Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 209 of 352
Found at i:68942945 original size:28 final size:28
Alignment explanation
Indices: 68942913--68942977 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
68942903 ATTTACTAGA
*
68942913 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
68942941 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
68942969 ATACCCCTA
1 ATACCCCTA
68942978 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:68943179 original size:29 final size:28
Alignment explanation
Indices: 68943083--68943183 Score: 107
Period size: 27 Copynumber: 3.6 Consensus size: 28
68943073 AGGAAGCGTC
* *
68943083 CTGGTGGCTAC-GCCACAAATTATCTATT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* * *
68943111 CTGGTGGCCCTGCTAC-ATATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
68943138 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
* *
68943167 CTGGTGACTCTGCCACA
1 CTGGTGGCACTGCCACA
68943184 TTTTCTGTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
27 23 0.38
28 21 0.35
29 16 0.27
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.31
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:68943191 original size:55 final size:56
Alignment explanation
Indices: 68943083--68943197 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
68943073 AGGAAGCGTC
* * *
68943083 CTGGTGGCTACGCCACAAATTATCTATTCTGGTGGCCCTGCTACATATATCTGT-T
1 CTGGTGGCTACGCCACAAAATATCTATTCTGGTGACCCTGCCACATATATCTGTAT
* * *
68943138 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGCCACAT-TTTCTGTAT
1 CTGGTGGCTAC-GCCACAAAATATCTAT-TCTGGTGACCCTGCCACATATATCTGTAT
68943194 CTGG
1 CTGG
68943198 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 2 0.04
55 28 0.55
56 21 0.41
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (56 bp):
CTGGTGGCTACGCCACAAAATATCTATTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:68945201 original size:38 final size:38
Alignment explanation
Indices: 68945159--68945245 Score: 165
Period size: 38 Copynumber: 2.3 Consensus size: 38
68945149 ATAGACATGC
68945159 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
1 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
*
68945197 ATGTTCGGCCCCATGAATGAGTACATAAGTTGATGTGT
1 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
68945235 ATGTTCGGCCA
1 ATGTTCGGCCA
68945246 TAGGTAAGCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (38 bp):
ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
Found at i:68946777 original size:40 final size:40
Alignment explanation
Indices: 68946722--68946925 Score: 227
Period size: 40 Copynumber: 5.1 Consensus size: 40
68946712 CGGAATTTAA
* ** *
68946722 CCGGATATAGCAACTCATTCAAATGCCTTCGGGACATAGC
1 CCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGC
* * *
68946762 CCGGTTATAGTAACTCATACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGC
* * *
68946802 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGC
* *
68946841 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCACACAAATGCCTTCGGGA-CTTAGC
* *
68946881 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCA-CACAAATGCCTTCGGGACTTAGC
68946921 CCGGA
1 CCGGA
68946926 CATCATTCGA
Statistics
Matches: 140, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 96 0.69
41 10 0.07
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGC
Found at i:68946852 original size:79 final size:81
Alignment explanation
Indices: 68946708--68946925 Score: 227
Period size: 79 Copynumber: 2.7 Consensus size: 81
68946698 AAATCACGTA
* * * * *
68946708 CCTTCGGAAT-TTAA-CCGGATATAGCAACTCATTCA-AATGCCTTCGGGACATAGCCCGG-TTA
1 CCTTCGG-ATCTTAACCCGGATATAGTAACTTA-GCACAATGCCTTCGGGACTTAGCCCGGAATA
*
68946769 TAGTAACTCATACAAATG
64 TAGTAACTCACACAAATG
* *
68946787 CCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT-
1 CCTTC-GGATCTTAACCCGGATATAGTAACTTAGCA-CAATGCCTTCGGGACTTAGCCCGGAATA
*
68946848 TAGTAACTCGCACAAATG
64 TAGTAACTCACACAAATG
** * *
68946866 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAATGCCTTCGGGACTTAGCCCGGA
68946926 CATCATTCGA
Statistics
Matches: 115, Mismatches: 15, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
78 5 0.04
79 68 0.59
80 42 0.37
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAATGCCTTCGGGACTTAGCCCGGAATATA
GTAACTCACACAAATG
Found at i:68949202 original size:40 final size:40
Alignment explanation
Indices: 68949108--68949332 Score: 292
Period size: 40 Copynumber: 5.6 Consensus size: 40
68949098 TATTCAAATG
* *
68949108 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * *
68949149 ATAACCGGACTAAGATCCGAAGGCATTCGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AG-TGACT
* **
68949189 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
68949229 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
68949269 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
68949309 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
68949333 CTTGTGCAAG
Statistics
Matches: 161, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 131 0.81
41 29 0.18
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:68949282 original size:80 final size:79
Alignment explanation
Indices: 68949108--68949368 Score: 287
Period size: 80 Copynumber: 3.3 Consensus size: 79
68949098 TATTCAAATG
* * * *
68949108 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGG-G-CTATATCCGGGCTAAGACCCGAAGGC
*
68949173 ATTCGTGTGAGTTGCT
64 ATTCGTGTGAGTCGCT
* *
68949189 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-GGCTATATCCGGGCTAAGACCCGAAGGCA
*
68949254 TTTGTGCT-AG-CGACT
65 TTCGTG-TGAGTCG-CT
* * * *
68949269 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACCATATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-GGCTATATCCGGGCTAAGACCCGAAGGCA
** * *
68949334 TT-GTGCAAGTAGTT
65 TTCGTGTGAGTCGCT
*
68949348 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
68949369 ATTTCTTGAG
Statistics
Matches: 156, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
78 14 0.09
79 13 0.08
80 93 0.60
81 35 0.22
82 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGGGCTATATCCGGGCTAAGACCCGAAGGCAT
TCGTGTGAGTCGCT
Found at i:68949322 original size:120 final size:120
Alignment explanation
Indices: 68949108--68949368 Score: 329
Period size: 120 Copynumber: 2.2 Consensus size: 120
68949098 TATTCAAATG
* * *
68949108 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * *
68949173 ATTCGTGTGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGGTT
66 ATTCGTGTGAGTTGCCATATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAGCAGTT
* *
68949229 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
*
68949292 CA-TC-TGTGCTAG-TGACCATATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTCGTGTG--AGTTG-CCATATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGCAGTT
68949348 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
68949369 ATTTCTTGAG
Statistics
Matches: 125, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
117 1 0.01
118 17 0.14
119 22 0.18
120 53 0.42
121 32 0.26
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCGTGTGAGTTGCCATATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGCAGTT
Found at i:68952006 original size:202 final size:202
Alignment explanation
Indices: 68951687--68952058 Score: 525
Period size: 202 Copynumber: 1.8 Consensus size: 202
68951677 GGGAGGCCCT
* *
68951687 TTCAACAGTCATCGAAGAAATTTAGAGATGATTTAGGCCGATCTAGAAACACTTCGGGCTTTTCT
1 TTCAACAGGCATCGAAGAAATTTAGAGATGATGTAGGCCGATCTAGAAACACTTCGGGCTTTTCT
* * *
68951752 AGACGAGATCGCGATCGACTCCCTGTGAGTGCACGAGCCACTTCGGTCGCCAGTGTT-GGAACTG
66 AGACGAGATCGCGATCGACCCCCTGTGAGTACACGAGCCACTTCGATCGCCAGTGTTGGGAA-TG
* * * *
68951816 ATCGTCGAGACAGAGCGGAGTGCC-AGTATTGTGGTAAATGGAGAGTTTCGTAAAAGAACCTCAA
130 AACGTCGAGACAGAACGGAATGCCGA-TATTGCGGTAAATGGAGAGTTTCGTAAAAGAACCTCAA
68951880 GAAAGTCTC
194 GAAAGTCTC
* * * **
68951889 TTCAACAGGCATCGAAGAAATTTCGAGATGATGTGGGCCGGTCTAGAGGCACTTCGGGCCTTTT-
1 TTCAACAGGCATCGAAGAAATTTAGAGATGATGTAGGCCGATCTAGAAACACTTCGGG-CTTTTC
* * *
68951953 TAGACGAGATCGTGATCGACCCCCTGTGGGTACACGAGGCACTTCGATCGCCAGTGTTGGGAATG
65 TAGACGAGATCGCGATCGACCCCCTGTGAGTACACGAGCCACTTCGATCGCCAGTGTTGGGAATG
* *
68952018 AACGTCGAGATAGAACGGAATGTCGATATTGCGGTAAATGG
130 AACGTCGAGACAGAACGGAATGCCGATATTGCGGTAAATGG
68952059 CATTCGGGGA
Statistics
Matches: 148, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
202 138 0.93
203 10 0.07
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (202 bp):
TTCAACAGGCATCGAAGAAATTTAGAGATGATGTAGGCCGATCTAGAAACACTTCGGGCTTTTCT
AGACGAGATCGCGATCGACCCCCTGTGAGTACACGAGCCACTTCGATCGCCAGTGTTGGGAATGA
ACGTCGAGACAGAACGGAATGCCGATATTGCGGTAAATGGAGAGTTTCGTAAAAGAACCTCAAGA
AAGTCTC
Found at i:68956857 original size:38 final size:38
Alignment explanation
Indices: 68956815--68956939 Score: 241
Period size: 38 Copynumber: 3.3 Consensus size: 38
68956805 ATAGACATGC
68956815 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
1 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
*
68956853 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTCT
1 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
68956891 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
1 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
68956929 ATGTTCGGCCA
1 ATGTTCGGCCA
68956940 TAGGTAAGCA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 85 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (38 bp):
ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
Found at i:68957628 original size:40 final size:40
Alignment explanation
Indices: 68957534--68957758 Score: 299
Period size: 40 Copynumber: 5.6 Consensus size: 40
68957524 TATTCAAATG
* *
68957534 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * *
68957575 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* *
68957615 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
68957655 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
68957695 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
68957735 ATAACCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
68957759 CTTGTGCAAG
Statistics
Matches: 161, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 131 0.81
41 29 0.18
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:68957708 original size:80 final size:80
Alignment explanation
Indices: 68957534--68957794 Score: 323
Period size: 80 Copynumber: 3.3 Consensus size: 80
68957524 TATTCAAATG
* * *
68957534 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATAACCGGGCTAAGACCCGAAGGC
*
68957599 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
68957615 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAACCGGGCTAAGACCCGAAGGCA
* *
68957680 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * *
68957695 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACCATAACCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAACCGGGCTAAGACCCGAAGGCA
* * *
68957760 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
68957774 ATATCC-GGCTACA-TCCCGAAG
1 ATATCCGGGCTA-AGTCCCGAAG
68957795 ATTTCTTGAG
Statistics
Matches: 157, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
78 13 0.08
79 15 0.10
80 97 0.62
81 32 0.20
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAACCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:68959391 original size:11 final size:10
Alignment explanation
Indices: 68959363--68959396 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
68959353 AGCCTGTAAG
68959363 TATTCTGAAT
1 TATTCTGAAT
*
68959373 TTTTCTGAAT
1 TATTCTGAAT
68959383 ATATTCTGAAT
1 -TATTCTGAAT
68959394 TAT
1 TAT
68959397 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:68965853 original size:28 final size:28
Alignment explanation
Indices: 68965821--68965882 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
68965811 ATTTACTAGA
*
68965821 ATACCCATATGTATGCAAAATTACCATT
1 ATACCCATATGTATGCAAAATGACCATT
* * *
68965849 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCATATGTATGCAAAATGACCATT
68965877 ATACCC
1 ATACCC
68965883 TAGGGTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.31
Consensus pattern (28 bp):
ATACCCATATGTATGCAAAATGACCATT
Found at i:68966048 original size:27 final size:28
Alignment explanation
Indices: 68965990--68966050 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
68965980 AGGAAGCGTC
*
68965990 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGCCATGCCACAAATTATCTGTT
* *
68966018 CTGGTGGCCCTGCCACATA-TATCTGTT
1 CTGGTGGCCATGCCACAAATTATCTGTT
68966045 CTGGTG
1 CTGGTG
68966051 ACTTTGTCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 14 0.47
28 16 0.53
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.34
Consensus pattern (28 bp):
CTGGTGGCCATGCCACAAATTATCTGTT
Found at i:68966062 original size:27 final size:27
Alignment explanation
Indices: 68966000--68966052 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
68965990 CTGGTGGCTA
* *
68966000 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACATA-TATCTGTTCTGGTGACCC
68966028 TGCCACATATATCTGTTCTGGTGAC
1 TGCCACATATATCTGTTCTGGTGAC
68966053 TTTGTCACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (27 bp):
TGCCACATATATCTGTTCTGGTGACCC
Found at i:68967631 original size:10 final size:10
Alignment explanation
Indices: 68967616--68967659 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
68967606 ACTTAATATC
68967616 CATACCAAAA
1 CATACCAAAA
*
68967626 CATACCAAAC
1 CATACCAAAA
68967636 CATAAGCCAAAA
1 CAT-A-CCAAAA
68967648 TCATACCAAAA
1 -CATACCAAAA
68967659 C
1 C
68967660 TTAGGTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
10 13 0.45
11 7 0.24
12 6 0.21
13 3 0.10
ACGTcount: A:0.55, C:0.32, G:0.02, T:0.11
Consensus pattern (10 bp):
CATACCAAAA
Found at i:68970043 original size:14 final size:15
Alignment explanation
Indices: 68970024--68970052 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
68970014 TGTTATAAAC
68970024 AAATTT-CATGAAAG
1 AAATTTGCATGAAAG
68970038 AAATTTGCATGAAAG
1 AAATTTGCATGAAAG
68970053 CACCTAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.28
Consensus pattern (15 bp):
AAATTTGCATGAAAG
Found at i:68972072 original size:27 final size:27
Alignment explanation
Indices: 68971998--68972084 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
68971988 CAAAACAGAC
* * **
68971998 ATTTTACCCTACAAGGGTATGTCGGGC
1 ATTTTACACTACAAGGGTATTTCGGTA
*
68972025 ATTTTACACTACAAGGGTATTTTGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
*
68972052 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGGTA
68972079 ATTTTA
1 ATTTTA
68972085 TAAATCGGGG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGGTA
Found at i:68972096 original size:27 final size:27
Alignment explanation
Indices: 68972038--68972421 Score: 271
Period size: 27 Copynumber: 14.3 Consensus size: 27
68972028 TTACACTACA
* * * *
68972038 AGGGTATTTTGGTAATTTTAC-ACTACA
1 AGGGTATTTCGATAATTTTACAAAT-CG
*
68972065 AGGGTATTTCGATAATTTTATAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * * *
68972092 GGGGTGTTTCGGTAATTTTACAATTTG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
68972119 AGGGTGTTTCGATAATTTTATAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
68972146 AGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
68972173 AGGGTGTTTCAATAATTTCACGAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * * *
68972200 AGGGTGTTTTGGTAAGTTTACAGATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* ** * * *
68972227 AGGGTGTTTTAATAATTTCAAAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
*
68972254 AGGGTATTTC-AGTAATTTCAC-AATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * * *
68972280 AGGCTATTTCGGTACTTTTACAAA-CC
1 AGGGTATTTCGATAATTTTACAAATCG
* *
68972306 ATGAGTATTT-TAGTAATTTTACAAATCG
1 A-GGGTATTTCGA-TAATTTTACAAATCG
* * *
68972334 ACGGTATTTC-AGTAATTTCA-AAATTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
68972360 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
68972387 GGGGTATTTTGGTAATTTTAAAAAGT-G
1 AGGGTATTTCGATAATTTTACAAA-TCG
68972414 AGGGTATT
1 AGGGTATT
68972422 GCAGTAATTT
Statistics
Matches: 285, Mismatches: 61, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
26 44 0.15
27 236 0.83
28 5 0.02
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:68972123 original size:81 final size:80
Alignment explanation
Indices: 68972038--68972432 Score: 355
Period size: 81 Copynumber: 4.9 Consensus size: 80
68972028 TTACACTACA
* * * * *
68972038 AGGGTATTTTGGTAATTTTAC-ACTACAAGGGTATTTCGATAATTTTATAAATCGGGGGTGTTTC
1 AGGGTATTTCGGTAATTTTACAAAT-CAAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTC
* * *
68972102 GGTAATTTTACAATTTG
65 AGTAATTTCACAA-TCG
* * * * * *
68972119 AGGGTGTTTCGATAATTTTATAAATCGAGGGTGTTTCGATAATTTTACAAATCGAGGGTGTTTCA
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCA
*
68972184 ATAATTTCACGAATCG
66 GTAATTTCAC-AATCG
* * * * * * ** * * *
68972200 AGGGTGTTTTGGTAAGTTTACAGATCGAGGGTGTTTTAATAATTTCAAAAATCAAGGGTATTTCA
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCA
68972265 GTAATTTCACAATCG
66 GTAATTTCACAATCG
* * * * * * *
68972280 AGGCTATTTCGGTACTTTTACAAACCATGAGTATTT-TAGTAATTTTACAAATCGACGGTATTTC
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGA-TAATTTTACAAATCGAGGGTATTTC
* *
68972344 AGTAATTTCAAAATTG
65 AGTAATTTCACAATCG
** * * * *
68972360 AGGGTATTTCGGTAATTTTACAAATCGGGGGTATTTTGGTAATTTTAAAAAGT-GAGGGTATTGC
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAA-TCGAGGGTATTTC
68972424 AGTAATTTC
65 AGTAATTTC
68972433 TCTTTATTAT
Statistics
Matches: 255, Mismatches: 54, Indels: 11
0.80 0.17 0.03
Matches are distributed among these distances:
79 1 0.00
80 124 0.49
81 126 0.49
82 4 0.02
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (80 bp):
AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCA
GTAATTTCACAATCG
Found at i:68972332 original size:80 final size:79
Alignment explanation
Indices: 68972038--68972432 Score: 328
Period size: 80 Copynumber: 4.9 Consensus size: 79
68972028 TTACACTACA
* * * * * * *
68972038 AGGGTATTTTGGTAATTTTACACTACAAGGGTA-TTTCGATAATTTTATAAATCGGGGGTGTTTC
1 AGGGTATTTCGGTAATTTTACA-AACCAGGGTATTTTAG-TAATTTTAAAAATCGAGGGTATTTC
* * *
68972102 GGTAATTTTACAATTTG
64 AGTAATTTCACAA-TCG
* * * * * * * *
68972119 AGGGTGTTTCGATAATTTTATAAATCGAGGGT-GTTTCGATAATTTTACAAATCGAGGGTGTTTC
1 AGGGTATTTCGGTAATTTTACAAA-CCAGGGTATTTTAG-TAATTTTAAAAATCGAGGGTATTTC
*
68972183 AATAATTTCACGAATCG
64 AGTAATTTCAC-AATCG
* * * * * * * * *
68972200 AGGGTGTTTTGGTAAGTTTACAGATCGAGGGTGTTTTAATAATTTCAAAAATCAAGGGTATTTCA
1 AGGGTATTTCGGTAATTTTACA-AACCAGGGTATTTTAGTAATTTTAAAAATCGAGGGTATTTCA
68972265 GTAATTTCACAATCG
65 GTAATTTCACAATCG
* * * * *
68972280 AGGCTATTTCGGTACTTTTACAAACCATGAGTATTTTAGTAATTTTACAAATCGACGGTATTTCA
1 AGGGTATTTCGGTAATTTTACAAACCA-GGGTATTTTAGTAATTTTAAAAATCGAGGGTATTTCA
* *
68972345 GTAATTTCAAAATTG
65 GTAATTTCACAATCG
** * *
68972360 AGGGTATTTCGGTAATTTTACAAATCGGGGGTATTTTGGTAATTTTAAAAAGT-GAGGGTATTGC
1 AGGGTATTTCGGTAATTTTACAAA-CCAGGGTATTTTAGTAATTTTAAAAA-TCGAGGGTATTTC
68972424 AGTAATTTC
64 AGTAATTTC
68972433 TCTTTATTAT
Statistics
Matches: 256, Mismatches: 50, Indels: 17
0.79 0.15 0.05
Matches are distributed among these distances:
79 3 0.01
80 126 0.49
81 121 0.47
82 6 0.02
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (79 bp):
AGGGTATTTCGGTAATTTTACAAACCAGGGTATTTTAGTAATTTTAAAAATCGAGGGTATTTCAG
TAATTTCACAATCG
Found at i:68972784 original size:28 final size:28
Alignment explanation
Indices: 68972748--68972811 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
68972738 TGACCCCTTT
* * *
68972748 AGGCCCAATCTCGTTCACATGGCCTATC
1 AGGCCCAATCACATTCACATGGCCCATC
* *
68972776 AGGCTCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
68972804 AGGCCCAA
1 AGGCCCAA
68972812 CTACTTCCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.22
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGGCCCATC
Found at i:68973668 original size:53 final size:53
Alignment explanation
Indices: 68973605--68973710 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
68973595 CACTAAAGTA
68973605 GACATTTAATTGTGTTATTTCCTTGTACAATTAAATGCTTATATATAACCTCC
1 GACATTTAATTGTGTTATTTCCTTGTACAATTAAATGCTTATATATAACCTCC
68973658 GACATTTAATTGTGTTATTTCCTTGTACAATTAAATGCTTATATATAACCTCC
1 GACATTTAATTGTGTTATTTCCTTGTACAATTAAATGCTTATATATAACCTCC
68973711 TTACGTACCC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.43
Consensus pattern (53 bp):
GACATTTAATTGTGTTATTTCCTTGTACAATTAAATGCTTATATATAACCTCC
Found at i:68973691 original size:25 final size:25
Alignment explanation
Indices: 68973610--68973691 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
68973600 AAGTAGACAT
68973610 TTAATTGTGTTATTTCCTTGTACAA
1 TTAATTGTGTTATTTCCTTGTACAA
* * * *
68973635 TTAAATGCT-TATATATAACCTCCG-ACAT
1 TTAATTG-TGT-TAT-T-TCCT-TGTACAA
68973663 TTAATTGTGTTATTTCCTTGTACAA
1 TTAATTGTGTTATTTCCTTGTACAA
68973688 TTAA
1 TTAA
68973692 ATGCTTATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
24 1 0.02
25 17 0.40
26 5 0.12
27 5 0.12
28 13 0.31
29 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (25 bp):
TTAATTGTGTTATTTCCTTGTACAA
Found at i:68974610 original size:17 final size:18
Alignment explanation
Indices: 68974588--68974621 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
68974578 CATATTGAAG
68974588 TGTTTT-ATCGAAAACCA
1 TGTTTTCATCGAAAACCA
*
68974605 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
68974622 CTTCGTACTA
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:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCA
Found at i:68975737 original size:27 final size:27
Alignment explanation
Indices: 68975684--68975761 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
68975674 GGCAAAACAA
* * * *
68975684 TCATTTTACCCTATAGGGGTATGTCGG
1 TCATTTTACACTACAAGGGTATTTCGG
*
68975711 TCATTTTACACTACAAGGTTATTTCGG
1 TCATTTTACACTACAAGGGTATTTCGG
* *
68975738 TAAATTTACACTACAAGGGTATTT
1 TCATTTTACACTACAAGGGTATTT
68975762 TGATAATTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (27 bp):
TCATTTTACACTACAAGGGTATTTCGG
Found at i:68975772 original size:27 final size:27
Alignment explanation
Indices: 68975686--68975774 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
68975676 CAAAACAATC
* * * * * *
68975686 ATTTTACCCTATAGGGGTATGTCGGTC
1 ATTTTACACTACAAGGGTATTTCGATA
* *
68975713 ATTTTACACTACAAGGTTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGATA
* *
68975740 AATTTACACTACAAGGGTATTTTGATA
1 ATTTTACACTACAAGGGTATTTCGATA
68975767 ATTTTACA
1 ATTTTACA
68975775 AATCGGGGGT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:68975784 original size:27 final size:27
Alignment explanation
Indices: 68975753--68976119 Score: 361
Period size: 27 Copynumber: 13.7 Consensus size: 27
68975743 TTACACTACA
*
68975753 AGGGTATTTTGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
68975780 GGGGTGTCTGGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
68975807 AGGGTATTTTGGTAATTTTACAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
68975834 AGGCTA-TTCGGTAATTTTAGAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
68975860 AGGGTGTTAT-GGTAATTTTACAAATCG
1 AGGGTATT-TCGATAATTTTACAAATCG
*
68975887 AGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
68975914 AGGGTGTTT-TAGTAATTTCACAAATAG
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
68975941 AGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
68975968 AGGGTATTTTGGTAATTTCACAAATAG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
68975995 AGGGTGTTTCGATAATTTTACAAGTTG
1 AGGGTATTTCGATAATTTTACAAATCG
**
68976022 AGGGTATTTCAGA-AA-TTT-CATAATTA
1 AGGGTATTTC-GATAATTTTACA-AATCG
* *
68976048 AGGGTATTT-TAGTATTTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
68976075 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
68976102 AGGGTATTTCAATAATTT
1 AGGGTATTTCGATAATTT
68976120 CTCTTTATTA
Statistics
Matches: 283, Mismatches: 45, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
24 1 0.00
25 2 0.01
26 39 0.14
27 234 0.83
28 7 0.02
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:68975800 original size:54 final size:54
Alignment explanation
Indices: 68975753--68976119 Score: 409
Period size: 54 Copynumber: 6.8 Consensus size: 54
68975743 TTACACTACA
* * * *
68975753 AGGGTATTTTGATAATTTTACAAATCGGGGGTGTCTGGATAATTTTACAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCG
* * * * *
68975807 AGGGTATTTTGGTAATTTTACAAATCAAGGCT-ATTCGGTAATTTTAGAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCG
* *
68975860 AGGGTGTTATGGTAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCG
* * * *
68975914 AGGGTGTTTTAGTAATTTCACAAATAGAGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCG
* * * *
68975968 AGGGTATTTTGGTAATTTCACAAATAGAGGGTGTTTCGATAATTTTACAAGTTG
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCG
** * ** * * *
68976022 AGGGTATTTCAG-AAATTT-CATAATTAAGGGTATTT-TAGTATTTTTACAAATCG
1 AGGGTATTTTGGTAATTTTACA-AATCGAGGGTGTTTCGA-TAATTTTACAAATCG
* * * *
68976075 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTT
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTGTTTCGATAATTT
68976120 CTCTTTATTA
Statistics
Matches: 265, Mismatches: 42, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
52 3 0.01
53 81 0.31
54 178 0.67
55 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCG
Found at i:68975876 original size:80 final size:81
Alignment explanation
Indices: 68975763--68976111 Score: 345
Period size: 80 Copynumber: 4.3 Consensus size: 81
68975753 AGGGTATTTT
* *
68975763 GATAATTTTACAAATCGGGGGTGTCT-GGATAATTTTACAAATCGAGGGTATTTTGGTAATTTTA
1 GATAATTTTACAAATCGAGGGTGTTTCGG-TAATTTTACAAATCGAGGGTATTTTGGTAATTTTA
*
68975827 CAAATCAAGGCT-ATTC
65 CAAATCAAGGGTGATTC
* * * * *
68975843 GGTAATTTTAGAAATCGAGGGTGTTAT-GGTAATTTTACAAATCGAGGGTGTTTCGATAATTTTA
1 GATAATTTTACAAATCGAGGGTGTT-TCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTA
* *
68975907 CAAATCGAGGGTG-TTT
65 CAAATCAAGGGTGATTC
* * * * *
68975923 TAGTAATTTCACAAATAGAGGGTGTTTCGATAATTTTACAAATCGAGGGTATTTTGGTAATTTCA
1 GA-TAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTA
*
68975988 CAAAT-AGAGGGTGTTTC
65 CAAATCA-AGGGTGATTC
* * * * * ** * *
68976005 GATAATTTTACAAGTTGAGGGTATTTCAG-AAATTT-CATAATTAAGGGTATTTTAGTATTTTTA
1 GATAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACA-AATCGAGGGTATTTTGGTAATTTTA
*
68976068 CAAATCGAGGGT-ATTTC
65 CAAATCAAGGGTGA-TTC
*
68976085 GATAATTTTACAAATCGAGGGTATTTC
1 GATAATTTTACAAATCGAGGGTGTTTC
68976112 AATAATTTCT
Statistics
Matches: 221, Mismatches: 39, Indels: 18
0.79 0.14 0.06
Matches are distributed among these distances:
79 2 0.01
80 129 0.58
81 87 0.39
82 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (81 bp):
GATAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTAC
AAATCAAGGGTGATTC
Found at i:68987155 original size:107 final size:107
Alignment explanation
Indices: 68987036--68987434 Score: 400
Period size: 107 Copynumber: 3.7 Consensus size: 107
68987026 ACACTACAAT
** *
68987036 GGTATTTTGGTAATTTTACAAATCG-GGGT-TGTTTCAATAATTTTACAAATCGAGGGTATTTCG
1 GGTATTTCAGTAATTTCACAAATCGAGGGTAT-TTT-AATAATTTTACAAATCGAGGGTATTTCG
* *
68987099 GTAATTTTACAAAT-AAGGGTGTTTCAGTAATTTTACAAATCGAG
64 ATAATTTTAAAAATCAAGGGTGTTT-AGTAATTTTACAAATCGAG
* * * * * ** *
68987143 CGTGTTTCGGTAATTAT-ACAAATTGAGTGTATTTTGGTAATTTTGA-AAATCGAGGGTGTTTCG
1 GGTATTTCAGTAATT-TCACAAATCGAGGGTATTTTAATAATTTT-ACAAATCGAGGGTATTTCG
* * *
68987206 ATAATTTTAAAAATCAAGGGTGTTTTGGTAATTTTATAAATCAAG
64 ATAATTTTAAAAATCAAGGGTG-TTTAGTAATTTTACAAATCGAG
* * *
68987251 GGTATTTCAGTAATTTCACAAATCGAGGGTATTTTAGTAATTTCAC-AATTGAGGGTATTTCTG-
1 GGTATTTCAGTAATTTCACAAATCGAGGGTATTTTAATAATTTTACAAATCGAGGGTATTTC-GA
* * *
68987314 TAATTTTAGAAATCAAGGGTATTTTGATAATTTTACAAATCGAG
65 TAATTTTAAAAATCAAGGGTGTTTAG-TAATTTTACAAATCGAG
* ** * * * *
68987358 GGTATTTCAGTAATTCCAC-AATCGAGGGTATTTCGATAATGTTAGAAATTGGGGGTATTTCGAT
1 GGTATTTCAGTAATTTCACAAATCGAGGGTATTTTAATAATTTTACAAATCGAGGGTATTTCGAT
*
68987422 AATTTTATAAATC
66 AATTTTAAAAATC
68987435 GAGGACATTT
Statistics
Matches: 244, Mismatches: 36, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
106 25 0.10
107 148 0.61
108 67 0.27
109 4 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (107 bp):
GGTATTTCAGTAATTTCACAAATCGAGGGTATTTTAATAATTTTACAAATCGAGGGTATTTCGAT
AATTTTAAAAATCAAGGGTGTTTAGTAATTTTACAAATCGAG
Found at i:68987163 original size:80 final size:81
Alignment explanation
Indices: 68987007--68987453 Score: 413
Period size: 80 Copynumber: 5.6 Consensus size: 81
68986997 TTACACTATA
* * * **
68987007 AGGGTATTTCGGTAATTTTAC-ACTACAATGGTATTTTGGTAATTTTACAAATCG-GGGTTGTTT
1 AGGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTCAGTAATTTTACAAATCGAGGG-TGTTT
**
68987070 CAATAATTTTACAAATCG
64 CGGTAATTTTACAAATCG
* * *
68987088 AGGGTATTTCGGTAATTTTACAAAT-AAGGGTGTTTCAGTAATTTTACAAATCGAGCGTGTTTCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTGTTTCG
* *
68987152 GTAATTATACAAATTG
66 GTAATTTTACAAATCG
* * * * *
68987168 AGTGTATTTTGGTAATTTTGA-AAATCGAGGGTGTTTC-GATAATTTTAAAAATCAAGGGTGTTT
1 AGGGTATTTCGGTAATTTT-ACAAATCGAGGGTATTTCAG-TAATTTTACAAATCGAGGGTGTTT
* * *
68987231 TGGTAATTTTATAAATCA
64 CGGTAATTTTACAAATCG
* * * * * * *
68987249 AGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTTAGTAATTTCAC-AATTGAGGGTATTTCT
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTGTTTCG
* *
68987313 GTAATTTTAGAAATCA
66 GTAATTTTACAAATCG
* * ** *
68987329 AGGGTATTTTGATAATTTTACAAATCGAGGGTATTTCAGTAATTCCAC-AATCGAGGGTATTTCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTGTTTCG
* * * *
68987393 ATAATGTTAGAAATTG
66 GTAATTTTACAAATCG
* * * ** *
68987409 GGGGTATTTCGATAATTTTATAAATCGAGGACATTTCAATAATTT
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTT
68987454 CTCTTTGTTA
Statistics
Matches: 305, Mismatches: 54, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
80 198 0.65
81 104 0.34
82 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (81 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTGTTTCG
GTAATTTTACAAATCG
Found at i:68987444 original size:27 final size:27
Alignment explanation
Indices: 68987036--68987453 Score: 280
Period size: 27 Copynumber: 15.6 Consensus size: 27
68987026 ACACTACAAT
* * *
68987036 GGTATTTTGGTAATTTTACAAATCG-G
1 GGTATTTCGATAATTTTAGAAATCGAG
* * *
68987062 GGTTGTTTCAATAATTTTACAAATCGAG
1 GG-TATTTCGATAATTTTAGAAATCGAG
* * *
68987090 GGTATTTCGGTAATTTTACAAAT-AAG
1 GGTATTTCGATAATTTTAGAAATCGAG
* *
68987116 GGTGTTTC-AGTAATTTTACAAATCGAG
1 GGTATTTCGA-TAATTTTAGAAATCGAG
* * * * * *
68987143 CGTGTTTCGGTAATTATACAAATTGAG
1 GGTATTTCGATAATTTTAGAAATCGAG
* * *
68987170 TGTATTTTGGTAATTTT-GAAAATCGAG
1 GGTATTTCGATAATTTTAG-AAATCGAG
* * *
68987197 GGTGTTTCGATAATTTTAAAAATCAAG
1 GGTATTTCGATAATTTTAGAAATCGAG
* * * * *
68987224 GGTGTTTTGGTAATTTTATAAATCAAG
1 GGTATTTCGATAATTTTAGAAATCGAG
* *
68987251 GGTATTTC-AGTAATTTCACAAATCGAG
1 GGTATTTCGA-TAATTTTAGAAATCGAG
* * * *
68987278 GGTATTT-TAGTAATTTCA-CAATTGAG
1 GGTATTTCGA-TAATTTTAGAAATCGAG
*
68987304 GGTATTTCTG-TAATTTTAGAAATCAAG
1 GGTATTTC-GATAATTTTAGAAATCGAG
* *
68987331 GGTATTTTGATAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTAGAAATCGAG
** *
68987358 GGTATTTC-AGTAATTCCA-CAATCGAG
1 GGTATTTCGA-TAATTTTAGAAATCGAG
* * *
68987384 GGTATTTCGATAATGTTAGAAATTGGG
1 GGTATTTCGATAATTTTAGAAATCGAG
*
68987411 GGTATTTCGATAATTTTATAAATCGAG
1 GGTATTTCGATAATTTTAGAAATCGAG
** *
68987438 GACATTTCAATAATTT
1 GGTATTTCGATAATTT
68987454 CTCTTTGTTA
Statistics
Matches: 313, Mismatches: 63, Indels: 31
0.77 0.15 0.08
Matches are distributed among these distances:
26 66 0.21
27 244 0.78
28 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTATTTCGATAATTTTAGAAATCGAG
Found at i:68987853 original size:27 final size:28
Alignment explanation
Indices: 68987783--68987885 Score: 138
Period size: 28 Copynumber: 3.7 Consensus size: 28
68987773 CCCAGTCTCG
* *
68987783 TTCACATGGCCCATCAAGCCTAATCACA
1 TTCATATGGCCCATCAGGCCTAATCACA
68987811 TTCATATGGCCCATCAGGTCC-AATCACA
1 TTCATATGGCCCATCAGG-CCTAATCACA
* *
68987839 TT-TTATGGCCCATCAGACCTAATCACA
1 TTCATATGGCCCATCAGGCCTAATCACA
*
68987866 TTCATATGGCCCATTAGGCC
1 TTCATATGGCCCATCAGGCC
68987886 CAACTACTTC
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
26 2 0.03
27 22 0.34
28 39 0.60
29 2 0.03
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (28 bp):
TTCATATGGCCCATCAGGCCTAATCACA
Found at i:68991302 original size:42 final size:44
Alignment explanation
Indices: 68991225--68991315 Score: 107
Period size: 42 Copynumber: 2.1 Consensus size: 44
68991215 TCTTATATGT
*
68991225 AATCAAATATCGATGCCACTGTCCCAAATACGGTCTTACACG-A
1 AATCAAATATCGATGCCACTGTCCCAAACACGGTCTTACACGTA
* * * *
68991268 AATCAAATAT-GATGCCGA-TGTCCTAGACAGGGTCTTACATGTA
1 AATCAAATATCGATGCC-ACTGTCCCAAACACGGTCTTACACGTA
68991311 AATCA
1 AATCA
68991316 TAAGTCGATG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 24 0.59
43 17 0.41
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (44 bp):
AATCAAATATCGATGCCACTGTCCCAAACACGGTCTTACACGTA
Found at i:68991314 original size:43 final size:44
Alignment explanation
Indices: 68991214--68991315 Score: 113
Period size: 43 Copynumber: 2.4 Consensus size: 44
68991204 CCCAGGCCTA
* *
68991214 GTCTTATATGT-AATCAAATATCGATGCCACTGTCCCAAATACG
1 GTCTTACATGTAAATCAAATATCGATGCCACTGTCCCAAACACG
* * * *
68991257 GTCTTACACG-AAATCAAATAT-GATGCCGA-TGTCCTAGACAGG
1 GTCTTACATGTAAATCAAATATCGATGCC-ACTGTCCCAAACACG
68991299 GTCTTACATGTAAATCA
1 GTCTTACATGTAAATCA
68991316 TAAGTCGATG
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
42 24 0.49
43 25 0.51
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (44 bp):
GTCTTACATGTAAATCAAATATCGATGCCACTGTCCCAAACACG
Found at i:69000707 original size:29 final size:30
Alignment explanation
Indices: 69000643--69000773 Score: 102
Period size: 29 Copynumber: 4.6 Consensus size: 30
69000633 ATACATGCAC
* *
69000643 ATGGCCCA-CTAGGCCC-AGT-ATCATTTAT
1 ATGGCCCATCTAGGCCCAATTGA-CATTCAT
* *
69000671 ATGGCCCATCT-GGCCCAATTTACGTTCAT
1 ATGGCCCATCTAGGCCCAATTGACATTCAT
* *
69000700 ATGACCCAT-TAGGCCAAATTGACATTCAT
1 ATGGCCCATCTAGGCCCAATTGACATTCAT
*
69000729 ATGGCCCA-CTAGGCCC-ATCT--CATTCAC
1 ATGGCCCATCTAGGCCCAAT-TGACATTCAT
*
69000756 ATAGCCCATCT-GGCCCAA
1 ATGGCCCATCTAGGCCCAA
69000774 ATCACATTAT
Statistics
Matches: 84, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
27 18 0.21
28 19 0.23
29 46 0.55
30 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (30 bp):
ATGGCCCATCTAGGCCCAATTGACATTCAT
Found at i:69000877 original size:18 final size:19
Alignment explanation
Indices: 69000854--69000890 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
69000844 TGGGCCCAAC
69000854 AGCCCATT-GGGCCCATTT
1 AGCCCATTCGGGCCCATTT
*
69000872 AGCCCATTCTGGCCCATTT
1 AGCCCATTCGGGCCCATTT
69000891 GGCATATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.16, C:0.35, G:0.19, T:0.30
Consensus pattern (19 bp):
AGCCCATTCGGGCCCATTT
Found at i:69000888 original size:10 final size:9
Alignment explanation
Indices: 69000855--69000893 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
69000845 GGGCCCAACA
*
69000855 GCCCATTGG
1 GCCCATTTG
*
69000864 GCCCATTTA
1 GCCCATTTG
69000873 GCCCATTCTG
1 GCCCATT-TG
69000883 GCCCATTTG
1 GCCCATTTG
69000892 GC
1 GC
69000894 ATATTCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.13, C:0.36, G:0.23, T:0.28
Consensus pattern (9 bp):
GCCCATTTG
Found at i:69008128 original size:56 final size:56
Alignment explanation
Indices: 69008042--69008217 Score: 334
Period size: 56 Copynumber: 3.1 Consensus size: 56
69008032 ACAAGGGATG
*
69008042 ATGGGCAAAACATGTCATGAAGCATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
69008098 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
69008154 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
69008210 ATGGGCAA
1 ATGGGCAA
69008218 TAAACTAATA
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:69009577 original size:40 final size:40
Alignment explanation
Indices: 69009346--69009570 Score: 298
Period size: 40 Copynumber: 5.7 Consensus size: 40
69009336 TCGAATGATG
* * * *
69009346 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
69009386 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
69009426 TCCGGGCTAAG-CCCGAAGGCA-TTGATGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTAAA
*
69009465 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
69009505 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
69009546 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
69009571 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 3 0.02
39 31 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:69009577 original size:80 final size:80
Alignment explanation
Indices: 69009346--69009570 Score: 298
Period size: 79 Copynumber: 2.8 Consensus size: 80
69009336 TCGAATGATG
* * * * *
69009346 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
* *
69009409 TTGTGCGAGATACTAAT
64 TTGTGCGAGTTACTAAA
*
69009426 TCCGGGCTAAG-CCCGAAGGCA-TTGATGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCAT
69009488 TTGTGCGAGTTACTAAA
64 TTGTGCGAGTTACTAAA
*
69009505 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
69009570 G
66 G
69009571 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 62 0.48
80 59 0.46
81 5 0.04
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:69009592 original size:119 final size:119
Alignment explanation
Indices: 69009346--69009603 Score: 303
Period size: 119 Copynumber: 2.2 Consensus size: 119
69009336 TCGAATGATG
* *
69009346 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* *
69009411 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGATGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGATACGAGTTACTAAA
* * * *
69009465 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
69009528 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGA-ACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCA-TTGATACGAGTTA-CTAAA
* *
69009585 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
69009604 TACGTGATTT
Statistics
Matches: 120, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
118 3 0.03
119 85 0.71
120 28 0.23
121 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGATACGAGTTACTAAA
Found at i:69018623 original size:40 final size:40
Alignment explanation
Indices: 69018556--69018722 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
69018546 GGGGTTTAGT
** * *
69018556 CGGATATAACCACTCGCAC-AAGGCCTTCGGATCTTAACC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGATCTTAACC
* * * ** *
69018595 TGGATATGGTCACTAGCATAAATGCCTTCGGGGCTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGATCTTAACC
* **
69018635 CGGATATAGTCGCTAGCACAAATGCCTTCGGATCTTAGTC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGATCTTAACC
* * * *
69018675 CGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGA-CTTAGCC
1 CGGATATAGTCAC-TAGCACAAATGCCTTC-GGATCTTAACC
69018716 CGGATAT
1 CGGATAT
69018723 CATTCGAGTA
Statistics
Matches: 104, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 13 0.12
40 61 0.59
41 27 0.26
42 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CGGATATAGTCACTAGCACAAATGCCTTCGGATCTTAACC
Found at i:69018705 original size:41 final size:40
Alignment explanation
Indices: 69018578--69018722 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
69018568 CTCGCACAAG
* * * * *
69018578 GCCTTCGGATCTTAACCTGGATATGGTCACTAGCATAAAT
1 GCCTTCGGATCTTAGCCCGGATATAGTCGCTAGCACAAAT
**
69018618 GCCTTCGGGGCTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGATCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
69018658 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGATCTTAGCCCGGATATAGTCGC-TAGCACAAAT
69018699 GCCTTCGGGA-CTTAGCCCGGATAT
1 GCCTTC-GGATCTTAGCCCGGATAT
69018723 CATTCGAGTA
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
40 59 0.66
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGATCTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:69020566 original size:46 final size:46
Alignment explanation
Indices: 69020516--69020691 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
69020506 TGTTTGGGCA
*
69020516 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
69020562 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
69020609 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
69020655 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
69020692 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
45 2 0.02
46 70 0.65
47 35 0.33
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:69020671 original size:93 final size:93
Alignment explanation
Indices: 69020512--69020683 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
69020502 AGGATGTTTG
*
69020512 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
69020577 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
69020605 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTGA
69020669 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
69020684 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:69024351 original size:93 final size:93
Alignment explanation
Indices: 69024192--69024457 Score: 379
Period size: 93 Copynumber: 2.9 Consensus size: 93
69024182 AGAATATTTG
* * * * * * **
69024192 GGCATGCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACATCTAAACTCATTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
*
69024257 TTGAGTCTGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* *
69024285 GGCATCCGAATTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
69024350 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* * * * * *
69024378 GGCATCCGAACTCGTTGAGTTGAGTCCGAATTCGCTTATGGATGCGAACGACCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
69024443 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
69024458 CTTATGGGTG
Statistics
Matches: 154, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 154 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:69024355 original size:46 final size:46
Alignment explanation
Indices: 69024206--69024464 Score: 193
Period size: 46 Copynumber: 5.6 Consensus size: 46
69024196 TGCGAGCTCG
* * * * **
69024206 TTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACATCTAAACTCA
1 TTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAACGTCCGAACTCA
* * * * * * * *
69024252 TTGAGTTGAGTCTGAGTTCG-TGAAATGTA-ACTAGGCATCCGAATTCA
1 TTGAGTTGAGTCCGAGTTCGCT--TATGGATGCGA-ACGTCCGAACTCA
* *
69024299 TTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGTCCGAACTCA
1 TTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAACGTCCGAACTCA
* * * * * * *
69024345 TTGAGTTGAGTCCGAGTTCG-TGAAATGTA-ACTAGGCATCCGAACTCG
1 TTGAGTTGAGTCCGAGTTCGCT--TATGGATGCGA-ACGTCCGAACTCA
* * * *
69024392 TTGAGTTGAGTCCGAATTCGCTTATGGATGCGAACGACCGAGCTCG
1 TTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAACGTCCGAACTCA
69024438 TTGAGTTGAGTCCGAGTTCGCTTATGG
1 TTGAGTTGAGTCCGAGTTCGCTTATGG
69024465 GTGGGTTACA
Statistics
Matches: 163, Mismatches: 40, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
45 2 0.01
46 92 0.56
47 67 0.41
48 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (46 bp):
TTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAACGTCCGAACTCA
Found at i:69024404 original size:47 final size:47
Alignment explanation
Indices: 69024246--69024411 Score: 185
Period size: 47 Copynumber: 3.6 Consensus size: 47
69024236 CAAACATCTA
*
69024246 AACTCATTGAGTTGAGTCTGAGTTCGTGAAATGTAACTAGGCATCCG
1 AACTCATTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCG
* * * * * * * * *
69024293 AATTCATTGAGTTGAGTTCGAGTTCACT--TATGGATGCGA-ACGTCCG
1 AACTCATTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCATCCG
69024339 AACTCATTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCG
1 AACTCATTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCG
* *
69024386 AACTCGTTGAGTTGAGTCCGAATTCG
1 AACTCATTGAGTTGAGTCCGAGTTCG
69024412 CTTATGGATG
Statistics
Matches: 93, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
45 1 0.01
46 34 0.37
47 57 0.61
48 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (47 bp):
AACTCATTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCG
Found at i:69035347 original size:27 final size:27
Alignment explanation
Indices: 69035309--69035542 Score: 222
Period size: 27 Copynumber: 8.7 Consensus size: 27
69035299 AGAGACCATT
* *
69035309 AAATGATCGTAATGCCCCTGTAGAGCA
1 AAATGACCGTAATGCCCCTGTAGAGTA
*
69035336 AAATAGA-CGTAATGCCCCTTTAGAGTA
1 AAAT-GACCGTAATGCCCCTGTAGAGTA
* ** * *
69035363 AAATCACTATAATGCCCCTGCAGGGTA
1 AAATGACCGTAATGCCCCTGTAGAGTA
*
69035390 AAATGACCGTAATG-CCATGTAGAGTA
1 AAATGACCGTAATGCCCCTGTAGAGTA
** * *
69035416 AAATGATTGTAATGCCCCTGTAGGGTG
1 AAATGACCGTAATGCCCCTGTAGAGTA
*
69035443 AAATGACCGTAATGCCCCTGGCAG-GTA
1 AAATGACCGTAATGCCCCT-GTAGAGTA
* * *
69035470 AAATGACCGTAATACCCTTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGAGTA
* * *
69035497 AAATGACCGTAATGTCCTTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGAGTA
* * *
69035524 AAATGGCCGTGATACCCCT
1 AAATGACCGTAATGCCCCT
69035543 ATATGGTAAT
Statistics
Matches: 169, Mismatches: 33, Indels: 10
0.80 0.16 0.05
Matches are distributed among these distances:
26 25 0.15
27 139 0.82
28 5 0.03
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (27 bp):
AAATGACCGTAATGCCCCTGTAGAGTA
Found at i:69035495 original size:107 final size:108
Alignment explanation
Indices: 69035309--69035528 Score: 275
Period size: 107 Copynumber: 2.0 Consensus size: 108
69035299 AGAGACCATT
** *
69035309 AAATGATCGTAATGCCCCTGTAGAGCAAAATAGACGTAATGCCCCTTTAGAGTAAAATCACTATA
1 AAATGATCGTAATGCCCCTGTAGAGCAAAATAGACGTAATGCCCCTGCAGAGTAAAATCACCATA
*
69035374 ATGCCCCTGCAGGGTAAAATGACCGTAATG-CCATGTAGAGTA
66 ATACCCCTGCAGGGTAAAATGACCGTAATGTCCATGTAGAGTA
* * ** * *
69035416 AAATGATTGTAATGCCCCTGTAGGGTGAAAT-GACCGTAATGCCCCTGGCAG-GTAAAATGACCG
1 AAATGATCGTAATGCCCCTGTAGAGCAAAATAGA-CGTAATGCCCCT-GCAGAGTAAAATCACCA
* * * *
69035479 TAATACCCTTGTAGGGTAAAATGACCGTAATGTCCTTGTAGGGTA
64 TAATACCCCTGCAGGGTAAAATGACCGTAATGTCCATGTAGAGTA
69035524 AAATG
1 AAATG
69035529 GCCGTGATAC
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
106 2 0.02
107 77 0.80
108 17 0.18
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (108 bp):
AAATGATCGTAATGCCCCTGTAGAGCAAAATAGACGTAATGCCCCTGCAGAGTAAAATCACCATA
ATACCCCTGCAGGGTAAAATGACCGTAATGTCCATGTAGAGTA
Found at i:69035519 original size:81 final size:80
Alignment explanation
Indices: 69035309--69035542 Score: 247
Period size: 80 Copynumber: 2.9 Consensus size: 80
69035299 AGAGACCATT
* * * * * * **
69035309 AAATGATCGTAATGCCCCTGTAGAGCAAAATAGA-CGTAATGCCCCTTTAGAGTAAAATCACTAT
1 AAATGACCGTAAT-CCCATGTAGAGTAAAAT-GACCGTAATGCCCCTGTAGGGTAAAATGACCGT
69035373 AATGCCCCTGCAGGGTA
64 AATGCCCCTGCAGGGTA
* ** *
69035390 AAATGACCGTAATGCCATGTAGAGTAAAATGATTGTAATGCCCCTGTAGGGTGAAATGACCGTAA
1 AAATGACCGTAATCCCATGTAGAGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAA
69035455 TGCCCCTGGCA-GGTA
66 TGCCCCT-GCAGGGTA
* * * * * *
69035470 AAATGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGTCCTTGTAGGGTAAAATGGCCGTG
1 AAATGACCGTAAT-CCCATGTAGAGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTA
*
69035535 ATACCCCT
65 ATGCCCCT
69035543 ATATGGTAAT
Statistics
Matches: 128, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
79 2 0.02
80 63 0.49
81 63 0.49
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (80 bp):
AAATGACCGTAATCCCATGTAGAGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAA
TGCCCCTGCAGGGTA
Found at i:69036800 original size:21 final size:22
Alignment explanation
Indices: 69036756--69036797 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
69036746 CGATGGATGC
*
69036756 GCATTGAGTTATAATATGTAAT
1 GCATTGAGTTATAAAATGTAAT
69036778 GCATT-AGTTAGTAAAATGTA
1 GCATTGAGTTA-TAAAATGTA
69036798 TGCCATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (22 bp):
GCATTGAGTTATAAAATGTAAT
Found at i:69036804 original size:22 final size:23
Alignment explanation
Indices: 69036752--69036804 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
69036742 TAAACGATGG
*
69036752 ATGCGCATTGAGTTATAATATGTA
1 ATGC-CATTGAGTTATAAAATGTA
69036776 ATG-CATT-AGTTAGTAAAATGT-
1 ATGCCATTGAGTTA-TAAAATGTA
69036797 ATGCCATT
1 ATGCCATT
69036805 TATATGTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 8 0.31
22 15 0.58
24 3 0.12
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (23 bp):
ATGCCATTGAGTTATAAAATGTA
Found at i:69037621 original size:80 final size:80
Alignment explanation
Indices: 69037479--69037661 Score: 260
Period size: 80 Copynumber: 2.3 Consensus size: 80
69037469 TGGATGATAA
* *
69037479 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCAGGCTAAGTCCTGAACGCATTTG
1 CCGGGCTAAGTCCCGAAGGTATTTGCGCGAGTGACTAGTTCCAGGCTAAGTCCTGAACGCATTTG
*
69037544 TGTGAGTTACCATAT
66 TGCGAGTTACCATAT
* * * * *
69037559 CCGGGCTAAGTCCTGAAGGTATTTGTGCGAGTTACTAGTTCCGGGCTAAGT-CTCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGTATTTGCGCGAGTGACTAGTTCCAGGCTAAGTCCT-GAACGCATTT
*
69037623 GTGCGAGTTACTATAT
65 GTGCGAGTTACCATAT
*
69037639 CCGGGCTATGTCCCGAAGGTATT
1 CCGGGCTAAGTCCCGAAGGTATT
69037662 CGAGTGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
79 2 0.02
80 89 0.98
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGTATTTGCGCGAGTGACTAGTTCCAGGCTAAGTCCTGAACGCATTTG
TGCGAGTTACCATAT
Found at i:69037682 original size:40 final size:40
Alignment explanation
Indices: 69037479--69037661 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 40
69037469 TGGATGATAA
* * * *
69037479 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTA-TAT
* * * * * *
69037519 CCAGGCTAAGTCCTGAACGCATTTGTGTGAGTTACCATAT
1 CCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAT
*
69037559 CCGGGCTAAGTCCTGAAGGTATTTGTGCGAGTTACTAGT-T
1 CCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTA-TAT
* *
69037599 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAT
*
69037639 CCGGGCTATGTCCCGAAGGTATT
1 CCGGGCTAAGTCCCGAAGGTATT
69037662 CGAGTGAGTA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 118 0.98
41 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAT
Found at i:69037682 original size:80 final size:79
Alignment explanation
Indices: 69037479--69037696 Score: 235
Period size: 80 Copynumber: 2.7 Consensus size: 79
69037469 TGGATGATAA
* * * * * *
69037479 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCAGGCTAAGTC-CTGAACGCATTT
1 CCGGGCTAAGTCCCGAAGGTATTCGAGCGAGTTACTAGTTCC-GGCTAAGTCTC-GAAGGCATTT
*
69037543 GTGTGAGTTACCATAT
64 GTGCGAGTTACCATAT
* * *
69037559 CCGGGCTAAGTCCTGAAGGTATTTGTGCGAGTTACTAGTTCCGGGCTAAGTCTCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGTATTCGAGCGAGTTACTAGTTCC-GGCTAAGTCTCGAAGGCATTTG
*
69037624 TGCGAGTTACTATAT
65 TGCGAGTTACCATAT
* * * *
69037639 CCGGGCTATGTCCCGAAGGTATTCGAGTGAG-TAGCTA-TATCCGGTTAAATCTCGAAGG
1 CCGGGCTAAGTCCCGAAGGTATTCGAGCGAGTTA-CTAGT-TCCGGCTAAGTCTCGAAGG
69037697 TACTTGGCTT
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
79 17 0.14
80 101 0.85
81 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGTATTCGAGCGAGTTACTAGTTCCGGCTAAGTCTCGAAGGCATTTGT
GCGAGTTACCATAT
Found at i:69045986 original size:40 final size:40
Alignment explanation
Indices: 69045783--69045961 Score: 297
Period size: 40 Copynumber: 4.5 Consensus size: 40
69045773 TGGATGATAA
* * * *
69045783 CCGGGCTAAGTCCCAAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
69045823 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
69045863 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
69045903 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-T
*
69045943 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
69045962 TATTCGGGCG
Statistics
Matches: 133, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 1 0.01
40 132 0.99
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
Found at i:69050267 original size:27 final size:27
Alignment explanation
Indices: 69050231--69050397 Score: 192
Period size: 27 Copynumber: 6.2 Consensus size: 27
69050221 AGAGGTCGCT
* ** *
69050231 AAATGACCGTCATGCCTTTGTAGAGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* *
69050258 AAATGACCGTAATGCTCCTGTAGAGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
*
69050285 AAATGACTGTAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* *
69050312 AAATAACTGTAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* *
69050339 AAATGACCGTAATGCCCTTGTAGGGAA
1 AAATGACCGTAATGCCCCTGTAGGGTA
* * *
69050366 AAATGACCATGATACCCCTGT-GTGGTA
1 AAATGACCGTAATGCCCCTGTAG-GGTA
69050393 AAATG
1 AAATG
69050398 TCAATTATGC
Statistics
Matches: 122, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 1 0.01
27 121 0.99
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (27 bp):
AAATGACCGTAATGCCCCTGTAGGGTA
Found at i:69050879 original size:33 final size:33
Alignment explanation
Indices: 69050833--69050906 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
69050823 AAGGCTAGGG
*
69050833 CCCAGACTGTACTGATACTGAATAGGGCTTAGC
1 CCCAGACTATACTGATACTGAATAGGGCTTAGC
* *
69050866 CCCAGACTATACTGATATTGAATAGGGCTTAGG
1 CCCAGACTATACTGATACTGAATAGGGCTTAGC
69050899 CCCAGACT
1 CCCAGACT
69050907 GTGTTTTTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (33 bp):
CCCAGACTATACTGATACTGAATAGGGCTTAGC
Found at i:69052276 original size:56 final size:56
Alignment explanation
Indices: 69052215--69052348 Score: 223
Period size: 56 Copynumber: 2.4 Consensus size: 56
69052205 AATGGCATCA
*
69052215 ATATATGTGTGCGAGTAAGACCACGTTTAATACATTATCATCGATATGTGATTCCG
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACATTAGCATCGATATGTGATTCCG
* *
69052271 ATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCTG
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACATTAGCATCGATATGTGATTCCG
* *
69052327 ATTTATGTGTGCAAGTAAGACC
1 ATATATGTGTGCGAGTAAGACC
69052349 CTGTCTGGGA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 73 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCACGTTTAATACATTAGCATCGATATGTGATTCCG
Found at i:69052366 original size:56 final size:56
Alignment explanation
Indices: 69052215--69052379 Score: 179
Period size: 56 Copynumber: 2.9 Consensus size: 56
69052205 AATGGCATCA
* * * * **
69052215 ATATATGTGTGCGAGTAAGACCACGTTTAATACATTATCATCGATATGTGATTCCG
1 ATATATGTGTGCAAGTAAGACCACGTCTAAGACAGTGGCATCGATATGTGATTCCG
* * * * *
69052271 ATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCTG
1 ATATATGTGTGCAAGTAAGACCACGTCTAAGACAGTGGCATCGATATGTGATTCCG
* ** *
69052327 ATTTATGTGTGCAAGTAAGACC-CTGTCTGGGATAGTGGCATCGATATGTGATT
1 ATATATGTGTGCAAGTAAGACCAC-GTCTAAGACAGTGGCATCGATATGTGATT
69052380 ACATGTAAGA
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
55 1 0.01
56 96 0.99
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (56 bp):
ATATATGTGTGCAAGTAAGACCACGTCTAAGACAGTGGCATCGATATGTGATTCCG
Found at i:69056331 original size:40 final size:40
Alignment explanation
Indices: 69056286--69056488 Score: 137
Period size: 40 Copynumber: 5.1 Consensus size: 40
69056276 GGGATTTAAT
* *
69056286 CGGATATAGCT-ACTCACTCGAATACCTTCGGGACATAGCC
1 CGGATATAG-TAACTCACACAAATACCTTCGGGACATAGCC
* * *
69056326 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTAACTCACACAAATACCTTCGGGACATAGCC
* * * * *
69056366 C-TAAACTAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
1 CGGATA-TAGTAACTCACACAAATACCTTCGGGACATAGCC
* *** * * *
69056406 CGGA-ACTAGTAAGTTGTAGAAATGCCTTCGGGACTTAGCC
1 CGGATA-TAGTAACTCACACAAATACCTTCGGGACATAGCC
* * * *
69056446 CGGA-ACTAGTCACT-AGCGCAAATGCCTTCGGGACTTAGCC
1 CGGATA-TAGTAACTCA-CACAAATACCTTCGGGACATAGCC
69056486 CGG
1 CGG
69056489 TTATCATCCA
Statistics
Matches: 141, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.02
40 137 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CGGATATAGTAACTCACACAAATACCTTCGGGACATAGCC
Found at i:69056443 original size:80 final size:80
Alignment explanation
Indices: 69056310--69056488 Score: 252
Period size: 80 Copynumber: 2.2 Consensus size: 80
69056300 CACTCGAATA
* *
69056310 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCTAAACTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAACTAG
*
69056375 TAACTCGCACAAATG
66 TAACTAGCACAAATG
* * * * *
69056390 CCTTCGGGACTTAGCCCGGA-ACTAGTAAGTTGTAGAAATGCCTTCGGGACTTAGCCCGGAACTA
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAACTA
* *
69056454 GTCACTAGCGCAAATG
65 GTAACTAGCACAAATG
69056470 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
69056489 TTATCATCCA
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 1 0.01
80 87 0.99
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAACTAG
TAACTAGCACAAATG
Found at i:69064726 original size:39 final size:40
Alignment explanation
Indices: 69064569--69064784 Score: 264
Period size: 40 Copynumber: 5.5 Consensus size: 40
69064559 AAGCCAAGTA
* * * * *
69064569 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
69064608 CCTTCGGGACATAGCCCGTATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
69064648 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
69064688 CCTTCGGGACTTAGCCCGGATAT-GTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
69064727 CCTTC-GGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
69064766 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
69064785 TTATCATCCA
Statistics
Matches: 156, Mismatches: 14, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
37 1 0.01
38 15 0.10
39 51 0.33
40 88 0.56
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:69064764 original size:78 final size:80
Alignment explanation
Indices: 69064608--69064784 Score: 286
Period size: 78 Copynumber: 2.2 Consensus size: 80
69064598 CGCTCGAATA
* *
69064608 CCTTCGGGACATAGCCCGTATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
* *
69064673 TAACTCGTACAAATG
66 TAACTAGCACAAATG
69064688 CCTTCGGGACTTAGCCCGGATAT-GTAACTCGCACAAATGCCTTC-GGACTTAGCCCGGAACTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
* *
69064751 TCACTAGCGCAAATG
66 TAACTAGCACAAATG
69064766 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
69064785 TTATCATCCA
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
78 49 0.54
79 21 0.23
80 21 0.23
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
TAACTAGCACAAATG
Found at i:69066837 original size:27 final size:27
Alignment explanation
Indices: 69066783--69066893 Score: 163
Period size: 27 Copynumber: 4.1 Consensus size: 27
69066773 AGCATGGCTG
* *
69066783 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
69066809 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
69066836 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
69066863 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
69066890 CCAG
1 CCAG
69066894 GACATTTCCT
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
26 15 0.19
27 61 0.78
28 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:69067041 original size:26 final size:27
Alignment explanation
Indices: 69067012--69067072 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
69067002 GGGTATAATG
* *
69067012 GTAATTT-TGCACCTAAGGGTATATC-A
1 GTAATTTCTACACATAAGGGTAT-TCAA
*
69067038 GTAATTTCTATACATAAGGGTATTCAA
1 GTAATTTCTACACATAAGGGTATTCAA
69067065 GTAATTTC
1 GTAATTTC
69067073 ACTATTCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 9 0.30
27 21 0.70
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (27 bp):
GTAATTTCTACACATAAGGGTATTCAA
Found at i:69074565 original size:26 final size:26
Alignment explanation
Indices: 69074535--69074646 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
69074525 CAGCATGGCT
* * *
69074535 ACCAGAACAGATAATGTGACAAAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
69074561 ACCAGAACAGATAATTGTGGCAGAGCC
1 ACCAGAACAGATAA-TGTGGCAGAGCC
69074588 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* * *
69074615 ACCAGATCAAATAAATGTGGCATAGCC
1 ACCAGAACAGAT-AATGTGGCAGAGCC
69074642 ACCAG
1 ACCAG
69074647 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
26 14 0.18
27 61 0.79
28 2 0.03
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.15
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:69083214 original size:46 final size:45
Alignment explanation
Indices: 69083147--69083310 Score: 156
Period size: 46 Copynumber: 3.6 Consensus size: 45
69083137 CGCCCCTAAA
69083147 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAG-TCGGGCGTTCGCATCCATAAG
* *
69083193 TGAACTCGGACTCAACTCAACGAAGTCGGATGCCTAGTT-ACAT-C-TCA-
1 TGAACTCGGACTCAACTCAACG-AGTCGG--G-C--GTTCGCATCCATAAG
* * * * *
69083240 CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAGG
1 TGAACTCGGACTCAACTCAACGAG-TCGGGCGTTCGCATCCATAAG
*
69083286 TGAACTTGGACTCAACTCAACGAGT
1 TGAACTCGGACTCAACTCAACGAGT
69083311 TCAGATGCTC
Statistics
Matches: 95, Mismatches: 12, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 49 0.52
47 26 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTCGGGCGTTCGCATCCATAAG
Found at i:69083318 original size:93 final size:93
Alignment explanation
Indices: 69083148--69083318 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
69083138 GCCCCTAAAT
* *
69083148 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
69083213 CGAAGTCGGATGCCTAGTTACATCTCAC
66 CGAAGTCAGATGCCTAGTTACATCTCAC
* * * *
69083241 GAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAGGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
69083306 CG-AGTTCAGATGC
66 CGAAG-TCAGATGC
69083319 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAAGTCAGATGCCTAGTTACATCTCAC
Found at i:69088526 original size:47 final size:47
Alignment explanation
Indices: 69088136--69088518 Score: 667
Period size: 47 Copynumber: 8.1 Consensus size: 47
69088126 GAAATGATAG
69088136 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
69088183 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
69088230 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
69088277 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAATGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
69088324 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
69088371 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
69088418 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
69088465 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
69088512 CAAGGCC
1 TAAGGCC
69088519 GAGTGGCCAA
Statistics
Matches: 319, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 319 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:69088737 original size:37 final size:37
Alignment explanation
Indices: 69088681--69088759 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
69088671 CCGAGCTCTA
* * *
69088681 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
69088718 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
69088755 AAGAC
1 AAGAC
69088760 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:69094610 original size:46 final size:45
Alignment explanation
Indices: 69094543--69094711 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 45
69094533 AACCCGCCCC
* *
69094543 TAAGTGAACTCAGACTCAACTCAATGAGCTCAGGCATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTC-GGCATTCGCATCCA
* *
69094589 TAAGTGAACTC-GAACTCAACTCAACGAGTTCGG-ATGC-CTAGTTACA
1 TAAGTGAACTCAG-ACTCAACTCAACGAGTTCGGCATTCGC-A--TCCA
*
69094635 TCTAA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCAGACTCAACTCAACGAGTTCGG-CATTCGCATCCA
* * *
69094682 TAGGTGAACTCGGACTCAACTCAACAAGTT
1 TAAGTGAACTCAGACTCAACTCAACGAGTT
69094712 TGGATGCTCA
Statistics
Matches: 101, Mismatches: 11, Indels: 22
0.75 0.08 0.16
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 5 0.05
46 53 0.52
47 29 0.29
48 4 0.04
49 4 0.04
50 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGCATTCGCATCCA
Found at i:69094656 original size:93 final size:93
Alignment explanation
Indices: 69094548--69094718 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
69094538 GCCCCTAAGT
*
69094548 GAACTCAGACTCAACTCAATGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
69094612 ACGAGTTCGGATGCCTAGTTACATCTAAC
65 ACAAGTTCGGATGCCTAGTTACATCTAAC
* * *
69094641 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
*
69094706 CAAGTTTGGATGC
66 CAAGTTCGGATGC
69094719 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATCTAAC
Found at i:69097504 original size:43 final size:42
Alignment explanation
Indices: 69097378--69097473 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 42
69097368 ATGTGTTTTT
* *
69097378 GTGTAAGACCATGTCTGGGACATTGGCAT--TGACTTATGATTTAC
1 GTGTAAGACCATGTCTAGGACATTGGAATCAT-A-TT-TGATTT-C
69097422 GTGTAAGACCATGTCTAGGACATTGGAATCATATTTGATTTC
1 GTGTAAGACCATGTCTAGGACATTGGAATCATATTTGATTTC
69097464 GTGTAAGACC
1 GTGTAAGACC
69097474 CTGTTTGGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
42 11 0.23
43 6 0.12
44 29 0.60
45 1 0.02
46 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (42 bp):
GTGTAAGACCATGTCTAGGACATTGGAATCATATTTGATTTC
Found at i:69097534 original size:43 final size:42
Alignment explanation
Indices: 69097439--69097535 Score: 97
Period size: 43 Copynumber: 2.3 Consensus size: 42
69097429 ACCATGTCTA
* * * * *
69097439 GGACATTGGAATCATATTTGATTTCGTGTAAGACCCTGTTTG
1 GGACATTGGCATCATATTTGATTACATGTAAGACACTATTTG
* * *
69097481 GAATAGTGGCATCGATATTTGATTACATGTAAGATCAC-ATTTG
1 GGACATTGGCATC-ATATTTGATTACATGTAAGA-CACTATTTG
69097524 GGACATTGGCAT
1 GGACATTGGCAT
69097536 TTTACGAGCT
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
42 9 0.21
43 31 0.74
44 2 0.05
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (42 bp):
GGACATTGGCATCATATTTGATTACATGTAAGACACTATTTG
Found at i:69100775 original size:42 final size:42
Alignment explanation
Indices: 69100728--69100847 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 42
69100718 ATATGTGTTA
69100728 TCGTGTAAGACCATGTCTAGGATATTGGCATTGTATTTGATT
1 TCGTGTAAGACCATGTCTAGGATATTGGCATTGTATTTGATT
* * * * *
69100770 TCGTGTAAGACCCTGTCTAAGATAGTGGTATCGGTATTTGATT
1 TCGTGTAAGACCATGTCTAGGATATTGGCAT-TGTATTTGATT
* * * * *
69100813 ACATGTAAGACCACGTCTGGGATGTTGGCATTGTA
1 TCGTGTAAGACCATGTCTAGGATATTGGCATTGTA
69100848 CAAGCTTTTT
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 30 0.48
43 32 0.52
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTAGGATATTGGCATTGTATTTGATT
Found at i:69100821 original size:43 final size:42
Alignment explanation
Indices: 69100731--69100830 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 42
69100721 TGTGTTATCG
* * * * *
69100731 TGTAAGACCATGTCTAGGATATTGGCATTGTATTTGATTTCG
1 TGTAAGACCATGTCTAAGATAGTGGCATGGTATTTGATTACA
* *
69100773 TGTAAGACCCTGTCTAAGATAGTGGTATCGGTATTTGATTACA
1 TGTAAGACCATGTCTAAGATAGTGGCAT-GGTATTTGATTACA
*
69100816 TGTAAGACCACGTCT
1 TGTAAGACCATGTCT
69100831 GGGATGTTGG
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
42 24 0.50
43 24 0.50
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (42 bp):
TGTAAGACCATGTCTAAGATAGTGGCATGGTATTTGATTACA
Found at i:69114060 original size:68 final size:67
Alignment explanation
Indices: 69113988--69114137 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
69113978 CATCATGTGT
* * * *
69113988 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
69114050 ATGTAG
62 ATGTAG
** * *
69114056 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
69114121 AG
66 AG
69114123 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
69114138 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:69114093 original size:64 final size:64
Alignment explanation
Indices: 69114012--69114195 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
69114002 AGACATTATG
* *
69114012 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
69114076 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
69114141 AA
63 AA
* * * *
69114143 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
69114196 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:69120423 original size:24 final size:24
Alignment explanation
Indices: 69120350--69120424 Score: 105
Period size: 24 Copynumber: 3.1 Consensus size: 24
69120340 AAAGGCTGCA
* * *
69120350 GGAGAAGATTTAGGAGTTGATAAA
1 GGAGAGGATTTAGGAGCTGATAAG
*
69120374 GGAGAGGATTTAAGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
69120398 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
69120422 GGA
1 GGA
69120425 TAACGGTGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.36, C:0.03, G:0.39, T:0.23
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:69121893 original size:27 final size:27
Alignment explanation
Indices: 69121853--69121912 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
69121843 AAGAAGCGTC
69121853 CTGGTGGCTATGCCACAATTATATGAT
1 CTGGTGGCTATGCCACAATTATATGAT
* * * *
69121880 CTGGTGGCTCTGCCAGAATTATCTGTT
1 CTGGTGGCTATGCCACAATTATATGAT
69121907 CTGGTG
1 CTGGTG
69121913 ACACTATCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATATGAT
Found at i:69123197 original size:20 final size:20
Alignment explanation
Indices: 69123169--69123248 Score: 62
Period size: 20 Copynumber: 4.2 Consensus size: 20
69123159 GAGAAAAAGA
*
69123169 AGAAGAGAAAGTAGATGAAG
1 AGAAAAGAAAGTAGATGAAG
69123189 AGAAAAGAAA--AGA--AA-
1 AGAAAAGAAAGTAGATGAAG
* *
69123204 AGAAAAGAAAGAAAAGAAGAAG
1 AGAAAAGAAAG--TAGATGAAG
* *
69123226 AAAAAAGGAAGTAGATGAAG
1 AGAAAAGAAAGTAGATGAAG
69123246 AGA
1 AGA
69123249 GGAGAAAAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
15 10 0.21
16 2 0.04
18 3 0.06
19 3 0.06
20 18 0.38
21 2 0.04
22 9 0.19
ACGTcount: A:0.66, C:0.00, G:0.29, T:0.05
Consensus pattern (20 bp):
AGAAAAGAAAGTAGATGAAG
Found at i:69123207 original size:15 final size:15
Alignment explanation
Indices: 69123189--69123229 Score: 66
Period size: 14 Copynumber: 2.7 Consensus size: 15
69123179 GTAGATGAAG
69123189 AGAAAAGAAAAGAAA
1 AGAAAAGAAAAGAAA
69123204 AGAAAAG-AAAGAAA
1 AGAAAAGAAAAGAAA
69123218 AGAAGAAGAAAA
1 AGAA-AAGAAAA
69123230 AAGGAAGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 11 0.46
15 10 0.42
16 3 0.12
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AGAAAAGAAAAGAAA
Found at i:69123216 original size:4 final size:5
Alignment explanation
Indices: 69123189--69123229 Score: 66
Period size: 5 Copynumber: 8.2 Consensus size: 5
69123179 GTAGATGAAG
69123189 AGAAA AGAAA AGAAA AGAAA AG-AA AGAAA AGAAGA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAA-A AGAAA A
69123230 AAGGAAGTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.12
5 25 0.74
6 5 0.15
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:69123216 original size:9 final size:9
Alignment explanation
Indices: 69123192--69123221 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
69123182 GATGAAGAGA
69123192 AAAGAAAAG
1 AAAGAAAAG
69123201 AAAAGAAAAG
1 -AAAGAAAAG
69123211 AAAGAAAAG
1 AAAGAAAAG
69123220 AA
1 AA
69123222 GAAGAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAGAAAAG
Found at i:69123216 original size:19 final size:20
Alignment explanation
Indices: 69123192--69123229 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
69123182 GATGAAGAGA
69123192 AAAGAAAAGAA-AAGAAAAG
1 AAAGAAAAGAAGAAGAAAAG
69123211 AAAGAAAAGAAGAAGAAAA
1 AAAGAAAAGAAGAAGAAAA
69123230 AAGGAAGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAGAAAAGAAGAAGAAAAG
Found at i:69123226 original size:52 final size:53
Alignment explanation
Indices: 69123163--69123266 Score: 138
Period size: 57 Copynumber: 1.9 Consensus size: 53
69123153 ACTATGGAGA
69123163 AAAAGAAGAAG-AGAAAGTAGATGAAGAGAAAAGAAAAGAAAAGAAAAGAAAG
1 AAAAGAAGAAGAAGAAAGTAGATGAAGAGAAAAGAAAAGAAAAGAAAAGAAAG
* **
69123215 AAAAGAAGAAGAAAAAAGGAAGTAGATGAAGAGAGGAGAAAAGAAAAGAAAA
1 AAAAGAAGAAG----AAGAAAGTAGATGAAGAGAAAAGAAAAGAAAAGAAAA
69123267 TAGAAGAAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
52 11 0.25
57 33 0.75
ACGTcount: A:0.68, C:0.00, G:0.28, T:0.04
Consensus pattern (53 bp):
AAAAGAAGAAGAAGAAAGTAGATGAAGAGAAAAGAAAAGAAAAGAAAAGAAAG
Found at i:69124210 original size:17 final size:19
Alignment explanation
Indices: 69124188--69124233 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
69124178 ACATACATAC
69124188 AATAAT-ATTTT-TCTAAT
1 AATAATAATTTTATCTAAT
*
69124205 AATAATAATTTTATCTCAT
1 AATAATAATTTTATCTAAT
*
69124224 AATACTAATT
1 AATAATAATT
69124234 AAAATTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.24
18 5 0.20
19 14 0.56
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (19 bp):
AATAATAATTTTATCTAAT
Found at i:69127852 original size:13 final size:13
Alignment explanation
Indices: 69127830--69127882 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
69127820 GGCTATGGAG
* *
69127830 GAAAAGAAGAAGA
1 GAAAAAAAGAAAA
69127843 GAAAAAAAGAAAA
1 GAAAAAAAGAAAA
*
69127856 GAAAAGAAGGAAAA
1 GAAAA-AAAGAAAA
*
69127870 GAAGAAGAAGAAA
1 GAA-AAAAAGAAA
69127883 GGAAGTAGAC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
13 16 0.48
14 15 0.45
15 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
GAAAAAAAGAAAA
Found at i:69127880 original size:23 final size:23
Alignment explanation
Indices: 69127836--69127910 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
69127826 GGAGGAAAAG
*
69127836 AAGAAGAGAAAAAAAGAA-AAGAA
1 AAGAAG-GAAAAGAAGAAGAAGAA
69127859 AAGAAGGAAAAGAAGAAGAAGAA
1 AAGAAGGAAAAGAAGAAGAAGAA
* * * * *
69127882 AGGAAGTAGACGAAGAGAGGAGAA
1 AAGAAGGAAAAGAAGA-AGAAGAA
69127906 AAGAA
1 AAGAA
69127911 AAGAAAAAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
22 10 0.23
23 23 0.53
24 10 0.23
ACGTcount: A:0.67, C:0.01, G:0.31, T:0.01
Consensus pattern (23 bp):
AAGAAGGAAAAGAAGAAGAAGAA
Found at i:69129772 original size:27 final size:26
Alignment explanation
Indices: 69129741--69129918 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
69129731 ATATTGAGTC
* *
69129741 CGCACACTCAGTGCTATATCATCAACT
1 CGCACACTTAGTGCTACAT-ATCAACT
* *
69129768 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACAT-ATCAACT
69129795 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATA-TC-AACT
** * *
69129823 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACAT-ATCAACT
**
69129850 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATA-TCAACT
* *
69129877 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATA-TCAACT
69129904 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69129919 GTACAATTTA
Statistics
Matches: 127, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.01
27 103 0.81
28 23 0.18
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (26 bp):
CGCACACTTAGTGCTACATATCAACT
Found at i:69129880 original size:82 final size:81
Alignment explanation
Indices: 69129762--69129917 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
69129752 TGCTATATCA
* *
69129762 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
69129827 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
69129844 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
69129908 CACTTAGTGC
65 CACTTAGTGC
69129918 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:69137543 original size:27 final size:27
Alignment explanation
Indices: 69137488--69137662 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
69137478 ATATTGAGTC
* *
69137488 CGCACACTCAGTGCT--ATA-TCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
69137512 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
69137539 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
69137567 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
69137594 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
69137621 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
69137648 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69137663 GTACAATTTA
Statistics
Matches: 128, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
24 14 0.11
26 2 0.02
27 88 0.69
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:69137577 original size:55 final size:53
Alignment explanation
Indices: 69137488--69137662 Score: 203
Period size: 55 Copynumber: 3.3 Consensus size: 53
69137478 ATATTGAGTC
* * * *
69137488 CGCACACTCAGTGCT--ATATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATATCAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
69137539 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATA-TC-AACTCGCACACTTAGTGCAACATAGTCAAAT
**
69137594 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATA-TCAACTCGCACACTTAGTGCAACATAGTCAAAT
69137648 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69137663 GTACAATTTA
Statistics
Matches: 104, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
51 14 0.13
53 3 0.03
54 42 0.40
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (53 bp):
CGCACACTTAGTGCTACATATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:69137604 original size:82 final size:81
Alignment explanation
Indices: 69137506--69137661 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
69137496 CAGTGCTATA
* *
69137506 TCAACTCGCACACTTAGTGC-TACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTGCAT-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
69137570 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
69137588 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
69137653 ACTTAGTGC
66 ACTTAGTGC
69137662 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:69139920 original size:19 final size:18
Alignment explanation
Indices: 69139883--69139926 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
69139873 ATACATACAG
69139883 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
69139900 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
69139919 TACTAATT
1 TAATAATT
69139927 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:69149242 original size:79 final size:80
Alignment explanation
Indices: 69149074--69149258 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
69149064 GCTACTCGTT
* * * *
69149074 CAAATGCCTTCGGGTCATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACATAACCCG
1 CAAATGCCTTCAGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACATAACCCG
* *
69149138 GATTTAGTAACTCGCA
65 GATATAGTAACTAGCA
* * *
69149154 CAAATGCCTTCAGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGCCCG
1 CAAATGCCTTCAGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CATAACCCG
* *
69149217 GATATGGTCACTTAGCA
65 GATATAGTAAC-TAGCA
* *
69149234 CAAA-GCCTTCGGGACTTAGCTCGGA
1 CAAATGCCTTCAGGACTTAGCCCGGA
69149259 CATCATTCGA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.61
80 32 0.36
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCAGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGG
ATATAGTAACTAGCA
Found at i:69149252 original size:40 final size:40
Alignment explanation
Indices: 69149055--69149258 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
69149045 CGGAATTTAA
** * *
69149055 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGTCATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
69149095 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACATAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
69149135 CCGGATTTAGTAACTCGCACAAATGCCTTCAGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
69149174 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
69149214 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
*
69149254 TCGGA
1 CCGGA
69149259 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:69150453 original size:56 final size:56
Alignment explanation
Indices: 69150386--69150561 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
69150376 TATTAGTTTA
*
69150386 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
69150442 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
69150498 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
69150554 TTGCCCAT
1 TTGCCCAT
69150562 CATCCCTTGT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:69155366 original size:30 final size:30
Alignment explanation
Indices: 69155332--69155393 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
69155322 AAAGATTATT
69155332 AAATAAGCTAAATTTGATATTATATAGATC
1 AAATAAGCTAAATTTGATATTATATAGATC
69155362 AAATAAGCTAAATTTGATATTATATAGATC
1 AAATAAGCTAAATTTGATATTATATAGATC
69155392 AA
1 AA
69155394 GAAAAATGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (30 bp):
AAATAAGCTAAATTTGATATTATATAGATC
Found at i:69170449 original size:13 final size:13
Alignment explanation
Indices: 69170431--69170455 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69170421 GAATTAATAT
69170431 GTATGAAAATTTC
1 GTATGAAAATTTC
69170444 GTATGAAAATTT
1 GTATGAAAATTT
69170456 AATCGTTTGT
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:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (13 bp):
GTATGAAAATTTC
Found at i:69177792 original size:24 final size:25
Alignment explanation
Indices: 69177735--69177792 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
69177725 AGGAAGTGCG
69177735 AAAAG-GGCTTTGCCCTAGTTTACC
1 AAAAGAGGCTTTGCCCTAGTTTACC
**
69177759 AAAA-AGGGCTTTGCCCTAG-TTATT
1 AAAAGA-GGCTTTGCCCTAGTTTACC
69177783 AAAAGAGGCT
1 AAAAGAGGCT
69177793 AGGCCTCCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCTAGTTTACC
Found at i:69179469 original size:43 final size:42
Alignment explanation
Indices: 69179321--69179475 Score: 113
Period size: 43 Copynumber: 3.6 Consensus size: 42
69179311 ATCCGAGAAT
** * *
69179321 GTGTAAGACCATATCTGGGACGTTGGCAT--TGACTTATGGTTTA
1 GTGTAAGACCACGTCTGGGACGTTGGAATCAT-A-TT-TGATTTA
* * *
69179364 CGTGTAAGACCACGTCTTGGACGTTGGCATCATATTTGATTTT
1 -GTGTAAGACCACGTCTGGGACGTTGGAATCATATTTGATTTA
* *
69179407 GTGTAAAACC-CTGTTTGGGACAG-TGGAATCGATATTTGA-TTA
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGAATC-ATATTTGATTTA
*
69179449 GATGTAAGACCACGTCTGGGATGTTGG
1 G-TGTAAGACCACGTCTGGGACGTTGG
69179476 CATTGTACGA
Statistics
Matches: 90, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 32 0.36
44 29 0.32
45 1 0.01
46 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.34
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACGTTGGAATCATATTTGATTTA
Found at i:69182680 original size:34 final size:33
Alignment explanation
Indices: 69182592--69182689 Score: 110
Period size: 34 Copynumber: 2.9 Consensus size: 33
69182582 GCCTATGGGC
*
69182592 CATACTGTTATCTGAAAAGGGGCTAAGGCCCAGT
1 CATACTGTTATCTGAAAA-GGGCTTAGGCCCAGT
* * *
69182626 -TTACTG-TATTCTAAAAAGGGCTTCGGCCCAGT
1 CATACTGTTA-TCTGAAAAGGGCTTAGGCCCAGT
*
69182658 ACATACTGTTATCTGAATAGGGCTTAGGCCCA
1 -CATACTGTTATCTGAAAAGGGCTTAGGCCCA
69182690 ATGGGCTTGA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
32 15 0.29
33 12 0.23
34 23 0.44
35 2 0.04
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (33 bp):
CATACTGTTATCTGAAAAGGGCTTAGGCCCAGT
Found at i:69183065 original size:15 final size:15
Alignment explanation
Indices: 69183045--69183074 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
69183035 ATTTTATTTT
*
69183045 ATATTAGGATAATTA
1 ATATTAAGATAATTA
69183060 ATATTAAGATAATTA
1 ATATTAAGATAATTA
69183075 TTATGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:69186869 original size:5 final size:5
Alignment explanation
Indices: 69186856--69186921 Score: 55
Period size: 5 Copynumber: 13.0 Consensus size: 5
69186846 AACCCAATCT
* * *
69186856 TTTTT TTTTA TTTTCC TTTT- TTTTC TTTTA TTTT- TTATTA TTTTA TTTTA
1 TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA
*
69186906 TTTTTA TGTTA TTTTA
1 -TTTTA TTTTA TTTTA
69186922 GTTAAATATT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
4 6 0.12
5 34 0.67
6 11 0.22
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:69186877 original size:15 final size:14
Alignment explanation
Indices: 69186857--69186920 Score: 65
Period size: 15 Copynumber: 4.3 Consensus size: 14
69186847 ACCCAATCTT
*
69186857 TTTTTTTTATTTTCC
1 TTTTTTTTATTTT-A
*
69186872 TTTTTTTTCTTTTA
1 TTTTTTTTATTTTA
69186886 TTTTTTATTATTTTA
1 TTTTTT-TTATTTTA
*
69186901 TTTTATTTTTATGTTA
1 -TTT-TTTTTATTTTA
69186917 TTTT
1 TTTT
69186921 AGTTAAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
14 7 0.17
15 22 0.52
16 10 0.24
17 3 0.07
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (14 bp):
TTTTTTTTATTTTA
Found at i:69186904 original size:26 final size:27
Alignment explanation
Indices: 69186852--69186912 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 27
69186842 AGGCAACCCA
69186852 ATCTTTT-TTTTTTATTTTCCTT-TTTT
1 ATCTTTTATTTTTTATTTT-CTTATTTT
*
69186878 TTCTTTTATTTTTTATTATT-TTATTTT
1 ATCTTTTATTTTTTATT-TTCTTATTTT
69186905 AT-TTTTAT
1 ATCTTTTAT
69186913 GTTATTTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 14 0.47
27 14 0.47
28 2 0.07
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (27 bp):
ATCTTTTATTTTTTATTTTCTTATTTT
Found at i:69186912 original size:11 final size:11
Alignment explanation
Indices: 69186875--69186920 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
69186865 ATTTTCCTTT
*
69186875 TTTTTCTTTTA
1 TTTTTATTTTA
*
69186886 TTTTT-TATTA
1 TTTTTATTTTA
69186896 -TTTTATTTTA
1 TTTTTATTTTA
*
69186906 TTTTTATGTTA
1 TTTTTATTTTA
69186917 TTTT
1 TTTT
69186921 AGTTAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 4 0.13
10 8 0.27
11 18 0.60
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:69186921 original size:16 final size:16
Alignment explanation
Indices: 69186883--69186921 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
69186873 TTTTTTTCTT
*
69186883 TTATTTT-TTATTATT
1 TTATTTTATTATTATG
*
69186898 TTATTTTATTTTTATG
1 TTATTTTATTATTATG
69186914 TTATTTTA
1 TTATTTTA
69186922 GTTAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (16 bp):
TTATTTTATTATTATG
Found at i:69188081 original size:118 final size:118
Alignment explanation
Indices: 69187873--69188103 Score: 381
Period size: 118 Copynumber: 2.0 Consensus size: 118
69187863 TGTTTTCCAT
* *
69187873 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
*
69187938 CTACTTCGCGTCAAACGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGTCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGTCGA
**
69187991 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
****
69188056 CTACTTCGCGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTA
69188104 ACCGAAAATA
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 104 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGTCGA
Found at i:69188243 original size:9 final size:9
Alignment explanation
Indices: 69188229--69188282 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
69188219 AATAAATTTT
*
69188229 AAAAAAAGAA
1 AAAAAAA-AG
69188239 AAAAAAGAGAG
1 AAAAAA-A-AG
69188250 AAAAAAAAG
1 AAAAAAAAG
69188259 AAAAAAAAG
1 AAAAAAAAG
*
69188268 -GAAAAAAG
1 AAAAAAAAG
69188276 AAAAAAA
1 AAAAAAA
69188283 TAAGTACTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
8 7 0.18
9 16 0.41
10 7 0.18
11 9 0.23
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:69188253 original size:13 final size:13
Alignment explanation
Indices: 69188235--69188259 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69188225 TTTTAAAAAA
69188235 AGAAAAAAAAGAG
1 AGAAAAAAAAGAG
69188248 AGAAAAAAAAGA
1 AGAAAAAAAAGA
69188260 AAAAAAAGGA
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:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAGAG
Found at i:69188279 original size:22 final size:22
Alignment explanation
Indices: 69188229--69188279 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
69188219 AATAAATTTT
*
69188229 AAAAAAAGAAAAAAAAGAGAGA
1 AAAAAAAGAAAAAAAAGAGAAA
69188251 AAAAAAAGAAAAAAAAG-GAAA
1 AAAAAAAGAAAAAAAAGAGAAA
69188272 AAAGAAAA
1 AAA-AAAA
69188280 AAATAAGTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (22 bp):
AAAAAAAGAAAAAAAAGAGAAA
Found at i:69198021 original size:29 final size:29
Alignment explanation
Indices: 69197986--69198130 Score: 130
Period size: 29 Copynumber: 5.0 Consensus size: 29
69197976 GATGGTCGAA
*
69197986 ACCATCCCTTTTCATATTTGATGGTCATC
1 ACCATCCCTTTTCATATTCGATGGTCATC
* * * * **
69198015 ACTATCCCTTTTCGTATTCGACGATTGTC
1 ACCATCCCTTTTCATATTCGATGGTCATC
* * *
69198044 ACCATTCCTTTTCATATTCAATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCATC
** * * *
69198073 ACTGTCCCTTTTTATATTCAATGGTCGA-A
1 ACCATCCCTTTTCATATTCGATGGTC-ATC
*
69198102 ACCATCCCTTTTCATATTCGATGGGCATC
1 ACCATCCCTTTTCATATTCGATGGTCATC
69198131 GATATGTTGT
Statistics
Matches: 88, Mismatches: 26, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
28 1 0.01
29 87 0.99
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.40
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGTCATC
Done.