--89139439 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
89139377 AAGCCCATGG
* *
89139387 CCATGTCACCATATCATATAAGG
1 CCATGGCACCATATCATATAAGA
* *
89139410 CCATGGCACCATATCCTTTAAGA
1 CCATGGCACCATATCATATAAGA
*
89139433 CTATGGC
1 CCATGGC
89139440 TGGCGGGTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (23 bp):
CCATGGCACCATATCATATAAGA
Found at i:89139660 original size:53 final size:54
Alignment explanation
Indices: 89139602--89139719 Score: 150
Period size: 53 Copynumber: 2.2 Consensus size: 54
89139592 TAACGTATCT
* * * *
89139602 GAAATGGAAGTCA-TTGTGGTGATCTATGAAATGGAAGCCTTTGTGGAGATCTAA
1 GAAATGGAAG-CATTTGTGGTGATCTAAGAAATAGAAGCCCTTGTGGAGAACTAA
* *
89139656 -AAATGGAAGCATTTGTGGTGATTTAAGAAATAGAAGCCCTTGTGGCGAACTAA
1 GAAATGGAAGCATTTGTGGTGATCTAAGAAATAGAAGCCCTTGTGGAGAACTAA
*
89139709 GAGATGGAAGC
1 GAAATGGAAGC
89139720 CTTCGTGGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
52 2 0.04
53 44 0.80
54 9 0.16
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.26
Consensus pattern (54 bp):
GAAATGGAAGCATTTGTGGTGATCTAAGAAATAGAAGCCCTTGTGGAGAACTAA
Found at i:89139727 original size:27 final size:27
Alignment explanation
Indices: 89139602--89139728 Score: 130
Period size: 27 Copynumber: 4.7 Consensus size: 27
89139592 TAACGTATCT
* * * *
89139602 GAAATGGAAGTCATTGTGGTGATCTAT
1 GAAATGGAAGCCTTTGTGGAGATCTAA
89139629 GAAATGGAAGCCTTTGTGGAGATCTAA
1 GAAATGGAAGCCTTTGTGGAGATCTAA
* * *
89139656 -AAATGGAAGCATTTGTGGTGATTTAA
1 GAAATGGAAGCCTTTGTGGAGATCTAA
* * * *
89139682 GAAATAGAAGCCCTTGTGGCGAACTAA
1 GAAATGGAAGCCTTTGTGGAGATCTAA
* *
89139709 GAGATGGAAGCCTTCGTGGA
1 GAAATGGAAGCCTTTGTGGA
89139729 AAATCTAGTA
Statistics
Matches: 81, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
26 23 0.28
27 58 0.72
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (27 bp):
GAAATGGAAGCCTTTGTGGAGATCTAA
Found at i:89143941 original size:37 final size:37
Alignment explanation
Indices: 89143887--89143958 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
89143877 TATCCTGATC
*
89143887 TGGCGTGTTATTAGGTGGATTAGCTCTTATGAGCATG
1 TGGCGTGTTATCAGGTGGATTAGCTCTTATGAGCATG
*
89143924 TGGCGTGTTATCGGGTGGATTAGCTCTTATGAGCA
1 TGGCGTGTTATCAGGTGGATTAGCTCTTATGAGCA
89143959 ACTGGCATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.18, C:0.12, G:0.33, T:0.36
Consensus pattern (37 bp):
TGGCGTGTTATCAGGTGGATTAGCTCTTATGAGCATG
Found at i:89146335 original size:20 final size:20
Alignment explanation
Indices: 89146310--89146351 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
89146300 TTGAAATAAA
89146310 TGCAAAACTTGAAGAATTGT
1 TGCAAAACTTGAAGAATTGT
89146330 TGCAAAACTTGAAGAATTGT
1 TGCAAAACTTGAAGAATTGT
89146350 TG
1 TG
89146352 TATAGATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (20 bp):
TGCAAAACTTGAAGAATTGT
Found at i:89149656 original size:24 final size:24
Alignment explanation
Indices: 89149606--89149659 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
89149596 AATCGAATTT
*
89149606 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
89149630 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
89149654 GCACAC
1 GCACAC
89149660 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:89153147 original size:6 final size:6
Alignment explanation
Indices: 89153136--89153196 Score: 63
Period size: 6 Copynumber: 10.0 Consensus size: 6
89153126 TCAGAACTAT
*
89153136 AATCAG AATCAG AATCAG AATCA- ATATCAGG TAA-CAG AATCAA AATCAG
1 AATCAG AATCAG AATCAG AATCAG A-ATCA-G -AATCAG AATCAG AATCAG
*
89153185 AATCAG TATCAG
1 AATCAG AATCAG
89153197 GTAACATAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
5 3 0.06
6 40 0.85
7 2 0.04
8 1 0.02
9 1 0.02
ACGTcount: A:0.49, C:0.16, G:0.15, T:0.20
Consensus pattern (6 bp):
AATCAG
Found at i:89153177 original size:31 final size:31
Alignment explanation
Indices: 89153139--89153220 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
89153129 GAACTATAAT
*
89153139 CAGAATCAGAATCAGAATCAATATCAGGTAA
1 CAGAATCAAAATCAGAATCAATATCAGGTAA
*
89153170 CAGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAATATCAGGTAA
* *
89153201 CATAATAAAAAAATCAGAAT
1 CAGAAT--CAAAATCAGAAT
89153221 GTGAATGCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 34 0.76
33 11 0.24
ACGTcount: A:0.52, C:0.15, G:0.13, T:0.20
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAATATCAGGTAA
Found at i:89153387 original size:27 final size:26
Alignment explanation
Indices: 89153357--89153458 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
89153347 GCTCAGTTAT
* *
89153357 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
89153384 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
89153410 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
89153438 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
89153459 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:89153645 original size:22 final size:21
Alignment explanation
Indices: 89153617--89153680 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 21
89153607 GCAAATACGT
89153617 TTGGCACACAACCATAATCAAG
1 TTGGCACA-AACCATAATCAAG
* * *
89153639 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACA-AACCATAAT-CAAG
89153661 TTGGCACAAAGCCATAATCA
1 TTGGCACAAA-CCATAATCA
89153681 GAAGGCTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 28 0.85
23 2 0.06
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAAG
Found at i:89154166 original size:27 final size:27
Alignment explanation
Indices: 89154108--89154517 Score: 581
Period size: 27 Copynumber: 15.3 Consensus size: 27
89154098 GAGGCAAAAT
* * * *
89154108 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
89154134 GATAATTCCACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
89154161 AGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
89154188 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
89154215 AGTAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
89154242 GGTAATTCTACCCTACAGGGGTATTGA
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
89154269 GATAATTCTACCCTACAGGGGCATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
89154296 GGTAATTCTACCCTACAGGGGCATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
89154323 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
89154350 GGTAATTCTACCTTACAGGGGCATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
89154377 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
89154404 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
89154431 -GAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
89154457 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* **
89154484 AGTAATTCTACCCTACAAAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
89154511 GGTAATT
1 GGTAATT
89154518 TCACAAATCA
Statistics
Matches: 343, Mismatches: 39, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
26 38 0.11
27 305 0.89
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:89154533 original size:27 final size:27
Alignment explanation
Indices: 89154338--89154869 Score: 189
Period size: 27 Copynumber: 19.7 Consensus size: 27
89154328 TTCTACCCTA
* **
89154338 CAGGGGTATTTCGGTAATTCTAC-CTT
1 CAGGGGTATTTCGGTAATTTTACAAAT
* * * **
89154364 ACAGGGGCATTCCGGTAATTCTAC-CCT
1 -CAGGGGTATTTCGGTAATTTTACAAAT
* **
89154391 ACAGGGGTATTTCGGTAATTCTAC-CCT
1 -CAGGGGTATTTCGGTAATTTTACAAAT
* * **
89154418 ACAGGGGTATTTC-GAAATTCTAC-CCT
1 -CAGGGGTATTTCGGTAATTTTACAAAT
* **
89154444 ACAGGGGTATTTCGGTAATTCTAC-CCT
1 -CAGGGGTATTTCGGTAATTTTACAAAT
* * **
89154471 ACAGGGGTATTTCAGTAATTCTAC-CCT
1 -CAGGGGTATTTCGGTAATTTTACAAAT
** *
89154498 ACAAAGGTATTTCGGTAATTTCACAAAT
1 -CAGGGGTATTTCGGTAATTTTACAAAT
* *
89154526 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTCGGTAATTTTACAAAT
* ***
89154553 CAGGGGTATTTTGGTAATTTTATTGAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
**
89154580 C-GAGGGTATTTCGGTAATTTTGTAAA-
1 CAG-GGGTATTTCGGTAATTTTACAAAT
* *** **
89154606 CTAAGGGTATTTTAATAATTTTGTAAAT
1 C-AGGGGTATTTCGGTAATTTTACAAAT
* ** * **
89154634 C-GAAGGTAAAAT-GGTAATTCTATCTTA-
1 CAG-GGGT-ATTTCGGTAATTTTA-CAAAT
* * *
89154661 CATGAGTATTTCAGTAATTTTACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
* ** *
89154688 C-GAAGGTATTTTAGTAATTTTGCAAA-
1 CAG-GGGTATTTCGGTAATTTTACAAAT
* * * *
89154714 CTGAAGGTATTTAGGTAATTTTTCAAAT
1 CAG-GGGTATTTCGGTAATTTTACAAAT
* * *
89154742 C-GAGGATATTTAGGTAATTTTATAAAT
1 CAG-GGGTATTTCGGTAATTTTACAAAT
* *
89154769 CGGGGGTATTTTGGTAATTTTACAAA-
1 CAGGGGTATTTCGGTAATTTTACAAAT
* * *
89154795 CTAGGGGTATTTTGGTAATTTTATAAAC
1 C-AGGGGTATTTCGGTAATTTTACAAAT
* **
89154823 CAAGGGTATTTTAGTAATTTTACAAA-
1 CAGGGGTATTTCGGTAATTTTACAAAT
*
89154849 CTAGGGGTATTTTGGTAATTT
1 C-AGGGGTATTTCGGTAATTT
89154870 GGTAAACTAA
Statistics
Matches: 412, Mismatches: 74, Indels: 38
0.79 0.14 0.07
Matches are distributed among these distances:
26 34 0.08
27 370 0.90
28 8 0.02
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.38
Consensus pattern (27 bp):
CAGGGGTATTTCGGTAATTTTACAAAT
Found at i:89154561 original size:54 final size:54
Alignment explanation
Indices: 89154503--89154869 Score: 276
Period size: 54 Copynumber: 6.8 Consensus size: 54
89154493 ACCCTACAAA
* *
89154503 GGTATTTCGGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTACAAACCAGG
*** * ** * *
89154557 GGTATTTTGGTAATTTTATTGATCGAGGGTATTTCGGTAATTTTGTAAACTAAG
1 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCAGG
** ** * *** * ** *
89154611 GGTATTTTAATAATTTTGTAAATCGAAGGTAAAATGGTAATTCTATCTTA-CATG
1 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTA-CAAACCAGG
* ** * * * * *
89154665 AGTATTTCAGTAATTTTACAAATCGAAGGTATTTTAGTAATTTTGCAAA-CTGAA
1 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCAG-G
* * * * * * *
89154719 GGTATTTAGGTAATTTTTCAAATCGAGGATATTTAGGTAATTTTATAAATCGGG
1 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCAGG
* * *
89154773 GGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTACAAACCAGG
* *
89154827 GGTATTTTAGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTT
1 GGTATTTTGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTT
89154870 GGTAAACTAA
Statistics
Matches: 244, Mismatches: 64, Indels: 10
0.77 0.20 0.03
Matches are distributed among these distances:
53 5 0.02
54 235 0.96
55 4 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCAGG
Found at i:89154570 original size:81 final size:80
Alignment explanation
Indices: 89154148--89154869 Score: 318
Period size: 81 Copynumber: 8.9 Consensus size: 80
89154138 ATTCCACCCT
** * * * * **
89154148 ACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTGCGATAATTCTAC-CCTACAGGGGTAT
1 ACAGGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTACAAAT-CAGGGGTAT
** * **
89154212 TTCAGTAATTCTACCCT
65 TTTGGTAATTTTA-CAA
* * * ** * * ** *
89154229 ACATGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGAGATAATTCTAC-CCTACAGGGGCAT
1 ACAGGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTACAAAT-CAGGGGTAT
** * **
89154293 TCCGGTAATTCTACCCT
65 TTTGGTAATTTTA-CAA
* ** * * ** *
89154310 ACAGGGGCATTCCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC-CTTACAGGGGCAT
1 ACAGGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTACAAAT-CAGGGGTAT
** * **
89154374 TCCGGTAATTCTACCCT
65 TTTGGTAATTTTA-CAA
* * * * **
89154391 ACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC-GAAATTCTAC-CCTACAGGGGTAT
1 ACAGGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTACAAAT-CAGGGGTAT
* * **
89154454 TTCGGTAATTCTACCCT
65 TTTGGTAATTTTA-CAA
** * *
89154471 ACAGGGGTATTTCAGTAATTCTACCCTACAAAGGTATTTCGGTAATTTCACAAATCAGGGGTATT
1 ACAGGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTACAAATCAGGGGTATT
89154536 TTGGTAATTTTACAA
66 TTGGTAATTTTACAA
* * * ** *
89154551 ACCAGGGGTATTTTGGTAATTTTA--TTGATCGAGGGTATTTCGGTAATTTTGTAAA-CTAAGGG
1 A-CAGGGGTATTTTGGTAATTCTACCCT-A-CAAGGGTATTTCGGTAATTTTACAAATC-AGGGG
** **
89154613 TATTTTAATAATTTTGTAA
62 TATTTTGGTAATTTTACAA
* *** * * * * * *
89154632 ATC-GAAGGTAAAATGGTAATTCTATCTTACATGAGTATTTCAGTAATTTTACAAATC-GAAGGT
1 A-CAG-GGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTACAAATCAG-GGGT
* *
89154695 ATTTTAGTAATTTTGCAA
63 ATTTTGGTAATTTTACAA
* * * ** ** * * * * *
89154713 ACTGAAGGTATTTAGGTAATT-TTTCAAATCGAGGATATTTAGGTAATTTTATAAATCGGGGGTA
1 ACAG-GGGTATTTTGGTAATTCTACCCTA-CAAGGGTATTTCGGTAATTTTACAAATCAGGGGTA
89154777 TTTTGGTAATTTTACAA
64 TTTTGGTAATTTTACAA
* *** **
89154794 ACTAGGGGTATTTTGGTAATTTTA-TAAACCAAGGGTATTTTAGTAATTTTACAAA-CTAGGGGT
1 AC-AGGGGTATTTTGGTAATTCTACCCTA-CAAGGGTATTTCGGTAATTTTACAAATC-AGGGGT
89154857 ATTTTGGTAATTT
63 ATTTTGGTAATTT
89154870 GGTAAACTAA
Statistics
Matches: 534, Mismatches: 90, Indels: 34
0.81 0.14 0.05
Matches are distributed among these distances:
79 1 0.00
80 84 0.16
81 441 0.83
82 6 0.01
83 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.36
Consensus pattern (80 bp):
ACAGGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTACAAATCAGGGGTATT
TTGGTAATTTTACAA
Found at i:89154878 original size:27 final size:27
Alignment explanation
Indices: 89154503--89154869 Score: 219
Period size: 27 Copynumber: 13.6 Consensus size: 27
89154493 ACCCTACAAA
* *
89154503 GGTATTTCGGTAATTTCACAAA-TCAGG
1 GGTATTTTGGTAATTTTACAAACT-AGG
*
89154530 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACTAGG
*** *
89154557 GGTATTTTGGTAATTTTATTGA-TCGAG
1 GGTATTTTGGTAATTTTACAAACTAG-G
* ** *
89154584 GGTATTTCGGTAATTTTGTAAACTAAG
1 GGTATTTTGGTAATTTTACAAACTAGG
** ** * *
89154611 GGTATTTTAATAATTTTGTAAA-TCGAA
1 GGTATTTTGGTAATTTTACAAACTAG-G
*** * ** *
89154638 GGTAAAATGGTAATTCTATCTTAC-ATG
1 GGTATTTTGGTAATTTTA-CAAACTAGG
* ** * *
89154665 AGTATTTCAGTAATTTTACAAA-TCGAA
1 GGTATTTTGGTAATTTTACAAACTAG-G
* * *
89154692 GGTATTTTAGTAATTTTGCAAACT-GAA
1 GGTATTTTGGTAATTTTACAAACTAG-G
* * *
89154719 GGTATTTAGGTAATTTTTCAAA-TCGAG
1 GGTATTTTGGTAATTTTACAAACTAG-G
* * * *
89154746 GATATTTAGGTAATTTTATAAA-TCGGG
1 GGTATTTTGGTAATTTTACAAACT-AGG
89154773 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACTAGG
* * *
89154800 GGTATTTTGGTAATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACTAGG
*
89154827 GGTATTTTAGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACTAGG
89154854 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
89154870 GGTAAACTAA
Statistics
Matches: 260, Mismatches: 68, Indels: 24
0.74 0.19 0.07
Matches are distributed among these distances:
26 5 0.02
27 250 0.96
28 5 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACTAGG
Found at i:89156604 original size:26 final size:26
Alignment explanation
Indices: 89156575--89156656 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
89156565 TGATACAAAT
*
89156575 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
89156601 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89156627 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89156653 TGAT
1 TGAT
89156657 GAGAATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:89158358 original size:54 final size:53
Alignment explanation
Indices: 89158276--89158432 Score: 226
Period size: 54 Copynumber: 2.9 Consensus size: 53
89158266 GAAGCATCCC
89158276 GGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCT
1 GGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCT
89158330 GGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCT
1 GGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCT
* * * * * *
89158384 GGTGGCTCTTCCACAATATCTGTATCTGGTGACTTTGTCACA-ATATCTG
1 GGTGGCTATGCCACATTATCTG-ATCTGGTGGCTCTGCCACATATATCTG
89158433 GCAGCTTCGC
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
53 14 0.15
54 81 0.85
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (53 bp):
GGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCT
Found at i:89158410 original size:32 final size:27
Alignment explanation
Indices: 89158276--89158432 Score: 187
Period size: 27 Copynumber: 5.9 Consensus size: 27
89158266 GAAGCATCCC
*
89158276 GGTGGCTATGCCACA-ATTATCTGATCT
1 GGTGGCTCTGCCACATA-TATCTGATCT
*
89158303 GGTGGCTCTGCCACATATATCTGTTCT
1 GGTGGCTCTGCCACATATATCTGATCT
*
89158330 GGTGGCTATGCCACGAT-TATCTGATCT
1 GGTGGCTCTGCCAC-ATATATCTGATCT
*
89158357 GGTGGCTCTGCCACATATATCTGTTCT
1 GGTGGCTCTGCCACATATATCTGATCT
*
89158384 GGTGGCTCTTCCACA-ATATCTGTATCT
1 GGTGGCTCTGCCACATATATCTG-ATCT
* * *
89158411 GGTGACTTTGTCACA-ATATCTG
1 GGTGGCTCTGCCACATATATCTG
89158433 GCAGCTTCGC
Statistics
Matches: 114, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
26 9 0.08
27 102 0.89
28 3 0.03
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
GGTGGCTCTGCCACATATATCTGATCT
Found at i:89167227 original size:27 final size:28
Alignment explanation
Indices: 89167194--89167350 Score: 130
Period size: 27 Copynumber: 5.8 Consensus size: 28
89167184 GACCCCGGAC
*
89167194 TTGTAAAATTACTAAAATACCCTCGAGT
1 TTGTAAAATTACTAAAATACCCTCGAAT
** *
89167222 TT-TAAAATTACCGAAATACCC-CTAAT
1 TTGTAAAATTACTAAAATACCCTCGAAT
* * *
89167248 TTGTGAAAGTACCAAAATACCCTCG-AT
1 TTGTAAAATTACTAAAATACCCTCGAAT
*
89167275 TTGTGAAATTACTAAAATATCCC-C-AAT
1 TTGTAAAATTACTAAAATA-CCCTCGAAT
* * *
89167302 TTGTAATATTGCTAAAATACCCTTGTAA-
1 TTGTAAAATTACTAAAATACCCTCG-AAT
**
89167330 -TGTAAAATTACCGAAATACCC
1 TTGTAAAATTACTAAAATACCC
89167351 CTATAGGGTA
Statistics
Matches: 104, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
26 8 0.08
27 88 0.85
28 6 0.06
29 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (28 bp):
TTGTAAAATTACTAAAATACCCTCGAAT
Found at i:89167271 original size:54 final size:53
Alignment explanation
Indices: 89167207--89167353 Score: 154
Period size: 54 Copynumber: 2.7 Consensus size: 53
89167197 TAAAATTACT
89167207 AAAATACCCTCGAGTTTTAAAATTACCGAAATACCCCTAATTTGTGAA-AGTACC
1 AAAATACCCTCGA-TTTTAAAATTACCGAAATACCCCTAATTTGT-AATAGTACC
* ** * * *
89167261 AAAATACCCTCGATTTGTGAAATTACTAAAATATCCCC-AATTTGTAATATTGCT
1 AAAATACCCTCGATTT-TAAAATTACCGAAATA-CCCCTAATTTGTAATAGTACC
* * *
89167315 AAAATACCCTTGTAATGTAAAATTACCGAAATACCCCTA
1 AAAATACCCTCG-ATTTTAAAATTACCGAAATACCCCTA
89167354 TAGGGTAAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
53 9 0.12
54 61 0.80
55 6 0.08
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (53 bp):
AAAATACCCTCGATTTTAAAATTACCGAAATACCCCTAATTTGTAATAGTACC
Found at i:89169029 original size:34 final size:34
Alignment explanation
Indices: 89168980--89169053 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
89168970 AGTGCCACGA
89168980 TTCACAACTCAGTATGGAAACACCA-TACCTACGT
1 TTCACAACTCAGTATGGAAACA-CATTACCTACGT
* * * *
89169014 TTCACAGCTCGGTATGGATATACATTACCTACGT
1 TTCACAACTCAGTATGGAAACACATTACCTACGT
89169048 TTCACA
1 TTCACA
89169054 CTTTTCCATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 2 0.06
34 33 0.94
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (34 bp):
TTCACAACTCAGTATGGAAACACATTACCTACGT
Found at i:89169138 original size:27 final size:27
Alignment explanation
Indices: 89169108--89169172 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
89169098 GATCACTGAA
*
89169108 CACTTTGCTAT-ATTTGGCACACTATAT
1 CACTTTGCCATGA-TTGGCACACTATAT
*
89169135 CACTTTGCCATGATTGGCACACTTTAT
1 CACTTTGCCATGATTGGCACACTATAT
89169162 CACTTTGCCAT
1 CACTTTGCCAT
89169173 TGTTCAACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.38
Consensus pattern (27 bp):
CACTTTGCCATGATTGGCACACTATAT
Found at i:89169305 original size:31 final size:31
Alignment explanation
Indices: 89169236--89169409 Score: 208
Period size: 31 Copynumber: 5.5 Consensus size: 31
89169226 AGTGTAGCTA
* * *
89169236 AAGCTACCACTTATCACTTG-TCACTTGTAGCCG
1 AAGCTACCACTTTTCAC-TGATCA--GGTAGTCG
* *
89169269 AAGCTACCACTATTCACTGGTCAGGTAG-CTG
1 AAGCTACCACTTTTCACTGATCAGGTAGTC-G
* *
89169300 GAGCTACCACTTTTCACTAATCAGGTAGTCG
1 AAGCTACCACTTTTCACTGATCAGGTAGTCG
* *
89169331 AAGCTACTACCTTTCACTGATCAGGTAGTCG
1 AAGCTACCACTTTTCACTGATCAGGTAGTCG
*
89169362 AAGCTACCACTTTTCACTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGTCG
89169393 AAGCTACCACTTTTCAC
1 AAGCTACCACTTTTCAC
89169410 ATTGTACACA
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
30 1 0.01
31 102 0.82
32 3 0.02
33 18 0.15
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
AAGCTACCACTTTTCACTGATCAGGTAGTCG
Found at i:89169486 original size:33 final size:33
Alignment explanation
Indices: 89169402--89169514 Score: 158
Period size: 33 Copynumber: 3.5 Consensus size: 33
89169392 GAAGCTACCA
* *
89169402 CTTTTCACA-TTGTACACACAAGGCGTACATTTC
1 CTTTTCA-AGTTGTACACACAAAGTGTACATTTC
89169435 CTTTTCAAG-TGTACACACAAAGTGTACATTTC
1 CTTTTCAAGTTGTACACACAAAGTGTACATTTC
* *
89169467 CTTTTTAAGTTGTACACACACAGTGTACATTTC
1 CTTTTCAAGTTGTACACACAAAGTGTACATTTC
*
89169500 CTTTTCCAGTTGTAC
1 CTTTTCAAGTTGTAC
89169515 CTTTTAGGTA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
32 30 0.42
33 42 0.58
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (33 bp):
CTTTTCAAGTTGTACACACAAAGTGTACATTTC
Found at i:89171213 original size:11 final size:11
Alignment explanation
Indices: 89171197--89171246 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
89171187 TATACTAAAT
89171197 AAATATTAATA
1 AAATATTAATA
89171208 AAATATTAAT-
1 AAATATTAATA
*
89171218 AAATATTTCATTA
1 AAATA-TT-AATA
89171231 AAATATTAATA
1 AAATATTAATA
89171242 AAATA
1 AAATA
89171247 ATATTTATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 5 0.15
11 20 0.59
12 4 0.12
13 5 0.15
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (11 bp):
AAATATTAATA
Found at i:89171236 original size:23 final size:21
Alignment explanation
Indices: 89171194--89171243 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 21
89171184 TTATATACTA
89171194 AATAAATATTAATAAAATATT
1 AATAAATATTAATAAAATATT
*
89171215 AATAAATATTTCATTAAAATATT
1 AATAAATA-TT-AATAAAATATT
89171238 AATAAA
1 AATAAA
89171244 ATAATATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 8 0.31
22 2 0.08
23 16 0.62
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AATAAATATTAATAAAATATT
Found at i:89176019 original size:38 final size:38
Alignment explanation
Indices: 89175963--89176163 Score: 339
Period size: 38 Copynumber: 5.3 Consensus size: 38
89175953 ATATTTGATG
*
89175963 TATATCCAGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
** *
89176001 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
** *
89176039 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
89176077 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
89176115 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
89176153 TATATCCGGGT
1 TATATCCGGGT
89176164 ATTATATCCA
Statistics
Matches: 156, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 156 1.00
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
Found at i:89176181 original size:13 final size:13
Alignment explanation
Indices: 89176148--89176181 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
89176138 GCTTAGTGCT
*
89176148 GGTATTATATCCG
1 GGTATTATATCCA
89176161 GGTATTATATCCA
1 GGTATTATATCCA
*
89176174 GGTTTTAT
1 GGTATTAT
89176182 CCCGCAGGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.44
Consensus pattern (13 bp):
GGTATTATATCCA
Found at i:89176186 original size:51 final size:51
Alignment explanation
Indices: 89176110--89176219 Score: 175
Period size: 51 Copynumber: 2.2 Consensus size: 51
89176100 GCTTAGTGCT
*
89176110 GGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCG
1 GGTATTATATCCAGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCG
** *
89176161 GGTATTATATCCAGGTTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCG
1 GGTATTATATCCAGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCG
*
89176212 GGTTTTAT
1 GGTATTAT
89176220 CCCGCAGGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (51 bp):
GGTATTATATCCAGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCG
Found at i:89176216 original size:38 final size:38
Alignment explanation
Indices: 89176161--89176381 Score: 282
Period size: 38 Copynumber: 5.8 Consensus size: 38
89176151 ATTATATCCG
* ** *
89176161 GGTATTATATCCAGGTTTTATCCCGCAGGCTTCGTGCT
1 GGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCT
**
89176199 GGTATTATATCCGGGTTTTATCCCGCAGGCTTCA-TGCT
1 GGTATTATATCCGGGTTAAATCCCGCAGGCTT-AGTGCT
*
89176237 AGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCT
1 GGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCT
* *
89176275 GGTATTATATCCGGGTTAAATTCCACAGGCTTAGTGCT
1 GGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCT
* * *
89176313 GGTATGATGTCTGGGTTAAATCCCGCAGGCTTAGTGCT
1 GGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCT
* *
89176351 GGTATTATATTCGAGCTTAAAGTCCCGCAGG
1 GGTATTATATCCG-GGTTAAA-TCCCGCAGG
89176382 TTCTGTGCTG
Statistics
Matches: 161, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
37 1 0.01
38 145 0.90
39 6 0.04
40 9 0.06
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.33
Consensus pattern (38 bp):
GGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCT
Found at i:89176223 original size:89 final size:89
Alignment explanation
Indices: 89176072--89176252 Score: 283
Period size: 89 Copynumber: 2.0 Consensus size: 89
89176062 GCTTCGTGCT
*
89176072 GGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATCCCGCA
1 GGTATTATATCCAGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATCCCGCA
*
89176137 GGCTT-AGTGCTGGTATTATATCCG
66 GGCTTCA-TGCTAGTATTATATCCG
** * **
89176161 GGTATTATATCCAGGTTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGCA
1 GGTATTATATCCAGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATCCCGCA
89176226 GGCTTCATGCTAGTATTATATCCG
66 GGCTTCATGCTAGTATTATATCCG
89176250 GGT
1 GGT
89176253 TAAATCCCGC
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
89 83 0.99
90 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (89 bp):
GGTATTATATCCAGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATCCCGCA
GGCTTCATGCTAGTATTATATCCG
Found at i:89176260 original size:127 final size:127
Alignment explanation
Indices: 89176034--89176381 Score: 463
Period size: 127 Copynumber: 2.8 Consensus size: 127
89176024 GCTTCGTGCT
*
89176034 GGTATTATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCA
1 GGTATTATATCCAGGTTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCA
*
89176099 GGCTTAGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCG
66 GGCTTAGTGCTAGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCG
**
89176161 GGTATTATATCCAGGTTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGCA
1 GGTATTATATCCAGGTTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCA
89176226 GGCTTCA-TGCTAGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCG
66 GGCTT-AGTGCTAGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCG
* * * * *
89176288 GG--TTA-A---A-----T-T-CCACAGGCTTAGTGCTGGTATGATGTCTGGGTTAAATCCCGCA
1 GGTATTATATCCAGGTTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCA
* * *
89176340 GGCTTAGTGCTGGTATTATATTCGAGCTTAAAGTCCCGCAGG
66 GGCTTAGTGCTAGTATTATATCCG-GGTTAAA-TCCCGCAGG
89176382 TTCTGTGCTG
Statistics
Matches: 203, Mismatches: 14, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
113 1 0.00
114 56 0.28
115 7 0.03
116 10 0.05
121 1 0.00
124 1 0.00
125 3 0.01
127 123 0.61
128 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.34
Consensus pattern (127 bp):
GGTATTATATCCAGGTTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCA
GGCTTAGTGCTAGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCG
Found at i:89176268 original size:165 final size:165
Alignment explanation
Indices: 89175996--89176317 Score: 599
Period size: 165 Copynumber: 2.0 Consensus size: 165
89175986 GCTTAGTGCT
*
89175996 GGTATTATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGCA
1 GGTATTATATCCAGGTTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGCA
* *
89176061 GGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGT
66 GGCTTCATGCTAGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGT
*
89176126 TAAATCCCGCAGGCTTAGTGCTGGTATTATATCCG
131 TAAATCCCACAGGCTTAGTGCTGGTATTATATCCG
89176161 GGTATTATATCCAGGTTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGCA
1 GGTATTATATCCAGGTTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGCA
89176226 GGCTTCATGCTAGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGT
66 GGCTTCATGCTAGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGT
*
89176291 TAAATTCCACAGGCTTAGTGCTGGTAT
131 TAAATCCCACAGGCTTAGTGCTGGTAT
89176318 GATGTCTGGG
Statistics
Matches: 152, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
165 152 1.00
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (165 bp):
GGTATTATATCCAGGTTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGCA
GGCTTCATGCTAGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGT
TAAATCCCACAGGCTTAGTGCTGGTATTATATCCG
Found at i:89176312 original size:203 final size:203
Alignment explanation
Indices: 89175963--89176360 Score: 679
Period size: 203 Copynumber: 2.0 Consensus size: 203
89175953 ATATTTGATG
89175963 TATATCCAGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTTTATCCCGCAGGCTT
1 TATATCCAGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTTTATCCCGCAGGCTT
* * ** *
89176028 CGTGCTGGTATTATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
66 CATGCTAGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAAT
* *
89176093 CCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATAT
131 CCCACAGGCTTAGTGCTGGTATGATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATAT
89176158 CCGGGTAT
196 CCGGGTAT
** *
89176166 TATATCCAGGTTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTTTATCCCGCAGGCTT
1 TATATCCAGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTTTATCCCGCAGGCTT
89176231 CATGCTAGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAAT
66 CATGCTAGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAAT
* * *
89176296 TCCACAGGCTTAGTGCTGGTATGATGTCTGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATAT
131 CCCACAGGCTTAGTGCTGGTATGATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATAT
89176361 TCGAGCTTAA
Statistics
Matches: 182, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
203 182 1.00
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.34
Consensus pattern (203 bp):
TATATCCAGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTTTATCCCGCAGGCTT
CATGCTAGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAAT
CCCACAGGCTTAGTGCTGGTATGATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATAT
CCGGGTAT
Found at i:89181908 original size:13 final size:13
Alignment explanation
Indices: 89181875--89181908 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
89181865 GCTTAGTGCT
*
89181875 GGTATTATATCCG
1 GGTATTATATCCA
89181888 GGTATTATATCCA
1 GGTATTATATCCA
*
89181901 GGTTTTAT
1 GGTATTAT
89181909 CTCGCAGGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.44
Consensus pattern (13 bp):
GGTATTATATCCA
Found at i:89181918 original size:51 final size:51
Alignment explanation
Indices: 89181842--89181946 Score: 156
Period size: 51 Copynumber: 2.1 Consensus size: 51
89181832 ATATTTGATG
*
89181842 TATATCCAGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTAT
1 TATATCCAGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATACCCGGGTAT
** * * *
89181893 TATATCCAGGTTTTATCTCGCAGGCTTCGTGCTGGTATTATACCCGGGTTT
1 TATATCCAGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATACCCGGGTAT
89181944 TAT
1 TAT
89181947 CCCGCAGGCT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (51 bp):
TATATCCAGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATACCCGGGTAT
Found at i:89181943 original size:38 final size:38
Alignment explanation
Indices: 89181888--89182049 Score: 227
Period size: 38 Copynumber: 4.3 Consensus size: 38
89181878 ATTATATCCG
* ** *
89181888 GGTATTATATCCAGGTTTTATCTCGCAGGCTTCGTGCT
1 GGTATTATATCCGGGTTAAATCTCGCAGGCTTAGTGCT
* ** * *
89181926 GGTATTATACCCGGGTTTTATCCCGCAGGCTTCGTGCT
1 GGTATTATATCCGGGTTAAATCTCGCAGGCTTAGTGCT
89181964 GGTATTATATCCGGGTTAAATCTCGCAGGCTTAGTGCT
1 GGTATTATATCCGGGTTAAATCTCGCAGGCTTAGTGCT
89182002 GGTATTATATCCGGGTTAAATC-CTGCAGGCTTAGTGCT
1 GGTATTATATCCGGGTTAAATCTC-GCAGGCTTAGTGCT
89182040 GGTATTATAT
1 GGTATTATAT
89182050 TCGAGCTTAA
Statistics
Matches: 115, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
37 1 0.01
38 114 0.99
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (38 bp):
GGTATTATATCCGGGTTAAATCTCGCAGGCTTAGTGCT
Found at i:89183898 original size:48 final size:47
Alignment explanation
Indices: 89183827--89184156 Score: 306
Period size: 48 Copynumber: 6.9 Consensus size: 47
89183817 GGTAAATCAC
*
89183827 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAT-GAGGT
* * * * *
89183875 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAT-GAGGT
* * * *
89183923 CGATGCCATGTCCC-GAACATGGTCTTACACTGACTCTCAAAATGTGG-
1 CGATGCCATGTCCCAG-ACATGGTCTTACACTGGCTCAC-ATATGAGGT
* *
89183970 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGGGGT
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATGAGGT
* * * * * * *
89184019 CGTTGCCATGTCCCAAATATGGTCTTACACTAGG-ACACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GGCTCACATAT-GAGGT
* * * *
89184067 CGATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATGAGGT
* * * * *
89184115 CGATTCCATATTCCAGACATGGTCTTACACTAGCACACATAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAT
89184157 CACCTAAATG
Statistics
Matches: 232, Mismatches: 40, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
47 9 0.04
48 215 0.93
49 8 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATGAGGT
Found at i:89184088 original size:144 final size:144
Alignment explanation
Indices: 89183826--89184157 Score: 443
Period size: 144 Copynumber: 2.3 Consensus size: 144
89183816 GGGTAAATCA
* *
89183826 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGTCGATGCCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGTCGATGCCATGTCCCAA
* * * * * *
89183891 ACATGGTCTTACACTAGCTCTCATCTCAATGTCGATGCCATGTCCCGAACATGGTCTTACACTGA
66 ACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGCCCCGAACATGGTCTTACACTGA
89183956 CTCTCAAAATGTGG
131 CTCTCAAAATGTGG
* * * *
89183970 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GGGGTCGTTGCCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAGGTCGATGCCATGTCCCA
* *
89184034 AATATGGTCTTACACTAGGACACATATCAACGCCGATGCCATGCCCC-AGACATGGTCTTACACT
65 AACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGCCCCGA-ACATGGTCTTACACT
* *
89184098 GGCTCTCATAATGTGG
129 GACTCTCAAAATGTGG
* * * * *
89184114 CCGATTCCATATTCCAGACATGGTCTTACACTAGCACACATATC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC
89184158 ACCTAAATGT
Statistics
Matches: 162, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
143 3 0.02
144 158 0.98
145 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (144 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGTCGATGCCATGTCCCAA
ACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGCCCCGAACATGGTCTTACACTGA
CTCTCAAAATGTGG
Found at i:89190283 original size:23 final size:23
Alignment explanation
Indices: 89190257--89190301 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
89190247 TGGGTATGTG
*
89190257 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
89190280 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
89190302 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:89195362 original size:47 final size:45
Alignment explanation
Indices: 89195303--89195431 Score: 147
Period size: 47 Copynumber: 2.8 Consensus size: 45
89195293 GAAGTTGATG
89195303 CATGTCCCAGACATGTCTTACACTAGCTCTTGTC-TCAA-T-GCCAATGT
1 CATGTCCCAGACATGTCTTACACTAGCTC---TCAT-AAGTGGCCAAT-T
* *
89195350 CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATT
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAA-GTGGCCAATT
*
89195397 CATGTCCCAGACATGTCTTACACTAGCTCACATAA
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATAA
89195432 CCCATACGTC
Statistics
Matches: 73, Mismatches: 4, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
45 4 0.05
46 20 0.27
47 30 0.41
48 19 0.26
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATAAGTGGCCAATT
Found at i:89196790 original size:42 final size:42
Alignment explanation
Indices: 89196744--89196831 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
89196734 CAGGTATTTT
*
89196744 CACACAGGTAGATACACGGGCGTGTGTCTCAGCCGTGTGTGA
1 CACACAGGTAGAGACACGGGCGTGTGTCTCAGCCGTGTGTGA
* *
89196786 CACACGGGTAGAGACACGGGCGTGTGTCTCAGCCGTGTGTGG
1 CACACAGGTAGAGACACGGGCGTGTGTCTCAGCCGTGTGTGA
89196828 CACA
1 CACA
89196832 AGGCCTAGCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.20, C:0.25, G:0.35, T:0.19
Consensus pattern (42 bp):
CACACAGGTAGAGACACGGGCGTGTGTCTCAGCCGTGTGTGA
Found at i:89196849 original size:42 final size:42
Alignment explanation
Indices: 89196744--89196850 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 42
89196734 CAGGTATTTT
*
89196744 CACACAGG-TAGATACACGGGCGTGTGTCTCAGCCGTGTGTGA
1 CACA-AGGCTAGACACACGGGCGTGTGTCTCAGCCGTGTGTGA
* * * *
89196786 CACACGGGTAGAGACACGGGCGTGTGTCTCAGCCGTGTGTGG
1 CACAAGGCTAGACACACGGGCGTGTGTCTCAGCCGTGTGTGA
*
89196828 CACAAGGCCTAG-CACAGGGGCGT
1 CACAAGG-CTAGACACACGGGCGT
89196851 ATGACTTGGC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 2 0.04
42 51 0.91
43 3 0.05
ACGTcount: A:0.21, C:0.25, G:0.36, T:0.18
Consensus pattern (42 bp):
CACAAGGCTAGACACACGGGCGTGTGTCTCAGCCGTGTGTGA
Found at i:89197865 original size:7 final size:7
Alignment explanation
Indices: 89197848--89197891 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
89197838 TTTTCTTTTC
89197848 TTTTTAA
1 TTTTTAA
89197855 -TTTTAA
1 TTTTTAA
89197861 TTTTTAA
1 TTTTTAA
*
89197868 TTTTCTATT
1 TTTT-TA-A
89197877 TTTTTAA
1 TTTTTAA
89197884 TTTTTAA
1 TTTTTAA
89197891 T
1 T
89197892 CAAATCTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 6 0.19
7 18 0.56
8 4 0.12
9 4 0.12
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTAA
Found at i:89200633 original size:31 final size:31
Alignment explanation
Indices: 89200571--89200633 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
89200561 AAATCATCAT
** *
89200571 TAAAATATTCAATAATTATATTTATTTTTAA
1 TAAAATATAAAATAATTATATTAATTTTTAA
*
89200602 TAAAATATAAAATTATT-TATTAATTTATTAA
1 TAAAATATAAAATAATTATATTAATTT-TTAA
89200633 T
1 T
89200634 GATGTGTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 8 0.30
31 19 0.70
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (31 bp):
TAAAATATAAAATAATTATATTAATTTTTAA
Found at i:89202498 original size:28 final size:28
Alignment explanation
Indices: 89202455--89202516 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
89202445 GCTCGCGAAG
89202455 TGGGTCACAAGCATTCCACCTCACAAGA
1 TGGGTCACAAGCATTCCACCTCACAAGA
* * *
89202483 TGGGTCACAAGTATTCCACCTCGCGAGA
1 TGGGTCACAAGCATTCCACCTCACAAGA
89202511 TGGGTC
1 TGGGTC
89202517 GTCAGGGTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (28 bp):
TGGGTCACAAGCATTCCACCTCACAAGA
Found at i:89204034 original size:31 final size:31
Alignment explanation
Indices: 89203999--89204178 Score: 245
Period size: 31 Copynumber: 5.8 Consensus size: 31
89203989 CTTGTCACTT
* * *
89203999 GTAGCCGAAGCTACCACTATTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAA
* * *
89204030 GTAGCTGGAGCTACCATTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAA
*
89204061 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAA
*
89204092 GTAGCC-AGAGCTACCATTTTTCACTGATCAA
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAA
*
89204123 GTAGTCGAAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAA
* *
89204154 GTAACCGAAACTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
89204179 TGTCATTTGT
Statistics
Matches: 130, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
30 1 0.01
31 128 0.98
32 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAA
Found at i:89207966 original size:16 final size:16
Alignment explanation
Indices: 89207945--89207986 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
89207935 TAACTAAATT
89207945 ATATAATTTCATGA-TA
1 ATATAATTTCAT-ATTA
*
89207961 ATATAATGTCATATTA
1 ATATAATTTCATATTA
89207977 ATAATAATTT
1 AT-ATAATTT
89207987 TATTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 1 0.05
16 15 0.68
17 6 0.27
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (16 bp):
ATATAATTTCATATTA
Found at i:89208680 original size:5 final size:5
Alignment explanation
Indices: 89208670--89208697 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
89208660 AATCTGGGTG
89208670 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
89208698 TTCACAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:89214548 original size:61 final size:63
Alignment explanation
Indices: 89214451--89214576 Score: 193
Period size: 61 Copynumber: 2.0 Consensus size: 63
89214441 CTATGCAGAA
* *
89214451 AGCTAATGAATGAGAAAGTAGTAACATTGGCACTATTGTAAGGATTACAAGTGACAAAAGTTG
1 AGCTAATGAATGAGAAAGTAGTAACATTAGCACTATTGTAAGGATTACAACTGACAAAAGTTG
* * *
89214514 AGCTAATGGA-GA-AAAGTAGTAACATTAGTACTATTGTAAGGATTAGAACTGACAAAAGTTG
1 AGCTAATGAATGAGAAAGTAGTAACATTAGCACTATTGTAAGGATTACAACTGACAAAAGTTG
89214575 AG
1 AG
89214577 AGTTTGATAA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 47 0.81
62 2 0.03
63 9 0.16
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.25
Consensus pattern (63 bp):
AGCTAATGAATGAGAAAGTAGTAACATTAGCACTATTGTAAGGATTACAACTGACAAAAGTTG
Found at i:89215983 original size:263 final size:259
Alignment explanation
Indices: 89215386--89216326 Score: 919
Period size: 261 Copynumber: 3.6 Consensus size: 259
89215376 ACGAAACACC
* * * * *
89215386 TAAATCTCGTTATTTTTATAGAGATATGATAAACTG--AGG--ATAAAATAACATAA-ATTAATT
1 TAAATCTCATTAATCTTATAGAGGTTTGATAAACTGACAGGCAAT-AAATAACATAAGA-TAATT
* * * * *
89215446 CAACCAATTATTATATAC-GGGTATTTTCCT-CGCATATCAAAAACAACTTCCACAACATAGTGC
64 CAACCAATTATTATACACTGCGTATTTTCCTACACAT-T-AAAAGCAACTTCCACAACATGGTGC
* * * * * *
89215509 CATCTCACCTTGTCATTACCTTATATATATACTCTAAGAGTGTATCATATTAAAAAATT-A-ATT
127 CACCTCACCTTGCCGTTACCTTAAATATATTCTCTAAGAGTGTATTATATTAAAAAATTGAGATT
* * * * *
89215572 TTTTCAATTTTACGATATGCAACATTATTTATCAAGAGTATAACTCTGACGTAGTGAAGCAAAAC
192 TTTTCAATTTTAC-AGATGCAACATTATTTATCAAGAGTATAACTGTGAAGTAGTGAAACAGAAC
*
89215637 TTCT
256 TCCT
* ** *
89215641 TAAATCTCATTAACCTTATAGAAATTTGATAAACTGACAGGCTATAAATAACATAAGATAATTCA
1 TAAATCTCATTAATCTTATAGAGGTTTGATAAACTGACAGGCAATAAATAACATAAGATAATTCA
*
89215706 ACCAATTATTATACACTGCGTATTTTTCCTACACATTGAAAGCAACTTCCACAACATGGTGCCAC
66 ACCAATTATTATACACTGCGTA-TTTTCCTACACATTAAAAGCAACTTCCACAACATGGTGCCAC
* * *
89215771 CTAACCTTGTCGTTACCTTAAATATATTCTCTAAGAGTATATTATATTAAAAAATTGAGATTTTT
130 CTCACCTTGCCGTTACCTTAAATATATTCTCTAAGAGTGTATTATATTAAAAAATTGAGATTTTT
* **
89215836 TCAATTTTACTAGATACAACATTATTTATCAAGAGTATAACTGTGAAGTAGTGAAATGGAACTCC
195 TCAATTTTAC-AGATGCAACATTATTTATCAAGAGTATAACTGTGAAGTAGTGAAACAGAACTCC
89215901 T
259 T
* *
89215902 TAAAAATCTCATTAATCTTATAGAGGTTTGATAAACTAACAGGCAATAAATAACATAAGATAGTT
1 T--AAATCTCATTAATCTTATAGAGGTTTGATAAACTGACAGGCAATAAATAACATAAGATAATT
* * * * * * * * * *
89215967 CAACCAATTGTTATACACTGTGTATCTTCC-AGCACATCATAAGCAGCTGCCACAACGTGATGTC
64 CAACCAATTATTATACACTGCGTATTTTCCTA-CACATTAAAAGCAACTTCCACAACATGGTGCC
** * *
89216031 ACCTCACCTCACCGTTACATT--ATATATTCTCTAAGAGTGTATCATATTAATAAAAAATTGAG-
128 ACCTCACCTTGCCGTTACCTTAAATATATTCTCTAAGAGTGTAT--TA-TATTAAAAAATTGAGA
* * * * *
89216093 -TTTTTCAATTTTGCATGATGCAACATTATATATCAGGTA-TATAATTGCGAAGTAGTGAAACAG
190 TTTTTTCAATTTTACA-GATGCAACATTATTTATCAAG-AGTATAACTGTGAAGTAGTGAAACAG
89216156 AACTCCT
253 AACTCCT
* * * * * * * * *
89216163 CAAATCTCAGT-ATCCTCATAG-GGATTTGATAAACTGGCCGACGATAAATTAACATAAGTTAGT
1 TAAATCTCATTAAT-CTTATAGAGG-TTTGATAAACTGACAGGCAATAAA-TAACATAAGATAAT
** ** ** *
89216226 TCAACCAATTATTATACACTGCGTACTTTTCCCGCACAACAAAAGCAACTTCCACAATGTGGGGC
63 TCAACCAATTATTATACACTGCGTA-TTTTCCTACACATTAAAAGCAACTTCCACAACATGGTGC
* * *
89216291 CACTTCACATTGCCGTTA-CATAATATATATTCTCTA
127 CACCTCACCTTGCCGTTACCTTAA-ATATATTCTCTA
89216327 GGGCAACTCG
Statistics
Matches: 572, Mismatches: 88, Indels: 44
0.81 0.12 0.06
Matches are distributed among these distances:
255 30 0.05
257 3 0.01
258 37 0.06
259 115 0.20
260 67 0.12
261 168 0.29
262 48 0.08
263 104 0.18
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (259 bp):
TAAATCTCATTAATCTTATAGAGGTTTGATAAACTGACAGGCAATAAATAACATAAGATAATTCA
ACCAATTATTATACACTGCGTATTTTCCTACACATTAAAAGCAACTTCCACAACATGGTGCCACC
TCACCTTGCCGTTACCTTAAATATATTCTCTAAGAGTGTATTATATTAAAAAATTGAGATTTTTT
CAATTTTACAGATGCAACATTATTTATCAAGAGTATAACTGTGAAGTAGTGAAACAGAACTCCT
Found at i:89222130 original size:20 final size:20
Alignment explanation
Indices: 89222107--89222151 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
89222097 TTTTAGGTTG
89222107 GTTTTGGACTT-TTTTGATTT
1 GTTTTGGACTTGTTTT-ATTT
*
89222127 G-TTTGGGCTTGTTTTATTT
1 GTTTTGGACTTGTTTTATTT
89222146 GTTTTG
1 GTTTTG
89222152 TTTTTTCGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.07, C:0.04, G:0.24, T:0.64
Consensus pattern (20 bp):
GTTTTGGACTTGTTTTATTT
Found at i:89242005 original size:25 final size:25
Alignment explanation
Indices: 89241976--89242025 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
89241966 AATCCTAAAG
89241976 ACCAAATATTTCAAATCCAAACCAT
1 ACCAAATATTTCAAATCCAAACCAT
89242001 ACCAAATATTTCAAATCCAAACCAT
1 ACCAAATATTTCAAATCCAAACCAT
89242026 TCAATTGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (25 bp):
ACCAAATATTTCAAATCCAAACCAT
Found at i:89242118 original size:32 final size:32
Alignment explanation
Indices: 89242077--89242141 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
89242067 TCATATCATC
89242077 TGATCAGAATTACAAAATACTTAACATGGTTT
1 TGATCAGAATTACAAAATACTTAACATGGTTT
89242109 TGATCAGAATTACAAAATACTTAACATGGTTT
1 TGATCAGAATTACAAAATACTTAACATGGTTT
89242141 T
1 T
89242142 TTAGGAAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (32 bp):
TGATCAGAATTACAAAATACTTAACATGGTTT
Found at i:89248015 original size:23 final size:22
Alignment explanation
Indices: 89247932--89247995 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 22
89247922 AAAAAATCTT
89247932 AAAATATTTAAAAATTACAAAAA
1 AAAATATTTAAAAATTA-AAAAA
*
89247955 AAAATATTTAAAAA--ATAAAA
1 AAAATATTTAAAAATTAAAAAA
89247975 AAAATATTTAAAAATATAAAA
1 AAAATATTTAAAAAT-TAAAA
89247996 TTAAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
20 18 0.50
21 1 0.03
23 17 0.47
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.27
Consensus pattern (22 bp):
AAAATATTTAAAAATTAAAAAA
Found at i:89248303 original size:31 final size:30
Alignment explanation
Indices: 89248268--89248346 Score: 72
Period size: 31 Copynumber: 2.6 Consensus size: 30
89248258 GATCCTTTAG
*
89248268 AATTTATGAAAAATTTAATTAGC-CCT-CTCCA
1 AATTT-TGAAAAATTTAATTA-CACCTCCT-AA
* * *
89248299 AATTTTGTAAATTTTCATTACACCTCCTAA
1 AATTTTGAAAAATTTAATTACACCTCCTAA
89248329 AATTTTTGAAAAATTTAA
1 AA-TTTTGAAAAATTTAA
89248347 CCAGGTCTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
29 1 0.03
30 18 0.47
31 19 0.50
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (30 bp):
AATTTTGAAAAATTTAATTACACCTCCTAA
Found at i:89249690 original size:19 final size:18
Alignment explanation
Indices: 89249671--89249768 Score: 90
Period size: 19 Copynumber: 5.2 Consensus size: 18
89249661 AACAAGGATA
89249671 AAATAAAATAAAATGTAT
1 AAATAAAATAAAATGTAT
* *
89249689 AAAT-AAATGATATAGTAGAT
1 AAATAAAATAAAAT-GT--AT
** *
89249709 TGATAAAATAAAATATAT
1 AAATAAAATAAAATGTAT
*
89249727 AAATAAAAATAAAATATAT
1 AAAT-AAAATAAAATGTAT
89249746 AAATAAAAATAAAATGTAT
1 AAAT-AAAATAAAATGTAT
89249765 AAAT
1 AAAT
89249769 TTTAAGTGCT
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
17 7 0.11
18 10 0.15
19 36 0.55
20 5 0.08
21 7 0.11
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (18 bp):
AAATAAAATAAAATGTAT
Found at i:89249719 original size:38 final size:37
Alignment explanation
Indices: 89249671--89249768 Score: 115
Period size: 38 Copynumber: 2.6 Consensus size: 37
89249661 AACAAGGATA
* * *
89249671 AAATAAAATAAAATGTATAAATAAATGATATAGTAGAT
1 AAATAAAATAAAATGTATAAATAAA-AATAAAATAGAT
** * *
89249709 TGATAAAATAAAATATATAAATAAAAATAAAATATAT
1 AAATAAAATAAAATGTATAAATAAAAATAAAATAGAT
89249746 AAATAAAAATAAAATGTATAAAT
1 AAAT-AAAATAAAATGTATAAAT
89249769 TTTAAGTGCT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
37 10 0.20
38 39 0.80
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (37 bp):
AAATAAAATAAAATGTATAAATAAAAATAAAATAGAT
Found at i:89249738 original size:6 final size:6
Alignment explanation
Indices: 89249713--89249759 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
89249703 GTAGATTGAT
* *
89249713 AAAATA AAATATA TAAATA AAAATA AAATATA TAAATA AAAATA AAA
1 AAAATA AAA-ATA AAAATA AAAATA AAA-ATA AAAATA AAAATA AAA
89249760 TGTATAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
6 25 0.71
7 10 0.29
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (6 bp):
AAAATA
Found at i:89250766 original size:21 final size:20
Alignment explanation
Indices: 89250719--89250766 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
89250709 ATTTTATGTT
*
89250719 TTTATAAAATAAAATAATAGA
1 TTTA-AAAATAAAATAATACA
*
89250740 TTTAAAAATAAAATAATCACC
1 TTTAAAAATAAAATAAT-ACA
89250761 TTTAAA
1 TTTAAA
89250767 TTTTTTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.33
Consensus pattern (20 bp):
TTTAAAAATAAAATAATACA
Found at i:89251949 original size:53 final size:53
Alignment explanation
Indices: 89251869--89251976 Score: 153
Period size: 53 Copynumber: 2.0 Consensus size: 53
89251859 TTTATAGAAC
* * * * * *
89251869 AATCAAATGGAGTAGTTAAATTCTACAAGAATTCTCTTTTATTCATGTGATTG
1 AATCAAATAGAGGAGCTAAATTCTACAAGAACTCTATTTTATTCATGTAATTG
*
89251922 AATCAAATAGAGGAGCTAAATTTTACAAGAACTCTATTTTATTCATGTAATTG
1 AATCAAATAGAGGAGCTAAATTCTACAAGAACTCTATTTTATTCATGTAATTG
89251975 AA
1 AA
89251977 ACTATAAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (53 bp):
AATCAAATAGAGGAGCTAAATTCTACAAGAACTCTATTTTATTCATGTAATTG
Found at i:89252368 original size:25 final size:25
Alignment explanation
Indices: 89252314--89252369 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
89252304 GTAGCTTTCT
89252314 TTCAAATTTATCAATAAATTTTGAC
1 TTCAAATTTATCAATAAATTTTGAC
*
89252339 TTCAAATTT-TCAAGTCAACTTTTGAC
1 TTCAAATTTATCAA-T-AAATTTTGAC
89252365 -TCAAA
1 TTCAAA
89252370 ATTTGTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 4 0.14
25 15 0.54
26 9 0.32
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (25 bp):
TTCAAATTTATCAATAAATTTTGAC
Found at i:89264264 original size:39 final size:39
Alignment explanation
Indices: 89264221--89264305 Score: 170
Period size: 39 Copynumber: 2.2 Consensus size: 39
89264211 GGACTAAGAT
89264221 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
89264260 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
89264299 CCGAAGG
1 CCGAAGG
89264306 TACGTGATTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:89268990 original size:52 final size:53
Alignment explanation
Indices: 89268897--89269020 Score: 144
Period size: 52 Copynumber: 2.4 Consensus size: 53
89268887 ATATGTACTT
* **
89268897 CTGTATAAGACCATAGCTGGGCTATGGAATCGGTACAATGTGATTTGAGA-TC
1 CTGTATAAGACCATAGCTGGGCTATGGAATCAGTACAATGTGAAATGAGATTC
* * *** *
89268949 CTGTATAAGACCATAGCTGGGCTTTGGCATCAGTGTGATGTGAAATGTGATTC
1 CTGTATAAGACCATAGCTGGGCTATGGAATCAGTACAATGTGAAATGAGATTC
*
89269002 C-GTATAAGACCATATCTGG
1 CTGTATAAGACCATAGCTGG
89269021 CATATGGCAT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
52 58 0.95
53 3 0.05
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (53 bp):
CTGTATAAGACCATAGCTGGGCTATGGAATCAGTACAATGTGAAATGAGATTC
Found at i:89274071 original size:79 final size:80
Alignment explanation
Indices: 89273927--89274144 Score: 239
Period size: 79 Copynumber: 2.7 Consensus size: 80
89273917 AAATCACGTA
* * * ** * * *
89273927 CCTTCGGAATTTAACCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAG
1 CCTTCGGGACTTAACCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATAG
89273991 TAACTCGCACAAATG
66 TAACTCGCACAAATG
*
89274006 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT-TA
1 CCTTCGGGACTTAA-CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATA
89274069 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* * * * *
89274085 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTA-ACCGGATATAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCCGGA
89274145 CATCATTCAA
Statistics
Matches: 118, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.60
80 44 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAACCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATAG
TAACTCGCACAAATG
Found at i:89274144 original size:40 final size:40
Alignment explanation
Indices: 89273941--89274144 Score: 245
Period size: 40 Copynumber: 5.1 Consensus size: 40
89273931 CGGAATTTAA
* ** *
89273941 CCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
89273981 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
89274021 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
89274060 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
89274100 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
89274140 CCGGA
1 CCGGA
89274145 CATCATTCAA
Statistics
Matches: 141, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 95 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:89281979 original size:40 final size:40
Alignment explanation
Indices: 89281942--89282245 Score: 431
Period size: 40 Copynumber: 7.7 Consensus size: 40
89281932 GCTACTCGTT
* *
89281942 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
89281982 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
89282022 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
89282062 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
89282102 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
89282142 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * *
89282181 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAT-TTAGTAAC-TCGCA
*
89282222 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
89282246 CATCATTCAA
Statistics
Matches: 245, Mismatches: 13, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
38 2 0.01
39 49 0.20
40 185 0.76
41 9 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:89285164 original size:14 final size:14
Alignment explanation
Indices: 89285145--89285171 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
89285135 TATTAAAATA
89285145 ATAATTAAGAACAC
1 ATAATTAAGAACAC
89285159 ATAATTAAGAACA
1 ATAATTAAGAACA
89285172 AATCAAGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:89294102 original size:56 final size:56
Alignment explanation
Indices: 89294041--89294949 Score: 1791
Period size: 56 Copynumber: 16.2 Consensus size: 56
89294031 AAACGAAATC
* *
89294041 CGCACACACAATGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
89294097 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
89294153 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
89294209 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
89294265 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
89294321 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
89294377 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
89294433 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
89294489 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
89294545 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
89294601 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
89294657 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
89294713 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
89294769 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
89294825 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
89294881 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
*
89294937 CGCACACATAGTG
1 CGCACACACAGTG
89294950 CCTATATTCA
Statistics
Matches: 850, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 850 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (56 bp):
CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
Found at i:89295197 original size:40 final size:40
Alignment explanation
Indices: 89295132--89296211 Score: 2106
Period size: 40 Copynumber: 27.0 Consensus size: 40
89295122 CACATCATCG
* * *
89295132 GCACGAATGCCCTTCAGGACATAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
*
89295172 GCACAAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89295212 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89295252 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89295292 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89295332 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89295372 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89295412 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89295452 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89295492 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89295532 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89295572 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89295612 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89295652 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89295692 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89295732 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89295772 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89295812 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89295852 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89295892 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89295932 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89295972 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89296012 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89296052 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89296092 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89296132 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
* *
89296172 GCACGAATACTCTTCGGGACTTAGCCCGGATATAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89296212 TTTCCCATAC
Statistics
Matches: 1033, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 1033 1.00
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (40 bp):
GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
Found at i:89301523 original size:68 final size:67
Alignment explanation
Indices: 89301451--89301600 Score: 162
Period size: 67 Copynumber: 2.2 Consensus size: 67
89301441 TATCATGTGT
* * * *
89301451 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
89301513 ATGTAG
62 ATGTAG
* ** * *
89301519 ACAAGAGCGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
89301584 AG
66 AG
89301586 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
89301601 GATAAACTGG
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 25 0.37
68 12 0.18
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:89301555 original size:64 final size:64
Alignment explanation
Indices: 89301475--89301658 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
89301465 AGACATTATG
* * *
89301475 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGCGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
89301539 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
89301604 AA
63 AA
* * * *
89301606 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
89301659 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 21 0.22
65 8 0.08
66 16 0.16
67 30 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:89303659 original size:4 final size:4
Alignment explanation
Indices: 89303650--89303680 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
89303640 TTACTACTAA
89303650 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
89303681 ATTAAGAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:89310585 original size:92 final size:87
Alignment explanation
Indices: 89310428--89310610 Score: 303
Period size: 92 Copynumber: 2.0 Consensus size: 87
89310418 ATGTCATAAA
* *
89310428 ATAATCCAAAACATAGTAGTACCATATAGTGGTGATGGTGTGACGAGTTATTGACGATCCCCGAG
1 ATAATCCAAAACATAGTAGTAACATATAGTGGTGATGGTGTGACGAGTTATTAACGATCCCCGAG
89310493 CAAAGGCCAAATTTGATAATCT
66 CAAAGGCCAAATTTGATAATCT
89310515 ATAAGTCCAAAACATAGTAGTAACATATAGTGGATAGTGATGGTGTGACGAGTTATTAACGATCC
1 ATAA-TCCAAAACATAGTAGTAACATATAGT-G---GTGATGGTGTGACGAGTTATTAACGATCC
89310580 CCGAGCAAAGGCCAAATTTGATAATCT
61 CCGAGCAAAGGCCAAATTTGATAATCT
89310607 ATAA
1 ATAA
89310611 AACAGAGAAA
Statistics
Matches: 89, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
87 4 0.04
88 25 0.28
89 1 0.01
92 59 0.66
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (87 bp):
ATAATCCAAAACATAGTAGTAACATATAGTGGTGATGGTGTGACGAGTTATTAACGATCCCCGAG
CAAAGGCCAAATTTGATAATCT
Found at i:89314174 original size:28 final size:28
Alignment explanation
Indices: 89314134--89314231 Score: 90
Period size: 28 Copynumber: 3.5 Consensus size: 28
89314124 AAACGAAATC
*
89314134 CGCACACACAGTGCCCACTGACCGGTCT
1 CGCACACACAGTGCCCACTGACCGATCT
* * ** * **
89314162 CGCACACATAGTGCTCGGTTAAAGAAT-T
1 CGCACACACAGTGCCCACTGACCG-ATCT
*
89314190 CGCACACACAGTGTCCACTGACCGATCT
1 CGCACACACAGTGCCCACTGACCGATCT
*
89314218 CGCACACATAGTGC
1 CGCACACACAGTGC
89314232 TCAGTTAAAG
Statistics
Matches: 50, Mismatches: 18, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
27 2 0.04
28 47 0.94
29 1 0.02
ACGTcount: A:0.27, C:0.35, G:0.20, T:0.18
Consensus pattern (28 bp):
CGCACACACAGTGCCCACTGACCGATCT
Found at i:89314195 original size:56 final size:56
Alignment explanation
Indices: 89314134--89314259 Score: 216
Period size: 56 Copynumber: 2.2 Consensus size: 56
89314124 AAACGAAATC
* *
89314134 CGCACACACAGTGCCCACTGACCGGTCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCAGTTAAAGAATT
*
89314190 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCAGTTAAAGAATT
1 CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCAGTTAAAGAATT
*
89314246 CGCACACATAGTGC
1 CGCACACACAGTGC
89314260 ATATATTCAT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 65 1.00
ACGTcount: A:0.29, C:0.32, G:0.20, T:0.20
Consensus pattern (56 bp):
CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCAGTTAAAGAATT
Found at i:89314248 original size:28 final size:28
Alignment explanation
Indices: 89314161--89314259 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
89314151 CTGACCGGTC
*
89314161 TCGCACACATAGTGCTCGGTTAAAGAAT
1 TCGCACACATAGTGCTCAGTTAAAGAAT
* * * **
89314189 TCGCACACACAGTG-TCCACTGACCG-AT
1 TCGCACACATAGTGCT-CAGTTAAAGAAT
89314216 CTCGCACACATAGTGCTCAGTTAAAGAAT
1 -TCGCACACATAGTGCTCAGTTAAAGAAT
89314245 TCGCACACATAGTGC
1 TCGCACACATAGTGC
89314260 ATATATTCAT
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
27 3 0.05
28 50 0.89
29 3 0.05
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCAGTTAAAGAAT
Found at i:89314506 original size:40 final size:40
Alignment explanation
Indices: 89314441--89314560 Score: 186
Period size: 40 Copynumber: 3.0 Consensus size: 40
89314431 CACATCATCG
* * *
89314441 GCACGAATGCCCTTCAGGACATAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
*
89314481 GCACAAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
* *
89314521 GCACGAATACTCTTCGGGACTTAGCCCGGATATAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
89314561 TTTCCCATAC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.29, C:0.31, G:0.22, T:0.18
Consensus pattern (40 bp):
GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
Found at i:89315543 original size:111 final size:111
Alignment explanation
Indices: 89315349--89315570 Score: 426
Period size: 111 Copynumber: 2.0 Consensus size: 111
89315339 ACAATTAACT
* *
89315349 TTGCTGGATTAAATACATTTATAACTTCCACAAAATCCAAGTGCAGTCTCGATGGGCTTAATAAG
1 TTGCTGGATTAAATACATTTATAACTTCCACAAAATCCAAGTGAAGTCTCGAAGGGCTTAATAAG
89315414 CCTACACAAGTACATAATACATACCTGGCCAACTTAATGTGCTGAA
66 CCTACACAAGTACATAATACATACCTGGCCAACTTAATGTGCTGAA
89315460 TTGCTGGATTAAATACATTTATAACTTCCACAAAATCCAAGTGAAGTCTCGAAGGGCTTAATAAG
1 TTGCTGGATTAAATACATTTATAACTTCCACAAAATCCAAGTGAAGTCTCGAAGGGCTTAATAAG
89315525 CCTACACAAGTACATAATACATACCTGGCCAACTTAATGTGCTGAA
66 CCTACACAAGTACATAATACATACCTGGCCAACTTAATGTGCTGAA
89315571 CATCCGTAAT
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 109 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.27
Consensus pattern (111 bp):
TTGCTGGATTAAATACATTTATAACTTCCACAAAATCCAAGTGAAGTCTCGAAGGGCTTAATAAG
CCTACACAAGTACATAATACATACCTGGCCAACTTAATGTGCTGAA
Found at i:89325939 original size:27 final size:27
Alignment explanation
Indices: 89325909--89325962 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
89325899 AGCATCAGAT
89325909 CAGCAGGAAAACAGATATATCGAATCA
1 CAGCAGGAAAACAGATATATCGAATCA
* *
89325936 CAGCAGGAAAATAGATATCTCGAATCA
1 CAGCAGGAAAACAGATATATCGAATCA
89325963 ATAACGGGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.17
Consensus pattern (27 bp):
CAGCAGGAAAACAGATATATCGAATCA
Found at i:89334023 original size:40 final size:39
Alignment explanation
Indices: 89333978--89334179 Score: 246
Period size: 40 Copynumber: 5.1 Consensus size: 39
89333968 CTAAGATCCA
*
89333978 AAGGCATTTGTGCGAGTTG-CTATATCTGGGCTAAGTCCCG
1 AAGGCATTTGTGCTAG-TGACTATATC-GGGCTAAGTCCCG
*
89334018 AAGGCATTTATGCTAGTGACTATATCCGGGCTAAGTCCCG
1 AAGGCATTTGTGCTAGTGACTATAT-CGGGCTAAGTCCCG
**
89334058 AAGGCATTTGTGCTAACGACTATATCCGGGCTAAGTCCCG
1 AAGGCATTTGTGCTAGTGACTATAT-CGGGCTAAGTCCCG
* * *
89334098 AAGGCATTTATGCTAGTGACTATATACGGGCTACGACCCG
1 AAGGCATTTGTGCTAGTGACTATAT-CGGGCTAAGTCCCG
* * *
89334138 AAGGCATTTGTGCGAGTTG-CTATATCCGGCTAAATCCCG
1 AAGGCATTTGTGCTAG-TGACTATATCGGGCTAAGTCCCG
89334177 AAG
1 AAG
89334180 ATACTTGGGT
Statistics
Matches: 142, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 15 0.11
40 124 0.87
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (39 bp):
AAGGCATTTGTGCTAGTGACTATATCGGGCTAAGTCCCG
Found at i:89334161 original size:80 final size:80
Alignment explanation
Indices: 89333968--89334179 Score: 311
Period size: 80 Copynumber: 2.7 Consensus size: 80
89333958 GATAACCAGA
* * *
89333968 CTAAGATCCAAAGGCATTTGTGCGAGTTGCTATATCTGGGCTAAGTCCCGAAGGCATTTATGCTA
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTA
*
89334033 GTGACTATATCCGGG
66 GTGACTATATACGGG
* * **
89334048 CTAAGTCCCGAAGGCATTTGTGCTA-ACGACTATATCCGGGCTAAGTCCCGAAGGCATTTATGCT
1 CTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGTCCCGAAGGCATTTATGCT
89334112 AGTGACTATATACGGG
65 AGTGACTATATACGGG
* *
89334128 CTACGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAG
89334180 ATACTTGGGT
Statistics
Matches: 116, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
79 15 0.13
80 100 0.86
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.26
Consensus pattern (80 bp):
CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTA
GTGACTATATACGGG
Found at i:89335677 original size:48 final size:48
Alignment explanation
Indices: 89335606--89335789 Score: 208
Period size: 48 Copynumber: 3.8 Consensus size: 48
89335596 CACCACGATT
* *
89335606 TATGAGAGCTAGTGTAAA-ACCATGTCTGGGACATGGCATCGATGTTGA
1 TATGAGAGCAAGTG-AAAGACCATGTCTGGGACATGGCATCGACGTTGA
* *
89335654 TATGAGAGCCAGAGAAAGACCATGTCTGGGACATGGCATCGACGTTGA
1 TATGAGAGCAAGTGAAAGACCATGTCTGGGACATGGCATCGACGTTGA
* * * * * *
89335702 TATGAGAGCAAGTGTAAGACCATATCTAGGACATGGCATTGGCATTGA
1 TATGAGAGCAAGTGAAAGACCATGTCTGGGACATGGCATCGACGTTGA
* * * * * *
89335750 TATGTGTGCTAGTGTAAGACCATATCTGGGATATGGCATC
1 TATGAGAGCAAGTGAAAGACCATGTCTGGGACATGGCATC
89335790 AGCCTCGGTA
Statistics
Matches: 118, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
47 3 0.03
48 115 0.97
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (48 bp):
TATGAGAGCAAGTGAAAGACCATGTCTGGGACATGGCATCGACGTTGA
Found at i:89335770 original size:96 final size:94
Alignment explanation
Indices: 89335606--89335881 Score: 246
Period size: 96 Copynumber: 2.9 Consensus size: 94
89335596 CACCACGATT
* * * * * * *
89335606 TATGAGAGCTAGTGTAAAACCATGTCTGGGACATGGCA-TCGATGTTGATATGAGAGCCAGAGAA
1 TATGAGAGC-AGTGTAAGACCATATCTGGGACATGGCATTGGA--TTGATATGTGTG-CAGTGTA
* *
89335670 AGACCATGTCTGGGACATGGCATCGA-CGTTGA
62 AGACCATGTCTGGGACATGGCATCGAGCCTCGA
*
89335702 TATGAGAGCAAGTGTAAGACCATATCTAGGACATGGCATTGGCATTGATATGTGTGCTAGTGTAA
1 TATGAGAGC-AGTGTAAGACCATATCTGGGACATGGCATTGG-ATTGATATGTGTGC-AGTGTAA
* * *
89335767 GACCATATCTGGGATATGGCATC-AGCCTCGG
63 GACCATGTCTGGGACATGGCATCGAGCCTCGA
* * * *
89335798 TATGTGATTTCA-TGTAAGACCATATCTGGGATATGGCATT-GATATGAGAT-T-T-C-GTGTAA
1 TATGAGA--GCAGTGTAAGACCATATCTGGGACATGGCATTGGAT-TGATATGTGTGCAGTGTAA
89335857 GACCATGTCTGGGACATGGCATCGA
63 GACCATGTCTGGGACATGGCATCGA
89335882 TATAAGGTTC
Statistics
Matches: 151, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
90 27 0.18
91 1 0.01
92 1 0.01
93 1 0.01
94 3 0.02
95 8 0.05
96 105 0.70
97 3 0.02
98 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (94 bp):
TATGAGAGCAGTGTAAGACCATATCTGGGACATGGCATTGGATTGATATGTGTGCAGTGTAAGAC
CATGTCTGGGACATGGCATCGAGCCTCGA
Found at i:89335802 original size:48 final size:49
Alignment explanation
Indices: 89335669--89335971 Score: 151
Period size: 48 Copynumber: 6.6 Consensus size: 49
89335659 GAGCCAGAGA
* * * * * * *
89335669 AAGACCATGTCTGGGACATGGCATC-GACGTTGATATGAGAGC-AAGTGT
1 AAGACCATATCTGGGATATGGCATCAG-CATCGATATGTGATCTCAGTGT
* * ** *
89335717 AAGACCATATCTAGGACATGGCATTGGCATTGATATGTG-TGCT-AGTGT
1 AAGACCATATCTGGGATATGGCATCAGCATCGATATGTGAT-CTCAGTGT
* * *
89335765 AAGACCATATCTGGGATATGGCATCAGCCTCGGTATGTGATTTCA-TGT
1 AAGACCATATCTGGGATATGGCATCAGCATCGATATGTGATCTCAGTGT
* *
89335813 AAGACCATATCTGGGATATGGCAT-----T-GATATGAGATTTC-GTGT
1 AAGACCATATCTGGGATATGGCATCAGCATCGATATGTGATCTCAGTGT
* * * * *
89335855 AAGACCATGTCTGGGACATGGCATC-G-AT--ATAAG-G-T-TCCGTAT
1 AAGACCATATCTGGGATATGGCATCAGCATCGATATGTGATCTCAGTGT
* * * ** * * ** *
89335897 AAGATCATGTCTGGGACATGGCATTGGCATCGACATGAGA-CTTTGTAT
1 AAGACCATATCTGGGATATGGCATCAGCATCGATATGTGATCTCAGTGT
*
89335945 AAGACCATATTTGGGATATGGCATCAG
1 AAGACCATATCTGGGATATGGCATCAG
89335972 TATGTAGACC
Statistics
Matches: 206, Mismatches: 32, Indels: 34
0.76 0.12 0.12
Matches are distributed among these distances:
41 2 0.01
42 63 0.31
43 3 0.01
44 6 0.03
45 1 0.00
46 3 0.01
47 1 0.00
48 124 0.60
49 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (49 bp):
AAGACCATATCTGGGATATGGCATCAGCATCGATATGTGATCTCAGTGT
Found at i:89335862 original size:42 final size:43
Alignment explanation
Indices: 89335761--89335968 Score: 161
Period size: 42 Copynumber: 4.7 Consensus size: 43
89335751 ATGTGTGCTA
* *
89335761 GTGTAAGACCATATCTGGGATATGGCATCAGCCTCGGTATGTGATTTC
1 GTGTAAGACCATATCTGGGATATGGCAT-----TCGATATGAGATTTC
*
89335809 ATGTAAGACCATATCTGGGATATGGCATT-GATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATTCGATATGAGATTTC
* * * * *
89335851 GTGTAAGACCATGTCTGGGACATGGCA-TCGATATAAGGTTCC
1 GTGTAAGACCATATCTGGGATATGGCATTCGATATGAGATTTC
* * * * *
89335893 GTATAAGATCATGTCTGGGACATGGCATTGGCATCGACATGAGACTTT-
1 GTGTAAGACCATATCTGGGATATGGCA-T----TCGATATGAGA-TTTC
* *
89335941 GTATAAGACCATATTTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
89335969 CAGTATGTAG
Statistics
Matches: 133, Mismatches: 19, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.01
42 70 0.53
43 1 0.01
47 1 0.01
48 58 0.44
49 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCATATCTGGGATATGGCATTCGATATGAGATTTC
Found at i:89337708 original size:20 final size:21
Alignment explanation
Indices: 89337683--89337727 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
89337673 CGCGCCTGCT
*
89337683 CCTGCTGACGGAGCAGTGCC-
1 CCTGCTGAAGGAGCAGTGCCA
89337703 CCTGCTGAAGGAGCAGTGCCA
1 CCTGCTGAAGGAGCAGTGCCA
89337724 CCTG
1 CCTG
89337728 ATAGTAGACC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.18, C:0.33, G:0.33, T:0.16
Consensus pattern (21 bp):
CCTGCTGAAGGAGCAGTGCCA
Found at i:89340422 original size:23 final size:23
Alignment explanation
Indices: 89340392--89340441 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
89340382 CTCCAGTGTT
89340392 AGTTCAACTTGAGCCGGGAAAGG
1 AGTTCAACTTGAGCCGGGAAAGG
89340415 AGTTCAACTTGAGCCGGGAAAGG
1 AGTTCAACTTGAGCCGGGAAAGG
89340438 AGTT
1 AGTT
89340442 TGTAATCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.16, G:0.34, T:0.20
Consensus pattern (23 bp):
AGTTCAACTTGAGCCGGGAAAGG
Found at i:89342923 original size:269 final size:269
Alignment explanation
Indices: 89342438--89342974 Score: 1038
Period size: 269 Copynumber: 2.0 Consensus size: 269
89342428 TGAGTTAATA
89342438 GGACTAAATTGCAAAAAGTGAAAAACATGTGTTCTAGTTATTGAAGGGCTTAATTGTGCAGAGAT
1 GGACTAAATTGCAAAAAGTGAAAAACATGTGTTCTAGTTATTGAAGGGCTTAATTGTGCAGAGAT
89342503 TTGAAATTTGAAGTCCTTATTTGGCAGTTAGACCATTATATGTCATTATGGACAAAAATGGACAT
66 TTGAAATTTGAAGTCCTTATTTGGCAGTTAGACCATTATATGTCATTATGGACAAAAATGGACAT
89342568 AATAGGAGGGATAAAATATCAAAGTTTTAATGGAAAGGCATTTTGGTCCATTGATTATTAAAAGA
131 AATAGGAGGGATAAAATATCAAAGTTTTAATGGAAAGGCATTTTGGTCCATTGATTATTAAAAGA
89342633 ATTAAAAGGGAAAAATAGTCAAAATTTGTGTTCATCTTCATCCCCCTTGGCCGAATATCATAAGG
196 ATTAAAAGGGAAAAATAGTCAAAATTTGTGTTCATCTTCATCCCCCTTGGCCGAATATCATAAGG
89342698 AAGCCATAG
261 AAGCCATAG
*
89342707 GGACTAAATTGCAAAAAGTGAAAAACATGTGTTCTAGTTATTGAAGGGCTTAATTGTGCTGAGAT
1 GGACTAAATTGCAAAAAGTGAAAAACATGTGTTCTAGTTATTGAAGGGCTTAATTGTGCAGAGAT
89342772 TTGAAATTTGAAGTCCTTATTTGGCAGTTAGACCATTATATGTCATTATGGACAAAAATGGACAT
66 TTGAAATTTGAAGTCCTTATTTGGCAGTTAGACCATTATATGTCATTATGGACAAAAATGGACAT
*
89342837 AATAGGAGGGATAAAATATTAAAGTTTTAATGGAAAGGCATTTTGGTCCATTGATTATTAAAAGA
131 AATAGGAGGGATAAAATATCAAAGTTTTAATGGAAAGGCATTTTGGTCCATTGATTATTAAAAGA
* *
89342902 ATTAAAAGGGAAAAGTAGTCAAAATTTGTGTTCATCTTCATCCCCCTTGGTCGAATATCATAAGG
196 ATTAAAAGGGAAAAATAGTCAAAATTTGTGTTCATCTTCATCCCCCTTGGCCGAATATCATAAGG
89342967 AAGCCATA
261 AAGCCATA
89342975 ATTAGGGTTA
Statistics
Matches: 264, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
269 264 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (269 bp):
GGACTAAATTGCAAAAAGTGAAAAACATGTGTTCTAGTTATTGAAGGGCTTAATTGTGCAGAGAT
TTGAAATTTGAAGTCCTTATTTGGCAGTTAGACCATTATATGTCATTATGGACAAAAATGGACAT
AATAGGAGGGATAAAATATCAAAGTTTTAATGGAAAGGCATTTTGGTCCATTGATTATTAAAAGA
ATTAAAAGGGAAAAATAGTCAAAATTTGTGTTCATCTTCATCCCCCTTGGCCGAATATCATAAGG
AAGCCATAG
Done.