Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 295 of 427
Found at i:85340831 original size:24 final size:24
Alignment explanation
Indices: 85340799--85340861 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
85340789 AGAAAATACA
* ** *
85340799 GCACTATGTGTGCTAGATTATATG
1 GCACTATGTGTGCGAGAAAACATG
*
85340823 GCACTATGTGTACGAGAAAACATG
1 GCACTATGTGTGCGAGAAAACATG
85340847 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
85340862 ATAAGTAAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (24 bp):
GCACTATGTGTGCGAGAAAACATG
Found at i:85341024 original size:2 final size:2
Alignment explanation
Indices: 85341014--85341072 Score: 102
Period size: 2 Copynumber: 30.0 Consensus size: 2
85341004 TTTTGGTTTG
*
85341014 TA TA T- TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
85341055 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
85341073 CGTCAATGGT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:85349330 original size:40 final size:40
Alignment explanation
Indices: 85349285--85349414 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
85349275 CGGAATACAA
85349285 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
85349325 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
85349365 CCGGATGTAGCCGCTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAAT-GCCTTCGGGTCTTAGC
85349405 CCGGATATAA
1 CCGGATATAA
85349415 TTTCCAGCAA
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:0.29, G:0.26, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:85352689 original size:46 final size:46
Alignment explanation
Indices: 85352509--85352775 Score: 140
Period size: 46 Copynumber: 5.7 Consensus size: 46
85352499 GGTAAGGTGC
* * *
85352509 CGATGCCATGTCCCAGACACAGTCTTACACTAGCTCACATCTCAAGT
1 CGATGCCATGTCCCAGACA-AGTCTTACACTAGCACTCATCTCGAGT
*
85352556 CGATGCCATATCCCAGA-AATGGTCTTACACT-G-ACTATCATCTCGTAGT
1 CGATGCCATGTCCCAGACAA--GTCTTACACTAGCAC--TCATCTCG-AGT
* ** * * * *
85352604 CGATG-CGTGTCTTAGACATGTCTTACACTGGC-TTACGTCTCGAGGT
1 CGATGCCATGTCCCAGACAAGTCTTACACTAGCACT-CATCTCGA-GT
* * * *
85352650 CGATG-CATGTCCCAGACAAGTCTTAAACTAGCACTCGTCT-TAAT
1 CGATGCCATGTCCCAGACAAGTCTTACACTAGCACTCATCTCGAGT
* * * * * *
85352694 GCTGATGCCATGTCCC-GAACATGGTCTTACACTGGCTCTCATAATATG-GC
1 -C-GATGCCATGTCCCAG-ACA-AGTCTTACACTAGCACTCAT-CT-CGAGT
*
85352744 CGATG-CATGTCCCAGACATGTCTTACACTAGC
1 CGATGCCATGTCCCAGACAAGTCTTACACTAGC
85352776 TCACGCAAGT
Statistics
Matches: 169, Mismatches: 31, Indels: 41
0.70 0.13 0.17
Matches are distributed among these distances:
44 1 0.01
45 6 0.04
46 68 0.40
47 63 0.37
48 29 0.17
49 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACAAGTCTTACACTAGCACTCATCTCGAGT
Found at i:85352767 original size:140 final size:141
Alignment explanation
Indices: 85352509--85352772 Score: 322
Period size: 140 Copynumber: 1.9 Consensus size: 141
85352499 GGTAAGGTGC
* *
85352509 CGATGCCATGTCCCAGACACAGTCTTACACTAGCTCACATCTCAAGTCGATGCCATATCCCAGAA
1 CGATGCCATGTCCCAGACACAGTCTTAAACTAGCACACATCTCAAGTCGATGCCATATCCCAGAA
* * * * **
85352574 ATGGTCTTACACTGACTATCATCTCGTAGTCGATGCGTGTCTTAGACATGTCTTACACTGGCTTA
66 ATGGTCTTACACTGACTATCATATCATAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTA
85352639 CGTCTCGAGGT
131 CGTCTCGAGGT
* * * *
85352650 CGATG-CATGTCCCAGACA-AGTCTTAAACTAGCACTCGTCTTAA-TGCTGATGCCATGTCCC-G
1 CGATGCCATGTCCCAGACACAGTCTTAAACTAGCACACATCTCAAGT-C-GATGCCATATCCCAG
* * *
85352711 AACATGGTCTTACACTGGCTCTCATAAT-ATGGCCGATGCATGTCCCAGACATGTCTTACACT
64 AA-ATGGTCTTACACTGACTATCAT-ATCATAGCCGATGCATGTCCCAGACATGTCTTACACT
85352773 AGCTCACGCA
Statistics
Matches: 104, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
138 1 0.01
139 24 0.23
140 73 0.70
141 6 0.06
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (141 bp):
CGATGCCATGTCCCAGACACAGTCTTAAACTAGCACACATCTCAAGTCGATGCCATATCCCAGAA
ATGGTCTTACACTGACTATCATATCATAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTA
CGTCTCGAGGT
Found at i:85357654 original size:46 final size:46
Alignment explanation
Indices: 85357604--85357779 Score: 243
Period size: 46 Copynumber: 3.8 Consensus size: 46
85357594 TGGTTGAGCA
85357604 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
85357650 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
85357696 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG
*
85357741 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
85357780 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 5, Indels: 14
0.86 0.04 0.10
Matches are distributed among these distances:
42 1 0.01
43 7 0.06
44 1 0.01
45 2 0.02
46 74 0.64
47 27 0.23
49 1 0.01
50 2 0.02
51 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:85363372 original size:93 final size:93
Alignment explanation
Indices: 85363260--85363431 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
85363250 GCCCATAAGT
* *
85363260 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
85363325 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
85363353 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
85363418 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
85363432 AACCATCCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:85363427 original size:46 final size:46
Alignment explanation
Indices: 85363252--85363427 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
85363242 TGTAACCCGC
* * *
85363252 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
85363298 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
85363348 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
85363391 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
85363428 TGCCAACCAT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:85365795 original size:29 final size:29
Alignment explanation
Indices: 85365756--85365843 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
85365746 CAAAGATAAC
*
85365756 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
85365785 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
85365814 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
85365844 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:85365814 original size:15 final size:15
Alignment explanation
Indices: 85365756--85365834 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
85365746 CAAAGATAAC
*
85365756 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
85365770 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
85365785 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
85365799 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
85365814 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
85365829 AAGAAA
1 AAGAAA
85365835 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:85365843 original size:15 final size:15
Alignment explanation
Indices: 85365767--85365843 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
85365757 AGAAAACCGA
85365767 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
85365782 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
85365796 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
85365810 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
85365826 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
85365841 ATA
1 ATA
85365844 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:85368905 original size:93 final size:93
Alignment explanation
Indices: 85368793--85368963 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
85368783 GCCCATAAGT
* *
85368793 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
85368858 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
85368886 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
85368951 CGAGTTCGGATGC
66 CGAGTTCGGATGC
85368964 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:85368979 original size:46 final size:46
Alignment explanation
Indices: 85368785--85368965 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
85368775 TGTAACCCGC
* * *
85368785 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
85368831 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
85368881 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
85368924 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
85368966 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:85381839 original size:62 final size:62
Alignment explanation
Indices: 85381768--85381891 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
85381758 TTGAGAGTAA
*
85381768 GAGCAATTGATTCTAGTTCATTAATTGAAATTTCTTTCTAATTAAAACATCTATTATCACAT
1 GAGCAATTGATTCTAGTTAATTAATTGAAATTTCTTTCTAATTAAAACATCTATTATCACAT
*
85381830 GAGCAATTGATTCTAGTTAATTAATTGAAATTTCTTTCTAATTAAAGCATCTATTATCACAT
1 GAGCAATTGATTCTAGTTAATTAATTGAAATTTCTTTCTAATTAAAACATCTATTATCACAT
85381892 TAACTTGATA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (62 bp):
GAGCAATTGATTCTAGTTAATTAATTGAAATTTCTTTCTAATTAAAACATCTATTATCACAT
Found at i:85385926 original size:3 final size:3
Alignment explanation
Indices: 85385918--85385959 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
85385908 AAGCTAAAAC
* *
85385918 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA GAA TAA GAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
85385960 GAAAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:85385960 original size:12 final size:12
Alignment explanation
Indices: 85385918--85385968 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
85385908 AAGCTAAAAC
*
85385918 TAATAATAATAA
1 TAATAAGAATAA
*
85385930 TAATAATAATAA
1 TAATAAGAATAA
85385942 TAATAAGAATAA
1 TAATAAGAATAA
* *
85385954 GAATAAGAAAAA
1 TAATAAGAATAA
85385966 TAA
1 TAA
85385969 AAGTAAAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (12 bp):
TAATAAGAATAA
Found at i:85385967 original size:15 final size:15
Alignment explanation
Indices: 85385919--85385985 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 15
85385909 AGCTAAAACT
* *
85385919 AATAATAATAATAAT
1 AATAAGAATAATAAA
* *
85385934 AATAATAATAATAAG
1 AATAAGAATAATAAA
*
85385949 AATAAGAATAAGAAA
1 AATAAGAATAATAAA
85385964 AATAA-AAGTAA-AAGA
1 AATAAGAA-TAATAA-A
85385979 AATAAGA
1 AATAAGA
85385986 CTAAACATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
14 4 0.09
15 40 0.89
16 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (15 bp):
AATAAGAATAATAAA
Found at i:85386019 original size:22 final size:24
Alignment explanation
Indices: 85385967--85386021 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
85385957 TAAGAAAAAT
85385967 AAAAGTAAAAGAAATAAGACTAAAC
1 AAAA-TAAAAGAAATAAGACTAAAC
* * *
85385992 ATAATAACAGAAA-AA-ACTAAAG
1 AAAATAAAAGAAATAAGACTAAAC
85386014 AAAATAAA
1 AAAATAAA
85386022 TAATAATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 12 0.48
23 2 0.08
24 8 0.32
25 3 0.12
ACGTcount: A:0.71, C:0.07, G:0.09, T:0.13
Consensus pattern (24 bp):
AAAATAAAAGAAATAAGACTAAAC
Found at i:85386160 original size:3 final size:3
Alignment explanation
Indices: 85386152--85386189 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
85386142 TAGTAAAACA
85386152 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
85386190 AAGGAAAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:85392387 original size:20 final size:20
Alignment explanation
Indices: 85392362--85392401 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
85392352 ATAAAATGAT
*
85392362 CACACAATTATTCGATTTTG
1 CACACAATTATTCAATTTTG
85392382 CACACAATTATTCAATTTTG
1 CACACAATTATTCAATTTTG
85392402 TTTATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (20 bp):
CACACAATTATTCAATTTTG
Found at i:85394149 original size:18 final size:18
Alignment explanation
Indices: 85394126--85394161 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
85394116 GATTTTCATC
85394126 ATTCTCATTTTAAAAGTT
1 ATTCTCATTTTAAAAGTT
85394144 ATTCTCATTTTAAAAGTT
1 ATTCTCATTTTAAAAGTT
85394162 CTTATTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (18 bp):
ATTCTCATTTTAAAAGTT
Found at i:85394258 original size:2 final size:2
Alignment explanation
Indices: 85394251--85394289 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
85394241 TTTAATTAGA
85394251 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
85394290 GTAGTTTTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:85400342 original size:33 final size:33
Alignment explanation
Indices: 85400300--85400369 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
85400290 TCCAAGTCAG
85400300 TTATAGTGGGGTGAGCCTGTCAAGTGTCAATTA
1 TTATAGTGGGGTGAGCCTGTCAAGTGTCAATTA
85400333 TTATAGTGGGGTGAGCCTGTCAAGTGTCAATTA
1 TTATAGTGGGGTGAGCCTGTCAAGTGTCAATTA
85400366 TTAT
1 TTAT
85400370 GAAAAGGTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.36
Consensus pattern (33 bp):
TTATAGTGGGGTGAGCCTGTCAAGTGTCAATTA
Found at i:85406409 original size:12 final size:12
Alignment explanation
Indices: 85406387--85406421 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
85406377 AATAACCCCA
85406387 CAGGCCCGTGTGC
1 CAGG-CCGTGTGC
85406400 CAGGCCGTGTGC
1 CAGGCCGTGTGC
*
85406412 TAGGCCGTGT
1 CAGGCCGTGT
85406422 AACAGCCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.09, C:0.31, G:0.40, T:0.20
Consensus pattern (12 bp):
CAGGCCGTGTGC
Found at i:85413268 original size:40 final size:40
Alignment explanation
Indices: 85413114--85413335 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
85413104 TCGAATGATG
* * *
85413114 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* **
85413154 TCCGGACTAAGAT--CGAAGGC-TTTGTGTTAG-TACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
85413191 TCCGGACTAAGAT-CCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
85413230 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
85413270 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
85413311 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
85413336 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
37 18 0.11
38 17 0.10
39 38 0.23
40 88 0.54
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:85413342 original size:80 final size:78
Alignment explanation
Indices: 85413182--85413368 Score: 229
Period size: 80 Copynumber: 2.4 Consensus size: 78
85413172 GCTTTGTGTT
** *
85413182 AGTACTAAATCCGGACTAAGATCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGA
1 AGTACTAAATCCGGGTTAAGATCCGAAGGCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGA
**
85413247 AGGCATTTGTGCG
66 AGGCATTTGAACG
*
85413260 AGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTC
1 AG-TACTAAATCCGGGTTAAGAT-CCGAAGGCA-TTGTGCGAGTTACTA-AATCCGGGCTAAGTC
85413323 CCGAAGGCATTTGAACG
62 CCGAAGGCATTTGAACG
*
85413340 AGTAGCTATATCC-GGTTAA-ACTCCGAAGG
1 AGTA-CTAAATCCGGGTTAAGA-TCCGAAGG
85413369 TACGTGATTC
Statistics
Matches: 95, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
78 3 0.03
79 40 0.42
80 50 0.53
81 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (78 bp):
AGTACTAAATCCGGGTTAAGATCCGAAGGCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGA
AGGCATTTGAACG
Found at i:85421525 original size:40 final size:40
Alignment explanation
Indices: 85421363--85421518 Score: 226
Period size: 40 Copynumber: 3.9 Consensus size: 40
85421353 CTTTGTGTTA
** * *
85421363 AGTTACTAAATCCGGACTAAGAT-CCAAAGGCATTAGTGCG
1 AGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
85421403 AGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 AGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
85421443 AGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 AGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
* *
85421483 AGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTG
1 AGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTTG
85421519 AACGAGTAGC
Statistics
Matches: 108, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
39 1 0.01
40 105 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
AGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
Found at i:85421525 original size:80 final size:80
Alignment explanation
Indices: 85421363--85421541 Score: 222
Period size: 80 Copynumber: 2.2 Consensus size: 80
85421353 CTTTGTGTTA
** *
85421363 AGTTACTAAATCCGGACTAAGATCCAAAGGCATTAGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 AGTTACTAAATCCGGGTTAAGATCCAAAGGCATTAGTGCGAGTTACTAAATCCGGGCTAAGTCCC
**
85421428 GAAGGCATTTGTGCG
66 GAAGGCATTTGAACG
* * *
85421443 AGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTC
1 AGTTACTAAATCCGGGTTAAGAT-CCAAAGGCATTAGTGCGAGTTACTA-AATCCGGGCTAAGTC
85421506 CCGAAGGCATTTGAACG
64 CCGAAGGCATTTGAACG
*
85421523 AG-TAGCTATATCC-GGTTAA
1 AGTTA-CTAAATCCGGGTTAA
85421542 ACTCCGAAGG
Statistics
Matches: 87, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
79 9 0.10
80 76 0.87
81 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (80 bp):
AGTTACTAAATCCGGGTTAAGATCCAAAGGCATTAGTGCGAGTTACTAAATCCGGGCTAAGTCCC
GAAGGCATTTGAACG
Found at i:85424981 original size:27 final size:26
Alignment explanation
Indices: 85424926--85424979 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
85424916 TGCATTAAGT
*
85424926 AATTTTAATTTTGTAACTTAAGGTTA
1 AATTTTAATTTAGTAACTTAAGGTTA
*
85424952 AATTTGTAATTTAGTAA-TTAATGTTA
1 AATTT-TAATTTAGTAACTTAAGGTTA
85424978 AA
1 AA
85424980 ATAACTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
AATTTTAATTTAGTAACTTAAGGTTA
Found at i:85428127 original size:40 final size:40
Alignment explanation
Indices: 85428082--85428248 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
85428072 CGGAATATAA
85428082 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
85428122 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
85428162 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
85428202 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
85428241 CCGGATAT
1 CCGGATAT
85428249 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:85428232 original size:80 final size:79
Alignment explanation
Indices: 85428098--85428248 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
85428088 ATAATCACGT
*
85428098 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
85428163 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
85428178 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
85428241 CCGGATAT
64 CCGGATAT
85428249 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:85436131 original size:40 final size:40
Alignment explanation
Indices: 85436086--85436252 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
85436076 CGGAATATAA
85436086 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
85436126 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
85436166 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
85436206 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
85436245 CCGGATAT
1 CCGGATAT
85436253 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:85436236 original size:80 final size:79
Alignment explanation
Indices: 85436102--85436252 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
85436092 ATAATCACGT
*
85436102 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
85436167 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
85436182 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
85436245 CCGGATAT
64 CCGGATAT
85436253 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:85438932 original size:289 final size:289
Alignment explanation
Indices: 85438392--85438969 Score: 1140
Period size: 288 Copynumber: 2.0 Consensus size: 289
85438382 ACTCAAAATG
85438392 GAATCTGTACATATAAGGTATATCTCCTAATTCTTTTTGGATAATTTATAGTGAATTTTTAAAGT
1 GAATCTGTACATATAAGGTATATCTCCTAATTCTTTTTGGATAATTTATAGTGAATTTTTAAAGT
85438457 TGCGACAGGGAACCCAGAAACCATTCTGGCCCTGTCTCACAATAGCTTTAATATCTCTTAACCTG
66 TGCGACAGGGAACCCAGAAACCATTCTGGCCCTGTCTCACAATAGCTTTAATATCTCTTAACCTG
85438522 TAACTCCTATGACCGTTTCGTTTCTTCCATATGAAAATAGACTCATCAAGGTTCATTTACATAGC
131 TAACTCCTATGACCGTTTCGTTTCTTCCATATGAAAATAGACTCATCAAGGTTCATTTACATAGC
85438587 TTATTCACTATTAATTCCATTCCTATGAATTTTGGTGATTTTTCACATTCATGCCACTGCAGCTG
196 TTATTCACTATTAATTCCATTCCTATGAATTTTGGTGATTTTTCACATTCATGCCACTGCAGCTG
85438652 GCAGCATCTGTTTTAAGATAGGACTTACC
261 GCAGCATCTGTTTTAAGATAGGACTTACC
85438681 GAATCTGTACATATAAGGTATATCTCCTAATTCTTTTTGGATAA-TTATAGTGAATTTTTAAAGT
1 GAATCTGTACATATAAGGTATATCTCCTAATTCTTTTTGGATAATTTATAGTGAATTTTTAAAGT
85438745 TGCGACAGGGAACCCAGAAACCATTCTGGCCCTGTCTCACAATAGCTTTAATATCTCTTAACCTG
66 TGCGACAGGGAACCCAGAAACCATTCTGGCCCTGTCTCACAATAGCTTTAATATCTCTTAACCTG
85438810 TAACTCCTATGACCGTTTCGTTTCTTCCATATGAAAATAGACTCATCAAGGTTCATTTACATAGC
131 TAACTCCTATGACCGTTTCGTTTCTTCCATATGAAAATAGACTCATCAAGGTTCATTTACATAGC
85438875 TTATTCACTATCTAATTCCATTCCTATGAATTTTGGTGATTTTTCACATTCATGCCACTGCAGCT
196 TTATTCACTAT-TAATTCCATTCCTATGAATTTTGGTGATTTTTCACATTCATGCCACTGCAGCT
85438940 GGCAGCATCTGTTTTAAGATAGGACTTACC
260 GGCAGCATCTGTTTTAAGATAGGACTTACC
85438970 TATTGGTGTC
Statistics
Matches: 288, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
288 161 0.56
289 127 0.44
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (289 bp):
GAATCTGTACATATAAGGTATATCTCCTAATTCTTTTTGGATAATTTATAGTGAATTTTTAAAGT
TGCGACAGGGAACCCAGAAACCATTCTGGCCCTGTCTCACAATAGCTTTAATATCTCTTAACCTG
TAACTCCTATGACCGTTTCGTTTCTTCCATATGAAAATAGACTCATCAAGGTTCATTTACATAGC
TTATTCACTATTAATTCCATTCCTATGAATTTTGGTGATTTTTCACATTCATGCCACTGCAGCTG
GCAGCATCTGTTTTAAGATAGGACTTACC
Found at i:85439701 original size:40 final size:40
Alignment explanation
Indices: 85439656--85439822 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
85439646 CGGAATATAA
85439656 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
85439696 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
85439736 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
85439776 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
85439815 CCGGATAT
1 CCGGATAT
85439823 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:85439806 original size:80 final size:79
Alignment explanation
Indices: 85439672--85439822 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
85439662 ATAATCACGT
*
85439672 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
85439737 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
85439752 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
85439815 CCGGATAT
64 CCGGATAT
85439823 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:85447707 original size:40 final size:40
Alignment explanation
Indices: 85447662--85447828 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
85447652 CGGAATATAA
85447662 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
85447702 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
85447742 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
85447782 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
85447821 CCGGATAT
1 CCGGATAT
85447829 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:85447812 original size:80 final size:79
Alignment explanation
Indices: 85447678--85447828 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
85447668 ATAATCACGT
*
85447678 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
85447743 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
85447758 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
85447821 CCGGATAT
64 CCGGATAT
85447829 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:85462574 original size:27 final size:27
Alignment explanation
Indices: 85462543--85462608 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
85462533 AGGCCAATTA
* *
85462543 GTGCCACCTATGGGAAGGGCGCCACTG
1 GTGCCGCCTATGGGAAGGGCACCACTG
*
85462570 GTGCCGCCTATGGGAAGGGCACCATTG
1 GTGCCGCCTATGGGAAGGGCACCACTG
85462597 GTGCCGCCTATG
1 GTGCCGCCTATG
85462609 TCATGGGCAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.17, C:0.29, G:0.36, T:0.18
Consensus pattern (27 bp):
GTGCCGCCTATGGGAAGGGCACCACTG
Found at i:85462616 original size:27 final size:27
Alignment explanation
Indices: 85462543--85462621 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
85462533 AGGCCAATTA
* * *
85462543 GTGCCACCTATGGGAAGGGCGCCACTG
1 GTGCCGCCTATGGCAAGGGCACCACTG
* *
85462570 GTGCCGCCTATGGGAAGGGCACCATTG
1 GTGCCGCCTATGGCAAGGGCACCACTG
* *
85462597 GTGCCGCCTATGTCATGGGCACCAC
1 GTGCCGCCTATGGCAAGGGCACCAC
85462622 CAAATATATG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.18, C:0.30, G:0.34, T:0.18
Consensus pattern (27 bp):
GTGCCGCCTATGGCAAGGGCACCACTG
Found at i:85464664 original size:13 final size:13
Alignment explanation
Indices: 85464643--85464685 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
85464633 AAATTTTTCT
85464643 AAAGCACTTCTCA
1 AAAGCACTTCTCA
*
85464656 AAAGTACTTCTCA
1 AAAGCACTTCTCA
85464669 AAAGCACTTCTCA
1 AAAGCACTTCTCA
85464682 AAAG
1 AAAG
85464686 TACTGGCCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.42, C:0.26, G:0.09, T:0.23
Consensus pattern (13 bp):
AAAGCACTTCTCA
Found at i:85465402 original size:13 final size:13
Alignment explanation
Indices: 85465378--85465415 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
85465368 AAATCAACTA
85465378 ATTTTTTGATATAT
1 ATTTTTT-ATATAT
85465392 ATTTTTTATATAT
1 ATTTTTTATATAT
*
85465405 AATTTTTATAT
1 ATTTTTTATAT
85465416 TCCAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (13 bp):
ATTTTTTATATAT
Found at i:85465769 original size:45 final size:45
Alignment explanation
Indices: 85465701--85465813 Score: 136
Period size: 45 Copynumber: 2.4 Consensus size: 45
85465691 TTTGTGTGTG
* *
85465701 TATTTGAAATAATTATTTGAAATACTTCACGTATAAAAATAATGA
1 TATTTGAAATAATTATTTAAAATACTTCACATATAAAAATAATGA
* * *
85465746 TATTTGAAATAGTTATTTAAAATATTTTACATATAAAAATAATAATGA
1 TATTTGAAATAATTATTTAAAATACTTCACATAT--AAA-AATAATGA
* *
85465794 TGTTTAAAATAATTATTTAA
1 TATTTGAAATAATTATTTAA
85465814 TTTTATAATA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
45 29 0.51
47 3 0.05
48 25 0.44
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.42
Consensus pattern (45 bp):
TATTTGAAATAATTATTTAAAATACTTCACATATAAAAATAATGA
Found at i:85466149 original size:18 final size:18
Alignment explanation
Indices: 85466114--85466154 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
85466104 AAAAAGATAA
85466114 ATTAAAAATAAAATATTT
1 ATTAAAAATAAAATATTT
*
85466132 TTTAAAAATAACAA-ATTT
1 ATTAAAAATAA-AATATTT
85466150 ATTAA
1 ATTAA
85466155 TTAAAAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
ATTAAAAATAAAATATTT
Found at i:85466217 original size:3 final size:3
Alignment explanation
Indices: 85466211--85466263 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
85466201 AACATGAAGA
85466211 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
85466259 TAT AA
1 AAT AA
85466264 ACAAATTTGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:85466598 original size:36 final size:36
Alignment explanation
Indices: 85466507--85466598 Score: 130
Period size: 36 Copynumber: 2.6 Consensus size: 36
85466497 TTTAAAAGTT
*
85466507 ATTTGACTTGTGTCTCTTTCATAACCAGCCTTGAAA
1 ATTTGACTTGTGTCTCTTTTATAACCAGCCTTGAAA
* * * *
85466543 ATTTAACTTGTATCTCTTTTATAAGCAGCTTTGAAA
1 ATTTGACTTGTGTCTCTTTTATAACCAGCCTTGAAA
*
85466579 ATTTGATTTGTGTCTCTTTT
1 ATTTGACTTGTGTCTCTTTT
85466599 TAAAAAAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (36 bp):
ATTTGACTTGTGTCTCTTTTATAACCAGCCTTGAAA
Found at i:85469907 original size:19 final size:19
Alignment explanation
Indices: 85469858--85469907 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
85469848 AGGTTCGGTG
85469858 AACTTATAAAAACTTCGATA
1 AACTTAT-AAAACTTCGATA
*
85469878 ACATTTA-AAAACTTCGATA
1 A-ACTTATAAAACTTCGATA
85469897 AACTTATAAAA
1 AACTTATAAAA
85469908 TTTTTGTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.15
19 17 0.65
20 1 0.04
21 4 0.15
ACGTcount: A:0.52, C:0.14, G:0.04, T:0.30
Consensus pattern (19 bp):
AACTTATAAAACTTCGATA
Found at i:85471308 original size:43 final size:43
Alignment explanation
Indices: 85471207--85471442 Score: 300
Period size: 43 Copynumber: 5.5 Consensus size: 43
85471197 TATCCCAGAT
* * * *
85471207 ATGGTCTTACATGTTATCACATATCGATGCCAATGTCCTAGA-
1 ATGGTCTTACACGTAATCACATAACGATGTCAATGTCCTAGAC
* *
85471249 ATGGTCTTACACGAAATCATATAACGATGTCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCACATAACGATGTCAATGTCCTAGAC
* *
85471292 ATGGTCTTACACGAAATCATATAACGATGTCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCACATAACGATGTCAATGTCCTAGAC
*
85471335 ATGGTCTTACACGTAATCACAATATA--ATGTCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCAC-ATA-ACGATGTCAATGTCCTAGAC
* * *
85471378 ATGGTCTTACATGTAATCACA-ATACAATGCCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCACATA-ACGATGTCAATGTCCTAGAC
*
85471421 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACACGTAATCACAT
85471443 CTCGGTAATC
Statistics
Matches: 176, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
41 3 0.02
42 37 0.21
43 132 0.75
44 3 0.02
45 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATAACGATGTCAATGTCCTAGAC
Found at i:85477193 original size:16 final size:16
Alignment explanation
Indices: 85477172--85477222 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
85477162 TGAATTACTG
85477172 ATTACAGTTCTATTCC
1 ATTACAGTTCTATTCC
*
85477188 ATTACA-TCTCTATTCT
1 ATTACAGT-TCTATTCC
*
85477204 ATTACAGTCCTATTCC
1 ATTACAGTTCTATTCC
85477220 ATT
1 ATT
85477223 CACCCCAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 1 0.03
16 28 0.93
17 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.04, T:0.45
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:85479201 original size:24 final size:25
Alignment explanation
Indices: 85479165--85479211 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
85479155 GTTTAATAAA
*
85479165 AAATAATCAAAA-TAATAAGATATT
1 AAATAATCAAAATTAAAAAGATATT
85479189 AAATAA-CACAAATTAAAAAGATA
1 AAATAATCA-AAATTAAAAAGATA
85479212 ATGATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 9 0.45
25 9 0.45
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.23
Consensus pattern (25 bp):
AAATAATCAAAATTAAAAAGATATT
Found at i:85479238 original size:3 final size:3
Alignment explanation
Indices: 85479209--85479385 Score: 71
Period size: 3 Copynumber: 60.0 Consensus size: 3
85479199 AATTAAAAAG
* * * * * * *
85479209 ATA ATG ATA ATA ACA AGA ACA ACA ATA ATA ATA ATA GTA A-A AAA AGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * * * *
85479257 A-A A-A AAA ATA ATA GTA GTA ATA ATA ACA ATA ATA GTA CGA-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA
* ** * *
85479301 ATA ATA GTA GGA A-A AAA AGTA ATA ATA ATA ATG ATA A-A A-A ATA
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
85479344 ATA ATA GTA CTA ATA GTG ATA ATA ATG ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
85479386 TATATAAAAA
Statistics
Matches: 134, Mismatches: 31, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
2 13 0.10
3 116 0.87
4 5 0.04
ACGTcount: A:0.62, C:0.03, G:0.10, T:0.25
Consensus pattern (3 bp):
ATA
Found at i:85479305 original size:16 final size:16
Alignment explanation
Indices: 85479284--85479314 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85479274 TAATAATAAC
85479284 AATAATAGTACGAAAT
1 AATAATAGTACGAAAT
*
85479300 AATAATAGTAGGAAA
1 AATAATAGTACGAAA
85479315 AAAAGTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAATAGTACGAAAT
Found at i:85479324 original size:34 final size:30
Alignment explanation
Indices: 85479232--85479332 Score: 89
Period size: 28 Copynumber: 3.2 Consensus size: 30
85479222 CAAGAACAAC
*
85479232 AATAATAATAATAGTAAAAAAAGTAA-AAA
1 AATAATAATAGTAGTAAAAAAAGTAATAAA
*
85479261 AA-AATAATAGTAGTAATAATAACAATAATAGTACGA
1 AATAATAATAGTAGTAA-AA-AA-AGTAATA--A--A
* *
85479297 AATAATAATAGTAGGAAAAAAAGTAATAAT
1 AATAATAATAGTAGTAAAAAAAGTAATAAA
85479327 AATAAT
1 AATAAT
85479333 GATAAAAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
28 13 0.22
29 4 0.07
30 8 0.14
31 4 0.07
32 2 0.03
34 7 0.12
35 2 0.03
36 5 0.09
37 13 0.22
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (30 bp):
AATAATAATAGTAGTAAAAAAAGTAATAAA
Found at i:85479392 original size:12 final size:14
Alignment explanation
Indices: 85479320--85479397 Score: 50
Period size: 15 Copynumber: 5.4 Consensus size: 14
85479310 GGAAAAAAAG
*
85479320 TAATAATAATAATGA
1 TAATAAT-ATAATAA
*
85479335 TAA-AAAATAATAA
1 TAATAATATAATAA
* * * *
85479348 TAGTACTAATAGTGA
1 TAATAAT-ATAATAA
85479363 TAATAATGATAATAA
1 TAATAAT-ATAATAA
85479378 TAATAATATATATAA
1 TAATAATATA-ATAA
*
85479393 AAATA
1 TAATA
85479398 GTAAAAAATG
Statistics
Matches: 47, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
13 8 0.17
14 6 0.13
15 33 0.70
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (14 bp):
TAATAATATAATAA
Found at i:85479490 original size:15 final size:15
Alignment explanation
Indices: 85479470--85479498 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
85479460 ATAGAAATAT
85479470 AAATAGATAAATAAA
1 AAATAGATAAATAAA
85479485 AAATAGATAAATAA
1 AAATAGATAAATAA
85479499 TAGTATTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (15 bp):
AAATAGATAAATAAA
Found at i:85481248 original size:143 final size:143
Alignment explanation
Indices: 85481017--85481504 Score: 629
Period size: 143 Copynumber: 3.4 Consensus size: 143
85481007 TACTACAACT
* * * * ** * *
85481017 TCAAGGAAATAAGA-TCTGCTATCTTCAATCTTCTCCTTTGCGACTTCAGGGAGATAAGGCTGGT
1 TCAAGGAAATAAGATTC-GTTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGTTGGT
*
85481081 GGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCA-CTATAATTTGTAGCTTTAATC
65 GGCTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGATTCATC-ATAATTTGTAGCTTTAATC
*
85481145 TATTCCACTGCAATG
129 TGTTCCACTGCAATG
* * * * * *
85481160 TTAAGGAAATAAGATTTGTTGTTTTCAGTCTACTCCGCTGCAACTTTAGGGAGATAAGGTTAGTG
1 TCAAGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGTTGGTG
* * * * *
85481225 GCTTCAATCTGGTCCACTACAACTTCAAGAAGATAAGACTCGTCATAATTTGTAGCTTTAAGCTG
66 GCTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGATTCATCATAATTTGTAGCTTTAATCTG
*
85481290 TTCCACTGAAATG
131 TTCCACTGCAATG
* *
85481303 TCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGTAACTTCAGGGAGATAAGGTTGGTG
1 TCAAGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGTTGGTG
* * * * * *
85481368 ACTTCAATCTACTCCACTACAACTTCAGGAAGATAAGATCCATCATAATGTGTAGTTTTAATTTG
66 GCTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGATTCATCATAATTTGTAGCTTTAATCTG
*
85481433 TTCCACTGCAACG
131 TTCCACTGCAATG
* * * *
85481446 CCAAGGAAATAAGATTCGTTGGCTTCAGTCTGCTCCGTTGCAACTTTAGGGAGATAAGG
1 TCAAGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGG
85481505 CTTGTGATTT
Statistics
Matches: 295, Mismatches: 48, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
143 293 0.99
144 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (143 bp):
TCAAGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGTTGGTG
GCTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGATTCATCATAATTTGTAGCTTTAATCTG
TTCCACTGCAATG
Found at i:85482813 original size:31 final size:31
Alignment explanation
Indices: 85482775--85482836 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
85482765 ACTCGGAAAG
* *
85482775 AAGGAATCTTGACTTCAATGGGCAAAACTGT
1 AAGGAATCTCGACTTCAATGGACAAAACTGT
85482806 AAGGAATCTCGACTTCAATGGACAAAACTGT
1 AAGGAATCTCGACTTCAATGGACAAAACTGT
85482837 CTCCATTCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (31 bp):
AAGGAATCTCGACTTCAATGGACAAAACTGT
Found at i:85486259 original size:64 final size:64
Alignment explanation
Indices: 85486178--85486361 Score: 187
Period size: 67 Copynumber: 2.8 Consensus size: 64
85486168 AGACATTATG
* * *
85486178 ATGTAGCTAGGTCGCATGGGTGATATTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTATTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
85486242 ATGTAGCTAGGTCGCATGCGTGGT-TCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGTGGTAT--TA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
85486306 TAA
62 TAA
* * * *
85486309 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTATTATGTGTACACCATGTAG-ACAAGAGAGC
85486362 CGAACTATAT
Statistics
Matches: 98, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 20 0.20
64 23 0.23
65 2 0.02
66 19 0.19
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTATTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:85490254 original size:47 final size:45
Alignment explanation
Indices: 85490195--85490360 Score: 160
Period size: 47 Copynumber: 3.6 Consensus size: 45
85490185 GAGCCGGTGA
85490195 AAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGGGCTAGTGT
1 AAGACCATGTCTGGGACAT-GCATCGACATTGAGA-GA-GGCTAGTGT
* *
85490243 AAGA-CATGTCTGGGACATGCATCAGCCACATT-ATGATA-GCCAGTGT
1 AAGACCATGTCTGGGACATGCATC-G--ACATTGA-GAGAGGCTAGTGT
* * * *
85490289 AAGACCATGTCTAGGACATGGCATCAACATAGAGAGGAGTGCTGGTGT
1 AAGACCATGTCTGGGACAT-GCATCGACATTGAGA-GAG-GCTAGTGT
85490337 AAGA-CATGTCTGGGACATGCATCG
1 AAGACCATGTCTGGGACATGCATCG
85490361 GCCTCGACGA
Statistics
Matches: 98, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
45 6 0.06
46 23 0.23
47 41 0.42
48 21 0.21
49 7 0.07
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.22
Consensus pattern (45 bp):
AAGACCATGTCTGGGACATGCATCGACATTGAGAGAGGCTAGTGT
Found at i:85490310 original size:94 final size:95
Alignment explanation
Indices: 85490186--85490449 Score: 306
Period size: 94 Copynumber: 2.8 Consensus size: 95
85490176 GTTATGTGAG
* * * *
85490186 AGCCGGTGAAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGGGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGAGACGAGTGCTAGTGTAAGACATG
**
85490251 TCTGGGACATGCATCAGCCAC-ATTATGAT
66 TCTGGGACATGCATCAGCCACGACGATGAT
* * * *
85490280 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCAACATAGAGAGGAGTGCTGGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGAGACGAGTGCTAGTGTAAGACATG
* *
85490345 TCTGGGACATGCATCGGCCTCGACGATGAT
66 TCTGGGACATGCATCAGCCACGACGATGAT
** * * * **
85490375 AGCCAGTGTAAGA-TGTGTCTAGGACAT-GCATAGGC--TAAG-CTTCGTGCTAGTGTAAGACAT
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGAGAC-GAGTGCTAGTGTAAGACAT
85490435 GTCTGGGACATGCAT
65 GTCTGGGACATGCAT
85490450 TAGAACGTAC
Statistics
Matches: 145, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
91 33 0.23
93 5 0.03
94 88 0.61
95 19 0.13
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (95 bp):
AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGAGACGAGTGCTAGTGTAAGACATG
TCTGGGACATGCATCAGCCACGACGATGAT
Found at i:85490384 original size:47 final size:46
Alignment explanation
Indices: 85490238--85490405 Score: 160
Period size: 47 Copynumber: 3.6 Consensus size: 46
85490228 GACGAGGGCT
* * *
85490238 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGATAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCAGCCTCGA-GATGATAGCC
* * * * *
85490284 AGTGTAAGACCATGTCTAGGACATGGCATCAACATAGAGAGGAGT-GCT
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCAGCCTCGAGATGA-TAGCC
* * *
85490332 GGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGATAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCAGCCTCGA-GATGATAGCC
**
85490379 AGTGTAAGATGTGTCTAGGACATGCAT
1 AGTGTAAGACATGTCTAGGACATGCAT
85490406 AGGCTAAGCT
Statistics
Matches: 96, Mismatches: 20, Indels: 11
0.76 0.16 0.09
Matches are distributed among these distances:
46 19 0.20
47 55 0.57
48 20 0.21
49 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGATGATAGCC
Found at i:85490444 original size:44 final size:45
Alignment explanation
Indices: 85490195--85490449 Score: 130
Period size: 47 Copynumber: 5.5 Consensus size: 45
85490185 GAGCCGGTGA
* * * *
85490195 AAGACCATGTCTGGGACATGGCATCGACATTGAGACGA-GGGCTAGTGT
1 AAGA-CATGTCTGGGACAT-GCATAGGC-CT-AGACGATGTGCTAGTGT
* ** *
85490243 AAGACATGTCTGGGACATGCATCA-GCC-ACATTATGATAGCCAGTGT
1 AAGACATGTCTGGGACATGCAT-AGGCCTAGACGATG-T-GCTAGTGT
* * * * *
85490289 AAGACCATGTCTAGGACATGGCATCA-ACATAGA-GAGGAGTGCTGGTGT
1 AAGA-CATGTCTGGGACAT-GCAT-AGGCCTAGACGA--TGTGCTAGTGT
* * *
85490337 AAGACATGTCTGGGACATGCATCGGCCTCGACGATGATAGCCAGTGT
1 AAGACATGTCTGGGACATGCATAGGCCTAGACGATG-T-GCTAGTGT
** * *
85490384 AAGATGTGTCTAGGACATGCATAGG-CTA-A-GCTTCGTGCTAGTGT
1 AAGACATGTCTGGGACATGCATAGGCCTAGACG-AT-GTGCTAGTGT
85490428 AAGACATGTCTGGGACATGCAT
1 AAGACATGTCTGGGACATGCAT
85490450 TAGAACGTAC
Statistics
Matches: 158, Mismatches: 34, Indels: 34
0.70 0.15 0.15
Matches are distributed among these distances:
43 3 0.02
44 28 0.18
45 4 0.03
46 28 0.18
47 69 0.44
48 22 0.14
49 3 0.02
50 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
AAGACATGTCTGGGACATGCATAGGCCTAGACGATGTGCTAGTGT
Found at i:85491418 original size:55 final size:55
Alignment explanation
Indices: 85491289--85491419 Score: 151
Period size: 55 Copynumber: 2.4 Consensus size: 55
85491279 CTTAAACTGT
* * * *
85491289 TAAGTCAATATTGTCCACGGGTAGGCTACACGGGCGTGTTCCATAGCCGTGTCTC
1 TAAGTCACTATTGTCCACGGGTAGGCCACACGAGCGTGTTCCATAGCCGTGTCCC
* * *
85491344 TAAGTCAGTATTGTCCACGGGTAGGCCACACGAGCGTGTGT-CATGGCCTTG-CCC
1 TAAGTCACTATTGTCCACGGGTAGGCCACACGAGCGTGT-TCCATAGCCGTGTCCC
85491398 TAAGGTCACTATTG-CACACGGG
1 TAA-GTCACTATTGTC-CACGGG
85491420 CCAAGGACAT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
54 6 0.09
55 59 0.89
56 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.25
Consensus pattern (55 bp):
TAAGTCACTATTGTCCACGGGTAGGCCACACGAGCGTGTTCCATAGCCGTGTCCC
Found at i:85497844 original size:94 final size:94
Alignment explanation
Indices: 85497683--85497856 Score: 262
Period size: 94 Copynumber: 1.9 Consensus size: 94
85497673 GTTATGTGAG
* *
85497683 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAAATTGAGACGAGGGCTAGTGCAAGACATG
1 AGCCAGTGTAAAACCATGTCTGGGACATGGCATCGAAATAGAGACGAGGGCTAGTGCAAGACATG
85497748 TCTGGGACATGCATCAGCCACATTCTGAT
66 TCTGGGACATGCATCAGCCACATTCTGAT
*** *
85497777 AGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGTGTAGAGA-GAAGTGG-TAGTGTAAGACA
1 AGCCAGTGTAAAACCATGTCTGGGACATGGCATCGAAATAGAGACG-AG-GGCTAGTGCAAGACA
85497840 TGTCTGGGACATGCATC
64 TGTCTGGGACATGCATC
85497857 GGCTAAGCTT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
93 1 0.01
94 69 0.96
95 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (94 bp):
AGCCAGTGTAAAACCATGTCTGGGACATGGCATCGAAATAGAGACGAGGGCTAGTGCAAGACATG
TCTGGGACATGCATCAGCCACATTCTGAT
Found at i:85504700 original size:68 final size:64
Alignment explanation
Indices: 85504609--85504830 Score: 214
Period size: 67 Copynumber: 3.4 Consensus size: 64
85504599 TAATTCAGGA
* * *
85504609 TGTATACCATGTGTACAAAAGAGCTACGAGACATTATGAGGTAGCTAGGTCGCATGGGTGATACT
1 TGTACACCATGTGTACAAGAGAGCTACGAG--A-TA-GAAGTAGCTAGGTCGCATGGGTGATACT
85504674 ATG
62 ATG
* * * * * *
85504677 TGTACACCATGTAG-ACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGTGGTTCCAGG
1 TGTACACCATGT-GTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTA--
85504741 TG
63 TG
* * ** * * *
85504743 AAGGACACCATGTAAACAAGAGAGCTATGAGATA-AAGTGGCTAGGTCACATGGGTGATACTATG
1 -TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTATG
85504807 TGTACACCATGTGTACAAGAGAGC
1 TGTACACCATGTGTACAAGAGAGC
85504831 CAAAATTATG
Statistics
Matches: 125, Mismatches: 24, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
63 20 0.16
64 25 0.20
65 2 0.02
66 23 0.18
67 28 0.22
68 26 0.21
69 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (64 bp):
TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTATG
Found at i:85506540 original size:29 final size:29
Alignment explanation
Indices: 85506498--85506555 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
85506488 TGTAAAAAAG
85506498 GCGTCGACTCTGATTCAATTCCCTTTAGA
1 GCGTCGACTCTGATTCAATTCCCTTTAGA
85506527 GCGTCGACTCTGATTCAATTCCCTTTAGA
1 GCGTCGACTCTGATTCAATTCCCTTTAGA
85506556 ATAACTTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (29 bp):
GCGTCGACTCTGATTCAATTCCCTTTAGA
Found at i:85510471 original size:3 final size:3
Alignment explanation
Indices: 85510457--85510635 Score: 68
Period size: 3 Copynumber: 60.3 Consensus size: 3
85510447 GATTAAAAAG
* * * * * *
85510457 ATA ATG ATA ATA ATA ATA GTA A-A A-A ATA GTA A-A AAA ACA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
85510502 GTA ATA ATA ACA ATA ATA GTA CGA-A ATA ATA ATA GTA CGA-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA --ATA ATA ATA
* ** * *
85510549 ATA GTA GGA AGA A-A AGTA ATA ATA ATA ATG ATA A-A A-A ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
85510592 ATA GTA CTA ATA GTG ATA ATA ATG ATA ATA ATA ATA ATA TATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A
85510636 AAAAATAAAA
Statistics
Matches: 134, Mismatches: 30, Indels: 24
0.71 0.16 0.13
Matches are distributed among these distances:
2 14 0.10
3 113 0.84
4 7 0.05
ACGTcount: A:0.60, C:0.03, G:0.11, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:85510534 original size:16 final size:16
Alignment explanation
Indices: 85510513--85510554 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
85510503 TAATAATAAC
85510513 AATAATAGTACGAAAT
1 AATAATAGTACGAAAT
85510529 AATAATAGTACGAAAT
1 AATAATAGTACGAAAT
85510545 AATAATAGTA
1 AATAATAGTA
85510555 GGAAGAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.57, C:0.05, G:0.12, T:0.26
Consensus pattern (16 bp):
AATAATAGTACGAAAT
Found at i:85512530 original size:18 final size:18
Alignment explanation
Indices: 85512493--85512530 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
85512483 GGAAGCTAAG
*
85512493 AATCCAATATTCCAATTC
1 AATCCAATATTCCAAATC
85512511 AATCCAATA-TCCATAATC
1 AATCCAATATTCCA-AATC
85512529 AA
1 AA
85512531 AGCAATTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (18 bp):
AATCCAATATTCCAAATC
Found at i:85522675 original size:26 final size:24
Alignment explanation
Indices: 85522635--85522694 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
85522625 TTATTTTATT
* * *
85522635 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
85522659 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
85522685 AAATAAATAT
1 AAATAAATAT
85522695 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:85522706 original size:22 final size:22
Alignment explanation
Indices: 85522665--85522723 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
85522655 ATAATAAATC
* *
85522665 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
85522685 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
85522707 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
85522724 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:85524963 original size:15 final size:15
Alignment explanation
Indices: 85524945--85524977 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
85524935 TTAAAATCAA
85524945 TATTTTTACAACATC
1 TATTTTTACAACATC
*
85524960 TATTTTTACAATATC
1 TATTTTTACAACATC
85524975 TAT
1 TAT
85524978 ATTTCTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTTTACAACATC
Found at i:85528240 original size:21 final size:22
Alignment explanation
Indices: 85528214--85528254 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
85528204 ATATTGTGCT
*
85528214 AATTTAGT-CTTAATTTTTAAA
1 AATTTAGTACTTAATGTTTAAA
85528235 AATTTAGTACTTAATGTTTA
1 AATTTAGTACTTAATGTTTA
85528255 CACTTTACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (22 bp):
AATTTAGTACTTAATGTTTAAA
Found at i:85528587 original size:11 final size:11
Alignment explanation
Indices: 85528571--85528596 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
85528561 ATGGAGGCAA
85528571 TGTATACGATG
1 TGTATACGATG
85528582 TGTATACGATG
1 TGTATACGATG
85528593 TGTA
1 TGTA
85528597 AATATTGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.38
Consensus pattern (11 bp):
TGTATACGATG
Found at i:85531392 original size:14 final size:14
Alignment explanation
Indices: 85531375--85531405 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
85531365 ATCGATATAT
*
85531375 GATATGTGATATGA
1 GATATGTGAGATGA
85531389 GATATGTGAGATGA
1 GATATGTGAGATGA
85531403 GAT
1 GAT
85531406 GTTGATGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (14 bp):
GATATGTGAGATGA
Found at i:85538597 original size:16 final size:16
Alignment explanation
Indices: 85538578--85538608 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
85538568 TTAAACTTAA
85538578 AAAAAAAATTAAAATT
1 AAAAAAAATTAAAATT
85538594 AAAAAAAATTAAAAT
1 AAAAAAAATTAAAAT
85538609 CCCTAACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAAAAATTAAAATT
Found at i:85549969 original size:82 final size:82
Alignment explanation
Indices: 85549847--85550055 Score: 321
Period size: 82 Copynumber: 2.5 Consensus size: 82
85549837 GGTATACATT
* * * *
85549847 TTTCAACAAATCATTTCAAAAAAACAAACAAAATACGTTATACTAACGAAATGATGATATAGCAG
1 TTTCAACAAATCATTTC-AAAAAACAAACAAAATATGTTATACTAACAAAATGATCATATAGAAG
85549912 TAAGATGTTAACCAACCA
65 TAAGATGTTAACCAACCA
* * *
85549930 TTTCAATAAATCATTTCAAAAAACAAACAAAATATGTTATGCTAACAAAATGATCCTATAGAAGT
1 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCATATAGAAGT
*
85549995 AAGATTTTAACCAACCA
66 AAGATGTTAACCAACCA
85550012 TTTCAACAAATCATTTCAAAAATACAAACAAAATATGTTA-ACTA
1 TTTCAACAAATCATTTCAAAAA-ACAAACAAAATATGTTATACTA
85550056 TCTCAATTCA
Statistics
Matches: 115, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
82 82 0.71
83 33 0.29
ACGTcount: A:0.50, C:0.16, G:0.07, T:0.27
Consensus pattern (82 bp):
TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCATATAGAAGT
AAGATGTTAACCAACCA
Found at i:85550391 original size:159 final size:160
Alignment explanation
Indices: 85550181--85550495 Score: 458
Period size: 159 Copynumber: 2.0 Consensus size: 160
85550171 AAAATTAAAA
* * *
85550181 CCCAAATTTAGATTTAAATAATTTGGAATTGACATTAAAAAAATGTTTACGATATACCTGTGATC
1 CCCAAATTTAGATTAAAATAATTTGGAATTGACATTAAAAAAATGTATACGATATACCTATGATC
* * *
85550246 CAGTTGTGTTAGGCTGAATGCATGGTGTTTTGTTGTT-CTTTTTTTAGCTTCTAGTTCGTGTACT
66 CAGTTGTATTAGGCTGAATGCATGGTGTTATGTTGTTAC-TTTTTGAGCTTCTAGTTCGTGTACT
* *
85550310 CGTACCAGACTAAGACCAAAAAAATCATAAC
130 AGTACCAGACTAAAACCAAAAAAATCATAAC
* *
85550341 CCCAAA-TTAGATTAAAAT-ATTACT-GAATTGACATTAAAATAGTGTATACGATATACCTATGA
1 CCCAAATTTAGATTAAAATAATT--TGGAATTGACATTAAAAAAATGTATACGATATACCTATGA
* *
85550403 TCCAGTTGTATTAGGCTGAATGCATGGTGTTATGTTGTTACTTTTTGGGCTTCTAGTTCTTGTAC
64 TCCAGTTGTATTAGGCTGAATGCATGGTGTTATGTTGTTACTTTTTGAGCTTCTAGTTCGTGTAC
*
85550468 TAGTACCGGACTAAAACCAAAAAAATCA
129 TAGTACCAGACTAAAACCAAAAAAATCA
85550496 GAATCCAAAT
Statistics
Matches: 139, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
158 3 0.02
159 128 0.92
160 8 0.06
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (160 bp):
CCCAAATTTAGATTAAAATAATTTGGAATTGACATTAAAAAAATGTATACGATATACCTATGATC
CAGTTGTATTAGGCTGAATGCATGGTGTTATGTTGTTACTTTTTGAGCTTCTAGTTCGTGTACTA
GTACCAGACTAAAACCAAAAAAATCATAAC
Found at i:85550597 original size:158 final size:158
Alignment explanation
Indices: 85550207--85550598 Score: 439
Period size: 159 Copynumber: 2.5 Consensus size: 158
85550197 AATAATTTGG
* *
85550207 AATTGACATTAAAAAAATGTTTACGATATACCTGTGATCCAGTTGTGTTAGGCTGAATGCATGGT
1 AATTGACAATAAAAAAGTGTTTACGATATACCTGTGATCCAGTTGTGTTAGGCTGAATGCATGGT
* * * *
85550272 GTTTTGTTGTTCTTTTTTTAGCTTCTAGTTCGTGTACTCGTACCAGACTAAGACCAAAAAAATCA
66 -CTTTGTTGTTCTTTTTTGAGCTTCTAGTTCGTGTACTAGTACCAGACTAAAACCAAAAAAATCA
* * **
85550337 TAACCCCAAATTAGATTAAAATATTACTG
130 GAACCCCAAATAAGATTAAAATATTACAA
* * * * *
85550366 AATTGACATTAAAATAGTGTATACGATATACCTATGATCCAGTTGTATTAGGCTGAATGCATGGT
1 AATTGACAATAAAAAAGTGTTTACGATATACCTGTGATCCAGTTGTGTTAGGCTGAATGCATGGT
* * * *
85550431 GTTATGTTGTTAC-TTTTTGGGCTTCTAGTTCTTGTACTAGTACCGGACTAAAACCAAAAAAATC
66 CTT-TGTTGTT-CTTTTTTGAGCTTCTAGTTCGTGTACTAGTACCAGACTAAAACCAAAAAAATC
* ** *
85550495 AGAA-TCCAAATAAGATTTTAATATTTCAA
129 AGAACCCCAAATAAGATTAAAATATTACAA
* * * * * ** *
85550524 AATTGACAATGAAAAAGTGTTTACAATATGCCTGGGCTCCTA-TTGTGTTAGTTTGAATGCATGA
1 AATTGACAATAAAAAAGTGTTTACGATATACCTGTGATCC-AGTTGTGTTAGGCTGAATGCATGG
85550588 TCCTTTGTTGT
65 T-CTTTGTTGT
85550599 GACCCTCACC
Statistics
Matches: 195, Mismatches: 34, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
158 76 0.39
159 118 0.61
160 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (158 bp):
AATTGACAATAAAAAAGTGTTTACGATATACCTGTGATCCAGTTGTGTTAGGCTGAATGCATGGT
CTTTGTTGTTCTTTTTTGAGCTTCTAGTTCGTGTACTAGTACCAGACTAAAACCAAAAAAATCAG
AACCCCAAATAAGATTAAAATATTACAA
Found at i:85552370 original size:181 final size:181
Alignment explanation
Indices: 85552066--85552430 Score: 685
Period size: 181 Copynumber: 2.0 Consensus size: 181
85552056 TTTGGATGGT
* *
85552066 CCCCAATAGTAGCTTTAAAATGTTCTGTAATAACTTTTACATTGACCATTTTGTTTCTAAAACTA
1 CCCCAATAATAGCTTCAAAATGTTCTGTAATAACTTTTACATTGACCATTTTGTTTCTAAAACTA
85552131 ACACAATAGACGTGCTCATCATGAAAACTTTTCACCTGTGTGCATCTGGCCATGTTACTGCAACT
66 ACACAATAGACGTGCTCATCATGAAAACTTTTCACCTGTGTGCATCTGGCCATGTTACTGCAACT
85552196 TGAAAATATTCTCCATTTACACTTTTTTTGATGCAATGCATTTAACTCTAA
131 TGAAAATATTCTCCATTTACACTTTTTTTGATGCAATGCATTTAACTCTAA
85552247 CCCCAATAATAGCTTCAAAATGTTCTGTAATAACTTTTACATTGACCATTTTGTTTCTAAAACTA
1 CCCCAATAATAGCTTCAAAATGTTCTGTAATAACTTTTACATTGACCATTTTGTTTCTAAAACTA
* * *
85552312 ACACAATAGATGTGCTTATCATGAAAACTTTTCACCTGTGTGTATCTGGCCATGTTACTGCAACT
66 ACACAATAGACGTGCTCATCATGAAAACTTTTCACCTGTGTGCATCTGGCCATGTTACTGCAACT
85552377 TGAAAATATTCTCCATTTACACTTTTTTTGATGCAATGCATTTAACTCTAA
131 TGAAAATATTCTCCATTTACACTTTTTTTGATGCAATGCATTTAACTCTAA
85552428 CCC
1 CCC
85552431 TATTTGGTTC
Statistics
Matches: 179, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
181 179 1.00
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.37
Consensus pattern (181 bp):
CCCCAATAATAGCTTCAAAATGTTCTGTAATAACTTTTACATTGACCATTTTGTTTCTAAAACTA
ACACAATAGACGTGCTCATCATGAAAACTTTTCACCTGTGTGCATCTGGCCATGTTACTGCAACT
TGAAAATATTCTCCATTTACACTTTTTTTGATGCAATGCATTTAACTCTAA
Found at i:85566716 original size:2 final size:2
Alignment explanation
Indices: 85566709--85566735 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
85566699 ATGACATTTA
85566709 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
85566736 GAAATTGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:85579600 original size:98 final size:98
Alignment explanation
Indices: 85579426--85579636 Score: 298
Period size: 98 Copynumber: 2.2 Consensus size: 98
85579416 CGTCTTTTAA
* * *
85579426 AAATTATTTTTTTAGGAACTACTGTAGAAAAAGAGCATCCACGTGGGAATTTTTTTCAGTAATTT
1 AAATTATTTTTTTAGGAACTACTGTAGAAAAAAAGCATCCACGTGGGAACTTTTTTCAGTAAATT
* * * *
85579491 TGTTGAGAGTGCATCCTGCTTGAAGCTTTTTTG
66 TGCTGACAGTGCATACTGCTTGAAGCATTTTTG
* * * *
85579524 AAATTATTTTTTTAGGAACTACTGTAGAAAAAAAGCGTCCATGTTGGAGCTTTTTTCAGTAAATT
1 AAATTATTTTTTTAGGAACTACTGTAGAAAAAAAGCATCCACGTGGGAACTTTTTTCAGTAAATT
85579589 TGCTGACAGTGCATACTGCTTGAAGCATTTTTG
66 TGCTGACAGTGCATACTGCTTGAAGCATTTTTG
*
85579622 ACATT-TTCTTTTTAG
1 AAATTATT-TTTTTAG
85579637 AACCGTCATC
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
97 2 0.02
98 98 0.98
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (98 bp):
AAATTATTTTTTTAGGAACTACTGTAGAAAAAAAGCATCCACGTGGGAACTTTTTTCAGTAAATT
TGCTGACAGTGCATACTGCTTGAAGCATTTTTG
Found at i:85581003 original size:42 final size:42
Alignment explanation
Indices: 85580944--85581026 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
85580934 AAGACAAAAA
85580944 TATTATTTTCTCTTATATATATATTTTTAAGTGTATATGACG
1 TATTATTTTCTCTTATATATATATTTTTAAGTGTATATGACG
* * *
85580986 TATTATTTTCTCTTATATATTTTTTTTTAAGTTTATATGAC
1 TATTATTTTCTCTTATATATATATTTTTAAGTGTATATGAC
85581027 ATGACAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (42 bp):
TATTATTTTCTCTTATATATATATTTTTAAGTGTATATGACG
Found at i:85581577 original size:26 final size:25
Alignment explanation
Indices: 85581542--85581604 Score: 99
Period size: 26 Copynumber: 2.5 Consensus size: 25
85581532 ATAATTTAAG
* *
85581542 ATAAATAATATTTATGTTTATGATA
1 ATAAATAATATTTATATTTATAATA
85581567 ACTAAATAATATTTATATTTATAATA
1 A-TAAATAATATTTATATTTATAATA
85581593 ATAAATAATATT
1 ATAAATAATATT
85581605 ATTTATCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 12 0.34
26 23 0.66
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (25 bp):
ATAAATAATATTTATATTTATAATA
Found at i:85581621 original size:28 final size:27
Alignment explanation
Indices: 85581542--85581622 Score: 73
Period size: 26 Copynumber: 3.1 Consensus size: 27
85581532 ATAATTTAAG
* *
85581542 ATAAAT-A-ATATTTATGTTTATGATA
1 ATAAATAATATATTTATATTTAAGATA
85581567 ACTAAAT-A-ATATTTATATTTATA-ATA
1 A-TAAATAATATATTTATATTTA-AGATA
*
85581593 ATAAATAATATTATTTATCTTTAAGATA
1 ATAAATAATA-TATTTATATTTAAGATA
85581621 AT
1 AT
85581623 TTTATATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
25 6 0.13
26 23 0.49
27 2 0.04
28 16 0.34
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (27 bp):
ATAAATAATATATTTATATTTAAGATA
Found at i:85581627 original size:21 final size:21
Alignment explanation
Indices: 85581597--85581636 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
85581587 ATAATAATAA
*
85581597 ATAATATTATTTATCTTTAAG
1 ATAATATTATATATCTTTAAG
* *
85581618 ATAATTTTATATATTTTTA
1 ATAATATTATATATCTTTA
85581637 TTTTCTTACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
ATAATATTATATATCTTTAAG
Found at i:85581701 original size:20 final size:20
Alignment explanation
Indices: 85581649--85581701 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
85581639 TTCTTACATA
* **
85581649 AAAATTTACGTAAATTTTTC
1 AAAATTTACTTAACCTTTTC
*
85581669 AAAATTTATTTAACCTTTTC
1 AAAATTTACTTAACCTTTTC
85581689 -AAATTTCACTTAA
1 AAAATTT-ACTTAA
85581702 GATTTTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.45
Consensus pattern (20 bp):
AAAATTTACTTAACCTTTTC
Found at i:85582008 original size:12 final size:12
Alignment explanation
Indices: 85581991--85582023 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
85581981 CGGCCCGCCC
85581991 ATATTAATTTTT
1 ATATTAATTTTT
85582003 ATATT-ATTTTT
1 ATATTAATTTTT
85582014 ATA-TAATTTT
1 ATATTAATTTT
85582024 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:85582181 original size:30 final size:29
Alignment explanation
Indices: 85582145--85582203 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
85582135 CAACTTAACA
85582145 AGCAAATGCCTCTAAAATAATAACAAAATT
1 AGCAAATGCCTCTAAAATAATAA-AAAATT
* *
85582175 AGCAAATGTCTTTAAAATAATAAAAAATT
1 AGCAAATGCCTCTAAAATAATAAAAAATT
85582204 TAATAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (29 bp):
AGCAAATGCCTCTAAAATAATAAAAAATT
Found at i:85582275 original size:18 final size:19
Alignment explanation
Indices: 85582252--85582290 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
85582242 ACAACAAAAT
* *
85582252 AATAGTA-CATAATAGTAA
1 AATAGTAGCAAAATAGGAA
85582270 AATAGTAGCAAAATAGGAA
1 AATAGTAGCAAAATAGGAA
85582289 AA
1 AA
85582291 AAATAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.59, C:0.05, G:0.15, T:0.21
Consensus pattern (19 bp):
AATAGTAGCAAAATAGGAA
Found at i:85582597 original size:2 final size:2
Alignment explanation
Indices: 85582590--85582615 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
85582580 ATAGAACGTA
85582590 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
85582616 CACATATCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85589501 original size:21 final size:21
Alignment explanation
Indices: 85589464--85589523 Score: 93
Period size: 21 Copynumber: 2.8 Consensus size: 21
85589454 TTATACAATA
*
85589464 TGAAACAAAATTTAGTGTAGAC
1 TGAAAC-AAATTAAGTGTAGAC
*
85589486 TGAAACAAATTAAGTGTATAC
1 TGAAACAAATTAAGTGTAGAC
85589507 TGAAACAAATTAAGTGT
1 TGAAACAAATTAAGTGT
85589524 TACTAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 30 0.83
22 6 0.17
ACGTcount: A:0.47, C:0.08, G:0.17, T:0.28
Consensus pattern (21 bp):
TGAAACAAATTAAGTGTAGAC
Found at i:85594598 original size:26 final size:24
Alignment explanation
Indices: 85594558--85594617 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
85594548 TTATTTTATT
* * *
85594558 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
85594582 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
85594608 AAATAAATAT
1 AAATAAATAT
85594618 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:85594629 original size:22 final size:22
Alignment explanation
Indices: 85594588--85594646 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
85594578 ATAATAAATC
* *
85594588 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
85594608 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
85594630 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
85594647 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:85594996 original size:24 final size:22
Alignment explanation
Indices: 85594955--85595016 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 22
85594945 TTAGAAAATA
85594955 AAAATAAAAGATTATATATATGTTC
1 AAAA-AAAAGA-T-TATATATGTTC
* *
85594980 AAAAAAAAGGTTGTATATGTTC
1 AAAAAAAAGATTATATATGTTC
85595002 AAATAAAAAGATTAT
1 AAA-AAAAAGATTAT
85595017 GTTAAAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 13 0.41
23 10 0.31
24 5 0.16
25 4 0.12
ACGTcount: A:0.53, C:0.03, G:0.11, T:0.32
Consensus pattern (22 bp):
AAAAAAAAGATTATATATGTTC
Found at i:85602152 original size:6 final size:6
Alignment explanation
Indices: 85602120--85602150 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
85602110 CCCAATTAAG
*
85602120 AATAAA AATAAA AATAAA AATAAA ACTAAA A
1 AATAAA AATAAA AATAAA AATAAA AATAAA A
85602151 CTCAAATGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:85613013 original size:106 final size:106
Alignment explanation
Indices: 85612888--85613112 Score: 296
Period size: 106 Copynumber: 2.1 Consensus size: 106
85612878 AGTAATTAAG
* * * * * * *
85612888 TTCTTATTTTTTTCACTTAATTCGGTATTTGAACTTTTAAAATGCATC-AAAAAGCTCTCAAGTT
1 TTCTTTTTTTTTTCACTTAATTCGGTACTTGAACTGTCAAAATACATCAAAAAAGCCCTCAAGCT
85612952 TTTTCAAAAAAAAATAATTAAGC-CATTGCTTC-TCT-TTTTTT
66 TTTTC-AAAAAAAA-AATTAAGCTC-TTGCTTCTTCTCTTTTTT
* *
85612993 TTCTTTTTTTTTTACGCTTAATTTGGTACTTGAACTGTCAAAATACATCAAAAAAGCCCTCAAGC
1 TTCTTTTTTTTTT-CACTTAATTCGGTACTTGAACTGTCAAAATACATCAAAAAAGCCCTCAAGC
85613058 TTTTTCAAAAAAAAAATTAAGCTCTTGCTTCTTCTCTTTTTT
65 TTTTTCAAAAAAAAAATTAAGCTCTTGCTTCTTCTCTTTTTT
*
85613100 TTTTTTTTTTTTT
1 TTCTTTTTTTTTT
85613113 TGCGCTCAAT
Statistics
Matches: 105, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
105 27 0.26
106 41 0.39
107 37 0.35
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.48
Consensus pattern (106 bp):
TTCTTTTTTTTTTCACTTAATTCGGTACTTGAACTGTCAAAATACATCAAAAAAGCCCTCAAGCT
TTTTCAAAAAAAAAATTAAGCTCTTGCTTCTTCTCTTTTTT
Found at i:85613140 original size:108 final size:106
Alignment explanation
Indices: 85612926--85613143 Score: 264
Period size: 108 Copynumber: 2.0 Consensus size: 106
85612916 TTGAACTTTT
* * *
85612926 AAAATGCATCAAAAAGCTCTCAAGTTTTTTCAAAAAAAAATAATTAAGCCATTGCTTCTCTTTTT
1 AAAATACATCAAAAAGCCCTCAAGCTTTTTCAAAAAAAAATAATTAAGCCATTGCTTCTCTTTTT
* ** * *
85612991 TTTTCTTTTTTTTTTACGCTTAATTTGGTACTTGAACTGTC
66 TTTTCTTTTTTTTTTACGCTCAATTTGACACTTAAAATGTC
85613032 AAAATACATCAAAAAAGCCCTCAAGCTTTTTC-AAAAAAAA-AATTAAGCTC-TTGCTTCTTCTC
1 AAAATACATC-AAAAAGCCCTCAAGCTTTTTCAAAAAAAAATAATTAAGC-CATTG---CTTCTC
* *
85613094 TTTTTTTTTTTTTTTTTTTTGCGCTCAA-TTGAACACTTAAAATGTC
61 TTTTTTTTTCTTTTTTTTTTACGCTCAATTTG-ACACTTAAAATGTC
85613140 AAAA
1 AAAA
85613144 AGTTATTTGA
Statistics
Matches: 96, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
105 11 0.11
106 18 0.19
107 22 0.23
108 45 0.47
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (106 bp):
AAAATACATCAAAAAGCCCTCAAGCTTTTTCAAAAAAAAATAATTAAGCCATTGCTTCTCTTTTT
TTTTCTTTTTTTTTTACGCTCAATTTGACACTTAAAATGTC
Found at i:85613269 original size:7 final size:8
Alignment explanation
Indices: 85613244--85613280 Score: 56
Period size: 8 Copynumber: 4.4 Consensus size: 8
85613234 GTGACATGTG
85613244 ATAAAAAA
1 ATAAAAAA
85613252 TTATAAAAAA
1 --ATAAAAAA
85613262 ATAAAAAA
1 ATAAAAAA
85613270 ATAAAAAA
1 ATAAAAAA
85613278 ATA
1 ATA
85613281 TTAAATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 19 0.70
10 8 0.30
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (8 bp):
ATAAAAAA
Found at i:85613646 original size:9 final size:9
Alignment explanation
Indices: 85613528--85613698 Score: 76
Period size: 9 Copynumber: 19.0 Consensus size: 9
85613518 CTTTGGTACG
85613528 ATAATTTTT
1 ATAATTTTT
*
85613537 ATATTTTTTT
1 ATA-ATTTTT
85613547 ATGAA-TTTT
1 AT-AATTTTT
85613556 AT-ATTTCTT
1 ATAATTT-TT
85613565 -TACATTTGTT
1 ATA-ATTT-TT
85613575 ATAACTTTTT
1 ATAA-TTTTT
*
85613585 -TACAATTTT
1 ATA-ATTTTT
*
85613594 AT--GTTTT
1 ATAATTTTT
*
85613601 ACAATTTTT
1 ATAATTTTT
85613610 ATAATTTTT
1 ATAATTTTT
*
85613619 AAAATTTTT
1 ATAATTTTT
*
85613628 AATAAATTTT
1 -ATAATTTTT
85613638 -TAATTTTT
1 ATAATTTTT
*
85613646 -TTATTTTT
1 ATAATTTTT
* *
85613654 ATTAAAATTTA
1 A-T-AATTTTT
*
85613665 ATAACTTTT
1 ATAATTTTT
85613674 ATTAATTTTT
1 A-TAATTTTT
85613684 AT--TTTTT
1 ATAATTTTT
85613691 AT-ATTTTT
1 ATAATTTTT
85613699 TTGCCACTCA
Statistics
Matches: 125, Mismatches: 19, Indels: 37
0.69 0.10 0.20
Matches are distributed among these distances:
7 13 0.10
8 22 0.18
9 44 0.35
10 35 0.28
11 11 0.09
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (9 bp):
ATAATTTTT
Found at i:85614081 original size:15 final size:14
Alignment explanation
Indices: 85614061--85614090 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
85614051 TTACCAAATC
85614061 TAAATAAATATAAAA
1 TAAATAAATA-AAAA
85614076 TAAATAAATAAAAA
1 TAAATAAATAAAAA
85614090 T
1 T
85614091 TAACAAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAATAAATAAAAA
Found at i:85614896 original size:2 final size:2
Alignment explanation
Indices: 85614884--85614918 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
85614874 TTAATATAGG
*
85614884 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
85614919 TAAAATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:85618353 original size:18 final size:18
Alignment explanation
Indices: 85618330--85618381 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
85618320 CATACAACGT
*
85618330 GATTCATGATTGTCAAGG
1 GATTCATGATCGTCAAGG
85618348 GATTCATGATCGTCAAGG
1 GATTCATGATCGTCAAGG
85618366 GATTCATGATCGTCAA
1 GATTCATGATCGTCAA
85618382 CGATTTATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (18 bp):
GATTCATGATCGTCAAGG
Found at i:85618665 original size:32 final size:31
Alignment explanation
Indices: 85618629--85618714 Score: 86
Period size: 31 Copynumber: 2.7 Consensus size: 31
85618619 CCTAAATCAA
85618629 GATATTGGTAGAATGGGATATCCTTC-AATTGG
1 GATATT-GTAGAATGGGATATCC-TCGAATTGG
* *
85618661 GATATAAGTGGAATGGGATAT-CTCGAATTGG
1 GATAT-TGTAGAATGGGATATCCTCGAATTGG
* *
85618692 GATATCTTTTGAATGGGATATCC
1 GATAT-TGTAGAATGGGATATCC
85618715 CTTATCAGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
30 2 0.04
31 24 0.53
32 19 0.42
ACGTcount: A:0.29, C:0.09, G:0.28, T:0.34
Consensus pattern (31 bp):
GATATTGTAGAATGGGATATCCTCGAATTGG
Found at i:85618710 original size:16 final size:14
Alignment explanation
Indices: 85618671--85618713 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
85618661 GATATAAGTG
85618671 GAATGGGATATCTC
1 GAATGGGATATCTC
*
85618685 GAATTGGGATATCTTTT
1 GAA-TGGGATATC--TC
85618702 GAATGGGATATC
1 GAATGGGATATC
85618714 CCTTATCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 3 0.12
15 9 0.36
16 9 0.36
17 4 0.16
ACGTcount: A:0.28, C:0.09, G:0.28, T:0.35
Consensus pattern (14 bp):
GAATGGGATATCTC
Found at i:85624458 original size:26 final size:26
Alignment explanation
Indices: 85624429--85624512 Score: 159
Period size: 26 Copynumber: 3.2 Consensus size: 26
85624419 TGATACAAAT
*
85624429 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
85624455 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
85624481 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
85624507 TGATAA
1 TGATAA
85624513 GAATTTCATG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:85631237 original size:25 final size:25
Alignment explanation
Indices: 85631158--85631240 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
85631148 CAACTTGCAT
* * *
85631158 GAGCTTACCATTATCCAACTCGGAG
1 GAGCTTACTATTATTCAGCTCGGAG
* * * ** *
85631183 GAGCTTATTAATGTTCAGCTCACAT
1 GAGCTTACTATTATTCAGCTCGGAG
*
85631208 TAGCTTACTATTATTCAGCTCGGAG
1 GAGCTTACTATTATTCAGCTCGGAG
85631233 GAGCTTAC
1 GAGCTTAC
85631241 CGGTTATCAC
Statistics
Matches: 41, Mismatches: 17, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (25 bp):
GAGCTTACTATTATTCAGCTCGGAG
Found at i:85638385 original size:2 final size:2
Alignment explanation
Indices: 85638380--85638426 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
85638370 AAAATTAAAA
85638380 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
85638422 AG AG A
1 AG AG A
85638427 AAATTGAGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:85639791 original size:15 final size:15
Alignment explanation
Indices: 85639773--85639801 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
85639763 AGCAAATTAC
85639773 ACATAAATAAATAGA
1 ACATAAATAAATAGA
85639788 ACATAAATAAATAG
1 ACATAAATAAATAG
85639802 TCAAATAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (15 bp):
ACATAAATAAATAGA
Found at i:85641876 original size:10 final size:10
Alignment explanation
Indices: 85641861--85641895 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
85641851 ATCAACAAAA
85641861 TAAAATATTT
1 TAAAATATTT
85641871 TAAAAT-TTT
1 TAAAATATTT
*
85641880 TAAAAAATTT
1 TAAAATATTT
85641890 TAAAAT
1 TAAAAT
85641896 TAACTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TAAAATATTT
Found at i:85647852 original size:28 final size:28
Alignment explanation
Indices: 85647812--85647873 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
85647802 CTTGCTCGAT
*
85647812 TTTAATTGAAATAGTAAAAAAATAAAAA
1 TTTAATTGAAATAATAAAAAAATAAAAA
** * *
85647840 TTTAATTTTAATAATAAAAATATATAAA
1 TTTAATTGAAATAATAAAAAAATAAAAA
85647868 TATTAA
1 T-TTAA
85647874 ACATAAAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (28 bp):
TTTAATTGAAATAATAAAAAAATAAAAA
Found at i:85652986 original size:53 final size:53
Alignment explanation
Indices: 85652916--85653050 Score: 182
Period size: 53 Copynumber: 2.5 Consensus size: 53
85652906 CACATATCAT
* * *
85652916 ACCGAAGCCATATCCCAGAC-ATGGTCTTATACGAAATCACATTATCACATTAT
1 ACCGATGCCATAGCCCAG-CTATGGTCTTATACGAAATCACATTATCACATTAC
* * * *
85652969 ACTGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATTGC
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGAAATCACATTATCACATTAC
*
85653022 ACCGATACCATAGCCCAGCTATGGTCTTA
1 ACCGATGCCATAGCCCAGCTATGGTCTTA
85653051 AACGGGCGCA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 1 0.01
53 71 0.99
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (53 bp):
ACCGATGCCATAGCCCAGCTATGGTCTTATACGAAATCACATTATCACATTAC
Found at i:85658246 original size:28 final size:29
Alignment explanation
Indices: 85658179--85658279 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
85658169 ATAGTGAATC
*
85658179 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
85658208 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
85658236 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
85658266 CGCACACTTAGTGC
1 CGCACACTTAGTGC
85658280 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:85666051 original size:28 final size:29
Alignment explanation
Indices: 85665984--85666084 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
85665974 ATAGTGAATC
*
85665984 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
85666013 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
85666041 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
85666071 CGCACACTTAGTGC
1 CGCACACTTAGTGC
85666085 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:85667735 original size:12 final size:12
Alignment explanation
Indices: 85667718--85667742 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85667708 ATGTAAGTGA
85667718 TCTTGATGATTT
1 TCTTGATGATTT
85667730 TCTTGATGATTT
1 TCTTGATGATTT
85667742 T
1 T
85667743 TACATTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:85668513 original size:47 final size:45
Alignment explanation
Indices: 85668401--85668528 Score: 141
Period size: 47 Copynumber: 2.8 Consensus size: 45
85668391 TCACTTGTGT
* * **
85668401 GTGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCATATTACG
1 GTGCTAGTGTAAGACATGTTTAGGACATGCATCGGACATAAGACG
* *
85668446 GAAGCTAATGTAAGACCATGTTTAGGACATGGCATCGGTAC-TAAGACG
1 G-TGCTAGTGTAAGA-CATGTTTAGGACAT-GCATCGG-ACATAAGACG
*
85668494 AGTGCTAGTGTAAGACATGTCTAGGACATGCATCG
1 -GTGCTAGTGTAAGACATGTTTAGGACATGCATCG
85668529 ACTTCGAGAT
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
45 1 0.01
46 17 0.25
47 26 0.38
48 23 0.33
49 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (45 bp):
GTGCTAGTGTAAGACATGTTTAGGACATGCATCGGACATAAGACG
Found at i:85668552 original size:46 final size:48
Alignment explanation
Indices: 85668500--85668669 Score: 208
Period size: 47 Copynumber: 3.6 Consensus size: 48
85668490 GACGAGTGCT
*
85668500 AGTGTAAGA-CATGTCTAGGACAT-GCATCGACTTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTCGAGATGTAAGCC
* * *
85668546 AGTGTAAGA-CATGTCTGGGACAT-ACATCGACTACGAGATG-ATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTCGAGATGTA-AGCC
* * * *
85668592 AGTGTAAGACCATGTCTGGGATATGGCATCGGCTT-GAGATTTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTCGAGATGTAAGCC
*
85668639 AGTGTAAGACCATGTCTGAGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
85668670 GTACCTTACC
Statistics
Matches: 107, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
45 1 0.01
46 49 0.46
47 50 0.47
48 7 0.07
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTCGAGATGTAAGCC
Found at i:85675349 original size:12 final size:12
Alignment explanation
Indices: 85675332--85675356 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85675322 ATGTAAGTGA
85675332 TCTTGATGATTT
1 TCTTGATGATTT
85675344 TCTTGATGATTT
1 TCTTGATGATTT
85675356 T
1 T
85675357 TACATTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:85676072 original size:46 final size:46
Alignment explanation
Indices: 85676017--85676236 Score: 175
Period size: 46 Copynumber: 4.7 Consensus size: 46
85676007 ACTTGTGTGT
* *
85676017 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGGAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGGAA
* * * *
85676063 GATAGTGTAAGACCATGTCTGGGACGTGGCAT-GGGCAC-TGA-GACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATGATG--GA-A
* * *
85676111 GCTAATGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGGAA
* * * *
85676157 GCCAGTGTAAGACATGTCTGGGACATTCATCGGCTA-AGAGAT-GATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TGATGGA-A
85676203 GTCT-GTGTAAGACCATGTCTGGGACATGGCATCG
1 G-CTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
85676237 ACCTGAGATA
Statistics
Matches: 138, Mismatches: 21, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 61 0.44
47 52 0.38
48 21 0.15
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGGAA
Found at i:85676245 original size:47 final size:45
Alignment explanation
Indices: 85676020--85676283 Score: 182
Period size: 47 Copynumber: 5.6 Consensus size: 45
85676010 TGTGTGTGCT
** *
85676020 AGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGGA-AGAT-
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTGA-GAT-GATAG-TC
* * * *
85676066 AGTGTAAGACCATGTCTGGGACGTGGCATGGGCACTGAGACG--AGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-CTGAGATGATAGT-C
* * *
85676113 TAATGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-TAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCGACCT-GAGATGAT-AGTC
* *
85676160 AGTGTAAGACATGTCTGGGACATTCATCG-GCTAAGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCT--GAGATGATAGTC
* *
85676206 TGTGTAAGACCATGTCTGGGACATGGCATCGACCTGAGAT-ATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTGAGATGAT-AGTC
* *
85676253 AGTGTAAGGCCATGTCTGGGATATGGCATCG
1 AGTGTAA-GACATGTCTGGGACAT-GCATCG
85676284 GCACCTTATC
Statistics
Matches: 178, Mismatches: 24, Indels: 31
0.76 0.10 0.13
Matches are distributed among these distances:
45 5 0.03
46 69 0.39
47 77 0.43
48 23 0.13
49 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCTGAGATGATAGTC
Done.