Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 553 of 770
Found at i:172180089 original size:30 final size:30
Alignment explanation
Indices: 172180055--172180114 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
172180045 ATTTAATACG
172180055 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
172180085 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
172180115 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:172185027 original size:40 final size:40
Alignment explanation
Indices: 172184961--172185111 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
172184951 AAATTGAATG
* * *
172184961 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
172185000 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
172185040 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
172185080 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
172185112 ACGTGGTTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:172185125 original size:40 final size:40
Alignment explanation
Indices: 172184998--172185127 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
172184988 ATGCTGGAAA
* * *
172184998 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
172185038 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
172185078 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
172185118 TTATATCCGG
1 TTATATCCGG
172185128 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:172193015 original size:40 final size:40
Alignment explanation
Indices: 172192949--172193099 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
172192939 AAATTGAATG
* * *
172192949 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
172192988 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
172193028 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
172193068 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
172193100 ACGTGGTTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:172193113 original size:40 final size:40
Alignment explanation
Indices: 172192986--172193115 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
172192976 ATGCTGGAAA
* * *
172192986 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
172193026 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
172193066 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
172193106 TTATATCCGG
1 TTATATCCGG
172193116 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:172197249 original size:78 final size:80
Alignment explanation
Indices: 172197053--172197256 Score: 281
Period size: 78 Copynumber: 2.6 Consensus size: 80
172197043 GGGACATAGC
* * * *
172197053 CCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAAACCGGATTTAGTAACTCGCACAAATG
1 CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGACCGGATTTAGTAACTCGCACAAATG
172197118 CCTTCGGATCTTAGT
66 CCTTCGGATCTTAGT
* * *
172197133 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC-GATTTAGTAACT-GCACAAAT
1 CCGGATATAGTAACTAGCACAAATGCCTTCGGGA-CTTAGACCGGATTTAGTAACTCGCACAAAT
172197195 GCCTTCGGATCTTAGT
65 GCCTTCGGATCTTAGT
* *
172197211 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAT
1 CCGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGACCGGAT
172197257 ATCATTCGAA
Statistics
Matches: 111, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
78 49 0.44
79 29 0.26
80 33 0.30
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (80 bp):
CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGACCGGATTTAGTAACTCGCACAAATG
CCTTCGGATCTTAGT
Found at i:172197255 original size:40 final size:40
Alignment explanation
Indices: 172197013--172197258 Score: 263
Period size: 40 Copynumber: 6.2 Consensus size: 40
172197003 CGGAGTTTAA
** * * *
172197013 CCGGATATAGCT-ACTCGTTCAAATACCTTCGGGA-CATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTC-GGATCTTAGT
* * **
172197053 CCGGTTATAGTAGCTCGCACAAATGCCTTCGGGA-CTTAAA
1 CCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
*
172197093 CCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGT
*
172197133 CCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGT
*
172197173 CC-GATTTAGTAACT-GCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGT
* * *
172197211 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGA-CTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTC-GGATCTTAGT
172197251 CCGGATAT
1 CCGGATAT
172197259 CATTCGAAGA
Statistics
Matches: 184, Mismatches: 16, Indels: 12
0.87 0.08 0.06
Matches are distributed among these distances:
38 26 0.14
39 25 0.14
40 123 0.67
41 10 0.05
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGT
Found at i:172199744 original size:40 final size:40
Alignment explanation
Indices: 172199685--172199893 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
172199675 CAATTGAATG
* * * *
172199685 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
172199725 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
172199765 ACATCCAGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCC-GGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
172199806 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
172199846 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
172199886 ATATCCGG
1 ATATCCGG
172199894 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
40 110 0.77
41 32 0.23
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:172199826 original size:81 final size:80
Alignment explanation
Indices: 172199686--172199893 Score: 240
Period size: 81 Copynumber: 2.6 Consensus size: 80
172199676 AATTGAATGA
* * ** * * *
172199686 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
172199751 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
172199764 TACATCCAGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGG
1 T--ATCC-GGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG
* *
172199829 CATTTGTGCAAGTCGTTC
63 CAATTGTGCAAGTCGTAC
* *
172199847 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
172199894 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 1 0.01
80 43 0.39
81 62 0.57
82 1 0.01
83 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:172205123 original size:38 final size:39
Alignment explanation
Indices: 172205031--172205143 Score: 156
Period size: 38 Copynumber: 2.9 Consensus size: 39
172205021 TATGGTAACC
** * *
172205031 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
172205071 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
172205110 CGC-CAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
172205144 TCGAACATTC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
38 30 0.46
39 20 0.31
40 15 0.23
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:172212503 original size:39 final size:39
Alignment explanation
Indices: 172212385--172212567 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
172212375 TCGTTCAAAC
* * ** * **
172212385 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
172212425 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
172212465 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
172212504 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
172212543 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
172212568 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:172218447 original size:57 final size:58
Alignment explanation
Indices: 172218386--172218515 Score: 165
Period size: 57 Copynumber: 2.3 Consensus size: 58
172218376 ATTTAAGCCC
* * * *
172218386 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTA-ATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * **
172218443 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
172218501 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
172218516 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 36 0.57
58 27 0.43
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:172218472 original size:29 final size:29
Alignment explanation
Indices: 172218357--172218515 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
172218347 ACTCGATTTC
* * **
172218357 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
172218386 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
172218414 CGCACACCCAGTGCCGTA-ATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
172218443 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
172218472 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
172218501 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
172218516 ATCTCGTCAC
Statistics
Matches: 110, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
28 22 0.20
29 88 0.80
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:172226508 original size:29 final size:29
Alignment explanation
Indices: 172226418--172226577 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
172226408 ACTCGATTTC
* * **
172226418 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
172226447 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
172226475 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
172226505 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
172226534 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
172226563 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
172226578 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:172234565 original size:29 final size:29
Alignment explanation
Indices: 172234475--172234634 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
172234465 ACTCGATTTC
* * **
172234475 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
172234504 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
172234532 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
172234562 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
172234591 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
172234620 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
172234635 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:172239626 original size:40 final size:38
Alignment explanation
Indices: 172239447--172239628 Score: 259
Period size: 38 Copynumber: 4.9 Consensus size: 38
172239437 AATGTTCGAG
172239447 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGC--
1 TGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
172239484 TGATACCGGGCTAAGCCCGAAGGCAATTGT--GAGCTA
1 TGATACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
172239520 TG--ACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
172239556 TGATACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
172239594 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATA-CCGGGCTAAG-CCCGAAGGCAATTGTGCG
172239629 GGTTACCATA
Statistics
Matches: 133, Mismatches: 4, Indels: 13
0.89 0.03 0.09
Matches are distributed among these distances:
34 30 0.23
36 35 0.26
37 5 0.04
38 37 0.28
39 9 0.07
40 17 0.13
ACGTcount: A:0.24, C:0.23, G:0.32, T:0.21
Consensus pattern (38 bp):
TGATACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:172239644 original size:40 final size:39
Alignment explanation
Indices: 172239447--172239658 Score: 235
Period size: 40 Copynumber: 5.6 Consensus size: 39
172239437 AATGTTCGAG
* *
172239447 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG--C
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
172239484 TGAT-ACCGGGCTAAGCCCGAAGGCAATTGT--GAGCTA
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
172239520 TG---ACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
172239556 TGAT-ACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * * *
172239594 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATAACCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** *
172239634 CCATAACCGGGCTATGTCCCGAAGG
1 TGATAACCGGGCTAAG-CCCGAAGG
172239659 TGTTTTGAAC
Statistics
Matches: 153, Mismatches: 14, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
34 29 0.19
36 35 0.23
37 4 0.03
38 36 0.24
39 9 0.06
40 40 0.26
ACGTcount: A:0.24, C:0.23, G:0.32, T:0.21
Consensus pattern (39 bp):
TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:172247606 original size:39 final size:39
Alignment explanation
Indices: 172247552--172247771 Score: 305
Period size: 39 Copynumber: 5.6 Consensus size: 39
172247542 AATGTTCGAG
172247552 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
172247591 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
172247630 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * * *
172247669 TGATACCCGGGCTAAGCCCGAAGGCAGTTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * * * *
172247708 TGATATCCGGGTTCAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTA
** * *
172247748 CCATAACCGGGCTATGCCCGAAGG
1 TGATATCCGGGCTAAGCCCGAAGG
172247772 TGTTTTGAAC
Statistics
Matches: 162, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 132 0.81
40 30 0.19
ACGTcount: A:0.23, C:0.24, G:0.32, T:0.21
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:172250341 original size:20 final size:20
Alignment explanation
Indices: 172250312--172250392 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
172250302 CCTTTATGGA
*
172250312 GCATTTTGTTAGCCTTTGTG
1 GCATTCTGTTAGCCTTTGTG
*
172250332 GCATTCTGTTACCCTTTGTG
1 GCATTCTGTTAGCCTTTGTG
* * * * *
172250352 ACATTATGATATGGCTTTTTTG
1 GCATTCTG-T-TAGCCTTTGTG
172250374 GCATTCTGTTAG-CTTTGTG
1 GCATTCTGTTAGCCTTTGTG
172250393 ACATACTATG
Statistics
Matches: 46, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
19 5 0.11
20 26 0.57
21 2 0.04
22 13 0.28
ACGTcount: A:0.14, C:0.16, G:0.22, T:0.48
Consensus pattern (20 bp):
GCATTCTGTTAGCCTTTGTG
Found at i:172250745 original size:14 final size:15
Alignment explanation
Indices: 172250726--172250755 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
172250716 GTTTATTATA
172250726 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
172250740 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
172250755 T
1 T
172250756 CTAATTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:172252743 original size:43 final size:43
Alignment explanation
Indices: 172252678--172252800 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 43
172252668 GCTGGTGAAT
* * **
172252678 AATATTATTAGGCTTCGGGCCTAGCAGGCTATAATGCCGATGA
1 AATAATATCAGGCTTCAAGCCTAGCAGGCTATAATGCCGATGA
* * **
172252721 GATAATATCGGGCTTTGAGCCTAGCAGGCTATAATGCCGATGA
1 AATAATATCAGGCTTCAAGCCTAGCAGGCTATAATGCCGATGA
* *
172252764 AATGATATCAGGCTTCAAGCCTAGCAGGCGA-AATGCC
1 AATAATATCAGGCTTCAAGCCTAGCAGGCTATAATGCC
172252801 AGTGAATGAG
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 6 0.09
43 62 0.91
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.24
Consensus pattern (43 bp):
AATAATATCAGGCTTCAAGCCTAGCAGGCTATAATGCCGATGA
Found at i:172252829 original size:41 final size:43
Alignment explanation
Indices: 172252696--172252833 Score: 131
Period size: 43 Copynumber: 3.3 Consensus size: 43
172252686 TAGGCTTCGG
* * * * * **
172252696 GCCTAGCAGGCTATAATGCCGATGAGATAATATCGGGCTTTGA
1 GCCTAGCAGGCGATAATGCCGATGAAATGATATCAGACTTAAA
* * *
172252739 GCCTAGCAGGCTATAATGCCGATGAAATGATATCAGGCTTCAA
1 GCCTAGCAGGCGATAATGCCGATGAAATGATATCAGACTTAAA
172252782 GCCTAGCAGGCGA-AATGCC-AGTG-AATGAGT-TCAGACTTAAA
1 GCCTAGCAGGCGATAATGCCGA-TGAAATGA-TATCAGACTTAAA
*
172252823 GTCTAGCAGGC
1 GCCTAGCAGGC
172252834 TTCGTGCCGG
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
41 25 0.30
42 9 0.11
43 50 0.60
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (43 bp):
GCCTAGCAGGCGATAATGCCGATGAAATGATATCAGACTTAAA
Found at i:172254198 original size:38 final size:38
Alignment explanation
Indices: 172254156--172254280 Score: 105
Period size: 38 Copynumber: 3.2 Consensus size: 38
172254146 TATCACATTG
172254156 TCGAGTCTACGTTATCAGCGTAAGTAAATCTTAGTGTT
1 TCGAGTCTACGTTATCAGCGTAAGTAAATCTTAGTGTT
* * * * ** *
172254194 TCGAGTCTATGGCATGTAT-AGGGT-TGATATTATCACA-T-TG
1 TCGAGTCTA---CGT-TATCAGCGTAAG-TA-AATCTTAGTGTT
172254234 TCGAGTCTACGTTATCAGCGTAAGTAAATCTTAGTGTT
1 TCGAGTCTACGTTATCAGCGTAAGTAAATCTTAGTGTT
172254272 TCGAGTCTA
1 TCGAGTCTA
172254281 TGGCATGTAT
Statistics
Matches: 63, Mismatches: 14, Indels: 20
0.65 0.14 0.21
Matches are distributed among these distances:
36 7 0.11
37 9 0.14
38 20 0.32
40 11 0.17
41 9 0.14
42 7 0.11
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (38 bp):
TCGAGTCTACGTTATCAGCGTAAGTAAATCTTAGTGTT
Found at i:172254270 original size:78 final size:78
Alignment explanation
Indices: 172254141--172254297 Score: 314
Period size: 78 Copynumber: 2.0 Consensus size: 78
172254131 GGCCATCAGA
172254141 GATATTATCACATTGTCGAGTCTACGTTATCAGCGTAAGTAAATCTTAGTGTTTCGAGTCTATGG
1 GATATTATCACATTGTCGAGTCTACGTTATCAGCGTAAGTAAATCTTAGTGTTTCGAGTCTATGG
172254206 CATGTATAGGGTT
66 CATGTATAGGGTT
172254219 GATATTATCACATTGTCGAGTCTACGTTATCAGCGTAAGTAAATCTTAGTGTTTCGAGTCTATGG
1 GATATTATCACATTGTCGAGTCTACGTTATCAGCGTAAGTAAATCTTAGTGTTTCGAGTCTATGG
172254284 CATGTATAGGGTT
66 CATGTATAGGGTT
172254297 G
1 G
172254298 TAAAGTTGAA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (78 bp):
GATATTATCACATTGTCGAGTCTACGTTATCAGCGTAAGTAAATCTTAGTGTTTCGAGTCTATGG
CATGTATAGGGTT
Found at i:172268658 original size:50 final size:47
Alignment explanation
Indices: 172268502--172268669 Score: 162
Period size: 48 Copynumber: 3.5 Consensus size: 47
172268492 TTTGTGTGCC
* * * *
172268502 AGTGTAAGA-CATGTTTGGGACAT-GCATTGGCCAC-ATTATGAGAACC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGA-TATGAGAGCT
* * * * * *
172268548 AGTATAAGACCATGTCTAGGACATGGCATCGACATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGATATGAGAGCT
*
172268596 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACGGATATGTAAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GATATG--AGAGCT
172268646 AGTGTAAGACCATGTCTGGGACAT
1 AGTGTAAGACCATGTCTGGGACAT
172268670 TGTAACACCC
Statistics
Matches: 97, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
46 8 0.08
47 14 0.14
48 45 0.46
49 1 0.01
50 29 0.30
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATGAGAGCT
Found at i:172270074 original size:40 final size:40
Alignment explanation
Indices: 172270029--172270196 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
172270019 CGGAATATAA
172270029 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
172270069 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
172270109 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
172270149 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
172270189 CCGGATAT
1 CCGGATAT
172270197 CATTCAATTT
Statistics
Matches: 103, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 102 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:172270179 original size:80 final size:80
Alignment explanation
Indices: 172270045--172270194 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
172270035 ATAATCACGT
* *
172270045 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
172270110 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
172270125 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
172270188 CCCGGAT
64 CCCGGAT
172270195 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:172278089 original size:40 final size:40
Alignment explanation
Indices: 172278038--172278188 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
172278028 TATAACACGT
*
172278038 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* * *
172278078 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAGAATG--TCTC
* * *
172278118 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-C
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
* * *
172278157 AGCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATA
172278189 TTTTTTTCTC
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 83 0.91
41 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
Found at i:172278172 original size:80 final size:80
Alignment explanation
Indices: 172278038--172278187 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
172278028 TATAACACGT
* *
172278038 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
172278103 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
172278118 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
172278181 CCCGGAT
64 CCCGGAT
172278188 ATTTTTTTCT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:172280552 original size:41 final size:41
Alignment explanation
Indices: 172280507--172280624 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
172280497 TGAAAGATAA
172280507 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
172280548 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
172280578 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
172280619 ATGTAG
1 ATGTAG
172280625 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:172280563 original size:71 final size:71
Alignment explanation
Indices: 172280475--172280638 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
172280465 GAGATGTATC
172280475 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
172280540 AGGACA
66 AGGACA
172280546 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
172280611 AGGACA
66 AGGACA
172280617 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
172280639 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:172293643 original size:38 final size:40
Alignment explanation
Indices: 172293546--172293726 Score: 232
Period size: 40 Copynumber: 4.6 Consensus size: 40
172293536 TCGAATGATG
* * *
172293546 TCCGGGCTAAGTCCGAAGGC-TTTATGCTAAGTGACTATAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGC-GAGTTACTATAA
*
172293586 -CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATAA
172293625 TCCGGG-TAAGTCCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAA
*
172293663 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAA
*
172293704 -CCGGGCTACGTCC-AAGGCATTTG
1 TCCGGGCTAAGTCCGAAGGCATTTG
172293727 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 7, Indels: 14
0.86 0.05 0.09
Matches are distributed among these distances:
38 44 0.34
39 22 0.17
40 54 0.42
41 8 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:172293684 original size:78 final size:81
Alignment explanation
Indices: 172293546--172293726 Score: 234
Period size: 78 Copynumber: 2.3 Consensus size: 81
172293536 TCGAATGATG
*
172293546 TCCGGGCTAAGTCCGAAGGC-TTTATGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
172293610 GTGCGAGTTACTA-AA
66 GTGCGAGTTACTATAA
* * **
172293625 TCCGGG-TAAGTCCGAAGGCATTTGTGC-GAGTTACTA-AATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGTGACTATAA-CCGGACTAAGAT-CCGAAGGCAT
172293686 TTGTGCGAGTTACTATAA
64 TTGTGCGAGTTACTATAA
*
172293704 -CCGGGCTACGTCC-AAGGCATTTG
1 TCCGGGCTAAGTCCGAAGGCATTTG
172293727 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
77 3 0.03
78 68 0.75
79 20 0.22
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATAA
Found at i:172293733 original size:78 final size:77
Alignment explanation
Indices: 172293598--172293749 Score: 211
Period size: 78 Copynumber: 2.0 Consensus size: 77
172293588 GGACTAAGAT
**
172293598 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTAAGTCCGAAGGCATTTGTGCGAGTTA-CTAA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTAAGTCCGAAGGCATTTGAACGAG-TAGCTAA
172293662 ATCCGGGTTAAGTC
65 ATCC-GGTTAAGTC
*
172293676 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTACGTCC-AAGGCATTTGAACGAGTAGCTA
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGG-TAAGTCCGAAGGCATTTGAACGAGTAGCTA
*
172293739 TATCCGGTTAA
64 AATCCGGTTAA
172293750 ACTCCAGAGG
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
77 8 0.12
78 51 0.76
79 8 0.12
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTAAGTCCGAAGGCATTTGAACGAGTAGCTAAA
TCCGGTTAAGTC
Found at i:172295225 original size:45 final size:47
Alignment explanation
Indices: 172295068--172295327 Score: 372
Period size: 46 Copynumber: 5.6 Consensus size: 47
172295058 TTGGCCACTC
*
172295068 GGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
* *
172295115 GGCCTTATCATATATATATACACCTT-ACATTCATCACATCGGCCATTA
1 GGCCTTATC--ACATATATACACTTTCACATTCATCACATCGGCCATTA
*
172295163 GGCCTTATCACATATATACACTTTCACATTCA-CACATCGGCC-GTA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
* *
172295208 GGCCTTATCACATATATATAC-CTCACA-TCATCACATCGGCCATTA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
172295253 GGCCTTATCACATATATACACTTTCACATTCATC-CATCGGCCATTA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
*
172295299 GGCCTTAT-ACGTATATATACATTTTCACA
1 GGCCTTATCAC--ATATATACACTTTCACA
172295328 AATTTTAATA
Statistics
Matches: 192, Mismatches: 12, Indels: 18
0.86 0.05 0.08
Matches are distributed among these distances:
43 3 0.02
44 15 0.08
45 46 0.24
46 48 0.25
47 37 0.19
48 30 0.16
49 13 0.07
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.32
Consensus pattern (47 bp):
GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
Found at i:172295276 original size:90 final size:93
Alignment explanation
Indices: 172295068--172295318 Score: 404
Period size: 90 Copynumber: 2.7 Consensus size: 93
172295058 TTGGCCACTC
* *
172295068 GGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCATATATATA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
172295133 TACACCTTACATTCATCACATCGGCCATTA
66 T--ACCTCACATTCATCACATCGGCCATTA
*
172295163 GGCCTTATCACATATATACACTTTCACATTCA-CACATCGGCC-GTAGGCCTTATCACATATATA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
172295226 TACCTCACA-TCATCACATCGGCCATTA
66 TACCTCACATTCATCACATCGGCCATTA
*
172295253 GGCCTTATCACATATATACACTTTCACATTCATC-CATCGGCCATTAGGCCTTAT-ACGTATATA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
172295316 TAC
66 TAC
172295319 ATTTTCACAA
Statistics
Matches: 148, Mismatches: 6, Indels: 9
0.91 0.04 0.06
Matches are distributed among these distances:
90 69 0.47
91 18 0.12
93 20 0.14
94 9 0.06
95 32 0.22
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.32
Consensus pattern (93 bp):
GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
TACCTCACATTCATCACATCGGCCATTA
Found at i:172301846 original size:40 final size:40
Alignment explanation
Indices: 172301802--172301934 Score: 223
Period size: 40 Copynumber: 3.3 Consensus size: 40
172301792 GGACTAAGAT
172301802 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
172301842 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
172301882 CCGAAGGCATTTGTGCGAGTTACTGTAA-CCGGGCTACGTC
1 CCGAAGGCATTTGTGCGAGTTACT-AAATCCGGGTTAAGTC
172301922 CCGAAGGCATTTG
1 CCGAAGGCATTTG
172301935 AATGAGTAGC
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
40 87 0.98
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:172301952 original size:80 final size:79
Alignment explanation
Indices: 172301802--172301957 Score: 208
Period size: 80 Copynumber: 2.0 Consensus size: 79
172301792 GGACTAAGAT
* **
172301802 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTA
172301867 AATCCGGGTTAAGTC
66 AATCC-GGTTAAGTC
* * *
172301882 CCGAAGGCATTTGTGCGAGTTACTGTAA-CCGGGCTACGTCCCGAAGGCATTTGAATGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACT-AAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTA-C
*
172301945 TATATCCGGTTAA
64 TAAATCCGGTTAA
172301958 ACTCCGAAGG
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
79 8 0.12
80 57 0.85
81 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTA
AATCCGGTTAAGTC
Found at i:172303367 original size:49 final size:49
Alignment explanation
Indices: 172303288--172303458 Score: 274
Period size: 49 Copynumber: 3.5 Consensus size: 49
172303278 CCACTCGGCT
* *
172303288 TTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCC
1 TTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCC
*
172303335 TTATCACATATATATACACCTTCACATTCATCACATCGGCCGTTAGGCC
1 TTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCC
*
172303384 TTATCACATATATATACACCTTCACATTCATCACATCGACCATTAGGCC
1 TTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCC
* *
172303433 TTATCACGTATATATACACTTTCACA
1 TTATCACATATATATACACCTTCACA
172303459 AATTTTAATA
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
47 7 0.06
49 108 0.94
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
TTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCC
Found at i:172307762 original size:15 final size:14
Alignment explanation
Indices: 172307737--172307799 Score: 72
Period size: 15 Copynumber: 4.2 Consensus size: 14
172307727 CATAGTATCA
172307737 TATCTTGGGTTTCTT
1 TATC-TGGGTTTCTT
172307752 TACTCTGGGTTTCTT
1 TA-TCTGGGTTTCTT
*
172307767 TATTCTGGGTTTCTC
1 TA-TCTGGGTTTCTT
*
172307782 TATCTTGGATTTCTT
1 TATC-TGGGTTTCTT
172307797 TAT
1 TAT
172307800 TCAGTTTTCT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
14 2 0.05
15 38 0.90
16 2 0.05
ACGTcount: A:0.10, C:0.16, G:0.17, T:0.57
Consensus pattern (14 bp):
TATCTGGGTTTCTT
Found at i:172307776 original size:30 final size:30
Alignment explanation
Indices: 172307742--172307801 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
172307732 TATCATATCT
* *
172307742 TGGGTTTCTTTA-CTCTGGGTTTCTTTATTC
1 TGGGTTTCTCTATCT-TGGATTTCTTTATTC
172307772 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTCTATCTTGGATTTCTTTATTC
172307802 AGTTTTCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.08, C:0.17, G:0.18, T:0.57
Consensus pattern (30 bp):
TGGGTTTCTCTATCTTGGATTTCTTTATTC
Found at i:172311038 original size:26 final size:26
Alignment explanation
Indices: 172311009--172311149 Score: 138
Period size: 27 Copynumber: 5.3 Consensus size: 26
172310999 ATCCCTATTT
* *
172311009 AAAATACTTTGGTTTACAAAATTACC
1 AAAATACCTTGGTTTATAAAATTACC
* * * *
172311035 AAAATACCCTGCTTTGTAAAATTACT
1 AAAATACCTTGGTTTATAAAATTACC
172311061 AAAATACCCTTGGTTTATAAAATTACC
1 AAAATA-CCTTGGTTTATAAAATTACC
* * * *
172311088 AAAATACCCCTAGTTTGTAAAATTATC
1 AAAATA-CCTTGGTTTATAAAATTACC
* * *
172311115 AAAATACCCCTAGTTTGTAAAATTACC
1 AAAATA-CCTTGGTTTATAAAATTACC
172311142 AAAATACC
1 AAAATACC
172311150 CCTAATTTGT
Statistics
Matches: 99, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 28 0.28
27 71 0.72
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (26 bp):
AAAATACCTTGGTTTATAAAATTACC
Found at i:172311091 original size:27 final size:27
Alignment explanation
Indices: 172311026--172311177 Score: 189
Period size: 27 Copynumber: 5.7 Consensus size: 27
172311016 TTTGGTTTAC
*
172311026 AAAATTACCAAAATA-CCCTGCTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
172311052 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
172311079 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
172311106 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
**
172311133 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
172311160 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
172311178 TCGACCTGTA
Statistics
Matches: 111, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 14 0.13
27 97 0.87
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:172311136 original size:54 final size:54
Alignment explanation
Indices: 172311020--172311177 Score: 214
Period size: 54 Copynumber: 2.9 Consensus size: 54
172311010 AAATACTTTG
* * *
172311020 GTTTACAAAATTACCAAAATA-CCCT-GCTTTGTAAAATTACTAAAATACCCTTG
1 GTTTATAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATACCCCTA
172311073 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTA-TCAAAATACCCCTA
1 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACT-AAAATACCCCTA
* * * *
172311127 GTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCC
1 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCC
172311178 TCGACCTGTA
Statistics
Matches: 94, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
53 21 0.22
54 71 0.76
55 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTA
Found at i:172311146 original size:81 final size:80
Alignment explanation
Indices: 172311026--172311247 Score: 223
Period size: 81 Copynumber: 2.8 Consensus size: 80
172311016 TTTGGTTTAC
* * * *
172311026 AAAATTACCAAAATACCCTGCTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAA
1 AAAATTATCAAAATACCCTGATTTGTAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAA
**
172311091 ATACCCCTAG-TTTGT
66 ATA-CCCTAGACCTGT
* * * * **
172311106 AAAATTATCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTG
1 AAAATTATCAAAATA-CCCTGA-TTTGTAAAATTACCAAAATACCCTTGATTTATAAAATTACCA
*
172311170 AAATACCCTCGACCTGT
64 AAATACCCTAGACCTGT
** * * * *
172311187 AAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTA
1 AAAATTATCAAAATACCCT-GATTTGTAAAATTACCAAAATACCCTTGATTTATAAAATTA
172311248 TCGTTTTACC
Statistics
Matches: 114, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
80 23 0.20
81 90 0.79
82 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (80 bp):
AAAATTATCAAAATACCCTGATTTGTAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAA
ATACCCTAGACCTGT
Found at i:172311188 original size:54 final size:54
Alignment explanation
Indices: 172311026--172311247 Score: 209
Period size: 54 Copynumber: 4.1 Consensus size: 54
172311016 TTTGGTTTAC
** * * *
172311026 AAAATTACCAAAATA-CCCTGCTTTGTAAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
* *
172311079 AAAATTACCAAAATACCCCTAGTTTGTAAAATTA-TCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACT-AAAATACCCTCGA-TTTGT
* * **
172311133 AAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
*** * * * * *
172311187 AAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTAT
1 AAAATTACCAAAATACCCCT-AATTTGTAAAATTACTAAAATACCCTCGATTTGT
*
172311241 AGAATTA
1 AAAATTA
172311248 TCGTTTTACC
Statistics
Matches: 138, Mismatches: 25, Indels: 11
0.79 0.14 0.06
Matches are distributed among these distances:
53 20 0.14
54 115 0.83
55 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
Found at i:172311191 original size:27 final size:27
Alignment explanation
Indices: 172311161--172311235 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
172311151 CTAATTTGTG
172311161 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
172311188 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
*
172311215 AAATTAC-CAAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
172311236 TTTATAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:172311546 original size:27 final size:27
Alignment explanation
Indices: 172311227--172311545 Score: 426
Period size: 27 Copynumber: 11.8 Consensus size: 27
172311217 ATTACCAAAG
* *
172311227 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
172311254 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
172311281 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
172311308 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
172311335 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
172311362 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* * *
172311389 TACCCCCGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
172311416 TACCCTCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
172311443 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
172311470 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
172311497 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
172311524 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
172311546 TAAAATACCC
Statistics
Matches: 261, Mismatches: 27, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.01
27 257 0.98
28 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:172311582 original size:81 final size:81
Alignment explanation
Indices: 172311200--172311589 Score: 264
Period size: 81 Copynumber: 4.8 Consensus size: 81
172311190 ATTATTGAAA
* ** * * ***
172311200 TACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATT
** *
172311265 TGTAAAATTACCGTTT
66 TACAGAATTACCGTTT
* **** * *****
172311281 TACCCTCGATTTACAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCGAT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGA-TTTATAGAATTACCGCAATACCCTCGAT
*
172311345 TTATAGAATTACCGTTT
65 TTACAGAATTACCGTTT
* * **** * * * * ***
172311362 TACCC-CTAATTTACATAATTACCGTTTTACCCCCGATTTACATAATTATCGTTTTACCCTCGAT
1 TACCCTC-GATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGAT
*
172311426 TTACATAATTACCGTTT
65 TTACAGAATTACCGTTT
* *** * *** *
172311443 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATT
*
172311508 TACAGAATTACTGTTT
66 TACAGAATTACCGTTT
* * * * *
172311524 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGT-GAAATTACCGCAATACCCTCAAT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAG-AATTACCGCAATACCCTCGAT
172311588 TT
65 TT
172311590 GTAAAACTAC
Statistics
Matches: 256, Mismatches: 48, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
80 3 0.01
81 251 0.98
82 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATT
TACAGAATTACCGTTT
Found at i:172312852 original size:9 final size:9
Alignment explanation
Indices: 172312840--172312896 Score: 60
Period size: 9 Copynumber: 5.9 Consensus size: 9
172312830 TTTGATAAAC
172312840 ATGATATGT
1 ATGATATGT
172312849 ATGATATGT
1 ATGATATGT
*
172312858 ACATGACATGT
1 --ATGATATGT
*
172312869 ATGATATGCAC
1 ATGATATG--T
172312880 ATGATATGT
1 ATGATATGT
172312889 ATGATATG
1 ATGATATG
172312897 CACACGAGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 24 0.60
11 16 0.40
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (9 bp):
ATGATATGT
Found at i:172312863 original size:20 final size:20
Alignment explanation
Indices: 172312838--172312900 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
172312828 ATTTTGATAA
*
172312838 ACATGATATGTATGATATGT
1 ACATGATATGTATGATATGC
*
172312858 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
172312878 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
172312898 ACA
1 ACA
172312901 CGAGATGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:172312986 original size:23 final size:23
Alignment explanation
Indices: 172312956--172313098 Score: 232
Period size: 23 Copynumber: 6.1 Consensus size: 23
172312946 AGGAAGTGAA
172312956 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
172312979 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
172313003 AAAGGGCTTATGCCCCAGTTATC
1 AAAGGGCTTATGCCCCAGTTATT
*
172313026 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
172313049 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
172313072 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
172313096 AAA
1 AAA
172313099 AGAGGCTAGG
Statistics
Matches: 112, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 68 0.61
24 44 0.39
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:172313024 original size:47 final size:46
Alignment explanation
Indices: 172312955--172313119 Score: 233
Period size: 47 Copynumber: 3.5 Consensus size: 46
172312945 GAGGAAGTGA
172312955 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
172313001 CAAAAGGGCTTATGCCCCAGTTATCAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
172313048 TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTA-T
*
172313096 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
172313120 ATATAAAGCA
Statistics
Matches: 106, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
46 22 0.21
47 63 0.59
48 10 0.09
49 11 0.10
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:172313069 original size:70 final size:70
Alignment explanation
Indices: 172312956--172313094 Score: 251
Period size: 70 Copynumber: 2.0 Consensus size: 70
172312946 AGGAAGTGAA
*
172312956 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
1 AAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
172313021 TTATC
66 TTATC
* *
172313026 AAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAG
1 AAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
172313091 TTAT
66 TTAT
172313095 TAAAAGAGGC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (70 bp):
AAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
TTATC
Found at i:172313345 original size:31 final size:31
Alignment explanation
Indices: 172313310--172313373 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
172313300 CGTTTACAGT
*
172313310 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
172313341 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
172313372 AA
1 AA
172313374 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:172316536 original size:40 final size:39
Alignment explanation
Indices: 172316491--172316698 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
172316481 CGGAATACAA
*
172316491 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
172316531 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
172316571 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
172316611 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
172316651 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
172316691 CCGGATAT
1 CCGGATAT
172316699 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:172316631 original size:80 final size:80
Alignment explanation
Indices: 172316491--172316697 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
172316481 CGGAATACAA
* * *
172316491 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
172316555 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
172316571 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
172316635 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
172316651 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
172316698 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:172323257 original size:40 final size:39
Alignment explanation
Indices: 172323213--172323338 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
172323203 GGGACTCAAC
*
172323213 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
172323253 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
172323293 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
172323333 CCGGAT
1 CCGGAT
172323339 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:172323297 original size:80 final size:80
Alignment explanation
Indices: 172323152--172323338 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
172323142 GCTACACATT
* * *
172323152 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
172323216 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
172323232 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
172323295 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
172323313 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
172323339 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:172331362 original size:40 final size:40
Alignment explanation
Indices: 172331252--172331408 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
172331242 GCCCGGTTAC
* **
172331252 AGTAACTCGCACGAATGCCTTCGGGA-CTCAACCCGGATTT
1 AGTAACTCGCACGAATGCCTTC-GGATCTTAGTCCGGATTT
* * *
172331292 AGTAGCT-GCTCGAAAGCCTTCGGATCTTAGTCCGGATTT
1 AGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGGATTT
* *
172331331 AGTAACTCGCACGTATGCCGTCGGATCTTAGTCCGGATTT
1 AGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGGATTT
* * * *
172331371 AGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGCCCGGAT
1 AGTAAC-TCGCACGAATGCCTTC-GGATCTTAGTCCGGAT
172331409 ATCATTCGAA
Statistics
Matches: 96, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
38 3 0.03
39 29 0.30
40 56 0.58
41 8 0.08
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
AGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGGATTT
Found at i:172334459 original size:46 final size:46
Alignment explanation
Indices: 172334409--172334584 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
172334399 TGGTTGAGCA
*
172334409 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
172334455 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
172334502 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
172334548 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
172334585 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 72 0.67
47 35 0.33
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:172334565 original size:93 final size:93
Alignment explanation
Indices: 172334406--172334576 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
172334396 GGATGGTTGA
* *
172334406 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
172334471 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
172334499 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
172334564 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
172334577 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:172337550 original size:15 final size:15
Alignment explanation
Indices: 172337512--172337555 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
172337502 CATAGTATCG
* *
172337512 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
172337527 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
172337542 TATCTTGGATTTCT
1 TATCTTGGATTTCT
172337556 TTATTCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:172339998 original size:46 final size:46
Alignment explanation
Indices: 172339948--172340123 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
172339938 TGGTTGAGCA
*
172339948 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
172339994 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
172340041 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
172340087 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
172340124 GCGGTTACAT
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 72 0.67
47 35 0.33
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:172340104 original size:93 final size:93
Alignment explanation
Indices: 172339945--172340115 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
172339935 GGATGGTTGA
* *
172339945 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
172340010 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
172340038 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
172340103 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
172340116 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:172345217 original size:39 final size:39
Alignment explanation
Indices: 172345136--172345376 Score: 428
Period size: 39 Copynumber: 6.2 Consensus size: 39
172345126 TATGGTAACC
* * *
172345136 CGCACAAATGCCTTCGGGACTTAACCTGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
172345176 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
172345215 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
172345254 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
172345293 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
172345332 AGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
172345371 CGCACA
1 CGCACA
172345377 TTCATACACA
Statistics
Matches: 195, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
39 178 0.91
40 17 0.09
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:172353254 original size:39 final size:39
Alignment explanation
Indices: 172353176--172353376 Score: 359
Period size: 39 Copynumber: 5.2 Consensus size: 39
172353166 TATGGTAACC
* *
172353176 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
172353216 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
172353255 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
172353294 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
172353333 -GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
172353371 CGCACA
1 CGCACA
172353377 TTCATACACA
Statistics
Matches: 157, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
38 37 0.24
39 103 0.66
40 17 0.11
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:172358301 original size:43 final size:43
Alignment explanation
Indices: 172357964--172358294 Score: 599
Period size: 43 Copynumber: 7.7 Consensus size: 43
172357954 CACTGGCATT
* *
172357964 AAGCCTGCTAGGCACGAAGACCCGAATACATATCACCGGTACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
*
172358007 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
*
172358050 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
172358093 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
*
172358136 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACTGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
*
172358179 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
172358222 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
*
172358265 AAGCCTGCTAGGCACGAAGGCCTGAATACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACA
172358295 CGTCACCAGC
Statistics
Matches: 279, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 279 1.00
ACGTcount: A:0.32, C:0.31, G:0.23, T:0.13
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
Found at i:172358443 original size:42 final size:40
Alignment explanation
Indices: 172358298--172358455 Score: 163
Period size: 40 Copynumber: 3.9 Consensus size: 40
172358288 GAATACACGT
* * * * * * *
172358298 CACCAGCATGACTGCTCTTCGGGACCTGGTCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * *
172358338 CACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
172358378 CACCAGCACGAATGCTCTACGGGACTTAACCCGGATATATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA-A
* *
172358419 TCGCCAGTACGAATGCTCTTCGGGACTTAGCCCGGAT
1 -CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
172358456 CATCGTCGAG
Statistics
Matches: 97, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 64 0.66
41 1 0.01
42 32 0.33
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:172365320 original size:40 final size:40
Alignment explanation
Indices: 172365275--172365441 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
172365265 CGGAATATAA
172365275 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
172365315 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
172365355 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
172365395 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
172365434 CCGGATAT
1 CCGGATAT
172365442 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:172373306 original size:40 final size:40
Alignment explanation
Indices: 172373261--172373428 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
172373251 CGGAATATAA
172373261 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
172373301 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
172373341 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
172373381 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
172373421 CCGGATAT
1 CCGGATAT
172373429 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:172381229 original size:40 final size:40
Alignment explanation
Indices: 172381141--172381270 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
172381131 ATGCTGGAAA
* * *
172381141 TTATATCCGGGTTAAGAACCGAAGGCAATT-GTGCTAG-CGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTC-G
* *
172381181 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
* * *
172381221 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
172381261 TTATATCCGG
1 TTATATCCGG
172381271 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
Found at i:172389119 original size:40 final size:39
Alignment explanation
Indices: 172388992--172389121 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
172388982 ATGCTGGAAA
* *
172388992 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
172389032 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
172389072 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
172389112 TTATATCCGG
1 TTATATCCGG
172389122 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:172395687 original size:40 final size:39
Alignment explanation
Indices: 172395642--172395771 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
172395632 CGGAATACAA
172395642 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
172395682 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
172395722 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
172395762 CCGGATATAA
1 CCGGATATAA
172395772 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:172403737 original size:40 final size:39
Alignment explanation
Indices: 172403692--172403821 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
172403682 CGGAATACAA
172403692 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
172403732 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
172403772 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
172403812 CCGGATATAA
1 CCGGATATAA
172403822 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:172407447 original size:18 final size:19
Alignment explanation
Indices: 172407413--172407452 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
172407403 TTTTTTGTGC
*
172407413 TGTTGTGCTCATTTTTTTT
1 TGTTGTCCTCATTTTTTTT
172407432 TGTTGTCCTC-TTTTTTTT
1 TGTTGTCCTCATTTTTTTT
172407450 TGT
1 TGT
172407453 CTTTTCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.03, C:0.12, G:0.15, T:0.70
Consensus pattern (19 bp):
TGTTGTCCTCATTTTTTTT
Found at i:172413988 original size:39 final size:40
Alignment explanation
Indices: 172413941--172414084 Score: 175
Period size: 39 Copynumber: 3.6 Consensus size: 40
172413931 AATGTTCGAG
172413941 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* * *
172413980 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* ** *
172414019 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
** * *
172414059 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAGTCCCGAAGGC
172414085 GTTTGAACGA
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 51 0.57
40 38 0.43
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.24
Consensus pattern (40 bp):
TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
Found at i:172421959 original size:39 final size:40
Alignment explanation
Indices: 172421912--172422055 Score: 175
Period size: 39 Copynumber: 3.6 Consensus size: 40
172421902 AATGTTCGAG
172421912 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* * *
172421951 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* ** *
172421990 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
** * *
172422030 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAGTCCCGAAGGC
172422056 GTTTGAACGA
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 51 0.57
40 38 0.43
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.24
Consensus pattern (40 bp):
TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
Found at i:172425202 original size:46 final size:46
Alignment explanation
Indices: 172425147--172425327 Score: 192
Period size: 46 Copynumber: 3.9 Consensus size: 46
172425137 TAGGATGGTT
172425147 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
172425193 GAGCGTCCGAACTCGTTGAGTTGAGTCTGAG-T---TTGTGAGATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATG---C
* *
172425239 TAGGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * * *
172425286 GAAC-GCCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 GAGCATCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
172425328 GCGGGTTACA
Statistics
Matches: 113, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 4 0.04
43 4 0.04
45 3 0.03
46 65 0.58
47 28 0.25
48 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:172425308 original size:93 final size:93
Alignment explanation
Indices: 172425149--172425318 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
172425139 GGATGGTTGA
*
172425149 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
172425214 TGAGTCTGAGTTTGTGAGATGTAACTAG
66 TGAGTCTGAGTTTGTGAGATGTAACTAG
* *
172425242 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
172425306 TTGAGTCTGAGTT
65 TTGAGTCTGAGTT
172425319 CACTTATGGG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCTGAGTTTGTGAGATGTAACTAG
Found at i:172429388 original size:28 final size:28
Alignment explanation
Indices: 172429319--172429419 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
172429309 GACAAGATTG
* * * *
172429319 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
172429349 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
172429377 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
172429406 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
172429420 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:172429413 original size:29 final size:28
Alignment explanation
Indices: 172429348--172429419 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
172429338 AAAATTGTAC
*
172429348 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
172429376 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
172429405 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
172429420 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:172437453 original size:28 final size:28
Alignment explanation
Indices: 172437384--172437484 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
172437374 GACAAGATTG
* * * *
172437384 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
172437414 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
172437442 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
172437471 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
172437485 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:172437478 original size:29 final size:28
Alignment explanation
Indices: 172437413--172437484 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
172437403 AAAATTGTAC
*
172437413 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
172437441 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
172437470 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
172437485 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:172437685 original size:17 final size:15
Alignment explanation
Indices: 172437654--172437688 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
172437644 TTGCAATTGT
172437654 ATGATTGTGGTGAAA
1 ATGATTGTGGTGAAA
172437669 ATGAGTTGTGTGTGAAA
1 ATGA-TTGTG-GTGAAA
172437686 ATG
1 ATG
172437689 CCTCAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 5 0.28
17 9 0.50
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (15 bp):
ATGATTGTGGTGAAA
Found at i:172444634 original size:27 final size:27
Alignment explanation
Indices: 172444596--172444684 Score: 126
Period size: 27 Copynumber: 3.2 Consensus size: 27
172444586 GTGACAGAGT
172444596 CACCAGATACAGATATTTGTGGCAGTGC
1 CACCAGA-ACAGATATTTGTGGCAGTGC
* *
172444624 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
172444651 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
172444679 CACCAG
1 CACCAG
172444685 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
27 31 0.56
28 24 0.44
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:172444643 original size:55 final size:55
Alignment explanation
Indices: 172444571--172444684 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 55
172444561 AGCATGGCTG
*
172444571 CCAGATACAGAAAATGTGACAGAGTCACCAGATACAGAT-ATTTGTGGCAGT-GCCA
1 CCAGATACAGAAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
172444626 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGA-AAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
172444681 CCAG
1 CCAG
172444685 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
54 12 0.23
55 40 0.77
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (55 bp):
CCAGATACAGAAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:172444837 original size:28 final size:28
Alignment explanation
Indices: 172444790--172444877 Score: 123
Period size: 28 Copynumber: 3.3 Consensus size: 28
172444780 AAATTAACCC
*
172444790 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
172444818 TAGGGGTATAATGGTAA-TTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
172444845 T-GGGG--TAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
172444870 TAGGGGTA
1 TAGGGGTA
172444878 CTCTAGTACA
Statistics
Matches: 54, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
24 9 0.17
25 11 0.20
26 8 0.15
27 12 0.22
28 14 0.26
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:172444869 original size:25 final size:26
Alignment explanation
Indices: 172444806--172444877 Score: 112
Period size: 25 Copynumber: 2.8 Consensus size: 26
172444796 TATAGAGGTC
172444806 ATTTTGCATACATAGGGGTATAATGGTA
1 ATTTTGCATACATAGGGG--TAATGGTA
172444834 A-TTTGCATACAT-GGGGTAATGGTA
1 ATTTTGCATACATAGGGGTAATGGTA
172444858 ATTTTGCATACATAGGGGTA
1 ATTTTGCATACATAGGGGTA
172444878 CTCTAGTACA
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.21
25 11 0.26
26 10 0.24
27 11 0.26
28 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (26 bp):
ATTTTGCATACATAGGGGTAATGGTA
Found at i:172445140 original size:8 final size:8
Alignment explanation
Indices: 172445124--172445155 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
172445114 CCCAAAATAC
172445124 CGGCTTTT
1 CGGCTTTT
*
172445132 CGGCATTT
1 CGGCTTTT
172445140 CGGCTTTT
1 CGGCTTTT
172445148 CGGCTTTT
1 CGGCTTTT
172445156 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:172448881 original size:27 final size:26
Alignment explanation
Indices: 172448851--172448943 Score: 125
Period size: 27 Copynumber: 3.6 Consensus size: 26
172448841 ACCCGTTTGT
172448851 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACTAAAATACCCTTGGTTTAT-A
* * *
172448878 AATTACCAAAATACCCCTGGTTTGTA
1 AATTACTAAAATACCCTTGGTTTATA
*
172448904 AATTACTAAAATACCCTTTG-TTATA
1 AATTACTAAAATACCCTTGGTTTATA
*
172448929 AATTACCAAAATACC
1 AATTACTAAAATACC
172448944 ATGGTTTGCA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
25 18 0.31
26 18 0.31
27 22 0.38
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.33
Consensus pattern (26 bp):
AATTACTAAAATACCCTTGGTTTATA
Found at i:172448914 original size:26 final size:26
Alignment explanation
Indices: 172448845--172448973 Score: 122
Period size: 26 Copynumber: 5.0 Consensus size: 26
172448835 AAAAATACCC
*
172448845 GTTTGT-AATTACTAAAATACCCTTG
1 GTTTGTAAATTACTAAAATACCCCTG
* *
172448870 GTTTATAAAATTACCAAAATACCCCTG
1 GTTTGT-AAATTACTAAAATACCCCTG
* *
172448897 GTTTGTAAATTACTAAAATACCCTTT
1 GTTTGTAAATTACTAAAATACCCCTG
* * *
172448923 G-TTATAAATTACCAAAATA-CCATG
1 GTTTGTAAATTACTAAAATACCCCTG
*
172448947 GTTTGCAAAATTAACT-AAATACCCCTG
1 GTTTG-TAAATT-ACTAAAATACCCCTG
172448974 TAGGGTAAAA
Statistics
Matches: 83, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
24 4 0.05
25 23 0.28
26 28 0.34
27 28 0.34
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (26 bp):
GTTTGTAAATTACTAAAATACCCCTG
Found at i:172448958 original size:51 final size:53
Alignment explanation
Indices: 172448851--172448970 Score: 167
Period size: 51 Copynumber: 2.3 Consensus size: 53
172448841 ACCCGTTTGT
* *
172448851 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCATGGTTTGAA
*
172448904 AATTACTAAAATACCCTTTG-TTAT-AAATTACCAAAATA-CCATGGTTTGCAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCATGGTTTG-AA
172448955 AATTAACT-AAATACCC
1 AATT-ACTAAAATACCC
172448971 CTGTAGGGTA
Statistics
Matches: 62, Mismatches: 3, Indels: 6
0.87 0.04 0.08
Matches are distributed among these distances:
50 9 0.15
51 27 0.44
52 7 0.11
53 19 0.31
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (53 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCATGGTTTGAA
Found at i:172448993 original size:27 final size:27
Alignment explanation
Indices: 172448953--172449015 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
172448943 CATGGTTTGC
* *
172448953 AAAATTAACTAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
*
172448980 AAAATTACCGAAATACCCTTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
*
172449007 AGAATTACC
1 AAAATTACC
172449016 ATTTTGCCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTGTAGGGT
Found at i:172448996 original size:78 final size:78
Alignment explanation
Indices: 172448851--172448999 Score: 176
Period size: 78 Copynumber: 1.9 Consensus size: 78
172448841 ACCCGTTTGT
* * * * ** *
172448851 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAATTACTAAAAT
1 AATTACCAAAATACCCATGGTTTACAAAATTAACAAAATACCCCTGGTGGGTAAATTACCAAAAT
172448916 ACCCTTTGTTATA
66 ACCCTTTGTTATA
* * *
172448929 AATTACCAAAATA-CCATGGTTTGCAAAATTAACTAAATACCCCT-GTAGGGTAAAATTACCGAA
1 AATTACCAAAATACCCATGGTTTACAAAATTAACAAAATACCCCTGGT-GGGT-AAATTACCAAA
172448992 ATACCCTT
64 ATACCCTT
172449000 GTAGGGTAGA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
76 2 0.03
77 28 0.47
78 29 0.49
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (78 bp):
AATTACCAAAATACCCATGGTTTACAAAATTAACAAAATACCCCTGGTGGGTAAATTACCAAAAT
ACCCTTTGTTATA
Found at i:172449663 original size:28 final size:28
Alignment explanation
Indices: 172449631--172449689 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
172449621 GCGTAGATCA
172449631 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
172449659 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
172449687 CGA
1 CGA
172449690 TATACCTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.17
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:172453510 original size:29 final size:28
Alignment explanation
Indices: 172453476--172453578 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
172453466 TACTCAATCA
*
172453476 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
172453505 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
172453534 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
172453563 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
172453579 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:172461496 original size:29 final size:28
Alignment explanation
Indices: 172461463--172461566 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 28
172461453 TGTGTAGAGT
172461463 TCGCACACTTAGTGCCATATGATTCAAGC
1 TCGCACACTTAGTGCCATAT-ATTCAAGC
* * * *
172461492 CCGCACACATAGTGCCATATAGTCCAAAC
1 TCGCACACTTAGTGCCATATA-TTCAAGC
* *
172461521 TCGCACACTTAGTGCCGTACATTACAAGC
1 TCGCACACTTAGTGCCATATATT-CAAGC
*
172461550 TCGCACACTCAGTGCCA
1 TCGCACACTTAGTGCCA
172461567 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.22
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATATATTCAAGC
Found at i:172465959 original size:23 final size:23
Alignment explanation
Indices: 172465933--172466153 Score: 243
Period size: 23 Copynumber: 9.7 Consensus size: 23
172465923 CAAAGTGCCA
* *
172465933 CACTGTAATATAGCCGAAGCTAT
1 CACTGTAATGTAGCCGAAGCTAC
* *
172465956 CACTGTAACGTAGTCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
* *
172465979 CACTGTATTGTAGCCAAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
172466002 CACTG-AGATGTAGCCAAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* *
172466025 CACTATATTGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
172466048 CACTG-AGATGTAGCCAAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* *
172466071 CACTGCATTGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
* *
172466094 CACTGTATTGTAGCTGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
172466117 CACTG-AGATGTAGCCGAA-CTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* *
172466139 CACTATATTGTAGCC
1 CACTGTAATGTAGCC
172466154 TATAGATTCC
Statistics
Matches: 169, Mismatches: 23, Indels: 13
0.82 0.11 0.06
Matches are distributed among these distances:
22 18 0.11
23 149 0.88
24 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGTAATGTAGCCGAAGCTAC
Found at i:172470129 original size:50 final size:50
Alignment explanation
Indices: 172470054--172470154 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
172470044 CTGACGATCC
172470054 CCGAGCCTGTAGCTTCCAAATGAGATCTATAAAATAGAGGAAACAAAGTA
1 CCGAGCCTGTAGCTTCCAAATGAGATCTATAAAATAGAGGAAACAAAGTA
*
172470104 CCGAGCCTGTAGCTTCCAAATGAGATCTATAAAGTAGAGGAAACAAAGTA
1 CCGAGCCTGTAGCTTCCAAATGAGATCTATAAAATAGAGGAAACAAAGTA
172470154 C
1 C
172470155 ACGGAGTAAG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.20
Consensus pattern (50 bp):
CCGAGCCTGTAGCTTCCAAATGAGATCTATAAAATAGAGGAAACAAAGTA
Found at i:172470834 original size:25 final size:25
Alignment explanation
Indices: 172470806--172470884 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
172470796 ACTCGGCCCT
*
172470806 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
172470831 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
172470853 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
172470878 ATCACAT
1 ATCACAT
172470885 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:172470982 original size:49 final size:49
Alignment explanation
Indices: 172470759--172471074 Score: 459
Period size: 47 Copynumber: 6.6 Consensus size: 49
172470749 TTCGGGACTC
* * * * * *
172470759 ATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
* *
172470806 ATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
172470853 ATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
172470900 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
172470947 ATCACATATATATACACTTTCACATTCATCGCATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
172470996 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
* *
172471045 ATCTCATATATATACACATTCACATTCATC
1 ATCACATATATATACACTTTCACATTCATC
172471075 GCATAAAATC
Statistics
Matches: 252, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 135 0.54
49 116 0.46
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (49 bp):
ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:172471118 original size:98 final size:94
Alignment explanation
Indices: 172470811--172471099 Score: 304
Period size: 98 Copynumber: 3.1 Consensus size: 94
172470801 GCCCTATCAC
* * *
172470811 ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATACACCTTCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACATTCAC
* * * * *
172470874 ATTCATCACATCGGCCATTAGGCCTTATC--AC
66 ATTCATCGCAT----CATAAAGCCTAATCAAAT
*
172470905 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACATTCAC
* * * *
172470970 ATTCATCGCATCGGCCATTAGGCCTTATCACAT
66 ATTCATCGCAT----CATAAAGCCTAATCAAAT
* *
172471003 ATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCTCATATATATACACATTCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACATTCAC
*
172471068 ATTCATCGCAT-A-AAATCCTAAATCAAA-
66 ATTCATCGCATCATAAAGCCT-AATCAAAT
172471095 ATATA
1 ATATA
172471100 AATTTTCATG
Statistics
Matches: 177, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
92 9 0.05
93 6 0.03
94 45 0.25
96 43 0.24
98 74 0.42
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (94 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACATTCAC
ATTCATCGCATCATAAAGCCTAATCAAAT
Found at i:172473953 original size:22 final size:22
Alignment explanation
Indices: 172473928--172473971 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
172473918 TCTTAAAACA
172473928 AATACATAAACATTTCTACAAG
1 AATACATAAACATTTCTACAAG
172473950 AATACATAAACATTTCTACAAG
1 AATACATAAACATTTCTACAAG
172473972 TATGCACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.18, G:0.05, T:0.27
Consensus pattern (22 bp):
AATACATAAACATTTCTACAAG
Found at i:172474899 original size:40 final size:40
Alignment explanation
Indices: 172474850--172475085 Score: 418
Period size: 40 Copynumber: 5.9 Consensus size: 40
172474840 CCAGCATGAT
* * *
172474850 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
172474890 TGCTCTTCGGGACTTAGTCCGGTTACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
172474930 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
172474970 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
172475010 TGCTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
172475050 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCA
172475086 ATTCTCATGT
Statistics
Matches: 189, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 189 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:172475860 original size:30 final size:31
Alignment explanation
Indices: 172475801--172475863 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
172475791 CCTTTTCATA
172475801 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
* **
172475832 TTTCATATTTCTTATTACTGGG-CGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
172475862 TT
1 TT
172475864 ACTGTAAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 10 0.34
31 19 0.66
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:172477628 original size:29 final size:29
Alignment explanation
Indices: 172477593--172477666 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
172477583 GTTGTGAGAT
* *
172477593 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
172477622 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
172477651 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
172477667 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:172485753 original size:29 final size:29
Alignment explanation
Indices: 172485718--172485791 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
172485708 GTTGTGAGAT
* *
172485718 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
172485747 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
172485776 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
172485792 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:172487552 original size:23 final size:23
Alignment explanation
Indices: 172487516--172487586 Score: 126
Period size: 23 Copynumber: 3.1 Consensus size: 23
172487506 CCTAGCCTCT
*
172487516 TTTATTAACT-GGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
172487538 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
172487561 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
172487584 TTT
1 TTT
172487587 TTCACTTCCT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 9 0.19
23 38 0.81
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:172487662 original size:20 final size:20
Alignment explanation
Indices: 172487637--172487703 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
172487627 TTATGATTAC
172487637 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
172487657 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
172487677 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
172487697 ACCATGT
1 ATCATGT
172487704 CTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:172487668 original size:11 final size:11
Alignment explanation
Indices: 172487637--172487692 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
172487627 TTATGATTAC
172487637 ATCATGTGCAT
1 ATCATGTGCAT
*
172487648 ATCA--TACAT
1 ATCATGTGCAT
172487657 ATCATGTGCAT
1 ATCATGTGCAT
*
172487668 ATCA--TACAT
1 ATCATGTGCAT
*
172487677 GTCATGTGCAT
1 ATCATGTGCAT
172487688 ATCAT
1 ATCAT
172487693 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:172487772 original size:25 final size:25
Alignment explanation
Indices: 172487740--172487787 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
172487730 ATACATAAAC
* * *
172487740 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
172487765 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
172487788 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:172496844 original size:40 final size:40
Alignment explanation
Indices: 172496785--172496915 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
172496775 CGGGACTTTA
* * *
172496785 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
172496825 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
172496865 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
172496905 CCCGGATATAA
1 CCCGGATATAA
172496916 TTTCAGCATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:172496948 original size:39 final size:40
Alignment explanation
Indices: 172496802--172496952 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
172496792 ATCACGATTT
* * * *
172496802 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
172496842 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
172496882 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
172496921 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
172496953 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.32
40 64 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:172500577 original size:46 final size:46
Alignment explanation
Indices: 172500527--172500699 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
172500517 TGGTTGAGCA
*
172500527 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
172500573 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
172500620 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
172500666 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
172500700 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:172500683 original size:93 final size:93
Alignment explanation
Indices: 172500524--172500694 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
172500514 GGATGGTTGA
* * *
172500524 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
172500589 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
172500617 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
172500682 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
172500695 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:172502938 original size:16 final size:16
Alignment explanation
Indices: 172502917--172502954 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
172502907 TAAATCAATA
172502917 GTTTTAAAATAAAAGT
1 GTTTTAAAATAAAAGT
172502933 GTTTTAAAATAAAAGT
1 GTTTTAAAATAAAAGT
172502949 GTTTTA
1 GTTTTA
172502955 TTTTCGGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (16 bp):
GTTTTAAAATAAAAGT
Found at i:172512489 original size:27 final size:26
Alignment explanation
Indices: 172512445--172512496 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
172512435 CTCGTTGCAA
*
172512445 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
172512472 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
172512497 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:172518591 original size:39 final size:40
Alignment explanation
Indices: 172518466--172518591 Score: 184
Period size: 40 Copynumber: 3.2 Consensus size: 40
172518456 GGACTAAGAT
* *
172518466 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGTC
*
172518506 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
* *
172518546 CCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
172518585 CCGAAGG
1 CCGAAGG
172518592 TACTTGGGTT
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 15 0.19
40 63 0.80
41 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
Found at i:172523389 original size:17 final size:18
Alignment explanation
Indices: 172523347--172523395 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
172523337 AGTTGAAAAG
172523347 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
172523366 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
172523383 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
172523396 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Done.