Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 240 of 332
Found at i:79743733 original size:16 final size:16
Alignment explanation
Indices: 79743711--79743747 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
79743701 AATTTTATTT
79743711 TAATAATATATTTTAAA
1 TAATAATA-ATTTTAAA
79743728 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
79743743 TAATA
1 TAATA
79743748 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:79743786 original size:15 final size:15
Alignment explanation
Indices: 79743766--79743823 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
79743756 ATATTATTAA
79743766 AAATATTTTAATAAT
1 AAATATTTTAATAAT
*
79743781 AAATATTTATTAAAATTAT
1 AAATA-TT-TT--AATAAT
*
79743800 AAATATATTAATAAT
1 AAATATTTTAATAAT
*
79743815 AAATGTTTT
1 AAATATTTT
79743824 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:79746766 original size:297 final size:297
Alignment explanation
Indices: 79746232--79746826 Score: 1172
Period size: 297 Copynumber: 2.0 Consensus size: 297
79746222 AGTGAACAAT
79746232 TAGCACAACAAGACCATAAACATACCAAGGTAGAAAACATGATCACATATAAGCTATTACAAAAC
1 TAGCACAACAAGACCATAAACATACCAAGGTAGAAAACATGATCACATATAAGCTATTACAAAAC
79746297 ATAAACATCATTTCATGAATCTAACCAATACCACATTTAACGCACAATCAAAACATATACAAATT
66 ATAAACATCATTTCATGAATCTAACCAATACCACATTTAACGCACAATCAAAACATATACAAATT
79746362 TCAACTATTACATGACAAGTTCCATTATATTTGGATTTCATACCAAACCATGAATTAACATATTA
131 TCAACTATTACATGACAAGTTCCATTATATTTGGATTTCATACCAAACCATGAATTAACATATTA
79746427 TTAACTAAAGCATATATTTATCACACAAGTATAGAAAATACCACTTGTAATAAGTACTTAAAACA
196 TTAACTAAAGCATATATTTATCACACAAGTATAGAAAATACCACTTGTAATAAGTACTTAAAACA
79746492 TATAGAAGATACTCCTATTACATACAACATTTCAAAA
261 TATAGAAGATACTCCTATTACATACAACATTTCAAAA
79746529 TAGCACAACAAGACCATAAACATACCAAGGTAGAAAACATGATCACATATAAGCTATTACAAAAC
1 TAGCACAACAAGACCATAAACATACCAAGGTAGAAAACATGATCACATATAAGCTATTACAAAAC
79746594 ATAAACATCATTTCATGAATCTAACCAATACCACATTTAACGCACAATCAAAACATATACAAATT
66 ATAAACATCATTTCATGAATCTAACCAATACCACATTTAACGCACAATCAAAACATATACAAATT
*
79746659 TCACCTATTACATGACAAGTTCCATTATATTTGGATTTCATACCAAACCATGAATTAACATATTA
131 TCAACTATTACATGACAAGTTCCATTATATTTGGATTTCATACCAAACCATGAATTAACATATTA
79746724 TTAACTAAAGCATATATTTATCACACAAGTATAGAAAATACCACTTGTAATAAGTACTTAAAACA
196 TTAACTAAAGCATATATTTATCACACAAGTATAGAAAATACCACTTGTAATAAGTACTTAAAACA
*
79746789 TATAGAAGATACTCCTATTACATGCAACATTTCAAAA
261 TATAGAAGATACTCCTATTACATACAACATTTCAAAA
79746826 T
1 T
79746827 TAAACATGTT
Statistics
Matches: 296, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
297 296 1.00
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.27
Consensus pattern (297 bp):
TAGCACAACAAGACCATAAACATACCAAGGTAGAAAACATGATCACATATAAGCTATTACAAAAC
ATAAACATCATTTCATGAATCTAACCAATACCACATTTAACGCACAATCAAAACATATACAAATT
TCAACTATTACATGACAAGTTCCATTATATTTGGATTTCATACCAAACCATGAATTAACATATTA
TTAACTAAAGCATATATTTATCACACAAGTATAGAAAATACCACTTGTAATAAGTACTTAAAACA
TATAGAAGATACTCCTATTACATACAACATTTCAAAA
Found at i:79747578 original size:16 final size:16
Alignment explanation
Indices: 79747557--79747588 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
79747547 GTAATGCCTC
79747557 AAAAATCCCGAAATCT
1 AAAAATCCCGAAATCT
*
79747573 AAAAATCTCGAAATCT
1 AAAAATCCCGAAATCT
79747589 CAAATTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (16 bp):
AAAAATCCCGAAATCT
Found at i:79748456 original size:41 final size:41
Alignment explanation
Indices: 79748399--79748482 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
79748389 GAGTATTCAA
79748399 TCCCTCATTTCTTTCTAATAGACTTTGGTAGGGAATTAGTG
1 TCCCTCATTTCTTTCTAATAGACTTTGGTAGGGAATTAGTG
* *
79748440 TCCCTCATTTCTTTCTAATCGACTTTGGTTGGGAATTAGTG
1 TCCCTCATTTCTTTCTAATAGACTTTGGTAGGGAATTAGTG
79748481 TC
1 TC
79748483 AGATCTCGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (41 bp):
TCCCTCATTTCTTTCTAATAGACTTTGGTAGGGAATTAGTG
Found at i:79748762 original size:16 final size:16
Alignment explanation
Indices: 79748741--79748771 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
79748731 ATCGTCAAAA
79748741 GCCGAAAAGCTGAAAT
1 GCCGAAAAGCTGAAAT
*
79748757 GCCGAAAAGTTGAAA
1 GCCGAAAAGCTGAAA
79748772 GTTTGGCTAC
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:0.45, C:0.16, G:0.26, T:0.13
Consensus pattern (16 bp):
GCCGAAAAGCTGAAAT
Found at i:79749030 original size:29 final size:28
Alignment explanation
Indices: 79748989--79749075 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 28
79748979 GAATATGAAT
*
79748989 GTGACTGGGCCTAATGGGCCATATACAG
1 GTGATTGGGCCTAATGGGCCATATACAG
* *
79749017 GTGATTTGGGCCTAATAGGCCATATGA-AT
1 GTGA-TTGGGCCTAATGGGCCATAT-ACAG
* * *
79749046 ATGATTGGGCTTAATGGGCCAGATACAG
1 GTGATTGGGCCTAATGGGCCATATACAG
79749074 GT
1 GT
79749076 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
27 1 0.02
28 23 0.49
29 22 0.47
30 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (28 bp):
GTGATTGGGCCTAATGGGCCATATACAG
Found at i:79749065 original size:28 final size:28
Alignment explanation
Indices: 79748981--79749066 Score: 102
Period size: 28 Copynumber: 3.0 Consensus size: 28
79748971 GTGAGCATGA
*
79748981 ATATGAATGTGACTGGGCCTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
* *
79749009 ATAT-ACAGGTGATTTGGGCCTAATAGGCC
1 ATATGA-ATGTGA-TTGGGCCTAATGGGCC
* *
79749038 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
79749066 A
1 A
79749067 GATACAGGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
27 1 0.02
28 24 0.50
29 22 0.46
30 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:79749391 original size:27 final size:25
Alignment explanation
Indices: 79749348--79749399 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 25
79749338 AAAACAATAA
*
79749348 TTAAGGGAAAATTACCAAAATACCC
1 TTAAGGGAAAATGACCAAAATACCC
79749373 TTAAGGGCAAAAATGACCAAAATACCC
1 TTAAGGG--AAAATGACCAAAATACCC
79749400 CTAGGTGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 7 0.29
27 17 0.71
ACGTcount: A:0.48, C:0.21, G:0.13, T:0.17
Consensus pattern (25 bp):
TTAAGGGAAAATGACCAAAATACCC
Found at i:79754748 original size:22 final size:22
Alignment explanation
Indices: 79754720--79754765 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
79754710 TAGTGGGAGA
79754720 CTTAGTTTTTTTTTTAAAGTCT
1 CTTAGTTTTTTTTTTAAAGTCT
79754742 CTTAGTTTTTTTTTTAAAGTCT
1 CTTAGTTTTTTTTTTAAAGTCT
79754764 CT
1 CT
79754766 CTATGGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.11, G:0.09, T:0.63
Consensus pattern (22 bp):
CTTAGTTTTTTTTTTAAAGTCT
Found at i:79756337 original size:8 final size:8
Alignment explanation
Indices: 79756314--79756364 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
79756304 ATGTATAGGC
*
79756314 AAAAGTCG
1 AAAAGCCG
*
79756322 AAATGCCG
1 AAAAGCCG
79756330 AAAAGCCG
1 AAAAGCCG
*
79756338 AAAAGCTG
1 AAAAGCCG
79756346 AAATA-CCG
1 AAA-AGCCG
79756354 AAAAGCCG
1 AAAAGCCG
79756362 AAA
1 AAA
79756365 GTTTGGCTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
7 1 0.03
8 34 0.94
9 1 0.03
ACGTcount: A:0.51, C:0.20, G:0.22, T:0.08
Consensus pattern (8 bp):
AAAAGCCG
Found at i:79756632 original size:29 final size:28
Alignment explanation
Indices: 79756574--79756685 Score: 100
Period size: 29 Copynumber: 3.9 Consensus size: 28
79756564 GTGAGCATGA
* * * * *
79756574 ATATGAATGTGACTAGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCTAATGGGCC
79756602 ATATAAATGTGATTTGGGACTAATGGGCC
1 ATATAAATGTGATTTGGG-CTAATGGGCC
* * *
79756631 ATATACAGGTGATTTTGGCCTAATGGGCC
1 ATATAAATGTGA-TTTGGGCTAATGGGCC
* *
79756660 ATATGAATATGA-TTGGGCTTAATGGG
1 ATATAAATGTGATTTGGGC-TAATGGG
79756686 ACAGATACAG
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
27 5 0.07
28 21 0.31
29 37 0.54
30 5 0.07
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTTGGGCTAATGGGCC
Found at i:79756659 original size:58 final size:57
Alignment explanation
Indices: 79756589--79756697 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 57
79756579 AATGTGACTA
* * *
79756589 GGCCTAACGGGCCATATAAATGTGATTTGGGAC-TAATGGGCCATATACAGGTGATTTT
1 GGCCTAACGGGCCATATAAATATGA-TTGGG-CTTAATGGGACAGATACAGGTGATTTT
* *
79756647 GGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGACAGATACAGGT
1 GGCCTAACGGGCCATATAAATATGATTGGGCTTAATGGGACAGATACAGGT
79756698 ATGTGAAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 1 0.02
57 22 0.49
58 22 0.49
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (57 bp):
GGCCTAACGGGCCATATAAATATGATTGGGCTTAATGGGACAGATACAGGTGATTTT
Found at i:79777128 original size:26 final size:26
Alignment explanation
Indices: 79777092--79777201 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
79777082 CATGAAATTC
79777092 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
79777118 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
79777144 TTATCATGGAACATTTACCAAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
79777170 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
79777196 TTATCA
1 TTATCA
79777202 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:79779620 original size:42 final size:41
Alignment explanation
Indices: 79779557--79779956 Score: 188
Period size: 42 Copynumber: 9.7 Consensus size: 41
79779547 TCTTTTACTT
79779557 GATGCCATAGT-CCA-ACTATGGTCTTACACAAAGTCTCATATC
1 GATGCCATA-TCCCAGA-TATGGTCTTACACAAA-TCTCATATC
* * * * * *
79779599 GATGCCATGTCCCAGAAATGGTCTTATAGAAATCACATATT
1 GATGCCATATCCCAGATATGGTCTTACACAAATCTCATATC
*** * * * *
79779640 GATGCTGCATCCTAGACACGGTCTTACATGAAATCTCATA-C
1 GATGCCATATCCCAGATATGGTCTTACA-CAAATCTCATATC
*
79779681 TGAAGCCATATCCCAGATATGGTCTTACACATAATCTCATATCGATCCC
1 -GATGCCATATCCCAGATATGGTCTTACACA-AATCTC--AT--AT--C
*
79779730 GATGCCATATCCCAGATATGGTATTACACAAGATCTCATATCGATGC
1 GATGCCATATCCCAGATATGGTCTTACACAA-ATCTC--AT--AT-C
* * *
79779777 TGATGCCATATCCTAGATATGGTCTTACACAGGATCTTATATC
1 -GATGCCATATCCCAGATATGGTCTTACACA-AATCTCATATC
* * ** * *
79779820 GATGCCATGTCTCAGGCATGGTCTTACAC--GTATC--A-C
1 GATGCCATATCCCAGATATGGTCTTACACAAATCTCATATC
* * * *
79779856 AATGCCATAGCCCAGCTATGGTCTT--AC--ATGTCATCA-C
1 GATGCCATATCCCAGATATGGTCTTACACAAATCTCAT-ATC
* * *
79779893 GATGCCATAGCCCAGCTATGGTCTTACACGAA--TCATA--
1 GATGCCATATCCCAGATATGGTCTTACACAAATCTCATATC
* *
79779930 -ATGCCATAGCCCAGCTATGGTCTTACA
1 GATGCCATATCCCAGATATGGTCTTACA
79779957 TGTTATCACA
Statistics
Matches: 288, Mismatches: 48, Indels: 50
0.75 0.12 0.13
Matches are distributed among these distances:
34 5 0.02
36 47 0.16
37 27 0.09
38 1 0.00
39 8 0.03
41 30 0.10
42 85 0.30
43 2 0.01
44 4 0.01
46 3 0.01
47 2 0.01
48 73 0.25
49 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (41 bp):
GATGCCATATCCCAGATATGGTCTTACACAAATCTCATATC
Found at i:79779823 original size:48 final size:48
Alignment explanation
Indices: 79779680--79779824 Score: 211
Period size: 48 Copynumber: 3.0 Consensus size: 48
79779670 AAATCTCATA
* *
79779680 CTGAAGCCATATCCCAGATATGGTCTTACACATA-ATCTCATATCGATC
1 CTGATGCCATATCCCAGATATGGTCTTACACA-AGATCTCATATCGATG
* *
79779728 CCGATGCCATATCCCAGATATGGTATTACACAAGATCTCATATCGATG
1 CTGATGCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATG
* * *
79779776 CTGATGCCATATCCTAGATATGGTCTTACACAGGATCTTATATCGATG
1 CTGATGCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATG
79779824 C
1 C
79779825 CATGTCTCAG
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
47 1 0.01
48 86 0.99
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (48 bp):
CTGATGCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATG
Found at i:79779877 original size:36 final size:36
Alignment explanation
Indices: 79779837--79780106 Score: 396
Period size: 36 Copynumber: 7.4 Consensus size: 36
79779827 TGTCTCAGGC
79779837 ATGGTCTTACACGTATCACAATGCCATAGCCCAGCT
1 ATGGTCTTACACGTATCACAATGCCATAGCCCAGCT
* *
79779873 ATGGTCTTACATGTCATCACGATGCCATAGCCCAGCT
1 ATGGTCTTACACGT-ATCACAATGCCATAGCCCAGCT
* *
79779910 ATGGTCTTACACGAATCATAATGCCATAGCCCAGCT
1 ATGGTCTTACACGTATCACAATGCCATAGCCCAGCT
* *
79779946 ATGGTCTTACATGTTATCACAATGCCATAGCCTAGCT
1 ATGGTCTTACACG-TATCACAATGCCATAGCCCAGCT
* *
79779983 ATAGTCTTACACGTATCACAATGCCATAGCCCAACT
1 ATGGTCTTACACGTATCACAATGCCATAGCCCAGCT
* *
79780019 ATGGTCTTGCACGTATCACGATGCCATAGCCCAGCT
1 ATGGTCTTACACGTATCACAATGCCATAGCCCAGCT
* * *
79780055 ATGGTCTTACACGCTATTACAATGCAATAGCCCAGCA
1 ATGGTCTTACACG-TATCACAATGCCATAGCCCAGCT
79780092 ATGGTCTTACACGTA
1 ATGGTCTTACACGTA
79780107 CCATATGTAT
Statistics
Matches: 208, Mismatches: 23, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
36 112 0.54
37 96 0.46
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (36 bp):
ATGGTCTTACACGTATCACAATGCCATAGCCCAGCT
Found at i:79779920 original size:73 final size:72
Alignment explanation
Indices: 79779837--79780102 Score: 406
Period size: 73 Copynumber: 3.7 Consensus size: 72
79779827 TGTCTCAGGC
79779837 ATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACATGTCATCACGATGCCATA
1 ATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACATGT-ATCACGATGCCATA
79779902 GCCCAGCT
65 GCCCAGCT
* * *
79779910 ATGGTCTTACACGAATCATAATGCCATAGCCCAGCTATGGTCTTACATGTTATCACAATGCCATA
1 ATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACATG-TATCACGATGCCATA
*
79779975 GCCTAGCT
65 GCCCAGCT
* * * *
79779983 ATAGTCTTACACGTATCACAATGCCATAGCCCAACTATGGTCTTGCACGTATCACGATGCCATAG
1 ATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACATGTATCACGATGCCATAG
79780048 CCCAGCT
66 CCCAGCT
* * *
79780055 ATGGTCTTACACGCTATTACAATGCAATAGCCCAGCAATGGTCTTACA
1 ATGGTCTTACACG-TATCACAATGCCATAGCCCAGCTATGGTCTTACA
79780103 CGTACCATAT
Statistics
Matches: 173, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
72 33 0.19
73 139 0.80
74 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (72 bp):
ATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACATGTATCACGATGCCATAG
CCCAGCT
Found at i:79780011 original size:109 final size:108
Alignment explanation
Indices: 79779837--79780106 Score: 396
Period size: 109 Copynumber: 2.5 Consensus size: 108
79779827 TGTCTCAGGC
* *
79779837 ATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACATGTCATCACGATGCCATA
1 ATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACACGT-ATCACAATGCCATA
* *
79779902 GCCCAGCTATGGTCTTACACGAATCATAATGCCATAGCCCAGCT
65 GCCCAACTATGGTCTTACACGAATCACAATGCCATAGCCCAGCT
* * *
79779946 ATGGTCTTACATGTTATCACAATGCCATAGCCTAGCTATAGTCTTACACGTATCACAATGCCATA
1 ATGGTCTTACACG-TATCACAATGCCATAGCCCAGCTATGGTCTTACACGTATCACAATGCCATA
* * *
79780011 GCCCAACTATGGTCTTGCACGTATCACGATGCCATAGCCCAGCT
65 GCCCAACTATGGTCTTACACGAATCACAATGCCATAGCCCAGCT
* * *
79780055 ATGGTCTTACACGCTATTACAATGCAATAGCCCAGCAATGGTCTTACACGTA
1 ATGGTCTTACACG-TATCACAATGCCATAGCCCAGCTATGGTCTTACACGTA
79780107 CCATATGTAT
Statistics
Matches: 143, Mismatches: 17, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
109 109 0.76
110 34 0.24
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (108 bp):
ATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACACGTATCACAATGCCATAG
CCCAACTATGGTCTTACACGAATCACAATGCCATAGCCCAGCT
Found at i:79781000 original size:21 final size:20
Alignment explanation
Indices: 79780974--79781012 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
79780964 GGACTAAACC
*
79780974 GAAAACTTTGAAAACTTTTGG
1 GAAAACTTAGAAAA-TTTTGG
79780995 GAAAACTTAGAAAATTTT
1 GAAAACTTAGAAAATTTT
79781013 ATCATGAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (20 bp):
GAAAACTTAGAAAATTTTGG
Found at i:79784295 original size:13 final size:13
Alignment explanation
Indices: 79784277--79784303 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
79784267 CTTGGGGACA
79784277 CGCCCGTGTCTCT
1 CGCCCGTGTCTCT
79784290 CGCCCGTGTCTCT
1 CGCCCGTGTCTCT
79784303 C
1 C
79784304 ACCTGTGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.48, G:0.22, T:0.30
Consensus pattern (13 bp):
CGCCCGTGTCTCT
Found at i:79787137 original size:12 final size:12
Alignment explanation
Indices: 79787099--79787152 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
79787089 AATAAAGTTC
*
79787099 AAAATAGAAAAAC
1 AAAA-AGAAAAAT
79787112 AAAAA-AAAACAT
1 AAAAAGAAAA-AT
79787124 AAAAAGAAAAAT
1 AAAAAGAAAAAT
* *
79787136 AAAAATAAAGAT
1 AAAAAGAAAAAT
79787148 AAAAA
1 AAAAA
79787153 AAATAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
11 4 0.11
12 24 0.67
13 8 0.22
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.09
Consensus pattern (12 bp):
AAAAAGAAAAAT
Found at i:79787139 original size:24 final size:24
Alignment explanation
Indices: 79787099--79787170 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 24
79787089 AATAAAGTTC
* *
79787099 AAAATAGAAAAACAAAAAAAAACAT
1 AAAA-AGAAAAATAAAAATAAACAT
*
79787124 AAAAAGAAAAATAAAAATAAAGAT
1 AAAAAGAAAAATAAAAATAAACAT
79787148 --AAA-AAAAATAAAAATAAACAT
1 AAAAAGAAAAATAAAAATAAACAT
79787169 AA
1 AA
79787171 GAATAAATGG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 17 0.41
22 3 0.07
24 17 0.41
25 4 0.10
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.11
Consensus pattern (24 bp):
AAAAAGAAAAATAAAAATAAACAT
Found at i:79787141 original size:6 final size:6
Alignment explanation
Indices: 79787106--79787177 Score: 62
Period size: 6 Copynumber: 12.5 Consensus size: 6
79787096 TTCAAAATAG
* * *
79787106 AAAAAC AAAAA- AAAACAT AAAAAG AAAAAT AAAAAT AAAGAT --AAA-
1 AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* *
79787151 AAAAAT AAAAAT AAACAT AAGAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
79787178 TGGACTCAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
4 2 0.04
5 7 0.13
6 40 0.75
7 4 0.08
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.11
Consensus pattern (6 bp):
AAAAAT
Found at i:79787159 original size:33 final size:34
Alignment explanation
Indices: 79787114--79787177 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 34
79787104 AGAAAAACAA
79787114 AAAAAAACATAAAAAGAAAAATAAAAATAAAGAT
1 AAAAAAACATAAAAAGAAAAATAAAAATAAAGAT
* * *
79787148 AAAAAAA-ATAAAAATAAACATAAGAATAAA
1 AAAAAAACATAAAAAGAAAAATAAAAATAAA
79787178 TGGACTCAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 20 0.74
34 7 0.26
ACGTcount: A:0.80, C:0.03, G:0.05, T:0.12
Consensus pattern (34 bp):
AAAAAAACATAAAAAGAAAAATAAAAATAAAGAT
Found at i:79787170 original size:12 final size:12
Alignment explanation
Indices: 79787108--79787177 Score: 69
Period size: 12 Copynumber: 6.2 Consensus size: 12
79787098 CAAAATAGAA
79787108 AAACA-AAAAA-
1 AAACATAAAAAT
*
79787118 AAACATAAAAAG
1 AAACATAAAAAT
*
79787130 AAAAATAAAAAT
1 AAACATAAAAAT
*
79787142 AAAGAT-AAAA-
1 AAACATAAAAAT
79787152 AAA-ATAAAAAT
1 AAACATAAAAAT
*
79787163 AAACATAAGAAT
1 AAACATAAAAAT
79787175 AAA
1 AAA
79787178 TGGACTCAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.04
10 12 0.24
11 12 0.24
12 25 0.49
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.11
Consensus pattern (12 bp):
AAACATAAAAAT
Found at i:79788815 original size:18 final size:15
Alignment explanation
Indices: 79788783--79788821 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 15
79788773 GTAAAGGATT
79788783 ATAATAAAATAAATA
1 ATAATAAAATAAATA
79788798 ATAATAATAATGACAATA
1 ATAATAA-AAT-A-AATA
79788816 ATAATA
1 ATAATA
79788822 GTAAAAGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.33
16 3 0.14
17 1 0.05
18 10 0.48
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (15 bp):
ATAATAAAATAAATA
Found at i:79802294 original size:47 final size:48
Alignment explanation
Indices: 79802243--79802364 Score: 142
Period size: 47 Copynumber: 2.6 Consensus size: 48
79802233 AGGAATTGAC
79802243 GATTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCATT-
1 GATTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCATTA
** ** *
79802290 GATTAAGGACT-CCATGTAAGACCACATCAAGATGTGGCATTGGCATTAA
1 GATTAAGGA-TACCATGTAAGACCATGTCAAGACATGGCATCGGCATT-A
* *
79802339 GA-CAAGGATACCATGTAATACCATGT
1 GATTAAGGATACCATGTAAGACCATGT
79802365 TTGGAACATG
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
47 41 0.66
48 19 0.31
49 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (48 bp):
GATTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCATTA
Found at i:79802396 original size:47 final size:47
Alignment explanation
Indices: 79802336--79802433 Score: 169
Period size: 47 Copynumber: 2.1 Consensus size: 47
79802326 GCATTGGCAT
* *
79802336 TAAGACAAGGATACCATGTAATACCATGTTTGGAACATGGAATTTGG
1 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
*
79802383 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
79802430 TAAG
1 TAAG
79802434 TTAAGTCAGG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (47 bp):
TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
Found at i:79808855 original size:6 final size:6
Alignment explanation
Indices: 79808844--79808883 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
79808834 AGGTTTCCAA
*
79808844 AAATGG AAATGG AAATGA AAATGG AAATGG AAATGG AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
79808884 TATCCATTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.55, C:0.00, G:0.28, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:79815346 original size:19 final size:20
Alignment explanation
Indices: 79815322--79815361 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
79815312 AAATAGCTTT
*
79815322 TGTTTTCAGTC-ATATTTTA
1 TGTTTTCAGTCTATATATTA
*
79815341 TGTTTTGAGTCTATATATTA
1 TGTTTTCAGTCTATATATTA
79815361 T
1 T
79815362 ATTTGATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.23, C:0.07, G:0.12, T:0.57
Consensus pattern (20 bp):
TGTTTTCAGTCTATATATTA
Found at i:79819774 original size:36 final size:36
Alignment explanation
Indices: 79819734--79819806 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
79819724 AGACATTCTT
79819734 ACATGGTAACTTATAAAAGAAAGTATTTTTTAATCA
1 ACATGGTAACTTATAAAAGAAAGTATTTTTTAATCA
** *
79819770 ACATGGTAACTTATAAGGGAAAGTATTTTTTGATCA
1 ACATGGTAACTTATAAAAGAAAGTATTTTTTAATCA
79819806 A
1 A
79819807 TCACCTGGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (36 bp):
ACATGGTAACTTATAAAAGAAAGTATTTTTTAATCA
Found at i:79823615 original size:27 final size:25
Alignment explanation
Indices: 79823587--79823650 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 25
79823577 ATAAAATAAT
79823587 TTTAAAATAAATAATAAATAAGTTAA
1 TTTAAAATAAATAATAAATAAG-TAA
*
79823613 TTT--AA-AAGTAATAAATAAG-AA
1 TTTAAAATAAATAATAAATAAGTAA
*
79823634 GTTTAAAATATATAATA
1 -TTTAAAATAAATAATA
79823651 CGTAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
21 2 0.06
22 3 0.10
23 13 0.42
24 4 0.13
25 6 0.19
26 3 0.10
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (25 bp):
TTTAAAATAAATAATAAATAAGTAA
Found at i:79823648 original size:22 final size:21
Alignment explanation
Indices: 79823595--79823648 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 21
79823585 ATTTTAAAAT
79823595 AAATAATAAATAAGTTAATTTA
1 AAATAATAAATAAG-TAATTTA
79823617 AAAGTAATAAATAAG-AAGTTTA
1 AAA-TAATAAATAAGTAA-TTTA
79823639 AAATATATAA
1 AAATA-ATAA
79823649 TACGTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.14
22 14 0.48
23 11 0.38
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (21 bp):
AAATAATAAATAAGTAATTTA
Found at i:79841352 original size:13 final size:13
Alignment explanation
Indices: 79841336--79841370 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
79841326 TAATTCTTGT
79841336 AAATATTTATTAA
1 AAATATTTATTAA
79841349 AAATATTTATTAA
1 AAATATTTATTAA
79841362 AAATATTTA
1 AAATATTTA
79841371 GGAATTCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATATTTATTAA
Found at i:79842688 original size:16 final size:17
Alignment explanation
Indices: 79842646--79842689 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
79842636 TTATTTAATC
*
79842646 AATTAATTTAATTAACTA
1 AATTAATTT-TTTAACTA
*
79842664 AATTAATTTTTTAATTA
1 AATTAATTTTTTAACTA
79842681 AA-TAATTTT
1 AATTAATTTT
79842690 CTCAACTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 7 0.29
17 8 0.33
18 9 0.38
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
AATTAATTTTTTAACTA
Found at i:79844672 original size:15 final size:16
Alignment explanation
Indices: 79844642--79844680 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
79844632 TATTAAAAAT
79844642 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
79844659 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
79844674 ATAATTT
1 ATAATTT
79844681 TTAAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:79853014 original size:19 final size:18
Alignment explanation
Indices: 79852981--79853051 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 18
79852971 CCTATTAGAT
*
79852981 TTTTTATATACTTTTTAGAA
1 TTTTTA-ATAATTTTTA-AA
79853001 TTTTTAATAATTTTTAATA
1 TTTTTAATAATTTTTAA-A
79853020 TATTTT-AT-ATTTTTAAA
1 T-TTTTAATAATTTTTAAA
*
79853037 TTTTTTTATAATTTT
1 -TTTTTAATAATTTT
79853052 ACACTTGAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
17 5 0.11
18 12 0.27
19 18 0.40
20 10 0.22
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (18 bp):
TTTTTAATAATTTTTAAA
Found at i:79853018 original size:10 final size:10
Alignment explanation
Indices: 79852981--79853051 Score: 53
Period size: 9 Copynumber: 7.4 Consensus size: 10
79852971 CCTATTAGAT
*
79852981 TTTTTATATAC
1 TTTTTA-ATAA
*
79852992 TTTTT-AGAA
1 TTTTTAATAA
79853001 TTTTTAATAA
1 TTTTTAATAA
79853011 TTTTTAAT-A
1 TTTTTAATAA
79853020 TATTTT-AT-A
1 T-TTTTAATAA
*
79853029 TTTTTAA-AT
1 TTTTTAATAA
*
79853038 TTTTTTATAA
1 TTTTTAATAA
79853048 TTTT
1 TTTT
79853052 ACACTTGAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
8 4 0.08
9 20 0.41
10 20 0.41
11 5 0.10
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:79853230 original size:16 final size:16
Alignment explanation
Indices: 79853199--79853233 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
79853189 ATTTTGGATG
**
79853199 TTTGTTATTTTTATTT
1 TTTGTTATTTCAATTT
79853215 TTTGTTATTTCAATTT
1 TTTGTTATTTCAATTT
79853231 TTT
1 TTT
79853234 TTTTATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (16 bp):
TTTGTTATTTCAATTT
Found at i:79857143 original size:22 final size:22
Alignment explanation
Indices: 79857118--79857162 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
79857108 TTTAATAAAG
79857118 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
79857140 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
79857162 A
1 A
79857163 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:79860919 original size:22 final size:22
Alignment explanation
Indices: 79860893--79860937 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
79860883 TTTTAATAAA
79860893 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
79860915 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
79860937 A
1 A
79860938 CACTTGGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:79865849 original size:6 final size:6
Alignment explanation
Indices: 79865839--79865878 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
79865829 TTCGATTTCA
* *
79865839 ATTTTA ATTTTG ATTCTG ATTTTG ATTTTG ATTTTG ATTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTT
79865879 CAATTATGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.20, C:0.03, G:0.12, T:0.65
Consensus pattern (6 bp):
ATTTTG
Found at i:79865853 original size:18 final size:19
Alignment explanation
Indices: 79865827--79865872 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
79865817 ATTTAGGGTT
*
79865827 ATTTCGATTTC-AATTTTA
1 ATTTTGATTTCTAATTTTA
* *
79865845 ATTTTGA-TTCTGATTTTG
1 ATTTTGATTTCTAATTTTA
79865863 ATTTTGATTT
1 ATTTTGATTT
79865873 TGATTTCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 3 0.13
18 18 0.78
19 2 0.09
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.61
Consensus pattern (19 bp):
ATTTTGATTTCTAATTTTA
Found at i:79865876 original size:18 final size:18
Alignment explanation
Indices: 79865839--79865883 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
79865829 TTCGATTTCA
79865839 ATTTTAATTTTGATTCTG
1 ATTTTAATTTTGATTCTG
* *
79865857 ATTTTGATTTTGATTTTG
1 ATTTTAATTTTGATTCTG
*
79865875 ATTTCAATT
1 ATTTTAATT
79865884 ATGAAATACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.22, C:0.04, G:0.11, T:0.62
Consensus pattern (18 bp):
ATTTTAATTTTGATTCTG
Found at i:79865881 original size:42 final size:41
Alignment explanation
Indices: 79865827--79865968 Score: 133
Period size: 42 Copynumber: 3.4 Consensus size: 41
79865817 ATTTAGGGTT
* *
79865827 ATTTCGATTTCAATTTTAATTTTGATTCTGATTTTGATTTTG
1 ATTTTGATTTCAATTTAAATTTTGA-TCTGATTTTGATTTTG
** * *
79865869 ATTTTGATTTCAATTATGAAATACTCA-CTGATTCTGATTTTG
1 ATTTTGATTTCAATT-T-AAATTTTGATCTGATTTTGATTTTG
** * * *
79865911 ATTTTGATTTCAATTTCGATTTCGATCTCGATTTAGATTTTA
1 ATTTTGATTTCAATTTAAATTTTGATCT-GATTTTGATTTTG
*
79865953 ATTTAGATTTCAATTT
1 ATTTTGATTTCAATTT
79865969 GGATTTCAGT
Statistics
Matches: 80, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
40 3 0.04
41 3 0.04
42 68 0.85
43 1 0.01
44 5 0.06
ACGTcount: A:0.25, C:0.10, G:0.11, T:0.54
Consensus pattern (41 bp):
ATTTTGATTTCAATTTAAATTTTGATCTGATTTTGATTTTG
Found at i:79865918 original size:12 final size:12
Alignment explanation
Indices: 79865898--79865962 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 12
79865888 AATACTCACT
* *
79865898 GATTCTGATTTT
1 GATTTTGATTTA
79865910 GATTTTGATTTCA
1 GATTTTGATTT-A
* *
79865923 -ATTTCGATTTC
1 GATTTTGATTTA
* *
79865934 GATCTCGATTTA
1 GATTTTGATTTA
*
79865946 GATTTTAATTTA
1 GATTTTGATTTA
79865958 GATTT
1 GATTT
79865963 CAATTTGGAT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
12 42 1.00
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.54
Consensus pattern (12 bp):
GATTTTGATTTA
Found at i:79865926 original size:18 final size:18
Alignment explanation
Indices: 79865905--79865956 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 18
79865895 ACTGATTCTG
*
79865905 ATTTTGATTTTGATTTCA
1 ATTTAGATTTTGATTTCA
* * * *
79865923 ATTTCGATTTCGATCTCG
1 ATTTAGATTTTGATTTCA
*
79865941 ATTTAGATTTTAATTT
1 ATTTAGATTTTGATTT
79865957 AGATTTCAAT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.23, C:0.10, G:0.12, T:0.56
Consensus pattern (18 bp):
ATTTAGATTTTGATTTCA
Found at i:79865967 original size:12 final size:12
Alignment explanation
Indices: 79865941--79865976 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
79865931 TTCGATCTCG
*
79865941 ATTTAGATTTTA
1 ATTTAGATTTCA
79865953 ATTTAGATTTCA
1 ATTTAGATTTCA
*
79865965 ATTTGGATTTCA
1 ATTTAGATTTCA
79865977 GTTTGGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.53
Consensus pattern (12 bp):
ATTTAGATTTCA
Found at i:79869086 original size:47 final size:47
Alignment explanation
Indices: 79868985--79869666 Score: 1022
Period size: 47 Copynumber: 14.4 Consensus size: 47
79868975 GATGTACAAG
* * *
79868985 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAA--T----GTGAAA
* *
79869038 GTGTATATATGTGATAAGGCCAAATGGCCAATATGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
79869085 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
79869132 GTGTATATATGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
79869179 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
79869226 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
79869273 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
79869320 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
79869367 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
79869414 GTGTATATATGTGATAAAGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
79869461 GTGTATATATGTGATAAGGCTGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
79869508 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
79869555 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
79869602 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATATGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
79869649 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
79869667 TCCCGAAGGG
Statistics
Matches: 585, Mismatches: 44, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
47 548 0.94
51 1 0.00
53 36 0.06
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:79870800 original size:15 final size:15
Alignment explanation
Indices: 79870780--79870820 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
79870770 AAGAAATATA
79870780 TGGTAGTGATGTGTC
1 TGGTAGTGATGTGTC
79870795 TGGTAGTGATGTGTC
1 TGGTAGTGATGTGTC
*
79870810 TAGTAGTGATG
1 TGGTAGTGATG
79870821 CATTTGAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.17, C:0.05, G:0.39, T:0.39
Consensus pattern (15 bp):
TGGTAGTGATGTGTC
Found at i:79873317 original size:21 final size:21
Alignment explanation
Indices: 79873293--79873342 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
79873283 CTCAACAGGT
*
79873293 TGCCCTAACTTAGTT-ACAAAC
1 TGCCCTAACTCA-TTAACAAAC
*
79873314 TGCCCTAACTCATTAACAAGC
1 TGCCCTAACTCATTAACAAAC
79873335 TGCCCTAA
1 TGCCCTAA
79873343 GAGACAAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.32, C:0.32, G:0.10, T:0.26
Consensus pattern (21 bp):
TGCCCTAACTCATTAACAAAC
Found at i:79873990 original size:36 final size:36
Alignment explanation
Indices: 79873949--79874020 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
79873939 ATGATTTCGT
79873949 TAGCCATGTAAAACAACATAAGAAACAATATACCAG
1 TAGCCATGTAAAACAACATAAGAAACAATATACCAG
*
79873985 TAGCCATGTATAACAACATAAGAAACAATATACCAG
1 TAGCCATGTAAAACAACATAAGAAACAATATACCAG
79874021 CAACAATATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.51, C:0.19, G:0.11, T:0.18
Consensus pattern (36 bp):
TAGCCATGTAAAACAACATAAGAAACAATATACCAG
Found at i:79874039 original size:36 final size:36
Alignment explanation
Indices: 79873963--79874041 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
79873953 CATGTAAAAC
* * * * *
79873963 AACATAAGAAACAATATACCAGTAGCCATGTATAAC
1 AACATAAGAAACAATATACCAGCAACAATATATAAA
79873999 AACATAAGAAACAATATACCAGCAACAATAT-TACAA
1 AACATAAGAAACAATATACCAGCAACAATATATA-AA
79874035 AACATAA
1 AACATAA
79874042 ACTGGTTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 2 0.05
36 35 0.95
ACGTcount: A:0.56, C:0.19, G:0.08, T:0.18
Consensus pattern (36 bp):
AACATAAGAAACAATATACCAGCAACAATATATAAA
Found at i:79877594 original size:94 final size:93
Alignment explanation
Indices: 79877401--79877623 Score: 248
Period size: 94 Copynumber: 2.4 Consensus size: 93
79877391 GTGTTGACTA
* ** * *
79877401 TGAGCCAGTGTAAGACCATGTTGGACATGGCATCAGTGTTGATTGTGAGCCAGTGTAAGACCATG
1 TGAGCCAGTGTAAGACCATGTTGGACATGGCATCAGTATTGAACGAGAGCCAGTATAAGACCATG
* * * * *
79877466 TTTGGGACATGGCGTTGTCCACCATATG
66 TCTGGGACATGGCATCGACCACCACATG
* * * * * *
79877494 AGAGCCAGTGTAAGGCCATGTTGGATATGGCCTCGGTATTGAGACGAGAGCTAGTATAAGACCAT
1 TGAGCCAGTGTAAGACCATGTTGGACATGGCATCAGTATTGA-ACGAGAGCCAGTATAAGACCAT
* *
79877559 GTCTGGGACATGGCATCGACCTCGACATG
65 GTCTGGGACATGGCATCGACCACCACATG
*
79877588 TGAGCCAGTGTAAGATCATGTCTGGGACATGGCATC
1 TGAGCCAGTGTAAGACCATGT-T-GGACATGGCATC
79877624 GGCAATTCAC
Statistics
Matches: 104, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
93 36 0.35
94 57 0.55
95 1 0.01
96 10 0.10
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (93 bp):
TGAGCCAGTGTAAGACCATGTTGGACATGGCATCAGTATTGAACGAGAGCCAGTATAAGACCATG
TCTGGGACATGGCATCGACCACCACATG
Found at i:79877602 original size:48 final size:46
Alignment explanation
Indices: 79877258--79877626 Score: 296
Period size: 45 Copynumber: 8.0 Consensus size: 46
79877248 ACATTTGGGG
* * *
79877258 TGACATGTGAGCTAGTGTAAGACCATGTTGGACATGGCACCGGCCA
1 TGACATGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCCT
** * * * *
79877304 T-ATTTCGTAAGCCAGTGTAAGACCATGTTGGACATGGTATTGGCGT
1 TGACAT-GTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCCT
* * **
79877350 TGAC-TGTGAGCCAGTGTAAAACTATGTTGGACATGGCATCGGTGT
1 TGACATGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCCT
* * **
79877395 TGAC-TATGAGCCAGTGTAAGACCATGTTGGACATGGCATCAGTGT
1 TGACATGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCCT
* * * * *
79877440 TGA-TTGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCGTTGTCCA
1 TGACATGTGAGCCAGTGTAAGACCATG-TT-GGACATGGCATCGGCCT
** * * * * * **
79877487 CCATATGAGAGCCAGTGTAAGGCCATGTTGGATATGGCCTCGGTAT
1 TGACATGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCCT
* * * * * *
79877533 TGAGACGAGAGCTAGTATAAGACCATGTCTGGGACATGGCATCGACCT
1 TGACATGTGAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGGCCT
* *
79877581 CGACATGTGAGCCAGTGTAAGATCATGTCTGGGACATGGCATCGGC
1 TGACATGTGAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGGC
79877627 AATTCACCCT
Statistics
Matches: 255, Mismatches: 60, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
45 101 0.40
46 69 0.27
47 15 0.06
48 70 0.27
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (46 bp):
TGACATGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCCT
Found at i:79878038 original size:26 final size:26
Alignment explanation
Indices: 79878009--79878064 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
79877999 TGATAAAAAT
*
79878009 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
79878035 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
79878061 TGAT
1 TGAT
79878065 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:79884970 original size:26 final size:26
Alignment explanation
Indices: 79884932--79884984 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
79884922 TGATAAAAAT
*
79884932 TGATAATTAGTTAGGTAAATGTTCCA
1 TGATAATGAGTTAGGTAAATGTTCCA
*
79884958 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGAGTTAGGTAAATGTTCCA
79884984 T
1 T
79884985 TATGGGCAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.38
Consensus pattern (26 bp):
TGATAATGAGTTAGGTAAATGTTCCA
Found at i:79886499 original size:26 final size:26
Alignment explanation
Indices: 79886470--79886522 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
79886460 TCTACAGTTT
79886470 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
79886496 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
79886522 T
1 T
79886523 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:79897127 original size:46 final size:45
Alignment explanation
Indices: 79897077--79897202 Score: 159
Period size: 46 Copynumber: 2.8 Consensus size: 45
79897067 TGAGATGAGT
*
79897077 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCT-CGAGACATAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTACGAG--ATAA
* *
79897123 GCTAGTGTAAAACATGTCTGGGACATGCATCAG-CTACGAGATGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTACGAGATAA
79897167 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCAGC
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC
79897203 ACAGATATAC
Statistics
Matches: 71, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
43 1 0.01
44 12 0.17
45 16 0.23
46 42 0.59
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTACGAGATAA
Found at i:79904518 original size:278 final size:277
Alignment explanation
Indices: 79904021--79904577 Score: 1033
Period size: 278 Copynumber: 2.0 Consensus size: 277
79904011 TTAAGTCCAA
* *
79904021 ATTCACATTCAATCAGGACAACCATTTGTCAATATTCATTCAAAATTATTTTTCTAAATTACATA
1 ATTCACATTCAATCAGGACAACCATTTGTCAACATTCAATCAAAATTATTTTTCTAAATTACATA
*
79904086 AAATTTTAAAAAACATTTAAAAATAGTTTTCTTTAAAAACTTGATATGAATCAATGTTTTAATTC
66 AAATTTAAAAAAACATTTAAAAATAGTTTTCTTTAAAAACTTGATATGAATCAATGTTTTAATTC
79904151 TATTGGTACCTTCTAGGAAAAAATTAAATATATATTTTAGAAAATAAATAATATAAATAATTTTA
131 TATTGGTACCTTCTAGGAAAAAATTAAATATATATTTTAGAAAATAAATAATATAAATAATTTTA
* *
79904216 ATTTTATTAATTGTGCGTGTAAATTTATTTTTTAAATGTATAAATATGTCTAATTAAAAAATGTG
196 ATTTTATTAATTGTGCATGTAAATTTATTTTTTAAATGTATAAATATGTCCAA-TAAAAAATGTG
79904281 TATCAATTATCTTATTAT
260 TATCAATTATCTTATTAT
* *
79904299 ATTCACATTGAATCAGGACAATCATTTGTCAACATTCAATCAAAATTATTTTTCTAAATTACATA
1 ATTCACATTCAATCAGGACAACCATTTGTCAACATTCAATCAAAATTATTTTTCTAAATTACATA
*
79904364 AAATTTAAAAAAACATTTAAAAATAGTTTTCTTTAAAAACTTGATATGAATTAATGTTTTAATTC
66 AAATTTAAAAAAACATTTAAAAATAGTTTTCTTTAAAAACTTGATATGAATCAATGTTTTAATTC
79904429 TATTGGTACCTTCTAGGAAAAAATTAAATATATATTTTAGAAAATAAATAATATAAATAATTTTA
131 TATTGGTACCTTCTAGGAAAAAATTAAATATATATTTTAGAAAATAAATAATATAAATAATTTTA
79904494 ATTTTATTAATTGTGCATGTAAATTTATTTTTTAAATGTATAAATATGTCCAATAAAAAATGTGT
196 ATTTTATTAATTGTGCATGTAAATTTATTTTTTAAATGTATAAATATGTCCAATAAAAAATGTGT
79904559 ATCAATTATCTTATTAT
261 ATCAATTATCTTATTAT
79904576 AT
1 AT
79904578 GTGTAGACTA
Statistics
Matches: 271, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
277 31 0.11
278 240 0.89
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (277 bp):
ATTCACATTCAATCAGGACAACCATTTGTCAACATTCAATCAAAATTATTTTTCTAAATTACATA
AAATTTAAAAAAACATTTAAAAATAGTTTTCTTTAAAAACTTGATATGAATCAATGTTTTAATTC
TATTGGTACCTTCTAGGAAAAAATTAAATATATATTTTAGAAAATAAATAATATAAATAATTTTA
ATTTTATTAATTGTGCATGTAAATTTATTTTTTAAATGTATAAATATGTCCAATAAAAAATGTGT
ATCAATTATCTTATTAT
Found at i:79904596 original size:37 final size:37
Alignment explanation
Indices: 79904550--79904630 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
79904540 TGTCCAATAA
* *
79904550 AAAATGTGTATCAATTATCTTATTATATGTGTAGACT
1 AAAAGGTGTATCAATTATCTTATTACATGTGTAGACT
* * *
79904587 AAAAGGTGTATCAATTATTTTCTTACATGTGTAGCCT
1 AAAAGGTGTATCAATTATCTTATTACATGTGTAGACT
79904624 AAAAGGT
1 AAAAGGT
79904631 CTAAATAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.40
Consensus pattern (37 bp):
AAAAGGTGTATCAATTATCTTATTACATGTGTAGACT
Found at i:79910521 original size:29 final size:30
Alignment explanation
Indices: 79910484--79910547 Score: 89
Period size: 28 Copynumber: 2.2 Consensus size: 30
79910474 AGACTTTAAC
79910484 TTTTAAATTGTTTTTATT-AATTTTTA-AT-T
1 TTTTAAATT-TTTTT-TTCAATTTTTAGATAT
79910513 TTTTAAATTTTTTTTTCAATTTTTAGATAT
1 TTTTAAATTTTTTTTTCAATTTTTAGATAT
79910543 TTTTA
1 TTTTA
79910548 TAAATTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
27 2 0.06
28 13 0.41
29 11 0.34
30 6 0.19
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.69
Consensus pattern (30 bp):
TTTTAAATTTTTTTTTCAATTTTTAGATAT
Found at i:79913366 original size:20 final size:20
Alignment explanation
Indices: 79913341--79913403 Score: 54
Period size: 23 Copynumber: 3.0 Consensus size: 20
79913331 TGATCAGTAT
79913341 ATGACACATAAGTGCCTGAA
1 ATGACACATAAGTGCCTGAA
* * * *
79913361 ATGACATACGAGGTGCTTGAA
1 ATGACACA-TAAGTGCCTGAA
79913382 ATACGACACATAGAGTGCCTGA
1 AT--GACACATA-AGTGCCTGA
79913404 TCGGCAAAGC
Statistics
Matches: 31, Mismatches: 8, Indels: 5
0.70 0.18 0.11
Matches are distributed among these distances:
20 7 0.23
21 11 0.35
22 1 0.03
23 12 0.39
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (20 bp):
ATGACACATAAGTGCCTGAA
Found at i:79914481 original size:23 final size:24
Alignment explanation
Indices: 79914429--79914481 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
79914419 ACTATAAGTA
* *
79914429 ATTATATATTTATTTTACATTTGT
1 ATTATATATTTATATTACAATTGT
79914453 ACTTATA-ATTT-TATTACAATTGT
1 A-TTATATATTTATATTACAATTGT
79914476 CATTAT
1 -ATTAT
79914482 TTAATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 14 0.56
24 6 0.24
25 5 0.20
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.57
Consensus pattern (24 bp):
ATTATATATTTATATTACAATTGT
Found at i:79914751 original size:16 final size:16
Alignment explanation
Indices: 79914732--79914773 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
79914722 AATCTCATAA
79914732 TATAATTAATATAAAT
1 TATAATTAATATAAAT
*
79914748 TATAATTTA-ATAAAT
1 TATAATTAATATAAAT
79914763 TAATAA-TAATA
1 T-ATAATTAATA
79914774 CAGTATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATAATTAATATAAAT
Found at i:79915693 original size:17 final size:18
Alignment explanation
Indices: 79915655--79915700 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
79915645 AAATTATGTA
79915655 CCCATATGCCCGTGGGGG
1 CCCATATGCCCGTGGGGG
*
79915673 CCCATATGCCCGT-GTGG
1 CCCATATGCCCGTGGGGG
*
79915690 CCCATACGCCC
1 CCCATATGCCC
79915701 AACTTAGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.13, C:0.41, G:0.28, T:0.17
Consensus pattern (18 bp):
CCCATATGCCCGTGGGGG
Found at i:79920692 original size:12 final size:12
Alignment explanation
Indices: 79920662--79920690 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
79920652 AATCGGAACC
79920662 CTCAAACTGTCT
1 CTCAAACTGTCT
79920674 CTCAAACTGT-T
1 CTCAAACTGTCT
79920685 CTCAAA
1 CTCAAA
79920691 ACAGACGCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.31, C:0.31, G:0.07, T:0.31
Consensus pattern (12 bp):
CTCAAACTGTCT
Found at i:79929482 original size:13 final size:13
Alignment explanation
Indices: 79929464--79929488 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79929454 CTAGGATCTA
79929464 AAACACAAGCAAC
1 AAACACAAGCAAC
79929477 AAACACAAGCAA
1 AAACACAAGCAA
79929489 ATTCATCTTA
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:0.64, C:0.28, G:0.08, T:0.00
Consensus pattern (13 bp):
AAACACAAGCAAC
Found at i:79930139 original size:41 final size:41
Alignment explanation
Indices: 79930082--79930166 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
79930072 AGTTCTTTAC
79930082 CAAATAACCAATAGCAACATCATTTGAACTTACACTATCAA
1 CAAATAACCAATAGCAACATCATTTGAACTTACACTATCAA
*
79930123 CAAATAACCAATAGCAACGTCATTTGAACTTACACTATCAA
1 CAAATAACCAATAGCAACATCATTTGAACTTACACTATCAA
79930164 CAA
1 CAA
79930167 TGACAGTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.46, C:0.25, G:0.06, T:0.24
Consensus pattern (41 bp):
CAAATAACCAATAGCAACATCATTTGAACTTACACTATCAA
Found at i:79932675 original size:23 final size:23
Alignment explanation
Indices: 79932649--79932704 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
79932639 ATTTAAAAAG
*
79932649 TTAAATATTATTTTATCCTAATA
1 TTAAATATTATGTTATCCTAATA
79932672 TTAAATATTATGTTATCCTAATA
1 TTAAATATTATGTTATCCTAATA
79932695 TTAAATATTA
1 TTAAATATTA
79932705 ATTACAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAAATATTATGTTATCCTAATA
Found at i:79935284 original size:37 final size:37
Alignment explanation
Indices: 79935233--79935340 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 37
79935223 ATTCCAAAAA
*
79935233 TAATATTATTTTAATAGTTTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTTTAATATTAAATTTAATAT
*
79935269 TAATACTTATCTTAATAGTATT-TTATT-AATTTAATAT
1 TAATA-TTATCTTAATAGT-TTAATATTAAATTTAATAT
79935306 TAAAGTGATTATCTTAAT-G-TTAA-ATTAAATTTAAT
1 T-AA-T-ATTATCTTAATAGTTTAATATTAAATTTAAT
79935341 GTTTATCTTG
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
36 18 0.30
37 26 0.43
38 5 0.08
39 11 0.18
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.52
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAAATTTAATAT
Found at i:79938031 original size:32 final size:32
Alignment explanation
Indices: 79937989--79938072 Score: 123
Period size: 32 Copynumber: 2.6 Consensus size: 32
79937979 CCCATCATAG
* * *
79937989 TATCAATTGGGCCTAGCCCATCTCAGAATCAA
1 TATCAGTTGGGCCTAGCCCATATCAGAACCAA
*
79938021 TATCAGTTGGGCCTGGCCCATATCAGAACCAA
1 TATCAGTTGGGCCTAGCCCATATCAGAACCAA
*
79938053 TATCAGTTGGGCCTTGCCCA
1 TATCAGTTGGGCCTAGCCCA
79938073 ATTCAATTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (32 bp):
TATCAGTTGGGCCTAGCCCATATCAGAACCAA
Found at i:79949599 original size:15 final size:15
Alignment explanation
Indices: 79949579--79949614 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
79949569 TCATTACCTT
79949579 GCTCATCTTTTAGTG
1 GCTCATCTTTTAGTG
79949594 GCTCATCTTTTAGTG
1 GCTCATCTTTTAGTG
79949609 GCTCAT
1 GCTCAT
79949615 ACCCTAAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.44
Consensus pattern (15 bp):
GCTCATCTTTTAGTG
Found at i:79960183 original size:29 final size:27
Alignment explanation
Indices: 79960128--79960202 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 27
79960118 CATATTTTAT
* **
79960128 ACAAGTCTTTAATGTGTCTTAGCTTAAA
1 ACAAGT-TTTAATATGTCTTAAATTAAA
*
79960156 TACATGTTATTAATATGTCTTAAATTAAA
1 -ACAAGTT-TTAATATGTCTTAAATTAAA
79960185 ACAAGTTTCTAATATGTC
1 ACAAGTTT-TAATATGTC
79960203 CTAGCGTAGC
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 1 0.03
28 16 0.41
29 22 0.56
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (27 bp):
ACAAGTTTTAATATGTCTTAAATTAAA
Found at i:79966591 original size:10 final size:10
Alignment explanation
Indices: 79966578--79966613 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
79966568 AGCTTAGTTT
79966578 AGCTCAATTC
1 AGCTCAATTC
79966588 AGCTCAATTC
1 AGCTCAATTC
* *
79966598 AGCTGAATTG
1 AGCTCAATTC
79966608 AGCTCA
1 AGCTCA
79966614 TCTCTACTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (10 bp):
AGCTCAATTC
Found at i:79966825 original size:29 final size:28
Alignment explanation
Indices: 79966770--79966844 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
79966760 CATATTTTAT
**
79966770 ACAAGTCT-TTAATATGTCTTAGCTTAAA
1 ACAAGT-TATTAATATGTCTTAAATTAAA
* *
79966798 TATATGTTATTAATATGTCTTAAATTAAA
1 -ACAAGTTATTAATATGTCTTAAATTAAA
*
79966827 ACAAGTTTTTAATATGTC
1 ACAAGTTATTAATATGTC
79966845 CTAGTGCAGC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
28 16 0.42
29 22 0.58
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (28 bp):
ACAAGTTATTAATATGTCTTAAATTAAA
Found at i:79970543 original size:95 final size:96
Alignment explanation
Indices: 79970363--79970794 Score: 689
Period size: 95 Copynumber: 4.5 Consensus size: 96
79970353 GAAATGATAG
*
79970363 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
79970428 ATGTGATGAATGTGAAAGTGTATATATATGTGA
64 ATGTGATGAATGTGAAAGTGTATATATATGTGA
79970461 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-GTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
79970525 GTGATGAATGTGAAAGTG--TATATATGAGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
79970554 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
79970618 ATGTGATGAATGTGAAAGTGTATATATATGTGA
64 ATGTGATGAATGTGAAAGTGTATATATATGTGA
79970651 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
79970715 GTGATGAATGTGAAA--GTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * * *
79970744 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
79970795 TCCCGAAGGG
Statistics
Matches: 316, Mismatches: 11, Indels: 18
0.92 0.03 0.05
Matches are distributed among these distances:
93 60 0.19
94 54 0.17
95 111 0.35
96 45 0.14
97 11 0.03
98 35 0.11
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:79970574 original size:47 final size:47
Alignment explanation
Indices: 79970363--79970794 Score: 672
Period size: 47 Copynumber: 9.1 Consensus size: 47
79970353 GAAATGATAG
*
79970363 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
79970412 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
79970461 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-GTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
79970507 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
79970554 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
79970603 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
79970651 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
79970697 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
79970744 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
79970791 TAAG
1 TAAG
79970795 TCCCGAAGGG
Statistics
Matches: 364, Mismatches: 15, Indels: 10
0.94 0.04 0.03
Matches are distributed among these distances:
46 58 0.16
47 129 0.35
48 82 0.23
49 95 0.26
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:79970969 original size:37 final size:37
Alignment explanation
Indices: 79970913--79970991 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
79970903 CCGAGCTCTA
* * *
79970913 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
79970950 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
79970987 AAGAC
1 AAGAC
79970992 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:79974783 original size:40 final size:40
Alignment explanation
Indices: 79974685--79974942 Score: 290
Period size: 40 Copynumber: 6.5 Consensus size: 40
79974675 TGGATGATAA
* * **
79974685 CCGGGCTAAGTCCCGAAGGCATTT-TGCACTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTG--CGAGTTACTACAT
* *
79974726 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * *
79974766 CCGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
79974806 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * *
79974846 CCGGGCTAAGTCCCGAAGGCATTGGCGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * *
79974886 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTACAT
* *
79974925 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
79974943 TACTTGGCTT
Statistics
Matches: 192, Mismatches: 23, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
38 15 0.08
39 15 0.08
40 137 0.71
41 23 0.12
42 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
Found at i:79974903 original size:120 final size:120
Alignment explanation
Indices: 79974687--79974908 Score: 322
Period size: 120 Copynumber: 1.8 Consensus size: 120
79974677 GATGATAACC
* * * *
79974687 GGGCTAAGTCCCGAAGGCATTTTGCACTAGTGACTAGTTTCGGGCTAAGTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTTG-ACGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGGC
* *
79974752 GCGAGTTATTACATCCGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTATTACATCT
65 GCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTATTACATCT
*
79974808 GGGCTAAGTCCCGAAGGCATTTGTG-CGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTGG
1 GGGCTAAGTCCCGAAGGCATTT-TGACGAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTGG
* *
79974871 CGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATT
64 CGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATT
79974909 GAGCGAGTAG
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
119 1 0.01
120 65 0.72
121 22 0.24
122 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (120 bp):
GGGCTAAGTCCCGAAGGCATTTTGACGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGGCG
CGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTATTACATCT
Found at i:79976693 original size:33 final size:33
Alignment explanation
Indices: 79976606--79976699 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
79976596 TTGTGCTGAC
* *
79976606 AGACTATCTTTATTCTATGTTTATTGTCCCGGT
1 AGACTATCTCTATTCTATGTTTAATGTCCCGGT
* * ** *
79976639 GGACTATCTCTGTTCCGTGTTTACTGTCCCGGT
1 AGACTATCTCTATTCTATGTTTAATGTCCCGGT
* *
79976672 AGACTATCTCTATTTTTTGTTTAATGTC
1 AGACTATCTCTATTCTATGTTTAATGTC
79976700 TTAATGGATT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.16, C:0.20, G:0.17, T:0.47
Consensus pattern (33 bp):
AGACTATCTCTATTCTATGTTTAATGTCCCGGT
Found at i:79976713 original size:33 final size:32
Alignment explanation
Indices: 79976673--79976760 Score: 88
Period size: 33 Copynumber: 2.7 Consensus size: 32
79976663 TGTCCCGGTA
*
79976673 GACTATCTCTATTTTTTGTTTAATGTCTTA-ATG
1 GACTATCTCT-TTTTTTGTTTAATGTC-TAGACG
* **
79976706 GATTATCTCTTTTCCATGTTTAATGTCTAGACG
1 GACTATCTCTTTT-TTTGTTTAATGTCTAGACG
*
79976739 GACTATCTCTGTTCTTTGTTTA
1 GACTATCTCT-TTTTTTGTTTA
79976761 CTATCCAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
32 5 0.11
33 37 0.84
34 2 0.05
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (32 bp):
GACTATCTCTTTTTTTGTTTAATGTCTAGACG
Found at i:79982809 original size:13 final size:13
Alignment explanation
Indices: 79982793--79982818 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
79982783 ATAAAAAGAG
79982793 AACATAAATATAA
1 AACATAAATATAA
79982806 AACATAAATATAA
1 AACATAAATATAA
79982819 TTAATGTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (13 bp):
AACATAAATATAA
Found at i:79982970 original size:138 final size:138
Alignment explanation
Indices: 79982812--79983207 Score: 666
Period size: 138 Copynumber: 2.9 Consensus size: 138
79982802 ATAAAACATA
*
79982812 AATATAATTAATGTATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
1 AATATAATTAATGTATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTAT
* *
79982877 TAGTATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
66 TAATATAAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
79982942 TTAGAAAG
131 TTAGAAAG
*
79982950 AATATAATTAATGTATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATTGAATTTAT
1 AATATAATTAATGTATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTAT
* * *
79983015 TAATATAACCAGTTATATGAATTAATTTTTGTCAAAATATAAAAGACATGGAAATTAATATTCTT
66 TAATATAAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
*
79983080 TTGGAAAG
131 TTAGAAAG
*
79983088 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTAT
1 AATATAATTAATGTATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTAT
** * *
79983153 TAATATTTACAATTATATTAATTAATTTTGATCAAAATATAAAAGACATTGGAAA
66 TAATATAAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACA-TGGAAA
79983208 AAATATAATT
Statistics
Matches: 240, Mismatches: 17, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
138 234 0.98
139 6 0.03
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (138 bp):
AATATAATTAATGTATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTAT
TAATATAAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
TTAGAAAG
Found at i:79983280 original size:75 final size:74
Alignment explanation
Indices: 79983201--79983340 Score: 219
Period size: 75 Copynumber: 1.9 Consensus size: 74
79983191 ATAAAAGACA
* *
79983201 TTGGAAAAAATATAATT-TTGCTTTCTAACTTTCCATTTGTCTTCTTTGTTAATAAGGGAATAAT
1 TTGGAAAAAATATAATTATT--TTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGGGAATAAT
79983265 CATATATTCTT
64 CATATATTCTT
*
79983276 TTGGAAATAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGGGAATAATC
1 TTGGAAAAAATATAATT-ATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGGGAATAATC
79983341 CTAGTTTTCC
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
75 58 0.97
77 2 0.03
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (74 bp):
TTGGAAAAAATATAATTATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGGGAATAATCA
TATATTCTT
Found at i:79989664 original size:20 final size:20
Alignment explanation
Indices: 79989635--79989679 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
79989625 CTATTTGTGC
* *
79989635 ACATATTC-AAGAGACTTAA
1 ACATATTCAAACACACTTAA
79989654 ACATCATTCAAACACACTTAA
1 ACAT-ATTCAAACACACTTAA
79989675 ACATA
1 ACATA
79989680 CCATTTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 4 0.18
20 5 0.23
21 13 0.59
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.24
Consensus pattern (20 bp):
ACATATTCAAACACACTTAA
Found at i:79993077 original size:29 final size:28
Alignment explanation
Indices: 79993042--79993125 Score: 141
Period size: 29 Copynumber: 2.9 Consensus size: 28
79993032 GAGTTATACC
*
79993042 GATTTGGCTTCGGGCCATGACTATCGGCT
1 GATTTGGCTTCGGGCCATGA-TATCAGCT
79993071 GATTTGGCTTCGGGCCATGAATATCAGCT
1 GATTTGGCTTCGGGCCATG-ATATCAGCT
79993100 GATTTGGCTTCGGGCCATGATATCAG
1 GATTTGGCTTCGGGCCATGATATCAG
79993126 TACTTCGAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
28 7 0.13
29 45 0.85
30 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (28 bp):
GATTTGGCTTCGGGCCATGATATCAGCT
Found at i:80002230 original size:27 final size:28
Alignment explanation
Indices: 80002146--80002243 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
80002136 CATGAGATTG
* * * *
80002146 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
80002175 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
80002203 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
80002230 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
80002244 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:80002254 original size:27 final size:27
Alignment explanation
Indices: 80002174--80002256 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
80002164 TAAATTGTAC
* *
80002174 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
80002202 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
80002229 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
80002256 A
1 A
80002257 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:80002257 original size:29 final size:27
Alignment explanation
Indices: 80002146--80002257 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
80002136 CATGAGATTG
** * *
80002146 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
80002175 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
80002203 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
80002230 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
80002258 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:80010916 original size:15 final size:17
Alignment explanation
Indices: 80010888--80010922 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
80010878 TTTTTACGAA
80010888 TTCCTTTAAATCAA-TT
1 TTCCTTTAAATCAAGTT
80010904 TTCCTTT-AATCAAGTT
1 TTCCTTTAAATCAAGTT
80010920 TTC
1 TTC
80010923 GGATTGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.26, C:0.20, G:0.03, T:0.51
Consensus pattern (17 bp):
TTCCTTTAAATCAAGTT
Found at i:80016799 original size:95 final size:95
Alignment explanation
Indices: 80016636--80016824 Score: 342
Period size: 95 Copynumber: 2.0 Consensus size: 95
80016626 TATTATTTAG
* *
80016636 AATATACCTTTAGATGTTAATATATAAAACCAGTGTCAGTGGGGTGCAATTATGATATTGCGTGT
1 AATATACCTTTAGATGTTAATATATAAAACCAGTCTCAGTGGGGTGCAATTATGATATTGCATGT
80016701 TTGTTTATGTTTCATGCATTATACAAATGC
66 TTGTTTATGTTTCATGCATTATACAAATGC
*
80016731 AATATACCTTTAGATGTTAATATATAAAACCAGTCTCTGTGGGGTGCAATTATGATATTGCATGT
1 AATATACCTTTAGATGTTAATATATAAAACCAGTCTCAGTGGGGTGCAATTATGATATTGCATGT
*
80016796 TTGTTTATGTTTCATGCATTATACGAATG
66 TTGTTTATGTTTCATGCATTATACAAATG
80016825 AATCTTGTTC
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 90 1.00
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.40
Consensus pattern (95 bp):
AATATACCTTTAGATGTTAATATATAAAACCAGTCTCAGTGGGGTGCAATTATGATATTGCATGT
TTGTTTATGTTTCATGCATTATACAAATGC
Found at i:80019499 original size:167 final size:169
Alignment explanation
Indices: 80019218--80019583 Score: 495
Period size: 167 Copynumber: 2.2 Consensus size: 169
80019208 CTTTTATTGC
* * * * *
80019218 TATCATTTAAGTCACTTTGCTATAGGATTTTTGAAAAATTTTGTGCCTATACAAGGTCATTTGTA
1 TATCATTTAAGTCACTTTGCTATAGGACTTCTGAAAAACTTTGTACCTACACAAGGTCATTTGTA
* * * * * *
80019283 CTTCCATATATGGAGCATTTAAGTTCCTTATTAGAGTTTTGGTTTGAGGTTTCAGAGTATGTAAG
66 CCTCCATATATGCAACATGTAAGTTCCTTATTAGAGTTTTGGCTTGAGGTTTCAGAATATGTAAG
*
80019348 AAGTATTTACTGG-ATGCAAACATGTTATAGATTTTTGA
131 AAGTATTTACTGGAATGCAAACATGTTATAGAATTTTGA
* * *
80019386 TATCATTTAAGTCACTTTGTTATGGGACTTCTG-AAAACTTTGTACAC-ACACAAGTTCATTTGT
1 TATCATTTAAGTCACTTTGCTATAGGACTTCTGAAAAACTTTGTAC-CTACACAAGGTCATTTGT
* * *
80019449 ACCTCCATATATGCAACATGTAAGTTGCTTATTAGATTTTTGGCTTGAGGTTTCAGAATTTGTAA
65 ACCTCCATATATGCAACATGTAAGTTCCTTATTAGAGTTTTGGCTTGAGGTTTCAGAATATGTAA
* * *
80019514 GAAGTATTTGCTGGAATGCAAACATGTTGTGGAATTTTGA
130 GAAGTATTTACTGGAATGCAAACATGTTATAGAATTTTGA
* *
80019554 AATCATTTTAGTCACTTTGCTATAGGACTT
1 TATCATTTAAGTCACTTTGCTATAGGACTT
80019584 TTGATGACTT
Statistics
Matches: 171, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
167 93 0.54
168 78 0.46
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (169 bp):
TATCATTTAAGTCACTTTGCTATAGGACTTCTGAAAAACTTTGTACCTACACAAGGTCATTTGTA
CCTCCATATATGCAACATGTAAGTTCCTTATTAGAGTTTTGGCTTGAGGTTTCAGAATATGTAAG
AAGTATTTACTGGAATGCAAACATGTTATAGAATTTTGA
Found at i:80021435 original size:14 final size:14
Alignment explanation
Indices: 80021411--80021445 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
80021401 TTTCAATATT
*
80021411 TAAAAAATAGAAAA
1 TAAAAATTAGAAAA
*
80021425 TGAAAATTAGAAAA
1 TAAAAATTAGAAAA
80021439 TAAAAAT
1 TAAAAAT
80021446 GAATATATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (14 bp):
TAAAAATTAGAAAA
Found at i:80023898 original size:18 final size:19
Alignment explanation
Indices: 80023875--80023918 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
80023865 CTAAAGTTTT
80023875 ATTTTAATATTT-TTTT-AC
1 ATTTTAAT-TTTATTTTCAC
80023893 ATTTTAATTTTATTTTGCAC
1 ATTTTAATTTTATTTT-CAC
80023913 ATTTTA
1 ATTTTA
80023919 TAACATCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.13
18 12 0.52
20 8 0.35
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTAATTTTATTTTCAC
Found at i:80024041 original size:19 final size:19
Alignment explanation
Indices: 80024012--80024057 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
80024002 GCTAGAGAAG
** *
80024012 TTATT-AAAATATTTTTTC
1 TTATTCAAAATAAGTTTTA
80024030 TTATTCAAAATAAGTTTTA
1 TTATTCAAAATAAGTTTTA
80024049 TTATTCAAA
1 TTATTCAAA
80024058 GTTAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (19 bp):
TTATTCAAAATAAGTTTTA
Found at i:80024351 original size:24 final size:24
Alignment explanation
Indices: 80024324--80024378 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
80024314 CAATCAAAAA
*
80024324 TTTATTTTAATATTTTTTAT-ACAT
1 TTTATTTTAAT-TTTATTATCACAT
*
80024348 TTTAATTTAATTTTATTATGCACAT
1 TTTATTTTAATTTTATTAT-CACAT
80024373 TTTATT
1 TTTATT
80024379 ACTTCCATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 7 0.27
24 10 0.38
25 9 0.35
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTATTTTAATTTTATTATCACAT
Found at i:80026319 original size:50 final size:50
Alignment explanation
Indices: 80026260--80026399 Score: 226
Period size: 50 Copynumber: 2.8 Consensus size: 50
80026250 AGTTTCGATA
*
80026260 TGTGATCCCATGTAAGACCATGTCTAAGACATGGCATTGGCATCGATATG
1 TGTGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCGATATG
*
80026310 TGTGATCCCATGTAAGACCATGTCTGAGACATGACATTGGCATCGATATG
1 TGTGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCGATATG
* * * *
80026360 TGTGAACCCATGTAAGACCATATCTGGGATATGGCATTGG
1 TGTGATCCCATGTAAGACCATGTCTGAGACATGGCATTGG
80026400 TATCTCACTA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 83 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (50 bp):
TGTGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCGATATG
Found at i:80033027 original size:21 final size:21
Alignment explanation
Indices: 80032992--80033044 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
80032982 AAAATATGGT
* *
80032992 AAAATAATTAGTATA-AAAAA
1 AAAATAAATAATATATAAAAA
*
80033012 CAAAATAAATAATATATAATAA
1 -AAAATAAATAATATATAAAAA
*
80033034 AAAATATATAA
1 AAAATAAATAA
80033045 GAAAGATAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
AAAATAAATAATATATAAAAA
Found at i:80033034 original size:14 final size:14
Alignment explanation
Indices: 80033015--80033044 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
80033005 TAAAAAACAA
*
80033015 AATAAATAATATAT
1 AATAAAAAATATAT
80033029 AATAAAAAATATAT
1 AATAAAAAATATAT
80033043 AA
1 AA
80033045 GAAAGATAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAAAAAATATAT
Found at i:80033467 original size:21 final size:20
Alignment explanation
Indices: 80033437--80033511 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 20
80033427 ATTAGCCATT
*
80033437 TACAAATTTAGTAAATAATAA
1 TACAAATTTA-TAAAAAATAA
*
80033458 TACAATTTTATAAAAAATATA
1 TACAAATTTATAAAAAATA-A
* *
80033479 TATAAAATATATAAAATAA-AA
1 TA-CAAATTTATAAAA-AATAA
*
80033500 TA-AAATATATAA
1 TACAAATTTATAA
80033512 TATAATATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
19 10 0.22
20 8 0.17
21 15 0.33
22 11 0.24
23 2 0.04
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (20 bp):
TACAAATTTATAAAAAATAA
Found at i:80033488 original size:9 final size:9
Alignment explanation
Indices: 80033476--80033521 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
80033466 TATAAAAAAT
80033476 ATATATAAA
1 ATATATAAA
80033485 ATATATAAA
1 ATATATAAA
*
80033494 ATAAAATAAA
1 AT-ATATAAA
*
80033504 ATATATAAT
1 ATATATAAA
80033513 ATAATATAA
1 AT-ATATAA
80033522 TTTATAGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 18 0.56
10 14 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
ATATATAAA
Found at i:80033504 original size:19 final size:19
Alignment explanation
Indices: 80033466--80033521 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
80033456 AATACAATTT
*
80033466 TATAAAAAATATATATAAAA
1 TATATAAAATA-ATATAAAA
*
80033486 TATATAAAATAAAATAAAA
1 TATATAAAATAATATAAAA
*
80033505 TATATAATATAATATAA
1 TATATAAAATAATATAA
80033522 TTTATAGATA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 22 0.69
20 10 0.31
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TATATAAAATAATATAAAA
Found at i:80033513 original size:17 final size:17
Alignment explanation
Indices: 80033480--80033536 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
80033470 AAAAATATAT
80033480 ATAAAATATATAAAATAAA
1 ATAAAATATAT--AATAAA
*
80033499 ATAAAATATATAATATA
1 ATAAAATATATAATAAA
* *
80033516 ATATAATTTATAGATAAA
1 ATAAAATATATA-ATAAA
80033534 ATA
1 ATA
80033537 TATGGTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 15 0.45
18 7 0.21
19 11 0.33
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
ATAAAATATATAATAAA
Found at i:80033527 original size:19 final size:19
Alignment explanation
Indices: 80033453--80033527 Score: 60
Period size: 19 Copynumber: 3.8 Consensus size: 19
80033443 TTTAGTAAAT
* *
80033453 AATAATACAATTTTATAAAA
1 AATAATATAA-TTTATATAA
**
80033473 AATATATATAAAATATATAA
1 AATA-ATATAATTTATATAA
* **
80033493 AATAAAATAAAATATATAA
1 AATAATATAATTTATATAA
*
80033512 TATAATATAATTTATA
1 AATAATATAATTTATA
80033528 GATAAAATAT
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
19 26 0.58
20 14 0.31
21 5 0.11
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (19 bp):
AATAATATAATTTATATAA
Found at i:80033589 original size:17 final size:16
Alignment explanation
Indices: 80033563--80033599 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
80033553 AATGTATTGG
*
80033563 ATAATAATAATAATAT
1 ATAATAATAAAAATAT
80033579 ATAACTAATAAAAATAT
1 ATAA-TAATAAAAATAT
80033596 ATAA
1 ATAA
80033600 AGTATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAATAATAAAAATAT
Found at i:80033620 original size:28 final size:29
Alignment explanation
Indices: 80033589--80033647 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
80033579 ATAACTAATA
* * *
80033589 AAAATATATAAAGTATTTAAA-TGAAATT
1 AAAATATAAAAAGGATTAAAATTGAAATT
*
80033617 AAAATATAAAAAGGATTAAAATTGAATTT
1 AAAATATAAAAAGGATTAAAATTGAAATT
80033646 AA
1 AA
80033648 TTAGAAAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (29 bp):
AAAATATAAAAAGGATTAAAATTGAAATT
Found at i:80035521 original size:206 final size:206
Alignment explanation
Indices: 80035156--80035917 Score: 1197
Period size: 206 Copynumber: 3.7 Consensus size: 206
80035146 AAATCTGCTT
* *
80035156 CTTCGATTTGTTATCTGACAATATAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * * * *
80035221 GCGAAAACCAAATCAGCTATGTCTTCGATTT-TCTCATTGTAAGCACAAGGATACCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGT-TCCTTGTAAACACAAGGATGCCAAATCATCT
* *
80035285 TGGATCTGCTTCAGTCAAATCATTTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
130 TGGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
80035350 GGAGA-TGCCAAA
195 GGAGACT-CCAAA
*
80035362 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
80035427 ATGAAAGCTAAATCAGCTATGAT-TTCGATTTGTTCTTTGTAAACACAAGGATGCCAAATCATCT
66 GTGAAAGCCAAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCT
*
80035491 TGGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGACTAT
130 TGGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
80035556 GGAGACTCTAAA
195 GGAGACTCCAAA
* *
80035568 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
80035633 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
* * ** * * *
80035698 GGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAATATA
131 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATG
*
80035763 AAGACTCCAAA
196 GAGACTCCAAA
*
80035774 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
80035839 GTGAAAGTCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
80035904 GGATCTTGCTTCAG
131 GGATC-TGCTTCAG
80035918 CCAGATCTGC
Statistics
Matches: 516, Mismatches: 35, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
205 1 0.00
206 504 0.98
207 11 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATG
GAGACTCCAAA
Found at i:80047459 original size:21 final size:20
Alignment explanation
Indices: 80047429--80047503 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 20
80047419 ATTAGCCATT
*
80047429 TACAAATTTAGTAAATAATAA
1 TACAAATTTA-TAAAAAATAA
*
80047450 TACAATTTTATAAAAAATATA
1 TACAAATTTATAAAAAATA-A
* *
80047471 TAAAAAATATATAAAATAA-AA
1 T-ACAAATTTATAAAA-AATAA
*
80047492 TA-AAATATATAA
1 TACAAATTTATAA
80047504 TATAATATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
19 10 0.22
20 9 0.20
21 13 0.28
22 12 0.26
23 2 0.04
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (20 bp):
TACAAATTTATAAAAAATAA
Found at i:80047519 original size:19 final size:19
Alignment explanation
Indices: 80047474--80047513 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
80047464 AAATATATAA
80047474 AAAATATATAAAATAAAAT
1 AAAATATATAAAATAAAAT
* *
80047493 AAAATATATAATATAATAT
1 AAAATATATAAAATAAAAT
80047512 AA
1 AA
80047514 TTTATAGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAATATATAAAATAAAAT
Found at i:80047536 original size:12 final size:11
Alignment explanation
Indices: 80047458--80047512 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
80047448 AATACAATTT
*
80047458 TATAAAAAATA
1 TATAAAATATA
*
80047469 TATAAAAAATA
1 TATAAAATATA
80047480 TATAAAATA-A
1 TATAAAATATA
*
80047490 AATAAAATATA
1 TATAAAATATA
*
80047501 TAATATAATATA
1 T-ATAAAATATA
80047513 ATTTATAGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
10 9 0.24
11 20 0.53
12 9 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
TATAAAATATA
Found at i:80054117 original size:14 final size:15
Alignment explanation
Indices: 80054092--80054120 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
80054082 ACTTTTACAC
80054092 CTTTTTTAATTTAAT
1 CTTTTTTAATTTAAT
80054107 CTTTTTT-ATTTAAT
1 CTTTTTTAATTTAAT
80054121 TGACTACGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (15 bp):
CTTTTTTAATTTAAT
Found at i:80054453 original size:232 final size:232
Alignment explanation
Indices: 80054047--80054512 Score: 878
Period size: 232 Copynumber: 2.0 Consensus size: 232
80054037 AAATCCTTTC
* *
80054047 TCATTAGACACTTAAGCTACTTAATCATTCTAGCAACTTTTACACCTTTTTTAATTTAATCTTTT
1 TCATTAGACACTTAAGCTACTTAATCATTCTAGCAACTTTTACACCTTTTTCAATTTAATCCTTT
80054112 TTATTTAATTGACTACGGAAACGTTAAAATTTTCTAACGAAATTTTAATACCACAATACCAACAT
66 TTATTTAATTGACTACGGAAACGTTAAAATTTTCTAACGAAATTTTAATACCACAATACCAACAT
80054177 TTCATAAATATTTATAAAAATATTTTTGACTCAGTTTTACAAGATCGAGGTCTCGATACCTCTTT
131 TTCATAAATATTTATAAAAATATTTTTGACTCAGTTTTACAAGATCGAGGTCTCGATACCTCTTT
80054242 TTTACCCAATTTATTCAATAAATTTGTTAATTTTTTT
196 TTTACCCAATTTATTCAATAAATTTGTTAATTTTTTT
*
80054279 TCATTAGACACTTAAGCTATTTAATCATTCTAGCAACTTTTACACCTTTTTCAATTTAATCCTTT
1 TCATTAGACACTTAAGCTACTTAATCATTCTAGCAACTTTTACACCTTTTTCAATTTAATCCTTT
80054344 TTATTTAATTGACTACGGAAACGTTAAAATTTTCTAACGAAATTTTAATACCACAATACCAACAT
66 TTATTTAATTGACTACGGAAACGTTAAAATTTTCTAACGAAATTTTAATACCACAATACCAACAT
* *
80054409 TTTATAAATATTTATAAAAGTATTTTTGACTCAGTTTTACAAGATCGAGGTCTCGATACCTCTTT
131 TTCATAAATATTTATAAAAATATTTTTGACTCAGTTTTACAAGATCGAGGTCTCGATACCTCTTT
*
80054474 TTTACCCAATTTATTCAATAAATTTTTTAATTTTTTT
196 TTTACCCAATTTATTCAATAAATTTGTTAATTTTTTT
80054511 TC
1 TC
80054513 TAATTAACCG
Statistics
Matches: 228, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
232 228 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (232 bp):
TCATTAGACACTTAAGCTACTTAATCATTCTAGCAACTTTTACACCTTTTTCAATTTAATCCTTT
TTATTTAATTGACTACGGAAACGTTAAAATTTTCTAACGAAATTTTAATACCACAATACCAACAT
TTCATAAATATTTATAAAAATATTTTTGACTCAGTTTTACAAGATCGAGGTCTCGATACCTCTTT
TTTACCCAATTTATTCAATAAATTTGTTAATTTTTTT
Found at i:80058110 original size:46 final size:47
Alignment explanation
Indices: 80058057--80058156 Score: 134
Period size: 47 Copynumber: 2.1 Consensus size: 47
80058047 GTCTTAAATA
* *
80058057 TGTCTTAAGTTT-ATTAATGCATG-T-TAATTAGTACATCATTTTAATG
1 TGTCTTAAGTTTAATTAAT--ATGTTATAATAAGTACAGCATTTTAATG
*
80058103 TGTCTTAAGTTTAATTAATATGTTATAATAAGTACAGCTTTTTAATG
1 TGTCTTAAGTTTAATTAATATGTTATAATAAGTACAGCATTTTAATG
80058150 TGTCTTA
1 TGTCTTA
80058157 GATTAAGATA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
45 3 0.06
46 13 0.27
47 32 0.67
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (47 bp):
TGTCTTAAGTTTAATTAATATGTTATAATAAGTACAGCATTTTAATG
Found at i:80059499 original size:10 final size:10
Alignment explanation
Indices: 80059484--80059525 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
80059474 TAATTTTAGG
80059484 ATTTATTTTT
1 ATTTATTTTT
*
80059494 ATTTATCTTT
1 ATTTATTTTT
*
80059504 ATTTATTTGT
1 ATTTATTTTT
80059514 ATTTATCTTTT
1 ATTTAT-TTTT
80059525 A
1 A
80059526 GAATTTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
10 23 0.85
11 4 0.15
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.71
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:80059509 original size:20 final size:20
Alignment explanation
Indices: 80059484--80059523 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
80059474 TAATTTTAGG
*
80059484 ATTTATTTTTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
80059504 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
80059524 TAGAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (20 bp):
ATTTATTTGTATTTATCTTT
Found at i:80060275 original size:17 final size:18
Alignment explanation
Indices: 80060243--80060276 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
80060233 TATTCTTCCT
80060243 TTTAATTTTCGCAATTTA
1 TTTAATTTTCGCAATTTA
80060261 TTTAATTTT-GCAATTT
1 TTTAATTTTCGCAATTT
80060277 CAACTCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:80062074 original size:18 final size:18
Alignment explanation
Indices: 80062048--80062115 Score: 54
Period size: 18 Copynumber: 3.8 Consensus size: 18
80062038 TTCAACGAAA
*
80062048 TTGAGAGAAGAAAAAGAG
1 TTGAAAGAAGAAAAAGAG
* *
80062066 TTGAAAGAA-AAAGA-AT
1 TTGAAAGAAGAAAAAGAG
80062082 TTGAAA-AAGGAAAAGAGAG
1 TTGAAAGAA-GAAAA-AGAG
80062101 -TGAAAGAAAGAAAAA
1 TTGAAAG-AAGAAAAA
80062116 AGCGATTGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
15 2 0.05
16 7 0.18
17 7 0.18
18 15 0.38
19 6 0.15
20 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.26, T:0.12
Consensus pattern (18 bp):
TTGAAAGAAGAAAAAGAG
Done.