Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 235 of 378
Found at i:69549202 original size:39 final size:40
Alignment explanation
Indices: 69549130--69549370 Score: 235
Period size: 40 Copynumber: 6.1 Consensus size: 40
69549120 ACCCAATTAT
* ** *
69549130 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* * *
69549168 CGTT-GGGTCTTAGCCCGGATATGGTCACTAGCACAAATGC
1 C-TTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
*
69549208 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* *
69549248 CTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATAC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
* *
69549288 CTTC-GAACTTAGCCCGGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
* * * * * *
69549327 ATTTGGGACTTAGCCCAGA-ATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
69549367 CTTC
1 CTTC
69549371 CGAACTTAAC
Statistics
Matches: 173, Mismatches: 24, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
38 8 0.05
39 56 0.32
40 109 0.63
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
Found at i:69549299 original size:79 final size:78
Alignment explanation
Indices: 69549155--69549378 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
69549145 GGATATAACC
* * * *
69549155 ACTCGCAC-AAGGCCGTTGGGTCTTAGCCCGG-ATATGGTCACTAGCACAAATGCCTTCGGGACT
1 ACTCGCACAAATGCC-TTGGGACTTAGCCCGGAAT-TAGTCACTAGCACAAATGCCTTC-GAACT
69549218 TAGCCCGG-ATATAGTA
63 TAGCCCGGAAT-TAGTA
* * *
69549234 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATACCTTCGAACTTA
1 ACTCGCACAAATGCCTT-GGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGAACTTA
69549299 GCCCGGAATTAGTA
65 GCCCGGAATTAGTA
* * * *
69549313 ACTCGCACAAATGCATTTGGGACTTAGCCCAGAATTAATCACTAGCACAAATGTCTTCCGAACTT
1 ACTCGCACAAATGC-CTTGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTT-CGAACTT
69549378 A
64 A
69549379 ACCCCGTTAG
Statistics
Matches: 125, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
79 74 0.59
80 49 0.39
81 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (78 bp):
ACTCGCACAAATGCCTTGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGAACTTAG
CCCGGAATTAGTA
Found at i:69549378 original size:40 final size:40
Alignment explanation
Indices: 69549155--69549370 Score: 244
Period size: 40 Copynumber: 5.5 Consensus size: 40
69549145 GGATATAACC
* * * *
69549155 ACTCGCAC-AAGGCCGTT-GGGTCTTAGCCCGG-ATATGGTC
1 ACTCGCACAAATGCC-TTCGGGACTTAGCCCGGAAT-TAGTA
*
69549194 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
69549234 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
69549274 ACTCGCACAAATACCTTC-GAACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * * * *
69549313 ACTCGCACAAATGCATTTGGGACTTAGCCCAGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
69549353 ACTAGCACAAATGTCTTC
1 ACTCGCACAAATGCCTTC
69549371 CGAACTTAAC
Statistics
Matches: 154, Mismatches: 19, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 44 0.29
40 108 0.70
41 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:69551597 original size:39 final size:39
Alignment explanation
Indices: 69551466--69551656 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
69551456 GGATATAACG
* ** **
69551466 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
69551506 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
69551546 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
69551584 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
69551624 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
69551657 CATCATTCGA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:69551601 original size:78 final size:80
Alignment explanation
Indices: 69551506--69551656 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
69551496 GGTTATAGCG
* * * *
69551506 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
69551568 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
69551584 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
69551649 AGCCCGGA
66 AGCCCGGA
69551657 CATCATTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.54
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:69559684 original size:40 final size:39
Alignment explanation
Indices: 69559504--69559684 Score: 161
Period size: 40 Copynumber: 4.6 Consensus size: 39
69559494 ACGACTCTCA
** * **
69559504 AATGCCTTCGGGACGAAGCCCGGTTATAGCGACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
* * * *
69559543 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGC-C
1 -AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
* *
69559582 AATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
* * * *
69559620 GAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCAC
*
69559661 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
69559685 CATCATTCGA
Statistics
Matches: 114, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
37 20 0.18
38 15 0.13
39 10 0.09
40 61 0.54
41 8 0.07
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
Found at i:69561759 original size:39 final size:40
Alignment explanation
Indices: 69561701--69561801 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
69561691 AAATTGAATG
* *
69561701 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
69561740 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
69561780 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
69561802 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:69561794 original size:40 final size:40
Alignment explanation
Indices: 69561701--69561883 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
69561691 AAATTGAATG
* * * * *
69561701 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
69561740 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
69561780 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
69561820 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
69561860 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
69561884 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:69575027 original size:34 final size:33
Alignment explanation
Indices: 69574961--69575046 Score: 84
Period size: 34 Copynumber: 2.6 Consensus size: 33
69574951 TGTTACCAAC
* * *
69574961 ACTGAAATGGGCTAAGGTCCACACTGATACTGA
1 ACTGTAATGGGCTAAGGCCCACACTGAAACTGA
*
69574994 TACTGTAATGGGCTAAGGCCCTA-ATTGAAACTGA
1 -ACTGTAATGGGCTAAGGCCC-ACACTGAAACTGA
* * *
69575028 ACTGTTACGGGCTTAGGCC
1 ACTGTAATGGGCTAAGGCC
69575047 TAGATTGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
33 16 0.36
34 27 0.61
35 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (33 bp):
ACTGTAATGGGCTAAGGCCCACACTGAAACTGA
Found at i:69588882 original size:48 final size:48
Alignment explanation
Indices: 69588820--69590020 Score: 1956
Period size: 48 Copynumber: 25.0 Consensus size: 48
69588810 ATATACACAC
*
69588820 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
69588868 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
69588916 ATCAT-ATATATATTTAACATTAACCATTCGGCTTTACCACATATACAT
1 ATC-TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
69588964 ATCTTATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
69589012 ATCTTATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
69589060 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
69589108 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
69589156 ATCTCATCCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
69589204 ATCTTATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
69589252 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
69589300 ATCTCATACATATTTCACATTA-CCATTTGGCTTTACCACTTATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
69589347 ATCTTATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
69589395 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAAATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
69589443 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
69589491 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
69589539 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACAGATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
69589587 ATCTCATATATATTTCGCAGTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
69589635 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
69589683 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
69589731 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
69589779 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
69589827 ATCTTATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
69589875 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
69589923 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
69589971 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
69590019 AT
1 AT
69590021 ATTTATCTTG
Statistics
Matches: 1094, Mismatches: 56, Indels: 6
0.95 0.05 0.01
Matches are distributed among these distances:
47 43 0.04
48 1050 0.96
49 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:69593668 original size:40 final size:40
Alignment explanation
Indices: 69593622--69593987 Score: 493
Period size: 40 Copynumber: 9.2 Consensus size: 40
69593612 CCGAATACAC
* * * *
69593622 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * * *
69593662 AACACCAGCATGAATGCTCTTCGGGACTTAACCCTGG-TAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCC-GGATAT
* * * * * *
69593702 AACTCTGGCACGAATGCTCTTCGAGACTTAACCCGGGTAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
69593742 ATCACTAGCACGAATGCTCTTTGGGACTTAGCCCTGG-TAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCC-GGATAT
* * * *
69593782 AACTCTAGCACGAATGCTCTTCGAGACTTAGCCCGGGTAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
69593822 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
69593862 ATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * *
69593902 ATCACTAGCACGAATACTCTTCGGGACTTAGCCCGGGTTT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
69593942 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
69593982 ATCACT
1 ATCACT
69593988 CTCAATTCTC
Statistics
Matches: 291, Mismatches: 31, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
39 4 0.01
40 283 0.97
41 4 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
Found at i:69597264 original size:29 final size:29
Alignment explanation
Indices: 69597232--69597363 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
69597222 ATAGTGAATC
69597232 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
69597261 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
69597291 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
69597320 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
69597349 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69597364 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:69597373 original size:59 final size:59
Alignment explanation
Indices: 69597232--69597363 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
69597222 ATAGTGAATC
69597232 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
69597291 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
69597349 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69597364 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:69598687 original size:19 final size:18
Alignment explanation
Indices: 69598663--69598698 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
69598653 CCCCCTTTTT
*
69598663 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
69598682 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
69598699 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:69599261 original size:40 final size:40
Alignment explanation
Indices: 69599134--69599263 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
69599124 TTGCTGGAAA
* *
69599134 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
69599174 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
69599214 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
69599254 TTATATCCGG
1 TTATATCCGG
69599264 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:69607367 original size:40 final size:40
Alignment explanation
Indices: 69607240--69607369 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
69607230 ATGCTGGAAA
* *
69607240 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
69607280 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
69607320 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
69607360 TTATATCCGG
1 TTATATCCGG
69607370 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:69610211 original size:48 final size:48
Alignment explanation
Indices: 69610150--69611064 Score: 1445
Period size: 48 Copynumber: 19.0 Consensus size: 48
69610140 ATATACACAC
*
69610150 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
69610198 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
69610246 ATCTTATATATATTTAACATTAACCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
69610294 ATCTTATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
69610342 ATCTTATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
69610390 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
69610438 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
69610486 ATCTTATATATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
69610534 ATCTTATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
69610582 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
69610630 ATCTCATACATATTTCACATTAGCCATTCGGCTTTATCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
69610678 ATCTCATACATATTTCACACTAGCCATTCAGATTTTCCATC-TCATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA-CAT-ATACAT
* *
69610727 ATCTTATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
69610775 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
69610823 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
69610871 ATCTCATAAATATTTCACACTAACCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
** *
69610919 ATCTCATACATATTTCACGCTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
69610967 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
69611015 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
69611063 AT
1 AT
69611065 ATTTATCTTG
Statistics
Matches: 810, Mismatches: 54, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
48 769 0.95
49 41 0.05
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:69613814 original size:27 final size:27
Alignment explanation
Indices: 69613776--69613829 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
69613766 AAATTGCAGT
69613776 CAAGCTGCCAATACACATAGTTGTGGA
1 CAAGCTGCCAATACACATAGTTGTGGA
*
69613803 CAAGCTGCCAATAGACATAGTTGTGGA
1 CAAGCTGCCAATACACATAGTTGTGGA
69613830 TAAACCACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.22
Consensus pattern (27 bp):
CAAGCTGCCAATACACATAGTTGTGGA
Found at i:69613840 original size:27 final size:27
Alignment explanation
Indices: 69613783--69613840 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
69613773 AGTCAAGCTG
* **
69613783 CCAATACACATAGTTGTGGACAAGCTG
1 CCAATACACATAGTTGTGGACAAACCA
* *
69613810 CCAATAGACATAGTTGTGGATAAACCA
1 CCAATACACATAGTTGTGGACAAACCA
69613837 CCAA
1 CCAA
69613841 ATTTGCAGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (27 bp):
CCAATACACATAGTTGTGGACAAACCA
Found at i:69618293 original size:79 final size:81
Alignment explanation
Indices: 69618192--69618376 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
69618182 ACGACTCGCT
** * *
69618192 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
69618255 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
69618272 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
69618336 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
69618352 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69618377 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:69618376 original size:40 final size:39
Alignment explanation
Indices: 69618185--69618376 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
69618175 GGATATAACG
* ** * *
69618185 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
69618225 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
69618265 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
69618304 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
69618344 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
69618377 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:69626347 original size:79 final size:81
Alignment explanation
Indices: 69626246--69626430 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
69626236 ACGACTCGCT
** * *
69626246 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
69626309 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
69626326 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
69626390 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
69626406 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69626431 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:69626430 original size:40 final size:39
Alignment explanation
Indices: 69626239--69626430 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
69626229 GGATATAACG
* ** * *
69626239 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
69626279 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
69626319 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
69626358 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
69626398 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
69626431 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:69630913 original size:40 final size:40
Alignment explanation
Indices: 69630831--69631050 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
69630821 ACCCAAGTAT
** * *
69630831 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
69630869 CTTCGGGTCTTAGCCCGAATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
69630909 CTTCGGGACTTAACCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
**
69630949 CTTCGGGTCTTAGCCCGGATATAG-CAACCCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
69630989 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
69631029 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
69631051 CATTCGAATA
Statistics
Matches: 150, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 15 0.10
40 122 0.81
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:69633229 original size:124 final size:124
Alignment explanation
Indices: 69633007--69633231 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
69632997 GAATTATGTG
* * * * * * *
69633007 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
69633072 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
*
69633131 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
69633196 GCTAAGTCCCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTAGAAATTATAT
69633232 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 3 0.03
124 85 0.97
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:69633353 original size:40 final size:40
Alignment explanation
Indices: 69633226--69633355 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
69633216 TTGCTGGAAA
* * *
69633226 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
69633266 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
69633306 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
69633346 TTATATCCGG
1 TTATATCCGG
69633356 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:69639530 original size:29 final size:29
Alignment explanation
Indices: 69639431--69639522 Score: 152
Period size: 28 Copynumber: 3.2 Consensus size: 29
69639421 GTGACGAGAT
69639431 TGGCACTAAGTGTGCATGCTGG-AAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
69639459 TGGCACTAAGTG-GCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
69639487 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
69639516 CGGCACT
1 TGGCACT
69639523 GGGTGTGCGA
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
27 9 0.15
28 29 0.49
29 21 0.36
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:69647445 original size:30 final size:29
Alignment explanation
Indices: 69647344--69647425 Score: 157
Period size: 29 Copynumber: 2.9 Consensus size: 29
69647334 GTGACGAGAT
69647344 TGGCACTAAGTGTGC-TGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
69647372 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
69647401 TGGCACTAAGTGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
69647426 AAATACGGCA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 15 0.28
29 38 0.72
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:69647462 original size:59 final size:57
Alignment explanation
Indices: 69647340--69647474 Score: 148
Period size: 59 Copynumber: 2.4 Consensus size: 57
69647330 TACGGTGACG
* * *
69647340 AGAT-TGGCACTAAGTGTGCTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCTGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
* **
69647396 ATATATGGCACTAAGTGTGCATGCTGGAAAAAATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGC-TGCTGG-AAAAATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
69647455 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
69647475 GGGCTTAAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
56 3 0.05
57 15 0.23
58 6 0.09
59 40 0.62
60 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (57 bp):
AGATATGGCACTAAGTGTGCTGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
Found at i:69652423 original size:29 final size:29
Alignment explanation
Indices: 69652390--69652462 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
69652380 GTGACGAGAT
69652390 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
69652419 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
69652448 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
69652463 GAGCTTGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:69652490 original size:58 final size:59
Alignment explanation
Indices: 69652390--69652522 Score: 137
Period size: 58 Copynumber: 2.3 Consensus size: 59
69652380 GTGACGAGAT
* * *
69652390 TGGCACTAAGTGTGC-ATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGATGCTGGAAAGATATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * * ** * * *
69652448 TGGCACTAAGTGTGCGA-GCTTGAAGGGTATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGATGCTGGAAAGATATGGCACTAAGTGTGCAGGCTGAAATCACA
69652506 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
69652523 AATCGAGTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
57 4 0.06
58 57 0.92
59 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (59 bp):
TGGCACTAAGTGTGCGATGCTGGAAAGATATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:69655043 original size:28 final size:29
Alignment explanation
Indices: 69655002--69655125 Score: 153
Period size: 28 Copynumber: 4.3 Consensus size: 29
69654992 GAAAGCATGT
*
69655002 ATATGAATGTGATTTGGGCCTGATGGG-C
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
69655030 GTATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
69655059 ATACGAATATGATTTGGGCCTAATGGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
69655088 ATATGGATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
69655116 ATATGTATGT
1 ATATGAATGT
69655126 ATGTAGACTT
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 47 0.58
29 34 0.42
ACGTcount: A:0.23, C:0.12, G:0.33, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:69655085 original size:57 final size:57
Alignment explanation
Indices: 69655006--69655118 Score: 156
Period size: 57 Copynumber: 2.0 Consensus size: 57
69654996 GCATGTATAT
* * * *
69655006 GAATGTGATTTGGGCCTGATGGG-CGTATGAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATATGATTTGGGCCTAATGGGTCATATGAATGAGA-TTGGGCCTAATGGGCCATAC
* *
69655063 GAATATGATTTGGGCCTAATGGGTCATATGGATGAGATTGGGCCTAGTGGGCCATA
1 GAATATGATTTGGGCCTAATGGGTCATATGAATGAGATTGGGCCTAATGGGCCATA
69655119 TGTATGTATG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
57 39 0.80
58 10 0.20
ACGTcount: A:0.23, C:0.13, G:0.35, T:0.29
Consensus pattern (57 bp):
GAATATGATTTGGGCCTAATGGGTCATATGAATGAGATTGGGCCTAATGGGCCATAC
Found at i:69656271 original size:17 final size:18
Alignment explanation
Indices: 69656238--69656271 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
69656228 TTTAAGGAAG
69656238 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
69656256 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
69656272 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:69659352 original size:16 final size:16
Alignment explanation
Indices: 69659314--69659356 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
69659304 TCGATAAACC
*
69659314 CCAAAATGCCAAAATA
1 CCAAAAAGCCAAAATA
* * *
69659330 CCGAAAAGCCGAAATG
1 CCAAAAAGCCAAAATA
69659346 CCAAAAAGCCA
1 CCAAAAAGCCA
69659357 GAAGTTTGGC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.51, C:0.28, G:0.14, T:0.07
Consensus pattern (16 bp):
CCAAAAAGCCAAAATA
Found at i:69659684 original size:28 final size:29
Alignment explanation
Indices: 69659570--69659689 Score: 129
Period size: 29 Copynumber: 4.2 Consensus size: 29
69659560 GAAAGCATGT
* * *
69659570 ATATGAATGAGATTTGGGCTTAATCGACC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
* *
69659599 GA-ATGAATGTGATTTGGGCCTAATGGTCC
1 -ATATGAATGAGATTTGGGCCTAATGGGCC
* *
69659628 ATACGAAT-ATGATTTGGGCCTAATAGGCC
1 ATATGAATGA-GATTTGGGCCTAATGGGCC
*
69659657 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
69659685 ATATG
1 ATATG
69659690 CATGTATGTA
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
28 20 0.26
29 54 0.71
30 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.29
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCCTAATGGGCC
Found at i:69661793 original size:13 final size:13
Alignment explanation
Indices: 69661775--69661799 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69661765 TAATGGTATA
69661775 TTGAATCCATGAT
1 TTGAATCCATGAT
69661788 TTGAATCCATGA
1 TTGAATCCATGA
69661800 AAATTTAGTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:69663367 original size:48 final size:48
Alignment explanation
Indices: 69663308--69663817 Score: 939
Period size: 48 Copynumber: 10.6 Consensus size: 48
69663298 AAAGTGTAAT
69663308 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
69663356 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
*
69663404 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
* *
69663452 TATGTGGTAAAGCCGAATGGCTAATGTGGAATACATGTGTGTTATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
*
69663500 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
69663548 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
69663596 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
* *
69663644 TATGTGGTAAAGCCAAATGGCTAATGTGAAATACATGTGTGTTATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
69663692 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
* * *
69663740 TATGTGGTAAAGCAGAATGGCTAATGTGAAATATATGTGTGATATGAA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
69663788 TATGTGGTAAAGCCGAATGGCTAATGTGAA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAA
69663818 TGTTGTAACA
Statistics
Matches: 450, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 450 1.00
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.32
Consensus pattern (48 bp):
TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
Found at i:69663912 original size:37 final size:37
Alignment explanation
Indices: 69663862--69663984 Score: 228
Period size: 37 Copynumber: 3.3 Consensus size: 37
69663852 GGAAATATAT
*
69663862 TCCGGGTAAGACCCGATGACTAAGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
69663899 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
69663936 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
69663973 TCCGGGTAAGAC
1 TCCGGGTAAGAC
69663985 TTCGTAATAA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 84 1.00
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:69667879 original size:40 final size:40
Alignment explanation
Indices: 69667777--69667960 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
69667767 AAATTGAATG
* * * * *
69667777 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
69667817 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
69667857 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
69667897 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
69667937 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
69667961 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:69675967 original size:40 final size:40
Alignment explanation
Indices: 69675865--69676048 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
69675855 AAATTGAATG
* * * * *
69675865 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
69675905 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
69675945 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
69675985 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
69676025 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
69676049 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:69676073 original size:80 final size:80
Alignment explanation
Indices: 69675907--69676093 Score: 189
Period size: 80 Copynumber: 2.3 Consensus size: 80
69675897 TGAAAATTAT
* * *
69675907 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCATT
* *
69675972 CGTGCAAGTTGTTAA
66 CGTGCAAGTTATCAA
* * * * * *
69675987 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGGCAT
* **
69676051 TGGTGCGGGTTATCATA
65 TCGTGCAAGTTATCA-A
* * *
69676068 A-CCGGGCTATGTCCCGAAGGCGATTG
1 ATCCGGGCTAAGACCCGAAGGCAATTG
69676094 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
79 1 0.01
80 84 0.97
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTTATCAA
Found at i:69678559 original size:15 final size:15
Alignment explanation
Indices: 69678529--69678561 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
69678519 ATTTTCTGTG
69678529 TTTATTTTGTGTAAA
1 TTTATTTTGTGTAAA
69678544 TTTATATTTGTG-AAA
1 TTTAT-TTTGTGTAAA
69678559 TTT
1 TTT
69678562 TCGTGATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (15 bp):
TTTATTTTGTGTAAA
Found at i:69679929 original size:56 final size:56
Alignment explanation
Indices: 69679858--69680129 Score: 375
Period size: 56 Copynumber: 4.9 Consensus size: 56
69679848 ACCTGGAAGT
* * * *
69679858 ATATG-TGGCATCGATATGTGACTCCGATATATATGAGCGAGTAAGTCGATGTTTA
1 ATATGTTGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAGACCACGTTTA
* *
69679913 ATATGTTGGCATCGATATGTAACTCCGATATATATGTGCGAGTAAGTCCACGTTTA
1 ATATGTTGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAGACCACGTTTA
* * * * *
69679969 ATAAGTTGGCATCGATATTTGACTCCAATATATGTGTGCGAGTAAAACCACGTTTA
1 ATATGTTGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAGACCACGTTTA
* *
69680025 ATATGTTTGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTA
1 ATATGTTGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAGACCACGTTTA
* * * * *
69680081 ATACGTTGGCATCGATATATGACTCCGATATATGTGTACAAGTAAGACC
1 ATATGTTGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAGACC
69680130 CTGTCTGGGG
Statistics
Matches: 195, Mismatches: 21, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
55 5 0.03
56 190 0.97
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (56 bp):
ATATGTTGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAGACCACGTTTA
Found at i:69683400 original size:40 final size:40
Alignment explanation
Indices: 69683355--69683484 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
69683345 CGGAATATAA
69683355 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * * *
69683395 CCGGATAGAATGTCTCGCACGAATGCCTTTGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
69683435 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
69683475 CCGGATATAA
1 CCGGATATAA
69683485 TTTCCAGCAT
Statistics
Matches: 70, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
39 1 0.01
40 69 0.99
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:69683499 original size:40 final size:40
Alignment explanation
Indices: 69683371--69683522 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 40
69683361 ATAACCACGT
* * *
69683371 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* * ** * *
69683411 GCACGAA-TGCCTTTGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
69683451 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * * *
69683491 GCATAATTGTCTTCGGGGCTTAGCCCAGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
69683523 CATTCAATTT
Statistics
Matches: 88, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
39 2 0.02
40 84 0.95
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:69685307 original size:2 final size:2
Alignment explanation
Indices: 69685296--69685325 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
69685286 TGAATAATTA
69685296 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
69685326 AAATGATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69687432 original size:28 final size:28
Alignment explanation
Indices: 69687392--69687449 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
69687382 TCATCACGTG
69687392 AATAAATCAATATATCATCAATGAATAC
1 AATAAATCAATATATCATCAATGAATAC
*
69687420 AATAAATCAATATATTATCAATGAATAC
1 AATAAATCAATATATCATCAATGAATAC
69687448 AA
1 AA
69687450 CAACAAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.29
Consensus pattern (28 bp):
AATAAATCAATATATCATCAATGAATAC
Found at i:69691340 original size:43 final size:43
Alignment explanation
Indices: 69691284--69691401 Score: 152
Period size: 42 Copynumber: 2.8 Consensus size: 43
69691274 AACATATACA
69691284 ATGCCAACT-TCCCAGACATGGTCTTACATGTAATCAAACATCG
1 ATGCCAACTGTCCCAGACATGGTCTTACATGTAATCAAACA-CG
* * * * *
69691327 ATGCC-ACTGTCCCAAACAGGGTCTTACATGAAATCAGATACG
1 ATGCCAACTGTCCCAGACATGGTCTTACATGTAATCAAACACG
*
69691369 ATGCCGA-TGTCCCAGACATGGTCTTACATGTAA
1 ATGCCAACTGTCCCAGACATGGTCTTACATGTAA
69691402 AATAGAAGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
42 33 0.51
43 32 0.49
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACATGGTCTTACATGTAATCAAACACG
Found at i:69691392 original size:42 final size:43
Alignment explanation
Indices: 69691284--69691398 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
69691274 AACATATACA
*
69691284 ATGCCAACT-TCCCAGACATGGTCTTACATGTAATCAAACATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACATGAAATCAAACATCG
* * * *
69691327 ATGCCACTGTCCCAAACAGGGTCTTACATGAAATCAGATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACATGAAATCAAACATCG
69691369 ATGCCGA-TGTCCCAGACATGGTCTTACATG
1 ATGCC-ACTGTCCCAGACATGGTCTTACATG
69691399 TAAAATAGAA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 31 0.49
43 32 0.51
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACATGAAATCAAACATCG
Found at i:69695496 original size:9 final size:10
Alignment explanation
Indices: 69695467--69695499 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
69695457 CTAAACTAAG
69695467 AACTTTAGAA
1 AACTTTAGAA
69695477 AACTTTTAGAA
1 AAC-TTTAGAA
69695488 AAC-TTAGAA
1 AACTTTAGAA
69695497 AAC
1 AAC
69695500 ATTCCTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 3 0.14
11 10 0.45
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (10 bp):
AACTTTAGAA
Found at i:69695707 original size:25 final size:25
Alignment explanation
Indices: 69695633--69695707 Score: 132
Period size: 25 Copynumber: 3.0 Consensus size: 25
69695623 AAATAAGATC
*
69695633 ACACGGCCAAATCACACATCCGTGC
1 ACACGGCCAAATCACACATCCGTGT
69695658 ACACGGCCAAATCACACATCCGTGT
1 ACACGGCCAAATCACACATCCGTGT
*
69695683 ATACGGCCAAATCACACATCCGTGT
1 ACACGGCCAAATCACACATCCGTGT
69695708 GCTTAGGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.32, C:0.36, G:0.16, T:0.16
Consensus pattern (25 bp):
ACACGGCCAAATCACACATCCGTGT
Found at i:69706933 original size:28 final size:28
Alignment explanation
Indices: 69706872--69706969 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
69706862 TCACAAATTG
** * *
69706872 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
69706901 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
69706929 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
69706957 GCACTAAGTGTGC
1 GCACTAAGTGTGC
69706970 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:69714613 original size:28 final size:28
Alignment explanation
Indices: 69714552--69714649 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
69714542 TCACAAATTG
** * *
69714552 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
69714581 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
69714609 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
69714637 GCACTAAGTGTGC
1 GCACTAAGTGTGC
69714650 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:69734235 original size:79 final size:81
Alignment explanation
Indices: 69734134--69734318 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
69734124 ACGACTCGCT
** * *
69734134 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
69734197 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
69734214 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
69734278 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
69734294 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69734319 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:69734318 original size:40 final size:39
Alignment explanation
Indices: 69734127--69734318 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
69734117 GGATATAACG
* ** * *
69734127 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
69734167 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
69734207 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
69734246 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
69734286 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
69734319 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:69743111 original size:29 final size:29
Alignment explanation
Indices: 69743079--69743151 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
69743069 CTTCGAGCTC
*
69743079 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
69743108 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
69743137 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
69743152 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:69747588 original size:44 final size:44
Alignment explanation
Indices: 69747520--69747636 Score: 184
Period size: 44 Copynumber: 2.7 Consensus size: 44
69747510 CATGACATAG
* *
69747520 GATTCTGACT-TATATGTGCAAGTAAGACCATGGCATCGATATGT
1 GATTCTGA-TATATGTGTGCGAGTAAGACCATGGCATCGATATGT
69747564 GATTCAT-ATATATGTGTGCGAGTAAGACCATGGCATCGATATGT
1 GATTC-TGATATATGTGTGCGAGTAAGACCATGGCATCGATATGT
69747608 GATTCTGATATATGTGTGCGAGTAAGACC
1 GATTCTGATATATGTGTGCGAGTAAGACC
69747637 CTATTAGGGA
Statistics
Matches: 68, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
43 2 0.03
44 65 0.96
45 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.32
Consensus pattern (44 bp):
GATTCTGATATATGTGTGCGAGTAAGACCATGGCATCGATATGT
Found at i:69749282 original size:30 final size:31
Alignment explanation
Indices: 69749242--69749299 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
69749232 TTTTCGATCC
*
69749242 TAGGGTCAAAATCGTAATTCTG-CAAAGGTT
1 TAGGGGCAAAATCGTAATTCTGCCAAAGGTT
* *
69749272 TAGGGGCAAAATTGTAATTTTGCCAAAG
1 TAGGGGCAAAATCGTAATTCTGCCAAAG
69749300 TTTGAGTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (31 bp):
TAGGGGCAAAATCGTAATTCTGCCAAAGGTT
Found at i:69750089 original size:95 final size:92
Alignment explanation
Indices: 69749867--69750093 Score: 235
Period size: 95 Copynumber: 2.4 Consensus size: 92
69749857 AATTTACGGC
* * *
69749867 TAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGCAAGGCAAGGATCCCATGTAAGACC
1 TAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGACAAGACAAGGATACCATGTAAGACC
*
69749932 ATGTTAAGACATGGCATCGACATTGAT
66 ATGTTAAGACATGGCATCGACATAGAT
** **
69749959 TAAGGACT-CCATGTAAGACCACATCAAGATGTGGCATTAGCACTAAGACAAGGATACCATGTAA
1 TAAGGA-TACCATGTAAGACCATGTCAAGACATGGCATT-G-AC-AAGACAAGGATACCATGTAA
** * **
69750023 GACCATGTTTGGAACATGGCATTTGGTA-AGA-
62 GACCATGTTAAG-ACATGGCA-TCGACATAGAT
* * *
69750054 TAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGA
1 TAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGA
69750094 TAAGTTCTAT
Statistics
Matches: 108, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
92 32 0.30
93 3 0.03
94 3 0.03
95 57 0.53
96 10 0.09
97 3 0.03
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (92 bp):
TAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGACAAGACAAGGATACCATGTAAGACC
ATGTTAAGACATGGCATCGACATAGAT
Found at i:69750184 original size:55 final size:55
Alignment explanation
Indices: 69750055--69750359 Score: 356
Period size: 55 Copynumber: 5.6 Consensus size: 55
69750045 TTGGTAAGAT
* * * *
69750055 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGG-A
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGCA
* ** *
69750109 AAGGAAATAATGTAAGACCATGTCAAGACATGGCATTAATGAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGCA
* * * *
69750165 AAGG-TCCCGTGTAAGACCATG-CTAAGGCATGGCATTGGTGAGTTC-ATAAGGC-
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCATTGATGAGTTCTATAAGGCA
* *
69750217 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGACTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGCA
* * *
69750273 AAGG-TCCCATGTAAGACCATGTCAAGGCATGGCATTGGTGAGTTC-ATAAGGC-
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGCA
* *
69750325 ATGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
69750360 ATGGTAAGTT
Statistics
Matches: 213, Mismatches: 29, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
52 7 0.03
53 73 0.34
54 44 0.21
55 80 0.38
56 9 0.04
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGCA
Found at i:69750246 original size:108 final size:108
Alignment explanation
Indices: 69750063--69750359 Score: 452
Period size: 108 Copynumber: 2.7 Consensus size: 108
69750053 ATAAGGATAT
* * * * * **
69750063 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAATAATGTAAGACC
1 CATGTAAGACCATGCTAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCATGTAAGACC
* *
69750128 ATGTCAAGACATGGCATTAATGAGTTACTATAAGGCAAAGGTCC
65 ATGTCAAGACATGGCATTAATGACTTACTATAAGGAAAAGGTCC
*
69750172 CGTGTAAGACCATGCTAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
1 CATGTAAGACCATGCTAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
*
69750237 TGTCAAGACATGGCATTGATGACTTACTATAAGGAAAAGGTCC
66 TGTCAAGACATGGCATTAATGACTTACTATAAGGAAAAGGTCC
* *
69750280 CATGTAAGACCATG-TCAAGGCATGGCATTGGTGAGTTCATAAGGCATGGATACCACGTAAGACC
1 CATGTAAGACCATGCT-AAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACC
69750344 ATGTCAAGACATGGCA
65 ATGTCAAGACATGGCA
69750360 ATGGTAAGTT
Statistics
Matches: 173, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
107 1 0.01
108 138 0.80
109 34 0.20
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (108 bp):
CATGTAAGACCATGCTAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
TGTCAAGACATGGCATTAATGACTTACTATAAGGAAAAGGTCC
Found at i:69761175 original size:26 final size:26
Alignment explanation
Indices: 69761145--69761196 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
69761135 AATAGTAGTT
69761145 AAATGTTA-AATATATATGCGGTTATG
1 AAATGTTAGAATATATAT-CGGTTATG
* *
69761171 AAATGTTAGAATTTATATTGGTTATG
1 AAATGTTAGAATATATATCGGTTATG
69761197 GCCGAATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (26 bp):
AAATGTTAGAATATATATCGGTTATG
Found at i:69770180 original size:31 final size:31
Alignment explanation
Indices: 69770142--69770321 Score: 281
Period size: 31 Copynumber: 5.8 Consensus size: 31
69770132 ACAAATAACA
69770142 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
69770173 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
69770204 AGTGAAAAGTGGTAGCTTCTGCTACATGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
69770235 CGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
69770266 AGTGAAAAATGGTAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
*
69770297 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
69770322 AAGTGACAAG
Statistics
Matches: 136, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
30 1 0.01
31 133 0.98
32 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:69770409 original size:47 final size:46
Alignment explanation
Indices: 69770339--69770510 Score: 173
Period size: 47 Copynumber: 3.7 Consensus size: 46
69770329 AAGTGATTTT
* * *
69770339 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* *
69770385 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * * * * *
69770432 CGTGTAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATTA
1 CGTATAAGACCATATCTGGGATATGGCATC-A-GTGAGATATATGA-TA
* * * *
69770481 CATGTAAGACCATAACTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
69770511 GATATATGAA
Statistics
Matches: 109, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
46 27 0.25
47 42 0.39
48 11 0.10
49 29 0.27
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
Found at i:69770474 original size:93 final size:91
Alignment explanation
Indices: 69770390--69770561 Score: 215
Period size: 91 Copynumber: 1.9 Consensus size: 91
69770380 TGCTACTGTA
*
69770390 TAAGACCATATCTGGGATATGGCATCAGTGAGATATG-TGATTCGTGTAAGACCATAGCTGGGCT
1 TAAGACCATAACTGGGATATGGCATC---GAGATATGAT-ATTCGTGTAAGACCATAGCTGGGCT
*
69770454 ATGGCATCAATATGTGATATGTGATTACATG
62 ATGGCATCAATATGTGATA-GTGACTACATG
* *
69770485 TAAGACCATAACTGGGCTATGGCATCGATATATGAATATT--TGTAAGACCATAGCTGGGCTATG
1 TAAGACCATAACTGGGATATGGCATCGAGATATG-ATATTCGTGTAAGACCATAGCTGGGCTATG
* *
69770548 GCATTATTATGTGA
65 GCATCAATATGTGA
69770562 AGATGTGTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
91 35 0.50
92 7 0.10
93 3 0.04
94 1 0.01
95 24 0.34
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (91 bp):
TAAGACCATAACTGGGATATGGCATCGAGATATGATATTCGTGTAAGACCATAGCTGGGCTATGG
CATCAATATGTGATAGTGACTACATG
Found at i:69770500 original size:49 final size:47
Alignment explanation
Indices: 69770390--69770561 Score: 187
Period size: 49 Copynumber: 3.7 Consensus size: 47
69770380 TGCTACTGTA
* * * *
69770390 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATTC-TG
69770436 TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATTACATG
1 TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATT-C-TG
* * *
69770485 TAAGACCATAACTGGGCTATGGCATCGATATATGA-A--T-ATT-TG
1 TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATTCTG
* *
69770527 TAAGACCATAGCTGGGCTATGGCATTATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCAATATGTGA
69770562 AGATGTGTAA
Statistics
Matches: 110, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
42 32 0.29
45 3 0.03
46 25 0.23
47 1 0.01
48 14 0.13
49 35 0.32
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATTCTG
Found at i:69770571 original size:42 final size:42
Alignment explanation
Indices: 69770483--69770576 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
69770473 TGTGATTACA
* *
69770483 TGTAAGACCATAACTGGGCTATGGCATCGATATATGAATATT
1 TGTAAGACCATAACTGGGCTATGGCATCGATATATGAAGATG
* * *
69770525 TGTAAGACCATAGCTGGGCTATGGCAT-TATTATGTGAAGATG
1 TGTAAGACCATAACTGGGCTATGGCATCGA-TATATGAAGATG
69770567 TGTAAGACCA
1 TGTAAGACCA
69770577 CAGTTGAACT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 45 0.98
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATAACTGGGCTATGGCATCGATATATGAAGATG
Found at i:69771268 original size:23 final size:23
Alignment explanation
Indices: 69771238--69771286 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
69771228 ATGATATTTC
69771238 AAATACTTTGGTGAATAAAACTT
1 AAATACTTTGGTGAATAAAACTT
* *
69771261 AAATACTTTGGTTAATAAAGCTT
1 AAATACTTTGGTGAATAAAACTT
69771284 AAA
1 AAA
69771287 AATATGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (23 bp):
AAATACTTTGGTGAATAAAACTT
Found at i:69773770 original size:17 final size:19
Alignment explanation
Indices: 69773750--69773792 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
69773740 TATCTTTAAT
69773750 TAATTAATA-GCAC-ATAA
1 TAATTAATATGCACTATAA
*
69773767 TAATTTAATATGCACTATAT
1 TAA-TTAATATGCACTATAA
69773787 TAATTA
1 TAATTA
69773793 TTAATTGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.14
18 6 0.27
19 7 0.32
20 6 0.27
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.40
Consensus pattern (19 bp):
TAATTAATATGCACTATAA
Found at i:69773774 original size:18 final size:20
Alignment explanation
Indices: 69773753--69773791 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
69773743 CTTTAATTAA
69773753 TTAATA-GCAC-ATAATAAT
1 TTAATATGCACTATAATAAT
*
69773771 TTAATATGCACTATATTAAT
1 TTAATATGCACTATAATAAT
69773791 T
1 T
69773792 ATTAATTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (20 bp):
TTAATATGCACTATAATAAT
Found at i:69775151 original size:44 final size:44
Alignment explanation
Indices: 69775103--69775190 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
69775093 TGGGACTACA
69775103 ATTTCATTAGTGTGAGTGGTCTTATTATACTCAATTTTAACTGG
1 ATTTCATTAGTGTGAGTGGTCTTATTATACTCAATTTTAACTGG
69775147 ATTTCATTAGTGTGAGTGGTCTTATTATACTCAATTTTAACTGG
1 ATTTCATTAGTGTGAGTGGTCTTATTATACTCAATTTTAACTGG
69775191 GAAGACCATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.45
Consensus pattern (44 bp):
ATTTCATTAGTGTGAGTGGTCTTATTATACTCAATTTTAACTGG
Found at i:69783671 original size:20 final size:21
Alignment explanation
Indices: 69783646--69783687 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
69783636 AAACATGTGT
69783646 TTATGAA-G-TTTCTTGATAGA
1 TTATGAATGCTTT-TTGATAGA
69783666 TTATGAATGCTTTTTGATAGA
1 TTATGAATGCTTTTTGATAGA
69783687 T
1 T
69783688 ATACAAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 10 0.50
22 3 0.15
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.48
Consensus pattern (21 bp):
TTATGAATGCTTTTTGATAGA
Found at i:69817920 original size:26 final size:26
Alignment explanation
Indices: 69817849--69817926 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 26
69817839 TAAAACTTAT
* * * *
69817849 AAAATTACTGAAATACCTTTATAGGTGG
1 AAAATTACTGATATACC--CATAGGAGC
* *
69817877 AAAATTTACAGATTTACCCATAGGAGC
1 AAAA-TTACTGATATACCCATAGGAGC
*
69817904 AAAATTACTGATATACCCTTAGG
1 AAAATTACTGATATACCCATAGG
69817927 GTTATGGTTG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
26 16 0.40
27 10 0.25
28 4 0.10
29 10 0.25
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (26 bp):
AAAATTACTGATATACCCATAGGAGC
Found at i:69820864 original size:15 final size:15
Alignment explanation
Indices: 69820831--69820869 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
69820821 CTTCTTCCTC
69820831 TCTTTTTCCTTCATTT
1 TCTTTTTCCTT-ATTT
69820847 TCTTTCTTCCTT-TTT
1 TCTTT-TTCCTTATTT
69820862 TCTTTTTC
1 TCTTTTTC
69820870 TTCTAGCCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 3 0.14
15 8 0.36
16 5 0.23
17 6 0.27
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.72
Consensus pattern (15 bp):
TCTTTTTCCTTATTT
Found at i:69826100 original size:17 final size:16
Alignment explanation
Indices: 69826078--69826109 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
69826068 ATACGGGTAA
69826078 TAATAATAATAAAAATG
1 TAATAATAA-AAAAATG
69826095 TAATAATAAAAAAAT
1 TAATAATAAAAAAAT
69826110 AGGCAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (16 bp):
TAATAATAAAAAAATG
Found at i:69837406 original size:27 final size:28
Alignment explanation
Indices: 69837376--69837439 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
69837366 ATTTACTAAA
* *
69837376 ATACCCCTAAGTATG-ACAATTGCCATT
1 ATACCCCTAAGTATGCAAAATTACCATT
69837403 ATACCCCTAAGTATGCAAAATTACCATT
1 ATACCCCTAAGTATGCAAAATTACCATT
69837431 ATACCCCTA
1 ATACCCCTA
69837440 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 15 0.44
28 19 0.56
ACGTcount: A:0.36, C:0.28, G:0.08, T:0.28
Consensus pattern (28 bp):
ATACCCCTAAGTATGCAAAATTACCATT
Found at i:69837584 original size:28 final size:28
Alignment explanation
Indices: 69837544--69837625 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 28
69837534 GGAGGAAGCG
* *
69837544 TTCTGGTGGCTATGTCACA-ATTATCTGT
1 TTCTAGTGGCTATGCCACAGA-TATCTGT
69837572 TTCTAGTGGCTATGCCACAGATATCTG-
1 TTCTAGTGGCTATGCCACAGATATCTGT
* * * *
69837599 TTCTGGTAGTTCTGCCACA-ATATCTGT
1 TTCTAGTGGCTATGCCACAGATATCTGT
69837626 ATCTGGTGAC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
26 7 0.15
27 15 0.33
28 23 0.50
29 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (28 bp):
TTCTAGTGGCTATGCCACAGATATCTGT
Found at i:69837614 original size:27 final size:26
Alignment explanation
Indices: 69837543--69837657 Score: 97
Period size: 27 Copynumber: 4.3 Consensus size: 26
69837533 TGGAGGAAGC
* * *
69837543 GTTCTGGTGGCTATGTCACAATTATCT
1 GTTCTGGTGACTCTGCCACAA-TATCT
* * *
69837570 GTTTCTAGTGGCTATGCCACAGATATCT
1 G-TTCTGGTGACTCTGCCACA-ATATCT
*
69837598 GTTCTGGT-AGTTCTGCCACAATATCT
1 GTTCTGGTGA-CTCTGCCACAATATCT
**
69837624 GTATCTGGTGACTCTATCACAATATCT
1 GT-TCTGGTGACTCTGCCACAATATCT
69837651 GTTCTGG
1 GTTCTGG
69837658 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 9, Indels: 11
0.79 0.10 0.12
Matches are distributed among these distances:
26 13 0.18
27 36 0.49
28 24 0.32
29 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (26 bp):
GTTCTGGTGACTCTGCCACAATATCT
Found at i:69840247 original size:46 final size:48
Alignment explanation
Indices: 69840068--69840282 Score: 198
Period size: 46 Copynumber: 4.6 Consensus size: 48
69840058 TAAGTTGCCT
* * **
69840068 ATGCCATGTCCCGGACATGGTCTTACACTGGCTATCATCATCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATC-TCGATACCG
*
69840117 ATGCCATGTCCTAGACATGGTCTTACACT-GAC-A-CATCTCG-TAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTATCATCTCGATA-CCG
* *
69840163 ATG-CATGTCCCAGCCAT-GTCTTACACTAGCTTAT-GTCTCGATACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC-TATCATCTCGATACCG
* * * *
69840209 ATG-CATGTCCCAGACAT-GTCTTACACTAG-TACTCGTCTCAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATCTCGATACCG
* *
69840255 ATGTCATGTCCCAGGCATGGTCTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
69840283 AGGTTCACAT
Statistics
Matches: 143, Mismatches: 12, Indels: 23
0.80 0.07 0.13
Matches are distributed among these distances:
44 13 0.09
45 14 0.10
46 58 0.41
47 19 0.13
48 11 0.08
49 28 0.20
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCGATACCG
Found at i:69841369 original size:27 final size:26
Alignment explanation
Indices: 69841298--69841361 Score: 101
Period size: 26 Copynumber: 2.4 Consensus size: 26
69841288 CAAAATTAAC
69841298 CTTAGGGGTATAATGGTAATTTTACA
1 CTTAGGGGTATAATGGTAATTTTACA
* *
69841324 CCTAGGGGTATAATGGTAATTTTCATA
1 CTTAGGGGTATAATGGTAATTTT-ACA
69841351 CTTAGGGGTAT
1 CTTAGGGGTAT
69841362 TTTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 22 0.65
27 12 0.35
ACGTcount: A:0.28, C:0.09, G:0.25, T:0.38
Consensus pattern (26 bp):
CTTAGGGGTATAATGGTAATTTTACA
Found at i:69844928 original size:27 final size:28
Alignment explanation
Indices: 69844898--69844980 Score: 109
Period size: 27 Copynumber: 3.0 Consensus size: 28
69844888 ATATTGTAAT
*
69844898 AGAGTCACCAGATACAGATA-TTGTGGC
1 AGAGCCACCAGATACAGATATTTGTGGC
* *
69844925 AGAGCCACCAGAAACA-ATTATTTGTGCC
1 AGAGCCACCAGATACAGA-TATTTGTGGC
69844953 AGAGCCACCAGAT-CAGATATTTGTGGC
1 AGAGCCACCAGATACAGATATTTGTGGC
69844980 A
1 A
69844981 AATCAATTGT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
26 1 0.02
27 28 0.58
28 19 0.40
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (28 bp):
AGAGCCACCAGATACAGATATTTGTGGC
Found at i:69845666 original size:59 final size:59
Alignment explanation
Indices: 69845574--69845691 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
69845564 CTAGGCTTTT
*
69845574 AAGTATTAACTGGGTAAAATAAAACACAAGGAAGCCTGTGGTAAGTTGGCATGTGACGC
1 AAGTATTAACTGGGTAAAATAAAACACAAGGAAGCCTATGGTAAGTTGGCATGTGACGC
*
69845633 AAGTATTAACTGGGTAAAATAAAACATAAGGAAGCCTATGGTAAGTTGGCATGTGACGC
1 AAGTATTAACTGGGTAAAATAAAACACAAGGAAGCCTATGGTAAGTTGGCATGTGACGC
69845692 CACTTGGAGG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (59 bp):
AAGTATTAACTGGGTAAAATAAAACACAAGGAAGCCTATGGTAAGTTGGCATGTGACGC
Found at i:69845859 original size:24 final size:24
Alignment explanation
Indices: 69845832--69845926 Score: 154
Period size: 24 Copynumber: 4.0 Consensus size: 24
69845822 GTCAGGAAAA
69845832 GATTTAGGAGCTGATAAGGGAGAG
1 GATTTAGGAGCTGATAAGGGAGAG
*
69845856 GATTTAGGAGCTGATAAAGGAGAG
1 GATTTAGGAGCTGATAAGGGAGAG
* *
69845880 GATGTAGGAGCTAATAAGGGAGAG
1 GATTTAGGAGCTGATAAGGGAGAG
*
69845904 GATTTAGGAGCTGATTAGGGAGA
1 GATTTAGGAGCTGATAAGGGAGA
69845927 ACGGTGTTGG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.35, C:0.04, G:0.40, T:0.21
Consensus pattern (24 bp):
GATTTAGGAGCTGATAAGGGAGAG
Found at i:69847455 original size:26 final size:26
Alignment explanation
Indices: 69847348--69847458 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
69847338 AGGAAGTGTC
* * *
69847348 CTGGTGGCTATGCTACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
69847375 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
69847402 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* **
69847429 CTGGTGACTCTATCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
69847455 CTGG
1 CTGG
69847459 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 16 0.21
27 58 0.76
28 2 0.03
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:69849743 original size:43 final size:43
Alignment explanation
Indices: 69849696--69849859 Score: 122
Period size: 43 Copynumber: 3.8 Consensus size: 43
69849686 AACATATACA
*
69849696 ATGCCAATGTCCCAAACGTGGTCTTACATGTAATCAAAAATCG
1 ATGCCAATGTCCCAAACGTGGTCTTACATGAAATCAAAAATCG
* * *
69849739 ATGCCACTGTCCCAGATA-G-GGTCTTACACT-AAATCAGATA-CG
1 ATGCCAATGTCCCA-A-ACGTGGTCTTACA-TGAAATCAAAAATCG
* * * ** * * *
69849781 ATG-CGATGTCCCAAACATGGTCTTACACGTAAAAGAGAAGTTG
1 ATGCCAATGTCCCAAACGTGGTCTTACATG-AAATCAAAAATCG
* * *
69849824 ATGCCAACGTCCCAGACGTGGCCTTACATGAAATCA
1 ATGCCAATGTCCCAAACGTGGTCTTACATGAAATCA
69849860 CATAACGCAA
Statistics
Matches: 91, Mismatches: 21, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 17 0.19
42 11 0.12
43 37 0.41
44 23 0.25
45 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACGTGGTCTTACATGAAATCAAAAATCG
Found at i:69849851 original size:85 final size:83
Alignment explanation
Indices: 69849702--69849859 Score: 180
Period size: 84 Copynumber: 1.9 Consensus size: 83
69849692 TACAATGCCA
* * *
69849702 ATGTCCCAAACGTGGTCTTACATGTAATCAAAAATCGATGCCACTGTCCCAGATAGGGTCTTACA
1 ATGTCCCAAACATGGTCTTACACGTAA-CAAAAATCGATGCCACTGTCCCAGATAGGGCCTTACA
69849767 CT-AAATCAGATACGATGCG
65 -TGAAATCAGATACGATGCG
* *
69849786 ATGTCCCAAACATGGTCTTACACGTAA-AAGAGAAGTTGATGCCAAC-GTCCCAGA-CGTGGCCT
1 ATGTCCCAAACATGGTCTTACACGTAACAA-A-AA-TCGATGCC-ACTGTCCCAGATAG-GGCCT
69849848 TACATGAAATCA
61 TACATGAAATCA
69849860 CATAACGCAA
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
82 2 0.03
83 1 0.02
84 29 0.46
85 29 0.46
86 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (83 bp):
ATGTCCCAAACATGGTCTTACACGTAACAAAAATCGATGCCACTGTCCCAGATAGGGCCTTACAT
GAAATCAGATACGATGCG
Found at i:69850927 original size:27 final size:27
Alignment explanation
Indices: 69850750--69851060 Score: 294
Period size: 27 Copynumber: 11.6 Consensus size: 27
69850740 TTAGTTTACC
* * *
69850750 AAATTACTGAAATACCC-CTAGTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * * *
69850776 AAATTACCAAAGTACCC-CCAGTTTATA
1 AAATTACTAAAATACCCTCGA-TTTGTA
* *
69850803 AAATTA-TCGAAATACCATCGA-TTGTA
1 AAATTACT-AAAATACCCTCGATTTGTA
*
69850829 AAATTACTAAAATACTCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
** *
69850856 AAATTACCGAAATACCCTC-AGTTTGCA
1 AAATTACTAAAATACCCTCGA-TTTGTA
69850883 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * **
69850910 AAGTTACTGAAATACCCTCGACCTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * *
69850937 AAATTACCAAAATACCCCCGATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
** *
69850964 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * * *
69850991 AAATT-GTCGAAATACTCTC-AATTGTA
1 AAATTACT-AAAATACCCTCGATTTGTA
69851017 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
69851044 AAATTACTAAAATACCC
1 AAATTACTAAAATACCC
69851061 CTATGGGGTA
Statistics
Matches: 228, Mismatches: 47, Indels: 19
0.78 0.16 0.06
Matches are distributed among these distances:
26 57 0.25
27 168 0.74
28 3 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:69851080 original size:161 final size:159
Alignment explanation
Indices: 69850750--69851085 Score: 414
Period size: 161 Copynumber: 2.1 Consensus size: 159
69850740 TTAGTTTACC
* ** * * *
69850750 AAATTACTGAAATACCCCTAGTTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTATCGAAA
1 AAATTACTGAAATACCCCGACCTGTAAAATTACCAAAATACCCCCAGTTTATAAAATTACCCAAA
* *
69850815 TACCATCGATTGTAAAATTACTAAAATACTCTCGATTTGTAAAATTACCGAAATACCCTCAGTTT
66 TACCATCGATTGTAAAATTACTAAAATACTCTCGAATTGTAAAATTACCAAAATACCCTCAGTTT
**
69850880 GCAAAATTACTAAAATACCCTCGATTTGT
131 GCAAAATTACTAAAATACCCTCGATGGGT
69850909 AAAGTTACTGAAATACCCTCGACCTGTAAAATTACCAAAATACCCCC-GATTTATAAAATTACCC
1 AAA-TTACTGAAATACCC-CGACCTGTAAAATTACCAAAATACCCCCAG-TTTATAAAATTACCC
* * *
69850973 AAATATCC-TCGATTTGTAAAATT-GTCGAAATACTCTC-AATTGTAAAATTACTAAAATACCCT
63 AAATA-CCATCGA-TTGTAAAATTACT-AAAATACTCTCGAATTGTAAAATTACCAAAATACCCT
* *
69851035 C-GATTTGTAAAATTACTAAAATACCC-CTATGGGGT
125 CAG-TTTGCAAAATTACTAAAATACCCTCGAT-GGGT
69851070 AGAATTACTGAAATAC
1 A-AATTACTGAAATAC
69851086 TCTTGTAGGG
Statistics
Matches: 153, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
159 3 0.02
160 19 0.12
161 107 0.70
162 24 0.16
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (159 bp):
AAATTACTGAAATACCCCGACCTGTAAAATTACCAAAATACCCCCAGTTTATAAAATTACCCAAA
TACCATCGATTGTAAAATTACTAAAATACTCTCGAATTGTAAAATTACCAAAATACCCTCAGTTT
GCAAAATTACTAAAATACCCTCGATGGGT
Found at i:69851348 original size:27 final size:28
Alignment explanation
Indices: 69851066--69851348 Score: 302
Period size: 27 Copynumber: 10.5 Consensus size: 28
69851056 TACCCCTATG
* *
69851066 GGGTAG-AATTACTGAAATACTCTTGTA
1 GGGTAGAAATTACCGAAATACCCTTGTA
*
69851093 GGGTAG-AATTACCAAAATACCCTTGTA
1 GGGTAGAAATTACCGAAATACCCTTGTA
*
69851120 GGGTAGAAA-TACCGAAATACCCCTGTA
1 GGGTAGAAATTACCGAAATACCCTTGTA
* ** *
69851147 AGGTAG-AATTATTGAAATACCCCTGTA
1 GGGTAGAAATTACCGAAATACCCTTGTA
* * *
69851174 GGATAGAAA-TACCGAAATGCCCTTATA
1 GGGTAGAAATTACCGAAATACCCTTGTA
*
69851201 GGGTAGAAA-TACCGAAATGCCCTTGTA
1 GGGTAGAAATTACCGAAATACCCTTGTA
*
69851228 GGGTAGAAA-TACCGAAATACCCCTGTA
1 GGGTAGAAATTACCGAAATACCCTTGTA
* *
69851255 GGGTAG-AATTACTGAAATACCCCTGTA
1 GGGTAGAAATTACCGAAATACCCTTGTA
* **
69851282 GGATAG-AATTACTAAAATACCCTTGTA
1 GGGTAGAAATTACCGAAATACCCTTGTA
*
69851309 GGGTAGAAA-TACCGAGATACCCTTGT-
1 GGGTAGAAATTACCGAAATACCCTTGTA
69851335 GGGATA-AAATTACC
1 GGG-TAGAAATTACC
69851349 ATTTTGCCCC
Statistics
Matches: 222, Mismatches: 27, Indels: 14
0.84 0.10 0.05
Matches are distributed among these distances:
26 10 0.05
27 206 0.93
28 6 0.03
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (28 bp):
GGGTAGAAATTACCGAAATACCCTTGTA
Found at i:69851511 original size:16 final size:16
Alignment explanation
Indices: 69851490--69851520 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
69851480 CAAATATGGG
*
69851490 CATGACATTTTGCATA
1 CATGACATGTTGCATA
69851506 CATGACATGTTGCAT
1 CATGACATGTTGCAT
69851521 GGGTTGGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:69851701 original size:22 final size:22
Alignment explanation
Indices: 69851676--69851734 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
69851666 CCCATTATCA
69851676 ATGGCTTTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
69851698 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
69851720 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
69851735 ACGTATTTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:69851921 original size:27 final size:27
Alignment explanation
Indices: 69851891--69851995 Score: 122
Period size: 27 Copynumber: 3.9 Consensus size: 27
69851881 TATTCTGTTA
* *
69851891 AGTGGCTTTGCCACATTATCTGTTTCT
1 AGTGGCTCTGCCACAATATCTGTTTCT
*
69851918 AGTGGCTATGCCACAAATATCTG-TTCT
1 AGTGGCTCTGCCAC-AATATCTGTTTCT
* *
69851945 GGTGGCTCTGCCACAATATCTGTATCT
1 AGTGGCTCTGCCACAATATCTGTTTCT
* * *
69851972 GGTGACTCTGTCACAATATCTGTT
1 AGTGGCTCTGCCACAATATCTGTT
69851996 CTGGCAGCCA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
26 8 0.12
27 53 0.78
28 7 0.10
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (27 bp):
AGTGGCTCTGCCACAATATCTGTTTCT
Found at i:69851950 original size:54 final size:53
Alignment explanation
Indices: 69851892--69851999 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 53
69851882 ATTCTGTTAA
* * * *
69851892 GTGGCTTTGCCACATTATCTGTTTCTAGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTAGTGACTATGCCAC-AATATCTGTTCTG
* * *
69851946 GTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTAGTGACTATGCCACAATATCTGTTCTG
69851999 G
1 G
69852000 CAGCCATGCT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 14 0.30
54 33 0.70
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATCTAGTGACTATGCCACAATATCTGTTCTG
Found at i:69852126 original size:6 final size:6
Alignment explanation
Indices: 69852117--69852241 Score: 69
Period size: 6 Copynumber: 20.3 Consensus size: 6
69852107 TTGCATTCAC
* * *
69852117 ATTCTG ATTCTA ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
69852166 -TCACCTA ATTCTG ATTCTG ATTCTA ATTCTG -TCACCTG ATTCTG ATTTTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
69852216 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
69852242 AATGTTTCTT
Statistics
Matches: 88, Mismatches: 20, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
5 5 0.06
6 71 0.81
7 9 0.10
8 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:69852152 original size:31 final size:31
Alignment explanation
Indices: 69852117--69852220 Score: 172
Period size: 31 Copynumber: 3.4 Consensus size: 31
69852107 TTGCATTCAC
* *
69852117 ATTCTGATTCTAATTCTGTTACCTGATACTG
1 ATTCTGATTCTAATTCTGTCACCTGATTCTG
*
69852148 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTAATTCTGTCACCTGATTCTG
69852179 ATTCTGATTCTAATTCTGTCACCTGATTCTG
1 ATTCTGATTCTAATTCTGTCACCTGATTCTG
*
69852210 ATTTTGATTCT
1 ATTCTGATTCT
69852221 CATTTTGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTCACCTGATTCTG
Found at i:69856321 original size:55 final size:56
Alignment explanation
Indices: 69856160--69856353 Score: 284
Period size: 56 Copynumber: 3.5 Consensus size: 56
69856150 GAAGTATATG
* *
69856160 TGGCATCGATATGTGACTTCGATATATATGTGCGAGTAA-GCCTACGTTTAATACGT
1 TGGCATCAATATGTGACTCCGATATATATGTGCGAGTAAGGCC-ACGTTTAATACGT
*
69856216 TGGCATCAATATGTGACTCCGATATATATGTGCGAGTAAGCCCACGTTTAATACGT
1 TGGCATCAATATGTGACTCCGATATATATGTGCGAGTAAGGCCACGTTTAATACGT
* * * * *
69856272 TGGCATCGATATGTGACTCC-ATATATGTGTGTGAGTAAGGCCACTTTTAATAAGT
1 TGGCATCAATATGTGACTCCGATATATATGTGCGAGTAAGGCCACGTTTAATACGT
*
69856327 TGGCATCAATATATGACTCCGATATAT
1 TGGCATCAATATGTGACTCCGATATAT
69856354 GTGTACAAGT
Statistics
Matches: 125, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
55 48 0.38
56 75 0.60
57 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (56 bp):
TGGCATCAATATGTGACTCCGATATATATGTGCGAGTAAGGCCACGTTTAATACGT
Found at i:69856365 original size:111 final size:112
Alignment explanation
Indices: 69856160--69856366 Score: 310
Period size: 111 Copynumber: 1.9 Consensus size: 112
69856150 GAAGTATATG
* *
69856160 TGGCATCGATATGTGACTTCGATATATATGTGCGAGTAAGCCTACGTTTAATACGTTGGCATCAA
1 TGGCATCGATATGTGACTTCCATATATATGTGCGAGTAAGCCTACGTTTAATAAGTTGGCATCAA
* * *
69856225 TATGTGACTCCGATATATATGTGCGAGTAAGCCCACGTTTAATACGT
66 TATATGACTCCGATATATATGTACAAGTAAGCCCACGTTTAATACGT
* * *
69856272 TGGCATCGATATGTGAC-TCCATATATGTGTGTGAGTAAGGCC-ACTTTTAATAAGTTGGCATCA
1 TGGCATCGATATGTGACTTCCATATATATGTGCGAGTAA-GCCTACGTTTAATAAGTTGGCATCA
*
69856335 ATATATGACTCCGATATATGTGTACAAGTAAG
65 ATATATGACTCCGATATATATGTACAAGTAAG
69856367 ACCCTGTCTG
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
111 65 0.76
112 20 0.24
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.32
Consensus pattern (112 bp):
TGGCATCGATATGTGACTTCCATATATATGTGCGAGTAAGCCTACGTTTAATAAGTTGGCATCAA
TATATGACTCCGATATATATGTACAAGTAAGCCCACGTTTAATACGT
Found at i:69859927 original size:29 final size:29
Alignment explanation
Indices: 69859894--69859976 Score: 166
Period size: 29 Copynumber: 2.9 Consensus size: 29
69859884 GTGACGAGAT
69859894 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
69859923 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
69859952 TGGCACTAAGTGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
69859977 AAATACGGCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:69860016 original size:59 final size:58
Alignment explanation
Indices: 69859890--69860025 Score: 159
Period size: 59 Copynumber: 2.3 Consensus size: 58
69859880 TACGGTGACG
* * *
69859890 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
* **
69859947 ATATATGGCACTAAGTGTGCATGCTGGAAAAAATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGG-AAAAATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
69860006 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
69860026 GGGCTTAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
57 3 0.05
58 22 0.33
59 40 0.61
60 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
Found at i:69866645 original size:23 final size:23
Alignment explanation
Indices: 69866588--69866654 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
69866578 ATTATGTAGG
69866588 AAGAA-TAAAGAAATGAAAAAAA
1 AAGAAGTAAAGAAATGAAAAAAA
*
69866610 AAGAAGTAGAGAATATGAAGAAAAA
1 AAGAAGTAAAGAA-ATGAA-AAAAA
*
69866635 CA-AAG-AAAGAAA--AAAAAAA
1 AAGAAGTAAAGAAATGAAAAAAA
69866654 A
1 A
69866655 TGTTCATTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
19 5 0.13
20 2 0.05
22 6 0.16
23 11 0.29
24 8 0.21
25 6 0.16
ACGTcount: A:0.75, C:0.01, G:0.16, T:0.07
Consensus pattern (23 bp):
AAGAAGTAAAGAAATGAAAAAAA
Found at i:69867841 original size:29 final size:29
Alignment explanation
Indices: 69867808--69867890 Score: 166
Period size: 29 Copynumber: 2.9 Consensus size: 29
69867798 GTGACGAGAT
69867808 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
69867837 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
69867866 TGGCACTAAGTGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
69867891 AAATACGGCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:69867930 original size:59 final size:58
Alignment explanation
Indices: 69867804--69867939 Score: 159
Period size: 59 Copynumber: 2.3 Consensus size: 58
69867794 TACGGTGACG
* * *
69867804 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
* **
69867861 ATATATGGCACTAAGTGTGCATGCTGGAAAAAATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGG-AAAAATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
69867920 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
69867940 GGGCTTAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
57 3 0.05
58 22 0.33
59 40 0.61
60 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
Found at i:69870461 original size:40 final size:40
Alignment explanation
Indices: 69870376--69870526 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
69870366 AATTGAATGA
* * *
69870376 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
69870416 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
69870457 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
69870496 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
69870527 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:69870540 original size:40 final size:40
Alignment explanation
Indices: 69870412--69870542 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
69870402 TATGCTGGAA
* * *
69870412 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
69870452 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
69870492 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
69870532 ATTATATCCGG
1 ATTATATCCGG
69870543 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:69878447 original size:40 final size:40
Alignment explanation
Indices: 69878362--69878512 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
69878352 AATTGAATGA
* * *
69878362 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGATA-TAC
* * *
69878402 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAT--ATAC
*
69878443 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGATATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGATATAC
*
69878482 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
69878513 ACGTGATTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
39 5 0.05
40 82 0.90
41 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATATAC
Found at i:69878526 original size:40 final size:40
Alignment explanation
Indices: 69878398--69878528 Score: 158
Period size: 40 Copynumber: 3.3 Consensus size: 40
69878388 TATGCTGGAA
* * *
69878398 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * *
69878438 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TG
*
69878478 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
69878518 ATTATATCCGG
1 ATTATATCCGG
69878529 TTATATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.03
40 72 0.96
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:69880105 original size:40 final size:40
Alignment explanation
Indices: 69880033--69880239 Score: 186
Period size: 40 Copynumber: 5.2 Consensus size: 40
69880023 CAATTGAATG
* * * * *
69880033 ATATCCGGGCTAAG-TCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
* * * *
69880072 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
* **
69880112 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAATT
* * * **
69880152 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
* * **
69880192 CTATCCGGGCTAAGACCCGAAGGC-ATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAATT
69880232 ATATCCGG
1 ATATCCGG
69880240 TTGTATTCTG
Statistics
Matches: 140, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 18 0.13
40 120 0.86
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
Found at i:69880170 original size:80 final size:80
Alignment explanation
Indices: 69880034--69880239 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
69880024 AATTGAATGA
* * ** * ** * *
69880034 TATCCGGGCTAAG-TCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
69880098 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* *
69880111 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGC
* *
69880176 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
69880193 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGG
69880240 TTGTATTCTG
Statistics
Matches: 108, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
77 1 0.01
79 12 0.11
80 92 0.85
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:69894721 original size:29 final size:29
Alignment explanation
Indices: 69894679--69894751 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
69894669 CACATGGCCT
69894679 GGCACACGGGCGTGTATGGCAATTTTTAG
1 GGCACACGGGCGTGTATGGCAATTTTTAG
*
69894708 GGCACACGGGCGTGTATGGCCATTTTTAG
1 GGCACACGGGCGTGTATGGCAATTTTTAG
69894737 GGCACACGGGCGTGT
1 GGCACACGGGCGTGT
69894752 GTGTTGGCCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.18, C:0.21, G:0.37, T:0.25
Consensus pattern (29 bp):
GGCACACGGGCGTGTATGGCAATTTTTAG
Found at i:69902311 original size:14 final size:15
Alignment explanation
Indices: 69902285--69902313 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
69902275 CATCTCAACC
69902285 CTTCTCATCTCTTCA
1 CTTCTCATCTCTTCA
69902300 CTTCTC-TCTCTTCA
1 CTTCTCATCTCTTCA
69902314 TTGTTCTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.10, C:0.41, G:0.00, T:0.48
Consensus pattern (15 bp):
CTTCTCATCTCTTCA
Found at i:69910474 original size:51 final size:50
Alignment explanation
Indices: 69910392--69910494 Score: 172
Period size: 51 Copynumber: 2.0 Consensus size: 50
69910382 GATAGTATGC
69910392 GGTACTAGTATTTCATGATCTTAATTCGGGTATTAATAGACCTAAAATTGA
1 GGTACTAGTATTTCATGATCTTAATTCGGGTATTAAT-GACCTAAAATTGA
*
69910443 GGTACTAGTGTTTCATGATCTTAA-TCAGGGTATTAATGACCTAAAATTGA
1 GGTACTAGTATTTCATGATCTTAATTC-GGGTATTAATGACCTAAAATTGA
69910493 GG
1 GG
69910495 CACAATAGTT
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
50 17 0.34
51 33 0.66
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (50 bp):
GGTACTAGTATTTCATGATCTTAATTCGGGTATTAATGACCTAAAATTGA
Found at i:69914999 original size:29 final size:29
Alignment explanation
Indices: 69914967--69915039 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
69914957 CTTCGAGCTC
*
69914967 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
69914996 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
69915025 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
69915040 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:69922932 original size:29 final size:29
Alignment explanation
Indices: 69922900--69922972 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
69922890 CTTCGAGCTC
*
69922900 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
69922929 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
69922958 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
69922973 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:69931449 original size:40 final size:39
Alignment explanation
Indices: 69931311--69931458 Score: 135
Period size: 39 Copynumber: 3.8 Consensus size: 39
69931301 AATTGAATGA
* * ** *
69931311 TATCCGGGCTAAG-CCCGAAGACATTATGCTG-GAAATTA
1 TATCCGGGCTAAGACCCGAAGGCATTGTGC-GAGTCATTC
* * *
69931349 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGT--CATTC
69931390 -ATCC-GGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCATTC
69931428 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCA-TTGTGC
69931459 ACGTGGTTAT
Statistics
Matches: 89, Mismatches: 11, Indels: 18
0.75 0.09 0.15
Matches are distributed among these distances:
37 1 0.01
38 17 0.19
39 35 0.39
40 33 0.37
41 3 0.03
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCATTC
Found at i:69931472 original size:40 final size:40
Alignment explanation
Indices: 69931346--69931474 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
69931336 ATGCTGGAAA
* * *
69931346 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
69931386 CTACATCC-GGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
69931425 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
69931465 TTATATCCGG
1 TTATATCCGG
69931475 TTATATTGAA
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
39 31 0.43
40 41 0.57
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:69938679 original size:55 final size:56
Alignment explanation
Indices: 69938614--69938728 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
69938604 AGCATGGCTG
* *
69938614 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
69938670 CCAGA-ACAGATATATGTGCCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
69938725 CCAG
1 CCAG
69938729 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:69938725 original size:28 final size:27
Alignment explanation
Indices: 69938639--69938728 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
69938629 GTGACAGAGT
*
69938639 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* * *
69938668 CACCAGAACAGAT-ATATGTGCCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
69938695 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
69938723 CACCAG
1 CACCAG
69938729 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:69938881 original size:28 final size:28
Alignment explanation
Indices: 69938834--69938926 Score: 152
Period size: 28 Copynumber: 3.3 Consensus size: 28
69938824 AAATTAACCC
*
69938834 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
69938862 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
*
69938890 TAGGGGTATAATGGTAATTTTGCATGCA
1 TAGGGGTATAATGGTAATTTTGCATACA
69938918 TAGGGGTAT
1 TAGGGGTAT
69938927 TCTAGTACAT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 1 0.02
28 61 0.98
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:69939189 original size:8 final size:8
Alignment explanation
Indices: 69939173--69939204 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
69939163 CCCAAAATAC
69939173 CGGCTTTT
1 CGGCTTTT
*
69939181 CGGCATTT
1 CGGCTTTT
69939189 CGGCTTTT
1 CGGCTTTT
69939197 CGGCTTTT
1 CGGCTTTT
69939205 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Done.