Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 6 of 284
Found at i:1821414 original size:57 final size:57
Alignment explanation
Indices: 1821326--1821517 Score: 339
Period size: 57 Copynumber: 3.4 Consensus size: 57
1821316 ATATAACAAG
1821326 ATTACCAGTCTAGGCTAAATCTTTTATATAACTTATGCTTAAAAAAGCTCAATTAAT
1 ATTACCAGTCTAGGCTAAATCTTTTATATAACTTATGCTTAAAAAAGCTCAATTAAT
1821383 ATTACCAGTCTAGGCTAAATCTTTTATATAACTTATGCTTAAAAAAGCTCAATTAAT
1 ATTACCAGTCTAGGCTAAATCTTTTATATAACTTATGCTTAAAAAAGCTCAATTAAT
* * * **
1821440 ATTACCAGTCTAGGCTAAATCTTTTATATAACATATGCTCAAAAGAGCTCAATTAGG
1 ATTACCAGTCTAGGCTAAATCTTTTATATAACTTATGCTTAAAAAAGCTCAATTAAT
1821497 ATTACCAGTCTAGGCTAAATC
1 ATTACCAGTCTAGGCTAAATC
1821518 CTAAATGTAA
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 130 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (57 bp):
ATTACCAGTCTAGGCTAAATCTTTTATATAACTTATGCTTAAAAAAGCTCAATTAAT
Found at i:1824948 original size:174 final size:174
Alignment explanation
Indices: 1824736--1825086 Score: 702
Period size: 174 Copynumber: 2.0 Consensus size: 174
1824726 AATAAACTCA
1824736 ATAGTTGGATTATTAAAATATTAATCATATAAAAAGTTACGGAAAGTTTACACCAGTGCACGCCC
1 ATAGTTGGATTATTAAAATATTAATCATATAAAAAGTTACGGAAAGTTTACACCAGTGCACGCCC
1824801 TGTATGAATATATATGATACAAATTAAAATTAATAAATGTTACCGTAAATTTGTAATAAATCATA
66 TGTATGAATATATATGATACAAATTAAAATTAATAAATGTTACCGTAAATTTGTAATAAATCATA
1824866 TATACTAAATGATGTTAAAATAATATTTACATTTATTATTTATT
131 TATACTAAATGATGTTAAAATAATATTTACATTTATTATTTATT
1824910 ATAGTTGGATTATTAAAATATTAATCATATAAAAAGTTACGGAAAGTTTACACCAGTGCACGCCC
1 ATAGTTGGATTATTAAAATATTAATCATATAAAAAGTTACGGAAAGTTTACACCAGTGCACGCCC
1824975 TGTATGAATATATATGATACAAATTAAAATTAATAAATGTTACCGTAAATTTGTAATAAATCATA
66 TGTATGAATATATATGATACAAATTAAAATTAATAAATGTTACCGTAAATTTGTAATAAATCATA
1825040 TATACTAAATGATGTTAAAATAATATTTACATTTATTATTTATT
131 TATACTAAATGATGTTAAAATAATATTTACATTTATTATTTATT
1825084 ATA
1 ATA
1825087 ATCAAGTTTA
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
174 177 1.00
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.37
Consensus pattern (174 bp):
ATAGTTGGATTATTAAAATATTAATCATATAAAAAGTTACGGAAAGTTTACACCAGTGCACGCCC
TGTATGAATATATATGATACAAATTAAAATTAATAAATGTTACCGTAAATTTGTAATAAATCATA
TATACTAAATGATGTTAAAATAATATTTACATTTATTATTTATT
Found at i:1825668 original size:321 final size:321
Alignment explanation
Indices: 1825086--1825732 Score: 1285
Period size: 321 Copynumber: 2.0 Consensus size: 321
1825076 TATTTATTAT
1825086 AATCAAGTTTATTCAAGATTATGTATTAGAAAATTACTTTATTTATTTATTTAAAATTGCAAAAT
1 AATCAAGTTTATTCAAGATTATGTATTAGAAAATTACTTTATTTATTTATTTAAAATTGCAAAAT
1825151 ATAATATTTTAATATGTATTACTTAAATTTTAATTTAATTTAAATGAGATATCTAAAAATAAATC
66 ATAATATTTTAATATGTATTACTTAAATTTTAATTTAATTTAAATGAGATATCTAAAAATAAATC
1825216 TAGTTTTTTTTAATATATACTAATTAAATTTGTAATGTTTAGTTAAAACTAAAAAATATAGTTTT
131 TAGTTTTTTTTAATATATACTAATTAAATTTGTAATGTTTAGTTAAAACTAAAAAATATAGTTTT
1825281 TAGTATATATTAGTTAAACATTTAAATATATAAAATACATATAAAAATATGAGTTTAGAGAAACT
196 TAGTATATATTAGTTAAACATTTAAATATATAAAATACATATAAAAATATGAGTTTAGAGAAACT
1825346 ATTGAATTGGCAAAAATATCTTTTATTGTTCATTATATTACTAAATTATATTAAAATAATA
261 ATTGAATTGGCAAAAATATCTTTTATTGTTCATTATATTACTAAATTATATTAAAATAATA
1825407 AATCAAGTTTATTCAAGATTATGTATTAGAAAATTACTTTATTTATTTATTTAAAATTGCAAAAT
1 AATCAAGTTTATTCAAGATTATGTATTAGAAAATTACTTTATTTATTTATTTAAAATTGCAAAAT
1825472 ATAATATTTTAATATGTATTACTTAAATTTTAATTTAATTTAAATGAGATATCTAAAAATAAATC
66 ATAATATTTTAATATGTATTACTTAAATTTTAATTTAATTTAAATGAGATATCTAAAAATAAATC
*
1825537 TAGTTTTTTTTAATATATACTAATTAAATTTGTAATGTTTAGTTAAAACTACAAAATATAGTTTT
131 TAGTTTTTTTTAATATATACTAATTAAATTTGTAATGTTTAGTTAAAACTAAAAAATATAGTTTT
1825602 TAGTATATATTAGTTAAACATTTAAATATATAAAATACATATAAAAATATGAGTTTAGAGAAACT
196 TAGTATATATTAGTTAAACATTTAAATATATAAAATACATATAAAAATATGAGTTTAGAGAAACT
1825667 ATTGAATTGGCAAAAATATCTTTTATTGTTCATTATATTACTAAATTATATTAAAATAATA
261 ATTGAATTGGCAAAAATATCTTTTATTGTTCATTATATTACTAAATTATATTAAAATAATA
1825728 AATCA
1 AATCA
1825733 TCAATACATT
Statistics
Matches: 325, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
321 325 1.00
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.43
Consensus pattern (321 bp):
AATCAAGTTTATTCAAGATTATGTATTAGAAAATTACTTTATTTATTTATTTAAAATTGCAAAAT
ATAATATTTTAATATGTATTACTTAAATTTTAATTTAATTTAAATGAGATATCTAAAAATAAATC
TAGTTTTTTTTAATATATACTAATTAAATTTGTAATGTTTAGTTAAAACTAAAAAATATAGTTTT
TAGTATATATTAGTTAAACATTTAAATATATAAAATACATATAAAAATATGAGTTTAGAGAAACT
ATTGAATTGGCAAAAATATCTTTTATTGTTCATTATATTACTAAATTATATTAAAATAATA
Found at i:1827618 original size:10 final size:9
Alignment explanation
Indices: 1827568--1827637 Score: 58
Period size: 8 Copynumber: 8.1 Consensus size: 9
1827558 ATTAAAAATT
1827568 ATAATTTT-
1 ATAATTTTA
1827576 ATAATTTT-
1 ATAATTTTA
*
1827584 ATAATCTT-
1 ATAATTTTA
*
1827592 ATAATTTTC
1 ATAATTTTA
*
1827601 ATATTTTTTA
1 ATA-ATTTTA
1827611 ATAATTTTA
1 ATAATTTTA
* *
1827620 ATGATTTTT
1 ATAATTTTA
1827629 A-AATTTTA
1 ATAATTTTA
1827637 A
1 A
1827638 AATCAATTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
8 28 0.55
9 16 0.31
10 7 0.14
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (9 bp):
ATAATTTTA
Found at i:1827646 original size:29 final size:30
Alignment explanation
Indices: 1827613--1827670 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
1827603 ATTTTTTAAT
1827613 AATTTTA-ATGATTTTT-AAATTTTAAAATC
1 AATTTTATAT-ATTTTTGAAATTTTAAAATC
* *
1827642 AATTTTATATTTTTTTGAATTTTTAAAAT
1 AATTTTATATATTTTTGAAATTTTAAAAT
1827671 TTTAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (30 bp):
AATTTTATATATTTTTGAAATTTTAAAATC
Found at i:1827655 original size:8 final size:8
Alignment explanation
Indices: 1827566--1827619 Score: 63
Period size: 8 Copynumber: 6.4 Consensus size: 8
1827556 ATATTAAAAA
1827566 TTATAATT
1 TTATAATT
1827574 TTATAATT
1 TTATAATT
*
1827582 TTATAATC
1 TTATAATT
1827590 TTATAATT
1 TTATAATT
*
1827598 TTCATATTTT
1 TT-ATA-ATT
1827608 TTAATAATT
1 TT-ATAATT
1827617 TTA
1 TTA
1827620 ATGATTTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
8 25 0.64
9 7 0.18
10 7 0.18
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATAATT
Found at i:1830465 original size:39 final size:39
Alignment explanation
Indices: 1830421--1830540 Score: 222
Period size: 39 Copynumber: 3.1 Consensus size: 39
1830411 ATGCAAGACA
1830421 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1830460 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
1830499 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1830538 CTG
1 CTG
1830541 ATAATATAAT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.20, C:0.24, G:0.31, T:0.25
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:1833014 original size:12 final size:12
Alignment explanation
Indices: 1832997--1833025 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1832987 CCATACACGC
1832997 CCGTGTGCTAGG
1 CCGTGTGCTAGG
1833009 CCGTGTGCTAGG
1 CCGTGTGCTAGG
1833021 CCGTG
1 CCGTG
1833026 CCAAACCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.28, G:0.41, T:0.24
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:1835518 original size:10 final size:10
Alignment explanation
Indices: 1835505--1835533 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
1835495 AAAAAAATAT
1835505 TTTTTTTTTC
1 TTTTTTTTTC
1835515 TTTTTTTTTC
1 TTTTTTTTTC
1835525 TTTTTTTTT
1 TTTTTTTTT
1835534 GCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:1835908 original size:8 final size:8
Alignment explanation
Indices: 1835895--1835919 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1835885 GGTGTTCGGC
1835895 GCAAGTGG
1 GCAAGTGG
1835903 GCAAGTGG
1 GCAAGTGG
1835911 GCAAGTGG
1 GCAAGTGG
1835919 G
1 G
1835920 GGGTAGGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.52, T:0.12
Consensus pattern (8 bp):
GCAAGTGG
Found at i:1859312 original size:28 final size:27
Alignment explanation
Indices: 1859240--1859319 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
1859230 CTGCCAGAAT
* * * * *
1859240 AGATATTGTGACAGAGTCACTAGATAC
1 AGATATTATGGCAGAGCCACCAGAAAC
1859267 AGATATTATGGCAGAGCCACCAGAAAC
1 AGATATTATGGCAGAGCCACCAGAAAC
* *
1859294 AGATATTTGTGGCATAGCCACCAGAA
1 AGATA-TTATGGCAGAGCCACCAGAA
1859320 TGCTTCCTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 27 0.60
28 18 0.40
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (27 bp):
AGATATTATGGCAGAGCCACCAGAAAC
Found at i:1860844 original size:39 final size:39
Alignment explanation
Indices: 1860790--1860868 Score: 124
Period size: 39 Copynumber: 2.0 Consensus size: 39
1860780 TCCTTTACTT
*
1860790 AATCCCCTGACCAACTCAAACTC-TTCTTGACAAAGTTTC
1 AATCCCCTGAACAACTCAAACTCTTTC-TGACAAAGTTTC
*
1860829 AATCCCCTGAACAACTCAAACTCTTTCTGACAGAGTTTC
1 AATCCCCTGAACAACTCAAACTCTTTCTGACAAAGTTTC
1860868 A
1 A
1860869 CCTGAGTTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 34 0.92
40 3 0.08
ACGTcount: A:0.32, C:0.32, G:0.09, T:0.28
Consensus pattern (39 bp):
AATCCCCTGAACAACTCAAACTCTTTCTGACAAAGTTTC
Found at i:1868060 original size:15 final size:15
Alignment explanation
Indices: 1868041--1868080 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
1868031 ATGAGTCTTC
*
1868041 AAAAATAAATAGAAAT
1 AAAAATAAAGA-AAAT
*
1868057 AAAAGTAAAGAAAAT
1 AAAAATAAAGAAAAT
1868072 AAAAATAAA
1 AAAAATAAA
1868081 ACGAGTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (15 bp):
AAAAATAAAGAAAAT
Found at i:1868364 original size:54 final size:55
Alignment explanation
Indices: 1868280--1868412 Score: 160
Period size: 54 Copynumber: 2.4 Consensus size: 55
1868270 TGGATAAATG
* * * * **
1868280 CGCACGCCCGTGTTCTTTTGACAGTCTTGACCACGGGTGGT-GACATGGGTGTGT
1 CGCACGCCCGTGTTATTTTGGCAGTCTTGACCACGGGTAGTAGACACGGGCATGT
* * * *
1868334 CGCACGCCCGTGTTAATTTGGCAGTTTTGACCATGGTTAGTAGACACGGGCATGT
1 CGCACGCCCGTGTTATTTTGGCAGTCTTGACCACGGGTAGTAGACACGGGCATGT
*
1868389 CGCACGCCCGTGTTGTTTTGGCAG
1 CGCACGCCCGTGTTATTTTGGCAG
1868413 GATTGCCCAC
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
54 34 0.52
55 32 0.48
ACGTcount: A:0.15, C:0.24, G:0.32, T:0.29
Consensus pattern (55 bp):
CGCACGCCCGTGTTATTTTGGCAGTCTTGACCACGGGTAGTAGACACGGGCATGT
Found at i:1871003 original size:40 final size:40
Alignment explanation
Indices: 1870898--1871104 Score: 260
Period size: 40 Copynumber: 5.2 Consensus size: 40
1870888 CGGATGATAA
* *
1870898 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * *
1870938 CCGGGCTAA-ACTCGAAGGCTTTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
1870977 CCGGGATAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
1871017 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
1871057 CCGGGCTATGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
1871097 CC-GGCTAA
1 CCGGGCTAA
1871105 ATTCTGAAGG
Statistics
Matches: 144, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 38 0.26
40 106 0.74
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:1875654 original size:39 final size:40
Alignment explanation
Indices: 1875596--1875740 Score: 199
Period size: 39 Copynumber: 3.7 Consensus size: 40
1875586 TGGATGATAA
*
1875596 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTAATT
* *
1875636 CCGGGCTAA-ACCCGAAGGCTTTTGTG-TGAGTTACT-ATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTGACTAAT-T
*
1875675 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTAATT
*
1875715 CCGGGCTAA-ACCCGAAGGCTTTTGTG
1 CCGGGCTAAGACCCGAAGGCATTTGTG
1875741 TTTCTAATTA
Statistics
Matches: 92, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
38 3 0.03
39 46 0.50
40 40 0.43
41 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTAATT
Found at i:1875727 original size:79 final size:79
Alignment explanation
Indices: 1875596--1875741 Score: 292
Period size: 79 Copynumber: 1.8 Consensus size: 79
1875586 TGGATGATAA
1875596 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAACCCGAAGGCTTTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAACCCGAAGGCTTTTGT
1875661 GTGAGTTACTATAT
66 GTGAGTTACTATAT
1875675 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAACCCGAAGGCTTTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAACCCGAAGGCTTTTGT
1875740 GT
66 GT
1875742 TTCTAATTAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAACCCGAAGGCTTTTGT
GTGAGTTACTATAT
Found at i:1875890 original size:40 final size:40
Alignment explanation
Indices: 1875808--1875899 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
1875798 TATTCGGATG
* * *
1875808 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCAAAGGCATTTGAGCAAGTTACT
*
1875848 ATAACCGGGCTATGTCCCAAAGGCATTTGAGCAAG-TAGCT
1 ATAACCGGGCTAAGTCCCAAAGGCATTTGAGCAAGTTA-CT
*
1875888 ATATCC-GGCTAA
1 ATAACCGGGCTAA
1875900 ATTTCGAAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 7 0.16
40 38 0.84
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCAAAGGCATTTGAGCAAGTTACT
Found at i:1880658 original size:19 final size:19
Alignment explanation
Indices: 1880610--1880650 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1880600 GCTGTGTTGA
*
1880610 TTTCT-CATGTTGGCCCAT
1 TTTCTCCATTTTGGCCCAT
1880628 TTTCTCCATTTTGGCCCAAT
1 TTTCTCCATTTTGGCCC-AT
1880648 TTT
1 TTT
1880651 GCTCTTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 10 0.50
20 5 0.25
ACGTcount: A:0.12, C:0.27, G:0.12, T:0.49
Consensus pattern (19 bp):
TTTCTCCATTTTGGCCCAT
Found at i:1882617 original size:8 final size:8
Alignment explanation
Indices: 1882604--1882638 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
1882594 GTAGATCGGC
1882604 AAAAGCCG
1 AAAAGCCG
1882612 AAAAGCC-
1 AAAAGCCG
1882619 AAAATGCCG
1 AAAA-GCCG
1882628 AAAAGCCG
1 AAAAGCCG
1882636 AAA
1 AAA
1882639 GTTTGGCTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 4 0.16
8 17 0.68
9 4 0.16
ACGTcount: A:0.54, C:0.23, G:0.20, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:1882892 original size:29 final size:29
Alignment explanation
Indices: 1882862--1882995 Score: 139
Period size: 29 Copynumber: 4.7 Consensus size: 29
1882852 ATAAGTTGAT
* * *
1882862 TTGGGCCTAACGGGCTATATAAATGTGAT
1 TTGGGCCTAATGGGCCATATAAATGTGAA
* * *
1882891 TTGGGCCTAATGGCCCATATGAATATGAA
1 TTGGGCCTAATGGGCCATATAAATGTGAA
* *
1882920 TTGGGCCTGATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATAAATGTGAA
* * *
1882949 TTGGGCCTGATGGGCCATATGAATGAG-A
1 TTGGGCCTAATGGGCCATATAAATGTGAA
1882977 -TGGGCC-AAGTGGGCCATAT
1 TTGGGCCTAA-TGGGCCATAT
1882996 GCATGTATGT
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 16 0.17
28 1 0.01
29 75 0.81
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATAAATGTGAA
Found at i:1882924 original size:58 final size:58
Alignment explanation
Indices: 1882862--1882972 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 58
1882852 ATAAGTTGAT
* *
1882862 TTGGGCCTAACGGGCTATATAAATGTGATTTGGGCCTAATGGCCCATATGAATATGAA
1 TTGGGCCTAACGGGCCATATAAATGTGAATTGGGCCTAATGGCCCATATGAATATGAA
* * * * *
1882920 TTGGGCCTGATGGGCCATATGAATGTGAATTGGGCCTGATGGGCCATATGAAT
1 TTGGGCCTAACGGGCCATATAAATGTGAATTGGGCCTAATGGCCCATATGAAT
1882973 GAGATGGGCC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (58 bp):
TTGGGCCTAACGGGCCATATAAATGTGAATTGGGCCTAATGGCCCATATGAATATGAA
Found at i:1889805 original size:93 final size:93
Alignment explanation
Indices: 1889646--1889817 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
1889636 CGCCCATAAG
* * *
1889646 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATGAGTGAACTCGGACTCAACTCA
1889711 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
1889739 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AGGTGAACTCGGACTCATCTC
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATGA-GTGAACTCGGACTCAACTC
1889803 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
1889818 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATGAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:1889807 original size:46 final size:46
Alignment explanation
Indices: 1889647--1889814 Score: 168
Period size: 46 Copynumber: 3.6 Consensus size: 46
1889637 GCCCATAAGC
* * * *
1889647 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCAT-GAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG-GT
* *
1889693 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA--C
1 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCAT-AGGT
1889740 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGT
*
1889786 GAACTCGGACTCATCTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
1889815 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 9, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 1 0.01
46 54 0.53
47 29 0.29
48 1 0.01
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGT
Found at i:1896625 original size:23 final size:23
Alignment explanation
Indices: 1896599--1896645 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1896589 TATTCTATTG
1896599 TCATGCCCATGCCATTACTATGC
1 TCATGCCCATGCCATTACTATGC
*** *
1896622 TCATTTTCATGCTATTACTATGC
1 TCATGCCCATGCCATTACTATGC
1896645 T
1 T
1896646 AATGTCATGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.21, C:0.28, G:0.11, T:0.40
Consensus pattern (23 bp):
TCATGCCCATGCCATTACTATGC
Found at i:1898055 original size:24 final size:24
Alignment explanation
Indices: 1897997--1898055 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 24
1897987 GTTTAAAAAA
**
1897997 TTTTATTTATTATTTTATGTTTTTAC
1 TTTTATTT-TTATTTTATG-TACTAC
1898023 TTTTA-TTTTATTTTATG-ACTAC
1 TTTTATTTTTATTTTATGTACTAC
1898045 TTTTTATTTTT
1 -TTTTATTTTT
1898056 CTTTCATCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 3 0.10
23 5 0.17
24 14 0.48
25 2 0.07
26 5 0.17
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (24 bp):
TTTTATTTTTATTTTATGTACTAC
Found at i:1901122 original size:63 final size:64
Alignment explanation
Indices: 1901021--1901148 Score: 195
Period size: 63 Copynumber: 2.0 Consensus size: 64
1901011 ACATCGTGAC
* * *
1901021 AATAGTTAGTTTTAAGAACGATTCATTATAAATATTTAAAACCTGTCACGAAAATCACG-ATCA
1 AATAGTTAGTTTCAAGAACGATTAATTATAAATATTTAAAACCTATCACGAAAATCACGTATCA
* * *
1901084 AATAGTTAGTTTCAAGAACGATTAATTATAAATTTTTAAAACCTATCGCGAATATCACGTATCA
1 AATAGTTAGTTTCAAGAACGATTAATTATAAATATTTAAAACCTATCACGAAAATCACGTATCA
1901148 A
1 A
1901149 GTTTGTGGCG
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
63 53 0.91
64 5 0.09
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (64 bp):
AATAGTTAGTTTCAAGAACGATTAATTATAAATATTTAAAACCTATCACGAAAATCACGTATCA
Found at i:1904591 original size:27 final size:27
Alignment explanation
Indices: 1904561--1904738 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
1904551 ATATTGAGCC
* *
1904561 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
1904588 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
1904615 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
1904643 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
1904670 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
1904697 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
1904724 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
1904739 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:1904700 original size:82 final size:81
Alignment explanation
Indices: 1904582--1904737 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
1904572 TGCTATATAA
* *
1904582 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
1904647 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
1904664 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
1904728 CACTTAGTGC
65 CACTTAGTGC
1904738 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:1914915 original size:37 final size:37
Alignment explanation
Indices: 1914865--1914939 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
1914855 GTTGTGACAG
*
1914865 CCCAAAGTTGACCCTAGTCGGGAAGTGGCTTCGGGAC
1 CCCAAAGGTGACCCTAGTCGGGAAGTGGCTTCGGGAC
1914902 CCCAAAGGTGACCCTAGTCGGGAAGTGGCTTCGGGAC
1 CCCAAAGGTGACCCTAGTCGGGAAGTGGCTTCGGGAC
1914939 C
1 C
1914940 GCTAAACCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.21, C:0.28, G:0.33, T:0.17
Consensus pattern (37 bp):
CCCAAAGGTGACCCTAGTCGGGAAGTGGCTTCGGGAC
Found at i:1916511 original size:80 final size:80
Alignment explanation
Indices: 1916374--1916558 Score: 232
Period size: 80 Copynumber: 2.3 Consensus size: 80
1916364 TTGAATGCTG
*
1916374 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAAAATATCCGGATTAAGTTCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAAAATATCCGGATTAAGTCCCGAAGGCATT
**
1916438 CGTGCGAGTTGTTAAA
66 -GTGCGAGTTACTAAA
* * ** * *
1916454 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTGTTAA-ATCCGGGTTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAG-TGAAAATATCCGGATTAAGTCCCGAAGGCAT
*
1916517 TGTGTGAGTTACTAAA
65 TGTGCGAGTTACTAAA
*
1916533 TCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
1916559 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 36 0.40
80 44 0.48
81 11 0.12
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAAAATATCCGGATTAAGTCCCGAAGGCATT
GTGCGAGTTACTAAA
Found at i:1916533 original size:39 final size:39
Alignment explanation
Indices: 1916374--1916556 Score: 206
Period size: 40 Copynumber: 4.6 Consensus size: 39
1916364 TTGAATGCTG
* * * **
1916374 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGAAAATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTGTTAA-A
* *
1916414 TCCGGATTAAGTTCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTGTTAAA
1916454 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTGTTAAA
* * **
1916494 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGTTAAA
* *
1916533 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
1916557 TGAACGAGGA
Statistics
Matches: 126, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
39 37 0.29
40 79 0.63
41 10 0.08
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGTTAAA
Found at i:1916576 original size:79 final size:80
Alignment explanation
Indices: 1916411--1916591 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 80
1916401 CTAAGTGAAA
* * ** *
1916411 ATATCCGGATTAAGTTCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCA
1 ATATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCA
** ** *
1916476 TTTGTGCGAGTTGTT
66 TTTGAACGAGGAGCT
* * * *
1916491 AAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCA
1 ATATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCA
1916555 TTTGAACGAGGAGCT
66 TTTGAACGAGGAGCT
*
1916570 ATATCC-GGTTAAATCCCGAAGG
1 ATATCCGGGTTAAGTCCCGAAGG
1916592 TACGTGATTT
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
78 14 0.17
79 47 0.56
80 23 0.27
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (80 bp):
ATATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCA
TTTGAACGAGGAGCT
Found at i:1917696 original size:100 final size:100
Alignment explanation
Indices: 1917523--1917722 Score: 364
Period size: 100 Copynumber: 2.0 Consensus size: 100
1917513 TGTTCCGCCT
*
1917523 TTGGAAATTCACTATAAATTGACCAGAGATAGTTAGGGGTCATACCATATATGTATGGATTCCTC
1 TTGGAAATTCACTATAAATTGACCAGAGATAATTAGGGGTCATACCATATATGTATGGATTCCTC
*
1917588 TCTGAGTCTAGTTTCTATAGAAACAAACGGAATCA
66 TCTGAGTCTAGTTTCCATAGAAACAAACGGAATCA
*
1917623 TTGGAAATTCACTATAATTTGACCAGAGATAATTAGGGGTCATACCATATATGTATGGATTCCTC
1 TTGGAAATTCACTATAAATTGACCAGAGATAATTAGGGGTCATACCATATATGTATGGATTCCTC
*
1917688 TCTGAGTCTAGTTTCCATAGAAACAAACGGTATCA
66 TCTGAGTCTAGTTTCCATAGAAACAAACGGAATCA
1917723 GTATTGAAGC
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 96 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Consensus pattern (100 bp):
TTGGAAATTCACTATAAATTGACCAGAGATAATTAGGGGTCATACCATATATGTATGGATTCCTC
TCTGAGTCTAGTTTCCATAGAAACAAACGGAATCA
Found at i:1918489 original size:301 final size:301
Alignment explanation
Indices: 1917947--1918550 Score: 1199
Period size: 301 Copynumber: 2.0 Consensus size: 301
1917937 GAGATAATTA
1917947 GGGGTCATACCATATATGTATGGATTCCTCTCTGAGTCTAGTTTCCATAGAAACAAACGGTATCA
1 GGGGTCATACCATATATGTATGGATTCCTCTCTGAGTCTAGTTTCCATAGAAACAAACGGTATCA
1918012 GTATTGAAGCTCTGTGCAGAGAGATATCCCAGTCGTAATGGGAAAAGGTCAGTGTAGTCGACCCC
66 GTATTGAAGCTCTGTGCAGAGAGATATCCCAGTCGTAATGGGAAAAGGTCAGTGTAGTCGACCCC
1918077 TGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCAGACCAAAAATTCTAGAAAAAA
131 TGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCAGACCAAAAATTCTAGAAAAAA
*
1918142 ATCAATAGGTGGGGACATGAGTCTAGTTTCAGGGAAAAATCACAAAACTGATTTTTGAGTTGTGG
196 ATCAATAGGTGGGGACATGAGTCTAGTTTCAGGGAAAAATCACAAAACTGATTTTTGAGTTGTGA
1918207 AACTCAAGATATGATTTTTGAAGCGACTAGTACTCAGACTG
261 AACTCAAGATATGATTTTTGAAGCGACTAGTACTCAGACTG
1918248 GGGGTCATACCATATATGTATGGATTCCTCTCTGAGTCTAGTTTCCATAGAAACAAACGGTATCA
1 GGGGTCATACCATATATGTATGGATTCCTCTCTGAGTCTAGTTTCCATAGAAACAAACGGTATCA
1918313 GTATTGAAGCTCTGTGCAGAGAGATATCCCAGTCGTAATGGGAAAAGGTCAGTGTAGTCGACCCC
66 GTATTGAAGCTCTGTGCAGAGAGATATCCCAGTCGTAATGGGAAAAGGTCAGTGTAGTCGACCCC
1918378 TGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCAGACCAAAAATTCTAGAAAAAA
131 TGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCAGACCAAAAATTCTAGAAAAAA
1918443 ATCAATAGGTGGGGACATGAGTCTAGTTTCAGGGAAAAATCACAAAACTGATTTTTGAGTTGTGA
196 ATCAATAGGTGGGGACATGAGTCTAGTTTCAGGGAAAAATCACAAAACTGATTTTTGAGTTGTGA
1918508 AACTCAAGATATGATTTTTGAAGCGACTAGTACTCAGACTG
261 AACTCAAGATATGATTTTTGAAGCGACTAGTACTCAGACTG
1918549 GG
1 GG
1918551 CAGTGTCTGG
Statistics
Matches: 302, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
301 302 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (301 bp):
GGGGTCATACCATATATGTATGGATTCCTCTCTGAGTCTAGTTTCCATAGAAACAAACGGTATCA
GTATTGAAGCTCTGTGCAGAGAGATATCCCAGTCGTAATGGGAAAAGGTCAGTGTAGTCGACCCC
TGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCCAGACCAAAAATTCTAGAAAAAA
ATCAATAGGTGGGGACATGAGTCTAGTTTCAGGGAAAAATCACAAAACTGATTTTTGAGTTGTGA
AACTCAAGATATGATTTTTGAAGCGACTAGTACTCAGACTG
Found at i:1919534 original size:17 final size:17
Alignment explanation
Indices: 1919514--1919572 Score: 82
Period size: 17 Copynumber: 3.5 Consensus size: 17
1919504 GTTTACTTGT
* *
1919514 TATTGAATTGTTGTGAA
1 TATTGAACTATTGTGAA
*
1919531 TATTGAACTATTTTGAA
1 TATTGAACTATTGTGAA
*
1919548 TATTTAACTATTGTGAA
1 TATTGAACTATTGTGAA
1919565 TATTGAAC
1 TATTGAAC
1919573 GAGTAATTAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (17 bp):
TATTGAACTATTGTGAA
Found at i:1919737 original size:43 final size:43
Alignment explanation
Indices: 1919689--1919789 Score: 125
Period size: 43 Copynumber: 2.3 Consensus size: 43
1919679 TGTGATTACA
* *
1919689 TGTAAGACCATGTCT-AGGACATTGGCATTGTATTGA-GATTGCG
1 TGTAAGACCATGTCTCA-GACATTAGCATCGTATT-ATGATTGCG
* *
1919732 TGTAAGACCATGTCTCAGACATTAGCATCGTATTATGATTTCT
1 TGTAAGACCATGTCTCAGACATTAGCATCGTATTATGATTGCG
*
1919775 TGTAAGACCTTGTCT
1 TGTAAGACCATGTCT
1919790 GAGATAGTGG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
42 1 0.02
43 49 0.96
44 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.36
Consensus pattern (43 bp):
TGTAAGACCATGTCTCAGACATTAGCATCGTATTATGATTGCG
Found at i:1928690 original size:13 final size:13
Alignment explanation
Indices: 1928672--1928696 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1928662 TAATTTATAT
1928672 GTGTGAAAATTTC
1 GTGTGAAAATTTC
1928685 GTGTGAAAATTT
1 GTGTGAAAATTT
1928697 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:1935858 original size:40 final size:40
Alignment explanation
Indices: 1935826--1936021 Score: 230
Period size: 40 Copynumber: 4.9 Consensus size: 40
1935816 CCAGCATGAT
* * * *
1935826 TGCTCTTCGGGACCTAGCCCGGACATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
** * *
1935866 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* * *
1935906 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* * * *
1935946 TGCTCTTCGAGACTTAGCCCGAATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* * *
1935986 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCA
1936022 NNNNNNNNNN
Statistics
Matches: 139, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
Found at i:1935963 original size:80 final size:80
Alignment explanation
Indices: 1935803--1936021 Score: 260
Period size: 80 Copynumber: 2.7 Consensus size: 80
1935793 CACGAAGGCC
* * * * * * * * *
1935803 CGAATACACGTCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATAACACCAGCACAAATG
1 CGAATACA--TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACAAATG
* **
1935868 CTCTTCGGGGTTTAGCA
64 CTCTTCGAGACTTAGCA
* * *
1935885 CGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCT
1 CGAATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACAAATGCT
*
1935950 CTTCGAGACTTAGCC
66 CTTCGAGACTTAGCA
1935965 CGAATACATCACTAGCACGAATGCTCTTC-GAGACTTAGCCCGGATACATCACTAGCA
1 CGAATACATCACTAGCACGAATGCTCTTCGGA-ACTTAGCCCGGATACATCACTAGCA
1936022 NNNNNNNNNN
Statistics
Matches: 118, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 110 0.93
82 6 0.05
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (80 bp):
CGAATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACAAATGCT
CTTCGAGACTTAGCA
Found at i:1935968 original size:23 final size:23
Alignment explanation
Indices: 1935937--1936003 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
1935927 GATACATCAC
1935937 TAGCACGAATGCTCTTCGAGACT
1 TAGCACGAATGCTCTTCGAGACT
* * *
1935960 TAGCCCGAAT--ACATC---AC-
1 TAGCACGAATGCTCTTCGAGACT
1935977 TAGCACGAATGCTCTTCGAGACT
1 TAGCACGAATGCTCTTCGAGACT
1936000 TAGC
1 TAGC
1936004 CCGGATACAT
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
17 9 0.28
18 2 0.06
19 3 0.09
21 3 0.09
22 2 0.06
23 13 0.41
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGAGACT
Found at i:1947977 original size:26 final size:26
Alignment explanation
Indices: 1947948--1948042 Score: 86
Period size: 26 Copynumber: 3.6 Consensus size: 26
1947938 TTAGTTTACC
*
1947948 AAATTACTGAAATACCCCC-AGTTGTA
1 AAATTACCGAAATACCCCCGA-TTGTA
* * * *
1947974 AAATTATC-AAAGTGCCCCCGGTTTATA
1 AAATTACCGAAA-TACCCCC-GATTGTA
**
1948001 AAATTACCGAAATACCATCGATTGTA
1 AAATTACCGAAATACCCCCGATTGTA
1948027 AAATTACCGAAATACC
1 AAATTACCGAAATACC
1948043 TCTGTAGGGT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
25 3 0.06
26 33 0.61
27 15 0.28
28 3 0.06
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.26
Consensus pattern (26 bp):
AAATTACCGAAATACCCCCGATTGTA
Found at i:1948095 original size:27 final size:27
Alignment explanation
Indices: 1948028--1948095 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
1948018 TCGATTGTAA
* *
1948028 AATTACCGAAATACCTCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
1948055 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
1948082 AATTACTGAGATAC
1 AATTACTGAAATAC
1948096 TTTGTGGGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:1948824 original size:27 final size:26
Alignment explanation
Indices: 1948779--1948839 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
1948769 TTTCCTACAT
*
1948779 TATCTGATCTGGTGGCTCTGCCACAA
1 TATCTGATCTGGTGACTCTGCCACAA
* * *
1948805 TATCTGTATTTGGTGACTCTGTCATAA
1 TATCTG-ATCTGGTGACTCTGCCACAA
1948832 TATCTGAT
1 TATCTGAT
1948840 AACTGAGTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (26 bp):
TATCTGATCTGGTGACTCTGCCACAA
Found at i:1948974 original size:6 final size:6
Alignment explanation
Indices: 1948959--1948993 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
1948949 ATTCTATTAC
* *
1948959 CTGATA CTGATT CTGATT CTGATT CTAATT CTGAT
1 CTGATT CTGATT CTGATT CTGATT CTGATT CTGAT
1948994 AATATTTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:1950352 original size:57 final size:57
Alignment explanation
Indices: 1950278--1950392 Score: 158
Period size: 57 Copynumber: 2.0 Consensus size: 57
1950268 AGAACTAAAA
* ** * *
1950278 GCTCAGTTGCAACAATTAACTGATCGAGGATTTGCATGATCGAGTTTTTCACCTTGG
1 GCTCAGTTGCAACAATTAACCGATAAAAGATTTGCAAGATCGAGTTTTTCACCTTGG
* * *
1950335 GCTCAGTTGCAAGAATTAACCGATAAAATATTTGCAAGATCGAGTTTTTCGCCTTGG
1 GCTCAGTTGCAACAATTAACCGATAAAAGATTTGCAAGATCGAGTTTTTCACCTTGG
1950392 G
1 G
1950393 GTGCTCCCAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (57 bp):
GCTCAGTTGCAACAATTAACCGATAAAAGATTTGCAAGATCGAGTTTTTCACCTTGG
Found at i:1953663 original size:19 final size:20
Alignment explanation
Indices: 1953623--1953666 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
1953613 GTCTCTTTAG
* *
1953623 GCATT-CATTTCATGCATCT
1 GCATTACATTGCATGCATAT
1953642 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
1953661 GCATTA
1 GCATTA
1953667 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:1958108 original size:88 final size:88
Alignment explanation
Indices: 1957959--1958728 Score: 1355
Period size: 88 Copynumber: 8.8 Consensus size: 88
1957949 CAATGAAGTT
* * * * *
1957959 AAAGATCTTGCCTTCCTGCATTTATAGTGAAGCAGATCGAAGACATAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1958024 TGTGATAGAGCTGGTTGAAGACA
66 TGTGATAGAGCTGGTTGAAGACA
1958047 AAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1958112 TGTGATAGAGCTGGTTGAAGACA
66 TGTGATAGAGCTGGTTGAAGACA
1958135 AAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1958200 TGTGATAGAGCTGGTTGAAGACA
66 TGTGATAGAGCTGGTTGAAGACA
*
1958223 AAAGATCTTGCCTTCCTACGTTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
* * *
1958288 TATGATGGAACTGGTTGAAGACA
66 TGTGATAGAGCTGGTTGAAGACA
* * *
1958311 AAAGATCTTGCTTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1958376 TGTGATAGAGCTGGTTGAAGACA
66 TGTGATAGAGCTGGTTGAAGACA
1958399 AAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
1958464 TGTCATAGAGCTGGTTGAAGACA
66 TGTGATAGAGCTGGTTGAAGACA
1958487 AAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
1958552 TGTCATAGAGCTGGTTGAAGACA
66 TGTGATAGAGCTGGTTGAAGACA
1958575 AAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
1958640 TGTCATAGAGCTGGTTGAAGACA
66 TGTGATAGAGCTGGTTGAAGACA
* **
1958663 AAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCCTCCATCGG
1 AAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGG
1958726 TTG
65 TTG
1958729 CATTGGAGCT
Statistics
Matches: 658, Mismatches: 23, Indels: 3
0.96 0.03 0.00
Matches are distributed among these distances:
86 5 0.01
87 17 0.03
88 636 0.97
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (88 bp):
AAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
TGTGATAGAGCTGGTTGAAGACA
Found at i:1959023 original size:44 final size:42
Alignment explanation
Indices: 1958975--1959215 Score: 119
Period size: 44 Copynumber: 5.5 Consensus size: 42
1958965 CGATAAACCA
1958975 ATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAATTATCTT
1 ATCTCCCTGAAGTTACAGTGGAGCAGA-TAAAATAAA-TATCTT
* * * * * * **
1959019 ATCTCTCTGAAGTTACAGTAGAGTAGATCACAT-CAGGTCTT
1 ATCTCCCTGAAGTTACAGTGGAGCAGATAAAATAAATATCTT
* * ** *
1959060 ATCTCCCTG-AGATTACAGTGGAACAGACCAAAGAATTTCAGATCTT
1 ATCTCCCTGAAG-TTACAGTGGAGCAGA--TAA-AA-TAAATATCTT
* ***** *
1959106 ATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCGGAGATCTT
1 ATCTCCCTGAAGTTACAGTGGAGCAGA-T-AAAATAAATATCTT
* * ** * * *
1959150 ATCTCCCTG-AGATTATAGCGGAGCAGATCGAAGACACTATCCT
1 ATCTCCCTGAAG-TTACAGTGGAGCAGATAAAATA-AATATCTT
1959193 ATCTCCCTGAAGTTACAGTGGAG
1 ATCTCCCTGAAGTTACAGTGGAG
1959216 TGGGTTAAAA
Statistics
Matches: 146, Mismatches: 40, Indels: 23
0.70 0.19 0.11
Matches are distributed among these distances:
40 2 0.01
41 24 0.16
42 1 0.01
43 29 0.20
44 56 0.38
45 1 0.01
46 32 0.22
47 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
ATCTCCCTGAAGTTACAGTGGAGCAGATAAAATAAATATCTT
Found at i:1960817 original size:40 final size:40
Alignment explanation
Indices: 1960734--1961036 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
1960724 TTGAATGCTG
* * * * * *
1960734 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
1960774 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
1960814 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
1960854 TCCGGGTTAAGTCCTGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
1960894 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
1960934 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
1960974 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
1961013 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
1961037 TGAACGAGGA
Statistics
Matches: 239, Mismatches: 21, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
39 35 0.15
40 196 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:1968932 original size:39 final size:40
Alignment explanation
Indices: 1968728--1968950 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
1968718 TTGAATGCTG
* * * * * *
1968728 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
1968768 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
1968808 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
1968848 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
1968888 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
1968927 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
1968951 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:1968970 original size:79 final size:80
Alignment explanation
Indices: 1968803--1968985 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
1968793 GTGCGAGATA
* * *
1968803 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
1968868 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
1968883 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
1968947 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
1968962 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
1968986 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:1975519 original size:50 final size:50
Alignment explanation
Indices: 1975122--1975508 Score: 560
Period size: 50 Copynumber: 7.7 Consensus size: 50
1975112 TAAGACAGTT
*
1975122 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
* * * *** * *
1975172 TTAGGTCGCATGTGTAGTACTAAGTGCAGACTACTATGCGTACCCGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
* *
1975222 TTTCA-ATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATTG
1 -TT-AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
*
1975273 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
*
1975323 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
* *
1975373 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
* * * *
1975423 ATAAGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
* *
1975473 ATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
1975509 TGCGTACCAG
Statistics
Matches: 308, Mismatches: 26, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
49 1 0.00
50 268 0.87
51 38 0.12
52 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
Found at i:1975743 original size:16 final size:16
Alignment explanation
Indices: 1975722--1975753 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1975712 ATGGAGTAAG
1975722 TGAAATTATGTAAAAA
1 TGAAATTATGTAAAAA
*
1975738 TGAAATTTTGTAAAAA
1 TGAAATTATGTAAAAA
1975754 AACAGTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.34
Consensus pattern (16 bp):
TGAAATTATGTAAAAA
Found at i:1976379 original size:180 final size:179
Alignment explanation
Indices: 1976078--1976413 Score: 478
Period size: 180 Copynumber: 1.9 Consensus size: 179
1976068 CCGAGATATT
* * ** *
1976078 TACCATGAGATAAATAATTTTTACTGAAGAAAGATTGGAGTTGTCGGACAGTGAAATAGGGTATA
1 TACCATGAGATAAATAATTTTTACTGAAGAAAGATCGGACTAATCGGACAGTGAAATAGGGTAAA
* * *
1976143 TTTAATGAATAAACTGTATTAATTGACTAAACAAAAAATTCTTAAAATTTTATGGTAAGAATATA
66 TTTAATGAATAAAATGTACTAATTGACTAAACAAAAAATTCTAAAAATTTTATGGTAAGAATATA
* *
1976208 TGTGAGTTTAGTTTCTGGTAAAATTAGTAGTTCTTAATTTGGAGTCTCG
131 TGTGAGTCTAGTTTCTGGGAAAATTAGTAGTTCTTAATTTGGAGTCTCG
* * * * *
1976257 TACCATGAGATAAATAATTTTTAGTGATGAGAGGTCGGAACTAAT-GGATAGTGAAATAGGGGTA
1 TACCATGAGATAAATAATTTTTACTGAAGAAAGATCGG-ACTAATCGGACAGTGAAATA-GGGTA
* *
1976321 AATTTAATGAATAAAATGTACTAATTGGA-TAAACCAAAAATTCTAAAAATTTTATGGTAAGTAT
64 AATTTAATGAATAAAATGTACTAATT-GACTAAACAAAAAATTCTAAAAATTTTATGGTAAGAAT
1976385 ATATGTGAGTCTAGTTTCTGGGAAAATTA
128 ATATGTGAGTCTAGTTTCTGGGAAAATTA
1976414 ACGAATCTTA
Statistics
Matches: 137, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
179 45 0.33
180 90 0.66
181 2 0.01
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.35
Consensus pattern (179 bp):
TACCATGAGATAAATAATTTTTACTGAAGAAAGATCGGACTAATCGGACAGTGAAATAGGGTAAA
TTTAATGAATAAAATGTACTAATTGACTAAACAAAAAATTCTAAAAATTTTATGGTAAGAATATA
TGTGAGTCTAGTTTCTGGGAAAATTAGTAGTTCTTAATTTGGAGTCTCG
Found at i:1983141 original size:50 final size:50
Alignment explanation
Indices: 1983026--1983415 Score: 358
Period size: 50 Copynumber: 7.7 Consensus size: 50
1983016 TGAGAACACC
* * * *
1983026 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAG-TT-TTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTG--T-A-CCAGATTGTTAGGTCACA
* *
1983078 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACA
* * *
1983128 TGTGTAGTACTAAGTGCAGGCTACTAAGTGTATCAGA-TGCTTAGGTTACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGTCACA
* * *
1983178 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACA
* * * * * * * * *
1983228 TATGTAGTACTAAGTACAGGCTACTATGCGTACCCG-TTAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--GTTAGGTCACA
* * * * * * *
1983279 TGTGTAGTATTATGTGCAGGCTACTACATGTATCAGATGGATAAGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACA
* * * * * *
1983329 TGTTTAGTACTAAGTACAGGCTACTACGTATATC-GAATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATTGTTAGGTCACA
*
1983379 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
1983416 GAGCTTCGGT
Statistics
Matches: 271, Mismatches: 58, Indels: 20
0.78 0.17 0.06
Matches are distributed among these distances:
48 3 0.01
49 8 0.03
50 197 0.73
51 35 0.13
52 28 0.10
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACA
Found at i:1983423 original size:151 final size:151
Alignment explanation
Indices: 1983069--1983423 Score: 444
Period size: 151 Copynumber: 2.4 Consensus size: 151
1983059 AAGACAGTTT
* * * * * * * *
1983069 TAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTG-TTAGGTCGCATGTGT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTCGATCACATGTGT
* * * *
1983133 AGTACTAAGTGCAGGCTACTAAGTGTATCAGATGCTTAGGTTACATGTGTAGTACTAAGTGCAGG
66 AGTACTAAGTGCAGGCTACTAAGTGTATCAGATGCATAAGTCACATGTGTAGTACTAAGTACAGG
* *
1983198 CTACTACGTGTACCGGATTGA
131 CTACTACGTATACCGAATTGA
* * * * * * *
1983219 TAGGTCGCATATGTAGTACTAAGTACAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTCGATCACATGTGT
* * * *
1983284 AGTATTATGTGCAGGCTACTACA-TGTATCAGATGGATAAGTCACATGTTTAGTACTAAGTACAG
66 AGTACTAAGTGCAGGCTACTA-AGTGTATCAGATGCATAAGTCACATGTGTAGTACTAAGTACAG
*
1983348 GCTACTACGTATATCGAATTGA
130 GCTACTACGTATACCGAATTGA
*
1983370 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAGAGCTTCG
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTCG
1983424 GTTACAAGGG
Statistics
Matches: 170, Mismatches: 33, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
150 38 0.22
151 131 0.77
152 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (151 bp):
TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTCGATCACATGTGT
AGTACTAAGTGCAGGCTACTAAGTGTATCAGATGCATAAGTCACATGTGTAGTACTAAGTACAGG
CTACTACGTATACCGAATTGA
Found at i:1984322 original size:180 final size:180
Alignment explanation
Indices: 1983974--1984322 Score: 484
Period size: 180 Copynumber: 1.9 Consensus size: 180
1983964 AGATCTGTAC
* * *
1983974 CATGAGATAAATAATTTTTACTAAAGAAAGATCGGAACTATCAGACAGTCAAATAGGGGTATATT
1 CATGAGATAAATAATTTTTAATAAAGAAAGATCAGAACTATCAGACAGTCAAATAGGGGTAAATT
* *
1984039 TAATGAATAAACTATACTAATTTGCTAAACCAAAAATTCTAAAAATTTTATGGTAATAATATATG
66 TAATGAATAAACTATACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAATATATG
* * * * *
1984104 TAAGTGTAATTTTTGGAAAAATTAGCGGTTCTTAATTTGGAGTCTCGTAT
131 TAAGTATAATTTTTGGAAAAATTAACAGATCATAATTTGGAGTCTCGTAT
* * * ** * *
1984154 CATGAGATAAATAATTTTTAATGAAGAGAGATCAGAACTCTTGGGCAGTGAAATAGGGGTAAATT
1 CATGAGATAAATAATTTTTAATAAAGAAAGATCAGAACTATCAGACAGTCAAATAGGGGTAAATT
*
1984219 TAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAATATATG
66 TAATGAATAAACTATACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAATATATG
* * * *
1984284 TGATTATAGTTTCTTTG-AAAATTAACAGATCATAATTTG
131 TAAGTATAATTT-TTGGAAAAATTAACAGATCATAATTTG
1984323 TAGCTCTGTA
Statistics
Matches: 146, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
180 143 0.98
181 3 0.02
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (180 bp):
CATGAGATAAATAATTTTTAATAAAGAAAGATCAGAACTATCAGACAGTCAAATAGGGGTAAATT
TAATGAATAAACTATACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAATATATG
TAAGTATAATTTTTGGAAAAATTAACAGATCATAATTTGGAGTCTCGTAT
Found at i:1987455 original size:23 final size:23
Alignment explanation
Indices: 1987412--1987460 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
1987402 CTGAACTCAG
* *
1987412 CTTGAAAGAAATCCTAGGTAAAT
1 CTTGAAAGAAATCCCAAGTAAAT
*
1987435 CTTGAAAGAAATCCCAAGTAACT
1 CTTGAAAGAAATCCCAAGTAAAT
1987458 CTT
1 CTT
1987461 TCTCTCGGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (23 bp):
CTTGAAAGAAATCCCAAGTAAAT
Found at i:2007568 original size:31 final size:31
Alignment explanation
Indices: 2007533--2007601 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
2007523 TATCAGAACT
* *
2007533 AGAATCATAATCAAAATCAGAATCAGGTGAC
1 AGAATCAGAATCAAAATCAGAATCAGGTAAC
*
2007564 AGAATCAGAATCAAAATCAGTATCAGGTAAC
1 AGAATCAGAATCAAAATCAGAATCAGGTAAC
2007595 AGAATCA
1 AGAATCA
2007602 AAAATCAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAAAATCAGAATCAGGTAAC
Found at i:2007850 original size:27 final size:27
Alignment explanation
Indices: 2007749--2007850 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
2007739 GCTCAGTTAT
* * *
2007749 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGAAA
* * *
2007776 CAGATATTGTGGTAGAGCCAACAG-AA
1 CAGATATTGTGGCAAAGCCACCAGAAA
*
2007802 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAAAGCCACCAGAAA
* *
2007830 TAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAAAGCCAC
2007851 TTAACAGAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
26 7 0.11
27 47 0.77
28 7 0.11
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAAAGCCACCAGAAA
Found at i:2008037 original size:22 final size:22
Alignment explanation
Indices: 2008009--2008073 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
2007999 GCAAATGCGT
*
2008009 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
2008031 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
2008053 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
2008074 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:2008557 original size:27 final size:27
Alignment explanation
Indices: 2008518--2009207 Score: 788
Period size: 27 Copynumber: 25.6 Consensus size: 27
2008508 TATCCCACAA
* *
2008518 GGTATCTTGGTAATTCCACCCTACAGG
1 GGTATTTTGGTAATTCTACCCTACAGG
*
2008545 GGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTTGGTAATTCTACCCTACAGG
* *
2008572 GGTATTTTAGTAATTCTACCCTACAAG
1 GGTATTTTGGTAATTCTACCCTACAGG
* *
2008599 GGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTTGGTAATTCTACCCTACAGG
* *
2008626 GGTATTGTGATAATTCTACCCTACAGG
1 GGTATTTTGGTAATTCTACCCTACAGG
* * *
2008653 GGTATTTCGATAATTCTACCCTACAAG
1 GGTATTTTGGTAATTCTACCCTACAGG
*
2008680 GGTATTTTGGTAATTCTACCTTACAGG
1 GGTATTTTGGTAATTCTACCCTACAGG
* *
2008707 GGTATTGCT-ATAATTCTACCCTACAGG
1 GGTATT-TTGGTAATTCTACCCTACAGG
* *
2008734 GGTATTTCGGTAATTCTACCCTATAGG
1 GGTATTTTGGTAATTCTACCCTACAGG
**
2008761 GGTATTTTAATAATTCTACCCTACAGG
1 GGTATTTTGGTAATTCTACCCTACAGG
* *
2008788 GGTATTTCGGTAATTCTACCCTACAAG
1 GGTATTTTGGTAATTCTACCCTACAGG
*** *
2008815 GGTATTGCAGTAATTCTACCCTATAGG
1 GGTATTTTGGTAATTCTACCCTACAGG
* ** * *
2008842 TGTATTGCGATAATTCTACCCTACAAG
1 GGTATTTTGGTAATTCTACCCTACAGG
* * * *
2008869 GGTATTTCGGTAATTTTACCCAACAAG
1 GGTATTTTGGTAATTCTACCCTACAGG
* *
2008896 GGAATTTCGGTAATTCTACCCTACAGG
1 GGTATTTTGGTAATTCTACCCTACAGG
* *
2008923 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTTGGTAATTCTACCCTACAGG
** * *
2008950 GGTATTACGATAATTCTACCCTACAAG
1 GGTATTTTGGTAATTCTACCCTACAGG
* *
2008977 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTTGGTAATTCTACCCTACAGG
*
2009004 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTTGGTAATTCTACCCTACAGG
* * *
2009031 GGTATTTCGATAATTCTACCCTATAGG
1 GGTATTTTGGTAATTCTACCCTACAGG
** * * *
2009058 GGTATTACGATAATTTTACCTTACAGG
1 GGTATTTTGGTAATTCTACCCTACAGG
* * *
2009085 GGTATTTCGATAATTTTACCCTACAGG
1 GGTATTTTGGTAATTCTACCCTACAGG
*
2009112 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTTGGTAATTCTACCCTACAGG
* * *
2009139 GGTATTCTAGTAATTCTACCTTACAGG
1 GGTATTTTGGTAATTCTACCCTACAGG
* * *
2009166 GGTATTCTGATAATTCTACCCTACAAG
1 GGTATTTTGGTAATTCTACCCTACAGG
*
2009193 GGTATTTCGGTAATT
1 GGTATTTTGGTAATT
2009208 TTGTAAACTA
Statistics
Matches: 581, Mismatches: 80, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
27 580 1.00
28 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTATTTTGGTAATTCTACCCTACAGG
Found at i:2009234 original size:54 final size:54
Alignment explanation
Indices: 2008518--2009207 Score: 906
Period size: 54 Copynumber: 12.8 Consensus size: 54
2008508 TATCCCACAA
* *
2008518 GGTATCTT-GGTAATTCCACCCTACAGGGGTATTT-TAGTAATTCTACCCTACAGG
1 GGTAT-TTCGGTAATTCTACCCTACAGGGGTATTTCGA-TAATTCTACCCTACAGG
** * * *
2008572 GGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
* *
2008626 GGTATTGT-GATAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAG
1 GGTATT-TCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
* * * *
2008680 GGTATTTTGGTAATTCTACCTTACAGGGGTATTGCTATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
* **
2008734 GGTATTTCGGTAATTCTACCCTATAGGGGTATTTTAATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
* * *
2008788 GGTATTTCGGTAATTCTACCCTACAAGGGTATTGC-AGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA-TAATTCTACCCTACAGG
* * * * * * * *
2008842 TGTATTGCGATAATTCTACCCTACAAGGGTATTTCGGTAATTTTACCCAACAAG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
*
2008896 GGAATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
* * *
2008950 GGTATTACGATAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
*
2009004 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
* * * * *
2009058 GGTATTACGATAATTTTACCTTACAGGGGTATTTCGATAATTTTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
* *
2009112 GGTATTTCGGTAATTCTACCCTACAGGGGTA-TTCTAGTAATTCTACCTTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA-TAATTCTACCCTACAGG
* * *
2009166 GGTA-TTCTGATAATTCTACCCTACAAGGGTATTTCGGTAATT
1 GGTATTTC-GGTAATTCTACCCTACAGGGGTATTTCGATAATT
2009208 TTGTAAACTA
Statistics
Matches: 556, Mismatches: 71, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
53 11 0.02
54 541 0.97
55 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (54 bp):
GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
Found at i:2009234 original size:81 final size:81
Alignment explanation
Indices: 2008528--2009207 Score: 891
Period size: 81 Copynumber: 8.4 Consensus size: 81
2008518 GGTATCTTGG
* * **
2008528 TAATTCCACCCTACAGGGGTATTT-TAGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACC
1 TAATTCTACCCTACAGGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
* *
2008592 CTACAAGGGTATTTCGG
65 CTACAGGGGTATTTCGA
* *
2008609 TAATTCTACCTTACAGGGGTATTGT-GATAATTCTACCCTACAGGGGTATTTCGATAATTCTACC
1 TAATTCTACCCTACAGGGGTATT-TCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
* * *
2008673 CTACAAGGGTATTTTGG
65 CTACAGGGGTATTTCGA
* * *
2008690 TAATTCTACCTTACAGGGGTATTGCTATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
* **
2008755 TATAGGGGTATTTTAA
66 TACAGGGGTATTTCGA
* * * *
2008771 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTGCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
* * *
2008836 TATAGGTGTATTGCGA
66 TACAGGGGTATTTCGA
* * * * * *
2008852 TAATTCTACCCTACAAGGGTATTTCGGTAATTTTACCCAACAAGGGAATTTCGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
2008917 TACAGGGGTATTTCGA
66 TACAGGGGTATTTCGA
* * *
2008933 TAATTCTACCCTACAGGGGTATTACGATAATTCTACCCTACAAGGGTATTTCGATAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
*
2008998 TACAGGGGTATTTCGG
66 TACAGGGGTATTTCGA
* * * * *
2009014 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTATAGGGGTATTACGATAATTTTACCT
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
2009079 TACAGGGGTATTTCGA
66 TACAGGGGTATTTCGA
* * *
2009095 TAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTA-TTCTAGTAATTCTACC
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC-GGTAATTCTACC
*
2009159 TTACAGGGGTA-TTCTGA
65 CTACAGGGGTATTTC-GA
* *
2009176 TAATTCTACCCTACAAGGGTATTTCGGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGATAATT
2009208 TTGTAAACTA
Statistics
Matches: 537, Mismatches: 58, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
80 5 0.01
81 530 0.99
82 2 0.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
TACAGGGGTATTTCGA
Found at i:2009253 original size:54 final size:53
Alignment explanation
Indices: 2009195--2009325 Score: 154
Period size: 54 Copynumber: 2.5 Consensus size: 53
2009185 CCTACAAGGG
* *
2009195 TATTTCGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAATCGAGGA
1 TATTTCGGTAATTTTGTAAACTAAGGGTACTTTAGTAATTTTACAAAT-GAGGA
* * ** * * *
2009249 TATTTGGGTAATTTTATAAACTGGGGGTACTTTAGTAATTTTACAACTGGGGG
1 TATTTCGGTAATTTTGTAAACTAAGGGTACTTTAGTAATTTTACAAATGAGGA
* *
2009302 TATTTCAGTAATTTGGTAAACTAA
1 TATTTCGGTAATTTTGTAAACTAA
2009326 AGTATTCTAA
Statistics
Matches: 62, Mismatches: 15, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
53 21 0.34
54 41 0.66
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (53 bp):
TATTTCGGTAATTTTGTAAACTAAGGGTACTTTAGTAATTTTACAAATGAGGA
Found at i:2009301 original size:26 final size:27
Alignment explanation
Indices: 2009192--2009315 Score: 101
Period size: 27 Copynumber: 4.6 Consensus size: 27
2009182 TACCCTACAA
* * **
2009192 GGGTATTTCGGTAATTTTGTAAACTAA
1 GGGTATTTCAGTAATTTTATAAACTGG
** * *
2009219 GGGTATTTTGGTAATTTTACAAA-TCGA
1 GGGTATTTCAGTAATTTTATAAACT-GG
* **
2009246 GGATATTTGGGTAATTTTATAAACTGG
1 GGGTATTTCAGTAATTTTATAAACTGG
*
2009273 GGGTACTTT-AGTAATTTTA-CAACTGG
1 GGGTA-TTTCAGTAATTTTATAAACTGG
2009299 GGGTATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
2009316 GGTAAACTAA
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
25 3 0.04
26 20 0.24
27 55 0.67
28 4 0.05
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.41
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTATAAACTGG
Found at i:2013152 original size:19 final size:20
Alignment explanation
Indices: 2013128--2013165 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
2013118 GGTACCACCA
2013128 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
2013147 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
2013166 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:2013509 original size:46 final size:46
Alignment explanation
Indices: 2013389--2013512 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 46
2013379 TAACCCGCCC
*
2013389 CTAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTTAGTTACAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-GC-TAGTTACAT
* * * *
2013437 CTCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-C-ATTTGCAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCTAGTTACAT
2013480 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 -C-TAAGTGAACTCGGACTCAACTCAACGAGTT
2013513 TGGATGCTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.09
44 1 0.02
45 3 0.05
46 25 0.38
47 28 0.42
48 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCTAGTTACAT
Found at i:2013535 original size:46 final size:45
Alignment explanation
Indices: 2013392--2013535 Score: 125
Period size: 46 Copynumber: 3.1 Consensus size: 45
2013382 CCCGCCCCTA
* *
2013392 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCA---ACCATCT
* * * *
2013439 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
*
2013485 AGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
2013531 AGTGA
1 AGTGA
2013536 CATGTCACTT
Statistics
Matches: 77, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 32 0.42
47 30 0.39
48 2 0.03
49 3 0.04
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:2013973 original size:30 final size:30
Alignment explanation
Indices: 2013939--2013998 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
2013929 ATTTAATACG
2013939 AACTTTTAAAAAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
** *
2013969 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
2013999 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTTAAAAAATTACACTTTTGCCCCTA
Found at i:2018536 original size:24 final size:24
Alignment explanation
Indices: 2018489--2018536 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2018479 GGCACTCAGG
* *
2018489 TTTAACAAATCTTGAATTCCCTAC
1 TTTAACAAATCTCGAATTCACTAC
*
2018513 TTTAACAAATCTCGAGTTCACTAC
1 TTTAACAAATCTCGAATTCACTAC
2018537 ACTGGCTGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.35
Consensus pattern (24 bp):
TTTAACAAATCTCGAATTCACTAC
Found at i:2020898 original size:47 final size:47
Alignment explanation
Indices: 2020829--2021001 Score: 346
Period size: 47 Copynumber: 3.7 Consensus size: 47
2020819 GCCCCTAAGT
2020829 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
2020876 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
2020923 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
2020970 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
2021002 TCAACCATCC
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:2025332 original size:25 final size:25
Alignment explanation
Indices: 2025290--2025373 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 25
2025280 CTAGAGGCCT
2025290 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
* **
2025314 TGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
2025339 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
2025365 AGCCCTTTT
1 AGCCCTTTT
2025374 GCACTTCCTC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
23 5 0.10
24 4 0.08
25 32 0.63
26 10 0.20
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:2026310 original size:27 final size:27
Alignment explanation
Indices: 2026280--2026683 Score: 186
Period size: 27 Copynumber: 14.9 Consensus size: 27
2026270 TTTCATCCTA
* * *
2026280 CAAGGGTGTTTTGGTAAATCTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* **
2026307 CAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
2026334 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** * * *
2026361 TGAGGGTATTTCGATAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
2026387 CCAGCGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTACAAAT
* * * **
2026414 CTAGGGGTGTTTTGGTAATTCTACCCTAT
1 C-AAGGGTATTTTGGTAATTTTA-CAAAT
* * *
2026443 -AGGGGTATTTTAGTAATTTCAC-AAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *** **
2026468 CGAGGGTAAAATGGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
***** * **
2026495 CAAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* ***** * *
2026522 CGAGGGTAAAACAGTAATTCTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** * **
2026549 TGAGGGTACTTTGGTAATTTTTACAGGT
1 CAAGGGTATTTTGGTAA-TTTTACAAAT
* **
2026577 CGAGGGTATTTTAATAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
2026604 CAGGGGGTATTTTAGTAATTTTACAAAC
1 CA-AGGGTATTTTGGTAATTTTACAAAT
* * **
2026632 CAGGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
2026659 CGATGGTACTTTGGTAATTTTACAA
1 CAAGGGTATTTTGGTAATTTTACAA
2026684 TTTGAGGGAA
Statistics
Matches: 292, Mismatches: 77, Indels: 16
0.76 0.20 0.04
Matches are distributed among these distances:
25 2 0.01
26 16 0.05
27 228 0.78
28 46 0.16
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:2026594 original size:28 final size:29
Alignment explanation
Indices: 2026563--2026652 Score: 98
Period size: 28 Copynumber: 3.2 Consensus size: 29
2026553 GGTACTTTGG
**
2026563 TAATTTTTACAGGTC-GAGGGTATTTTAA
1 TAATTTTTACAAATCAGAGGGTATTTTAA
* *
2026591 TAA-TTTTACAAATCAGGGGGTATTTTAG
1 TAATTTTTACAAATCAGAGGGTATTTTAA
* *
2026619 TAA-TTTTACAAACCAG-GGGTATTTTAG
1 TAATTTTTACAAATCAGAGGGTATTTTAA
2026646 TAATTTT
1 TAATTTT
2026653 GTAAATCGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 23 0.42
28 32 0.58
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (29 bp):
TAATTTTTACAAATCAGAGGGTATTTTAA
Found at i:2026639 original size:55 final size:54
Alignment explanation
Indices: 2026536--2026683 Score: 136
Period size: 55 Copynumber: 2.7 Consensus size: 54
2026526 GGTAAAACAG
* * * * ***
2026536 TAATTCTATAAATTGAGGGTACTTTGGTAATTTTTACAGGTC-GAGGGTATTTTAA
1 TAATTTTACAAATCGAGGGTACTTTAGTAA-TTTTACAAACCAG-GGGTATTTTAA
* * *
2026591 TAATTTTACAAATCAGGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTAG
1 TAATTTTACAAATC-GAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTTTAA
** * *
2026646 TAATTTTGTAAATCGATGGTACTTTGGTAATTTTACAA
1 TAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAA
2026684 TTTGAGGGAA
Statistics
Matches: 75, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
54 20 0.27
55 41 0.55
56 14 0.19
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
TAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTTTAA
Found at i:2029069 original size:42 final size:42
Alignment explanation
Indices: 2029022--2029111 Score: 144
Period size: 42 Copynumber: 2.1 Consensus size: 42
2029012 GCCCTTAGGA
* ** *
2029022 CCATTTCAATATCACATGTAATGTCAATGGATGTATGCAAGC
1 CCATTTCAATATCACATGAAATACCAATGAATGTATGCAAGC
2029064 CCATTTCAATATCACATGAAATACCAATGAATGTATGCAAGC
1 CCATTTCAATATCACATGAAATACCAATGAATGTATGCAAGC
2029106 CCATTT
1 CCATTT
2029112 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (42 bp):
CCATTTCAATATCACATGAAATACCAATGAATGTATGCAAGC
Found at i:2029267 original size:37 final size:37
Alignment explanation
Indices: 2029217--2029292 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
2029207 ACTGGCATCA
*
2029217 TAGCTGCTTTATCATATAACTGGAGGCCTAGCCTCTT
1 TAGCTGCTTTATCATATAACTGGAGGCCTAGCCTATT
*
2029254 TAGCTGCTTTATCATATATCTGGAGGCCTAGCCTATT
1 TAGCTGCTTTATCATATAACTGGAGGCCTAGCCTATT
2029291 TA
1 TA
2029293 ATAACTGGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.37
Consensus pattern (37 bp):
TAGCTGCTTTATCATATAACTGGAGGCCTAGCCTATT
Found at i:2029340 original size:26 final size:26
Alignment explanation
Indices: 2029295--2029392 Score: 162
Period size: 26 Copynumber: 3.8 Consensus size: 26
2029285 CCTATTTAAT
**
2029295 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
2029320 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
2029346 AATTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
2029372 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
2029393 GCACTTCCTC
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
25 10 0.15
26 58 0.85
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:2030256 original size:27 final size:27
Alignment explanation
Indices: 2030195--2030258 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
2030185 GGCGTATTCA
2030195 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * *
2030222 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
2030249 TCTTTTTACC
1 TCATTTTACC
2030259 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:2030414 original size:27 final size:27
Alignment explanation
Indices: 2030384--2030440 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
2030374 CTGATCGAGA
*
2030384 GTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTAGTAATTTTGTAAACCAAGG
**
2030411 GTATTTTAGTAATTTTGTAAATTAAGG
1 GTATTTTAGTAATTTTGTAAACCAAGG
2030438 GTA
1 GTA
2030441 AAATAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.44
Consensus pattern (27 bp):
GTATTTTAGTAATTTTGTAAACCAAGG
Found at i:2030450 original size:27 final size:27
Alignment explanation
Indices: 2030392--2030514 Score: 129
Period size: 27 Copynumber: 4.6 Consensus size: 27
2030382 GAGTATTTTG
* * ***
2030392 GTAATTTTGTAAACCAAGGGTATTTTA
1 GTAATTCTGTAAATCAAGGGTAAAATA
* *
2030419 GTAATTTTGTAAATTAAGGGTAAAATA
1 GTAATTCTGTAAATCAAGGGTAAAATA
* * *
2030446 ATAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCAAGGGTAAAATA
* *
2030473 TTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCAAGGGTAAAATA
*
2030500 GTAATTCTATAAATC
1 GTAATTCTGTAAATC
2030515 GAGGATACTT
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (27 bp):
GTAATTCTGTAAATCAAGGGTAAAATA
Found at i:2030515 original size:27 final size:27
Alignment explanation
Indices: 2030417--2030518 Score: 141
Period size: 27 Copynumber: 3.8 Consensus size: 27
2030407 AAGGGTATTT
* **
2030417 TAGTAATTTTGTAAATTAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
2030444 TAATAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
2030471 CATTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
2030498 TAGTAATTCTATAAATCGAGG
1 TAGTAATTCTGTAAATCGAGG
2030519 ATACTTTGGT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:2030569 original size:55 final size:55
Alignment explanation
Indices: 2030501--2030648 Score: 140
Period size: 55 Copynumber: 2.7 Consensus size: 55
2030491 GGTAAAATAG
* * ** *
2030501 TAATTCTATAAATCGAGGATACTTTGGTAATTTTTACAGGTCGAGGG-TATTTCAA
1 TAATTTTATAAATCGAGGGTACTTTGGTAATTTTTACA-AACCAGGGATATTTCAA
* * * * * *
2030556 TAATTTTACAAATCAGGGGGTATTTTAGTAA-TTTTACAAACCAGGGATATTTTAG
1 TAATTTTATAAATC-GAGGGTACTTTGGTAATTTTTACAAACCAGGGATATTTCAA
* *
2030611 TAATTTTGTAAATCTAGGGTACTTTGGTAA-TTTTACAA
1 TAATTTTATAAATCGAGGGTACTTTGGTAATTTTTACAA
2030649 TTTGAGGGCA
Statistics
Matches: 74, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
54 25 0.34
55 37 0.50
56 12 0.16
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.40
Consensus pattern (55 bp):
TAATTTTATAAATCGAGGGTACTTTGGTAATTTTTACAAACCAGGGATATTTCAA
Found at i:2030576 original size:28 final size:28
Alignment explanation
Indices: 2030545--2030601 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
2030535 TACAGGTCGA
*
2030545 GGGTATTTCAATAATTTTACAAATCAGG
1 GGGTATTTCAATAATTTTACAAACCAGG
* *
2030573 GGGTATTTTAGTAATTTTACAAACCAGG
1 GGGTATTTCAATAATTTTACAAACCAGG
2030601 G
1 G
2030602 ATATTTTAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (28 bp):
GGGTATTTCAATAATTTTACAAACCAGG
Found at i:2030614 original size:27 final size:26
Alignment explanation
Indices: 2030544--2030648 Score: 102
Period size: 27 Copynumber: 3.9 Consensus size: 26
2030534 TTACAGGTCG
* * *
2030544 AGGGTATTTCAATAATTTTACAAATC
1 AGGGTATTTTAGTAATTTTACAAACC
2030570 AGGGGGTATTTTAGTAATTTTACAAACC
1 A--GGGTATTTTAGTAATTTTACAAACC
** *
2030598 AGGGATATTTTAGTAATTTTGTAAATCT
1 AGGG-TATTTTAGTAATTTTACAAA-CC
* *
2030626 AGGGTACTTTGGTAATTTTACAA
1 AGGGTATTTTAGTAATTTTACAA
2030649 TTTGAGGGCA
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
26 4 0.06
27 33 0.51
28 28 0.43
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (26 bp):
AGGGTATTTTAGTAATTTTACAAACC
Found at i:2044073 original size:29 final size:29
Alignment explanation
Indices: 2043989--2044065 Score: 129
Period size: 29 Copynumber: 2.7 Consensus size: 29
2043979 TGAGCATGAC
*
2043989 TATAAATGTGAATTGGGCTTGATGGACCA
1 TATAAATGTGAATTGGGCCTGATGGACCA
*
2044018 TATAAATGTGAATTAGGCCTGATGGACCA
1 TATAAATGTGAATTGGGCCTGATGGACCA
2044047 TATAAATGTG-ATTGGGCCT
1 TATAAATGTGAATTGGGCCT
2044066 AGTGGGACAT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 8 0.18
29 37 0.82
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (29 bp):
TATAAATGTGAATTGGGCCTGATGGACCA
Found at i:2051168 original size:28 final size:28
Alignment explanation
Indices: 2051135--2051233 Score: 100
Period size: 28 Copynumber: 3.7 Consensus size: 28
2051125 TATCTAAGAT
* *
2051135 ATGGCATTGTGCTTAGTGAAATAAGACC
1 ATGGCATTGTGCTAAGTGAAATAAGTCC
2051163 ATGGCA---T-CTAAGTGAAATAAGTCC
1 ATGGCATTGTGCTAAGTGAAATAAGTCC
* * * *
2051187 ATGGTAATGTGCTAACTAAAATAAGTCC
1 ATGGCATTGTGCTAAGTGAAATAAGTCC
2051215 ATGGCA-TGATGCTAAGTGA
1 ATGGCATTG-TGCTAAGTGA
2051234 GAAATTTCCT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
24 20 0.34
25 1 0.02
27 3 0.05
28 34 0.59
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.27
Consensus pattern (28 bp):
ATGGCATTGTGCTAAGTGAAATAAGTCC
Found at i:2051312 original size:51 final size:51
Alignment explanation
Indices: 2051257--2051451 Score: 252
Period size: 51 Copynumber: 3.8 Consensus size: 51
2051247 TGAACCTTAG
*
2051257 GAATAAAATAGCTTTGGATACAAGTGTGGTACTATGTGAGGGCCACTTTGT
1 GAATAAAATAGCTTTGGATACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
2051308 GAATATAATAGCTTT--ATACAGAAGTGTGGTA-TAATGTGAAGGTCACTTTTT
1 GAATAAAATAGCTTTGGATAC--AAGTGTGGTACT-ATGTGAAGGCCACTTTGT
* * *
2051359 GAATAAAATGGATTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGATACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
2051410 GAATAAAATAACTTTGGCTACAAGGGTGGTACTATGTGAAGG
1 GAATAAAATAGCTTTGGATACAAGTGTGGTACTATGTGAAGG
2051452 TCACAGTGTA
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
49 4 0.03
50 1 0.01
51 113 0.93
52 1 0.01
53 3 0.02
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.31
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGATACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:2058500 original size:25 final size:25
Alignment explanation
Indices: 2058466--2058521 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
2058456 CTTGGGTGTC
2058466 GTCTTTATCAATTGCTTTTCTTCAA
1 GTCTTTATCAATTGCTTTTCTTCAA
2058491 GTCTTTATCAATTGCTTTTCTTCAA
1 GTCTTTATCAATTGCTTTTCTTCAA
2058516 GTCTTT
1 GTCTTT
2058522 TTCCAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.18, C:0.20, G:0.09, T:0.54
Consensus pattern (25 bp):
GTCTTTATCAATTGCTTTTCTTCAA
Found at i:2058567 original size:13 final size:13
Alignment explanation
Indices: 2058551--2058583 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2058541 TTTAATTAAA
*
2058551 TTAGTTAATTAGT
1 TTAGATAATTAGT
2058564 TTAGATAATTAGT
1 TTAGATAATTAGT
2058577 TTA-ATAA
1 TTAGATAA
2058584 ACAAACCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:2063142 original size:30 final size:30
Alignment explanation
Indices: 2063108--2063168 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
2063098 TCCTTAACTC
2063108 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
2063138 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
2063168 A
1 A
2063169 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:2076449 original size:51 final size:51
Alignment explanation
Indices: 2076368--2076515 Score: 235
Period size: 51 Copynumber: 2.9 Consensus size: 51
2076358 TGAACATTAA
*
2076368 GAATAAAATAGCTTTGGACACAAGTATGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
2076419 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
2076470 GAATAAAATAGCTTTGG-CTACAAGGGCGATACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
2076516 CGTGTATCCG
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 1 0.01
51 89 0.99
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:2084063 original size:45 final size:45
Alignment explanation
Indices: 2083963--2084087 Score: 143
Period size: 45 Copynumber: 2.8 Consensus size: 45
2083953 TTTTCTCAAA
* *
2083963 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
2084005 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
** * *
2084049 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAA
2084088 CAATCAAGTC
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 8 0.11
45 38 0.53
46 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:2084485 original size:38 final size:38
Alignment explanation
Indices: 2084437--2084638 Score: 287
Period size: 38 Copynumber: 5.3 Consensus size: 38
2084427 GGCACGAAGG
* * *
2084437 CCCGAATATAATACCAGCACTAAGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
2084475 CCCAGATATAATACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** * *
2084513 CCCGGATATTTTACCAGCAAGAAGCCTGCGGGTTTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
2084552 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
2084591 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
2084629 CCCGGATATA
1 CCCGGATATA
2084639 CATCGAATAT
Statistics
Matches: 144, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
38 105 0.73
39 10 0.07
40 29 0.20
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:2084575 original size:78 final size:76
Alignment explanation
Indices: 2084437--2084638 Score: 296
Period size: 78 Copynumber: 2.6 Consensus size: 76
2084427 GGCACGAAGG
* * *
2084437 CCCGAATATAATACCAGCACTAAGCCTGCGGGATTTATCCCAGATATAATACCAGCACGAAGCCT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
2084502 GCAGGATTTAA
66 GCAGGATTTAA
* ** * *
2084513 CCCGGATATTTTACCAGCAAGAAGCCTGCGGGTTTTTAAGCCCGGATATAATACCAGCACGAAGC
1 CCCGAATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGGATATAATACCAGCACGAAGC
*
2084578 CTGCGGGATTTAA
64 CTGCAGGATTTAA
*
2084591 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAACCCGGATATA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
2084639 CATCGAATAT
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
76 37 0.34
77 9 0.08
78 63 0.58
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (76 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
GCAGGATTTAA
Found at i:2093126 original size:39 final size:40
Alignment explanation
Indices: 2093031--2093292 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
2093021 TTGAATGATG
*
2093031 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
2093069 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
2093110 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
2093149 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
2093188 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
2093227 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
2093266 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
2093293 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:2112590 original size:44 final size:43
Alignment explanation
Indices: 2112536--2112698 Score: 136
Period size: 43 Copynumber: 3.8 Consensus size: 43
2112526 CTGATATGTG
* *
2112536 TTATCGTGTAAGACTATGTCTGGGACGTTGGCATCG-ACTTATGAT
1 TTAT-GTGTAAGACCATGTCTGGGACGTTGGCATCGTA-GT-TGAT
* *
2112581 TTATGTGTAAGACCATGTCTGGGACATTGGGATCGTAGTTGAT
1 TTATGTGTAAGACCATGTCTGGGACGTTGGCATCGTAGTTGAT
* * * *
2112624 TT-CGTGTAAGACCCTGTCTGGGACAG-TGGCATCAATATTTGA-
1 TTATGTGTAAGACCATGTCTGGGAC-GTTGGCATC-GTAGTTGAT
** * * *
2112666 TTACATGTAAGACCACGTTTGGGATGTTGGCAT
1 TTATGTGTAAGACCATGTCTGGGACGTTGGCAT
2112699 TGTATGAGCT
Statistics
Matches: 98, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
42 29 0.30
43 35 0.36
44 29 0.30
45 5 0.05
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (43 bp):
TTATGTGTAAGACCATGTCTGGGACGTTGGCATCGTAGTTGAT
Found at i:2112642 original size:42 final size:43
Alignment explanation
Indices: 2112539--2112656 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 43
2112529 ATATGTGTTA
* * *
2112539 TCGTGTAAGACTATGTCTGGGACGTTGGCATCGACTTATGATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCGACGTATGATT
* *
2112582 TATGTGTAAGACCATGTCTGGGACATTGGGATCGTA-GT-TGATT
1 T-CGTGTAAGACCATGTCTGGGACATTGGCATCG-ACGTATGATT
* *
2112625 TCGTGTAAGACCCTGTCTGGGACAGTGGCATC
1 TCGTGTAAGACCATGTCTGGGACATTGGCATC
2112657 AATATTTGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 27 0.42
43 7 0.11
44 29 0.45
45 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTGGGACATTGGCATCGACGTATGATT
Found at i:2112689 original size:43 final size:42
Alignment explanation
Indices: 2112586--2112689 Score: 111
Period size: 42 Copynumber: 2.5 Consensus size: 42
2112576 ATGATTTATG
* * * * * *
2112586 TGTAAGACCATGTCTGGGACATTGGGATCGTAGTTGATTTCG
1 TGTAAGACCACGTCTGGGACAGTGGCATCATAGTTGATTACA
*
2112628 TGTAAGACC-CTGTCTGGGACAGTGGCATCAATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATC-ATAGTTGATTACA
*
2112671 TGTAAGACCACGTTTGGGA
1 TGTAAGACCACGTCTGGGA
2112690 TGTTGGCATT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 25 0.49
43 25 0.49
44 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCATAGTTGATTACA
Found at i:2124817 original size:44 final size:44
Alignment explanation
Indices: 2124754--2124842 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
2124744 TAATGGATGA
2124754 TTTCATGGATTAAGTATGGATGTATACTAATTACTTGGTAAGTT
1 TTTCATGGATTAAGTATGGATGTATACTAATTACTTGGTAAGTT
2124798 TTTCATGGATTAAGTATGGATGTATACTAATTACTTGGTAAGTT
1 TTTCATGGATTAAGTATGGATGTATACTAATTACTTGGTAAGTT
2124842 T
1 T
2124843 ACTTTCCGGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (44 bp):
TTTCATGGATTAAGTATGGATGTATACTAATTACTTGGTAAGTT
Found at i:2128357 original size:8 final size:8
Alignment explanation
Indices: 2128339--2128382 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
2128329 TCTCTTTGCT
2128339 TTAGTTTAA
1 TTAG-TTAA
2128348 TTAGTTAA
1 TTAGTTAA
2128356 TTAGTTAA
1 TTAGTTAA
2128364 TTAG-T--
1 TTAGTTAA
2128369 TTAGTTAA
1 TTAGTTAA
2128377 TTAGTT
1 TTAGTT
2128383 TAATAAACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
5 4 0.12
6 1 0.03
7 1 0.03
8 22 0.69
9 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.55
Consensus pattern (8 bp):
TTAGTTAA
Found at i:2128374 original size:13 final size:13
Alignment explanation
Indices: 2128356--2128384 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2128346 AATTAGTTAA
2128356 TTAGTTAATTAGT
1 TTAGTTAATTAGT
2128369 TTAGTTAATTAGT
1 TTAGTTAATTAGT
2128382 TTA
1 TTA
2128385 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:2132231 original size:19 final size:20
Alignment explanation
Indices: 2132187--2132232 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2132177 GGCTGTACAC
*
2132187 CCACGCAACACGCCCGTGCTCG
1 CCAC-CAACACGCCCATGC-CG
2132209 CCACCAACACGCCCATG-CG
1 CCACCAACACGCCCATGCCG
2132228 CCACC
1 CCACC
2132233 CTACAGTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
21 12 0.52
22 4 0.17
ACGTcount: A:0.22, C:0.54, G:0.17, T:0.07
Consensus pattern (20 bp):
CCACCAACACGCCCATGCCG
Found at i:2134713 original size:8 final size:8
Alignment explanation
Indices: 2134700--2134728 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
2134690 TAACCCTCAT
2134700 CATTAACC
1 CATTAACC
2134708 CATTAACC
1 CATTAACC
2134716 CATTAACC
1 CATTAACC
2134724 CATTA
1 CATTA
2134729 TTGTTGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (8 bp):
CATTAACC
Found at i:2136646 original size:12 final size:12
Alignment explanation
Indices: 2136629--2136654 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2136619 TTTAGTTTAA
2136629 TTAGTTAATTAG
1 TTAGTTAATTAG
2136641 TTAGTTAATTAG
1 TTAGTTAATTAG
2136653 TT
1 TT
2136655 TAATAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (12 bp):
TTAGTTAATTAG
Found at i:2153808 original size:42 final size:43
Alignment explanation
Indices: 2153698--2153808 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 43
2153688 AAAGCTCTTA
* *
2153698 CAATGCCAAC-GTCCTAGACATGGTCTTACATGTAATCAAATAT
1 CAATGCC-ACTGTCCTAGACATGGTCTTACACGAAATCAAATAT
* * *
2153741 CGATGCCACTGTCCTAGACAGGGTCTTACACGAAATCGAATA-
1 CAATGCCACTGTCCTAGACATGGTCTTACACGAAATCAAATAT
* *
2153783 CAATGTCGA-TGTCCCAGACATGGTCT
1 CAATG-CCACTGTCCTAGACATGGTCT
2153809 GTCATGTAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 21 0.37
43 36 0.63
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
CAATGCCACTGTCCTAGACATGGTCTTACACGAAATCAAATAT
Found at i:2157449 original size:40 final size:40
Alignment explanation
Indices: 2157402--2157525 Score: 135
Period size: 40 Copynumber: 3.0 Consensus size: 40
2157392 TATGTGTAAG
* * *
2157402 ACCATGTCAGGGACATCGTCGTCGTATTTGATTTCGTGTA
1 ACCATGTCAGGGACATCGGCATCGTATTTGATTTCATGTA
2157442 ACCATGTCAGGGACATCGGCATCGTATTTGATTTCATGTAA
1 ACCATGTCAGGGACATCGGCATCGTATTTGATTTCATGT-A
* * *
2157483 GACCCTGTCTA-GGACAGT-GGCATCGATACTTGATTACATGTA
1 -ACCATGTC-AGGGACA-TCGGCATCG-TATTTGATTTCATGTA
2157525 A
1 A
2157526 GACCACGTCT
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
40 36 0.49
41 2 0.03
42 20 0.27
43 15 0.21
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (40 bp):
ACCATGTCAGGGACATCGGCATCGTATTTGATTTCATGTA
Found at i:2160316 original size:25 final size:25
Alignment explanation
Indices: 2160287--2160334 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
2160277 TTATAACATG
* * *
2160287 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
2160312 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
2160335 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:2160401 original size:20 final size:20
Alignment explanation
Indices: 2160378--2160431 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
2160368 TAAACATGGT
2160378 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
2160398 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
2160418 ATGTATGATATGCA
1 ATGTATGATATGCA
2160432 TTTGCACCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:2160546 original size:25 final size:25
Alignment explanation
Indices: 2160517--2160564 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
2160507 TTATAACATG
* * *
2160517 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
2160542 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
2160565 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:2160605 original size:230 final size:230
Alignment explanation
Indices: 2160202--2160661 Score: 893
Period size: 230 Copynumber: 2.0 Consensus size: 230
2160192 AGACTCACTG
*
2160202 TTTGCACACATGAATTGTTAGTAACCGTTAATGAACATGGAAACCCTAATTTTTGGTAAAATTAC
1 TTTGCACACATGAATTGTTAGTAACCGTTAATGAAAATGGAAACCCTAATTTTTGGTAAAATTAC
2160267 AAGATTACCCTTATAACATGAAAATGACCGTTTTGCCCCTAGGTAAAAATGACCATTATACCCCT
66 AAGATTACCCTTATAACATGAAAATGACCGTTTTGCCCCTAGGTAAAAATGACCATTATACCCCT
2160332 AGGGTTTATGTATGAATTTAATACATGGGATTTTGATAAACATGGTATGTATGATATGCACATGA
131 AGGGTTTATGTATGAATTTAATACATGGGATTTTGATAAACATGGTATGTATGATATGCACATGA
2160397 CATGTATGATATGCACATGATATGTATGATATGCA
196 CATGTATGATATGCACATGATATGTATGATATGCA
* *
2160432 TTTGCACCCATGAATTGTTGGTAACCGTTAATGAAAATGGAAACCCTAATTTTTGGTAAAATTAC
1 TTTGCACACATGAATTGTTAGTAACCGTTAATGAAAATGGAAACCCTAATTTTTGGTAAAATTAC
2160497 AAGATTACCCTTATAACATGAAAATGACCGTTTTGCCCCTAGGTAAAAATGACCATTATACCCCT
66 AAGATTACCCTTATAACATGAAAATGACCGTTTTGCCCCTAGGTAAAAATGACCATTATACCCCT
2160562 AGGGTTTATGTATGAATTTAATACATGGGATTTTGATAAACATGGTATGTATGATATGCACATGA
131 AGGGTTTATGTATGAATTTAATACATGGGATTTTGATAAACATGGTATGTATGATATGCACATGA
2160627 CATGTATGATATGCACATGATATGTATGATATGCA
196 CATGTATGATATGCACATGATATGTATGATATGCA
2160662 CATGATGTAT
Statistics
Matches: 227, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
230 227 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (230 bp):
TTTGCACACATGAATTGTTAGTAACCGTTAATGAAAATGGAAACCCTAATTTTTGGTAAAATTAC
AAGATTACCCTTATAACATGAAAATGACCGTTTTGCCCCTAGGTAAAAATGACCATTATACCCCT
AGGGTTTATGTATGAATTTAATACATGGGATTTTGATAAACATGGTATGTATGATATGCACATGA
CATGTATGATATGCACATGATATGTATGATATGCA
Found at i:2160648 original size:11 final size:11
Alignment explanation
Indices: 2160612--2160667 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
2160602 CATGGTATGT
2160612 ATGATATGCAC
1 ATGATATGCAC
* *
2160623 ATGACATG--T
1 ATGATATGCAC
2160632 ATGATATGCAC
1 ATGATATGCAC
*
2160643 ATGATATG--T
1 ATGATATGCAC
2160652 ATGATATGCAC
1 ATGATATGCAC
2160663 ATGAT
1 ATGAT
2160668 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:2160667 original size:20 final size:20
Alignment explanation
Indices: 2160601--2160667 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
2160591 ATTTTGATAA
*
2160601 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
2160621 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
2160641 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
2160661 ACATGAT
1 ACATGAT
2160668 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:2160838 original size:24 final size:23
Alignment explanation
Indices: 2160718--2160836 Score: 193
Period size: 23 Copynumber: 5.1 Consensus size: 23
2160708 AGGAAGTGAA
*
2160718 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
2160741 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
2160764 AAAGGGCTTATGCCCCACTTATT
1 AAAGGGCTTATGCCCCAGTTATT
2160787 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
2160810 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
2160834 AAA
1 AAA
2160837 AGAGGCTAGG
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
23 67 0.75
24 22 0.25
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:2161085 original size:31 final size:31
Alignment explanation
Indices: 2161050--2161113 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
2161040 CGTTTACAGT
2161050 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
2161081 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
2161112 AA
1 AA
2161114 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:2164828 original size:30 final size:30
Alignment explanation
Indices: 2164794--2164853 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
2164784 ATTTAATACG
2164794 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
2164824 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
2164854 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:2171332 original size:68 final size:67
Alignment explanation
Indices: 2171260--2171409 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
2171250 CATCATGTGT
* * * *
2171260 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
2171322 ATGTAG
62 ATGTAG
** * *
2171328 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
2171393 AG
66 AG
2171395 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
2171410 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:2171365 original size:64 final size:64
Alignment explanation
Indices: 2171284--2171467 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
2171274 AGACATTATG
* *
2171284 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
2171348 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
2171413 AA
63 AA
* * * *
2171415 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
2171468 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Done.