Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 11 of 182
Found at i:3682067 original size:15 final size:16
Alignment explanation
Indices: 3682049--3682082 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
3682039 TTAAATTTGT
*
3682049 TTTTTTTCTT-CTCTC
1 TTTTTCTCTTCCTCTC
3682064 TTTTTCTCTTCCTCTC
1 TTTTTCTCTTCCTCTC
3682080 TTT
1 TTT
3682083 GTAACAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTCTCTTCCTCTC
Found at i:3684136 original size:101 final size:102
Alignment explanation
Indices: 3684015--3684197 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 102
3684005 AAAGTGATGG
* * * *
3684015 TCACGTGTGTAGTACTATGTGCAGGTTACTACGTGTACCAGA-ATG-ATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGACA-GCATAGATCACATGTGTAGT
3684078 ACTATGTGCAGGCTACTATGCGTACCAGACAGCTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCAGACAGCTTCGA
* * * *
3684116 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGACAGCTTCGATCACGTGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGACAGCATAGATCACATGTGTAGTA
3684181 CTATGTGCAGGCTACTA
66 CTATGTGCAGGCTACTA
3684198 CATGTATCAA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
101 40 0.56
102 32 0.44
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGACAGCATAGATCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCAGACAGCTTCGA
Found at i:3684139 original size:51 final size:51
Alignment explanation
Indices: 3684015--3684197 Score: 271
Period size: 51 Copynumber: 3.6 Consensus size: 51
3684005 AAAGTGATGG
* * * * * *
3684015 TCACGTGTGTAGTACTATGTGCAGGTTACTACGTGTACCAGA-ATG-ATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGACA-GCTTCGA
* *
3684065 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGACAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGACAGCTTCGA
3684116 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGACAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGACAGCTTCGA
3684167 TCACGTGTGTAGTACTATGTGCAGGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
3684198 CATGTATCAA
Statistics
Matches: 121, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
50 38 0.31
51 83 0.69
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGACAGCTTCGA
Found at i:3684222 original size:27 final size:27
Alignment explanation
Indices: 3684192--3684246 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
3684182 TATGTGCAGG
3684192 CTACTACATGTATCAAATAGTGATGGT
1 CTACTACATGTATCAAATAGTGATGGT
3684219 CTACTACATGTATCAAATAGTGATGGT
1 CTACTACATGTATCAAATAGTGATGGT
3684246 C
1 C
3684247 ACATGTGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (27 bp):
CTACTACATGTATCAAATAGTGATGGT
Found at i:3689726 original size:42 final size:42
Alignment explanation
Indices: 3689667--3689750 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
3689657 AATCCTAATT
** *
3689667 GGGAAAATTATTCCCTTATTCTAATAAACTACTAAAACATAA
1 GGGAAAACAATTCCCTTATTCTAATAAACTACCAAAACATAA
*
3689709 GGGAAAACAATTCCCTTATTCTAATAAACTACCAAAAGATAA
1 GGGAAAACAATTCCCTTATTCTAATAAACTACCAAAACATAA
3689751 AATAAAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.27
Consensus pattern (42 bp):
GGGAAAACAATTCCCTTATTCTAATAAACTACCAAAACATAA
Found at i:3697702 original size:48 final size:48
Alignment explanation
Indices: 3697650--3697757 Score: 182
Period size: 48 Copynumber: 2.2 Consensus size: 48
3697640 CTCTAGCACA
*
3697650 CCAAACATGT-CTCGTTGAATGGAGCTTAGCTCACATTTTCTTATCTCT
1 CCAAACATGTCCT-GTTGAATGGAGCTTAGCTCACATTTCCTTATCTCT
3697698 CCAAACATGTCCTGTTGAATGGAGCTTAGCTCACATTTCCTTATCTCT
1 CCAAACATGTCCTGTTGAATGGAGCTTAGCTCACATTTCCTTATCTCT
*
3697746 CCAACCATGTCC
1 CCAAACATGTCC
3697758 CAGGCCTCAA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
48 55 0.96
49 2 0.04
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (48 bp):
CCAAACATGTCCTGTTGAATGGAGCTTAGCTCACATTTCCTTATCTCT
Found at i:3705583 original size:39 final size:40
Alignment explanation
Indices: 3705538--3705722 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
3705528 GCTCCTCGTT
* * *
3705538 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
3705578 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
3705617 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
3705657 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
3705698 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
3705723 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:3705638 original size:40 final size:39
Alignment explanation
Indices: 3705505--3705722 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
3705495 AAATCACGTA
* * **
3705505 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
3705544 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
3705583 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
3705623 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
3705663 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
3705703 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
3705723 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:3714350 original size:27 final size:27
Alignment explanation
Indices: 3714311--3714479 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
3714301 NNNNNNNNNC
* * *
3714311 AGTGCTATATAATCAACTCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
* *
3714338 AGTGCTACGTAATCAAATCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
3714365 AGTGCTACATAGTCAAACTCGCACACTT
1 AGTGCTACATAGTCAAA-TCGCACACTT
** * *
3714393 AGTGCCGCATGGTCAATTCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
* **
3714420 AGTGC-ATCATATTCATTTCGCACACTT
1 AGTGCTA-CATAGTCAAATCGCACACTT
*
3714447 AGTGCAACATAGTCAAATCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
3714474 AGTGCT
1 AGTGCT
3714480 GTACAATTTA
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 98 0.80
28 24 0.20
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
AGTGCTACATAGTCAAATCGCACACTT
Found at i:3714448 original size:82 final size:81
Alignment explanation
Indices: 3714323--3714478 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
3714313 TGCTATATAA
* *
3714323 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
3714388 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
3714405 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
3714469 CACTTAGTGC
65 CACTTAGTGC
3714479 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:3716971 original size:34 final size:34
Alignment explanation
Indices: 3716928--3716999 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
3716918 TTTTAAGCAT
3716928 AGGAGCATGTATTGCAACATGAGTAGCTTGACTA
1 AGGAGCATGTATTGCAACATGAGTAGCTTGACTA
*
3716962 AGGAGCATGTATTGCAACATGAGTAGCTTGCCTA
1 AGGAGCATGTATTGCAACATGAGTAGCTTGACTA
3716996 AGGA
1 AGGA
3717000 TATTATGAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (34 bp):
AGGAGCATGTATTGCAACATGAGTAGCTTGACTA
Found at i:3718143 original size:7 final size:7
Alignment explanation
Indices: 3718131--3718155 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3718121 TCTTGTTGGC
3718131 AAGCTAG
1 AAGCTAG
3718138 AAGCTAG
1 AAGCTAG
3718145 AAGCTAG
1 AAGCTAG
3718152 AAGC
1 AAGC
3718156 CAAAGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.16, G:0.28, T:0.12
Consensus pattern (7 bp):
AAGCTAG
Found at i:3732541 original size:23 final size:23
Alignment explanation
Indices: 3732515--3732559 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
3732505 TTTCTTACTA
3732515 TAGTAATTTTCAGGG-TATTACAG
1 TAGTAATTTTC-GGGATATTACAG
3732538 TAGTAATTTTCGGGATATTACA
1 TAGTAATTTTCGGGATATTACA
3732560 AATACAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (23 bp):
TAGTAATTTTCGGGATATTACAG
Found at i:3735445 original size:60 final size:60
Alignment explanation
Indices: 3735381--3735621 Score: 299
Period size: 60 Copynumber: 4.0 Consensus size: 60
3735371 GTGCAGTCAA
* * * * *
3735381 GGGCACCAAAGTGCGAATAGG-GACACAGATGTGCAAACAGGGACACCAAAGTGTATATAG
1 GGGCACCAAAGTGCGAATAGGAG-CACAGACGTGGAAATAGAGACACCGAAGTGTATATAG
* * *
3735441 GGGCACCAAAGTGCGAACAGGAGCATAGACGTGGAAATAGAGACACCGAAGTATATATATAG
1 GGGCACCAAAGTGCGAATAGGAGCACAGACGTGGAAATAGAGACACCGAAG--TGTATATAG
*
3735503 GGGCACCAAAGTGCGAAAAGGAGCACAGACGTGGAAATAGAGACACCGAAGTGTATATAG
1 GGGCACCAAAGTGCGAATAGGAGCACAGACGTGGAAATAGAGACACCGAAGTGTATATAG
* * * *
3735563 GGGCACCAAAGTGCAAATAAGG-GCATAGTA-GTGGCAATAAAGACACCGAAGTGTATATA
1 GGGCACCAAAGTGCGAAT-AGGAGCACAG-ACGTGGAAATAGAGACACCGAAGTGTATATA
3735622 TTTGAACTGA
Statistics
Matches: 160, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
60 98 0.61
61 5 0.03
62 57 0.36
ACGTcount: A:0.40, C:0.17, G:0.29, T:0.14
Consensus pattern (60 bp):
GGGCACCAAAGTGCGAATAGGAGCACAGACGTGGAAATAGAGACACCGAAGTGTATATAG
Found at i:3735607 original size:122 final size:122
Alignment explanation
Indices: 3735381--3735622 Score: 337
Period size: 122 Copynumber: 2.0 Consensus size: 122
3735371 GTGCAGTCAA
* * *
3735381 GGGCACCAAAGTGCGAATAGGGACACAGATGTGCAAACAGGGACACCAAAGTGTATATAGGGGCA
1 GGGCACCAAAGTGCGAAAAGGGACACAGACGTGCAAACAGAGACACCAAAGTGTATATAGGGGCA
* * *
3735446 CCAAAGTGCGAACAGGAGCATAGACGTGGAAATAGAGACACCGAAGTATATATATAG
66 CCAAAGTGCAAAAAGGAGCATAGACGTGGAAATAAAGACACCGAAGTATATATATAG
* * *
3735503 GGGCACCAAAGTGCGAAAA-GGAGCACAGACGTGGAAATAGAGACACCGAAGTGTATATAGGGGC
1 GGGCACCAAAGTGCGAAAAGGGA-CACAGACGTGCAAACAGAGACACCAAAGTGTATATAGGGGC
* *
3735567 ACCAAAGTGCAAATAAGG-GCATAGTA-GTGGCAATAAAGACACCGAAGTGTATATAT
65 ACCAAAGTGCAAA-AAGGAGCATAG-ACGTGGAAATAAAGACACCGAAGTATATATAT
3735623 TTGAACTGAA
Statistics
Matches: 106, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
121 3 0.03
122 99 0.93
123 4 0.04
ACGTcount: A:0.40, C:0.17, G:0.29, T:0.14
Consensus pattern (122 bp):
GGGCACCAAAGTGCGAAAAGGGACACAGACGTGCAAACAGAGACACCAAAGTGTATATAGGGGCA
CCAAAGTGCAAAAAGGAGCATAGACGTGGAAATAAAGACACCGAAGTATATATATAG
Found at i:3741309 original size:60 final size:59
Alignment explanation
Indices: 3741245--3741438 Score: 182
Period size: 60 Copynumber: 3.2 Consensus size: 59
3741235 ATGCACTTAG
*
3741245 GGGCACCAAAGTGTGAACTGGGGCACAGATCTGCAAACA-AGGACACCAAAGTGTATACAA
1 GGGCACCAAAGTG-GAACTGGGGCACAGATCTGCAAATAGA-GACACCAAAGTGTATACAA
** * * * * *
3741305 GGGCACTGAAGTGCAAATAGGAGCACAGA-CGTGCAAATAGAGACACCAAATTGTATACAG
1 GGGCACCAAAGTGGAACT-GGGGCACAGATC-TGCAAATAGAGACACCAAAGTGTATACAA
*
3741365 GGTGCACCAAAGTGCGAACAGGGGCACA-AT-TGTTCAAATAGAGACA-CAGAAGTGTATACAA
1 GG-GCACCAAAGTG-GAACTGGGGCACAGATCTG--CAAATAGAGACACCA-AAGTGTATACAA
*
3741426 GGCCACCAAAGTG
1 GGGCACCAAAGTG
3741439 CAAACAGGGG
Statistics
Matches: 108, Mismatches: 17, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
59 6 0.06
60 59 0.55
61 41 0.38
62 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.27, T:0.14
Consensus pattern (59 bp):
GGGCACCAAAGTGGAACTGGGGCACAGATCTGCAAATAGAGACACCAAAGTGTATACAA
Found at i:3741330 original size:20 final size:20
Alignment explanation
Indices: 3741307--3741344 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3741297 GTATACAAGG
*
3741307 GCACTGAAGTGCAAATAGGA
1 GCACAGAAGTGCAAATAGGA
*
3741327 GCACAGACGTGCAAATAG
1 GCACAGAAGTGCAAATAG
3741345 AGACACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.18, G:0.29, T:0.13
Consensus pattern (20 bp):
GCACAGAAGTGCAAATAGGA
Found at i:3751043 original size:8 final size:8
Alignment explanation
Indices: 3751030--3751056 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
3751020 CCATAGACAT
3751030 TAAAATAA
1 TAAAATAA
3751038 TAAAATAA
1 TAAAATAA
3751046 TAAAATAA
1 TAAAATAA
3751054 TAA
1 TAA
3751057 TTTACTTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
TAAAATAA
Found at i:3772934 original size:30 final size:30
Alignment explanation
Indices: 3772898--3772957 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
3772888 CAAGGTAGAG
3772898 GCCACAAAGGAGCTTGAGCTGAGTCCTCTT
1 GCCACAAAGGAGCTTGAGCTGAGTCCTCTT
3772928 GCCACAAAGGAGCTTGAGCTGAGTCCTCTT
1 GCCACAAAGGAGCTTGAGCTGAGTCCTCTT
3772958 CACTGGGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.23
Consensus pattern (30 bp):
GCCACAAAGGAGCTTGAGCTGAGTCCTCTT
Found at i:3774048 original size:10 final size:10
Alignment explanation
Indices: 3774019--3774078 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
3774009 CCAATAAAAT
* *
3774019 AAATGAGTTA
1 AAATGAGCTC
3774029 AAATGTAGCT-
1 AAATG-AGCTC
3774039 AAATTGAGCTC
1 AAA-TGAGCTC
* *
3774050 GAATGAGCTG
1 AAATGAGCTC
3774060 AAATGAGCTC
1 AAATGAGCTC
*
3774070 AATTGAGCT
1 AAATGAGCT
3774079 GGTCGGAGCT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
10 34 0.83
11 7 0.17
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (10 bp):
AAATGAGCTC
Found at i:3774054 original size:21 final size:20
Alignment explanation
Indices: 3774030--3774079 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
3774020 AATGAGTTAA
3774030 AATGTAGCT-AAATTGAGCTCG
1 AATG-AGCTGAAA-TGAGCTCG
3774051 AATGAGCTGAAATGAGCTC-
1 AATGAGCTGAAATGAGCTCG
3774070 AATTGAGCTG
1 AA-TGAGCTG
3774080 GTCGGAGCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 2 0.07
20 18 0.67
21 7 0.26
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (20 bp):
AATGAGCTGAAATGAGCTCG
Found at i:3774076 original size:30 final size:31
Alignment explanation
Indices: 3774020--3774078 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
3774010 CAATAAAATA
*
3774020 AATGAGTTAAAATGTAGCTAAATTGAGCTCG
1 AATGAGCTAAAATGTAGCTAAATTGAGCTCG
* *
3774051 AATGAGCTGAAATG-AGCTCAATTGAGCT
1 AATGAGCTAAAATGTAGCTAAATTGAGCT
3774079 GGTCGGAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (31 bp):
AATGAGCTAAAATGTAGCTAAATTGAGCTCG
Found at i:3774117 original size:30 final size:30
Alignment explanation
Indices: 3774083--3774158 Score: 134
Period size: 30 Copynumber: 2.5 Consensus size: 30
3774073 TGAGCTGGTC
* *
3774083 GGAGCTGAAACGAGCTGGAGGAGCTGAAAT
1 GGAGCTGAAATGAGCTAGAGGAGCTGAAAT
3774113 GGAGCTGAAATGAGCTAGAGGAGCTGAAAT
1 GGAGCTGAAATGAGCTAGAGGAGCTGAAAT
3774143 GGAGCTGAAATGAGCT
1 GGAGCTGAAATGAGCT
3774159 TGCACGAGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.38, T:0.16
Consensus pattern (30 bp):
GGAGCTGAAATGAGCTAGAGGAGCTGAAAT
Found at i:3774118 original size:11 final size:11
Alignment explanation
Indices: 3774102--3774158 Score: 77
Period size: 11 Copynumber: 5.5 Consensus size: 11
3774092 ACGAGCTGGA
3774102 GGAGCTGAAAT
1 GGAGCTGAAAT
3774113 GGAGCTGAAAT
1 GGAGCTGAAAT
*
3774124 -GAGCT-AGA-
1 GGAGCTGAAAT
3774132 GGAGCTGAAAT
1 GGAGCTGAAAT
3774143 GGAGCTGAAAT
1 GGAGCTGAAAT
3774154 -GAGCT
1 GGAGCT
3774159 TGCACGAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 7 0.17
10 12 0.29
11 22 0.54
ACGTcount: A:0.35, C:0.11, G:0.37, T:0.18
Consensus pattern (11 bp):
GGAGCTGAAAT
Found at i:3774949 original size:6 final size:6
Alignment explanation
Indices: 3774940--3774964 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3774930 TTTCTTTTGC
3774940 TTTCTT TTTCTT TTTCTT TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT T
3774965 ACTTCCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:3777126 original size:24 final size:26
Alignment explanation
Indices: 3777094--3777145 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
3777084 TTTCGATTTT
*
3777094 TTTTACTTCGT-ACTTTTTTTTTGAA
1 TTTTACTTCGTCACTTTTTTTTTCAA
* *
3777119 TTTT-CTTCTTCTCTTTTTTTTTCAA
1 TTTTACTTCGTCACTTTTTTTTTCAA
3777144 TT
1 TT
3777146 ACAATAGATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.12, C:0.15, G:0.04, T:0.69
Consensus pattern (26 bp):
TTTTACTTCGTCACTTTTTTTTTCAA
Found at i:3778494 original size:10 final size:10
Alignment explanation
Indices: 3778465--3778524 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
3778455 CCAATAAAAT
* *
3778465 AAATGAGTTA
1 AAATGAGCTC
3778475 AAATGTAGCT-
1 AAATG-AGCTC
3778485 AAATTGAGCTC
1 AAA-TGAGCTC
* *
3778496 GAATGAGCTG
1 AAATGAGCTC
3778506 AAATGAGCTC
1 AAATGAGCTC
*
3778516 AATTGAGCT
1 AAATGAGCT
3778525 GGTCGGAGCT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
10 34 0.83
11 7 0.17
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (10 bp):
AAATGAGCTC
Found at i:3778500 original size:21 final size:20
Alignment explanation
Indices: 3778476--3778525 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
3778466 AATGAGTTAA
3778476 AATGTAGCT-AAATTGAGCTCG
1 AATG-AGCTGAAA-TGAGCTCG
3778497 AATGAGCTGAAATGAGCTC-
1 AATGAGCTGAAATGAGCTCG
3778516 AATTGAGCTG
1 AA-TGAGCTG
3778526 GTCGGAGCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 2 0.07
20 18 0.67
21 7 0.26
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (20 bp):
AATGAGCTGAAATGAGCTCG
Found at i:3778522 original size:30 final size:31
Alignment explanation
Indices: 3778466--3778524 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
3778456 CAATAAAATA
*
3778466 AATGAGTTAAAATGTAGCTAAATTGAGCTCG
1 AATGAGCTAAAATGTAGCTAAATTGAGCTCG
* *
3778497 AATGAGCTGAAATG-AGCTCAATTGAGCT
1 AATGAGCTAAAATGTAGCTAAATTGAGCT
3778525 GGTCGGAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (31 bp):
AATGAGCTAAAATGTAGCTAAATTGAGCTCG
Found at i:3778563 original size:30 final size:30
Alignment explanation
Indices: 3778529--3778604 Score: 134
Period size: 30 Copynumber: 2.5 Consensus size: 30
3778519 TGAGCTGGTC
* *
3778529 GGAGCTGAAACGAGCTGGAGGAGCTGAAAT
1 GGAGCTGAAATGAGCTAGAGGAGCTGAAAT
3778559 GGAGCTGAAATGAGCTAGAGGAGCTGAAAT
1 GGAGCTGAAATGAGCTAGAGGAGCTGAAAT
3778589 GGAGCTGAAATGAGCT
1 GGAGCTGAAATGAGCT
3778605 TGCACGAGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.38, T:0.16
Consensus pattern (30 bp):
GGAGCTGAAATGAGCTAGAGGAGCTGAAAT
Found at i:3778564 original size:11 final size:11
Alignment explanation
Indices: 3778548--3778604 Score: 77
Period size: 11 Copynumber: 5.5 Consensus size: 11
3778538 ACGAGCTGGA
3778548 GGAGCTGAAAT
1 GGAGCTGAAAT
3778559 GGAGCTGAAAT
1 GGAGCTGAAAT
*
3778570 -GAGCT-AGA-
1 GGAGCTGAAAT
3778578 GGAGCTGAAAT
1 GGAGCTGAAAT
3778589 GGAGCTGAAAT
1 GGAGCTGAAAT
3778600 -GAGCT
1 GGAGCT
3778605 TGCACGAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 7 0.17
10 12 0.29
11 22 0.54
ACGTcount: A:0.35, C:0.11, G:0.37, T:0.18
Consensus pattern (11 bp):
GGAGCTGAAAT
Found at i:3779385 original size:17 final size:16
Alignment explanation
Indices: 3779363--3779402 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
3779353 TTCCTTTCTT
3779363 TTTTTCTCTCATGTTTC
1 TTTTTCTCTC-TGTTTC
* *
3779380 TTTTTCTTTCTTTTTC
1 TTTTTCTCTCTGTTTC
3779396 TTTTTCT
1 TTTTTCT
3779403 TTACTTCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.03, C:0.20, G:0.03, T:0.75
Consensus pattern (16 bp):
TTTTTCTCTCTGTTTC
Found at i:3782626 original size:10 final size:10
Alignment explanation
Indices: 3782604--3782742 Score: 90
Period size: 10 Copynumber: 13.8 Consensus size: 10
3782594 CAATAAAATG
3782604 AATGAGCTGA
1 AATGAGCTGA
3782614 AATGTAGCT-A
1 AATG-AGCTGA
3782624 AATTGAGCTCG-
1 AA-TGAGCT-GA
3782635 AATGAGCTGA
1 AATGAGCTGA
*
3782645 AATGAGCTTA
1 AATGAGCTGA
*
3782655 ATTGAGCT-A
1 AATGAGCTGA
**
3782664 GTTGGAGCTGA
1 AAT-GAGCTGA
*
3782675 AACGAGCT-A
1 AATGAGCTGA
* *
3782684 GAGGAGCTGA
1 AATGAGCTGA
3782694 AATGGAGCTGA
1 AAT-GAGCTGA
*
3782705 AATAAGCT-A
1 AATGAGCTGA
* *
3782714 GAGGAGCTGA
1 AATGAGCTGA
*
3782724 AATGGAGTTGA
1 AAT-GAGCTGA
3782735 AATGAGCT
1 AATGAGCT
3782743 TGCCCGAGAA
Statistics
Matches: 100, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
9 17 0.17
10 55 0.55
11 28 0.28
ACGTcount: A:0.36, C:0.11, G:0.31, T:0.22
Consensus pattern (10 bp):
AATGAGCTGA
Found at i:3782672 original size:30 final size:30
Alignment explanation
Indices: 3782603--3782713 Score: 102
Period size: 30 Copynumber: 3.7 Consensus size: 30
3782593 CCAATAAAAT
*
3782603 GAATGAGCTGAAATGTAGCTAAATTGAGCTC
1 GAATGAGCTGAAATG-AGCTAAATTGAGCTA
*
3782634 GAATGAGCTGAAATGAGCTTAATTGAGCTA
1 GAATGAGCTGAAATGAGCTAAATTGAGCTA
* * * *
3782664 G-TTGGAGCTGAAACGAGCTAGA-GGAGCT-
1 GAAT-GAGCTGAAATGAGCTAAATTGAGCTA
*
3782692 GAAATGGAGCTGAAATAAGCTA
1 G-AAT-GAGCTGAAATGAGCTA
3782714 GAGGAGCTGA
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
28 1 0.01
29 6 0.09
30 45 0.67
31 15 0.22
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.23
Consensus pattern (30 bp):
GAATGAGCTGAAATGAGCTAAATTGAGCTA
Found at i:3782714 original size:30 final size:30
Alignment explanation
Indices: 3782684--3782742 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
3782674 AAACGAGCTA
*
3782684 GAGGAGCTGAAATGGAGCTGAAATAAGCTA
1 GAGGAGCTGAAATGGAGCTGAAATGAGCTA
*
3782714 GAGGAGCTGAAATGGAGTTGAAATGAGCT
1 GAGGAGCTGAAATGGAGCTGAAATGAGCT
3782743 TGCCCGAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.36, T:0.19
Consensus pattern (30 bp):
GAGGAGCTGAAATGGAGCTGAAATGAGCTA
Found at i:3787087 original size:28 final size:28
Alignment explanation
Indices: 3787052--3787111 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
3787042 TTGGGTTGAG
3787052 TGGG-TCACACGGGCGTATGGGCCCACA
1 TGGGCTCACACGGGCGTATGGGCCCACA
* *
3787079 TGGGCTCACACGGGCGTGTGGGCCTACA
1 TGGGCTCACACGGGCGTATGGGCCCACA
*
3787107 CGGGC
1 TGGGC
3787112 AGATCACATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.15, C:0.30, G:0.40, T:0.15
Consensus pattern (28 bp):
TGGGCTCACACGGGCGTATGGGCCCACA
Found at i:3789074 original size:19 final size:19
Alignment explanation
Indices: 3789050--3789086 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
3789040 TATTTTAAAG
3789050 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
3789069 TTATTTAGGTAGATAAAT
1 TTATTTAGGTAGATAAAT
3789087 ATTAGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:3789173 original size:41 final size:42
Alignment explanation
Indices: 3789115--3789207 Score: 145
Period size: 41 Copynumber: 2.3 Consensus size: 42
3789105 AGATATTCTA
* *
3789115 GGAA-TATTTTATTTTATCTTTTACTAGTTTATTATAATAAG
1 GGAATTATTTTATCTTATCTTTTACTAGTTTATTAGAATAAG
*
3789156 GGAATTATTTT-TCTTATCTTTTAGTAGTTTATTAGAATAAG
1 GGAATTATTTTATCTTATCTTTTACTAGTTTATTAGAATAAG
3789197 GGAATTATTTT
1 GGAATTATTTT
3789208 CCTAATTAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
41 42 0.88
42 6 0.12
ACGTcount: A:0.30, C:0.04, G:0.13, T:0.53
Consensus pattern (42 bp):
GGAATTATTTTATCTTATCTTTTACTAGTTTATTAGAATAAG
Found at i:3793439 original size:100 final size:100
Alignment explanation
Indices: 3793266--3793465 Score: 400
Period size: 100 Copynumber: 2.0 Consensus size: 100
3793256 AGTCTCTAAT
3793266 TTCTTCAATTCTTCGAGGACCTTGTATAATTAAACCAAAAGTTGGTTTATAATCTGCATTGTGCA
1 TTCTTCAATTCTTCGAGGACCTTGTATAATTAAACCAAAAGTTGGTTTATAATCTGCATTGTGCA
3793331 GTCAAAAATTTGGTTGACTTGGTCCCCACTTGGAC
66 GTCAAAAATTTGGTTGACTTGGTCCCCACTTGGAC
3793366 TTCTTCAATTCTTCGAGGACCTTGTATAATTAAACCAAAAGTTGGTTTATAATCTGCATTGTGCA
1 TTCTTCAATTCTTCGAGGACCTTGTATAATTAAACCAAAAGTTGGTTTATAATCTGCATTGTGCA
3793431 GTCAAAAATTTGGTTGACTTGGTCCCCACTTGGAC
66 GTCAAAAATTTGGTTGACTTGGTCCCCACTTGGAC
3793466 GTTTTTGCAA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (100 bp):
TTCTTCAATTCTTCGAGGACCTTGTATAATTAAACCAAAAGTTGGTTTATAATCTGCATTGTGCA
GTCAAAAATTTGGTTGACTTGGTCCCCACTTGGAC
Found at i:3807607 original size:254 final size:254
Alignment explanation
Indices: 3807149--3807653 Score: 920
Period size: 254 Copynumber: 2.0 Consensus size: 254
3807139 TACCGGTACG
* *
3807149 TTTACTCTTTTTGATACTAATGTAATTACTTTGATTGACCCCGGTTCTACTCATTCTTACATATG
1 TTTACACTCTTTGATACTAATGTAATTACTTTGATTGACCCCGGTTCTACTCATTCTTACATATG
3807214 TGAAACCTTAGCATCCAGTAAGACTTTACCTATTGAGTCTACTGAGTTCGTAATTCGGGTGTCAA
66 TGAAACCTTAGCATCCAGTAAGACTTTACCTATTGAGTCTACTGAGTTCGTAATTCGGGTGTCAA
* * * *
3807279 ATCCCTTGGGTCGTTACGTGCTTGTCGACAAAGTGTGTAAGAAATGTCCCCTAGTAATTCGAGGT
131 ACCCCTTGAGTCGTTACGTGCTTGTCGACAAAGTGCGTAAGAAATGTCCCCTAGAAATTCGAGGT
3807344 TCCTGTTTTCCGGCGGACTTGATGCTTTTGCCGTTTGATGAATTTGATGTTATTCTACT
196 TCCTGTTTTCCGGCGGACTTGATGCTTTTGCCGTTTGATGAATTTGATGTTATTCTACT
*
3807403 TTTACACTCTTTGATACTAATGTAATTGCTTTGATTGACCCCGGTTCTACTCATTCTTACATATG
1 TTTACACTCTTTGATACTAATGTAATTACTTTGATTGACCCCGGTTCTACTCATTCTTACATATG
3807468 TGAAACCTTAGCATCCAGTAAGACTTTACCTATTGAGTCTACTGAGTTCGTAATTCGGGTGTCAA
66 TGAAACCTTAGCATCCAGTAAGACTTTACCTATTGAGTCTACTGAGTTCGTAATTCGGGTGTCAA
*
3807533 ACCCCTTGAGTCGTTACGTGCTTGTCGACAAAGTGCGTAAGAAATGTCCCCTAGAAATTTGAGGT
131 ACCCCTTGAGTCGTTACGTGCTTGTCGACAAAGTGCGTAAGAAATGTCCCCTAGAAATTCGAGGT
* *
3807598 TCCTGTTTTCTGGCGGACTTGATGCTTTTGTCGTTTGATGAATTTGATGTTATTCT
196 TCCTGTTTTCCGGCGGACTTGATGCTTTTGCCGTTTGATGAATTTGATGTTATTCT
3807654 TGGTTTGGAT
Statistics
Matches: 241, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
254 241 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (254 bp):
TTTACACTCTTTGATACTAATGTAATTACTTTGATTGACCCCGGTTCTACTCATTCTTACATATG
TGAAACCTTAGCATCCAGTAAGACTTTACCTATTGAGTCTACTGAGTTCGTAATTCGGGTGTCAA
ACCCCTTGAGTCGTTACGTGCTTGTCGACAAAGTGCGTAAGAAATGTCCCCTAGAAATTCGAGGT
TCCTGTTTTCCGGCGGACTTGATGCTTTTGCCGTTTGATGAATTTGATGTTATTCTACT
Found at i:3808361 original size:63 final size:62
Alignment explanation
Indices: 3808288--3808411 Score: 203
Period size: 63 Copynumber: 2.0 Consensus size: 62
3808278 GTTGTGAATT
*
3808288 CGAGATTCGGACATACCCAAAACTGCCTTCAGAACGAGATATGGTCACTACGAATTCTTAGTA
1 CGAGATTCGGACATACCCAAAACTGCCTTCAAAACGAGATATGGTCACTACGAATT-TTAGTA
* * *
3808351 CGAGATTCGGACATACCCAAAACTGCTTTCAAAACGGGATATGGTCACTACGAGTTTTAGT
1 CGAGATTCGGACATACCCAAAACTGCCTTCAAAACGAGATATGGTCACTACGAATTTTAGT
3808412 GATGCCGTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
62 5 0.09
63 52 0.91
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (62 bp):
CGAGATTCGGACATACCCAAAACTGCCTTCAAAACGAGATATGGTCACTACGAATTTTAGTA
Found at i:3809191 original size:78 final size:78
Alignment explanation
Indices: 3809060--3809215 Score: 278
Period size: 78 Copynumber: 2.0 Consensus size: 78
3809050 CCCATGATCT
3809060 TGAACTAGCTGCCATCGTATTTGCTTTAAAAATATGGCGACATTACTTATTTGGTGAAAAGTGCC
1 TGAACTAGCTGCCATCGTATTTGCTTTAAAAATATGGCGACATTACTTATTTGGTGAAAAGTGCC
3809125 ATGTATTTTCGGA
66 ATGTATTTTCGGA
* *
3809138 TGAACTAGCTGCCATCGTATTTGCTTTAAAAATATGGCGACATTA-TCTGTTTGGTGAGAAGTGC
1 TGAACTAGCTGCCATCGTATTTGCTTTAAAAATATGGCGACATTACT-TATTTGGTGAAAAGTGC
3809202 CATGTATTTTCGGA
65 CATGTATTTTCGGA
3809216 CCACAAAAGT
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
77 1 0.01
78 74 0.99
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (78 bp):
TGAACTAGCTGCCATCGTATTTGCTTTAAAAATATGGCGACATTACTTATTTGGTGAAAAGTGCC
ATGTATTTTCGGA
Found at i:3812651 original size:79 final size:81
Alignment explanation
Indices: 3812515--3812699 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
3812505 TTGAATGATG
*
3812515 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
3812579 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
3812594 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
3812656 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
3812674 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
3812700 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:3812713 original size:40 final size:40
Alignment explanation
Indices: 3812516--3812699 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
3812506 TGAATGATGT
* * * *
3812516 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
3812556 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
3812596 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
3812634 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
3812675 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
3812700 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:3812721 original size:79 final size:79
Alignment explanation
Indices: 3812568--3812732 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
3812558 GGACTAAGAT
* **
3812568 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
3812633 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
3812647 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
3812710 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
3812726 CCGAAGG
1 CCGAAGG
3812733 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:3817144 original size:17 final size:17
Alignment explanation
Indices: 3817122--3817154 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3817112 CATTAACATG
*
3817122 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
3817139 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
3817155 GTATCTTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:3827229 original size:13 final size:15
Alignment explanation
Indices: 3827191--3827231 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 15
3827181 CCCTTCCTCC
3827191 CTCTTTCTCCCATTTAT
1 CTCTTTCT--CATTTAT
3827208 CTCTTTCTCATTT-T
1 CTCTTTCTCATTTAT
3827222 CT-TTTCTCAT
1 CTCTTTCTCAT
3827232 CTATTTTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 8 0.33
14 3 0.12
15 5 0.21
17 8 0.33
ACGTcount: A:0.10, C:0.32, G:0.00, T:0.59
Consensus pattern (15 bp):
CTCTTTCTCATTTAT
Found at i:3827735 original size:16 final size:16
Alignment explanation
Indices: 3827714--3827746 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3827704 ATATATTTTG
3827714 ATATGTATGTGAATAT
1 ATATGTATGTGAATAT
3827730 ATATGTATGTGAATAT
1 ATATGTATGTGAATAT
3827746 A
1 A
3827747 CTTGTGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (16 bp):
ATATGTATGTGAATAT
Found at i:3833040 original size:69 final size:69
Alignment explanation
Indices: 3832914--3833420 Score: 396
Period size: 69 Copynumber: 7.4 Consensus size: 69
3832904 TTTTTAGAAT
** * * * * * * * *
3832914 TCTTCGCCCGCGAACCTTGATTTTGCAGCTGGTAGTTTTGCTCTCGCTAACTATTTTGGAGGTTA
1 TCTTCGCCTACGAACCTTGACTTTACAGCTGGGAGCTTTGCTCGCACTAACTATTTTGAAGGTTG
3832979 CGGC
66 CGGC
* * * * * * *
3832983 TCTTGGCCTACGAATCTTGACTTTATAGTTGGGAGCTTTGCTCGCATTAATTATTTTGAAGGCTG
1 TCTTCGCCTACGAACCTTGACTTTACAGCTGGGAGCTTTGCTCGCACTAACTATTTTGAAGGTTG
3833048 CGGC
66 CGGC
* * * * ** * * *
3833052 TCTACAG-CTACGAACCTTGATTTTATAGCTGGGAGATTTGCTTACGCTAACT-GTTTGGAGGTT
1 TCTTC-GCCTACGAACCTTGACTTTACAGCTGGGAGCTTTGCTCGCACTAACTATTTTGAAGGTT
**
3833115 GATGC
65 GCGGC
* * * * ** * *
3833120 TTTTCGCCTACAAACCTTGACTTCACAGCTGGGAGCTTTGCTTGTGCTAATTGTTTTGAAGGTTG
1 TCTTCGCCTACGAACCTTGACTTTACAGCTGGGAGCTTTGCTCGCACTAACTATTTTGAAGGTTG
3833185 CGAG-
66 CG-GC
* * ** * * *
3833189 TCTTTGCCTACGAA-GTTTTCTTTTACAACTGGGAGCTTTGCTCACACTAACTGTTTTGAAGGTT
1 TCTTCGCCTACGAACCTTGAC-TTTACAGCTGGGAGCTTTGCTCGCACTAACTATTTTGAAGGTT
*
3833253 GTGGC
65 GCGGC
* * * * * *
3833258 TCTTTGCCTGCGAACATTG-CTTTTACAGCTGGGAGCTTTGCTCTCACTAATTGTTTT-AGAGGT
1 TCTTCGCCTACGAACCTTGAC-TTTACAGCTGGGAGCTTTGCTCGCACTAACTATTTTGA-AGGT
*
3833321 TGCGGG
64 TGCGGC
** ** *
3833327 TCTTCGCCTGTGAACCTTGACTTTACAATTGGGAGCTTTGCTCTCACTAACTATTTTGAAGGTTG
1 TCTTCGCCTACGAACCTTGACTTTACAGCTGGGAGCTTTGCTCGCACTAACTATTTTGAAGGTTG
3833392 CGGC
66 CGGC
* **
3833396 TCTTCACCTGTGAACCTTGACTTTA
1 TCTTCGCCTACGAACCTTGACTTTA
3833421 TCAACGATAG
Statistics
Matches: 350, Mismatches: 78, Indels: 20
0.78 0.17 0.04
Matches are distributed among these distances:
67 1 0.00
68 56 0.16
69 287 0.82
70 6 0.02
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.37
Consensus pattern (69 bp):
TCTTCGCCTACGAACCTTGACTTTACAGCTGGGAGCTTTGCTCGCACTAACTATTTTGAAGGTTG
CGGC
Found at i:3834792 original size:39 final size:39
Alignment explanation
Indices: 3834740--3834821 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
3834730 AAAGCATACC
*
3834740 TACCTCAAAGCATACCTCTACTTGGTCTCATTATAAACA
1 TACCTCAAAGCATACCTCCACTTGGTCTCATTATAAACA
3834779 TACCTCAAAGCATACCTCCACTTGGTCTCATTATAAACA
1 TACCTCAAAGCATACCTCCACTTGGTCTCATTATAAACA
3834818 TACC
1 TACC
3834822 AAATGGTCGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.29
Consensus pattern (39 bp):
TACCTCAAAGCATACCTCCACTTGGTCTCATTATAAACA
Found at i:3836911 original size:19 final size:19
Alignment explanation
Indices: 3836887--3836926 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
3836877 TAATTTAGAC
3836887 TGTAAAATAATGTACTTTA
1 TGTAAAATAATGTACTTTA
3836906 TGTAAAATAATGTACTTTA
1 TGTAAAATAATGTACTTTA
3836925 TG
1 TG
3836927 CAATTTAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.42
Consensus pattern (19 bp):
TGTAAAATAATGTACTTTA
Found at i:3838046 original size:69 final size:69
Alignment explanation
Indices: 3837935--3838141 Score: 414
Period size: 69 Copynumber: 3.0 Consensus size: 69
3837925 TGTGGCCCCG
3837935 AAGCCATTATTTTCGACACCACTGAAAAATGAGCTATTACGACTCTCCCTCTTACAAAAATTTCG
1 AAGCCATTATTTTCGACACCACTGAAAAATGAGCTATTACGACTCTCCCTCTTACAAAAATTTCG
3838000 TCTT
66 TCTT
3838004 AAGCCATTATTTTCGACACCACTGAAAAATGAGCTATTACGACTCTCCCTCTTACAAAAATTTCG
1 AAGCCATTATTTTCGACACCACTGAAAAATGAGCTATTACGACTCTCCCTCTTACAAAAATTTCG
3838069 TCTT
66 TCTT
3838073 AAGCCATTATTTTCGACACCACTGAAAAATGAGCTATTACGACTCTCCCTCTTACAAAAATTTCG
1 AAGCCATTATTTTCGACACCACTGAAAAATGAGCTATTACGACTCTCCCTCTTACAAAAATTTCG
3838138 TCTT
66 TCTT
3838142 CGAAATTTTT
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 138 1.00
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.32
Consensus pattern (69 bp):
AAGCCATTATTTTCGACACCACTGAAAAATGAGCTATTACGACTCTCCCTCTTACAAAAATTTCG
TCTT
Found at i:3839908 original size:137 final size:138
Alignment explanation
Indices: 3839654--3839922 Score: 328
Period size: 137 Copynumber: 2.0 Consensus size: 138
3839644 TATATGGGTA
* * * * *
3839654 TGCTCACACAAGCTATCGGTCGGAATGTAAGCTACACAATGCTTCTCACACAAGTTGTCGAGTAT
1 TGCTCACACAAGCTACCGGTCGGAATGTAAGCTACACAATACTGCTCACACAAGCTGTCAAGTAT
* * * ** * *
3839719 CTGCAACTAATGTCAGACCTCAGCCATCGGTCGGACATTCAAGACAAACACCCGAAACATGGTAA
66 CTGCAACTAATGCCAGAACTCAGCCACCAATAGGACATTCAAGACAAACACCCAAAACATGGTAA
3839784 CCTTGGTC
131 CCTTGGTC
* * *
3839792 TGCTCACACAAGTTGCCGGTCGGAATGT-AGCTACACGATACTGCTCACACAAGCTGTCAAGTAT
1 TGCTCACACAAGCTACCGGTCGGAATGTAAGCTACACAATACTGCTCACACAAGCTGTCAAGTAT
* * * *
3839856 CTGCAAC-ACATGCCGGAAGTCAGCCACCAATAGGACATT-AAGGACCAGCACCCAAAACATGGT
66 CTGCAACTA-ATGCCAGAACTCAGCCACCAATAGGACATTCAA-GACAAACACCCAAAACATGGT
3839919 AACC
129 AACC
3839923 CTAATGACAC
Statistics
Matches: 110, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
136 3 0.03
137 82 0.75
138 25 0.23
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (138 bp):
TGCTCACACAAGCTACCGGTCGGAATGTAAGCTACACAATACTGCTCACACAAGCTGTCAAGTAT
CTGCAACTAATGCCAGAACTCAGCCACCAATAGGACATTCAAGACAAACACCCAAAACATGGTAA
CCTTGGTC
Found at i:3842021 original size:12 final size:12
Alignment explanation
Indices: 3842001--3842032 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
3841991 CATTCCGAAG
*
3842001 TATATATATATA
1 TATACATATATA
3842013 TATACATATATA
1 TATACATATATA
3842025 TATACATA
1 TATACATA
3842033 AGTATGCCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (12 bp):
TATACATATATA
Found at i:3842563 original size:27 final size:28
Alignment explanation
Indices: 3842479--3842576 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
3842469 CATGAGATTG
* * * *
3842479 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
3842508 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
3842536 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
3842563 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
3842577 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:3842587 original size:27 final size:27
Alignment explanation
Indices: 3842507--3842589 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
3842497 TAAATTGTAC
* *
3842507 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
3842535 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
3842562 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
3842589 A
1 A
3842590 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:3851043 original size:20 final size:20
Alignment explanation
Indices: 3851018--3851070 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
3851008 AAATGTCCGT
3851018 AGGTATCGATACTGACATTA
1 AGGTATCGATACTGACATTA
* *
3851038 AGGTATCGATA-TTACTTTA
1 AGGTATCGATACTGACATTA
3851057 ACTGGTATCGATAC
1 A--GGTATCGATAC
3851071 CACTTGGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 7 0.25
20 11 0.39
21 10 0.36
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (20 bp):
AGGTATCGATACTGACATTA
Found at i:3857336 original size:314 final size:314
Alignment explanation
Indices: 3856767--3857397 Score: 1208
Period size: 314 Copynumber: 2.0 Consensus size: 314
3856757 GGAAAATTAA
3856767 GGTAGGCAAACAAGTTAATATAAGTGCTTCCTATAGTGTTATTATTTTGAGACAAGTTCCTCAGA
1 GGTAGGCAAACAAGTTAATATAAGTGCTTCCTATAGTGTTATTATTTTGAGACAAGTTCCTCAGA
3856832 AATTGAAAGACCATGAAGTTTTACTATTCCCATAGAGATAGAGAGCATTCACTTTTATAAAGCTC
66 AATTGAAAGACCATGAAGTTTTACTATTCCCATAGAGATAGAGAGCATTCACTTTTATAAAGCTC
3856897 TATGTGATGTAGAAGCTAGTATTAATTTATCGCCTTTATCCATTTTTGAATAACTTGGGTTAGGG
131 TATGTGATGTAGAAGCTAGTATTAATTTATCGCCTTTATCCATTTTTGAATAACTTGGGTTAGGG
*
3856962 GACCTCAAAAATACCTAGATAACACTACAGTTGGTCGAAAGATCCTCAGTGCATCCGAAAGGAGT
196 GACCTAAAAAATACCTAGATAACACTACAGTTGGTCGAAAGATCCTCAGTGCATCCGAAAGGAGT
* **
3857027 ATTGGAAGATGTGTTAGCCAAAGTGCGTCGTTTTATCATCCCAACAGATTTTAT
261 ATTGGAAGATATGTTAGCCAAAGTGCGTCACTTTATCATCCCAACAGATTTTAT
3857081 GGTAGGCAAACAAGTTAATATAAGTGCTTCCTATAGTGTTATTATTTTGAGACAAGTTCCTCAGA
1 GGTAGGCAAACAAGTTAATATAAGTGCTTCCTATAGTGTTATTATTTTGAGACAAGTTCCTCAGA
3857146 AATTGAAAGACCATGAAGTTTTACTATTCCCATAGAGATAGAGAGCATTCACTTTTATAAAGCTC
66 AATTGAAAGACCATGAAGTTTTACTATTCCCATAGAGATAGAGAGCATTCACTTTTATAAAGCTC
* *
3857211 TATGTGATGTAGAAGCTAGTCTTAATTTATTGCCTTTATCCATTTTTGAATAACTTGGGTTAGGG
131 TATGTGATGTAGAAGCTAGTATTAATTTATCGCCTTTATCCATTTTTGAATAACTTGGGTTAGGG
3857276 GACCTAAAAAATACCTAGATAACACTACAGTTGGTCGAAAGATCCTCAGTGCATCCGAAAGGAGT
196 GACCTAAAAAATACCTAGATAACACTACAGTTGGTCGAAAGATCCTCAGTGCATCCGAAAGGAGT
3857341 ATTGGAAGATATGTTAGCCAAAGTGCGTCACTTTATCATCCCAACAGATTTTAT
261 ATTGGAAGATATGTTAGCCAAAGTGCGTCACTTTATCATCCCAACAGATTTTAT
3857395 GGT
1 GGT
3857398 TCTGGACTTT
Statistics
Matches: 311, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
314 311 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (314 bp):
GGTAGGCAAACAAGTTAATATAAGTGCTTCCTATAGTGTTATTATTTTGAGACAAGTTCCTCAGA
AATTGAAAGACCATGAAGTTTTACTATTCCCATAGAGATAGAGAGCATTCACTTTTATAAAGCTC
TATGTGATGTAGAAGCTAGTATTAATTTATCGCCTTTATCCATTTTTGAATAACTTGGGTTAGGG
GACCTAAAAAATACCTAGATAACACTACAGTTGGTCGAAAGATCCTCAGTGCATCCGAAAGGAGT
ATTGGAAGATATGTTAGCCAAAGTGCGTCACTTTATCATCCCAACAGATTTTAT
Found at i:3861855 original size:31 final size:31
Alignment explanation
Indices: 3861817--3861878 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
3861807 ATTTTTATTG
* *
3861817 ATTTGTGCCTCTTTTAGTCAACAAGGCATTC
1 ATTTGTGCCACCTTTAGTCAACAAGGCATTC
3861848 ATTTGTGCCACCTTTAGTCAACAAGGCATTC
1 ATTTGTGCCACCTTTAGTCAACAAGGCATTC
3861879 CTCATGACGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.35
Consensus pattern (31 bp):
ATTTGTGCCACCTTTAGTCAACAAGGCATTC
Found at i:3863160 original size:14 final size:14
Alignment explanation
Indices: 3863143--3863171 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3863133 TGTCACTCAT
3863143 ATGCCTAATGTCTC
1 ATGCCTAATGTCTC
3863157 ATGCCTAATGTCTC
1 ATGCCTAATGTCTC
3863171 A
1 A
3863172 CCCTCAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (14 bp):
ATGCCTAATGTCTC
Found at i:3868167 original size:556 final size:555
Alignment explanation
Indices: 3866713--3868679 Score: 3052
Period size: 555 Copynumber: 3.6 Consensus size: 555
3866703 GTCTAAAAAT
*
3866713 TTTAATTTTTGTTCAAATCTAATTTATT-TTTTTCTATTTGTCTATATTTTTGCAGAATAATTAA
1 TTTAATTTTTGTTCAAATCTAATTTATTCTTTTTCTATTTGTCTATATTTTTGCAGAATAATTAG
*
3866777 GCACCATTGTCGACGCACTTGGGTTTTATTGTCAACGTAGTTCGTACTATTGTACTGTCACGTCT
66 GCACCATTGTCGACGCACTTGGGCTTTATTGTCAACGTAGTTCGTACTATTGTACTGTCACGTCT
* *
3866842 GACTCAGCAAAATTGAGGATAGATCAAAAATTTCCA-ATCCTACCGTTTGATCAAAAGCAACCTG
131 GACTCAGCAAAAATGAGGATAGATCAAAAATTT-CAGATCCTACCGTTTGATCAAAAGCAACCTA
* * *
3866906 GCCGTGTGATTTTTCTGAGCGGGCACAATTCTCATTTGGCGTAATTATTCCCGCCAGCTTTATAT
195 GCCGTGTGATTTGTCTGAGCGGGCACAATTCTCATTGGGCATAATTATTCCCGCCAGCTTTATAT
* * * *
3866971 CCCCTCACAGAAATCACGTCTTTCCAGCTTTTTCTTTCACTCACTATAAACCCCTCTTCACTATG
260 CCCTTCACAAAAATCACGTCTTTCCAGCTTCTTCTTTCACTCACTATAAACCCCTCTTCACTGTG
* * * *
3867036 CTAAAGCTGCACTTGGGTAAATTGTGCTCTCATCGGTCTGGACCTTTCAAACTTGTTGAAGTATT
325 CTAAAGCTGCA-TCGGGTAAATTGTGCTCTCGTTGGTCTGGACCTTTCCAACTTGTTGAAGTATT
3867101 TTCTCATGGTGCAGTCACAATCAGAGATTTAAATAATGGACACCAATTCAAAGTGAATGGCCAGC
389 TTCTCATGGTGCAGTCACAATCAGAGATTTAAATAATGGACACCAATTCAAAGTGAATGGCCAGC
* * *
3867166 GATTGAAACATTATCTTGGGTATACTGATCACAAGCAGGTAGAGACCATTAGACTGGTCTAAAAA
454 GATTGAAACATTATCTTGGGAATACTGATCACAAGCAGGTAGAGACCATTAAACTGGTCGAAAAA
3867231 TTTTAATTTTTAGTGAATTTATCATTATGTTATTTTA
519 TTTTAATTTTTAGTGAATTTATCATTATGTTATTTTA
* * *
3867268 TTTCATTTTTGTTCAAATCTGATTTATTCTTTTTCTATTT-TCTATATTTTTGCAAAATAATTAG
1 TTTAATTTTTGTTCAAATCTAATTTATTCTTTTTCTATTTGTCTATATTTTTGCAGAATAATTAG
* * *
3867332 GCACAATTGTCGACGCACTTGGGCTTTATTGTCAACGTAGTTTGTACTATTGTACTGTTACGTCT
66 GCACCATTGTCGACGCACTTGGGCTTTATTGTCAACGTAGTTCGTACTATTGTACTGTCACGTCT
* *
3867397 GACTTAGCAAAAATGAGGATAGATCAAAAATTTCATATCCTACCGTTTGATCAAAAGCAACCTAG
131 GACTCAGCAAAAATGAGGATAGATCAAAAATTTCAGATCCTACCGTTTGATCAAAAGCAACCTAG
* * * *
3867462 CAGTGTGATTTGTCTGAGTGGGCAGAATTCTCATTGGGCATAATTATTCCAGCCAGCTTTATATC
196 CCGTGTGATTTGTCTGAGCGGGCACAATTCTCATTGGGCATAATTATTCCCGCCAGCTTTATATC
* *
3867527 CATTCACAAAAATCACGTCTTTCTAGCTTCTTCTTTCACTCACTATAAACCCCTCTTCACTGTGC
261 CCTTCACAAAAATCACGTCTTTCCAGCTTCTTCTTTCACTCACTATAAACCCCTCTTCACTGTGC
* *
3867592 TAAAGCTGCACCTGGGTAAATTGTGCTCTCGTTGGTCTGGACCTTTCCAACTTGTTGAAGCATTT
326 TAAAGCTGCATC-GGGTAAATTGTGCTCTCGTTGGTCTGGACCTTTCCAACTTGTTGAAGTATTT
*
3867657 TCTCATGGTGCAATCACAATCAGAGATTTAAATAATGGACACCAATTCAAAGTGAATGGCCAGCG
390 TCTCATGGTGCAGTCACAATCAGAGATTTAAATAATGGACACCAATTCAAAGTGAATGGCCAGCG
*
3867722 ATTGAAACATTATCTTGGGAATACTGATCACAAGCAGGTATAGACCATTAAACTGGTCGAAAAAT
455 ATTGAAACATTATCTTGGGAATACTGATCACAAGCAGGTAGAGACCATTAAACTGGTCGAAAAAT
3867787 TTTAATTTTTAGTGAATTTATCATTATGTTATTTTA
520 TTTAATTTTTAGTGAATTTATCATTATGTTATTTTA
*
3867823 TTTAATTTTTGTTCAAATCTAATTTATTCTTTTTCTATTTGTCAATATTTTTGCAGAATAATTAG
1 TTTAATTTTTGTTCAAATCTAATTTATTCTTTTTCTATTTGTCTATATTTTTGCAGAATAATTAG
*
3867888 GCACCATTGTCGACGCACTTGGGCTTTATTGTCAACGTAGTTCGTACTATTGTACTGTCACGTAT
66 GCACCATTGTCGACGCACTTGGGCTTTATTGTCAACGTAGTTCGTACTATTGTACTGTCACGTCT
* * *
3867953 GACTTAGCAAAAATGAGGATAGATCAAAAATTTCAGATCCTATCGTTTGATCAAAAGAAACCTAG
131 GACTCAGCAAAAATGAGGATAGATCAAAAATTTCAGATCCTACCGTTTGATCAAAAGCAACCTAG
* * * *
3868018 CTGTGTGATTTGACTGAGCGGGCACAATTCTCATTGGGCGTAATTATTCCCGCTAGCTTTATATC
196 CCGTGTGATTTGTCTGAGCGGGCACAATTCTCATTGGGCATAATTATTCCCGCCAGCTTTATATC
* *
3868083 CCTTCACAAAAATCACATATTTCCAGCTTCTTCTTTCACTCACTATAAACCCCTCTTCACTGTGC
261 CCTTCACAAAAATCACGTCTTTCCAGCTTCTTCTTTCACTCACTATAAACCCCTCTTCACTGTGC
3868148 TAAAGCTGCATACGGGTAAATTGTGCTCTCGTTGGTCTGGACCTTTCCAACTTGTTGAAGTATTT
326 TAAAGCTGCAT-CGGGTAAATTGTGCTCTCGTTGGTCTGGACCTTTCCAACTTGTTGAAGTATTT
*
3868213 TCTCATGGTGTAGTCACAATCAGAGATTTAAATAATGGACACCAATTCAAAGTGAATGG-C--C-
390 TCTCATGGTGCAGTCACAATCAGAGATTTAAATAATGGACACCAATTCAAAGTGAATGGCCAGCG
3868274 A--G---------C-----AAT--TGA--ACAAGCAGGTAGAGACCATTAAACTGGTCGAAAAAT
455 ATTGAAACATTATCTTGGGAATACTGATCACAAGCAGGTAGAGACCATTAAACTGGTCGAAAAAT
* *
3868319 TTCAATTTTTAGTGAATTTATCATTTTGTTATTTTA
520 TTTAATTTTTAGTGAATTTATCATTATGTTATTTTA
* * * *
3868355 TTTTATTTTTGTTCAAATCTGATTTATTCTTTTTCTATTTGTCTATATATTTGTAGAATAATTAG
1 TTTAATTTTTGTTCAAATCTAATTTATTCTTTTTCTATTTGTCTATATTTTTGCAGAATAATTAG
*
3868420 GCACCATTGTCGACGCACTTGGGCTTTATTGTCAACGTAGTTTGTACTATTGTACTGTCACGTCT
66 GCACCATTGTCGACGCACTTGGGCTTTATTGTCAACGTAGTTCGTACTATTGTACTGTCACGTCT
* * * * * *
3868485 CACTCAGCAAAAATGAAGACAGATTAAAAATTTTAGATCCTATCGTTTGATCAAAAGCAACCTAG
131 GACTCAGCAAAAATGAGGATAGATCAAAAATTTCAGATCCTACCGTTTGATCAAAAGCAACCTAG
* * * * * *
3868550 CCATCTAATTTGTCTAAGCGGGCACAATTCTCATTGGACATAATTATTCCCACCAGCTTTATATC
196 CCGTGTGATTTGTCTGAGCGGGCACAATTCTCATTGGGCATAATTATTCCCGCCAGCTTTATATC
* * * ** *
3868615 CCTTCACAAAAATCATGTCTTTCCATCTTCTTCTTTCAGTCACTATAAACCTTTCTTCATTGTGC
261 CCTTCACAAAAATCACGTCTTTCCAGCTTCTTCTTTCACTCACTATAAACCCCTCTTCACTGTGC
3868680 CGACTGTAAA
Statistics
Matches: 1311, Mismatches: 96, Indels: 33
0.91 0.07 0.02
Matches are distributed among these distances:
532 362 0.28
534 3 0.00
536 3 0.00
541 1 0.00
550 1 0.00
552 1 0.00
553 1 0.00
554 2 0.00
555 543 0.41
556 393 0.30
557 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (555 bp):
TTTAATTTTTGTTCAAATCTAATTTATTCTTTTTCTATTTGTCTATATTTTTGCAGAATAATTAG
GCACCATTGTCGACGCACTTGGGCTTTATTGTCAACGTAGTTCGTACTATTGTACTGTCACGTCT
GACTCAGCAAAAATGAGGATAGATCAAAAATTTCAGATCCTACCGTTTGATCAAAAGCAACCTAG
CCGTGTGATTTGTCTGAGCGGGCACAATTCTCATTGGGCATAATTATTCCCGCCAGCTTTATATC
CCTTCACAAAAATCACGTCTTTCCAGCTTCTTCTTTCACTCACTATAAACCCCTCTTCACTGTGC
TAAAGCTGCATCGGGTAAATTGTGCTCTCGTTGGTCTGGACCTTTCCAACTTGTTGAAGTATTTT
CTCATGGTGCAGTCACAATCAGAGATTTAAATAATGGACACCAATTCAAAGTGAATGGCCAGCGA
TTGAAACATTATCTTGGGAATACTGATCACAAGCAGGTAGAGACCATTAAACTGGTCGAAAAATT
TTAATTTTTAGTGAATTTATCATTATGTTATTTTA
Found at i:3870672 original size:16 final size:16
Alignment explanation
Indices: 3870651--3870681 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3870641 GTTAGTGCAC
*
3870651 ATTGTCATTGCATTTT
1 ATTGTCATCGCATTTT
3870667 ATTGTCATCGCATTT
1 ATTGTCATCGCATTT
3870682 AATGTTAGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.16, G:0.13, T:0.52
Consensus pattern (16 bp):
ATTGTCATCGCATTTT
Found at i:3878147 original size:21 final size:20
Alignment explanation
Indices: 3878104--3878147 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3878094 TTTTTATGGA
*
3878104 TTTTTTTTAAAACATGGTCT
1 TTTTTTTTAAAACAAGGTCT
3878124 TTTTTTTTAAAACCAAGGT-T
1 TTTTTTTTAAAA-CAAGGTCT
3878144 TTTT
1 TTTT
3878148 GTAAATAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.57
Consensus pattern (20 bp):
TTTTTTTTAAAACAAGGTCT
Found at i:3891385 original size:70 final size:70
Alignment explanation
Indices: 3891272--3891411 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
3891262 ACACGTTGTT
*
3891272 TAGAAGTTGCTGTCTACTCAGAACAGCATTAGGTAATTTCGTAACCCTTTTCACCCCGATTCGTT
1 TAGAAGTTACTGTCTACTCAGAACAGCATTAGGTAATTTCGTAACCCTTTTCACCCCGATTCGTT
3891337 CCTCA
66 CCTCA
3891342 TAGAAGTTACTGTCTACTCAGAACAGCATTAGGTAATTTCGTAACCCTTTTCACCCCGATTCGTT
1 TAGAAGTTACTGTCTACTCAGAACAGCATTAGGTAATTTCGTAACCCTTTTCACCCCGATTCGTT
3891407 CCTCA
66 CCTCA
3891412 CACATGGATC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (70 bp):
TAGAAGTTACTGTCTACTCAGAACAGCATTAGGTAATTTCGTAACCCTTTTCACCCCGATTCGTT
CCTCA
Found at i:3911907 original size:51 final size:52
Alignment explanation
Indices: 3911775--3912468 Score: 690
Period size: 51 Copynumber: 13.6 Consensus size: 52
3911765 TATCATTCGA
* * *
3911775 TACATGTAGTAGCCTTCACATAGTACTACACATGTGATC-AAGTTTTA-CGG
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTATCGG
* *
3911825 TTCACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCATT-TCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTATCGG
* * * *
3911876 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACC--ATCATTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGC-TTTATCGG
* * * *
3911927 TTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGC-TTCTCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTATCGG
* * * * * *
3911978 TACACATTGTAGCCTTCACTTAGGACTACACATGTGACCATTA--TTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCA-AAGCTTTATCGG
* * *
3912029 TACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGC-TTCTCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTATCGG
* * * * * *
3912080 TACACATTGTAGCCTTCACTTAGGACTACACATGTGACCATTA--TTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCA-AAGCTTTATCGG
* * *
3912131 TACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGC-TTCTCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTATCGG
* * * * * *
3912182 TACACATTGTAGCCTTCACTTAGGACTACACATGTGACCATTA--TTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCA-AAGCTTTATCGG
* * *
3912233 TACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGC-TTCTCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTATCGG
* * * * * *
3912284 TACACATTGTAGCCTTCACTTAGGACTACACATGTGACCATTA--TTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCA-AAGCTTTATCGG
* * *
3912335 TACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGC-TTCTCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTATCGG
* * * * * *
3912386 TACACATTGTAGCCTTCACTTAGGACTACACATGTGACCATTA--TTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCA-AAGCTTTATCGG
*
3912437 TACACGTAGTAGCCTTCACACAGTACTACACA
1 TACACGTAGTAGCCTTCACATAGTACTACACA
3912469 CGTATTCATC
Statistics
Matches: 514, Mismatches: 106, Indels: 47
0.77 0.16 0.07
Matches are distributed among these distances:
49 2 0.00
50 42 0.08
51 463 0.90
52 5 0.01
53 2 0.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (52 bp):
TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTATCGG
Found at i:3911964 original size:102 final size:102
Alignment explanation
Indices: 3911783--3912471 Score: 1231
Period size: 102 Copynumber: 6.8 Consensus size: 102
3911773 GATACATGTA
* * * * * * *
3911783 GTAGCCTTCACATAGTACTACACATGTGATCAAGT-TTTA-CGGTTCACGTAGTAGCCTTCACAT
1 GTAGCCTTCACTTAGGACTACACATGTGA-CCATTATTTATCGATACACGTAGTAGCCTTCACAC
* *
3911846 AGTACTACACATGTGACCAAAGCATT-TCGGTACACATA
65 AGTACTACACACGTGACCAAAGC-TTCTCGGTACACATT
* * *
3911884 GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACACA
1 GTAGCCTTCACTTAGGACTACACATGTGACCATTATTTATCGATACACGTAGTAGCCTTCACACA
3911949 GTACTACACACGTGACCAAAGCTTCTCGGTACACATT
66 GTACTACACACGTGACCAAAGCTTCTCGGTACACATT
3911986 GTAGCCTTCACTTAGGACTACACATGTGACCATTATTTATCGATACACGTAGTAGCCTTCACACA
1 GTAGCCTTCACTTAGGACTACACATGTGACCATTATTTATCGATACACGTAGTAGCCTTCACACA
3912051 GTACTACACACGTGACCAAAGCTTCTCGGTACACATT
66 GTACTACACACGTGACCAAAGCTTCTCGGTACACATT
3912088 GTAGCCTTCACTTAGGACTACACATGTGACCATTATTTATCGATACACGTAGTAGCCTTCACACA
1 GTAGCCTTCACTTAGGACTACACATGTGACCATTATTTATCGATACACGTAGTAGCCTTCACACA
3912153 GTACTACACACGTGACCAAAGCTTCTCGGTACACATT
66 GTACTACACACGTGACCAAAGCTTCTCGGTACACATT
3912190 GTAGCCTTCACTTAGGACTACACATGTGACCATTATTTATCGATACACGTAGTAGCCTTCACACA
1 GTAGCCTTCACTTAGGACTACACATGTGACCATTATTTATCGATACACGTAGTAGCCTTCACACA
3912255 GTACTACACACGTGACCAAAGCTTCTCGGTACACATT
66 GTACTACACACGTGACCAAAGCTTCTCGGTACACATT
3912292 GTAGCCTTCACTTAGGACTACACATGTGACCATTATTTATCGATACACGTAGTAGCCTTCACACA
1 GTAGCCTTCACTTAGGACTACACATGTGACCATTATTTATCGATACACGTAGTAGCCTTCACACA
3912357 GTACTACACACGTGACCAAAGCTTCTCGGTACACATT
66 GTACTACACACGTGACCAAAGCTTCTCGGTACACATT
3912394 GTAGCCTTCACTTAGGACTACACATGTGACCATTATTTATCGATACACGTAGTAGCCTTCACACA
1 GTAGCCTTCACTTAGGACTACACATGTGACCATTATTTATCGATACACGTAGTAGCCTTCACACA
3912459 GTACTACACACGT
66 GTACTACACACGT
3912472 ATTCATCGAT
Statistics
Matches: 574, Mismatches: 11, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
100 2 0.00
101 34 0.06
102 538 0.94
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (102 bp):
GTAGCCTTCACTTAGGACTACACATGTGACCATTATTTATCGATACACGTAGTAGCCTTCACACA
GTACTACACACGTGACCAAAGCTTCTCGGTACACATT
Found at i:3912990 original size:30 final size:31
Alignment explanation
Indices: 3912942--3913000 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
3912932 GCTTTGACTC
3912942 AACTTTTGTCAAAATTACAATTTTGTCCCTA
1 AACTTTTGTCAAAATTACAATTTTGTCCCTA
* *
3912973 AACTTTTG-CATAATTACATTTTTGTCCC
1 AACTTTTGTCAAAATTACAATTTTGTCCC
3913001 CAATCTCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.44
Consensus pattern (31 bp):
AACTTTTGTCAAAATTACAATTTTGTCCCTA
Found at i:3916247 original size:16 final size:15
Alignment explanation
Indices: 3916214--3916255 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
3916204 AGATAATAAT
3916214 TATTAATATATAATTA
1 TATTAAT-TATAATTA
*
3916230 TATTCATTATAATATA
1 TATTAATTATAAT-TA
3916246 TATTAATTAT
1 TATTAATTAT
3916256 TATCAACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:3923387 original size:47 final size:47
Alignment explanation
Indices: 3923336--3923567 Score: 104
Period size: 47 Copynumber: 5.1 Consensus size: 47
3923326 TACTACATTT
3923336 ACCATAATGTTCACATACCACTCTCTTACTCAACAAATACCATCATG
1 ACCATAATGTTCACATACCACTCTCTTACTCAACAAATACCATCATG
** * * * *
3923383 ACC---AT-TTC-CATATTTA-TCATC-CACCTTAACAAATTTATCA-AAT-
1 ACCATAATGTTCACATA-CCACTC-TCTTA-CTCAACAAA--TACCATCATG
* *
3923426 ACCATAATGTTCATATCCCACTCTCTTACTCAACAAATACCATCATG
1 ACCATAATGTTCACATACCACTCTCTTACTCAACAAATACCATCATG
** * * * *
3923473 ACC---AT-TTC-CATATTTA-TCATC-CACCTTAACAAATTTATCA-AAT-
1 ACCATAATGTTCACATA-CCACTC-TCTTA-CTCAACAAA--TACCATCATG
* *
3923516 ACCATAATGTTCATATCCCACTCTCTTACTCAACAAATACCATCATG
1 ACCATAATGTTCACATACCACTCTCTTACTCAACAAATACCATCATG
3923563 ACCAT
1 ACCAT
3923568 TTCCATATTT
Statistics
Matches: 127, Mismatches: 30, Indels: 56
0.60 0.14 0.26
Matches are distributed among these distances:
42 12 0.09
43 34 0.27
44 8 0.06
45 16 0.13
46 8 0.06
47 39 0.31
48 10 0.08
ACGTcount: A:0.36, C:0.30, G:0.03, T:0.32
Consensus pattern (47 bp):
ACCATAATGTTCACATACCACTCTCTTACTCAACAAATACCATCATG
Found at i:3923488 original size:90 final size:90
Alignment explanation
Indices: 3923335--3923604 Score: 522
Period size: 90 Copynumber: 3.0 Consensus size: 90
3923325 ATACTACATT
* *
3923335 TACCATAATGTTCACATACCACTCTCTTACTCAACAAATACCATCATGACCATTTCCATATTTAT
1 TACCATAATGTTCATATCCCACTCTCTTACTCAACAAATACCATCATGACCATTTCCATATTTAT
3923400 CATCCACCTTAACAAATTTATCAAA
66 CATCCACCTTAACAAATTTATCAAA
3923425 TACCATAATGTTCATATCCCACTCTCTTACTCAACAAATACCATCATGACCATTTCCATATTTAT
1 TACCATAATGTTCATATCCCACTCTCTTACTCAACAAATACCATCATGACCATTTCCATATTTAT
3923490 CATCCACCTTAACAAATTTATCAAA
66 CATCCACCTTAACAAATTTATCAAA
3923515 TACCATAATGTTCATATCCCACTCTCTTACTCAACAAATACCATCATGACCATTTCCATATTTAT
1 TACCATAATGTTCATATCCCACTCTCTTACTCAACAAATACCATCATGACCATTTCCATATTTAT
3923580 CATCCACCTTAACAAATTTATCAAA
66 CATCCACCTTAACAAATTTATCAAA
3923605 GGCAAAATAC
Statistics
Matches: 178, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 178 1.00
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (90 bp):
TACCATAATGTTCATATCCCACTCTCTTACTCAACAAATACCATCATGACCATTTCCATATTTAT
CATCCACCTTAACAAATTTATCAAA
Found at i:3928946 original size:8 final size:8
Alignment explanation
Indices: 3928933--3928966 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
3928923 TTTATGGTAA
*
3928933 AATTTTTG
1 AATTTGTG
*
3928941 AATTTTTG
1 AATTTGTG
3928949 AATTTGTG
1 AATTTGTG
3928957 AATTTGTG
1 AATTTGTG
3928965 AA
1 AA
3928967 ATATGTAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (8 bp):
AATTTGTG
Found at i:3929506 original size:25 final size:24
Alignment explanation
Indices: 3929469--3929565 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 24
3929459 GACACACCAA
*
3929469 AGCTCGT-ATGAGCTTACCGATTTGC
1 AGCTCGTGA-GAGCTTACCAATTT-C
*
3929494 AGCTCATGAGAGCTTACCAATTCTC
1 AGCTCGTGAGAGCTTACCAATT-TC
*
3929519 AGCTCGT-ATGAGCTTACCAATTTAT
1 AGCTCGTGA-GAGCTTACCAATTT-C
* *
3929544 AGCTCGTGAGAGCATACTAATT
1 AGCTCGTGAGAGCTTACCAATT
3929566 CATAGCTCGT
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
24 2 0.03
25 56 0.92
26 3 0.05
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (24 bp):
AGCTCGTGAGAGCTTACCAATTTC
Found at i:3929534 original size:50 final size:50
Alignment explanation
Indices: 3929469--3929581 Score: 156
Period size: 50 Copynumber: 2.3 Consensus size: 50
3929459 GACACACCAA
* * *
3929469 AGCTCGTATGAGCTTACCGATTTGCAGCTCATGAGAGCTTACCAATTC-T
1 AGCTCGTATGAGCTTACCAATTTACAGCTCATGAGAGCATACCAATTCAT
* * *
3929518 CAGCTCGTATGAGCTTACCAATTTATAGCTCGTGAGAGCATACTAATTCAT
1 -AGCTCGTATGAGCTTACCAATTTACAGCTCATGAGAGCATACCAATTCAT
3929569 AGCTCGTATGAGC
1 AGCTCGTATGAGC
3929582 ATACATGTAC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 55 0.98
51 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (50 bp):
AGCTCGTATGAGCTTACCAATTTACAGCTCATGAGAGCATACCAATTCAT
Found at i:3929570 original size:25 final size:25
Alignment explanation
Indices: 3929503--3929585 Score: 98
Period size: 25 Copynumber: 3.3 Consensus size: 25
3929493 CAGCTCATGA
*
3929503 GAGCTTACCAATTC-TCAGCTCGTAT
1 GAGCATACCAATTCAT-AGCTCGTAT
* *
3929528 GAGCTTACCAATTTATAGCTCGTGA-
1 GAGCATACCAATTCATAGCTCGT-AT
*
3929553 GAGCATACTAATTCATAGCTCGTAT
1 GAGCATACCAATTCATAGCTCGTAT
3929578 GAGCATAC
1 GAGCATAC
3929586 ATGTACAAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
24 1 0.02
25 48 0.94
26 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (25 bp):
GAGCATACCAATTCATAGCTCGTAT
Found at i:3932539 original size:137 final size:138
Alignment explanation
Indices: 3932285--3932552 Score: 335
Period size: 137 Copynumber: 1.9 Consensus size: 138
3932275 AAAATGGGCA
* * * * *
3932285 TGCTCACCCAAGCTGTCAGTCGGAATGTAAGCTACACGATGCTGCTCACACAAGCTGTCTAGTAT
1 TGCTCACACAAGCTATCAGTCGGAACGTAAGCTACACGATACTGCTCACACAAGCTGTCGAGTAT
* * * * * * *
3932350 ACGCAACTAATGCCAGACCTCAACCATCGGTAGGACATTTTAGACCAACACCCGAAACATGGTAA
66 ACGCAACTAATGCCAGAACTCAACCACCGATAAGACAGTTTAGACCAACACCCAAAACATAGTAA
3932415 CCAAGGTC
131 CCAAGGTC
* * *
3932423 TGCTCACACAAGCTATCAGTTGGAACGT-AGCTACATGGTACTGCTCACACAAGCTGTCGAGTAT
1 TGCTCACACAAGCTATCAGTCGGAACGTAAGCTACACGATACTGCTCACACAAGCTGTCGAGTAT
* * *
3932487 CCGCAAC-ACATGCCAGAACTCAAGCACCGATAAGAC-GTTTAGAGCCAGCACCCAAAACATAGT
66 ACGCAACTA-ATGCCAGAACTCAACCACCGATAAGACAGTTTAGA-CCAACACCCAAAACATAGT
3932550 AAC
129 AAC
3932553 ATTAATGACA
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
136 7 0.06
137 79 0.72
138 24 0.22
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.19
Consensus pattern (138 bp):
TGCTCACACAAGCTATCAGTCGGAACGTAAGCTACACGATACTGCTCACACAAGCTGTCGAGTAT
ACGCAACTAATGCCAGAACTCAACCACCGATAAGACAGTTTAGACCAACACCCAAAACATAGTAA
CCAAGGTC
Found at i:3932716 original size:15 final size:16
Alignment explanation
Indices: 3932698--3932729 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3932688 TAATAAAATC
3932698 ATATAAT-AACATTAT
1 ATATAATCAACATTAT
3932713 ATATAATCAACATTAT
1 ATATAATCAACATTAT
3932729 A
1 A
3932730 CATAGTACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAATCAACATTAT
Found at i:3942350 original size:21 final size:20
Alignment explanation
Indices: 3942324--3942363 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
3942314 AAAACACAAG
3942324 TTGAAATAAACAGATTTAATT
1 TTGAAA-AAACAGATTTAATT
* *
3942345 TTGAAAACACATATTTAAT
1 TTGAAAAAACAGATTTAAT
3942364 ATTTCTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (20 bp):
TTGAAAAAACAGATTTAATT
Found at i:3943057 original size:21 final size:22
Alignment explanation
Indices: 3943009--3943059 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
3942999 TTGACATGCC
*
3943009 ACCACTGATTTGCAGATAAACT
1 ACCACTGAATTGCAGATAAACT
**
3943031 GTCACT-AATTGCAGATAAACT
1 ACCACTGAATTGCAGATAAACT
3943052 ACCACTGA
1 ACCACTGA
3943060 TAGCACTGAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (22 bp):
ACCACTGAATTGCAGATAAACT
Found at i:3955898 original size:40 final size:40
Alignment explanation
Indices: 3955854--3956035 Score: 179
Period size: 40 Copynumber: 4.6 Consensus size: 40
3955844 AAGTGAATAT
* * *
3955854 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGAGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGAGAGATACTAA
* * *
3955894 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGAGAGATACTAA
* * ** *
3955934 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTGA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGAGAGATACTAA
* * * *
3955974 ATCCGGGTTATGTCCCGAAGGCAGT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGAGAGATACTAA
* * *
3956013 AACCGGGCTATGTCCCGAAGGCA
1 ATCCGGGTTAAGTCCCGAAGGCA
3956036 CTTGAACGAG
Statistics
Matches: 125, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 32 0.26
40 93 0.74
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGAGAGATACTAA
Found at i:3955952 original size:80 final size:79
Alignment explanation
Indices: 3955815--3956035 Score: 219
Period size: 80 Copynumber: 2.8 Consensus size: 79
3955805 TTGAATGCTG
* * * * * * *
3955815 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGTTAAG-TCCCGAAGGCATT
*
3955879 TGTGAGAGATACTAAA
64 CGTGAGAGATACTAAA
*
3955895 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGTTAAGTCCCGAAGGCATTC
* * ** *
3955960 GTGCGAGTTGTTGAA
65 GTGAGAGATACTAAA
* * * * * * *
3955975 TCCGGGTTATGTCCCGAAGGCAGTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGTTAAGTCCCGAAGGCA
3956036 CTTGAACGAG
Statistics
Matches: 118, Mismatches: 21, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
79 33 0.28
80 81 0.69
81 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGAGAGATACTAAA
Found at i:3956057 original size:79 final size:80
Alignment explanation
Indices: 3955893--3956072 Score: 188
Period size: 79 Copynumber: 2.3 Consensus size: 80
3955883 AGAGATACTA
* * * *
3955893 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAT
1 AATCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** ** *
3955958 TCGTGCGAGTTGTTG
66 TCGAACGAGGAGCTG
* * *
3955973 AATCCGGGTTATGTCCCGAAGGCAGT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCAC
1 AATCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCA-
3956037 TT-GAACGAGGAGCT-
65 TTCGAACGAGGAGCTG
* *
3956051 ATATCC-GGTTAAATTCCGAAGG
1 A-ATCCGGGTTAAGTCCCGAAGG
3956073 TACGTGATTT
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
78 14 0.17
79 43 0.52
80 26 0.31
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
AATCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
TCGAACGAGGAGCTG
Found at i:3958361 original size:5 final size:6
Alignment explanation
Indices: 3958328--3958366 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
3958318 ACCAATTTAG
*
3958328 TTTATT TTTATT TGTAATGT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT T-TTAT-T TTTATT TTTATT TTTATT T
3958367 GAATTCCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 21 0.72
7 6 0.21
8 2 0.07
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:3958399 original size:3 final size:3
Alignment explanation
Indices: 3958391--3958424 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
3958381 TTTTTAATCC
3958391 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
3958425 CATTCTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:3963582 original size:8 final size:8
Alignment explanation
Indices: 3963569--3963633 Score: 53
Period size: 9 Copynumber: 7.5 Consensus size: 8
3963559 GATCCAATTC
3963569 AAAAAAAT
1 AAAAAAAT
3963577 AAAAAAA-
1 AAAAAAAT
3963584 AAACAAAAT
1 AAA-AAAAT
3963593 CAAAAAGACA-
1 -AAAAA-A-AT
3963603 AAAAAGAAT
1 AAAAA-AAT
3963612 AAAAAAAT
1 AAAAAAAT
3963620 CAAAAAAAT
1 -AAAAAAAT
3963629 CAAAA
1 -AAAA
3963634 TCAAAATCAA
Statistics
Matches: 50, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
7 3 0.06
8 15 0.30
9 27 0.54
10 4 0.08
11 1 0.02
ACGTcount: A:0.82, C:0.08, G:0.03, T:0.08
Consensus pattern (8 bp):
AAAAAAAT
Found at i:3963639 original size:34 final size:31
Alignment explanation
Indices: 3963567--3963673 Score: 90
Period size: 34 Copynumber: 3.2 Consensus size: 31
3963557 CAGATCCAAT
*
3963567 TCAAAAAAATAAAAAAAA-AACAAAATCAAAAA
1 TCAAAAAAA-AAAAAAAACAAAAAAATC-AAAA
*
3963599 GACAAAAAAGAATAAAAAAATCAAAAAAATCAAAA
1 -TCAAAAAA-AA-AAAAAAA-CAAAAAAATCAAAA
* *
3963634 TCAAAATCAAAAACAAAAAAGAAAAAAATCAAAG
1 TCAAAA--AAAAA-AAAAAACAAAAAAATCAAAA
3963668 TCAAAA
1 TCAAAA
3963674 GCGAAAAAAG
Statistics
Matches: 62, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
33 8 0.13
34 32 0.52
35 12 0.19
36 10 0.16
ACGTcount: A:0.77, C:0.10, G:0.04, T:0.09
Consensus pattern (31 bp):
TCAAAAAAAAAAAAAAACAAAAAAATCAAAA
Found at i:3963659 original size:43 final size:42
Alignment explanation
Indices: 3963569--3963666 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 42
3963559 GATCCAATTC
* * * * *
3963569 AAAAAAATAAAAAAAAAACAAAATCAAAAAGACAAAAAAGAAT
1 AAAAAAAT-CAAAAAAAACAAAATCAAAAACAAAAAAAAAAAG
* *
3963612 AAAAAAATCAAAAAAATCAAAATCAAAATCAAAAACAAAAAAG
1 AAAAAAATCAAAAAAAACAAAATCAAAAACAAAAA-AAAAAAG
3963655 AAAAAAATCAAA
1 AAAAAAATCAAA
3963667 GTCAAAAGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 22 0.47
43 25 0.53
ACGTcount: A:0.80, C:0.09, G:0.03, T:0.08
Consensus pattern (42 bp):
AAAAAAATCAAAAAAAACAAAATCAAAAACAAAAAAAAAAAG
Found at i:3963681 original size:29 final size:28
Alignment explanation
Indices: 3963630--3963702 Score: 92
Period size: 29 Copynumber: 2.6 Consensus size: 28
3963620 CAAAAAAATC
3963630 AAAATCAAAATCAAAAACAAAAAAGAAA
1 AAAATCAAAATCAAAAACAAAAAAGAAA
* *
3963658 AAAATCAAAGTCAAAAGCGAAAAAAGAAA
1 AAAATCAAAATCAAAAAC-AAAAAAGAAA
** *
3963687 TCAATCAAATTCAAAA
1 AAAATCAAAATCAAAA
3963703 TAAAAATATG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 16 0.41
29 23 0.59
ACGTcount: A:0.70, C:0.12, G:0.07, T:0.11
Consensus pattern (28 bp):
AAAATCAAAATCAAAAACAAAAAAGAAA
Found at i:3964614 original size:7 final size:7
Alignment explanation
Indices: 3964602--3964656 Score: 103
Period size: 7 Copynumber: 8.0 Consensus size: 7
3964592 AAAAAAAGGG
3964602 ATGAAAA
1 ATGAAAA
3964609 ATGAAAA
1 ATGAAAA
3964616 ATGAAAA
1 ATGAAAA
3964623 ATGAAAA
1 ATGAAAA
3964630 ATGAAAA
1 ATGAAAA
3964637 ATG-AAA
1 ATGAAAA
3964643 ATGAAAA
1 ATGAAAA
3964650 ATGAAAA
1 ATGAAAA
3964657 GTAATGACGA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.13
7 41 0.87
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
ATGAAAA
Found at i:3964626 original size:21 final size:20
Alignment explanation
Indices: 3964602--3964656 Score: 101
Period size: 20 Copynumber: 2.7 Consensus size: 20
3964592 AAAAAAAGGG
3964602 ATGAAAAATGAAAAATGAAAA
1 ATGAAAAATGAAAAATG-AAA
3964623 ATGAAAAATGAAAAATGAAA
1 ATGAAAAATGAAAAATGAAA
3964643 ATGAAAAATGAAAA
1 ATGAAAAATGAAAA
3964657 GTAATGACGA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 17 0.50
21 17 0.50
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (20 bp):
ATGAAAAATGAAAAATGAAA
Found at i:3966028 original size:87 final size:87
Alignment explanation
Indices: 3965882--3966278 Score: 470
Period size: 88 Copynumber: 4.5 Consensus size: 87
3965872 CAGATCAGTG
* * * * *
3965882 AAGATAGCAGATCTTGCCTTCTTGCATTGACAGCGAAGCGGATCAAAAATAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCCA
* *
3965947 TCGGTTGCAGTGGATCTGGTTA
66 TCGGTTGCAGTGGAGCAGGTTA
* * * *
3965969 AAGATAGCAGATATTGCCTTCCTACATTGACAGCAAAACAGATCGAAAACAAAACCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCCA
* * *
3966034 CCGGTTGTAGTGGAGCGGGTTA
66 TCGGTTGCAGTGGAGCAGGTTA
* * * **
3966056 AAGATAGCAGATCTTGCCTTCCTGCATAGACAACGAAGCAGATCGAAGACCCCAACCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAA-AACAAAACCTTGCCTCC
* *
3966121 ATAGGTTGCAGTGGAGCAAGTTA
65 ATCGGTTGCAGTGGAGCAGGTTA
* * * * * * *
3966144 AAGATAGCAGATCTTGCCTTCTTGCACTCACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACA-AAACCTTGCCTCC
* * *
3966209 CTCGGTTGCAGTGGAGCAGTTTG
65 ATCGGTTGCAGTGGAGCAGGTTA
* * *
3966232 AAGATAGCATATCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAA
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAA
3966279 GATTACAAGT
Statistics
Matches: 262, Mismatches: 46, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
87 116 0.44
88 146 0.56
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (87 bp):
AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCCA
TCGGTTGCAGTGGAGCAGGTTA
Found at i:3966278 original size:176 final size:176
Alignment explanation
Indices: 3965880--3966280 Score: 479
Period size: 175 Copynumber: 2.3 Consensus size: 176
3965870 AACAGATCAG
* * * *
3965880 TGAAGATAGCAGATCTTGCCTTCTTGCATTGACAGCGAAGCGGATC-AA-AAATAAAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGAAACAAAGCCTTGCC
* * ** * *
3965943 TCCATCGGTTGCAGTGGATCTGGTTAAAGATAGCAGATATTGCCTTCCTACATTGACAGCAAAAC
66 TCCATAGGTTGCAGTGGAGCAAGTTAAAGATAGCAGATATTGCCTTCCTACACTCACAGCAAAAC
* *
3966008 AGATCGAAAACAAAACCTTGCCTCCACCGGTTGTAGTGGAGCGGGT
131 AGATCGAAAACAAAACCTTGCCTCCACCGGTTGCAGTGGAGCAGGT
* * ** *
3966054 TAAAGATAGCAGATCTTGCCTTCCTGCA-TAGACAACGAAGCAGATCGAAGACCCCAA-CCTTGC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATTA-ACAGCGAAGCAGATCGAAGAAACAAAGCCTTGC
* * * ** *
3966117 CTCCATAGGTTGCAGTGGAGCAAGTTAAAGATAGCAGATCTTGCCTTCTTGCACTCACAGTGAAG
65 CTCCATAGGTTGCAGTGGAGCAAGTTAAAGATAGCAGATATTGCCTTCCTACACTCACAGCAAAA
* * * *
3966182 CAGATCGAAGACACCAGCCTTGCCTCC-CTCGGTTGCAGTGGAGCAGTT
130 CAGATCGAAAACA-AAACCTTGCCTCCAC-CGGTTGCAGTGGAGCAGGT
* *
3966230 TGAAGATAGCATATCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAGA
1 TGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGA
3966281 TTACAAGTCC
Statistics
Matches: 190, Mismatches: 31, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
173 1 0.01
174 39 0.21
175 74 0.39
176 74 0.39
177 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (176 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGAAACAAAGCCTTGCC
TCCATAGGTTGCAGTGGAGCAAGTTAAAGATAGCAGATATTGCCTTCCTACACTCACAGCAAAAC
AGATCGAAAACAAAACCTTGCCTCCACCGGTTGCAGTGGAGCAGGT
Found at i:3966646 original size:50 final size:50
Alignment explanation
Indices: 3966564--3966812 Score: 169
Period size: 50 Copynumber: 5.0 Consensus size: 50
3966554 CCAGGCAATA
* * * * * * * *
3966564 CAGTGGAACAGATTAAAGTCACATCGGTGAATCTTGCTTCCCCGACATTG
1 CAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTACTTCCCAGACATTG
* * * * *
3966614 TAGTTAAAAAGATTAACGCTACAACAGCGAATCTTAC-TCCTCAGGCGA-TG
1 CAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTACTTCC-CAGAC-ATTG
* * * * * * *
3966664 CAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTG
1 CAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTACTTCCCAGACATTG
* * * * *
3966714 CAGTTAAAAAGACTAAAGCCACAACGGCGAATATTACTCTCCCAGACAGTG
1 CAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTACT-TCCCAGACATTG
* * * * * * *
3966765 CAGTGGAACAGATTGAAGCTACAACAGCAAATCTCACTTCCCTGACAT
1 CAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTACTTCCCAGACAT
3966813 CACAGTTAAG
Statistics
Matches: 147, Mismatches: 47, Indels: 10
0.72 0.23 0.05
Matches are distributed among these distances:
49 4 0.03
50 101 0.69
51 42 0.29
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.22
Consensus pattern (50 bp):
CAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTACTTCCCAGACATTG
Found at i:3966738 original size:100 final size:99
Alignment explanation
Indices: 3966543--3966783 Score: 338
Period size: 100 Copynumber: 2.4 Consensus size: 99
3966533 AAAATTACAT
* *
3966543 ATCTTATCTCCCCAGGCAATACAGTGGAACAGATTAAAGTCACATCGGTGAATCTTGCTTCCCCG
1 ATCTTA-CTCCCCAGGC-ATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * * *
3966608 ACATTGTAGTTAAAAAGATTAACGCTACAACAGCGA
64 ACATTGCAGTTAAAAAGACTAAAGCCACAACAGCGA
*
3966644 ATCTTACTCCTCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
1 ATCTTACTCCCCAGGC-ATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
*
3966709 CATTGCAGTTAAAAAGACTAAAGCCACAACGGCGA
65 CATTGCAGTTAAAAAGACTAAAGCCACAACAGCGA
* * *
3966744 ATATTACTCTCCCAGACAGTGCAGTGGAACAGATTGAAGC
1 ATCTTACTC-CCCAGGCA-TGCAGTGGAACAGATTAAAGC
3966784 TACAACAGCA
Statistics
Matches: 125, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
100 94 0.75
101 31 0.25
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (99 bp):
ATCTTACTCCCCAGGCATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGAC
ATTGCAGTTAAAAAGACTAAAGCCACAACAGCGA
Found at i:3966819 original size:101 final size:100
Alignment explanation
Indices: 3966550--3966821 Score: 240
Period size: 100 Copynumber: 2.7 Consensus size: 100
3966540 CATATCTTAT
* * * * * * ** ** ***
3966550 CTCCCCAGGCAATACAGTGGAACAGATTAAAGTCACATCGGTGAATCTTGCTTCCCCGACATTGT
1 CTCCCCAGACGATGCAGTGGAACAGATTAAAGCCACAACAGCAAATCTCACTTCCCCGACATCAC
* * * *
3966615 AGTTAAAAAGATTAACGCTACAACAGCGAATCTTA
66 AGTTAAAAAGACTAAAGCCACAACAGCGAATATTA
* * * * ** ** **
3966650 CTCCTCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGC
1 CTCCCCAGACGATGCAGTGGAACAGATTAAAGCCACAACAGCAAATCTCACTTCCCCGACATCAC
*
3966715 AGTTAAAAAGACTAAAGCCACAACGGCGAATATTA
66 AGTTAAAAAGACTAAAGCCACAACAGCGAATATTA
* * *
3966750 CTCTCCCAGAC-AGTGCAGTGGAACAGATTGAAGCTACAACAGCAAATCTCACTTCCCTGACATC
1 CTC-CCCAGACGA-TGCAGTGGAACAGATTAAAGCCACAACAGCAAATCTCACTTCCCCGACATC
3966814 ACAGTTAA
64 ACAGTTAA
3966822 GCAGATTACG
Statistics
Matches: 147, Mismatches: 23, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
100 94 0.64
101 53 0.36
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (100 bp):
CTCCCCAGACGATGCAGTGGAACAGATTAAAGCCACAACAGCAAATCTCACTTCCCCGACATCAC
AGTTAAAAAGACTAAAGCCACAACAGCGAATATTA
Found at i:3968336 original size:5 final size:6
Alignment explanation
Indices: 3968284--3968341 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
3968274 ACCAATTTCG
* * * *
3968284 TTTATC TTTATTT TTTCTT TTTCTT TTTATT TGTAATGT TTTATT TTTATT
1 TTTATT TTTA-TT TTTATT TTTATT TTTATT T-TTAT-T TTTATT TTTATT
3968335 TTTATT T
1 TTTATT T
3968342 GAATTTAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
6 32 0.73
7 10 0.23
8 2 0.05
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:3976852 original size:54 final size:54
Alignment explanation
Indices: 3976770--3976876 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
3976760 AAAAATTAAA
3976770 CTTAGATATTTAAACAATTAAAATTTTTACAAATTGGGCCACTTTAACAATTTT
1 CTTAGATATTTAAACAATTAAAATTTTTACAAATTGGGCCACTTTAACAATTTT
*
3976824 CTTAGATATTTAAACAATTAAATTTTTTACAAATTGGGCCACTTTAACAATTT
1 CTTAGATATTTAAACAATTAAAATTTTTACAAATTGGGCCACTTTAACAATTT
3976877 GGCCTGATTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.41
Consensus pattern (54 bp):
CTTAGATATTTAAACAATTAAAATTTTTACAAATTGGGCCACTTTAACAATTTT
Found at i:3976870 original size:26 final size:26
Alignment explanation
Indices: 3976787--3976870 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
3976777 ATTTAAACAA
*
3976787 TTAAAATTTTTACAAATTGGGCCACT
1 TTAAATTTTTTACAAATTGGGCCACT
* * **** *
3976813 TTAACAATTTTCTTAGATATTTAAACA-A
1 TT-A-AATTTT-TTACAAATTGGGCCACT
3976841 TTAAATTTTTTACAAATTGGGCCACT
1 TTAAATTTTTTACAAATTGGGCCACT
3976867 TTAA
1 TTAA
3976871 CAATTTGGCC
Statistics
Matches: 39, Mismatches: 15, Indels: 8
0.63 0.24 0.13
Matches are distributed among these distances:
25 9 0.23
26 12 0.31
27 2 0.05
28 7 0.18
29 9 0.23
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (26 bp):
TTAAATTTTTTACAAATTGGGCCACT
Found at i:3978375 original size:21 final size:22
Alignment explanation
Indices: 3978346--3978396 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
3978336 TCTCTCTCGC
*
3978346 TTTCCTTTTCGCCTTTTTCA-T
1 TTTCATTTTCGCCTTTTTCACT
**
3978367 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTCGCCTTTTTCACT
3978389 TTT-ATTTT
1 TTTCATTTT
3978397 TCTCTTCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.08, C:0.22, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTCATTTTCGCCTTTTTCACT
Found at i:3984947 original size:21 final size:21
Alignment explanation
Indices: 3984923--3984970 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
3984913 GAGTAAAAGC
* *
3984923 TTTGTGAGAAAAGTAAAAATG
1 TTTGGGAGAAAAGTAAAAATA
* *
3984944 TTTGGGGGTAAAGTAAAAATA
1 TTTGGGAGAAAAGTAAAAATA
3984965 TTTGGG
1 TTTGGG
3984971 GGTTTGGGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (21 bp):
TTTGGGAGAAAAGTAAAAATA
Found at i:3984972 original size:22 final size:21
Alignment explanation
Indices: 3984932--3984973 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
3984922 CTTTGTGAGA
*
3984932 AAAGTAAAAATGTTTGGGGGT
1 AAAGTAAAAATATTTGGGGGT
3984953 AAAGTAAAAATATTTGGGGGT
1 AAAGTAAAAATATTTGGGGGT
3984974 TTGGGGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (21 bp):
AAAGTAAAAATATTTGGGGGT
Found at i:3989035 original size:14 final size:14
Alignment explanation
Indices: 3989016--3989042 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3989006 CATTATTAAA
3989016 TAAAATACAAGTGG
1 TAAAATACAAGTGG
3989030 TAAAATACAAGTG
1 TAAAATACAAGTG
3989043 CGCAAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (14 bp):
TAAAATACAAGTGG
Found at i:3995648 original size:7 final size:7
Alignment explanation
Indices: 3995636--3995668 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
3995626 ACAAATAATC
3995636 AAATATT
1 AAATATT
3995643 AAATATT
1 AAATATT
3995650 AAATATT
1 AAATATT
3995657 AAATATT
1 AAATATT
3995664 AAATA
1 AAATA
3995669 AAAGAAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAATATT
Found at i:3995975 original size:17 final size:18
Alignment explanation
Indices: 3995948--3995985 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
3995938 TAGTTCTGTC
*
3995948 TCTTATTGAACAGTTGTA
1 TCTTATTGAACAATTGTA
3995966 TCTT-TTGAACAATTGTA
1 TCTTATTGAACAATTGTA
3995983 TCT
1 TCT
3995986 CTTGGTAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.47
Consensus pattern (18 bp):
TCTTATTGAACAATTGTA
Found at i:3997621 original size:2 final size:2
Alignment explanation
Indices: 3997614--3997639 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3997604 TTTTCACATG
3997614 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
3997640 CACACACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4001491 original size:56 final size:50
Alignment explanation
Indices: 4001407--4001592 Score: 201
Period size: 50 Copynumber: 3.6 Consensus size: 50
4001397 AGATCCCATC
*
4001407 TAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCACG
1 TAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCCCACG
* *
4001463 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACG
* * * * ** *
4001513 CAAGACCATGTCTGGGACATAGCATAGGCACCGATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACG
* * *
4001563 TAAGACCATATCTGGGATATGACATTGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
4001593 GTTCAAGAAA
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
50 79 0.71
53 3 0.03
55 1 0.01
56 29 0.26
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACG
Found at i:4012469 original size:44 final size:44
Alignment explanation
Indices: 4012419--4012508 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
4012409 AATTTTTCAT
4012419 TTTATAATATTCTTACTTGCTAAGCTAACGATAGAAGGAAGCAA
1 TTTATAATATTCTTACTTGCTAAGCTAACGATAGAAGGAAGCAA
4012463 TTTATAATATTCTTACTTGCTAAGCTAACGATAGAAGGAAGCAA
1 TTTATAATATTCTTACTTGCTAAGCTAACGATAGAAGGAAGCAA
4012507 TT
1 TT
4012509 AATGCACATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (44 bp):
TTTATAATATTCTTACTTGCTAAGCTAACGATAGAAGGAAGCAA
Found at i:4016157 original size:15 final size:15
Alignment explanation
Indices: 4016137--4016167 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4016127 AATGTTGCAG
*
4016137 CTGATTTGGTCATAC
1 CTGATTTGGTAATAC
4016152 CTGATTTGGTAATAC
1 CTGATTTGGTAATAC
4016167 C
1 C
4016168 ATGTTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (15 bp):
CTGATTTGGTAATAC
Found at i:4022640 original size:22 final size:22
Alignment explanation
Indices: 4022615--4022657 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4022605 AATTGATTTC
*
4022615 AAAAAAATTA-AACAAACAAAT
1 AAAAAAAATATAACAAACAAAT
*
4022636 AAAAAACATATAACAAACAAAT
1 AAAAAAAATATAACAAACAAAT
4022658 CAATTCATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.74, C:0.12, G:0.00, T:0.14
Consensus pattern (22 bp):
AAAAAAAATATAACAAACAAAT
Found at i:4022934 original size:55 final size:55
Alignment explanation
Indices: 4022870--4022974 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 55
4022860 TGTGTGCCCA
*
4022870 TGTGAGTATTCGAAATAAGGCCACATGGTCGTGTCACAGGCCGTGTGCCAAACTG
1 TGTGAGTATTCGAAATAAGGCCACATGGTCGTGTCACAGGCCATGTGCCAAACTG
* * * * * * *
4022925 TGTGTGTATTCGAAGTTAGGTCAGATGGTTGTGTCGCAGGCCATGTGCCA
1 TGTGAGTATTCGAAATAAGGCCACATGGTCGTGTCACAGGCCATGTGCCA
4022975 GACCATGCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (55 bp):
TGTGAGTATTCGAAATAAGGCCACATGGTCGTGTCACAGGCCATGTGCCAAACTG
Found at i:4024052 original size:20 final size:19
Alignment explanation
Indices: 4024029--4024111 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 19
4024019 GGCACAATTA
*
4024029 TGCAATCAGAGGCACCGAAG
1 TGCAA-CAGAGACACCGAAG
* **
4024049 TGCAAACAAAGACAATGAAG
1 TGC-AACAGAGACACCGAAG
* *
4024069 TGTAACAGAGACACCAAAG
1 TGCAACAGAGACACCGAAG
* * *
4024088 TGTAAAAGAGGCACCGAAG
1 TGCAACAGAGACACCGAAG
4024107 TGCAA
1 TGCAA
4024112 TCCTGTACAA
Statistics
Matches: 49, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
19 32 0.65
20 15 0.31
21 2 0.04
ACGTcount: A:0.45, C:0.19, G:0.25, T:0.11
Consensus pattern (19 bp):
TGCAACAGAGACACCGAAG
Found at i:4027204 original size:23 final size:23
Alignment explanation
Indices: 4027178--4027276 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
4027168 AGTGTTATTG
4027178 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
4027201 ATCAGTGGTAGCTTCGACTATAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
4027224 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
4027247 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
4027270 ATCAGTG
1 ATCAGTG
4027277 TGGCACTTAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:4027448 original size:38 final size:37
Alignment explanation
Indices: 4027406--4027478 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
4027396 ATGTGTGGAA
* *
4027406 TTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAATT
4027444 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
4027479 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAATT
Found at i:4027943 original size:51 final size:51
Alignment explanation
Indices: 4027867--4027968 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
4027857 AGATGTTGAG
4027867 CAGTGAAATAGGGGTGACTTTAAAGAATAAACTGTACTAATTGGCCAAGTA
1 CAGTGAAATAGGGGTGACTTTAAAGAATAAACTGTACTAATTGGCCAAGTA
4027918 CAGTGAAATAGGGGTGACTTTAAAGAATAAACTGTACTAATTGGCCAAGTA
1 CAGTGAAATAGGGGTGACTTTAAAGAATAAACTGTACTAATTGGCCAAGTA
4027969 AAAAATTCTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (51 bp):
CAGTGAAATAGGGGTGACTTTAAAGAATAAACTGTACTAATTGGCCAAGTA
Found at i:4035634 original size:55 final size:55
Alignment explanation
Indices: 4035567--4035677 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 55
4035557 AACTTTAAGG
4035567 AAAGAGTAAAGAACAACCAAGAAACTCATTTGCTTATTAAAACAACATCTAATAA
1 AAAGAGTAAAGAACAACCAAGAAACTCATTTGCTTATTAAAACAACATCTAATAA
* **
4035622 AAAGAGTGAAGAACGTCCAAGAAACTCATTTGCTTATTAAAACAACATCTAATAA
1 AAAGAGTAAAGAACAACCAAGAAACTCATTTGCTTATTAAAACAACATCTAATAA
4035677 A
1 A
4035678 GCACATGTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.50, C:0.16, G:0.11, T:0.23
Consensus pattern (55 bp):
AAAGAGTAAAGAACAACCAAGAAACTCATTTGCTTATTAAAACAACATCTAATAA
Found at i:4037850 original size:27 final size:27
Alignment explanation
Indices: 4037819--4037996 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
4037809 TAAATTGTAC
4037819 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
4037846 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
4037872 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
4037900 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
4037928 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
4037955 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
4037982 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
4037997 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:4037934 original size:82 final size:81
Alignment explanation
Indices: 4037820--4037975 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
4037810 AAATTGTACA
* *
4037820 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
4037884 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
4037901 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
4037966 TGCGAGTTGA
65 TGCGAATTGA
4037976 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:4037987 original size:82 final size:81
Alignment explanation
Indices: 4037816--4037996 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
4037806 GATTAAATTG
* *
4037816 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
4037881 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
4037897 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
4037961 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
4037979 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
4037997 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:4046387 original size:29 final size:29
Alignment explanation
Indices: 4046354--4046413 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
4046344 TGTTGACTTG
4046354 TCCACATCAGTGTTATTAGTGGTAGTTTA
1 TCCACATCAGTGTTATTAGTGGTAGTTTA
4046383 TCCACATCAGTGTTATTAGTGGTAGTTTA
1 TCCACATCAGTGTTATTAGTGGTAGTTTA
4046412 TC
1 TC
4046414 TGAAAATCAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (29 bp):
TCCACATCAGTGTTATTAGTGGTAGTTTA
Found at i:4057171 original size:25 final size:25
Alignment explanation
Indices: 4057094--4057174 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
4057084 AGGTGATCTT
* *
4057094 TAGA-TGTAAAAATAATAGAAACTA
1 TAGATTGTGAAAACAATAGAAACTA
* * *
4057118 TAGATTTTG-AAACTATAAGAGACTA
1 TAGATTGTGAAAACAAT-AGAAACTA
** *
4057143 TAGATTGTGAAAAGGATAGAAACTT
1 TAGATTGTGAAAACAATAGAAACTA
4057168 TAGATTG
1 TAGATTG
4057175 AGACAATGTC
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
24 9 0.20
25 30 0.68
26 5 0.11
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.30
Consensus pattern (25 bp):
TAGATTGTGAAAACAATAGAAACTA
Found at i:4064617 original size:20 final size:20
Alignment explanation
Indices: 4064588--4064628 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
4064578 TTCAATATCT
*
4064588 AGAATTACAAAGTCAGCAGG
1 AGAATCACAAAGTCAGCAGG
4064608 AGAATCACAAAGTCAGCAGG
1 AGAATCACAAAGTCAGCAGG
4064628 A
1 A
4064629 AAGATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.12
Consensus pattern (20 bp):
AGAATCACAAAGTCAGCAGG
Done.