Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 261 of 284
Found at i:87969057 original size:46 final size:44
Alignment explanation
Indices: 87968868--87969057 Score: 109
Period size: 46 Copynumber: 4.1 Consensus size: 44
87968858 CCCGCCCATA
* ** ** **
87968868 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCC-T
* * *
87968913 AAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * * *
87968963 --CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCAAATCC-T
87969006 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
87969053 AGTGA
1 AGTGA
87969058 CATGTCACTT
Statistics
Matches: 110, Mismatches: 19, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 4 0.04
45 1 0.01
46 62 0.56
47 25 0.23
48 5 0.05
49 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:87971924 original size:15 final size:15
Alignment explanation
Indices: 87971891--87971970 Score: 99
Period size: 15 Copynumber: 5.4 Consensus size: 15
87971881 CAAAGATAAT
*
87971891 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
87971905 AAGAAATCCAAAATA
1 AAGAAATCCAGAATA
* *
87971920 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
87971935 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
87971950 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
87971965 AAGAAA
1 AAGAAA
87971971 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
14 8 0.15
15 47 0.85
ACGTcount: A:0.60, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:87971979 original size:15 final size:15
Alignment explanation
Indices: 87971902--87971979 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
87971892 AGAAAACCGA
*
87971902 ATAAAGAAATCCAAA
1 ATAAAGAAATCCAAG
* *
87971917 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
87971931 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
87971946 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
87971962 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
87971977 ATA
1 ATA
87971980 CGATATTATG
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
14 3 0.06
15 45 0.88
16 3 0.06
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:87975035 original size:93 final size:93
Alignment explanation
Indices: 87974923--87975094 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
87974913 GCCCATAAGT
* * * * **
87974923 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTTGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAACTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
87974988 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
87975016 GAACTCGGACTCAACTCAACGAATTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAACTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
87975081 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
87975095 CAAATATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAACTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:87975081 original size:46 final size:46
Alignment explanation
Indices: 87974915--87975090 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
87974905 TGTAACCCGC
* * *
87974915 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
**
87974961 CCATAAGTGAACTTTGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCACAT
* **
87975011 CTC-T---CGAACTCGGACTCAACTCAACGAATTCGGACATTCACAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
*
87975054 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
87975091 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.07
44 1 0.01
46 62 0.58
47 25 0.23
49 1 0.01
50 5 0.05
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
Found at i:87979900 original size:24 final size:24
Alignment explanation
Indices: 87979867--87979940 Score: 112
Period size: 24 Copynumber: 3.1 Consensus size: 24
87979857 AAGTCTGTCT
*
87979867 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
87979891 GGAGAGGATTTAGGAGCTGATCAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
87979915 GGAGAGGATTTAGGAGATGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
87979939 GG
1 GG
87979941 TGAACTGTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.32, C:0.04, G:0.42, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:87981476 original size:27 final size:26
Alignment explanation
Indices: 87981374--87981486 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
87981364 AGGAAGCATC
* *
87981374 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
* * *
87981402 CTGGTGGCTATGCCCCATATATCTATT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
87981429 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
87981457 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
87981483 CTGG
1 CTGG
87981487 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.09
27 35 0.47
28 32 0.43
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:87986769 original size:24 final size:24
Alignment explanation
Indices: 87986736--87986809 Score: 105
Period size: 24 Copynumber: 3.1 Consensus size: 24
87986726 AAGTCTGCCT
*
87986736 GGAGAAGATTTAGGAGCTAATAAG
1 GGAGAGGATTTAGGAGCTAATAAG
*
87986760 GGAGAGGATTTAGGAGCTGATCAA-
1 GGAGAGGATTTAGGAGCTAAT-AAG
*
87986784 GGAGAGGATTTAGGAGCTAATTAG
1 GGAGAGGATTTAGGAGCTAATAAG
87986808 GG
1 GG
87986810 TGAACTCTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
23 1 0.02
24 41 0.93
25 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.38, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTAATAAG
Found at i:87988318 original size:27 final size:26
Alignment explanation
Indices: 87988241--87988353 Score: 77
Period size: 27 Copynumber: 4.2 Consensus size: 26
87988231 AGGAAGCGTC
*
87988241 CTGGTGGCTATGCCACAAATTATCTGA-T
1 CTGGTGGCTTTGCCAC--ATTATCT-ATT
* *
87988269 CTAGTGGCTCTGCC-CTATATATCTATT
1 CTGGTGGCTTTGCCAC-AT-TATCTATT
*
87988296 CTGGTGGCTTTGCCACGATTATCTGTAT
1 CTGGTGGCTTTGCCAC-ATTATCTAT-T
** * *
87988324 CTGGTGATTTTGTCACATTATCTGTT
1 CTGGTGGCTTTGCCACATTATCTATT
87988350 CTGG
1 CTGG
87988354 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
26 8 0.11
27 34 0.48
28 29 0.41
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (26 bp):
CTGGTGGCTTTGCCACATTATCTATT
Found at i:87988335 original size:28 final size:26
Alignment explanation
Indices: 87988288--87988353 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
87988278 CTGCCCTATA
* *
87988288 TATCTATTCTGGTGGCTTTGCCACGAT
1 TATCTGTTCTGGTGACTTTGCCAC-AT
* *
87988315 TATCTGTATCTGGTGATTTTGTCACAT
1 TATCTGT-TCTGGTGACTTTGCCACAT
87988342 TATCTGTTCTGG
1 TATCTGTTCTGG
87988354 CAGCCATGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.15
27 15 0.44
28 14 0.41
ACGTcount: A:0.15, C:0.18, G:0.21, T:0.45
Consensus pattern (26 bp):
TATCTGTTCTGGTGACTTTGCCACAT
Found at i:87991976 original size:28 final size:28
Alignment explanation
Indices: 87991945--87992024 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 28
87991935 ACTGACCGAT
87991945 CTCGCACACATAGTGCTCGGTTGA-AGAA
1 CTCGCACACATAGTGCTCGGTT-ACAGAA
** * *
87991973 CTCGCACACATAGTGCCTCAATTACCGAT
1 CTCGCACACATAGTG-CTCGGTTACAGAA
87992002 CTCGCACACATAGTGCTCGGTTA
1 CTCGCACACATAGTGCTCGGTTA
87992025 AAGGAATTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
28 22 0.50
29 22 0.50
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (28 bp):
CTCGCACACATAGTGCTCGGTTACAGAA
Found at i:87992015 original size:29 final size:30
Alignment explanation
Indices: 87991937--87992017 Score: 105
Period size: 29 Copynumber: 2.8 Consensus size: 30
87991927 TAGTGCCCAC
**
87991937 TGACCGATCTCGCACACATAGTG-CTCGGT
1 TGACCGATCTCGCACACATAGTGCCTCAAT
* *
87991966 TGA-AGAACTCGCACACATAGTGCCTCAAT
1 TGACCGATCTCGCACACATAGTGCCTCAAT
87991995 T-ACCGATCTCGCACACATAGTGC
1 TGACCGATCTCGCACACATAGTGC
87992018 TCGGTTAAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
28 18 0.41
29 26 0.59
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (30 bp):
TGACCGATCTCGCACACATAGTGCCTCAAT
Found at i:87992251 original size:43 final size:43
Alignment explanation
Indices: 87992215--87993241 Score: 1984
Period size: 43 Copynumber: 23.9 Consensus size: 43
87992205 CACCGGAATT
87992215 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
87992258 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
87992301 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
87992344 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
87992387 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
87992430 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
87992473 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
87992516 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
87992559 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
87992602 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
87992645 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
87992688 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
87992731 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
87992774 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
87992817 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
87992860 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
87992903 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
87992946 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
87992989 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
87993032 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
* *
87993075 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCAGCACA
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
*
87993118 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
*
87993161 AAGCCTGCTAGGCACGAATG-CCCGAATACATATCACCGGCACG
1 AAGCCTGCTAGGCACGAA-GACCCGAATACACATCACCGGCACG
* *
87993204 AAGCCTGCTAGGCACGAAGGCCGGAATACACATCACCG
1 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCG
87993242 AGTTTCATGC
Statistics
Matches: 974, Mismatches: 8, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
42 1 0.00
43 972 1.00
44 1 0.00
ACGTcount: A:0.33, C:0.35, G:0.23, T:0.10
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
Found at i:87996532 original size:27 final size:27
Alignment explanation
Indices: 87996502--87996764 Score: 312
Period size: 27 Copynumber: 9.7 Consensus size: 27
87996492 TTAGTTTACC
*
87996502 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
87996529 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
87996556 AAATCACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * *
87996583 AATTTATCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
** *
87996610 AAATTAGGAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* **
87996637 AAATTACCAAAATACCATTGGTTTCCA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
87996664 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * *
87996691 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * *
87996718 AAATTACCAAAATACCCCAT-ATTTGTG
1 AAATTACCAAAATA-CCCTTGGTTTGTA
*
87996745 AAACTACCAAAATACCCTTG
1 AAATTACCAAAATACCCTTG
87996765 TAGGGTAGAA
Statistics
Matches: 195, Mismatches: 39, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 4 0.02
27 187 0.96
28 4 0.02
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTGTA
Found at i:87996567 original size:54 final size:54
Alignment explanation
Indices: 87996502--87996764 Score: 359
Period size: 54 Copynumber: 4.9 Consensus size: 54
87996492 TTAGTTTACC
87996502 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
87996556 AAATCACCAAAATACCCTTGGTTTGTAAATTTA-TCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACT-AAAATACCCTTGGTTTATA
** * * **
87996610 AAATTAGGAAAATACCCCTGGTTTGTAAAATTACCAAAATACCATTGGTTTCCA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* *
87996664 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * *
87996718 AAATTACCAAAATACCCCAT-ATTTGTGAAACTACCAAAATACCCTTG
1 AAATTACCAAAATACCCC-TGGTTTGTAAAATTACTAAAATACCCTTG
87996765 TAGGGTAGAA
Statistics
Matches: 181, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 179 0.99
55 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:87996777 original size:108 final size:106
Alignment explanation
Indices: 87996502--87996815 Score: 346
Period size: 108 Copynumber: 2.9 Consensus size: 106
87996492 TTAGTTTACC
* * *
87996502 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTT-GTGTATAAAATTACCAAA
* * *
87996567 ATACCCTTGGTTTGTAAATTTA-TCAAAATACCCTTGGTTTATA
65 ATACCCCT-GTTTGTAAAATTACT-AGAATACCCTTGGTTTATA
** * *
87996610 AAATTAGGAAAATACCCCTGGTTTGTAAAATTACCAAAATACCATTG-GTTTCCAAAATTACCAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGTGTAT--AAAATTACCAA
87996674 AATACCCCTAGTTTGTAAAATTACTAGAATACCCTTGGTTTATA
64 AATACCCCT-GTTTGTAAAATTACTAGAATACCCTTGGTTTATA
* * * ** * *
87996718 AAATTACCAAAATACCCCAT-ATTTGTGAAACTACCAAAATACCCTTGTAGGGTAGAATTACCGA
1 AAATTACCAAAATACCCC-TGGTTTGTAAAATTACCAAAATACCCTTGT-GTATAAAATTACCAA
** *
87996782 AATACCCCTGTAGGGTAGAATTACTAGAATACCC
64 AATACCCCTGT-TTGTAAAATTACTAGAATACCC
87996816 CTGTAGGGTA
Statistics
Matches: 175, Mismatches: 24, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
106 2 0.01
107 3 0.02
108 166 0.95
109 2 0.01
110 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (106 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGTGTATAAAATTACCAAAA
TACCCCTGTTTGTAAAATTACTAGAATACCCTTGGTTTATA
Found at i:87996779 original size:27 final size:27
Alignment explanation
Indices: 87996749--87996914 Score: 226
Period size: 27 Copynumber: 6.1 Consensus size: 27
87996739 TTTGTGAAAC
* *
87996749 TACCAAAATACCCTTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
87996776 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
87996803 TA-CTAGAATACCCCTGTAGGGTAGAAT
1 TACCGA-AATACCCCTGTAGGGTAGAAT
*
87996830 TACCGAAGTACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
87996857 AACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * * *
87996884 TACCGAGATACCCTTGTGGGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
87996911 TACC
1 TACC
87996915 ATTTTACCCC
Statistics
Matches: 123, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.02
27 119 0.97
28 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAT
Found at i:87997296 original size:22 final size:22
Alignment explanation
Indices: 87997271--87997320 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
87997261 GATGGCTCTT
87997271 TGCCAACCTAAATATGGCTTCG
1 TGCCAACCTAAATATGGCTTCG
* * * *
87997293 TGCCATCTTGAGTATGGCTTCG
1 TGCCAACCTAAATATGGCTTCG
87997315 TGCCAA
1 TGCCAA
87997321 ACATATTTAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (22 bp):
TGCCAACCTAAATATGGCTTCG
Found at i:87997507 original size:27 final size:27
Alignment explanation
Indices: 87997477--87997541 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
87997467 ATTCTGTTTA
* *
87997477 GTGGCTTTGCCAC-ATTATCTGATTCTG
1 GTGGCTTTGCCACAAATATCTG-TACTG
*
87997504 GTGGCTATGCCACAAATATCTGTACTG
1 GTGGCTTTGCCACAAATATCTGTACTG
*
87997531 GAGGCTTTGCC
1 GTGGCTTTGCC
87997542 TCAACTTACT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 25 0.78
28 7 0.22
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (27 bp):
GTGGCTTTGCCACAAATATCTGTACTG
Found at i:87998523 original size:37 final size:37
Alignment explanation
Indices: 87998482--87998569 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
87998472 ATTCTGTTAC
* * *
87998482 CTGATACTGATTCTGATTTTGTCACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTAATT
*
87998519 CTGATTCTGATTCTGATTCTGTCACCTTATTCTAATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTAATT
*
87998556 CTGATTCTAATTCT
1 CTGATTCTGATTCT
87998570 AGTTCTAGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.48
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATTCTAATT
Found at i:87998563 original size:31 final size:31
Alignment explanation
Indices: 87997684--87998502 Score: 1620
Period size: 31 Copynumber: 26.4 Consensus size: 31
87997674 TTGCATTTAC
*
87997684 ATTCTGATTTTTTATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
87997716 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87997747 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87997778 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87997809 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87997840 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87997871 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87997902 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87997933 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87997964 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87997995 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87998026 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87998057 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87998088 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87998119 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87998150 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87998181 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87998212 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87998243 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87998274 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87998305 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87998336 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87998367 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87998398 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87998429 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87998460 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
87998491 ATTCTGATTTTG
1 ATTCTGATTTTG
87998503 TCACCTAATT
Statistics
Matches: 786, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
31 779 0.99
32 7 0.01
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:87998564 original size:12 final size:12
Alignment explanation
Indices: 87998507--87998584 Score: 60
Period size: 12 Copynumber: 6.9 Consensus size: 12
87998497 ATTTTGTCAC
87998507 CTAATTCTGATT
1 CTAATTCTGATT
*
87998519 CTGATTCTGATT
1 CTAATTCTGATT
*
87998531 CTGATTCTG--T
1 CTAATTCTGATT
* *
87998541 C--A-CCTTATT
1 CTAATTCTGATT
87998550 CTAATTCTGATT
1 CTAATTCTGATT
87998562 CTAATTCT-AGTT
1 CTAATTCTGA-TT
*
87998574 CTAGTTCTGAT
1 CTAATTCTGAT
87998585 AATGTTTCTT
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
7 2 0.04
8 1 0.02
9 2 0.04
10 2 0.04
11 2 0.04
12 43 0.81
13 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.49
Consensus pattern (12 bp):
CTAATTCTGATT
Found at i:87998581 original size:18 final size:18
Alignment explanation
Indices: 87998507--87998575 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
87998497 ATTTTGTCAC
*
87998507 CTAATTCTGATTCTGATT
1 CTAATTCTAATTCTGATT
* * *
87998525 CTGATTCTGATTCTG-TCAC
1 CTAATTCTAATTCTGAT--T
*
87998544 CTTATTCTAATTCTGATT
1 CTAATTCTAATTCTGATT
*
87998562 CTAATTCTAGTTCT
1 CTAATTCTAATTCT
87998576 AGTTCTGATA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
17 1 0.02
18 26 0.63
19 13 0.32
20 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.49
Consensus pattern (18 bp):
CTAATTCTAATTCTGATT
Found at i:88004166 original size:6 final size:6
Alignment explanation
Indices: 88004148--88004235 Score: 83
Period size: 6 Copynumber: 14.3 Consensus size: 6
88004138 AAGAAACATT
*
88004148 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
88004197 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
88004236 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
5 4 0.06
6 55 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:88004169 original size:18 final size:18
Alignment explanation
Indices: 88004148--88004235 Score: 83
Period size: 19 Copynumber: 4.8 Consensus size: 18
88004138 AAGAAACATT
88004148 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
88004166 ATCAGAATCAGAATCAG-
1 ATCAGAATCAGAATCAGA
*
88004183 GTGACAGAATCAGAATCAGA
1 AT--CAGAATCAGAATCAGA
*
88004203 ATCAGTATCAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAGA
*
88004222 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
88004236 GTGAATGCAA
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
17 3 0.05
18 23 0.40
19 29 0.50
20 3 0.05
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:88004195 original size:31 final size:31
Alignment explanation
Indices: 88004157--88004235 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
88004147 TATCAGAACT
*
88004157 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
88004188 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
88004219 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
88004236 GTGAATGCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:88004225 original size:25 final size:24
Alignment explanation
Indices: 88004162--88004208 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
88004152 GAACTAGAAT
88004162 CAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCA-GTGA
88004187 CAGAATCAGAATCAGAATCAGT
1 CAGAATCAGAATCAGAATCAGT
88004209 ATCAGGTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (24 bp):
CAGAATCAGAATCAGAATCAGTGA
Found at i:88004402 original size:27 final size:26
Alignment explanation
Indices: 88004354--88004413 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
88004344 GCGAGGCTGC
*
88004354 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
88004381 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
88004407 CAGATAT
1 CAGATAT
88004414 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:88004456 original size:71 final size:67
Alignment explanation
Indices: 88004381--88004522 Score: 176
Period size: 67 Copynumber: 2.1 Consensus size: 67
88004371 TCACCAGATA
* * * * *
88004381 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCAAAGCCACCAGATTGTAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTAGCAAAGCCACCAGATTGCAGCGA
88004446 GGCTGC
62 GGCTGC
* * *
88004452 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTAGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTAGCAAAGCCACCAGATTGCAGCGAGGCT
88004517 GC
66 GC
88004519 CAGA
1 CAGA
88004523 ACGCTTCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 38 0.60
71 25 0.40
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTAGCAAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:88005418 original size:27 final size:27
Alignment explanation
Indices: 88005356--88005433 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
88005346 GGGCATATTC
88005356 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* * *
88005383 GTCACTTTACCCTTCAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
88005410 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
88005434 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 2 0.05
27 38 0.93
28 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:88005504 original size:27 final size:27
Alignment explanation
Indices: 88005474--88005525 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
88005464 GTAAATCTAC
88005474 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTTCAATAATTTTGT
* *
88005501 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAGGGTATTTCAATAATTTT
88005526 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAATAATTTTGT
Found at i:88005587 original size:27 final size:27
Alignment explanation
Indices: 88005548--88005660 Score: 113
Period size: 27 Copynumber: 4.2 Consensus size: 27
88005538 GGTAATTCTT
** *
88005548 TAATTTTGTAAATCAGGGGTACTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
* * *
88005575 TAATTTTACAAAT-TGAGGGTATTTCGA
1 TAATTTTACAAATCAG-GGGTATTTTGG
* * *
88005602 TAATTTCACAAACCAGTGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
88005629 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTACAAATC-AGGGGTATTTTGG
88005656 TAATT
1 TAATT
88005661 CTACCCTATA
Statistics
Matches: 69, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
26 2 0.03
27 66 0.96
28 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
TAATTTTACAAATCAGGGGTATTTTGG
Found at i:88005700 original size:27 final size:27
Alignment explanation
Indices: 88005558--88005726 Score: 98
Period size: 27 Copynumber: 6.3 Consensus size: 27
88005548 TAATTTTGTA
*
88005558 AATC-AGGGGTACTTT-GGTAATTTTAC
1 AATCGAGGGGTA-TTTCGGTAATTTCAC
* *
88005584 AAATTGA-GGGTATTTCGATAATTTCAC
1 -AATCGAGGGGTATTTCGGTAATTTCAC
* * * * *
88005611 AAACCAGTGGTATTTTGGTAATTTTAC
1 AATCGAGGGGTATTTCGGTAATTTCAC
* * * *
88005638 AAACTAGGGGTATTTTGGTAATTCTACCC
1 AATCGAGGGGTATTTCGGTAATT-T-CAC
* *
88005667 TAT--AGGGGTATTTCAGTAATTTCAC
1 AATCGAGGGGTATTTCGGTAATTTCAC
*** *
88005692 AATCGA-GGGTAAAACGATAATTTCAC
1 AATCGAGGGGTATTTCGGTAATTTCAC
88005718 AATCGAGGG
1 AATCGAGGG
88005727 TAAAATAGTA
Statistics
Matches: 109, Mismatches: 25, Indels: 16
0.73 0.17 0.11
Matches are distributed among these distances:
25 4 0.04
26 28 0.26
27 73 0.67
28 2 0.02
29 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.34
Consensus pattern (27 bp):
AATCGAGGGGTATTTCGGTAATTTCAC
Found at i:88005738 original size:26 final size:25
Alignment explanation
Indices: 88005681--88005766 Score: 100
Period size: 26 Copynumber: 3.3 Consensus size: 25
88005671 GGGGTATTTC
88005681 AGTAATTTCACAATCGAGGGTAAAA
1 AGTAATTTCACAATCGAGGGTAAAA
*
88005706 CGATAATTTCACAATCGAGGGTAAAA
1 AG-TAATTTCACAATCGAGGGTAAAA
* * *
88005732 TAGTAATTTTATAAATCAAGGGTAAAA
1 -AGTAATTTCA-CAATCGAGGGTAAAA
88005759 CAGTAATT
1 -AGTAATT
88005767 CTATAAATCG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.02
26 30 0.58
27 21 0.40
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.28
Consensus pattern (25 bp):
AGTAATTTCACAATCGAGGGTAAAA
Found at i:88005756 original size:27 final size:27
Alignment explanation
Indices: 88005692--88005782 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
88005682 GTAATTTCAC
*
88005692 AATCGAGGGTAAAAC-GATAATT-TCA-C
1 AATCGAGGGTAAAACAG-TAATTCT-ATA
* *
88005718 AATCGAGGGTAAAATAGTAATTTTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
88005745 AATCAAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
88005772 AATCGAGGGTA
1 AATCGAGGGTA
88005783 CTTTGGTAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
26 20 0.36
27 36 0.64
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:88021726 original size:27 final size:26
Alignment explanation
Indices: 88021678--88021729 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
88021668 GCGAGGCTGC
*
88021678 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
88021704 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
88021730 TTGCAGCGAG
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:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:88022839 original size:34 final size:34
Alignment explanation
Indices: 88022801--88022868 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
88022791 TGCATCACCT
88022801 GTTCATAAAATTAAAATTCCGAAGACTACCACAA
1 GTTCATAAAATTAAAATTCCGAAGACTACCACAA
88022835 GTTCATAAAATTAAAATTCCGAAGACTACCACAA
1 GTTCATAAAATTAAAATTCCGAAGACTACCACAA
88022869 ATTTAACTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.24
Consensus pattern (34 bp):
GTTCATAAAATTAAAATTCCGAAGACTACCACAA
Found at i:88023302 original size:48 final size:48
Alignment explanation
Indices: 88023181--88023319 Score: 125
Period size: 48 Copynumber: 2.9 Consensus size: 48
88023171 CGAGATCGCA
* * * ** * * * *
88023181 TGTAAGACCATGTCTGGGACATGGCATCAGCATTCGAGATGAGAGTCAG
1 TGTAAAACCATATATGGGACATGGCATCAATATT-GATATGTGTGCCAG
* * * *
88023230 TGTAAGACCATGTCTGGGACATGGCATCAATGTTGATATGTGTGCCAG
1 TGTAAAACCATATATGGGACATGGCATCAATATTGATATGTGTGCCAG
* **
88023278 TGTAAAACCATATATGGGATATGGCATCGGTATTGATATGTG
1 TGTAAAACCATATATGGGACATGGCATCAATATTGATATGTG
88023320 ATTTCATGTA
Statistics
Matches: 76, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
48 45 0.59
49 31 0.41
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (48 bp):
TGTAAAACCATATATGGGACATGGCATCAATATTGATATGTGTGCCAG
Found at i:88023432 original size:42 final size:42
Alignment explanation
Indices: 88023365--88023521 Score: 113
Period size: 42 Copynumber: 3.6 Consensus size: 42
88023355 AGATGAGATT
* *** *
88023365 TTGTGTAAGACCATGTCTCAAACATGGCATCGATATGAGGTC
1 TTGTATAAGACCATGTCTGGGACATGGCATCGATATGAGGAC
*
88023407 TTGTATAAGACCATGTCTGGGACATGGTATCGGCACTGACATGA-GAC
1 TTGTATAAGACCATGTCTGGGACATGGCATC-G-A-T---ATGAGGAC
* * *
88023454 TTCGTATAAGACCATATCTGGGATATGGCATCGATATGTAGGCCC
1 TT-GTATAAGACCATGTCTGGGACATGGCATCGATATG-AGG-AC
* *
88023499 ATG--TAAGACCATGTCGGGGACAT
1 TTGTATAAGACCATGTCTGGGACAT
88023522 AGCTTTGGCA
Statistics
Matches: 91, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
42 46 0.51
43 2 0.02
44 3 0.03
45 4 0.04
46 1 0.01
47 5 0.05
48 30 0.33
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (42 bp):
TTGTATAAGACCATGTCTGGGACATGGCATCGATATGAGGAC
Found at i:88030776 original size:58 final size:59
Alignment explanation
Indices: 88030685--88030801 Score: 209
Period size: 58 Copynumber: 2.0 Consensus size: 59
88030675 TTTATAAGTT
88030685 TTCTCAAAAATTTCTAAGGTTCTCAGTTTAGTCTCTGACTACGTTCAATGCATGTTTAG
1 TTCTCAAAAATTTCTAAGGTTCTCAGTTTAGTCTCTGACTACGTTCAATGCATGTTTAG
* *
88030744 TTCTCAAAAA-TTCTAAGGTTTTCAGTTTAGTCTCTGACTACTTTCAATGCATGTTTAG
1 TTCTCAAAAATTTCTAAGGTTCTCAGTTTAGTCTCTGACTACGTTCAATGCATGTTTAG
88030802 GGCATCATAG
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
58 46 0.82
59 10 0.18
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.42
Consensus pattern (59 bp):
TTCTCAAAAATTTCTAAGGTTCTCAGTTTAGTCTCTGACTACGTTCAATGCATGTTTAG
Found at i:88031046 original size:21 final size:22
Alignment explanation
Indices: 88031017--88031057 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
88031007 ATTCAAGATT
*
88031017 ATGATTAAGAA-GTAGGGTAGA
1 ATGAGTAAGAATGTAGGGTAGA
*
88031038 ATGAGTAAGAATGTATGGTA
1 ATGAGTAAGAATGTAGGGTA
88031058 CAGGTATGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.32, T:0.27
Consensus pattern (22 bp):
ATGAGTAAGAATGTAGGGTAGA
Found at i:88033069 original size:29 final size:29
Alignment explanation
Indices: 88033035--88033092 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
88033025 TTTGTGATTT
88033035 TGTAAAT-TAAGGACTAAATTGTCAAAATG
1 TGTAAATATAAGGACTAAATTGT-AAAATG
* * *
88033064 TGTAAATATGAGGGCTAATTTGTAAAATG
1 TGTAAATATAAGGACTAAATTGTAAAATG
88033093 ACCTATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (29 bp):
TGTAAATATAAGGACTAAATTGTAAAATG
Found at i:88033417 original size:40 final size:40
Alignment explanation
Indices: 88033354--88033429 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
88033344 AACTACATTG
*
88033354 GCACTAAGTGTGCGATTCAAAATAGATTCAGCTATAAATA
1 GCACTAAGTATGCGATTCAAAATAGATTCAGCTATAAATA
* * *
88033394 GCACTAAGTATGTGAATTC-AAATAGCTTCGGCTATA
1 GCACTAAGTATGCG-ATTCAAAATAGATTCAGCTATA
88033430 TGAGGCACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 27 0.87
41 4 0.13
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (40 bp):
GCACTAAGTATGCGATTCAAAATAGATTCAGCTATAAATA
Found at i:88035387 original size:42 final size:42
Alignment explanation
Indices: 88035277--88035648 Score: 388
Period size: 42 Copynumber: 8.8 Consensus size: 42
88035267 AACGGGTACA
* * * *
88035277 ATGCCAATGTCCC-GAACGTGGTCTTACATGTAATTCAG-TATTG
1 ATGCCGATGTCCCAG-ACATGGTCTTACACGAAATT-AGATA-TG
** * * * *
88035320 ATGCCTCTGTACCAGATAGGGTCTTAAACGAAATTAGATATG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATTAGATATG
* * * * * *
88035362 ACGCCAATGTCTCAAACATGGTCTTACACAAAATTAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATTAGATATG
* * * * *
88035404 ATGTCGATGTCCCAGACATGGTCTTCCATGAAATCAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATTAGATATG
* * * * *
88035446 ATACCAATGTCCCAGGCATGGTCTTACACAAAATCAGATATG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATTAGATATG
* *
88035488 ATGCCAATGTCCCAGACATGGTCTTACACGAAATTAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATTAGATATG
* ** *
88035530 ATGCTGATGTCTTAGACATGGTCTTACACGAAATCAGATATG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATTAGATATG
* *
88035572 ATGCCGATGTCCCAGACATGGTCTTACACAAAATTATATATG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATTAGATATG
88035614 ATGCCGATGTCCCAGACATGGTCTTACACGCAAAT
1 ATGCCGATGTCCCAGACATGGTCTTACACG-AAAT
88035649 CTCAGATCGA
Statistics
Matches: 271, Mismatches: 55, Indels: 6
0.82 0.17 0.02
Matches are distributed among these distances:
42 240 0.89
43 30 0.11
44 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (42 bp):
ATGCCGATGTCCCAGACATGGTCTTACACGAAATTAGATATG
Found at i:88035643 original size:126 final size:126
Alignment explanation
Indices: 88035295--88035648 Score: 451
Period size: 126 Copynumber: 2.8 Consensus size: 126
88035285 GTCCCGAACG
* ** * * * * *
88035295 TGGTCTTACATGTAATTCAG-TATTGATGCCTCTGTACCAGATAGGGTCTTAAACGAAATTAGAT
1 TGGTCTTACATG-AAATCAGATA-TGATGCCAATGTCCCAGACATGGTCTTACACAAAATTAGAT
* * * *
88035359 ATGACGCCAATGTCTCAAACATGGTCTTACACAAAATTAGATACGATGTCGATGTCCCAGACA
64 ATGATGCCAATGTCCCAGACATGGTCTTACACGAAATTAGATACGATGTCGATGTCCCAGACA
* * * * *
88035422 TGGTCTTCCATGAAATCAGATACGATACCAATGTCCCAGGCATGGTCTTACACAAAATCAGATAT
1 TGGTCTTACATGAAATCAGATATGATGCCAATGTCCCAGACATGGTCTTACACAAAATTAGATAT
**
88035487 GATGCCAATGTCCCAGACATGGTCTTACACGAAATTAGATACGATG-CTGATGTCTTAGACA
66 GATGCCAATGTCCCAGACATGGTCTTACACGAAATTAGATACGATGTC-GATGTCCCAGACA
* * *
88035548 TGGTCTTACACGAAATCAGATATGATGCCGATGTCCCAGACATGGTCTTACACAAAATTATATAT
1 TGGTCTTACATGAAATCAGATATGATGCCAATGTCCCAGACATGGTCTTACACAAAATTAGATAT
*
88035613 GATGCCGATGTCCCAGACATGGTCTTACACGCAAAT
66 GATGCCAATGTCCCAGACATGGTCTTACACG-AAAT
88035649 CTCAGATCGA
Statistics
Matches: 196, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
125 1 0.01
126 178 0.91
127 17 0.09
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (126 bp):
TGGTCTTACATGAAATCAGATATGATGCCAATGTCCCAGACATGGTCTTACACAAAATTAGATAT
GATGCCAATGTCCCAGACATGGTCTTACACGAAATTAGATACGATGTCGATGTCCCAGACA
Found at i:88042017 original size:42 final size:42
Alignment explanation
Indices: 88041968--88042275 Score: 325
Period size: 42 Copynumber: 7.3 Consensus size: 42
88041958 TCACGAATAG
* * * * *
88041968 GGTCTTACACGAAATCAAATATGATTCCAATATCCCAAACAT
1 GGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACAT
* * *
88042010 GGTCTTACACAAAATCAGATACGATGACGATGTCCCAGACAT
1 GGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACAT
* * * *
88042052 GGTCTTACACGAAATCAGATATGGTGCTGATGTCCCAGACAT
1 GGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACAT
* * *
88042094 GGTTTTACACGAAAT-AAGAAATGATGCCGATGTCCCAGACAT
1 GGTCTTACACGAAATCAA-ATACGATGCCGATGTCCCAGACAT
* * * *
88042136 GGTCTTACACGAAATGAGATACAATACCGATGTCCCAGACAT
1 GGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACAT
* *
88042178 GGTCTTACACGAAATCAAATACGATGCTGATGTCCCAAACAT
1 GGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACAT
* * * *
88042220 GGTCTTACACGCAAATCTCAAAT-CGAGGCTTG-CGTCCCAGACAC
1 GGTCTTACACG-AAA--TCAAATACGATGC-CGATGTCCCAGACAT
88042264 GGTCTTACACGA
1 GGTCTTACACGA
88042276 TATCTCAGAT
Statistics
Matches: 226, Mismatches: 34, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.00
42 187 0.83
43 5 0.02
44 25 0.11
45 8 0.04
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACAT
Found at i:88042137 original size:126 final size:126
Alignment explanation
Indices: 88041968--88042236 Score: 380
Period size: 126 Copynumber: 2.1 Consensus size: 126
88041958 TCACGAATAG
* * *
88041968 GGTCTTACACGAAATCAAATATGATTCCAATATCCCAAACATGGTCTTACACAAAATCAGATACG
1 GGTCTTACACGAAATCAAAAATGATGCCAATATCCCAAACATGGTCTTACACAAAATCAGATACA
* * * *
88042033 ATGA-CGATGTCCCAGACATGGTCTTACACGAAATCAGATATGGTGCTGATGTCCCAGACAT
66 AT-ACCGATGTCCCAGACATGGTCTTACACGAAATCAAATACGATGCTGATGTCCCAAACAT
* * * * * *
88042094 GGTTTTACACGAAAT-AAGAAATGATGCCGATGTCCCAGACATGGTCTTACACGAAATGAGATAC
1 GGTCTTACACGAAATCAA-AAATGATGCCAATATCCCAAACATGGTCTTACACAAAATCAGATAC
88042158 AATACCGATGTCCCAGACATGGTCTTACACGAAATCAAATACGATGCTGATGTCCCAAACAT
65 AATACCGATGTCCCAGACATGGTCTTACACGAAATCAAATACGATGCTGATGTCCCAAACAT
88042220 GGTCTTACACGCAAATC
1 GGTCTTACACG-AAATC
88042237 TCAAATCGAG
Statistics
Matches: 125, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
125 3 0.02
126 118 0.94
127 4 0.03
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (126 bp):
GGTCTTACACGAAATCAAAAATGATGCCAATATCCCAAACATGGTCTTACACAAAATCAGATACA
ATACCGATGTCCCAGACATGGTCTTACACGAAATCAAATACGATGCTGATGTCCCAAACAT
Found at i:88051206 original size:37 final size:37
Alignment explanation
Indices: 88051156--88051234 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
88051146 TTATTACGAA
* * *
88051156 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
88051193 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
88051230 GTCTT
1 GTCTT
88051235 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:88051431 original size:47 final size:47
Alignment explanation
Indices: 88051353--88051651 Score: 490
Period size: 47 Copynumber: 6.3 Consensus size: 47
88051343 CCCTTCGGGA
* * * * * *
88051353 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88051400 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88051447 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88051494 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88051541 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88051588 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88051637 CTTATCACATATATA
1 CTTATCACATATATA
88051652 TACNNNNNNN
Statistics
Matches: 239, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
47 192 0.80
49 47 0.20
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:88062098 original size:37 final size:37
Alignment explanation
Indices: 88062048--88062126 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
88062038 TTATTACGAA
* *
88062048 GTCTTACCCGGACATA-ATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACA-ACATCCCCACACGAAGTCATCGG
*
88062085 GTCTTACCCGGACAACATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAACATCCCCACACGAAGTCATCGG
88062122 GTCTT
1 GTCTT
88062127 TAGAGCTCGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 1 0.03
37 37 0.97
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAACATCCCCACACGAAGTCATCGG
Found at i:88062370 original size:49 final size:49
Alignment explanation
Indices: 88062245--88062934 Score: 1188
Period size: 49 Copynumber: 14.3 Consensus size: 49
88062235 CCCTTCGGGA
* * * * *
88062245 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88062292 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88062339 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88062388 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88062437 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88062486 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88062535 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88062584 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88062633 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88062682 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCTTTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88062729 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88062776 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGG--CCATTAGGC
88062827 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88062874 CTTAT-A-ACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88062921 CTTATCTCATATAT
1 CTTATCACATATAT
88062935 GCATGTTCAC
Statistics
Matches: 618, Mismatches: 13, Indels: 22
0.95 0.02 0.03
Matches are distributed among these distances:
46 2 0.00
47 193 0.31
49 406 0.66
51 17 0.03
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:88063031 original size:192 final size:188
Alignment explanation
Indices: 88062245--88062955 Score: 1073
Period size: 192 Copynumber: 3.7 Consensus size: 188
88062235 CCCTTCGGGA
* * * * * * * * * *
88062245 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATAACATATATACAC
88062310 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
88062375 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 TCGG-CA-TAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88062437 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTA-C-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-A-ACATATAT
88062502 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
62 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCAT
88062567 CACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG
125 CACATCGG-CA-TAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG
88062632 C
188 C
* *
88062633 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTA-C-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATAACATATATAC
*
88062698 ACTTTCACATTCATCACATCGGCCTTTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
88062763 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCCCATTAGGC
129 TCGG-CA-TAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGG--CCATTAGGC
*
88062827 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATAACATATATACAC
1 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATAACATATATACAC
* * *
88062892 TTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA-TGTTCACATCCATCACAT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACATTCATCACAT
88062956 AGAATCCTAA
Statistics
Matches: 490, Mismatches: 22, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
191 1 0.00
192 199 0.41
194 98 0.20
196 192 0.39
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (188 bp):
CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATAACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCATAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:88067913 original size:40 final size:40
Alignment explanation
Indices: 88067672--88067903 Score: 351
Period size: 40 Copynumber: 5.8 Consensus size: 40
88067662 CGGATGATAA
* *
88067672 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
88067712 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* *
88067752 CCGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
88067792 CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
**
88067832 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
*
88067872 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
88067904 GGCTATATCC
Statistics
Matches: 176, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 2 0.01
40 174 0.99
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:88080087 original size:43 final size:41
Alignment explanation
Indices: 88079997--88080102 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 41
88079987 GATGCCACTA
* ** *
88079997 TCCCAGACAGGGTCTTACACGAATCAAATACGATGCTGATG
1 TCCCAGACATGGTCTTACACGAATCAAATACGATGCCAACG
* *
88080038 TCCCAGACATGGTCTTACACGTAATCACATATTGATGCCAACG
1 TCCCAGACATGGTCTTACACG-AATCAAATA-CGATGCCAACG
* *
88080081 TCCCAGACGTAGTCTTACACGA
1 TCCCAGACATGGTCTTACACGA
88080103 GAACACATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 20 0.36
42 9 0.16
43 26 0.47
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (41 bp):
TCCCAGACATGGTCTTACACGAATCAAATACGATGCCAACG
Found at i:88088974 original size:16 final size:18
Alignment explanation
Indices: 88088948--88088981 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
88088938 TTATATCATA
88088948 TACATTATTT-ACCTTTT
1 TACATTATTTAACCTTTT
88088965 TACA-TATTTAACCTTTT
1 TACATTATTTAACCTTTT
88088982 AAAATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.26, C:0.18, G:0.00, T:0.56
Consensus pattern (18 bp):
TACATTATTTAACCTTTT
Found at i:88090780 original size:16 final size:16
Alignment explanation
Indices: 88090755--88090797 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
88090745 GTAGATCGGC
* *
88090755 AAAAGGCGAAATGCCG
1 AAAAGCCGAAATACCG
*
88090771 AAAAGCCGAAATACTG
1 AAAAGCCGAAATACCG
88090787 AAAAGCCGAAA
1 AAAAGCCGAAA
88090798 GTTTGGCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.51, C:0.19, G:0.23, T:0.07
Consensus pattern (16 bp):
AAAAGCCGAAATACCG
Found at i:88091123 original size:29 final size:28
Alignment explanation
Indices: 88091022--88091124 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 28
88091012 AAATGTAAAC
* *
88091022 TGGGCCTAATGGTCATATGAATGTGATT
1 TGGGCCTAATGGCCATATAAATGTGATT
*
88091050 TGGGCCTAATAGGCCACATAAATGTGATT
1 TGGGCCTAAT-GGCCATATAAATGTGATT
* *
88091079 TGGGCCTAAAGGGCCATATAAATGTGACT
1 TGGGCCT-AATGGCCATATAAATGTGATT
88091108 TGGGCCTAATGTGCCAT
1 TGGGCCTAATG-GCCAT
88091125 GTCAATATAA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
28 13 0.20
29 50 0.77
30 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (28 bp):
TGGGCCTAATGGCCATATAAATGTGATT
Found at i:88091152 original size:28 final size:28
Alignment explanation
Indices: 88091120--88091176 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
88091110 GGCCTAATGT
88091120 GCCATGTCAATATAATTAGGTCTAGTGG
1 GCCATGTCAATATAATTAGGTCTAGTGG
* *
88091148 GCCATGTGAATATAATTGGGTCTAGTGG
1 GCCATGTCAATATAATTAGGTCTAGTGG
88091176 G
1 G
88091177 ACATATACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.32
Consensus pattern (28 bp):
GCCATGTCAATATAATTAGGTCTAGTGG
Found at i:88092864 original size:40 final size:41
Alignment explanation
Indices: 88092802--88092986 Score: 231
Period size: 40 Copynumber: 4.7 Consensus size: 41
88092792 AAACCAAGTA
* * *
88092802 CCTTCGGGATTTA-ACCGGATA-TAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATTAG-TAACTCGCACAAATG
88092841 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATG
88092881 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATG
* * * *
88092921 CCTTTGGGACTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATG
* *
88092961 CCTTCAGGCCTTAGCCCGGA-ATTAGT
1 CCTTCGGGACTTAGCCCGGATATTAGT
88092987 CACTATTAAG
Statistics
Matches: 132, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
39 16 0.12
40 114 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATG
Found at i:88098429 original size:29 final size:29
Alignment explanation
Indices: 88098299--88098430 Score: 176
Period size: 29 Copynumber: 4.6 Consensus size: 29
88098289 AAATGTAAAC
* **
88098299 TGGGCCTAAT-GGCCGTATGGATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
88098327 TGGGCCTAATGGGCCACATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
88098356 TGGGCCTAAAGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
88098385 TGGGCCTAAAGGGCCATATAAATGTGACT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
88098414 TAGGCCTAATGTGCCAT
1 TGGGCCTAATGGGCCAT
88098431 GTGAATATAA
Statistics
Matches: 93, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 10 0.11
29 83 0.89
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:88098455 original size:28 final size:28
Alignment explanation
Indices: 88098423--88098486 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
88098413 TTAGGCCTAA
88098423 TGTGCCATGTGAATATAATTGGGTCTAG
1 TGTGCCATGTGAATATAATTGGGTCTAG
88098451 TGTGCCATGTGAATATAATTGGGTCTAG
1 TGTGCCATGTGAATATAATTGGGTCTAG
*
88098479 TGGGCCAT
1 TGTGCCAT
88098487 ATATAGGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.23, C:0.12, G:0.30, T:0.34
Consensus pattern (28 bp):
TGTGCCATGTGAATATAATTGGGTCTAG
Found at i:88100626 original size:40 final size:40
Alignment explanation
Indices: 88100540--88100627 Score: 92
Period size: 40 Copynumber: 2.2 Consensus size: 40
88100530 AGACTACATT
*
88100540 GGCACTAAGTATGCGATTCAAAATAGCTTCGGCTATAAATA
1 GGCACTAAGTATGCGATTCAAAATAGCTTCGACTAT-AATA
* * *
88100581 -ACACTAAGTGTGTGAATTC-AAATAGCTTCGACTAT-ATGA
1 GGCACTAAGTATGCG-ATTCAAAATAGCTTCGACTATAAT-A
88100620 GGCACTAA
1 GGCACTAA
88100628 ATGTACGATA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
38 2 0.05
39 1 0.03
40 32 0.82
41 4 0.10
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (40 bp):
GGCACTAAGTATGCGATTCAAAATAGCTTCGACTATAATA
Found at i:88101831 original size:35 final size:34
Alignment explanation
Indices: 88101789--88101854 Score: 123
Period size: 35 Copynumber: 1.9 Consensus size: 34
88101779 TATTATCGCA
88101789 TAGTATAGTTTTAGCAAGACCAGATTGTCGAATAG
1 TAGTATAGTTTTAGCAAGACCAGA-TGTCGAATAG
88101824 TAGTATAGTTTTAGCAAGACCAGATGTCGAA
1 TAGTATAGTTTTAGCAAGACCAGATGTCGAA
88101855 CCCCAAGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 7 0.23
35 24 0.77
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (34 bp):
TAGTATAGTTTTAGCAAGACCAGATGTCGAATAG
Found at i:88111511 original size:13 final size:13
Alignment explanation
Indices: 88111493--88111519 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
88111483 GCTCGAAAGG
88111493 GACACGCCCGTGT
1 GACACGCCCGTGT
88111506 GACACGCCCGTGT
1 GACACGCCCGTGT
88111519 G
1 G
88111520 CGTCGTGCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:88116096 original size:18 final size:18
Alignment explanation
Indices: 88116065--88116099 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
88116055 TCGTAACGTT
88116065 GTGTTGTTTGGAAAACAA
1 GTGTTGTTTGGAAAACAA
* *
88116083 GTGTTTTTTTGAAAACA
1 GTGTTGTTTGGAAAACA
88116100 TGTCCTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (18 bp):
GTGTTGTTTGGAAAACAA
Found at i:88116732 original size:25 final size:26
Alignment explanation
Indices: 88116704--88116802 Score: 130
Period size: 25 Copynumber: 3.8 Consensus size: 26
88116694 CCTCTTTAAT
* **
88116704 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTAGGGCATAAGCCCTTTTCAATA
*
88116729 AACTAGGGCA-AATCCCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCAATA
*
88116754 AACTGGGGCATAAGCCCTTTTTCAATA
1 AACTAGGGCATAAGCCC-TTTTCAATA
88116781 AACTAGGGCATAAGCCCTTTTC
1 AACTAGGGCATAAGCCCTTTTC
88116803 CACTTCCTTC
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
25 30 0.46
26 10 0.15
27 25 0.38
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (26 bp):
AACTAGGGCATAAGCCCTTTTCAATA
Found at i:88116783 original size:52 final size:51
Alignment explanation
Indices: 88116704--88116802 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 51
88116694 CCTCTTTAAT
** *
88116704 AACTGGGGCAAAGCCCTTTTCGGTAAACTAGGGCA-AATCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCAATA
88116754 AACTGGGGCATAAGCCCTTTTTCAATAAACTAGGGCATAAGCCCTTTTC
1 AACTGGGGCA-AAGCCC-TTTTCAATAAACTAGGGCATAAGCCCTTTTC
88116803 CACTTCCTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
50 10 0.23
51 6 0.14
52 17 0.40
53 10 0.23
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (51 bp):
AACTGGGGCAAAGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCAATA
Found at i:88116876 original size:20 final size:20
Alignment explanation
Indices: 88116851--88116897 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
88116841 TTATGAATAC
88116851 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
88116870 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
88116891 ATCATGT
1 ATCATGT
88116898 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:88116961 original size:25 final size:25
Alignment explanation
Indices: 88116933--88116980 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
88116923 ATAAGTAAAC
* * *
88116933 CCTAGGGGTATAACGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
88116958 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
88116981 CATAATATAA
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:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:88117284 original size:21 final size:20
Alignment explanation
Indices: 88117250--88117289 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
88117240 TGGGCCCAAA
88117250 AGCCCATTGGGCCCAACTTC
1 AGCCCATTGGGCCCAACTTC
*
88117270 AGCCCCTTGAGGCCCAACTT
1 AGCCCATTG-GGCCCAACTT
88117290 ACCGTAATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.20, C:0.40, G:0.20, T:0.20
Consensus pattern (20 bp):
AGCCCATTGGGCCCAACTTC
Found at i:88126805 original size:49 final size:48
Alignment explanation
Indices: 88126743--88126853 Score: 150
Period size: 49 Copynumber: 2.3 Consensus size: 48
88126733 ACGAGATGCC
88126743 GTGTAAGACCATGTATAGGACATGGCATCGGCATGTGAGATGAGAACCA
1 GTGTAAGACCATGTATAGGACATGGCATCGGCAT-TGAGATGAGAACCA
* * * * * * *
88126792 GTGTAAGATCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
1 GTGTAAGACCATGTATAGGACATGGCATCGGCATTGAGATGAGAACCA
88126840 GTGTAAGACCATGT
1 GTGTAAGACCATGT
88126854 CTGGGACCAT
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
48 24 0.44
49 30 0.56
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (48 bp):
GTGTAAGACCATGTATAGGACATGGCATCGGCATTGAGATGAGAACCA
Found at i:88126854 original size:48 final size:49
Alignment explanation
Indices: 88126743--88126860 Score: 166
Period size: 48 Copynumber: 2.4 Consensus size: 49
88126733 ACGAGATGCC
* *
88126743 GTGTAAGACCATGTATAGGACATGGCATCGGCATGTGAGATGAGAACCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATGTGAGATGAGAACCA
* * * * *
88126792 GTGTAAGATCATGTCTGGGACATGGCATCGGCGT-TGATATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATGTGAGATGAGAACCA
88126840 GTGTAAGACCATGTCTGGGAC
1 GTGTAAGACCATGTCTGGGAC
88126861 CATGTTTGGG
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
48 31 0.51
49 30 0.49
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (49 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCATGTGAGATGAGAACCA
Found at i:88138911 original size:23 final size:23
Alignment explanation
Indices: 88138881--88138930 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
88138871 ATAGAAATTT
*
88138881 GGTGATTATTCGGGCTATGTGTC
1 GGTGATTATTCGGGCTATGTGCC
*
88138904 GGTGATTATTTGGGCTATGTGCC
1 GGTGATTATTCGGGCTATGTGCC
88138927 GGTG
1 GGTG
88138931 TATTGAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.12, C:0.12, G:0.38, T:0.38
Consensus pattern (23 bp):
GGTGATTATTCGGGCTATGTGCC
Found at i:88139680 original size:27 final size:28
Alignment explanation
Indices: 88139649--88139703 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
88139639 TTTCCGATTT
88139649 GAGGGG-ATTAGAGAGGGGA-TTTCGGCA
1 GAGGGGTATTAGAGA-GGGATTTTCGGCA
* *
88139676 GAGGGGTTTTAGTGAGGGATTTTCGGCA
1 GAGGGGTATTAGAGAGGGATTTTCGGCA
88139704 CTTGGGTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.22, C:0.07, G:0.45, T:0.25
Consensus pattern (28 bp):
GAGGGGTATTAGAGAGGGATTTTCGGCA
Found at i:88141000 original size:20 final size:20
Alignment explanation
Indices: 88140975--88141061 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
88140965 ATTTTGATAT
88140975 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
*
88140995 ACATGATATGCATGATATGC
1 ACATGATATGTATGATATGC
88141015 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
88141035 ACATGATATATACGATATGC
1 ACATGATATGTATGATATGC
88141055 ACATGAT
1 ACATGAT
88141062 GTATTCATAA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 60 0.97
21 2 0.03
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:88141002 original size:11 final size:11
Alignment explanation
Indices: 88140986--88141061 Score: 83
Period size: 11 Copynumber: 7.5 Consensus size: 11
88140976 CATGATTGAT
88140986 ATGATATGCAC
1 ATGATATGCAC
88140997 ATGATATG--C
1 ATGATATGCAC
88141006 ATGATATGCAC
1 ATGATATGCAC
*
88141017 ATGATATG--T
1 ATGATATGCAC
88141026 ATGATATGCAC
1 ATGATATGCAC
*
88141037 ATGATAT--AT
1 ATGATATGCAC
*
88141046 ACGATATGCAC
1 ATGATATGCAC
88141057 ATGAT
1 ATGAT
88141062 GTATTCATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 24 0.45
11 29 0.55
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:88141008 original size:9 final size:9
Alignment explanation
Indices: 88140986--88141035 Score: 55
Period size: 9 Copynumber: 5.1 Consensus size: 9
88140976 CATGATTGAT
88140986 ATGATATGCAC
1 ATGATATG--C
88140997 ATGATATGC
1 ATGATATGC
88141006 ATGATATGCAC
1 ATGATATG--C
*
88141017 ATGATATGT
1 ATGATATGC
88141026 ATGATATGC
1 ATGATATGC
88141035 A
1 A
88141036 CATGATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 18 0.51
11 17 0.49
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (9 bp):
ATGATATGC
Found at i:88141140 original size:26 final size:26
Alignment explanation
Indices: 88141111--88141183 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
88141101 GAGGAAGTGC
88141111 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
88141137 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
88141163 AAAAGGGCTTTTGCCCGAGTT
1 AAAAGGGCTTATGCCCCAGTT
88141184 ATTAAAAGAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:88149512 original size:49 final size:49
Alignment explanation
Indices: 88149449--88149741 Score: 468
Period size: 49 Copynumber: 6.1 Consensus size: 49
88149439 TACATGATAG
*
88149449 TATATATGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* **
88149498 TATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG--TA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
88149545 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* **
88149594 TATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG--TA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
88149641 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* **
88149690 TATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
88149739 TAT
1 TAT
88149742 GTGATGTAAC
Statistics
Matches: 224, Mismatches: 16, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
47 88 0.39
49 136 0.61
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (49 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:88149555 original size:96 final size:96
Alignment explanation
Indices: 88149449--88149746 Score: 587
Period size: 96 Copynumber: 3.1 Consensus size: 96
88149439 TACATGATAG
*
88149449 TATATATGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
88149514 TAATGGCTGATGTGATGAATGTGAAAGTGTA
66 TAATGGCTGATGTGATGAATGTGAAAGTGTA
88149545 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
88149610 TAATGGCTGATGTGATGAATGTGAAAGTGTA
66 TAATGGCTGATGTGATGAATGTGAAAGTGTA
88149641 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
88149706 TAATGGCTGATGTGATGAATGTGAAAGTGTA
66 TAATGGCTGATGTGATGAATGTGAAAGTGTA
88149737 TATATGTGAT
1 TATATGTGAT
88149747 GTAACACCCC
Statistics
Matches: 201, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 201 1.00
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.31
Consensus pattern (96 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
TAATGGCTGATGTGATGAATGTGAAAGTGTA
Found at i:88151020 original size:105 final size:105
Alignment explanation
Indices: 88150838--88151048 Score: 413
Period size: 105 Copynumber: 2.0 Consensus size: 105
88150828 AAGAATAACA
88150838 CACATTTAGCTAAACGGAATATTTCATAATACGCAATTTACCGATATCAAACTTACTTCACAACA
1 CACATTTAGCTAAACGGAATATTTCATAATACGCAATTTACCGATATCAAACTTACTTCACAACA
88150903 TTAACAACCCTTATGTACATACACAATAGACTAACTTAGC
66 TTAACAACCCTTATGTACATACACAATAGACTAACTTAGC
*
88150943 CACATTTAGCTAAACGGAATATTTCATAATACGCAATTTACCGATATCAAACTTGCTTCACAACA
1 CACATTTAGCTAAACGGAATATTTCATAATACGCAATTTACCGATATCAAACTTACTTCACAACA
88151008 TTAACAACCCTTATGTACATACACAATAGACTAACTTAGC
66 TTAACAACCCTTATGTACATACACAATAGACTAACTTAGC
88151048 C
1 C
88151049 GAAGGCCGGT
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.28
Consensus pattern (105 bp):
CACATTTAGCTAAACGGAATATTTCATAATACGCAATTTACCGATATCAAACTTACTTCACAACA
TTAACAACCCTTATGTACATACACAATAGACTAACTTAGC
Found at i:88151278 original size:39 final size:40
Alignment explanation
Indices: 88151233--88151404 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
88151223 GCTCCTCGTT
* * *
88151233 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
88151273 C-AATGCCTTCGGGACATAACTCGGATTTAATAATTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
88151312 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
88151352 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
88151392 CAAATGCCTTCGG
1 CAAATGCCTTCGG
88151405 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 33 0.29
40 78 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:88151336 original size:79 final size:80
Alignment explanation
Indices: 88151233--88151404 Score: 206
Period size: 79 Copynumber: 2.2 Consensus size: 80
88151223 GCTCCTCGTT
* * * *
88151233 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACTCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAAGGCCTTCGGGACATAACCCGG
88151297 -ATTTAATAAT-TCGCA
66 AATTT-AT-ATCTCGCA
* * * * * *
88151312 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAAGGCCTTCGGGACATAACCCGG
*
88151377 AATTTGTATCTCGCA
66 AATTTATATCTCGCA
88151392 CAAATGCCTTCGG
1 CAAATGCCTTCGG
88151405 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 37 0.47
80 37 0.47
81 4 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAAGGCCTTCGGGACATAACCCGG
AATTTATATCTCGCA
Found at i:88151338 original size:40 final size:39
Alignment explanation
Indices: 88151235--88151457 Score: 184
Period size: 40 Copynumber: 5.6 Consensus size: 39
88151225 TCCTCGTTCA
* * * * *
88151235 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAATTCGCAC
* * *
88151274 AATGCCTTCGGGACATAACTCGGATTTAATAATTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAATTCGCAC
88151313 GAATGCCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAAT-TCGCAC
* *
88151353 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GT-ATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAAT-TCGCAC
** * * * *
88151393 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGT-AATTCGCAC
* *
88151434 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
88151458 CAGCATTCAA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 40 0.26
40 101 0.66
41 12 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAATTCGCAC
Found at i:88151417 original size:80 final size:79
Alignment explanation
Indices: 88151233--88151457 Score: 224
Period size: 80 Copynumber: 2.8 Consensus size: 79
88151223 GCTCCTCGTT
* * * * * *
88151233 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACTCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
88151297 ATTTAATAATTCGCA
65 ATTTAATAATTCGCA
* * *
88151312 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
*
88151377 AATTT-GT-ATCTCGCA
64 AATTTAATAAT-TCGCA
* * * * *
88151392 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
88151456 GA
63 GA
88151458 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 18, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
78 1 0.01
79 41 0.34
80 66 0.55
81 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAATTCGCA
Found at i:88151466 original size:41 final size:41
Alignment explanation
Indices: 88151389--88151466 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
88151379 TTTGTATCTC
* * *
88151389 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
88151430 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
88151467 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:88159036 original size:79 final size:79
Alignment explanation
Indices: 88158941--88159098 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
88158931 ATCAAACTTG
*
88158941 CTTCACAACATTAACAACCCTTATGTACATACACAATAGACTAACTTAGTCGAAGGCCGGTAGCT
1 CTTCACAACATTAACAACCCTTATGTACATACACAATAGACTAACTTAGCCGAAGGCCGGTAGCT
88159006 CGTTTATCAACTGA
66 CGTTTATCAACTGA
88159020 CTTCACAACATTAACAACCCTTATGTACATACACAATAGACTAACTTAGCCGAAGGCCGGTAGCT
1 CTTCACAACATTAACAACCCTTATGTACATACACAATAGACTAACTTAGCCGAAGGCCGGTAGCT
88159085 CGTTTATCAACTGA
66 CGTTTATCAACTGA
88159099 GCGAACATTT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (79 bp):
CTTCACAACATTAACAACCCTTATGTACATACACAATAGACTAACTTAGCCGAAGGCCGGTAGCT
CGTTTATCAACTGA
Found at i:88159300 original size:39 final size:40
Alignment explanation
Indices: 88159255--88159426 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
88159245 GCTCCTCGTT
* * *
88159255 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
88159295 C-AATGCCTTCGGGACATAACTCGGATTTAATAATTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
88159334 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
88159374 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
88159414 CAAATGCCTTCGG
1 CAAATGCCTTCGG
88159427 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 33 0.29
40 78 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:88159358 original size:79 final size:80
Alignment explanation
Indices: 88159255--88159426 Score: 206
Period size: 79 Copynumber: 2.2 Consensus size: 80
88159245 GCTCCTCGTT
* * * *
88159255 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACTCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAAGGCCTTCGGGACATAACCCGG
88159319 -ATTTAATAAT-TCGCA
66 AATTT-AT-ATCTCGCA
* * * * * *
88159334 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAAGGCCTTCGGGACATAACCCGG
*
88159399 AATTTGTATCTCGCA
66 AATTTATATCTCGCA
88159414 CAAATGCCTTCGG
1 CAAATGCCTTCGG
88159427 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 37 0.47
80 37 0.47
81 4 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAAGGCCTTCGGGACATAACCCGG
AATTTATATCTCGCA
Found at i:88159360 original size:40 final size:39
Alignment explanation
Indices: 88159257--88159479 Score: 184
Period size: 40 Copynumber: 5.6 Consensus size: 39
88159247 TCCTCGTTCA
* * * * *
88159257 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAATTCGCAC
* * *
88159296 AATGCCTTCGGGACATAACTCGGATTTAATAATTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAATTCGCAC
88159335 GAATGCCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAAT-TCGCAC
* *
88159375 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GT-ATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAAT-TCGCAC
** * * * *
88159415 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGT-AATTCGCAC
* *
88159456 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
88159480 CAGCATTCAA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 40 0.26
40 101 0.66
41 12 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAATTCGCAC
Found at i:88159439 original size:80 final size:79
Alignment explanation
Indices: 88159255--88159479 Score: 224
Period size: 80 Copynumber: 2.8 Consensus size: 79
88159245 GCTCCTCGTT
* * * * * *
88159255 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACTCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
88159319 ATTTAATAATTCGCA
65 ATTTAATAATTCGCA
* * *
88159334 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
*
88159399 AATTT-GT-ATCTCGCA
64 AATTTAATAAT-TCGCA
* * * * *
88159414 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
88159478 GA
63 GA
88159480 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 18, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
78 1 0.01
79 41 0.34
80 66 0.55
81 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAATTCGCA
Found at i:88159488 original size:41 final size:41
Alignment explanation
Indices: 88159411--88159488 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
88159401 TTTGTATCTC
* * *
88159411 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
88159452 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
88159489 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:88170787 original size:26 final size:27
Alignment explanation
Indices: 88170648--88170863 Score: 258
Period size: 27 Copynumber: 8.0 Consensus size: 27
88170638 GATAAATGTT
* *
88170648 TATTTTGCCCTTACGTGGTAAAAAGAC
1 TATTTTGCCCTTATGTGGTAAAATGAC
* * *
88170675 TATTTTGCCCTTATGGGGTAAAATTAT
1 TATTTTGCCCTTATGTGGTAAAATGAC
* * * *
88170702 TGTTTTGCCCTTATGAGGTGAAATAAC
1 TATTTTGCCCTTATGTGGTAAAATGAC
*
88170729 TGTTTTGCCCTTATGTGGTAAAATGAC
1 TATTTTGCCCTTATGTGGTAAAATGAC
*
88170756 -AGTTTT-CCGC-CATGTGGTAAAATGAC
1 TA-TTTTGCC-CTTATGTGGTAAAATGAC
*
88170782 TATTTTGCCCTTATGAGGTAAAATGAC
1 TATTTTGCCCTTATGTGGTAAAATGAC
*
88170809 TATTTTGCCCTTATGAGGTAAAATGAC
1 TATTTTGCCCTTATGTGGTAAAATGAC
* *
88170836 TTTTTTACCCTTATGTGGTAAAATGAC
1 TATTTTGCCCTTATGTGGTAAAATGAC
88170863 T
1 T
88170864 GAAATGCCCT
Statistics
Matches: 164, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
26 22 0.13
27 142 0.87
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (27 bp):
TATTTTGCCCTTATGTGGTAAAATGAC
Found at i:88170848 original size:107 final size:107
Alignment explanation
Indices: 88170662--88170862 Score: 321
Period size: 107 Copynumber: 1.9 Consensus size: 107
88170652 TTGCCCTTAC
* * * * *
88170662 GTGGTAAAAAGACTATTTTGCCCTTATGGGGTAAAATTATTGTTTTGCCCTTATGAGGTGAAATA
1 GTGGTAAAAAGACTATTTTGCCCTTATGAGGTAAAATGACTATTTTGCCCTTATGAGGTAAAATA
*
88170727 ACTGTTTTGCCCTTATGTGGTAAAATGACAGTTTTCCGCCAT
66 ACTGTTTTACCCTTATGTGGTAAAATGACAGTTTTCCGCCAT
* *
88170769 GTGGTAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTATTTTGCCCTTATGAGGTAAAATG
1 GTGGTAAAAAGACTATTTTGCCCTTATGAGGTAAAATGACTATTTTGCCCTTATGAGGTAAAATA
*
88170834 ACTTTTTTACCCTTATGTGGTAAAATGAC
66 ACTGTTTTACCCTTATGTGGTAAAATGAC
88170863 TGAAATGCCC
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
107 85 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.37
Consensus pattern (107 bp):
GTGGTAAAAAGACTATTTTGCCCTTATGAGGTAAAATGACTATTTTGCCCTTATGAGGTAAAATA
ACTGTTTTACCCTTATGTGGTAAAATGACAGTTTTCCGCCAT
Found at i:88170873 original size:27 final size:27
Alignment explanation
Indices: 88170651--88170898 Score: 202
Period size: 27 Copynumber: 9.3 Consensus size: 27
88170641 AAATGTTTAT
* *
88170651 TTTGCCCTTACGTGGTAAAAAGACT-A
1 TTTGCCCTTATGTGGTAAAATGACTGA
* * * *
88170677 TTTTGCCCTTATGGGGTAAAATTATTGT
1 -TTTGCCCTTATGTGGTAAAATGACTGA
* * * *
88170705 TTTGCCCTTATGAGGTGAAATAACTGT
1 TTTGCCCTTATGTGGTAAAATGACTGA
*
88170732 TTTGCCCTTATGTGGTAAAATGACAG-
1 TTTGCCCTTATGTGGTAAAATGACTGA
* *
88170758 TTTTCCGC-CATGTGGTAAAATGACT-A
1 TTTGCC-CTTATGTGGTAAAATGACTGA
*
88170784 TTTTGCCCTTATGAGGTAAAATGACT-A
1 -TTTGCCCTTATGTGGTAAAATGACTGA
* **
88170811 TTTTGCCCTTATGAGGTAAAATGACTTT
1 -TTTGCCCTTATGTGGTAAAATGACTGA
*
88170839 TTTACCCTTATGTGGTAAAATGACTGA
1 TTTGCCCTTATGTGGTAAAATGACTGA
** ** * *
88170866 AATGCCC-TACATGGTAAATTGACTGT
1 TTTGCCCTTATGTGGTAAAATGACTGA
88170892 TTTGCCC
1 TTTGCCC
88170899 CTATATGAGT
Statistics
Matches: 181, Mismatches: 34, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
26 41 0.23
27 140 0.77
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (27 bp):
TTTGCCCTTATGTGGTAAAATGACTGA
Found at i:88170881 original size:107 final size:106
Alignment explanation
Indices: 88170653--88170907 Score: 303
Period size: 107 Copynumber: 2.4 Consensus size: 106
88170643 ATGTTTATTT
* * * * *
88170653 TGCCCTTACGTGGTAAAAAGACTATTTTGCCCTTATGGGGTAAAATTATTGTTTTGCCCTTATGA
1 TGCCC-TACGTGGTAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTATTTTGCCCTTATGA
* * **
88170718 GGTGAAATAACTGTTTTGCCCTTATGTGGTAAAATGACAGTT
65 GGTAAAATAACTGTTTTACCCTTATGTGGTAAAATGACAGAA
* * *
88170760 TTCCGCCATGTGGTAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTATTTTGCCCTTATGA
1 TGCC-CTACGTGGTAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTATTTTGCCCTTATGA
* * *
88170825 GGTAAAATGACTTTTTTACCCTTATGTGGTAAAATGACTGAAA
65 GGTAAAATAACTGTTTTACCCTTATGTGGTAAAATGACAG-AA
* * *
88170868 TGCCCTACATGGTAAATTGACTGTTTTGCCCCTATATGAG
1 TGCCCTACGTGGTAAAATGACTATTTTG-CCCT-TATGAG
88170908 TTATTTATAT
Statistics
Matches: 123, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
107 109 0.89
108 8 0.07
109 6 0.05
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (106 bp):
TGCCCTACGTGGTAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTATTTTGCCCTTATGAG
GTAAAATAACTGTTTTACCCTTATGTGGTAAAATGACAGAA
Found at i:88170995 original size:5 final size:5
Alignment explanation
Indices: 88170985--88171014 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
88170975 GTATGATTCT
88170985 ATGAC ATGAC ATGAC ATGAC ATGAC ATGAC
1 ATGAC ATGAC ATGAC ATGAC ATGAC ATGAC
88171015 TGTACGATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
ATGAC
Found at i:88173673 original size:23 final size:23
Alignment explanation
Indices: 88173550--88173685 Score: 95
Period size: 23 Copynumber: 6.0 Consensus size: 23
88173540 CTGAGCTGAT
*
88173550 AAACGGTAAGCTCA-ATTGAGCTG
1 AAACGGTAAGCTCATA-AGAGCTG
* *
88173573 -AACGGTAAGCTCCGTAA-AGTTG
1 AAACGGTAAGCT-CATAAGAGCTG
** * *
88173595 AAACAATAAGCCCCTAAG-GACTG
1 AAACGGTAAGCTCATAAGAG-CTG
*
88173618 AAACGGTAACCTC-TGAAGAGCT-
1 AAACGGTAAGCTCAT-AAGAGCTG
* *
88173640 TAATGGTAAGCTCATAAGAGCTG
1 AAACGGTAAGCTCATAAGAGCTG
*
88173663 AAACGGTAAGCTCATATGAGCTG
1 AAACGGTAAGCTCATAAGAGCTG
88173686 TGGTGAGTCT
Statistics
Matches: 86, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
22 38 0.44
23 46 0.53
24 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (23 bp):
AAACGGTAAGCTCATAAGAGCTG
Found at i:88174940 original size:106 final size:106
Alignment explanation
Indices: 88174811--88175020 Score: 411
Period size: 106 Copynumber: 2.0 Consensus size: 106
88174801 CATGCTATGG
88174811 GTGGAAACATGTCTCCAACATGTTATGCTAGTGATGTATGTTAAGAAAAATAAAATAATGAGCAT
1 GTGGAAACATGTCTCCAACATGTTATGCTAGTGATGTATGTTAAGAAAAATAAAATAATGAGCAT
88174876 GGTGATTAAATAATGAAAGGAAGGGTGATGAAAAAAAAAAC
66 GGTGATTAAATAATGAAAGGAAGGGTGATGAAAAAAAAAAC
*
88174917 GTGGAAACATGTCTCCAACATGTTATGCTAGTGATGTATGTTCAGAAAAATAAAATAATGAGCAT
1 GTGGAAACATGTCTCCAACATGTTATGCTAGTGATGTATGTTAAGAAAAATAAAATAATGAGCAT
88174982 GGTGATTAAATAATGAAAGGAAGGGTGATGAAAAAAAAA
66 GGTGATTAAATAATGAAAGGAAGGGTGATGAAAAAAAAA
88175021 CATGGTCTCA
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 103 1.00
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.25
Consensus pattern (106 bp):
GTGGAAACATGTCTCCAACATGTTATGCTAGTGATGTATGTTAAGAAAAATAAAATAATGAGCAT
GGTGATTAAATAATGAAAGGAAGGGTGATGAAAAAAAAAAC
Found at i:88175593 original size:150 final size:150
Alignment explanation
Indices: 88175322--88175623 Score: 595
Period size: 150 Copynumber: 2.0 Consensus size: 150
88175312 CTTTGGTGAT
88175322 GAGGTATGAAGATGGTTGATTTTGAGTGTTTAATAAAAAGGATGCATGAATTATTGTTAAATAAT
1 GAGGTATGAAGATGGTTGATTTTGAGTGTTTAATAAAAAGGATGCATGAATTATTGTTAAATAAT
*
88175387 GGTCGAATGTAGCATGATTAAAGATGTGAATAAATTGAAGTTAAGGGGGTTGTCAATGAAAAACA
66 GGTCGAATGTAGCATGATTAAAGATGTGAATAAATTGAAGTTAAGGAGGTTGTCAATGAAAAACA
88175452 TGAGTTGGATGAGGCTTAAA
131 TGAGTTGGATGAGGCTTAAA
88175472 GAGGTATGAAGATGGTTGATTTTGAGTGTTTAATAAAAAGGATGCATGAATTATTGTTAAATAAT
1 GAGGTATGAAGATGGTTGATTTTGAGTGTTTAATAAAAAGGATGCATGAATTATTGTTAAATAAT
88175537 GGTCGAATGTAGCATGATTAAAGATGTGAATAAATTGAAGTTAAGGAGGTTGTCAATGAAAAACA
66 GGTCGAATGTAGCATGATTAAAGATGTGAATAAATTGAAGTTAAGGAGGTTGTCAATGAAAAACA
88175602 TGAGTTGGATGAGGCTTAAA
131 TGAGTTGGATGAGGCTTAAA
88175622 GA
1 GA
88175624 ATAAAAATCT
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 151 1.00
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.31
Consensus pattern (150 bp):
GAGGTATGAAGATGGTTGATTTTGAGTGTTTAATAAAAAGGATGCATGAATTATTGTTAAATAAT
GGTCGAATGTAGCATGATTAAAGATGTGAATAAATTGAAGTTAAGGAGGTTGTCAATGAAAAACA
TGAGTTGGATGAGGCTTAAA
Found at i:88176572 original size:27 final size:27
Alignment explanation
Indices: 88176541--88176718 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
88176531 TAAATTGTAC
88176541 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
88176568 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
88176594 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
88176622 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
88176650 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
88176677 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
88176704 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
88176719 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:88176655 original size:82 final size:81
Alignment explanation
Indices: 88176542--88176697 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
88176532 AAATTGTACA
* *
88176542 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
88176606 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
88176623 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
88176688 TGCGAGTTGA
65 TGCGAATTGA
88176698 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:88176709 original size:82 final size:81
Alignment explanation
Indices: 88176538--88176718 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
88176528 GATTAAATTG
* *
88176538 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
88176603 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
88176619 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
88176683 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
88176701 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
88176719 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:88182097 original size:145 final size:145
Alignment explanation
Indices: 88181899--88182172 Score: 512
Period size: 145 Copynumber: 1.9 Consensus size: 145
88181889 AACTCGAGGT
* *
88181899 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
88181964 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
88182029 ATTTCAAGTTCGCAC
131 ATTTCAAGTTCGCAC
*
88182044 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
88182109 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
88182173 TACTTTAAAC
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 125 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (145 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ATTTCAAGTTCGCAC
Found at i:88182191 original size:29 final size:30
Alignment explanation
Indices: 88182157--88182228 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
88182147 ATCAACCACG
*
88182157 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
88182186 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
88182215 CACACTTAGTGCCA
1 CACACTTAGTGCCA
88182229 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:88184096 original size:40 final size:40
Alignment explanation
Indices: 88184040--88184217 Score: 252
Period size: 40 Copynumber: 4.5 Consensus size: 40
88184030 CGGATGATAA
*
88184040 CCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
*
88184080 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* **
88184120 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
88184160 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATTT
**
88184200 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
88184218 TACTTGGTTG
Statistics
Matches: 126, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 16 0.13
40 110 0.87
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:88191044 original size:62 final size:62
Alignment explanation
Indices: 88190947--88191070 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
88190937 AAGGAAGGGA
*
88190947 AAGAGCTTGGAGAAAATCGACTATGGTGGTTCACTAGATTAAGGTATGTTTATTGTTGCTTT
1 AAGAGCTTGGAGAAAATCGACTATGGTGGTTCACTAGATTAAGGTATGTTTAATGTTGCTTT
88191009 AAGAGCTTGGAGAAAATCGACTATGGTGGTTCACTAGATTAAGGTATGTTTAATGTTGCTTT
1 AAGAGCTTGGAGAAAATCGACTATGGTGGTTCACTAGATTAAGGTATGTTTAATGTTGCTTT
88191071 GAAAGTTCAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (62 bp):
AAGAGCTTGGAGAAAATCGACTATGGTGGTTCACTAGATTAAGGTATGTTTAATGTTGCTTT
Found at i:88192404 original size:40 final size:40
Alignment explanation
Indices: 88192349--88192766 Score: 732
Period size: 40 Copynumber: 10.5 Consensus size: 40
88192339 CGGATGATAA
*
88192349 CCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
88192389 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
88192429 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
88192469 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
88192509 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
88192549 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
88192589 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
88192629 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* **
88192669 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* * *
88192709 CCAGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATTT
**
88192749 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
88192767 TACTTGGTTG
Statistics
Matches: 367, Mismatches: 10, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
39 16 0.04
40 351 0.96
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:88198728 original size:27 final size:27
Alignment explanation
Indices: 88198697--88198956 Score: 331
Period size: 27 Copynumber: 9.6 Consensus size: 27
88198687 TTAATTTACC
* *
88198697 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
88198724 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
88198751 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
88198778 AAATTACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** * *
88198805 AAATTACTAAAATACCATTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
88198832 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
88198859 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
88198886 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
88198913 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
88198940 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
88198957 TCGACCTGTA
Statistics
Matches: 202, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 202 1.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:88198829 original size:81 final size:81
Alignment explanation
Indices: 88198690--88199028 Score: 367
Period size: 81 Copynumber: 4.2 Consensus size: 81
88198680 GAATACTTTA
* * * *
88198690 ATTTACCAAATTATCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAT
1 ATTTACAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTTAGTTTATAAAAT
*
88198755 TACCAAAATACCCTTG
66 TACCAAAATACCCCTG
* * *
88198771 GTTTACAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCATTTGTTTATAAAAT
1 ATTTACAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTTAGTTTATAAAAT
88198836 TACCAAAATACCCCTG
66 TACCAAAATACCCCTG
* ** ** * *
88198852 GTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTA-TCAAAATACCCCTAGTTTGTAAAA
1 ATTTACAAAATTACCAAAATACCCCTAATTTGTAAAATTACT-AAAATACCCTTAGTTTATAAAA
88198916 TTACCAAAATACCCCTG
65 TTACCAAAATACCCCTG
*** ** * ** * * * ** *
88198933 ATTTGTGAAATTACTGAAATA-CCCTCGACCTGTAAAATTATTGAAATACCCTCAACTTGTAAAA
1 ATTTACAAAATTACCAAAATACCCCT-AATTTGTAAAATTACTAAAATACCCTTAGTTTATAAAA
* *
88198997 TTACCAAAGTACCCTTG
65 TTACCAAAATACCCCTG
88199014 ATTTACAAAATTACC
1 ATTTACAAAATTACC
88199029 GTTTTACCCT
Statistics
Matches: 222, Mismatches: 33, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
80 5 0.02
81 216 0.97
82 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (81 bp):
ATTTACAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTTAGTTTATAAAAT
TACCAAAATACCCCTG
Found at i:88199009 original size:27 final size:27
Alignment explanation
Indices: 88198697--88199094 Score: 308
Period size: 27 Copynumber: 14.7 Consensus size: 27
88198687 TTAATTTACC
*
88198697 AAATTATCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
* * * *
88198724 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGATTTGTA
* * **
88198751 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGATTTGTA
*
88198778 AAATTACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* ** *
88198805 AAATTACTAAAATACCATTTG-TTTATA
1 AAATTACCAAAATACC-CCTGATTTGTA
*
88198832 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
*
88198859 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
*
88198886 AAATTATCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
*
88198913 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
** **
88198940 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
*** * *
88198967 AAATTATTGAAATA-CCCTCAACTTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
* * **
88198994 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCCTGATTTGTA
**** **
88199021 AAATTACCGTTTTA-CCCTCGATTTACA
1 AAATTACCAAAATACCCCT-GATTTGTA
* **
88199048 AAATTACCAAAATACCCTTG-TAGGGTA
1 AAATTACCAAAATACCCCTGAT-TTGTA
88199075 GAAA-TACCAAAATACCCCTG
1 -AAATTACCAAAATACCCCTG
88199095 TAGGGTAGAA
Statistics
Matches: 303, Mismatches: 57, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
26 10 0.03
27 282 0.93
28 11 0.04
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:88199096 original size:27 final size:27
Alignment explanation
Indices: 88199049--88199477 Score: 547
Period size: 27 Copynumber: 16.3 Consensus size: 27
88199039 CGATTTACAA
* *
88199049 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
88199076 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
88199103 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
88199130 AATTACCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
88199157 AATTATCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
88199184 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
88199211 AATTACCGAAATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
88199238 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
88199265 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
88199292 AATTACCGAAATACCCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCCTGTAGGGTAG
88199320 AATTACCGAAATA-CCC--------AG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
88199338 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
88199365 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
88199392 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
88199419 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
88199446 AATTATCGAGATA-CCTTGT-GGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
88199471 AATTACC
1 AATTACC
88199478 ATTTTGCCCC
Statistics
Matches: 357, Mismatches: 35, Indels: 22
0.86 0.08 0.05
Matches are distributed among these distances:
18 13 0.04
19 3 0.01
25 11 0.03
26 8 0.02
27 296 0.83
28 26 0.07
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:88199341 original size:18 final size:18
Alignment explanation
Indices: 88199318--88199353 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
88199308 CCTGTAGGGT
88199318 AGAATTACCGAAATACCC
1 AGAATTACCGAAATACCC
* *
88199336 AGAATTATCGCAATACCC
1 AGAATTACCGAAATACCC
88199354 CTGTAGGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.28, G:0.11, T:0.19
Consensus pattern (18 bp):
AGAATTACCGAAATACCC
Found at i:88199963 original size:22 final size:22
Alignment explanation
Indices: 88199903--88199967 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
88199893 TTAAAGCCTT
* * *
88199903 CTGATTATGGCTTTCTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
* *
88199925 CT-ACATATAGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
88199947 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
88199968 ACGTATTTGC
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:88200155 original size:27 final size:27
Alignment explanation
Indices: 88200125--88200226 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
88200115 ATTCTGTTAA
* *
88200125 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
88200152 GTGGCTATGCCACAAATATCT-ATTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
88200179 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
88200206 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
88200227 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 52 0.80
28 6 0.09
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:88200403 original size:31 final size:31
Alignment explanation
Indices: 88200368--88200490 Score: 142
Period size: 31 Copynumber: 4.0 Consensus size: 31
88200358 CTCATTTTTT
* *
88200368 ATTCTGTTACCTGATACTGGTTCTGATTTTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
*
88200399 ATTCTGTTACCTGATCCTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
* * *
88200430 ATTCTGTCACCTAATTCTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
* * *
88200461 ATTCTAGTT--CTGATAATGTTTCTTATTCTG
1 ATTCT-GTTACCTGATACTGATTCTGATTCTG
88200491 TAATTGGTTA
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
30 16 0.20
31 61 0.77
32 2 0.03
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGTTACCTGATACTGATTCTGATTCTG
Found at i:88200432 original size:6 final size:6
Alignment explanation
Indices: 88200378--88200474 Score: 74
Period size: 6 Copynumber: 15.8 Consensus size: 6
88200368 ATTCTGTTAC
* * * *
88200378 CTGATA CTGGTT CTGATT TTGATT CTG-TT ACCTGATC CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* *
88200427 CTGATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
88200475 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
5 4 0.06
6 60 0.83
7 6 0.08
8 2 0.03
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:88201458 original size:18 final size:17
Alignment explanation
Indices: 88201416--88201459 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
88201406 CTAAATTGGA
88201416 AAATAAAATTATTAAAAG
1 AAAT-AAATTATTAAAAG
*
88201434 ATGATAAATTATTAAAAAG
1 A-AATAAATTATT-AAAAG
88201453 AAATAAA
1 AAATAAA
88201460 AATCATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (17 bp):
AAATAAATTATTAAAAG
Found at i:88207775 original size:68 final size:68
Alignment explanation
Indices: 88207666--88207803 Score: 249
Period size: 68 Copynumber: 2.0 Consensus size: 68
88207656 TTTGATAAGA
88207666 AAATTCTATCGATTATGTGTTTAACTAGGGAAAGGACTAAATCGCATAAAATGCAAAAGTTAAAT
1 AAATTCTATCGATTATGTGTTTAACTAGGGAAAGGACTAAATCGCATAAAATGCAAAAGTTAAAT
88207731 TCT
66 TCT
* * *
88207734 AAATTCTATCGATTATGTGTTTAATTAGGGAAAGGACTAAATCGCATAAAATGGAAAAGTTGAAT
1 AAATTCTATCGATTATGTGTTTAACTAGGGAAAGGACTAAATCGCATAAAATGCAAAAGTTAAAT
88207799 TCT
66 TCT
88207802 AA
1 AA
88207804 TAGCTATAAG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.31
Consensus pattern (68 bp):
AAATTCTATCGATTATGTGTTTAACTAGGGAAAGGACTAAATCGCATAAAATGCAAAAGTTAAAT
TCT
Found at i:88207985 original size:18 final size:18
Alignment explanation
Indices: 88207948--88207986 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
88207938 TTGGAAATTA
*
88207948 AAATTATTAAAAGACGAT
1 AAATTATTAAAAGACAAT
88207966 AAATTATTAAAAAGA-AAT
1 AAATTATT-AAAAGACAAT
88207984 AAA
1 AAA
88207987 AATCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.26
Consensus pattern (18 bp):
AAATTATTAAAAGACAAT
Done.