Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 138 of 349
Found at i:44497061 original size:26 final size:26
Alignment explanation
Indices: 44497025--44497076 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
44497015 ATGGCATTCG
44497025 TGTTGGTGTTATATCCGGGCTAAGTC
1 TGTTGGTGTTATATCCGGGCTAAGTC
44497051 TGTTGGTGTTATATCCGGGCTAAGTC
1 TGTTGGTGTTATATCCGGGCTAAGTC
44497077 CTGAAGGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.15, G:0.31, T:0.38
Consensus pattern (26 bp):
TGTTGGTGTTATATCCGGGCTAAGTC
Found at i:44497097 original size:65 final size:65
Alignment explanation
Indices: 44496989--44497115 Score: 218
Period size: 65 Copynumber: 2.0 Consensus size: 65
44496979 GACTTTATAA
* * *
44496989 TGGTGTTATATCCGGGCTAAGTCCCGATGGCATTCGTGTTGGTGTTATATCCGGGCTAAGTCTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGGTGTTATATCCGGGCTAAGTCTGT
*
44497054 TGGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCATGCTGGTGTTATATCCGGGCTAAGTC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGGTGTTATATCCGGGCTAAGTC
44497116 CCGAAGGCAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.17, C:0.19, G:0.30, T:0.34
Consensus pattern (65 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGGTGTTATATCCGGGCTAAGTCTGT
Found at i:44497108 original size:39 final size:39
Alignment explanation
Indices: 44497054--44497314 Score: 400
Period size: 39 Copynumber: 6.7 Consensus size: 39
44497044 CTAAGTCTGT
* *
44497054 TGGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
44497093 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
44497132 TGGTGTTATATCTGGGCTAAGTCCTGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
44497171 TGGTGTTATATCCGGGCTAAGTCCCAAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
44497210 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
44497249 TGGTGTTA-ATCCGGGCTAAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
44497287 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
44497315 CATGCTTTGT
Statistics
Matches: 206, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
38 22 0.11
39 174 0.84
40 10 0.05
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.30
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:44499946 original size:79 final size:80
Alignment explanation
Indices: 44499802--44500019 Score: 230
Period size: 79 Copynumber: 2.7 Consensus size: 80
44499792 AAATCACGTA
* * * ** * * *
44499802 CCTTCGGAATTTAACCGGATATAGTTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAG
1 CCTTCGGGACTTAACCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATAG
44499866 TAACTAGCACAAATG
66 TAACTAGCACAAATG
*
44499881 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT-TA
1 CCTTCGGGACTTAA-CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATA
*
44499944 GTAACTCGCACAAATG
65 GTAACTAGCACAAATG
* * * * *
44499960 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTA-ACCGGATATAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCCGGA
44500020 CATCATTCGA
Statistics
Matches: 117, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 70 0.60
80 44 0.38
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATAG
TAACTAGCACAAATG
Found at i:44500019 original size:40 final size:40
Alignment explanation
Indices: 44499816--44500019 Score: 227
Period size: 40 Copynumber: 5.1 Consensus size: 40
44499806 CGGAATTTAA
* * ** *
44499816 CCGGATATAGTTACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGC
* *
44499856 CCGGTTATAGTAACTAGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGC
* * *
44499896 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGC
* *
44499935 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTAGCACAAATGCCTTCGGGA-CTTAGC
* *
44499975 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGC
44500015 CCGGA
1 CCGGA
44500020 CATCATTCGA
Statistics
Matches: 139, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGC
Found at i:44501215 original size:56 final size:56
Alignment explanation
Indices: 44501148--44501323 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
44501138 TATTAGTTTA
44501148 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
44501204 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
44501260 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
44501316 TTGCCCAT
1 TTGCCCAT
44501324 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):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:44506583 original size:28 final size:28
Alignment explanation
Indices: 44506549--44506613 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
44506539 TCAGTGTACG
* *
44506549 AAATATTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
44506577 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
44506605 AAATATTGA
1 AAATATTGA
44506614 ATGATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:44506730 original size:39 final size:39
Alignment explanation
Indices: 44506686--44506868 Score: 197
Period size: 39 Copynumber: 4.6 Consensus size: 39
44506676 GACTTTATAA
* * * * *
44506686 TGGTGTTATATCCGGGCTAGGTCCCGATGGCATTTGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCAAAGGCATTCGTGC
* *
44506725 TGGTGTTATATCCGGGCTAAGTCCTAAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCAAAGGCATTCGTGC
* *
44506764 TGGTGTTATATCCGAGCTAAGCCCCAAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCAAAGGCATTCGTGC
** * *
44506803 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGA
1 TGGTGTTATATCCGGGCT-AAGTCCCAAAGGCATTCGTGC
* *
44506842 TGGTATTATATCTGGGCTTAAAGTCCC
1 TGGTGTTATATCCGGGC-T-AAGTCCC
44506869 GCATGCTTTG
Statistics
Matches: 123, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 104 0.85
40 19 0.15
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.32
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCAAAGGCATTCGTGC
Found at i:44512226 original size:69 final size:70
Alignment explanation
Indices: 44512094--44512226 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 70
44512084 TAGTTTATTA
* * * * *
44512094 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
44512159 CTTAG
66 CTTAG
*
44512164 CTAATTAATATGCTGCTGTAATACT-TAGATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
44512227 GTTATGTGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
69 34 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:44514076 original size:48 final size:48
Alignment explanation
Indices: 44514005--44514244 Score: 390
Period size: 48 Copynumber: 5.0 Consensus size: 48
44513995 CACAAGATAA
44514005 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
44514053 AGATATGTATACGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
44514101 GGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
*
44514151 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * * *
44514199 AGATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAGTATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
44514245 GGAGGTGTGG
Statistics
Matches: 180, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
48 133 0.74
49 4 0.02
50 43 0.24
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:44514260 original size:98 final size:96
Alignment explanation
Indices: 44514005--44514244 Score: 390
Period size: 98 Copynumber: 2.5 Consensus size: 96
44513995 CACAAGATAA
*
44514005 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATACGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
44514070 AAAGCCGAATGGCTAATGTGAAATATGTATG
66 AAAGCCGAATGGCTAATGTGAAATATGTATG
* *
44514101 GGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGTATATGTG
*
44514166 GTAAAGCCGAATGGCTAGTGTGAAATATGTATG
64 GTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * * *
44514199 AGATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAGTATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
44514245 GGAGGTGTGG
Statistics
Matches: 132, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
96 41 0.31
97 4 0.03
98 87 0.66
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (96 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:44514436 original size:37 final size:37
Alignment explanation
Indices: 44514384--44514494 Score: 152
Period size: 37 Copynumber: 3.0 Consensus size: 37
44514374 GAAACTTGGG
*
44514384 AATATATTCCAGGTAAGACCCAATGACTACGTGTGGA
1 AATATATTCCGGGTAAGACCCAATGACTACGTGTGGA
*
44514421 AATATATTCCGGGTAAGACCCGATGACTACGTGTGGA
1 AATATATTCCGGGTAAGACCCAATGACTACGTGTGGA
* * * *
44514458 GAT-TTTGTCCGGGTAAGACCCAATAACTTCGTGTGGA
1 AATATAT-TCCGGGTAAGACCCAATGACTACGTGTGGA
44514495 GATTTCATCT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 2 0.03
37 64 0.97
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (37 bp):
AATATATTCCGGGTAAGACCCAATGACTACGTGTGGA
Found at i:44523368 original size:23 final size:23
Alignment explanation
Indices: 44523337--44523392 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
44523327 TCCTAAAAAT
* *
44523337 AGTCTAAGA-ACAGAAATAAAGTGA
1 AGTC-AAGATACA-AAAAAAAGTAA
44523361 AGTCAAGATACAAAAAAAAGTAA
1 AGTCAAGATACAAAAAAAAGTAA
44523384 AGTCAAGAT
1 AGTCAAGAT
44523393 CCCCCTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 22 0.76
24 7 0.24
ACGTcount: A:0.57, C:0.09, G:0.18, T:0.16
Consensus pattern (23 bp):
AGTCAAGATACAAAAAAAAGTAA
Found at i:44536016 original size:40 final size:40
Alignment explanation
Indices: 44535953--44536170 Score: 341
Period size: 40 Copynumber: 5.5 Consensus size: 40
44535943 CGGATGATAA
* *
44535953 CCGGGCTAAGTCCCGAAGACATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44535993 CCGGGCTAAGTCCCGGAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44536033 CCGGGCTACGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
44536073 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* **
44536113 CCGGGCTAAGTCCCGAAGGCAGTTAAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
44536153 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
44536171 TACTTGGTTT
Statistics
Matches: 167, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
39 17 0.10
40 150 0.90
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:44538901 original size:22 final size:23
Alignment explanation
Indices: 44538858--44538901 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
44538848 TACCAATCAA
* *
44538858 ATCACAACATATAGCATACATTT
1 ATCACAACATAAAACATACATTT
*
44538881 ATCA-AACATAAAACATTCATT
1 ATCACAACATAAAACATACATT
44538902 CTCATAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.30
Consensus pattern (23 bp):
ATCACAACATAAAACATACATTT
Found at i:44542859 original size:28 final size:28
Alignment explanation
Indices: 44542819--44542939 Score: 145
Period size: 28 Copynumber: 4.3 Consensus size: 28
44542809 TTACATGACC
*
44542819 ATGAATGTGATTGGGGCTGATGGGTCAT
1 ATGAATGTGATTGGGGCTGATGGGCCAT
* *
44542847 ATGAATGTGATTGGGGCCGAAGGGCCAT
1 ATGAATGTGATTGGGGCTGATGGGCCAT
* *
44542875 ATGAATGTGATTTGGGCCTAATGGGCCAT
1 ATGAATGTGA-TTGGGGCTGATGGGCCAT
* *
44542904 ATGAATGAGATTGGGTCT-AGTGGGCCAT
1 ATGAATGTGATTGGGGCTGA-TGGGCCAT
*
44542932 ATGCATGT
1 ATGAATGT
44542940 ATGTAGACTT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
27 1 0.01
28 56 0.70
29 23 0.29
ACGTcount: A:0.24, C:0.12, G:0.36, T:0.29
Consensus pattern (28 bp):
ATGAATGTGATTGGGGCTGATGGGCCAT
Found at i:44545339 original size:40 final size:40
Alignment explanation
Indices: 44545295--44545414 Score: 170
Period size: 40 Copynumber: 3.0 Consensus size: 40
44545285 CCCAGATTTT
*
44545295 ATTCCAGCACGAAGCCTGTAGGTCTTTAAACCCGGATACA
1 ATTCCAGCACGAAGCCTGTGGGTCTTTAAACCCGGATACA
* * * *
44545335 ATTCCAGCA-TATAGCTTGCGGGTCTTTAAACCCGGATACC
1 ATTCCAGCACGA-AGCCTGTGGGTCTTTAAACCCGGATACA
*
44545375 ATTCCAGCACGAAGCCTGTGGGTCTTTAAGCCCGGATACA
1 ATTCCAGCACGAAGCCTGTGGGTCTTTAAACCCGGATACA
44545415 CACATCAAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 66 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ATTCCAGCACGAAGCCTGTGGGTCTTTAAACCCGGATACA
Found at i:44552910 original size:40 final size:40
Alignment explanation
Indices: 44552817--44552973 Score: 185
Period size: 40 Copynumber: 4.0 Consensus size: 40
44552807 CGAAACACAT
* * * * *
44552817 TTCTAACACG-AGCCTACAGGTCTTT-AACCCAGATTCTA
1 TTCTAGCACGAAGCCTGCGGGTCTTTAAACCCAGATACAA
*
44552855 TTCCAGCACGAAGCCTGCGGGTCTTTAAACCCAGATACAA
1 TTCTAGCACGAAGCCTGCGGGTCTTTAAACCCAGATACAA
* * *
44552895 TTCTAGCA-TATAGCCTGCGGGTCTTTAAACCCGGATACCA
1 TTCTAGCACGA-AGCCTGCGGGTCTTTAAACCCAGATACAA
* *
44552935 TTCTAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
1 TTCTAGCACGAAGCCTGCGGGTCTTTAAACCCAGATACA
44552974 CACATCAAAT
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
38 8 0.08
39 14 0.14
40 79 0.77
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
TTCTAGCACGAAGCCTGCGGGTCTTTAAACCCAGATACAA
Found at i:44555429 original size:108 final size:108
Alignment explanation
Indices: 44555240--44555439 Score: 330
Period size: 108 Copynumber: 1.9 Consensus size: 108
44555230 AACGGTATGG
* *
44555240 AAAATCGAGGGTCAATTTCGGAGCGGCTTCGATCAAATGAGGTCGATATCTTTATGGGCGTAGCT
1 AAAATCGAGGGTCAATTTCGGAGCGACTTCGATCAAATGAGGCCGATATCTTTATGGGCGTAGCT
44555305 GGTGTGGCTCCTTGTAACAACCCTTACACGTTTTTCTAAGCCA
66 GGTGTGGCTCCTTGTAACAACCCTTACACGTTTTTCTAAGCCA
* *
44555348 AAAATCGAGGGTCAA-TTCTGGAGTGACTTCGATCAAATGGGGCCGATATCTTTATGGGCGTAGC
1 AAAATCGAGGGTCAATTTC-GGAGCGACTTCGATCAAATGAGGCCGATATCTTTATGGGCGTAGC
* *
44555412 TGGTGTGGCTCTTTGTAACACCCCTTAC
65 TGGTGTGGCTCCTTGTAACAACCCTTAC
44555440 CGTCGCTGTT
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
107 3 0.04
108 82 0.96
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (108 bp):
AAAATCGAGGGTCAATTTCGGAGCGACTTCGATCAAATGAGGCCGATATCTTTATGGGCGTAGCT
GGTGTGGCTCCTTGTAACAACCCTTACACGTTTTTCTAAGCCA
Found at i:44557519 original size:54 final size:54
Alignment explanation
Indices: 44557453--44557560 Score: 189
Period size: 54 Copynumber: 2.0 Consensus size: 54
44557443 TAAGCTATGT
* * *
44557453 GAATCTTTGCTTGTATGTGCTAATTAGATATAGATTAAATAAGCATGAAATCGA
1 GAATCTTTGCTTGTATCTACGAATTAGATATAGATTAAATAAGCATGAAATCGA
44557507 GAATCTTTGCTTGTATCTACGAATTAGATATAGATTAAATAAGCATGAAATCGA
1 GAATCTTTGCTTGTATCTACGAATTAGATATAGATTAAATAAGCATGAAATCGA
44557561 ATCATGGCAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (54 bp):
GAATCTTTGCTTGTATCTACGAATTAGATATAGATTAAATAAGCATGAAATCGA
Found at i:44558144 original size:38 final size:38
Alignment explanation
Indices: 44558100--44558260 Score: 166
Period size: 38 Copynumber: 4.2 Consensus size: 38
44558090 GCTTAAAGAT
*
44558100 CCGCAGGCTAT-ATGCTGGAATTACATCCGGGTTAAATC
1 CCGCAGGCT-TCATGCTGGAATTATATCCGGGTTAAATC
*
44558138 CCGCAGGCTTCGTGCT-GATATTATATCCGGGTTAAATC
1 CCGCAGGCTTCATGCTGGA-ATTATATCCGGGTTAAATC
* * * **
44558176 CCGCAGGCTTCGTACTGGTATTATATCCAAGTTAAATC
1 CCGCAGGCTTCATGCTGGAATTATATCCGGGTTAAATC
* * *
44558214 CCGCAGGCTT-AGTGCTGGTATTATATTCGAGCTTAAAGTC
1 CCGCAGGCTTCA-TGCTGGAATTATATCCG-GGTTAAA-TC
44558254 CCGCAGG
1 CCGCAGG
44558261 TTTTGTGCTG
Statistics
Matches: 105, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
37 3 0.03
38 87 0.83
39 6 0.06
40 9 0.09
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (38 bp):
CCGCAGGCTTCATGCTGGAATTATATCCGGGTTAAATC
Found at i:44558282 original size:40 final size:39
Alignment explanation
Indices: 44558131--44558282 Score: 121
Period size: 38 Copynumber: 3.9 Consensus size: 39
44558121 TACATCCGGG
* * * * * *
44558131 TTAAATCCCGCAGGCTTCGTGCTGATATTATATCCG-GG
1 TTAAATCCCGCAGGCTTAGTGCTGGTACTAGATTCGAGC
* * * * * *
44558169 TTAAATCCCGCAGGCTTCGTACTGGTATTATATCCAAG-
1 TTAAATCCCGCAGGCTTAGTGCTGGTACTAGATTCGAGC
* *
44558207 TTAAATCCCGCAGGCTTAGTGCTGGTATTATATTCGAGC
1 TTAAATCCCGCAGGCTTAGTGCTGGTACTAGATTCGAGC
* *
44558246 TTAAAGTCCCGCAGGTTTTGTGCTGGTGACT-GATTCG
1 TTAAA-TCCCGCAGGCTTAGTGCTGGT-ACTAGATTCG
44558283 GGTTTTAAAC
Statistics
Matches: 99, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
38 67 0.68
39 6 0.06
40 24 0.24
41 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (39 bp):
TTAAATCCCGCAGGCTTAGTGCTGGTACTAGATTCGAGC
Found at i:44560380 original size:49 final size:49
Alignment explanation
Indices: 44560327--44560501 Score: 235
Period size: 49 Copynumber: 3.5 Consensus size: 49
44560317 CTGGTACGCA
*
44560327 TAGTAGCCTGCATTTAGTACTACACATGCGACCAATTATTC-GGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTA-TCGGGTACACG
* * * * *
44560376 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCGGGTACACG
* *
44560427 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCGGGTACACG
*
44560476 TAGTAGCCTACACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
44560502 CGTGACCTCA
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
49 63 0.58
50 8 0.07
51 38 0.35
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCGGGTACACG
Found at i:44560454 original size:100 final size:100
Alignment explanation
Indices: 44560308--44560506 Score: 337
Period size: 100 Copynumber: 2.0 Consensus size: 100
44560298 CAATTGTAGC
* * *
44560308 CAAAGCTATCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAATTAT-TCGGTA
1 CAAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCT-GGTA
*
44560372 CACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
65 CACGTAGTAGCCTACACTTAGTACTACACACGTGAT
*
44560408 CAAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTAC
1 CAAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTAC
44560473 ACGTAGTAGCCTACACTTAGTACTACACACGTGA
66 ACGTAGTAGCCTACACTTAGTACTACACACGTGA
44560507 CCTCACAATA
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
100 92 0.99
101 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (100 bp):
CAAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTAC
ACGTAGTAGCCTACACTTAGTACTACACACGTGAT
Found at i:44565745 original size:43 final size:43
Alignment explanation
Indices: 44565667--44565829 Score: 118
Period size: 43 Copynumber: 3.8 Consensus size: 43
44565657 AGCTTATACA
***
44565667 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAATATCG
*
44565710 ATGCC-ACTGTCCCAGACAG-GGTCTTACACAAAATCAAATAT-T
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACAAAATCAAATATCG
** * * * * * ** *
44565752 ATGCTGATGTCCCAAACATAGTCTTACACGTAAATCATAA-GGCA
1 ATGCCAACGTCCCAGACGTGGTCTTACAC-AAAATCA-AATATCG
*
44565796 ATGCCAACGTCCCAGATGTGGTCTTACACTAAAA
1 ATGCCAACGTCCCAGACGTGGTCTTACAC-AAAA
44565830 CACATATTGG
Statistics
Matches: 91, Mismatches: 22, Indels: 13
0.72 0.17 0.10
Matches are distributed among these distances:
42 23 0.25
43 40 0.44
44 28 0.31
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAATATCG
Found at i:44580251 original size:46 final size:46
Alignment explanation
Indices: 44580201--44580376 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
44580191 TGGTTGAGCA
44580201 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44580247 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44580292 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44580340 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44580377 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44580357 original size:93 final size:93
Alignment explanation
Indices: 44580198--44580369 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44580188 GGATGGTTGA
* *
44580198 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44580263 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
44580291 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44580356 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
44580370 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44582738 original size:42 final size:42
Alignment explanation
Indices: 44582630--44582774 Score: 152
Period size: 43 Copynumber: 3.4 Consensus size: 42
44582620 AGCTCGTACA
* *
44582630 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAATCAAATA-CG
* * * *
44582673 ATGCC-ACTGTCCTA-AGCAGGGTCTTATACGAAATCAAATACG
1 ATGCCAAC-GTCCCAGA-CATGGTCTTACATGAAATCAAATACG
*
44582715 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCATAAGTA-G
1 ATGCCAACGTCCCAGACATGGTCTTACATG-AAATCA-AA-TACG
44582759 ATGCCAACGTCCCAGA
1 ATGCCAACGTCCCAGA
44582775 TGTGATCTTA
Statistics
Matches: 83, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
42 26 0.31
43 37 0.45
44 18 0.22
45 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAAATCAAATACG
Found at i:44584560 original size:40 final size:41
Alignment explanation
Indices: 44584516--44584601 Score: 95
Period size: 40 Copynumber: 2.1 Consensus size: 41
44584506 TAAGTTCTAT
* * * * *
44584516 ATATAGCC-GAAGCTATGTTGAATTGCACGCTAAGTGCCAC
1 ATATAGCCTAAAGCTAAGTCGAATCGCACGCTAAATGCCAC
*
44584556 ATATA-CCTAAAGTTAAGTCGAATCGCACGCTAAATGCCAC
1 ATATAGCCTAAAGCTAAGTCGAATCGCACGCTAAATGCCAC
*
44584596 AAATAG
1 ATATAG
44584602 TGAATTTGTC
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (41 bp):
ATATAGCCTAAAGCTAAGTCGAATCGCACGCTAAATGCCAC
Found at i:44587730 original size:43 final size:42
Alignment explanation
Indices: 44587575--44587731 Score: 113
Period size: 43 Copynumber: 3.7 Consensus size: 42
44587565 TGTGTTATCG
* * *
44587575 TGTAAGACCACATCTGGGACGTTTGCATCGACT-TATGATTTACG
1 TGTAAGACCACATCTGGGACGTTGGCATC-AATAT-TGA-TTACA
* * * * *
44587619 TGTAAGACCACGTTTGGGACATTGGCATC-GTATTTGATTTCA
1 TGTAAGACCACATCTGGGACGTTGGCATCAATA-TTGATTACA
** *** *
44587661 TCCAAGACCTTTTCTGGGATAG-TGGCATCAATATTGGATTACA
1 TGTAAGACCACATCTGGGA-CGTTGGCATCAATATT-GATTACA
44587704 TGTAAGACCACATCTGGGACGTTGGCAT
1 TGTAAGACCACATCTGGGACGTTGGCAT
44587732 TGTACGAGCT
Statistics
Matches: 84, Mismatches: 23, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
42 27 0.32
43 31 0.37
44 26 0.31
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACGTTGGCATCAATATTGATTACA
Found at i:44593073 original size:27 final size:27
Alignment explanation
Indices: 44593049--44593258 Score: 217
Period size: 27 Copynumber: 7.6 Consensus size: 27
44593039 TTAGTTTACC
** *
44593049 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTATA
*
44593076 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
*
44593103 AAATTACTAAAATA-CCCTGTGTTTATA
1 AAATTACCAAAATACCCCTG-GTTTATA
*
44593130 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
*
44593157 AAATTACCAAAATA-CCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* * * *
44593183 AAATTACCCTCGAAAATACCCTATCGATTGTA
1 AAATTA--C-C-AAAATACCC-CTGGTTTATA
* *
44593215 AAATTACCAAAATACCCCTGATTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
44593242 AAATTATCGAAATACCC
1 AAATTACCAAAATACCC
44593259 TCAATTTAGA
Statistics
Matches: 158, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
26 23 0.15
27 96 0.61
28 15 0.09
29 2 0.01
30 7 0.04
31 2 0.01
32 13 0.08
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTATA
Found at i:44593108 original size:54 final size:53
Alignment explanation
Indices: 44593049--44593258 Score: 249
Period size: 54 Copynumber: 3.8 Consensus size: 53
44593039 TTAGTTTACC
* *
44593049 AAATTACCAAAATACCATTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACC-CTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
*
44593103 AAATTACTAAAATACCCTGTGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTG-GTTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * * *
44593157 AAATTACCAAAATACCCTGGTTTGTAAAATTACCCTCGAAAATACCCTATCGATTGTA
1 AAATTACCAAAATACCCTGGTTTATAAAATTA--C-C-AAAATACCC-CTGGTTTGTA
* * * *
44593215 AAATTACCAAAATACCCCTGATTTGTAAAATTATCGAAATACCC
1 AAATTACCAAAATA-CCCTGGTTTATAAAATTACCAAAATACCC
44593259 TCAATTTAGA
Statistics
Matches: 138, Mismatches: 11, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
53 14 0.10
54 66 0.48
55 9 0.07
56 2 0.01
57 9 0.07
58 21 0.15
59 17 0.12
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (53 bp):
AAATTACCAAAATACCCTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
Found at i:44593265 original size:27 final size:27
Alignment explanation
Indices: 44593075--44593339 Score: 165
Period size: 27 Copynumber: 9.7 Consensus size: 27
44593065 ATTGGTTTAC
* * *
44593075 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTATCGAAATACCCTC-GATTTGT
* * *
44593102 AAAATTA-CTAAAATACCCT-GTGTTTAT
1 AAAATTATC-GAAATACCCTCG-ATTTGT
* * *
44593129 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTATCGAAATACCCTC-GATTTGT
* * *
44593156 AAAATTACCAAAATACCCT-GGTTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
44593182 AAAATTACCCTCGAAAATACCCTATCGA-TTGT
1 AAAATTA---TCG-AAATACCC--TCGATTTGT
* *
44593214 AAAATTACCAAAATACCC-CTGATTTGT
1 AAAATTATCGAAATACCCTC-GATTTGT
*
44593241 AAAATTATCGAAATACCCTCAATTTAG-
1 AAAATTATCGAAATACCCTCGATTT-GT
44593268 AAAATTA-CTGAAATACCCTCGATTTGT
1 AAAATTATC-GAAATACCCTCGATTTGT
* *
44593295 AAAATTA-CAGAAATACCATCGACTTGT
1 AAAATTATC-GAAATACCCTCGATTTGT
44593322 AAAATTATC-AAAGTACCC
1 AAAATTATCGAAA-TACCC
44593340 CTAATTTACA
Statistics
Matches: 201, Mismatches: 15, Indels: 44
0.77 0.06 0.17
Matches are distributed among these distances:
25 1 0.00
26 23 0.11
27 141 0.70
28 13 0.06
29 2 0.01
30 8 0.04
32 12 0.06
33 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCGATTTGT
Found at i:44593322 original size:81 final size:81
Alignment explanation
Indices: 44593075--44593356 Score: 218
Period size: 81 Copynumber: 3.4 Consensus size: 81
44593065 ATTGGTTTAC
* * ** ** * * * *
44593075 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC-TGTGTTTATAAAATTACCA
1 AAAATTATCAAAGTACCCCTAATTTACAAAATTACTGAAATACCCAT-CGATTGTAAAATTACCA
**
44593139 AAATACCCCTGGTTTGT
65 AAATACCCCTGACTTGT
* * ** **
44593156 AAAATTACCAAAATA-CCCTGGTTTGTAAAATTACCCTCGAAAATACCCTATCGATTGTAAAATT
1 AAAATTATCAAAGTACCCCTAATTTACAAAATTA--CT-G-AAATACCC-ATCGATTGTAAAATT
*
44593220 ACCAAAATACCCCTGATTTGT
61 ACCAAAATACCCCTGACTTGT
*
44593241 AAAATTATCGAAA-TA-CCCTCAATTTAGAAAATTACTGAAATACCC-TCGATTTGTAAAATTA-
1 AAAATTATC-AAAGTACCCCT-AATTTACAAAATTACTGAAATACCCATCGA-TTGTAAAATTAC
*
44593302 CAGAAATA-CCATCGACTTGT
63 CA-AAATACCCCT-GACTTGT
*
44593322 AAAATTATCAAAGTACCCCTAATTTACAGAATTAC
1 AAAATTATCAAAGTACCCCTAATTTACAAAATTAC
44593357 CATTTTACCC
Statistics
Matches: 174, Mismatches: 14, Indels: 26
0.81 0.07 0.12
Matches are distributed among these distances:
80 30 0.17
81 61 0.35
82 14 0.08
83 1 0.01
84 10 0.06
85 44 0.25
86 14 0.08
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AAAATTATCAAAGTACCCCTAATTTACAAAATTACTGAAATACCCATCGATTGTAAAATTACCAA
AATACCCCTGACTTGT
Found at i:44593326 original size:54 final size:54
Alignment explanation
Indices: 44593049--44593339 Score: 229
Period size: 54 Copynumber: 5.3 Consensus size: 54
44593039 TTAGTTTACC
* * ** * *
44593049 AAATTACCAAAATACCATTGGTTTACAAAATTACCA-AAATACC-CCTGGTTTGTA
1 AAATTACCAAAATACC-CTGATTTGTAAAATTACCAGAAATACCATC-GATTTGTA
* * * * *
44593103 AAATTACTAAAATACCCTGTGTTTATAAAATTACCA-AAATACC-CCTGGTTTGTA
1 AAATTACCAAAATACCCTG-ATTTGTAAAATTACCAGAAATACCATC-GATTTGTA
* *
44593157 AAATTACCAAAATACCCTGGTTTGTAAAATTACCCTCGAAAATACCCTATCGA-TTGTA
1 AAATTACCAAAATACCCTGATTTGTAAAATTA-CC-AG-AAATA-CC-ATCGATTTGTA
* * *
44593215 AAATTACCAAAATACCCCTGATTTGTAAAATTATC-GAAATACCCTCAATTTAG-A
1 AAATTACCAAAATA-CCCTGATTTGTAAAATTACCAGAAATACCATCGATTT-GTA
** *
44593269 AAATTACTGAAATACCCTCGATTTGTAAAATTA-CAGAAATACCATCGACTTGTA
1 AAATTACCAAAATACCCT-GATTTGTAAAATTACCAGAAATACCATCGATTTGTA
* *
44593323 AAATTATCAAAGTACCC
1 AAATTACCAAAATACCC
44593340 CTAATTTACA
Statistics
Matches: 202, Mismatches: 21, Indels: 28
0.80 0.08 0.11
Matches are distributed among these distances:
53 23 0.11
54 126 0.62
55 6 0.03
56 1 0.00
57 5 0.02
58 22 0.11
59 18 0.09
60 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AAATTACCAAAATACCCTGATTTGTAAAATTACCAGAAATACCATCGATTTGTA
Found at i:44593366 original size:81 final size:81
Alignment explanation
Indices: 44593102--44593396 Score: 212
Period size: 81 Copynumber: 3.6 Consensus size: 81
44593092 CCTGGTTTGT
* * * ** *
44593102 AAAATTACTAAAATACCCT-GTGTTTATAAAATTACCA-AAATACCCCTGGTTTGTAAAATTACC
1 AAAATTACTCAAATACCCTCG-ATTTGTAAAATTA-CAGAAATACCCCTGACTTGTAAAATTATC
* ** **
44593165 AAAATACCCT-GGTTTGT
64 GAAATACCCTCAATTTAC
*
44593182 AAAATTACCCTCGAAAATACCCTATCGA-TTGTAAAATTACCA-AAATACCCCTGATTTGTAAAA
1 AAAATTA--CTC--AAATACCC--TCGATTTGTAAAATTA-CAGAAATACCCCTGACTTGTAAAA
*
44593245 TTATCGAAATACCCTCAATTTAG
59 TTATCGAAATACCCTCAATTTAC
* *
44593268 AAAATTACTGAAATACCCTCGATTTGTAAAATTACAGAAATA-CCATCGACTTGTAAAATTATC-
1 AAAATTACTCAAATACCCTCGATTTGTAAAATTACAGAAATACCCCT-GACTTGTAAAATTATCG
44593331 AAAGTACCC-CTAATTTAC
65 AAA-TACCCTC-AATTTAC
* ** ** **
44593349 AGAATTAC-CATTTTACCCTCGATTTACAAAATTATTGAAATACCCCTG
1 AAAATTACTCA-AATACCCTCGATTTGTAAAATTACAGAAATACCCCTG
44593397 TAAGGTAGAA
Statistics
Matches: 177, Mismatches: 23, Indels: 29
0.77 0.10 0.13
Matches are distributed among these distances:
80 21 0.12
81 75 0.42
82 13 0.07
84 10 0.06
85 46 0.26
86 11 0.06
87 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (81 bp):
AAAATTACTCAAATACCCTCGATTTGTAAAATTACAGAAATACCCCTGACTTGTAAAATTATCGA
AATACCCTCAATTTAC
Found at i:44593392 original size:27 final size:26
Alignment explanation
Indices: 44593224--44593393 Score: 101
Period size: 27 Copynumber: 6.3 Consensus size: 26
44593214 AAAATTACCA
*
44593224 AAATACCC-CTGATTTGTAAAATTATCG
1 AAATACCCTC-GATTTATAAAATTAT-G
* *
44593251 AAATACCCTCAATTTAGAAAATTACTG
1 AAATACCCTCGATTTATAAAATTA-TG
* *
44593278 AAATACCCTCGATTTGTAAAATTACAG
1 AAATACCCTCGATTTATAAAATTA-TG
* * * *
44593305 AAATACCATCGACTTGTAAAATTATC
1 AAATACCCTCGATTTATAAAATTATG
* * * **
44593331 AAAGTACCC-CTAATTTACAGAATTACC
1 AAA-TACCCTC-GATTTATAAAATTATG
** *
44593358 ATTTTACCCTCGATTTACAAAATTATTG
1 A-AATACCCTCGATTTATAAAATTA-TG
44593386 AAATACCC
1 AAATACCC
44593394 CTGTAAGGTA
Statistics
Matches: 110, Mismatches: 26, Indels: 14
0.73 0.17 0.09
Matches are distributed among these distances:
26 4 0.04
27 102 0.93
28 4 0.04
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (26 bp):
AAATACCCTCGATTTATAAAATTATG
Found at i:44594077 original size:27 final size:27
Alignment explanation
Indices: 44593385--44594067 Score: 828
Period size: 27 Copynumber: 25.3 Consensus size: 27
44593375 CAAAATTATT
*
44593385 GAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
44593412 GAAATACCCTTCT-GGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
**
44593438 GAAATACCCCTGTAGGGTAGAATTATT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
44593465 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
44593492 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
44593519 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
44593546 GAAATACCCTTGTAGGGTGGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
44593573 GAAACACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
44593600 AAAATACCCCTGTAGGGTAGAATTGCC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
44593627 AAAATACCCTTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * **
44593654 GAAATACCTCTGTAGGGTAGATTTATT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
44593681 GAAATACCCCTATAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
**
44593708 GAAATACCCCTGTAGGGTAGAATTATT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
44593735 GAAATACCCCTGTAGGATAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
44593762 AAAATACCCTTGTAGGGTTGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
44593789 GAAATACCCTTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
44593816 GAAATAACCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
44593843 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
44593870 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
44593897 AAAATACCCTTGTAGGGTTGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
44593924 GAAATACCCTTATAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* **
44593951 GAAATACCCCTATAGGGTAGAATTATT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
44593978 GAAATACCCCTGTAGGATAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
44594005 GAAATACCCTTGTAGGGTAAAAATATC
1 GAAATACCCCTGTAGGGTAGAATTACC
44594032 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
44594059 GAGATACCC
1 GAAATACCC
44594068 TCGTGGGGTA
Statistics
Matches: 569, Mismatches: 86, Indels: 2
0.87 0.13 0.00
Matches are distributed among these distances:
26 22 0.04
27 547 0.96
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:44594564 original size:22 final size:22
Alignment explanation
Indices: 44594512--44594576 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
44594502 TTAAAGCCTT
* *
44594512 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
44594534 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
44594556 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
44594577 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:44594765 original size:27 final size:27
Alignment explanation
Indices: 44594735--44594836 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
44594725 ATTCTGTTAA
* *
44594735 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
44594762 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
44594789 GTGGCTCTGCCACAATATCTATATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
** * *
44594816 GTGTTTCTGTCACAATATCTG
1 GTGGCTATGCCACAATATCTG
44594837 ATAACTGAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 7 0.11
27 50 0.78
28 7 0.11
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.38
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:44594830 original size:54 final size:53
Alignment explanation
Indices: 44594735--44594836 Score: 123
Period size: 54 Copynumber: 1.9 Consensus size: 53
44594725 ATTCTGTTAA
* * * *
44594735 GTGGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTATATCTGGTGGCTATGCCAC-AATATCTGTTCTG
** * *
44594789 GTGGCTCTGCCACAATATCTATATCTGGTGTTTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTATATCTGGTGGCTATGCCACAATATCTG
44594837 ATAACTGAGC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 8 0.20
54 32 0.80
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.38
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTATATCTGGTGGCTATGCCACAATATCTGTTCTG
Found at i:44595019 original size:31 final size:32
Alignment explanation
Indices: 44594973--44595038 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 32
44594963 TTGCATTCAC
44594973 ATTTTGATTTTTGATTCTATTACCGGATACTG
1 ATTTTGATTTTTGATTCTATTACCGGATACTG
* *
44595005 ATTTTGA-TTTTGATTCTGTTACCTGATACTG
1 ATTTTGATTTTTGATTCTATTACCGGATACTG
44595036 ATT
1 ATT
44595039 CCGATTCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 25 0.78
32 7 0.22
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.52
Consensus pattern (32 bp):
ATTTTGATTTTTGATTCTATTACCGGATACTG
Found at i:44595053 original size:31 final size:31
Alignment explanation
Indices: 44594984--44595054 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
44594974 TTTTGATTTT
* ** *
44594984 TGATTCTATTACCGGATACTGATTTTGATTT
1 TGATTCTGTTACCGGATACTGATTCCGATTC
*
44595015 TGATTCTGTTACCTGATACTGATTCCGATTC
1 TGATTCTGTTACCGGATACTGATTCCGATTC
44595046 T-ATTTCTGT
1 TGA-TTCTGT
44595055 CACATAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 1 0.03
31 33 0.97
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (31 bp):
TGATTCTGTTACCGGATACTGATTCCGATTC
Found at i:44596114 original size:30 final size:30
Alignment explanation
Indices: 44596078--44596139 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
44596068 AAGTTCTAGT
44596078 TGAAGTGTGATAGTGATAGTAGGATCAGAG
1 TGAAGTGTGATAGTGATAGTAGGATCAGAG
44596108 TGAAGTGTGATAGTGATAGTAGGATCAGAG
1 TGAAGTGTGATAGTGATAGTAGGATCAGAG
44596138 TG
1 TG
44596140 TGCAGCGGTA
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:0.32, C:0.03, G:0.37, T:0.27
Consensus pattern (30 bp):
TGAAGTGTGATAGTGATAGTAGGATCAGAG
Found at i:44597188 original size:80 final size:80
Alignment explanation
Indices: 44597071--44597382 Score: 315
Period size: 80 Copynumber: 3.9 Consensus size: 80
44597061 TTCGTTTACC
* ** *
44597071 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCC-CTGGTTTGTAAAATTACCAA
1 AAATTACCAAAATACCC-TCGTTTGTAAAATTACCAAAATACCCTC-GATTTGTAAAATTACCAA
44597135 AATACCCTTGGTTTGTA
64 AATACCCTTGGTTTGTA
* * **
44597152 AAATTATCAAAATACCCTAGTTTGTAAAATTACCAAAATACCC-CTGATTTGTAAAATTACTGAA
1 AAATTACCAAAATACCCTCGTTTGTAAAATTACCAAAATACCCTC-GATTTGTAAAATTACCAAA
* *
44597216 ATACCCTCGATTTGTA
65 ATACCCTTGGTTTGTA
* * * * * * *
44597232 AAATTACCGAAATACCATCGATTGTAAAATTACTAAAATACCCTCGATTGGTAAAATTATCGAAA
1 AAATTACCAAAATACCCTCGTTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAA
* *
44597297 TA-CCTTCAGTTTGGA
66 TACCCTT-GGTTTGTA
*** ** * *
44597312 AAATTATTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCTCG-TTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAA
*
44597377 GTACCC
65 ATACCC
44597383 CTAATTTACA
Statistics
Matches: 196, Mismatches: 31, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
79 3 0.02
80 133 0.68
81 58 0.30
82 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (80 bp):
AAATTACCAAAATACCCTCGTTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAA
TACCCTTGGTTTGTA
Found at i:44597252 original size:27 final size:27
Alignment explanation
Indices: 44597071--44597382 Score: 319
Period size: 27 Copynumber: 11.6 Consensus size: 27
44597061 TTCGTTTACC
* * **
44597071 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
44597098 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
44597125 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
44597152 AAATTATCAAAATACCCTAG-TTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
44597178 AAATTACCAAAATACCC-CTGATTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
**
44597205 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
44597232 AAATTACCGAAATACCATCGA-TTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
44597258 AAATTACTAAAATACCCTCGATTGGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
44597285 AAATTATCGAAATACCTTC-AGTTTGGA
1 AAATTACCAAAATACCCTCGA-TTTGTA
***
44597312 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
** *
44597339 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
44597366 AAATTATCAAAGTACCC
1 AAATTACCAAAATACCC
44597383 CTAATTTACA
Statistics
Matches: 246, Mismatches: 31, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
26 47 0.19
27 197 0.80
28 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:44597451 original size:27 final size:27
Alignment explanation
Indices: 44597428--44598267 Score: 1013
Period size: 27 Copynumber: 30.9 Consensus size: 27
44597418 CAAAATTAAT
* * *
44597428 GAAATACCCCTGTAGGGTTGAATTACC
1 GAAATACCCTTGTAGGGTAGAAATACC
*
44597455 GAAATACCCTTGTA-AGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
44597481 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
44597508 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCTTGTAGGGTAGAAATACC
*
44597535 GAAATACCCTTGTAGGGGAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
44597562 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
44597589 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCTTGTAGGGTAGAAATACC
*
44597616 TAAATACCCTTGTAGGGTAGAAATACCGAAATACC
1 GAAATACCCTTGTA-GG--G---TA--GAAATACC
* * **
44597651 GAAATACCCCTGTAGGGTAGAATTATT
1 GAAATACCCTTGTAGGGTAGAAATACC
*
44597678 GAAATA-CCTCTGTAGGATAGAAATACC
1 GAAATACCCT-TGTAGGGTAGAAATACC
* *
44597705 GAAATACCCTAGTAGGGTTGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
*
44597732 GAAATACCCTTGTAGGGTTGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
44597759 GAAATAACCTTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
44597786 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAAATACC
44597813 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
44597840 GAAATACCCTTGTAGGGTTGAAATATC
1 GAAATACCCTTGTAGGGTAGAAATACC
*
44597867 GAAATACCCTTGTAGGGTAGAAATACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * **
44597894 GAAATACCCCTGTAGGGTAGAATTATT
1 GAAATACCCTTGTAGGGTAGAAATACC
*
44597921 GAAATA-CCTCTGTAGGATAGAAATACC
1 GAAATACCCT-TGTAGGGTAGAAATACC
*
44597948 GAAATACCCTTGTAGGGTTGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
44597975 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
44598002 GAAATAACCTTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
44598029 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAAATACC
44598056 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
*
44598083 GAAATACCCTTGTAGGGTTGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
44598110 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * **
44598137 GAAATACCCCTGTAGGGTAGAATTATT
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
44598164 GAAATACCCCTGTAGGATAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
*
44598191 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * * *
44598218 AAAATACCCCTGTCGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
44598245 GAGATACCCTCGTGGGGTA-AAAT
1 GAAATACCCTTGTAGGGTAGAAAT
44598268 TACCATTTTT
Statistics
Matches: 701, Mismatches: 99, Indels: 27
0.85 0.12 0.03
Matches are distributed among these distances:
26 29 0.04
27 638 0.91
28 8 0.01
29 2 0.00
30 1 0.00
32 1 0.00
33 2 0.00
34 2 0.00
35 18 0.03
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAAATACC
Found at i:44598733 original size:22 final size:22
Alignment explanation
Indices: 44598705--44598764 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
44598695 GCCTTCTGAT
* *
44598705 TATGGCTTTGTGTCAACCTAGA-
1 TATGGCTCTGTGCCAA-CTAGAC
*
44598727 TATGGCTCTGTGCCAACTTGAC
1 TATGGCTCTGTGCCAACTAGAC
*
44598749 TATGGCTGTGTGCCAA
1 TATGGCTCTGTGCCAA
44598765 ACGTATTTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.12
22 29 0.88
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (22 bp):
TATGGCTCTGTGCCAACTAGAC
Found at i:44599011 original size:27 final size:26
Alignment explanation
Indices: 44598923--44599021 Score: 108
Period size: 27 Copynumber: 3.7 Consensus size: 26
44598913 ATTCTGTTAA
* *
44598923 GTGGCTTTGCCACATTATTTGTTTCTG
1 GTGGCTCTGCCACAATATTTG-TTCTG
* *
44598950 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATTTGTTCTG
44598977 GTGGCTCTGCCACAATATTTGTATCTG
1 GTGGCTCTGCCACAATATTTGT-TCTG
* **
44599004 GTGTCTCTATCACAATAT
1 GTGGCTCTGCCACAATAT
44599022 CTGATAACTG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 8 0.13
27 48 0.77
28 6 0.10
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.39
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATTTGTTCTG
Found at i:44599018 original size:54 final size:53
Alignment explanation
Indices: 44598923--44599024 Score: 132
Period size: 54 Copynumber: 1.9 Consensus size: 53
44598913 ATTCTGTTAA
* * * *
44598923 GTGGCTTTGCCACATTATTTGTTTCTGGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATTTGTATCTGGTGGCTATACCAC-AATATCTGTTCTG
* * *
44598977 GTGGCTCTGCCACAATATTTGTATCTGGTGTCTCTATCACAATATCTG
1 GTGGCTCTGCCACAATATTTGTATCTGGTGGCTATACCACAATATCTG
44599025 ATAACTGAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 8 0.20
54 33 0.80
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.39
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATTTGTATCTGGTGGCTATACCACAATATCTGTTCTG
Found at i:44599230 original size:6 final size:6
Alignment explanation
Indices: 44599184--44599317 Score: 87
Period size: 6 Copynumber: 21.8 Consensus size: 6
44599174 ATTCTGTTAC
* * * *
44599184 CTGATA CTGATT CTAATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * * * *
44599233 TTGATT CTG-TT ACCTGATA CTGATT CCGATT CTGATT CTG-TCAC CTAATT
1 CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT
*
44599283 CTGATT CTGATT CTGATT TTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
44599318 AATGTTTCTT
Statistics
Matches: 98, Mismatches: 19, Indels: 22
0.71 0.14 0.16
Matches are distributed among these distances:
5 6 0.06
6 80 0.82
7 9 0.09
8 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:44599308 original size:37 final size:31
Alignment explanation
Indices: 44599169--44599300 Score: 192
Period size: 31 Copynumber: 4.3 Consensus size: 31
44599159 ACATTCTAAT
* *
44599169 TTTTTATTCTGTTACCTGATACTGATTCTAA
1 TTTTGATTCTGTTACCTGATACTGATTCTGA
44599200 TTTTGATTCTGTTACCTGATACTGATTCTGA
1 TTTTGATTCTGTTACCTGATACTGATTCTGA
*
44599231 TTTTGATTCTGTTACCTGATACTGATTCCGA
1 TTTTGATTCTGTTACCTGATACTGATTCTGA
* * * *
44599262 TTCTGATTCTGTCACCTAATTCTGATTCTGA
1 TTTTGATTCTGTTACCTGATACTGATTCTGA
*
44599293 TTCTGATT
1 TTTTGATT
44599301 TTGATTCTAG
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 93 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (31 bp):
TTTTGATTCTGTTACCTGATACTGATTCTGA
Found at i:44601486 original size:44 final size:42
Alignment explanation
Indices: 44601423--44601562 Score: 140
Period size: 44 Copynumber: 3.3 Consensus size: 42
44601413 TATGTTATCG
* *
44601423 TGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTATGATTTACA
1 TGTAAGACCACATCTGGGACATTGGCATCGTA-TT-TGATTT-CA
*
44601467 TGTAAGACCACATCTGGGACATTGGCATCGTATTTGATTTCG
1 TGTAAGACCACATCTGGGACATTGGCATCGTATTTGATTTCA
* * * * * *
44601509 TGTAAGACC-CTGTCTGGGATAGTGGCATTGATATTGGATTACA
1 TGTAAGACCAC-ATCTGGGACATTGGCATCG-TATTTGATTTCA
44601552 TGTAAGACCAC
1 TGTAAGACCAC
44601563 GTTTGGGATG
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
41 1 0.01
42 25 0.30
43 24 0.29
44 31 0.38
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACATTGGCATCGTATTTGATTTCA
Found at i:44601570 original size:43 final size:42
Alignment explanation
Indices: 44601423--44601583 Score: 132
Period size: 43 Copynumber: 3.8 Consensus size: 42
44601413 TATGTTATCG
* * *
44601423 TGTAAGACCACGTCTGGGA-CGTTGGCATCG-ACTTATGATTTACA
1 TGTAAGACCACGTCTGGGATAG-TGGCATTGTA-TT-GGA-TTACA
* * * * * * *
44601467 TGTAAGACCACATCTGGGACATTGGCATCGTATTTGATTTCG
1 TGTAAGACCACGTCTGGGATAGTGGCATTGTATTGGATTACA
44601509 TGTAAGACC-CTGTCTGGGATAGTGGCATTGATATTGGATTACA
1 TGTAAGACCAC-GTCTGGGATAGTGGCATTG-TATTGGATTACA
*
44601552 TGTAAGACCACGTTTGGGAT-GTTGGCATTGTA
1 TGTAAGACCACGTCTGGGATAG-TGGCATTGTA
44601584 CGAGTTTTCT
Statistics
Matches: 98, Mismatches: 13, Indels: 14
0.78 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 30 0.31
43 37 0.38
44 29 0.30
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGATAGTGGCATTGTATTGGATTACA
Found at i:44603414 original size:40 final size:40
Alignment explanation
Indices: 44603332--44603554 Score: 324
Period size: 40 Copynumber: 5.6 Consensus size: 40
44603322 TATTCGGATG
*
44603332 ATATCCGGGCTAAGACCCGAAGGCATGTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAT-TTGTGCTAGTGACT
*
44603373 ATATCCGGCCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
44603413 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
44603453 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
44603493 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
44603533 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
44603555 TACTTGGGTT
Statistics
Matches: 166, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 14 0.08
40 127 0.77
41 25 0.15
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:44611526 original size:40 final size:40
Alignment explanation
Indices: 44611443--44611665 Score: 304
Period size: 40 Copynumber: 5.6 Consensus size: 40
44611433 TATTCGGATG
* *
44611443 ATATCCGGGCTAAGACCCGAAGGCATGTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAT-TTGTGCTAGTGGCT
*
44611484 ATATCCGGGCTAAGTCCCGAAGGAATTTGTGCTAGTGGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCT
**
44611524 ATATCCGGGCTAACACCCGAAGGCATTTGTGCTAGTGGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCT
* * * **
44611564 ATATTCGGTCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCT
* * *
44611604 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCT
*
44611644 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
44611666 TACTTGGTTT
Statistics
Matches: 165, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 15 0.09
40 126 0.76
41 24 0.15
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCT
Found at i:44618828 original size:40 final size:40
Alignment explanation
Indices: 44618784--44618928 Score: 254
Period size: 40 Copynumber: 3.6 Consensus size: 40
44618774 GCTACCCACT
44618784 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
44618824 CAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
44618864 CAACTGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
44618904 CAAATGCCTTCGGGACTTCGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
44618929 TTATCATCCG
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 98 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:44627201 original size:7 final size:8
Alignment explanation
Indices: 44627184--44627209 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
44627174 ATAGTGCAAC
44627184 AAAAATAA
1 AAAAATAA
44627192 AAAAATAA
1 AAAAATAA
44627200 AAAAATAA
1 AAAAATAA
44627208 AA
1 AA
44627210 TAGCACATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:44630460 original size:42 final size:41
Alignment explanation
Indices: 44630414--44630563 Score: 158
Period size: 42 Copynumber: 3.6 Consensus size: 41
44630404 TGAGACTATG
* *
44630414 TGTAAGACCATATCTGGGATATGGCATCAATTCAAGACTTCC
1 TGTAAGACCATATCTGGGATATGGCATCGATTCAAGA-TTCA
**
44630456 TGTAAGACCATATCTGGGATATGGCATCGATGT-TTGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGAT-TCAAGA-TTCA
* * * * * *
44630498 TGTAAGACAATAGCTGGGTTATTGCCATCGATACAATATTACA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATTCAAGATT-CA
44630541 TGTAAGACCATATCTGGGATATG
1 TGTAAGACCATATCTGGGATATG
44630564 ACATTGGTAT
Statistics
Matches: 88, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 57 0.65
43 31 0.35
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGATATGGCATCGATTCAAGATTCA
Found at i:44636719 original size:54 final size:54
Alignment explanation
Indices: 44636663--44636995 Score: 427
Period size: 54 Copynumber: 6.2 Consensus size: 54
44636653 ACCTCTATAA
** * * *
44636663 GGTAGAATTA-TCGAAATACCCCTATAAGGTTGAATTATCGAAATACCCCTGTAA
1 GGTAGAATTACT-GAAATACCCCCGTAAGGTAGAATTACCGAAATACCCCTGTAG
* *
44636717 GGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTATAG
1 GGTAGAATTACTGAAATACCCCCGTAAGGTAGAATTACCGAAATACCCCTGTAG
*
44636771 GGTAGAATTA-TTAGAATACCCCCGTAAGGTAGAATTACCGAAATACCCCTGTAG
1 GGTAGAATTACTGA-AATACCCCCGTAAGGTAGAATTACCGAAATACCCCTGTAG
44636825 GGTAGAATTACTGAAATACCCCCGTAAGGTAGAATTACCGAAATACCCCTGTAG
1 GGTAGAATTACTGAAATACCCCCGTAAGGTAGAATTACCGAAATACCCCTGTAG
* * ** **
44636879 GGTAGAATTACTAAAATACCCCCGTAGGGTAGAATTATTGAAATACCTTTGTAG
1 GGTAGAATTACTGAAATACCCCCGTAAGGTAGAATTACCGAAATACCCCTGTAG
* *** * * * *
44636933 GGTAGAAATACTGAAATACCTTTGTAGGGTAGAATTACCGAGATACCCTTGTGG
1 GGTAGAATTACTGAAATACCCCCGTAAGGTAGAATTACCGAAATACCCCTGTAG
*
44636987 GGTAAAATT
1 GGTAGAATT
44636996 GCCATTTTGC
Statistics
Matches: 249, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
53 2 0.01
54 244 0.98
55 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (54 bp):
GGTAGAATTACTGAAATACCCCCGTAAGGTAGAATTACCGAAATACCCCTGTAG
Found at i:44636984 original size:27 final size:27
Alignment explanation
Indices: 44636663--44636995 Score: 371
Period size: 27 Copynumber: 12.3 Consensus size: 27
44636653 ACCTCTATAA
* * *
44636663 GGTAGAATTATCGAAATACCCCTATAA
1 GGTAGAATTACCGAAATACCCCTGTAG
* * *
44636690 GGTTGAATTATCGAAATACCCCTGTAA
1 GGTAGAATTACCGAAATACCCCTGTAG
* *
44636717 GGTAGAATTACTGAAATACCCCTGTAA
1 GGTAGAATTACCGAAATACCCCTGTAG
*
44636744 GGTAGAATTACCGAAATACCCCTATAG
1 GGTAGAATTACCGAAATACCCCTGTAG
** * *
44636771 GGTAGAATTA-TTAGAATACCCCCGTAA
1 GGTAGAATTACCGA-AATACCCCTGTAG
44636798 GGTAGAATTACCGAAATACCCCTGTAG
1 GGTAGAATTACCGAAATACCCCTGTAG
* * *
44636825 GGTAGAATTACTGAAATACCCCCGTAA
1 GGTAGAATTACCGAAATACCCCTGTAG
44636852 GGTAGAATTACCGAAATACCCCTGTAG
1 GGTAGAATTACCGAAATACCCCTGTAG
** *
44636879 GGTAGAATTACTAAAATACCCCCGTAG
1 GGTAGAATTACCGAAATACCCCTGTAG
** **
44636906 GGTAGAATTATTGAAATACCTTTGTAG
1 GGTAGAATTACCGAAATACCCCTGTAG
* * **
44636933 GGTAGAAATACTGAAATACCTTTGTAG
1 GGTAGAATTACCGAAATACCCCTGTAG
* * *
44636960 GGTAGAATTACCGAGATACCCTTGTGG
1 GGTAGAATTACCGAAATACCCCTGTAG
*
44636987 GGTAAAATT
1 GGTAGAATT
44636996 GCCATTTTGC
Statistics
Matches: 265, Mismatches: 39, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 1 0.00
27 263 0.99
28 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
GGTAGAATTACCGAAATACCCCTGTAG
Found at i:44638170 original size:37 final size:37
Alignment explanation
Indices: 44638120--44638240 Score: 206
Period size: 37 Copynumber: 3.3 Consensus size: 37
44638110 TTATTACGAA
* *
44638120 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
* *
44638157 GTCTTACCCGGACAAAATCTCCATACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
44638194 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
44638231 GTCTTACCCG
1 GTCTTACCCG
44638241 AAATATATTT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 78 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:44638440 original size:46 final size:45
Alignment explanation
Indices: 44638387--44638522 Score: 182
Period size: 46 Copynumber: 3.0 Consensus size: 45
44638377 ATATATACAA
* * *
44638387 ATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATCC
1 ATCTCATACAAAT-TCGCATTAGCCATTCGGCTTTACCACATATCC
* *
44638433 ATCTCATACACAATTCGCATTAGCCATTCGGCTTTACCTCATATCT
1 ATCTCATACA-AATTCGCATTAGCCATTCGGCTTTACCACATATCC
* *
44638479 ATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 ATCTCATACA-AATTCGCATTAGCCATTCGGCTTTACCACATAT
44638523 ATACATGTTC
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
46 79 0.98
47 2 0.02
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.34
Consensus pattern (45 bp):
ATCTCATACAAATTCGCATTAGCCATTCGGCTTTACCACATATCC
Found at i:44638557 original size:47 final size:47
Alignment explanation
Indices: 44638496--44639020 Score: 627
Period size: 47 Copynumber: 11.1 Consensus size: 47
44638486 ACACATTTCG
* * * **
44638496 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
44638543 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTC--CA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * * * ** *
44638588 -TTTGGCCTTATC-ACGC--A--A-ATATATACAGGTTCACATTCATCA
1 CATTGGCCAT-TCGGC-CTTATCACACATACGCATGTTCACATTCATCA
44638630 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ***
44638677 CATTGGCCATTCGGCCTAATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
44638728 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * **
44638775 CATTGGCCATTCGGCCTCATCACGCATACATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
44638826 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
44638873 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ACATACGCATGTTCACATTCATCA
44638924 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
44638971 CATTGGTCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
44639018 CAT
1 CAT
44639021 AAAATCCTAA
Statistics
Matches: 409, Mismatches: 46, Indels: 46
0.82 0.09 0.09
Matches are distributed among these distances:
40 16 0.04
41 1 0.00
42 5 0.01
43 9 0.02
44 9 0.02
45 5 0.01
46 1 0.00
47 234 0.57
49 2 0.00
51 127 0.31
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:44638709 original size:98 final size:98
Alignment explanation
Indices: 44638578--44638998 Score: 729
Period size: 98 Copynumber: 4.3 Consensus size: 98
44638568 ATACGCATGT
* *
44638578 TCACATT--CCATTTGGCCTTATCACGCAAATATATACAGGTTCACATTCATCACATTGGCCATT
1 TCACATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCACATTGGCCATT
44638641 CGGCCTTATCACACATACGCATGTTCACATTCA
66 CGGCCTTATCACACATACGCATGTTCACATTCA
* * *
44638674 TCACATTGGCCATTCGGCCTAATCACACATATATATACGGGTTCACATTCATCACATTGGCCATT
1 TCACATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCACATTGGCCATT
*
44638739 CAGCCTTATCACACATACGCATGTTCACATTCA
66 CGGCCTTATCACACATACGCATGTTCACATTCA
* * *
44638772 TCACATTGGCCATTCGGCCTCATCACGCATACATATACGGGTTCACATTCATCACATTGGCCATT
1 TCACATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCACATTGGCCATT
44638837 CGGCCTTATCACACATACGCATGTTCACATTCA
66 CGGCCTTATCACACATACGCATGTTCACATTCA
44638870 TCACATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCACATTGGCCATT
1 TCACATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCACATTGGCCATT
44638935 CGGCCTTATCACACATACGCATGTTCACATTCA
66 CGGCCTTATCACACATACGCATGTTCACATTCA
* *
44638968 TCACATTGGTCATTCGGCCTTATCACACATA
1 TCACATTGGCCATTCGGCCTTATCACGCATA
44638999 CGCATGTTCA
Statistics
Matches: 308, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
96 7 0.02
98 301 0.98
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (98 bp):
TCACATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCACATTGGCCATT
CGGCCTTATCACACATACGCATGTTCACATTCA
Found at i:44638904 original size:196 final size:194
Alignment explanation
Indices: 44638496--44638999 Score: 782
Period size: 196 Copynumber: 2.6 Consensus size: 194
44638486 ACACATTTCG
* * *
44638496 CATTAGCCATTCGGCC-T-T-ACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTATCACCATATATATACAGGTTCACATTCATCACATTGGCCATTCGGC
* *
44638558 CTTATCACACATACGCATGTTCACA-T--TC-CA-T----TT-GGCCTTATCACGCAAATATATA
66 CTTATCACACATACGCATGTTCACATTCATCACATTGGCATTCGGCCTTATCACGCATACATATA
44638613 CAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
131 CAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
44638677 CATTGGCCATTCGGCCTAATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCAG
1 CATTGGCCATTCGGCCTTATCAC-CATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
*
44638742 CCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTCATCACGCATACATA
65 CCTTATCACACATACGCATGTTCACATTCATCACATTGG-CATTCGGCCTTATCACGCATACATA
*
44638807 TACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATC
129 TACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATC
44638872 A
194 A
44638873 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCAC-CATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
*
44638938 CCTTATCACACATACGCATGTTCACATTCATCACATTGGTCATTCGGCCTTATCACACATAC
65 CCTTATCACACATACGCATGTTCACATTCATCACATTGG-CATTCGGCCTTATCACGCATAC
44639000 GCATGTTCAC
Statistics
Matches: 291, Mismatches: 17, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
181 15 0.05
183 1 0.00
184 2 0.01
185 63 0.22
186 1 0.00
188 2 0.01
189 2 0.01
190 1 0.00
195 2 0.01
196 202 0.69
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (194 bp):
CATTGGCCATTCGGCCTTATCACCATATATATACAGGTTCACATTCATCACATTGGCCATTCGGC
CTTATCACACATACGCATGTTCACATTCATCACATTGGCATTCGGCCTTATCACGCATACATATA
CAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:44639021 original size:23 final size:23
Alignment explanation
Indices: 44638946--44639021 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 23
44638936 GGCCTTATCA
44638946 CACATACGCATGTTCACATTCAT
1 CACATACGCATGTTCACATTCAT
** * *
44638969 CACATTGGTCA--TTCGGCCTT-AT
1 CACATACG-CATGTTC-ACATTCAT
44638991 CACACATACGCATGTTCACATTCAT
1 --CACATACGCATGTTCACATTCAT
44639016 CACATA
1 CACATA
44639022 AAATCCTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
22 5 0.13
23 17 0.45
24 11 0.29
25 5 0.13
ACGTcount: A:0.29, C:0.30, G:0.11, T:0.30
Consensus pattern (23 bp):
CACATACGCATGTTCACATTCAT
Found at i:44642602 original size:40 final size:40
Alignment explanation
Indices: 44642570--44642961 Score: 658
Period size: 40 Copynumber: 9.8 Consensus size: 40
44642560 CCAGCATGAT
* * *
44642570 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* ** *
44642610 TGCTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
44642650 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
44642690 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
44642730 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
44642770 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
44642810 TGCTCTTCGGGACTTAGCCCGGATACATCACTAACACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
44642850 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
44642890 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
44642930 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
44642962 CTCAATTCTC
Statistics
Matches: 327, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 327 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:44644231 original size:37 final size:37
Alignment explanation
Indices: 44644177--44644299 Score: 210
Period size: 37 Copynumber: 3.3 Consensus size: 37
44644167 TTATTACGAA
* *
44644177 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
44644214 GTCATACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
44644251 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
44644288 GTCTTACTCGGA
1 GTCTTACCCGGA
44644300 ATATATTTCC
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 81 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:44644496 original size:46 final size:46
Alignment explanation
Indices: 44644443--44644579 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
44644433 TATATATACA
* *
44644443 CATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * *
44644489 CATCTCATACACGTTTCTCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * *
44644535 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATAT
44644580 ATACATGTTC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:44644614 original size:47 final size:47
Alignment explanation
Indices: 44644553--44645030 Score: 470
Period size: 47 Copynumber: 10.1 Consensus size: 47
44644543 ACACATTTCG
* * *
44644553 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACACATACACATGTTCACATTCATCA
* *
44644600 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACA-T--TC-
1 CATTGGCCATTCGGCCTTACCACACATACACATGTTCACATTCATCA
* * * * * * *
44644643 CATTCGGCC-TT----ATCACGCATATATATATAGGTTCACATTCATCA
1 CATT-GGCCATTCGGCCTTAC-CACACATACACATGTTCACATTCATCA
* *
44644687 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACACATACACATGTTCACATTCATCA
* * *
44644734 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACACATACACAT----GTTCACATTCATCA
* * * **
44644785 CATTGGCCATTCGGCCTCATCACGCATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCT--T-AC-CACACATACACATGTTCACATTCATCA
* *
44644836 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACACATACACATGTTCACATTCATCA
* * * *
44644883 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCC-T-T-AC-CACACATACACATGTTCACATTCATCA
* *
44644934 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACACATACACATGTTCACATTCATCA
* * *
44644981 CATTGGCGATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACACATACACATGTTCACATTCATCA
44645028 CAT
1 CAT
44645031 AAAATCCTAA
Statistics
Matches: 356, Mismatches: 52, Indels: 46
0.78 0.11 0.10
Matches are distributed among these distances:
39 2 0.01
40 14 0.04
41 1 0.00
43 12 0.03
44 12 0.03
46 1 0.00
47 194 0.54
48 5 0.01
49 3 0.01
50 2 0.01
51 100 0.28
53 1 0.00
54 1 0.00
55 8 0.02
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTACCACACATACACATGTTCACATTCATCA
Found at i:44644702 original size:51 final size:49
Alignment explanation
Indices: 44644635--44645030 Score: 461
Period size: 51 Copynumber: 8.1 Consensus size: 49
44644625 ATACGCATGT
44644635 TCACATT--CCATTCGGCCTTATCACGCATATATATATAGGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCAC-CATATATATAT-GGTTCACATTCA
* ***
44644684 TCACATTGGCCATTCGGCCTTATCA-CACATACGCAT-GTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACCATATATATATGGTTCACATTCA
*
44644731 TCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCAC-CATATATATA-TGGTTCACATTCA
* *
44644782 TCACATTGGCCATTCGGCCTCATCACGCATATATATACGGGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCAC-CATATATATA-TGGTTCACATTCA
* ***
44644833 TCACATTGGCCATTCGGCCTTATCA-CACATACGCAT-GTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACCATATATATATGGTTCACATTCA
*
44644880 TCACATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCAC-CATATATATA-TGGTTCACATTCA
* ***
44644931 TCACATTGGCCATTCGGCCTTATCA-CACATACGCAT-GTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACCATATATATATGGTTCACATTCA
* * ***
44644978 TCACATTGGCGATTCGGCCTTATCA-CACATACGCAT-GTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACCATATATATATGGTTCACATTCA
44645025 TCACAT
1 TCACAT
44645031 AAAATCCTAA
Statistics
Matches: 309, Mismatches: 28, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
47 135 0.44
49 38 0.12
51 136 0.44
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.31
Consensus pattern (49 bp):
TCACATTGGCCATTCGGCCTTATCACCATATATATATGGTTCACATTCA
Found at i:44644762 original size:98 final size:94
Alignment explanation
Indices: 44644673--44645030 Score: 482
Period size: 98 Copynumber: 3.7 Consensus size: 94
44644663 ATATATATAG
*
44644673 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATT
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATT
* *
44644738 GGCCATTCGGCCTTATCACACATATATAT
66 GGCCATTCGGCCTTATCACACATACACAT
* * * *
44644767 ACGGGTTCACATTCATCACATTGGCCATTCGGCCTCATCACGCATATATATACGGGTTCACATTC
1 ----GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACAT----GTTCACATTC
*
44644832 ATCACATTGGCCATTCGGCCTTATCACACATACGCAT
58 ATCACATTGGCCATTCGGCCTTATCACACATACACAT
* * *
44644869 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCA--C--ACATACACATGTTCACATTCATCA
*
44644934 CATTGGCCATTCGGCCTTATCACACATACGCAT
62 CATTGGCCATTCGGCCTTATCACACATACACAT
* *
44644967 GTTCACATTCATCACATTGGCGATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACAT
44645031 AAAATCCTAA
Statistics
Matches: 234, Mismatches: 18, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
94 23 0.10
96 1 0.00
98 159 0.68
100 1 0.00
102 50 0.21
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.30
Consensus pattern (94 bp):
GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATT
GGCCATTCGGCCTTATCACACATACACAT
Found at i:44644912 original size:149 final size:147
Alignment explanation
Indices: 44644635--44645030 Score: 656
Period size: 149 Copynumber: 2.7 Consensus size: 147
44644625 ATACGCATGT
44644635 TCACATT--CCATTCGGCCTTATCACGCATATATATATAGGTTCACATTCATCACATTGGCCATT
1 TCACATTGGCCATTCGGCCTTATCACGC--ATATATATAGGTTCACATTCATCACATTGGCCATT
44644698 CGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
64 CGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
*
44644763 ATATACGGGTTCACATTCA
129 ATATACAGGTTCACATTCA
*
44644782 TCACATTGGCCATTCGGCCTCATCACGCATATATATACGGGTTCACATTCATCACATTGGCCATT
1 TCACATTGGCCATTCGGCCTTATCACGCATATATATA--GGTTCACATTCATCACATTGGCCATT
*
44644847 CGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATAT
64 CGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
44644912 ATATACAGGTTCACATTCA
129 ATATACAGGTTCACATTCA
* *** *
44644931 TCACATTGGCCATTCGGCCTTATCACACATACGCAT--GTTCACATTCATCACATTGGCGATTCG
1 TCACATTGGCCATTCGGCCTTATCACGCATATATATAGGTTCACATTCATCACATTGGCCATTCG
44644994 GCCTTATCACACATACGCATGTTCACATTCATCACAT
66 GCCTTATCACACATACGCATGTTCACATTCATCACAT
44645031 AAAATCCTAA
Statistics
Matches: 236, Mismatches: 9, Indels: 10
0.93 0.04 0.04
Matches are distributed among these distances:
145 63 0.27
147 16 0.07
149 157 0.67
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.31
Consensus pattern (147 bp):
TCACATTGGCCATTCGGCCTTATCACGCATATATATAGGTTCACATTCATCACATTGGCCATTCG
GCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATAT
ATACAGGTTCACATTCA
Found at i:44645031 original size:23 final size:23
Alignment explanation
Indices: 44644956--44645031 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 23
44644946 GGCCTTATCA
44644956 CACATACGCATGTTCACATTCAT
1 CACATACGCATGTTCACATTCAT
** * *
44644979 CACATTGGC--GATTCGGCCTT-AT
1 CACATACGCATG-TTC-ACATTCAT
44645001 CACACATACGCATGTTCACATTCAT
1 --CACATACGCATGTTCACATTCAT
44645026 CACATA
1 CACATA
44645032 AAATCCTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
21 1 0.03
22 5 0.13
23 16 0.42
24 10 0.26
25 5 0.13
26 1 0.03
ACGTcount: A:0.29, C:0.30, G:0.12, T:0.29
Consensus pattern (23 bp):
CACATACGCATGTTCACATTCAT
Found at i:44648052 original size:31 final size:32
Alignment explanation
Indices: 44648014--44648075 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
44648004 CTCACTGCAA
* *
44648014 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
44648045 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
44648076 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:44655366 original size:42 final size:42
Alignment explanation
Indices: 44655314--44655396 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
44655304 CTGAGACTAT
*
44655314 GTGTAAGACCATATCTGGGATATGGCATCAATTTAAGACTTC
1 GTGTAAGACCATATCTAGGATATGGCATCAATTTAAGACTTC
44655356 GTGTAAGACCATATCTAGGATATGGCATCAATTTAAGACTT
1 GTGTAAGACCATATCTAGGATATGGCATCAATTTAAGACTT
44655397 GGTTATTTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATATCTAGGATATGGCATCAATTTAAGACTTC
Found at i:44656550 original size:40 final size:40
Alignment explanation
Indices: 44656495--44656618 Score: 167
Period size: 40 Copynumber: 3.1 Consensus size: 40
44656485 ATAGCCGTAC
* *
44656495 ATAGCCGAAGGTATCTCAAATCGCACACTAAGTGCCTTAT
1 ATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATAT
* * *
44656535 ATAGCTGAAGCTATCTCAATCTCGCACACTAAATGCCATAT
1 ATAGCCGAAGCTATCTCAA-ATCGCACACTAAGTGCCATAT
* * *
44656576 ATAGCCGAAGCTATGTCGAATCGCACACTAAGTGCCACAT
1 ATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATAT
44656616 ATA
1 ATA
44656619 ACTGATTTGT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 38 0.53
41 34 0.47
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (40 bp):
ATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATAT
Found at i:44657871 original size:27 final size:28
Alignment explanation
Indices: 44657819--44657876 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
44657809 CATCACATAG
44657819 GGGAAAAATAGTCATCTTACCATATA-A
1 GGGAAAAATAGTCATCTTACCATATATA
* *
44657846 GGGAATAATAGTCATTTTATCC-TATATA
1 GGGAAAAATAGTCATCTTA-CCATATATA
44657874 GGG
1 GGG
44657877 GGTCTAGGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (28 bp):
GGGAAAAATAGTCATCTTACCATATATA
Found at i:44666536 original size:28 final size:28
Alignment explanation
Indices: 44666475--44666536 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
44666465 TCAGTGTACG
*
44666475 AAATATTGAGAATGGCACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAGTGTGCA
* *
44666503 ATATATTGAGAATGACACTTCGTGTGCA
1 AAATATTGAGAATGACACTTAGTGTGCA
44666531 AAATAT
1 AAATAT
44666537 CGAATGATTC
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:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAGTGTGCA
Found at i:44666749 original size:43 final size:43
Alignment explanation
Indices: 44666648--44666776 Score: 138
Period size: 43 Copynumber: 3.0 Consensus size: 43
44666638 TTTATAATGG
* * * *
44666648 TGATATTCGGGCTTTGAGCCTAGCAAGCTTTAA-GCTGGTGAATAA
1 TGATA-TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTG-A-AA
*
44666693 T-ATTATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* *
44666736 TGATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
44666777 TGAGTTCAGA
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
42 12 0.16
43 26 0.36
44 26 0.36
45 9 0.12
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (43 bp):
TGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:44666799 original size:41 final size:43
Alignment explanation
Indices: 44666709--44666803 Score: 115
Period size: 41 Copynumber: 2.3 Consensus size: 43
44666699 CGGGCTTCGG
* * * *
44666709 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTCAA
1 GCCTAGCAGGCGATAATGCCGGTGAAATGATATCAGACTTAAA
44666752 GCCTAGCAGGCGA-AATGCCGGTG-AATGAGT-TCAGACTTAAA
1 GCCTAGCAGGCGATAATGCCGGTGAAATGA-TATCAGACTTAAA
*
44666793 GTCTAGCAGGC
1 GCCTAGCAGGC
44666804 TTCGTGCCAG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 23 0.50
42 11 0.24
43 12 0.26
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.21
Consensus pattern (43 bp):
GCCTAGCAGGCGATAATGCCGGTGAAATGATATCAGACTTAAA
Found at i:44666857 original size:40 final size:41
Alignment explanation
Indices: 44666709--44666856 Score: 138
Period size: 40 Copynumber: 3.6 Consensus size: 41
44666699 CGGGCTTCGG
*
44666709 GCCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGCTTAAA
* * * *
44666752 GCCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
* *** * *
44666793 GTCTAGCAGGCTTCGTGCCAGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
* *
44666833 CCCTAGCCGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
44666857 TTTGATAAAC
Statistics
Matches: 81, Mismatches: 22, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
40 29 0.36
41 29 0.36
42 11 0.14
43 12 0.15
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
Found at i:44669785 original size:21 final size:21
Alignment explanation
Indices: 44669761--44669813 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
44669751 TTTTATCTAA
44669761 GATGTCGCGACTTTAGGGTTC
1 GATGTCGCGACTTTAGGGTTC
44669782 GATGTCGCGACTTTAGGGTTC
1 GATGTCGCGACTTTAGGGTTC
44669803 GATGTCGCGAC
1 GATGTCGCGAC
44669814 ATTAAGCCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.15, C:0.21, G:0.34, T:0.30
Consensus pattern (21 bp):
GATGTCGCGACTTTAGGGTTC
Found at i:44682588 original size:27 final size:28
Alignment explanation
Indices: 44682558--44682674 Score: 143
Period size: 27 Copynumber: 4.3 Consensus size: 28
44682548 TTTAGTTTAC
* *
44682558 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATACCCTTCGATTTG
* *
44682585 TAAAAATACTAAAATACCC-TCGATTTG
1 TAAAATTACTGAAATACCCTTCGATTTG
* *
44682612 TAAAATTACTTAAATACTC-TCGATTTG
1 TAAAATTACTGAAATACCCTTCGATTTG
*
44682639 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACTGAAATACCCTTCGATTTG
44682666 TAAAATTAC
1 TAAAATTAC
44682675 CAAAGTAACC
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 3 0.04
27 75 0.96
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (28 bp):
TAAAATTACTGAAATACCCTTCGATTTG
Found at i:44682690 original size:54 final size:54
Alignment explanation
Indices: 44682581--44682691 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
44682571 ATACCCTTAG
* * *
44682581 TTTGTAAAAATACTAAAATACCCTCGATTTGTAAAATTACTTAAATACTCTCGA
1 TTTGTAAAAATACTAAAATACCCTCGACTTGTAAAATTACTCAAATACTCCCGA
* * *
44682635 TTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTAC-CAAAGTAAC-CCCGA
1 TTTGTAAAAATACTAAAATACCCTCGACTTGTAAAATTACTCAAA-T-ACTCCCGA
44682689 TTT
1 TTT
44682692 ACAGAATTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
53 3 0.06
54 44 0.90
55 2 0.04
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (54 bp):
TTTGTAAAAATACTAAAATACCCTCGACTTGTAAAATTACTCAAATACTCCCGA
Found at i:44682713 original size:27 final size:27
Alignment explanation
Indices: 44682682--44682861 Score: 211
Period size: 27 Copynumber: 6.7 Consensus size: 27
44682672 TACCAAAGTA
44682682 ACCC-CGATTTACAGAATTACTGTTTT
1 ACCCTCGATTTACAGAATTACTGTTTT
* * **
44682708 ACCCCCGATTTACAAAATTACCATTTT
1 ACCCTCGATTTACAGAATTACTGTTTT
* *
44682735 ACCCCCGATTTACATAATTA-TCGTTTT
1 ACCCTCGATTTACAGAATTACT-GTTTT
* * *
44682762 ACCCTTGACTTACAGAATTACCGTTTT
1 ACCCTCGATTTACAGAATTACTGTTTT
* *
44682789 ACCCTTGATTTATAGAATTACTGTTTT
1 ACCCTCGATTTACAGAATTACTGTTTT
* *
44682816 ACCCTTGATTTACAGAATTAATGTTTT
1 ACCCTCGATTTACAGAATTACTGTTTT
*
44682843 ACCCTCGATTTACAAAATT
1 ACCCTCGATTTACAGAATT
44682862 GCTAAAATAC
Statistics
Matches: 133, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
26 4 0.03
27 129 0.97
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (27 bp):
ACCCTCGATTTACAGAATTACTGTTTT
Found at i:44682873 original size:54 final size:54
Alignment explanation
Indices: 44682761--44682876 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 54
44682751 ATTATCGTTT
* * * * ****
44682761 TACCCTTGACTTACAGAATTACCGTTTTACCCTTGATTTATAGAATTACTGTTT
1 TACCCTTGACTTACAGAATTAACGTTTTACCCTCGATTTACAAAATTACTAAAA
* * *
44682815 TACCCTTGATTTACAGAATTAATGTTTTACCCTCGATTTACAAAATTGCTAAAA
1 TACCCTTGACTTACAGAATTAACGTTTTACCCTCGATTTACAAAATTACTAAAA
44682869 TACCCTTG
1 TACCCTTG
44682877 GTTTGTAAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (54 bp):
TACCCTTGACTTACAGAATTAACGTTTTACCCTCGATTTACAAAATTACTAAAA
Found at i:44682886 original size:27 final size:27
Alignment explanation
Indices: 44682856--44683093 Score: 178
Period size: 27 Copynumber: 8.7 Consensus size: 27
44682846 CTCGATTTAC
* * *
44682856 AAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
*
44682883 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
*
44682910 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* * * *
44682937 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* *
44682964 AAAATTACCAAAATACCCCT-GATT-T
1 AAAATTACCAAAATACCCTTAGTTTGT
* *
44682989 ACAAAGTTA-CAGAAATACCCTTGACTTTCT
1 A-AAA-TTACCA-AAATACCCTT-AGTTTGT
* * * * **
44683019 AAAAATTA-TAGAAATATCATTAGTATAC
1 -AAAATTACCA-AAATACCCTTAGTTTGT
* *
44683047 AAAATTACTAAAATACCTTTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* * *
44683074 AGATTTACCAAAACACCCTT
1 AAAATTACCAAAATACCCTT
44683094 GTAGGATGAA
Statistics
Matches: 166, Mismatches: 37, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
25 2 0.01
26 7 0.04
27 132 0.80
28 5 0.03
29 15 0.09
30 4 0.02
31 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAGTTTGT
Found at i:44683155 original size:27 final size:27
Alignment explanation
Indices: 44683125--44683216 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
44683115 ACCCCTATTA
*
44683125 GGTAAAAAGACCGTAAAGCCCCAGTAG
1 GGTAAAATGACCGTAAAGCCCCAGTAG
*
44683152 GGTAAAGTGACCGTAAAGCCCCTA-TAG
1 GGTAAAATGACCGTAAAGCCCC-AGTAG
* * *
44683179 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCAGTAG
44683206 GGTAAAATGAC
1 GGTAAAATGAC
44683217 GAATATGCCC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
27 55 0.96
28 2 0.04
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCAGTAG
Found at i:44684509 original size:11 final size:11
Alignment explanation
Indices: 44684473--44684528 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
44684463 CATGGTATGT
44684473 ATGATATGCAC
1 ATGATATGCAC
* *
44684484 ATGACATG--T
1 ATGATATGCAC
44684493 ATGATATGCAC
1 ATGATATGCAC
*
44684504 ATGATATG--T
1 ATGATATGCAC
44684513 ATGATATGCAC
1 ATGATATGCAC
44684524 ATGAT
1 ATGAT
44684529 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:44684528 original size:20 final size:20
Alignment explanation
Indices: 44684462--44684528 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
44684452 ATTTTGATAA
*
44684462 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
44684482 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
44684502 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
44684522 ACATGAT
1 ACATGAT
44684529 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:44684649 original size:49 final size:49
Alignment explanation
Indices: 44684577--44684845 Score: 391
Period size: 49 Copynumber: 5.5 Consensus size: 49
44684567 GGAGGAAGTG
* *
44684577 TAAAAGGGCTTATGCCCTAGTTATTAAAAAGGGCTTACGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTATGCCCCAGTTAT
* *
44684626 TAAAAGGGCTTATGCCCCAGTTA-TCAAAAGGGCTTATGCCTCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTATGCCCCAGTTAT
* *
44684674 CAAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTACGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTATGCCCCAGTTAT
* *
44684723 TAAATAGGGCTTATGCCCTAGTTATTAAATAGGGCTTATGCCCCAGTTAT
1 TAAA-AGGGCTTATGCCCCAGTTATTAAAAAGGGCTTATGCCCCAGTTAT
* *
44684773 CAAAAGGGCTTATGCCCCAGTTATT-AAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTATGCCCCAGTTAT
*
44684821 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
44684846 ATGATAAAGC
Statistics
Matches: 198, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
48 75 0.38
49 78 0.39
50 45 0.23
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (49 bp):
TAAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTATGCCCCAGTTAT
Found at i:44684841 original size:25 final size:24
Alignment explanation
Indices: 44684577--44684845 Score: 387
Period size: 24 Copynumber: 11.0 Consensus size: 24
44684567 GGAGGAAGTG
*
44684577 TAAAAGGGCTTATGCCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
44684601 TAAAAAGGGCTTACGCCCCAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
44684626 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
44684650 CAAAAGGGCTTATGCCTCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
44684674 CAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
44684698 TAAAAAGGGCTTACGCCCCAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
*
44684723 TAAATAGGGCTTATGCCCTAGTTAT
1 TAAA-AGGGCTTATGCCCCAGTTAT
44684748 TAAATAGGGCTTATGCCCCAGTTAT
1 TAAA-AGGGCTTATGCCCCAGTTAT
*
44684773 CAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
44684797 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
44684821 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
44684846 ATGATAAAGC
Statistics
Matches: 224, Mismatches: 16, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
24 123 0.55
25 101 0.45
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:44684845 original size:123 final size:122
Alignment explanation
Indices: 44684578--44684825 Score: 415
Period size: 123 Copynumber: 2.0 Consensus size: 122
44684568 GAGGAAGTGT
* *
44684578 AAAAGGGCTTATGCCCTAGTTATTAAAAAGGGCTTACGCCCCAGTTATTAAAAGGGCTTATGCCC
1 AAAAGGGCTTACGCCCCAGTTATTAAAAAGGGCTTACGCCCCAGTTATTAAAAGGGCTTATGCCC
*
44684643 CAGTTATCAAAAGGGCTTATGCCTCAGTTATCAAAAGGGCTTATGCCCCAGTTATTA
66 CAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTA
* * *
44684700 AAAAGGGCTTACGCCCCAGTTATTAAATAGGGCTTATGCCCTAGTTATTAAATAGGGCTTATGCC
1 AAAAGGGCTTACGCCCCAGTTATTAAAAAGGGCTTACGCCCCAGTTATTAAA-AGGGCTTATGCC
* *
44684765 CCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATTA
65 CCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTA
44684823 AAA
1 AAA
44684826 GAGGCTAGGC
Statistics
Matches: 117, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
122 47 0.40
123 70 0.60
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (122 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAAAGGGCTTACGCCCCAGTTATTAAAAGGGCTTATGCCC
CAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTA
Found at i:44687247 original size:27 final size:28
Alignment explanation
Indices: 44687217--44687307 Score: 100
Period size: 27 Copynumber: 3.4 Consensus size: 28
44687207 TTTAGTTTAC
44687217 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* *
44687244 TAAAAATT-CTGAAATACCC-TCGATTTG
1 T-AAAATTACCGAAATACCCTTAGATTTG
* * *
44687271 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
44687298 TAAAATTACC
1 TAAAATTACC
44687308 AAAGTAGCCT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
26 10 0.18
27 40 0.71
28 6 0.11
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:44687320 original size:27 final size:26
Alignment explanation
Indices: 44687241--44687320 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
44687231 TACCCTTAGT
* *
44687241 TTGTAAAAATT-CTGAAATACCCTCGAT
1 TTGT-AAAATTACTCAAATA-CCTCGAC
*
44687268 TTGTAAAATTACTGAAATACCTTCGAC
1 TTGTAAAATTACTCAAATACC-TCGAC
44687295 TTGTAAAATTAC-CAAAGTAGCCTCGA
1 TTGTAAAATTACTCAAA-TA-CCTCGA
44687321 TTTCCAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
26 11 0.23
27 34 0.72
28 2 0.04
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (26 bp):
TTGTAAAATTACTCAAATACCTCGAC
Found at i:44687524 original size:27 final size:27
Alignment explanation
Indices: 44687315--44687523 Score: 249
Period size: 27 Copynumber: 7.7 Consensus size: 27
44687305 ACCAAAGTAG
* *
44687315 CCTCGATTTCCAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* * * *
44687342 CCCCGTTTTACATAATTACTATTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* *
44687369 CCCCGATTTACATAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* *
44687396 CCCCGATTTACATAATTA-TCGTTTTAC
1 CCTCGATTTACAGAATTACT-GTTTTAC
* *
44687423 CCTCGACTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
*
44687450 CCTCGATTTATAGAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
** *
44687477 CCTTAATTTACAGAATTACTATTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
*
44687504 CCTCGATTTACAAAATTACT
1 CCTCGATTTACAGAATTACT
44687524 AAAATACCCT
Statistics
Matches: 158, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 157 0.99
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (27 bp):
CCTCGATTTACAGAATTACTGTTTTAC
Found at i:44687531 original size:27 final size:27
Alignment explanation
Indices: 44687501--44687639 Score: 136
Period size: 27 Copynumber: 5.1 Consensus size: 27
44687491 ATTACTATTT
* *
44687501 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
44687528 TACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
44687555 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * * *
44687582 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
44687609 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
44687636 TACC
1 TACC
44687640 TCTAATTTAC
Statistics
Matches: 90, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:44687532 original size:54 final size:54
Alignment explanation
Indices: 44687430--44687534 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
44687420 TACCCTCGAC
* * * ****
44687430 TTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTAAT
1 TTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTAAT
*
44687484 TTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTT
1 TTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTT
44687535 GGTTTATAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (54 bp):
TTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTAAT
Found at i:44687541 original size:81 final size:81
Alignment explanation
Indices: 44687366--44687542 Score: 185
Period size: 81 Copynumber: 2.2 Consensus size: 81
44687356 ATTACTATTT
* * * * * *
44687366 TACCCCCGATTTACATAATTACTGTTTTACCCCCGATTTACATAATTATCGTTTTACCCTCGACT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCCCAATTTACAGAATTATCATTTTACCCTCGACT
* ****
44687431 TACAGAATTACCGTTT
66 TACAAAATTACCAAAA
** *
44687447 TACCCTCGATTTATAGAATTACTGTTTTACCCTTAATTTACAGAATTA-CTATTTTACCCTCGAT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCCCAATTTACAGAATTATC-ATTTTACCCTCGAC
*
44687511 TTACAAAATTACTAAAA
65 TTACAAAATTACCAAAA
* *
44687528 TACCCTTGGTTTATA
1 TACCCTCGATTTATA
44687543 AAATCACCAA
Statistics
Matches: 78, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 1 0.01
81 77 0.99
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACTGTTTTACCCCCAATTTACAGAATTATCATTTTACCCTCGACT
TACAAAATTACCAAAA
Found at i:44687559 original size:54 final size:54
Alignment explanation
Indices: 44687501--44687639 Score: 181
Period size: 54 Copynumber: 2.6 Consensus size: 54
44687491 ATTACTATTT
* ** *
44687501 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
* * * * *
44687555 TACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
44687609 TACCCTCAATTTGTAAAATTACCAAAATACC
1 TACCCTCAATTTGTAAAATTACCAAAATACC
44687640 TCTAATTTAC
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 71 0.97
55 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:44687601 original size:81 final size:81
Alignment explanation
Indices: 44687516--44687670 Score: 186
Period size: 81 Copynumber: 1.9 Consensus size: 81
44687506 TCGATTTACA
* *** * **
44687516 AAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAAAATTACCA-A
1 AAATTACCAAAATACCCTCAATTTATAAAATCACCAAAATACCCCTAATTTACAAAATTA-CAGA
44687580 AATACCCTTGGTTTGTG
65 AATACCCTTGGTTTGTG
* * * * *
44687597 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCTCTAATTTACAAAGTTACAGAA
1 AAATTACCAAAATACCCTCAATTTATAAAATCACCAAAATACCCCTAATTTACAAAATTACAGAA
44687662 ATACCCTTG
66 ATACCCTTG
44687671 ACTTTCTAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
80 2 0.03
81 59 0.97
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTATAAAATCACCAAAATACCCCTAATTTACAAAATTACAGAA
ATACCCTTGGTTTGTG
Found at i:44687647 original size:27 final size:26
Alignment explanation
Indices: 44687515--44687639 Score: 142
Period size: 27 Copynumber: 4.7 Consensus size: 26
44687505 CTCGATTTAC
* * *
44687515 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCC-TAGTTTGT
*
44687542 AAAATCACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGT
*
44687569 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCC-TAGTTTGT
* * *
44687596 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCT-AGTTTGT
44687623 AAAATTACCAAAATACC
1 AAAATTACCAAAATACC
44687640 TCTAATTTAC
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.05
27 76 0.92
28 3 0.04
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTAGTTTGT
Found at i:44687657 original size:27 final size:27
Alignment explanation
Indices: 44687474--44687668 Score: 108
Period size: 27 Copynumber: 7.2 Consensus size: 27
44687464 ATTACTGTTT
* * * ***
44687474 TACCCTTAATTTACAGAATTACTATTT
1 TACCCTCAATTTACAAAATTACCAAAA
* *
44687501 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
*** * *
44687528 TACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
* **
44687555 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTACAAAATTACCAAAA
*** *** *
44687582 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCAATTTACAAAATTACCAAAA
**
44687609 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
*
44687636 TA-CCTCTAATTTACAAAGTTA-CAGAAA
1 TACCCTC-AATTTACAAAATTACCA-AAA
44687663 TACCCT
1 TACCCT
44687669 TGACTTTCTA
Statistics
Matches: 136, Mismatches: 27, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
26 6 0.04
27 127 0.93
28 3 0.02
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACCAAAA
Found at i:44687663 original size:54 final size:54
Alignment explanation
Indices: 44687564--44687668 Score: 133
Period size: 54 Copynumber: 1.9 Consensus size: 54
44687554 ATACCCCTAG
** ** *
44687564 TTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCCTTAATTTGACAAATTACAGAAATACCCTCAA
44687618 TTTGTAAAATTACCAAAATA-CCTCTAATTT-ACAAAGTTACAGAAATACCCT
1 TTTGTAAAATTACCAAAATACCCT-TAATTTGACAAA-TTACAGAAATACCCT
44687669 TGACTTTCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
53 6 0.14
54 38 0.86
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCCTTAATTTGACAAATTACAGAAATACCCTCAA
Found at i:44687814 original size:27 final size:26
Alignment explanation
Indices: 44687784--44687875 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 26
44687774 ACCCCTATTA
* *
44687784 GGTAAAAAGACCGTGAAGCCCCTGTAG
1 GGTAAAATGACCGT-AAGCCCCTGTAT
*
44687811 GGTAAAGTGACCGTAAAGCCCCTGTAT
1 GGTAAAATGACCGT-AAGCCCCTGTAT
*
44687838 GGTAAAATGACCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAA-GCCCCTGTAT
44687865 GGTAAAATGAC
1 GGTAAAATGAC
44687876 GAATATGCCC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.03
27 56 0.97
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (26 bp):
GGTAAAATGACCGTAAGCCCCTGTAT
Found at i:44687890 original size:25 final size:27
Alignment explanation
Indices: 44687771--44687875 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
44687761 AAATGACTAA
* *
44687771 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* * *
44687798 GAA-GCCCCTGTAGGGTAAAGTGACCGT
1 -AATACCCCTGTATGGTAAAATGACCGT
44687825 AA-AGCCCCTGTATGGTAAAATGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
44687852 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
44687876 GAATATGCCC
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
26 2 0.03
27 61 0.92
28 3 0.05
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:44688519 original size:14 final size:14
Alignment explanation
Indices: 44688502--44688543 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
44688492 GTGGTTGATT
44688502 ATAGGAGATATCGC
1 ATAGGAGATATCGC
*
44688516 ATAGGAGATCTCGTC
1 ATAGGAGATATCG-C
44688531 A-AGGA-ATATCGC
1 ATAGGAGATATCGC
44688543 A
1 A
44688544 AATCAGGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 2 0.08
13 5 0.20
14 16 0.64
15 2 0.08
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (14 bp):
ATAGGAGATATCGC
Found at i:44689168 original size:11 final size:11
Alignment explanation
Indices: 44689132--44689187 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
44689122 CATGGTATGT
44689132 ATGATATGCAC
1 ATGATATGCAC
* *
44689143 ATGACATG--T
1 ATGATATGCAC
44689152 ATGATATGCAC
1 ATGATATGCAC
*
44689163 ATGATATG--T
1 ATGATATGCAC
44689172 ATGATATGCAC
1 ATGATATGCAC
44689183 ATGAT
1 ATGAT
44689188 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:44689187 original size:20 final size:20
Alignment explanation
Indices: 44689121--44689187 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
44689111 ATTTTGATAA
*
44689121 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
44689141 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
44689161 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
44689181 ACATGAT
1 ACATGAT
44689188 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:44689263 original size:24 final size:24
Alignment explanation
Indices: 44689236--44689503 Score: 369
Period size: 24 Copynumber: 11.0 Consensus size: 24
44689226 GGAGAAAGTG
44689236 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
44689260 TAAAAAGGGCTTACGCCCCAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
44689285 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
44689309 CAAAAGGGCTTATGCCTCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
44689333 CAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
44689357 TAAAAAGGGCTTATGCCCCAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
*
44689382 TAAAAAGGGCTTGTGCCCCAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
**
44689407 TAAAAAGGGCTTATGCCTTAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
* *
44689432 CAAAAGGGCTTACGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
44689456 GAAAAGGGCTTATGCCCCA-TTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
44689479 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
44689504 ATGACAAAGC
Statistics
Matches: 221, Mismatches: 18, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
23 14 0.06
24 111 0.50
25 96 0.43
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:44690969 original size:28 final size:27
Alignment explanation
Indices: 44690928--44691024 Score: 106
Period size: 28 Copynumber: 3.5 Consensus size: 27
44690918 TGTATATAGC
*
44690928 CCATTAGGCCCAATCTCATTCACATGG
1 CCATTAGGCCCAATCTCATTCATATGG
* * *
44690955 CACATTAGGCCCAATCACATTTATGTGG
1 C-CATTAGGCCCAATCTCATTCATATGG
*
44690983 CCCATTAGGCCCAAAACAT-ATTCATATGG
1 -CCATTAGGCCC-AATC-TCATTCATATGG
44691012 CCATTAGGCCCAA
1 CCATTAGGCCCAA
44691025 ATAACATTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
27 3 0.05
28 43 0.74
29 12 0.21
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (27 bp):
CCATTAGGCCCAATCTCATTCATATGG
Found at i:44690987 original size:56 final size:57
Alignment explanation
Indices: 44690926--44691034 Score: 152
Period size: 56 Copynumber: 1.9 Consensus size: 57
44690916 CCTGTATATA
* *
44690926 GCCCATTAGGCCC-AATC-TCATTCACATGGCACATTAGGCCC-AATCACATTTATGTG
1 GCCCATTAGGCCCAAAACAT-ATTCACATGGC-CATTAGGCCCAAATAACATTTATGTG
*
44690982 GCCCATTAGGCCCAAAACATATTCATATGGCCATTAGGCCCAAATAACATTTA
1 GCCCATTAGGCCCAAAACATATTCACATGGCCATTAGGCCCAAATAACATTTA
44691035 CAATCATGCT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
56 23 0.49
57 23 0.49
58 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (57 bp):
GCCCATTAGGCCCAAAACATATTCACATGGCCATTAGGCCCAAATAACATTTATGTG
Found at i:44696587 original size:25 final size:25
Alignment explanation
Indices: 44696559--44696609 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
44696549 CCCTTATAAT
*
44696559 GTGAAAATGACCT-TTTTACCCTTAG
1 GTGAAAATGA-CTATTTTACCCCTAG
44696584 GTGAAAATGACTATTTTACCCCTAG
1 GTGAAAATGACTATTTTACCCCTAG
44696609 G
1 G
44696610 GTTATGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (25 bp):
GTGAAAATGACTATTTTACCCCTAG
Found at i:44696688 original size:11 final size:10
Alignment explanation
Indices: 44696653--44696697 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
44696643 TTTGTACATA
* *
44696653 ATATTCCATA
1 ATATGCCATG
44696663 ATATGCCATG
1 ATATGCCATG
44696673 ATATGCACATG
1 ATATGC-CATG
*
44696684 GTATGCCATG
1 ATATGCCATG
44696694 ATAT
1 ATAT
44696698 ATATATGCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 21 0.70
11 9 0.30
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (10 bp):
ATATGCCATG
Found at i:44696769 original size:25 final size:25
Alignment explanation
Indices: 44696741--44696804 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
44696731 GGACGTGCTT
* *
44696741 AAGGGCTATGCCCCAGTTTACCGAA
1 AAGGGCTTTGCCCCAGTTTACCAAA
*
44696766 AAGGGCTTTGCCCCAGTTTATCAAA
1 AAGGGCTTTGCCCCAGTTTACCAAA
*
44696791 AAGAGCTTTGCCCC
1 AAGGGCTTTGCCCC
44696805 GGTTATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (25 bp):
AAGGGCTTTGCCCCAGTTTACCAAA
Found at i:44704414 original size:10 final size:10
Alignment explanation
Indices: 44704403--44704447 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
44704393 TTTGTACATA
*
44704403 ATATGCCATA
1 ATATGCCATG
44704413 ATATGCCATG
1 ATATGCCATG
44704423 ATATGCACATG
1 ATATGC-CATG
*
44704434 ATACGCCATG
1 ATATGCCATG
44704444 ATAT
1 ATAT
44704448 ATATATATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (10 bp):
ATATGCCATG
Found at i:44704443 original size:21 final size:20
Alignment explanation
Indices: 44704403--44704447 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
44704393 TTTGTACATA
*
44704403 ATATGCCATAATATGCCATG
1 ATATGCCATAATACGCCATG
*
44704423 ATATGCACATGATACGCCATG
1 ATATGC-CATAATACGCCATG
44704444 ATAT
1 ATAT
44704448 ATATATATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (20 bp):
ATATGCCATAATACGCCATG
Found at i:44704521 original size:25 final size:25
Alignment explanation
Indices: 44704493--44704560 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
44704483 AGAAGTGCTT
* *
44704493 AAGGGCTATGCCCCAGTTTACCGAA
1 AAGGGCTTTGCCCCAGTTTACCAAA
* *
44704518 AAGGGCTTTGCCCCAATTTATCAAA
1 AAGGGCTTTGCCCCAGTTTACCAAA
*
44704543 AAGGGCTTTGCCCAAGTT
1 AAGGGCTTTGCCCCAGTT
44704561 ATTTAAAGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (25 bp):
AAGGGCTTTGCCCCAGTTTACCAAA
Done.