Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 63 of 311
Found at i:18857073 original size:40 final size:40
Alignment explanation
Indices: 18857029--18857251 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
18857019 GCTCCTCGTT
* *
18857029 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
18857069 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
18857109 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCG-A
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* *
18857147 CAAATGCCTTC-GGATCTTAGTCCGGAT-TAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCA
* * * *
18857186 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
18857227 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18857252 CATCATTCAA
Statistics
Matches: 162, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
37 2 0.01
38 22 0.14
39 57 0.35
40 70 0.43
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:18857211 original size:117 final size:119
Alignment explanation
Indices: 18857029--18857251 Score: 294
Period size: 117 Copynumber: 1.9 Consensus size: 119
18857019 GCTCCTCGTT
*
18857029 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
18857094 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGA
* * * **
18857147 CAAATGCCTTC-GGATCTTAGTCCGGAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
18857209 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
18857252 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
116 3 0.03
117 49 0.54
118 39 0.43
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (119 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGA
Found at i:18865023 original size:39 final size:39
Alignment explanation
Indices: 18864928--18865108 Score: 213
Period size: 39 Copynumber: 4.6 Consensus size: 39
18864918 TCCTCGTTCA
* * * *
18864928 AATGCCTTCGGGACATAGCCCGG-TTTAGTAACTCACAC-
1 AATGCCTTC-GGACTTAACCCGGATTTAATAACTCGCACG
* *
18864966 AATGCCTTCGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGACTTAACCCGGATTTAATAACTCGCACG
*
18865005 ACTGCCTTCGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGACTTAACCCGGATTTAATAACTCGCACG
* * *
18865044 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTC-GGACTTAACCCGGATTTAATAACTCGCACG
* *
18865084 AAGGCCTTCGGATCTTAATCCGGAT
1 AATGCCTTCGGA-CTTAACCCGGAT
18865109 ATATTCACTT
Statistics
Matches: 126, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
37 12 0.10
38 21 0.17
39 47 0.37
40 46 0.37
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:18865069 original size:40 final size:38
Alignment explanation
Indices: 18864928--18865147 Score: 208
Period size: 40 Copynumber: 5.6 Consensus size: 38
18864918 TCCTCGTTCA
* * * *
18864928 AATGCCTTCGGGACATAGCCCGG-TTTAGTAACTCACAC
1 AATGCCTTC-GGACTTAACCCGGATTTAATAACTCGCAC
* *
18864966 AATGCCTTCGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGACTTAACCCGGATTTAATAACTCGCAC
*
18865004 GACTGCCTTCGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGACTTAACCCGGATTTAATAACTCGCAC
* *
18865043 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTC-GGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
18865083 AAAGGCCTTCGGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
18865124 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTC-GGACTTAACCCGGA
18865148 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
37 12 0.08
38 21 0.14
39 47 0.30
40 67 0.43
41 8 0.05
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (38 bp):
AATGCCTTCGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:18868729 original size:26 final size:26
Alignment explanation
Indices: 18868663--18868732 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
18868653 CGTTCCGACC
* *
18868663 CACAGCTCATGTGAACAGACCCATTT
1 CACAGCTCATGTGAGCATACCCATTT
* * *
18868689 CACAGCTCGTGTGAGCATACTCTTTT
1 CACAGCTCATGTGAGCATACCCATTT
18868715 CACAGCTCATGTGAGCAT
1 CACAGCTCATGTGAGCAT
18868733 TTATGTAAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.27
Consensus pattern (26 bp):
CACAGCTCATGTGAGCATACCCATTT
Found at i:18872841 original size:28 final size:28
Alignment explanation
Indices: 18872801--18872893 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
18872791 GTGTACTATG
18872801 ATACCCCTATGTATGCAAAATTACCATA
1 ATACCCCTATGTATGCAAAATTACCATA
18872829 ATACCCCTATGTATGCAAAATTACCATA
1 ATACCCCTATGTATGCAAAATTACCATA
* * *
18872857 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATA
18872885 ATACCCCTA
1 ATACCCCTA
18872894 GGGTTAATTT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATA
Found at i:18873062 original size:27 final size:27
Alignment explanation
Indices: 18873000--18873089 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
18872990 AAGAAGCGTC
18873000 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* * *
18873028 CTGGTGGCCCTGCCACATATATTTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
18873055 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
18873084 CTGGTG
1 CTGGTG
18873090 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 22 0.42
28 24 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:18884676 original size:30 final size:30
Alignment explanation
Indices: 18884642--18884701 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
18884632 ATTTAATACG
*
18884642 AACTTTGGAAAAATTACATTTTTACCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
* * * *
18884672 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
18884702 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTACCCCTA
Found at i:18900122 original size:20 final size:22
Alignment explanation
Indices: 18900076--18900122 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
18900066 GGAATCCAAG
18900076 AATTTTCATTATGTTTTAGTTA
1 AATTTTCATTATGTTTTAGTTA
*
18900098 AATTTTC-TTA-GTTTTATTTA
1 AATTTTCATTATGTTTTAGTTA
*
18900118 CATTT
1 AATTT
18900123 AATAAAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 13 0.57
21 3 0.13
22 7 0.30
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (22 bp):
AATTTTCATTATGTTTTAGTTA
Found at i:18900760 original size:21 final size:21
Alignment explanation
Indices: 18900734--18900777 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
18900724 ATACACTTAG
18900734 CTTAATTGAGCT-ATTACTAAA
1 CTTAATTGAGCTAATTA-TAAA
18900755 CTTAATTGAGCTAATTATAAA
1 CTTAATTGAGCTAATTATAAA
18900776 CT
1 CT
18900778 ACAAGACCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
CTTAATTGAGCTAATTATAAA
Found at i:18910302 original size:46 final size:46
Alignment explanation
Indices: 18910244--18910414 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
18910234 ACACCTCATA
18910244 GCCGATGCATGTCCCAAACATGTCTTACACTGGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATCTCGAG
* * * * *
18910290 GCCAATGCATGTCCCAAACATGTCTTACATTAGCTCTCATCTCAAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATCTCGAG
** * * * *
18910336 GTTGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCAT-CTCGAG
* *
18910384 GCCGATGCATGTCTCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAAACATGTCTTACACT
18910415 AGCACACAAA
Statistics
Matches: 101, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
46 53 0.52
47 25 0.25
48 22 0.22
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATCTCGAG
Found at i:18910370 original size:94 final size:92
Alignment explanation
Indices: 18910247--18910417 Score: 220
Period size: 94 Copynumber: 1.8 Consensus size: 92
18910237 CCTCATAGCC
*
18910247 GATGCATGTCCCAAACATGTCTTACACTGGCT-TACAT-CTCGAGGCCAATGCATGTCCCAAACA
1 GATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATAAT-GAGGCCAATGCATGTCCCAAACA
*
18910310 TGTCTTACATTAGCTCTCATCTCAATGTT
64 TGTCTTACACTAGCTCTCATCTCAATGTT
* * * * * *
18910339 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCTCAGACA
1 GATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCATAATGAGGCCAATGCATGTCCCAAACA
18910404 TGTCTTACACTAGC
64 TGTCTTACACTAGC
18910418 ACACAAATAA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
92 4 0.06
93 12 0.18
94 49 0.73
95 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (92 bp):
GATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATGAGGCCAATGCATGTCCCAAACATG
TCTTACACTAGCTCTCATCTCAATGTT
Found at i:18917703 original size:50 final size:50
Alignment explanation
Indices: 18917629--18917914 Score: 332
Period size: 50 Copynumber: 5.8 Consensus size: 50
18917619 TGCTAGGGAT
*
18917629 ATATAAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAG
18917679 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAG
* * * * *
18917729 ATATGAGAGCTAGTGTAAGACCATGTCTGGGATAGGGAATCA-ACT--TG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAG
* * * * ** *
18917776 ATATGTG-TC-AGTATAAGACCATGTTTGGGACATGGCATTGGCAC-CGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTCGAG
* * * * *
18917824 AGATGAGAGCTAGTGTAAGACCATGTCTGAGACATGGTATCGGCCTCGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAG
* * *
18917874 AAATGAGAGTTAGTGTAAGACAATGTCTGGGACATGGCATC
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
18917915 GACTTTGATG
Statistics
Matches: 198, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
45 24 0.12
46 1 0.01
47 8 0.04
48 5 0.03
49 4 0.02
50 156 0.79
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (50 bp):
ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAG
Found at i:18917830 original size:95 final size:99
Alignment explanation
Indices: 18917634--18917914 Score: 295
Period size: 95 Copynumber: 2.9 Consensus size: 99
18917624 GGGATATATA
* * * *
18917634 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATATGAGAGCTAGTGTAAGA
1 AGAGCTAGTGTAAGACCATGTCTGGGACAGGGAATCAGACTC-AGATATGAGAGCTAGTATAAGA
*
18917699 CCATGTCTGGGACATGGCATCAGCCTCGAGATATG
65 CCATGTCTGGGACATGGCATCAGCCTCGAGAGATG
* * * *
18917734 AGAGCTAGTGTAAGACCATGTCTGGGATAGGGAATCA-ACT-TGATATGTG-TC-AGTATAAGAC
1 AGAGCTAGTGTAAGACCATGTCTGGGACAGGGAATCAGACTCAGATATGAGAGCTAGTATAAGAC
* ** *
18917795 CATGTTTGGGACATGGCATTGGCAC-CGATAGATG
66 CATGTCTGGGACATGGCATCAGC-CTCGAGAGATG
* * * * * * *
18917829 AGAGCTAGTGTAAGACCATGTCTGAGACATGGTATCGGCCTC-GATAAATGAGAGTTAGTGTAAG
1 AGAGCTAGTGTAAGACCATGTCTGGGACAGGGAATCAGACTCAGAT--ATGAGAGCTAGTATAAG
*
18917893 ACAATGTCTGGGACATGGCATC
64 ACCATGTCTGGGACATGGCATC
18917915 GACTTTGATG
Statistics
Matches: 148, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
95 68 0.46
96 7 0.05
97 7 0.05
98 4 0.03
99 2 0.01
100 60 0.41
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (99 bp):
AGAGCTAGTGTAAGACCATGTCTGGGACAGGGAATCAGACTCAGATATGAGAGCTAGTATAAGAC
CATGTCTGGGACATGGCATCAGCCTCGAGAGATG
Found at i:18918354 original size:41 final size:41
Alignment explanation
Indices: 18918308--18918387 Score: 160
Period size: 41 Copynumber: 2.0 Consensus size: 41
18918298 AGTAGGTTGA
18918308 TACCTATGGTGTATAATTATGTGGTAAATTTGATGGATGGT
1 TACCTATGGTGTATAATTATGTGGTAAATTTGATGGATGGT
18918349 TACCTATGGTGTATAATTATGTGGTAAATTTGATGGATG
1 TACCTATGGTGTATAATTATGTGGTAAATTTGATGGATG
18918388 ATTATGTGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.28, C:0.05, G:0.26, T:0.41
Consensus pattern (41 bp):
TACCTATGGTGTATAATTATGTGGTAAATTTGATGGATGGT
Found at i:18923815 original size:13 final size:13
Alignment explanation
Indices: 18923797--18923821 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18923787 TATGTGATAT
18923797 GTGTGAAAATTTC
1 GTGTGAAAATTTC
18923810 GTGTGAAAATTT
1 GTGTGAAAATTT
18923822 TATTGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:18924972 original size:22 final size:22
Alignment explanation
Indices: 18924944--18925008 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
18924934 CCAAATACGT
*
18924944 TTGGCACAAAACCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
*
18924966 TTGGCACAGAGCCATATAT-AGG
1 TTGGCACAAAGCCATA-ATCAGG
*
18924988 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
18925009 AATAATTGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:18925521 original size:27 final size:28
Alignment explanation
Indices: 18925428--18925823 Score: 178
Period size: 27 Copynumber: 14.7 Consensus size: 28
18925418 TTTCACCCTA
* * * *
18925428 CAAGGGTGTTTTGGTAAATCTACAAAC-
1 CAAGGGTATTTTGGTAATTTTGCAAACT
*
18925455 CAAGGTTATTTTGGTAATTTTGCAAACT
1 CAAGGGTATTTTGGTAATTTTGCAAACT
* * *
18925483 -AATGGTATTTTTGTAATTTTTG-AAAGT
1 CAAGGGTATTTTGGTAA-TTTTGCAAACT
* ** *
18925510 CAAGGGTATTTTTGCCATTTTGTAAA-T
1 CAAGGGTATTTTGGTAATTTTGCAAACT
* * * *
18925537 CAGGGGTAGTTCT-ATAATTTTCCAAA-T
1 CAAGGGTA-TTTTGGTAATTTTGCAAACT
* *** *
18925564 CAAGGATATTTCAATAATTTTCCAAA-T
1 CAAGGGTATTTTGGTAATTTTGCAAACT
* ** * *
18925591 CAGGGGTATTTTTATAATGTTACAAA-T
1 CAAGGGTATTTTGGTAATTTTGCAAACT
** * * *
18925618 TTAGGGTATTTCGGTAATTTTAC-AAGT
1 CAAGGGTATTTTGGTAATTTTGCAAACT
* ** * * *
18925645 CGAGGGTATTTCAGTAAGTTTAC-AAGT
1 CAAGGGTATTTTGGTAATTTTGCAAACT
* **
18925672 CAAGGGTATTTCGGTAATTTCACAAACT
1 CAAGGGTATTTTGGTAATTTTGCAAACT
* * *
18925700 --AGGGTATTTCGATAATTTTACAAAC-
1 CAAGGGTATTTTGGTAATTTTGCAAACT
* *
18925725 CAGGGGTATTTTGGTAATTTTGCTAA-T
1 CAAGGGTATTTTGGTAATTTTGCAAACT
* * *
18925752 AAATGGTATTTTGGTAATTTTGTAAACT
1 CAAGGGTATTTTGGTAATTTTGCAAACT
** *
18925780 -AAGGGTA-TTCAGTAATTTTGTAAACT
1 CAAGGGTATTTTGGTAATTTTGCAAACT
* *
18925806 -AAGGGCATTTTAGTAATT
1 CAAGGGTATTTTGGTAATT
18925824 CTACCCTACA
Statistics
Matches: 294, Mismatches: 62, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
26 50 0.17
27 216 0.73
28 28 0.10
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (28 bp):
CAAGGGTATTTTGGTAATTTTGCAAACT
Found at i:18925636 original size:81 final size:80
Alignment explanation
Indices: 18925540--18925723 Score: 199
Period size: 81 Copynumber: 2.3 Consensus size: 80
18925530 TGTAAATCAG
* * * * * * **
18925540 GGGTAGTTCTATAATTTTCCAAATCAAGGATATTTCAATAATTTTCCAAATCAGGGGTATTTTTA
1 GGGTATTTCGATAATTTTACAAATCAAGGATATTTCAATAAGTTTACAAATCAAGGGTATTTCGA
*
18925605 TAATGTT-ACAAATTTA
66 TAAT-TTCACAAA-CTA
* * * * * * *
18925621 GGGTATTTCGGTAATTTTACAAGTCGAGGGTATTTCAGTAAGTTTACAAGTCAAGGGTATTTCGG
1 GGGTATTTCGATAATTTTACAAATCAAGGATATTTCAATAAGTTTACAAATCAAGGGTATTTCGA
18925686 TAATTTCACAAACTA
66 TAATTTCACAAACTA
18925701 GGGTATTTCGATAATTTTACAAA
1 GGGTATTTCGATAATTTTACAAA
18925724 CCAGGGGTAT
Statistics
Matches: 84, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
80 25 0.30
81 59 0.70
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (80 bp):
GGGTATTTCGATAATTTTACAAATCAAGGATATTTCAATAAGTTTACAAATCAAGGGTATTTCGA
TAATTTCACAAACTA
Found at i:18925732 original size:53 final size:54
Alignment explanation
Indices: 18925620--18925744 Score: 155
Period size: 53 Copynumber: 2.3 Consensus size: 54
18925610 TTACAAATTT
* * **
18925620 AGGGTATTTCGGTAATTTTACAAGTCGAGGGTATTTCAGTAAGTTTACAAGTCA
1 AGGGTATTTCGGTAATTTCACAAGACGAGGGTATTTCAGTAAGTTTACAAACCA
* *
18925674 AGGGTATTTCGGTAATTTCACAA-ACTAGGGTATTTC-GATAATTTTACAAACCA
1 AGGGTATTTCGGTAATTTCACAAGACGAGGGTATTTCAG-TAAGTTTACAAACCA
* *
18925727 GGGGTATTTTGGTAATTT
1 AGGGTATTTCGGTAATTT
18925745 TGCTAATAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
52 1 0.02
53 39 0.63
54 22 0.35
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTCACAAGACGAGGGTATTTCAGTAAGTTTACAAACCA
Found at i:18925780 original size:80 final size:80
Alignment explanation
Indices: 18925619--18925771 Score: 184
Period size: 80 Copynumber: 1.9 Consensus size: 80
18925609 GTTACAAATT
* ** *
18925619 TAGGGTATTTCGGTAATTTTACAAGTCGAGGGTATTTCAGTAAGTTTACAAGTCAAGGGTATTTC
1 TAGGGTATTTCGATAATTTTACAAACCGAGGGTATTTCAGTAAGTTTACAAGTAAAGGGTATTTC
18925684 GGTAATTTCACAAAC
66 GGTAATTTCACAAAC
** * * *
18925699 TAGGGTATTTCGATAATTTTACAAACC-AGGGGTATTTTGGTAATTTTGCTAA-TAAATGGTATT
1 TAGGGTATTTCGATAATTTTACAAACCGA-GGGTATTTCAGTAAGTTTAC-AAGTAAAGGGTATT
*
18925762 TTGGTAATTT
64 TCGGTAATTT
18925772 TGTAAACTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
79 1 0.02
80 58 0.95
81 2 0.03
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (80 bp):
TAGGGTATTTCGATAATTTTACAAACCGAGGGTATTTCAGTAAGTTTACAAGTAAAGGGTATTTC
GGTAATTTCACAAAC
Found at i:18925838 original size:27 final size:27
Alignment explanation
Indices: 18925808--18925888 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
18925798 TGTAAACTAA
18925808 GGGCATTTTAGTAATTCTACCCTACAG
1 GGGCATTTTAGTAATTCTACCCTACAG
* *
18925835 GGGCATTTCAGTAATTCTATCCTACAG
1 GGGCATTTTAGTAATTCTACCCTACAG
* *
18925862 GGGCATTTTAGTAATACTAGCCTACAG
1 GGGCATTTTAGTAATTCTACCCTACAG
18925889 ATATGAGAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (27 bp):
GGGCATTTTAGTAATTCTACCCTACAG
Found at i:18927596 original size:20 final size:21
Alignment explanation
Indices: 18927564--18927608 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
18927554 TAATTATGTT
18927564 TGTGGATTGAAATGAAT-AAA
1 TGTGGATTGAAATGAATGAAA
*
18927584 TGTGTGATT-AAATTAATGAAA
1 TGTG-GATTGAAATGAATGAAA
18927605 TGTG
1 TGTG
18927609 AATTTATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (21 bp):
TGTGGATTGAAATGAATGAAA
Found at i:18933508 original size:6 final size:6
Alignment explanation
Indices: 18933485--18933543 Score: 68
Period size: 6 Copynumber: 10.0 Consensus size: 6
18933475 TTTTTCTCGA
* *
18933485 TTTTC- TTTTCT TTGTCT TTTTCT TTCTT-T TTTTCT TGTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TT-TTCT TTTTCT TTTTCT TTTTCT
*
18933532 TTTACT TTTTCT
1 TTTTCT TTTTCT
18933544 ACATACTCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
5 7 0.16
6 36 0.80
7 2 0.04
ACGTcount: A:0.02, C:0.17, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTTCT
Found at i:18933525 original size:18 final size:18
Alignment explanation
Indices: 18933467--18933527 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 18
18933457 TTTTCTCACA
* *
18933467 CTTTCCTTTTTTTCTCGAT
1 CTTT-CTTTTTTTCTTGTT
*
18933486 -TTTCTTTTCTTTGTCTTTTT
1 CTTTC-TTT-TTT-TCTTGTT
18933506 CTTTCTTTTTTTCTTGTT
1 CTTTCTTTTTTTCTTGTT
18933524 CTTT
1 CTTT
18933528 TTCTTTTACT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
17 1 0.03
18 16 0.47
19 6 0.18
20 7 0.21
21 4 0.12
ACGTcount: A:0.02, C:0.20, G:0.05, T:0.74
Consensus pattern (18 bp):
CTTTCTTTTTTTCTTGTT
Found at i:18936589 original size:30 final size:30
Alignment explanation
Indices: 18936554--18936634 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
18936544 TTTACGAGTC
* *
18936554 TAGGGGCAAAAATGTAATTTTGACAAAGTT
1 TAGGGGCAAAATTGTAATTTTGACAAAATT
*
18936584 TAGGGGCAAAATTGTAATTTTGATAAAATT
1 TAGGGGCAAAATTGTAATTTTGACAAAATT
* *
18936614 TAAGGGCAAAATTATAATTTT
1 TAGGGGCAAAATTGTAATTTT
18936635 TTCAAAATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.35
Consensus pattern (30 bp):
TAGGGGCAAAATTGTAATTTTGACAAAATT
Found at i:18941304 original size:21 final size:21
Alignment explanation
Indices: 18941278--18941320 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
18941268 AGTTTATGCT
*
18941278 TAAAAAAATATTTG-AAAATAG
1 TAAAAAAA-AGTTGAAAAATAG
18941299 TAAAAAAAAGTTGAAAAATAG
1 TAAAAAAAAGTTGAAAAATAG
18941320 T
1 T
18941321 TTGCGTATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.26
Consensus pattern (21 bp):
TAAAAAAAAGTTGAAAAATAG
Found at i:18947256 original size:12 final size:13
Alignment explanation
Indices: 18947239--18947276 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
18947229 ATCTTGGAAT
18947239 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
18947251 ATTAAGAACACATA
1 ATTAAGAACA-AGA
18947265 ATTAAGAACAAG
1 ATTAAGAACAAG
18947277 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:18954083 original size:4 final size:5
Alignment explanation
Indices: 18954038--18954085 Score: 53
Period size: 5 Copynumber: 9.0 Consensus size: 5
18954028 AAAAGGCAAT
18954038 TAAAA TAAAA TATAGAGA TAAAAA TAAAA TAAAA TAAAA T-AAA TAAAA
1 TAAAA TAAAA TA-A-A-A T-AAAA TAAAA TAAAA TAAAA TAAAA TAAAA
18954086 GGTGTTTTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
4 4 0.11
5 25 0.66
6 3 0.08
7 2 0.05
8 3 0.08
9 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:18988660 original size:52 final size:51
Alignment explanation
Indices: 18988564--18988664 Score: 130
Period size: 52 Copynumber: 2.0 Consensus size: 51
18988554 CTGGACTTCC
** * *
18988564 TCACACGGGCAGCCCAGACGGCCATGTGAAATTGGCAGAATCGAAGCACGAT
1 TCACACGGGCAAACCACACGGCCATGTCAAATTGGCAGAATCGAA-CACGAT
* **
18988616 TCACACGGGCAAACCACACGGCCATGTCAATTTGGCAGGCTCGAACACG
1 TCACACGGGCAAACCACACGGCCATGTCAAATTGGCAGAATCGAACACG
18988665 GCCTGAAGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
51 4 0.10
52 38 0.90
ACGTcount: A:0.30, C:0.30, G:0.27, T:0.14
Consensus pattern (51 bp):
TCACACGGGCAAACCACACGGCCATGTCAAATTGGCAGAATCGAACACGAT
Found at i:18997890 original size:40 final size:40
Alignment explanation
Indices: 18997846--18998030 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
18997836 GCTCCTCGTT
*
18997846 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
18997886 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
18997925 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
18997965 CCAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
18998006 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18998031 CATCATTCAA
Statistics
Matches: 129, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
39 37 0.29
40 82 0.64
41 10 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:18997938 original size:79 final size:81
Alignment explanation
Indices: 18997846--18998030 Score: 252
Period size: 79 Copynumber: 2.3 Consensus size: 81
18997836 GCTCCTCGTT
*
18997846 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
18997909 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* * **
18997925 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
18997990 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
18998006 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18998031 CATCATTCAA
Statistics
Matches: 93, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
79 48 0.52
80 37 0.40
81 8 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:19005919 original size:118 final size:120
Alignment explanation
Indices: 19005736--19005959 Score: 312
Period size: 118 Copynumber: 1.9 Consensus size: 120
19005726 GCTCCTCGTT
*
19005736 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
19005801 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
19005856 CAAATGCCTTC-GGACTTAGCCCGGAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* * *
19005918 GATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
65 GATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
19005960 CATCATTCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
117 3 0.03
118 57 0.62
119 21 0.23
120 11 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:19005959 original size:40 final size:40
Alignment explanation
Indices: 19005736--19005959 Score: 303
Period size: 40 Copynumber: 5.7 Consensus size: 40
19005726 GCTCCTCGTT
* *
19005736 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
19005776 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
19005816 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
19005856 CAAATGCCTTC-GGACTTAGCCCGGAT-TAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
19005894 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
19005935 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19005960 CATCATTCAA
Statistics
Matches: 168, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
38 25 0.15
39 25 0.15
40 107 0.64
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:19008852 original size:42 final size:42
Alignment explanation
Indices: 19008757--19008869 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 42
19008747 GTAACTCAAG
* * *
19008757 AATCTCGCACATTAAGTGCCAATACATAGCCCAAGCTATCTC
1 AATCTCGCACACTAAGTGCCAATACATAGCCAAAGCCATCTC
* * *
19008799 AAT-TACACACACTAAGTGCCAACT-CATAGTCAAAGCCATCTT
1 AATCT-CGCACACTAAGTGCCAA-TACATAGCCAAAGCCATCTC
* *
19008841 GATCTCGCACACTAAGTGCC-ATATATAGC
1 AATCTCGCACACTAAGTGCCAATACATAGC
19008870 TGAAGCTATG
Statistics
Matches: 57, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
40 1 0.02
41 6 0.11
42 48 0.84
43 2 0.04
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (42 bp):
AATCTCGCACACTAAGTGCCAATACATAGCCAAAGCCATCTC
Found at i:19013012 original size:25 final size:25
Alignment explanation
Indices: 19012984--19013033 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
19012974 TGCCAAAGAA
19012984 CTTTTACCAAAGCTACCATTTTGTT
1 CTTTTACCAAAGCTACCATTTTGTT
19013009 CTTTTACCAAAGCTACCATTTTGTT
1 CTTTTACCAAAGCTACCATTTTGTT
19013034 TCTTAACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (25 bp):
CTTTTACCAAAGCTACCATTTTGTT
Found at i:19021447 original size:40 final size:40
Alignment explanation
Indices: 19021360--19021448 Score: 160
Period size: 40 Copynumber: 2.2 Consensus size: 40
19021350 TAACAACCAG
* *
19021360 CACGAATACCTTCGGGACTTAACCCGGTTATAATAACCCG
1 CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCA
19021400 CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCA
1 CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCA
19021440 CACGAATGC
1 CACGAATGC
19021449 TATGCACATA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (40 bp):
CACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCA
Found at i:19029827 original size:40 final size:40
Alignment explanation
Indices: 19029783--19029950 Score: 282
Period size: 40 Copynumber: 4.2 Consensus size: 40
19029773 AACAACCAGA
*
19029783 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGC
1 ACGAATGCCTTCGGGACTTAACCCGATTATAATAACCCGC
* *
19029823 ACGAATGCCTTTGGGACTTAACCCGATTATAATAACCTGC
1 ACGAATGCCTTCGGGACTTAACCCGATTATAATAACCCGC
* *
19029863 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCTGC
1 ACGAATGCCTTCGGGACTTAACCCGATTATAATAACCCGC
19029903 ACGAATGCCTTCGGGACTTAACCCGATTATAATAACCCGC
1 ACGAATGCCTTCGGGACTTAACCCGATTATAATAACCCGC
*
19029943 ATGAATGC
1 ACGAATGC
19029951 TATGCACATA
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 120 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (40 bp):
ACGAATGCCTTCGGGACTTAACCCGATTATAATAACCCGC
Found at i:19038341 original size:40 final size:39
Alignment explanation
Indices: 19038276--19038450 Score: 269
Period size: 40 Copynumber: 4.4 Consensus size: 39
19038266 CGGATGTAAC
* * *
19038276 AACCAGCACGAATTCCTTCAGGACTTAACCCAGTTATAAT
1 AACCCGCACGAATGCCTTC-GGACTTAACCCGGTTATAAT
*
19038316 AACCCGTACGAATGCCTTCGTGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCG-GACTTAACCCGGTTATAAT
*
19038356 AACCCGTACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTC-GGACTTAACCCGGTTATAAT
19038396 AACCCGCACGAATGCCTTCGAGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCG-GACTTAACCCGGTTATAAT
19038436 AACCCGCACGAATGC
1 AACCCGCACGAATGC
19038451 TATGCAAATA
Statistics
Matches: 127, Mismatches: 5, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
39 2 0.02
40 124 0.98
41 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (39 bp):
AACCCGCACGAATGCCTTCGGACTTAACCCGGTTATAAT
Found at i:19043047 original size:35 final size:35
Alignment explanation
Indices: 19043001--19043071 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
19042991 TCTTGGAAAG
19043001 TTGATATAGCCATGTTAGAGGTTATTAATTTTATC
1 TTGATATAGCCATGTTAGAGGTTATTAATTTTATC
19043036 TTGATATAGCCATGTTAGAGGTTATTAATTTTATC
1 TTGATATAGCCATGTTAGAGGTTATTAATTTTATC
19043071 T
1 T
19043072 ATCTTTCTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.46
Consensus pattern (35 bp):
TTGATATAGCCATGTTAGAGGTTATTAATTTTATC
Found at i:19060834 original size:24 final size:24
Alignment explanation
Indices: 19060789--19060834 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
19060779 AAGCCCTCTC
* *
19060789 GAGCTTTCCGTATAAGGTTCTTGT
1 GAGCTTCCCGTATAAGGCTCTTGT
19060813 GAGCTTCCCG-ATAATGGCTCTT
1 GAGCTTCCCGTATAA-GGCTCTT
19060835 CAGAATGTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (24 bp):
GAGCTTCCCGTATAAGGCTCTTGT
Found at i:19062253 original size:27 final size:27
Alignment explanation
Indices: 19062211--19062275 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
19062201 GGGCAAAGCA
* *
19062211 GTCATTTTACCCTACAGGGGTATGTCG
1 GTCATTTTACACTACAAGGGTATGTCG
* *
19062238 GTCATTTTACAGTACAAGGGTATTTCG
1 GTCATTTTACACTACAAGGGTATGTCG
*
19062265 GTAATTTTACA
1 GTCATTTTACA
19062276 AATTGAGTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACACTACAAGGGTATGTCG
Found at i:19062287 original size:27 final size:27
Alignment explanation
Indices: 19062254--19062525 Score: 298
Period size: 27 Copynumber: 10.2 Consensus size: 27
19062244 TTACAGTACA
19062254 AGGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATTG
* * *
19062281 AGTGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATTG
* *
19062308 AGGGTGTTTCGGT-ATTTTACAAATTA
1 AGGGTATTTCGGTAATTTTACAAATTG
* * *
19062334 AGGGTGTTTCAGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATTG
* * * *
19062361 AGGGTGTTTTGGTAATTTTAGAAATCG
1 AGGGTATTTCGGTAATTTTACAAATTG
* * *
19062388 ATGGTGTTTCGGTAATTTCACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATTG
**
19062415 AGGGTATTTTAGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATTG
** *
19062442 AGGGTATTTTAGTAATTTCAC-AATTG
1 AGGGTATTTCGGTAATTTTACAAATTG
**
19062468 AGGGTATTTCGACAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATTG
* **
19062495 GGGGTA-TTCAATAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATTG
19062521 AGGGT
1 AGGGT
19062526 GTAACACCCC
Statistics
Matches: 209, Mismatches: 34, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
26 66 0.32
27 143 0.68
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATTG
Found at i:19062327 original size:80 final size:81
Alignment explanation
Indices: 19062253--19062525 Score: 354
Period size: 80 Copynumber: 3.4 Consensus size: 81
19062243 TTTACAGTAC
* *
19062253 AAGGGTATTTCGGTAATTTTACAAATTGAGTGTATTTTGGTAATTTTACAAATCGAGGGTGTTTC
1 AAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAATCGAGGGTGTTTC
19062318 GGT-ATTTTACAAATT
66 GGTAATTTTACAAATT
* * * * *
19062333 AAGGGTGTTTCAGTAATTTTACAAATCGAGGGTGTTTTGGTAATTTTAGAAATCGATGGTGTTTC
1 AAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAATCGAGGGTGTTTC
*
19062398 GGTAATTTCACAAATT
66 GGTAATTTTACAAATT
* * * * * *
19062414 GAGGGTATTTTAGTAATTTTACAAATTGAGGGTATTTTAGTAATTTCAC-AATTGAGGGTATTTC
1 AAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAATCGAGGGTGTTTC
**
19062478 GACAATTTTACAAATT
66 GGTAATTTTACAAATT
** *
19062494 GGGGGTA-TTCAATAATTTTACAAATTGAGGGT
1 AAGGGTATTTCAGTAATTTTACAAATTGAGGGT
19062526 GTAACACCCC
Statistics
Matches: 167, Mismatches: 25, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
79 23 0.14
80 92 0.55
81 52 0.31
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAATCGAGGGTGTTTC
GGTAATTTTACAAATT
Found at i:19062349 original size:53 final size:54
Alignment explanation
Indices: 19062254--19062525 Score: 300
Period size: 53 Copynumber: 5.1 Consensus size: 54
19062244 TTACAGTACA
* * ** *
19062254 AGGGTATTTCGGTAATTTTACAAATTGAGTGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATTGAGGGTGTTTCAGTAATTTTACAAATTG
* * *
19062308 AGGGTGTTTCGGT-ATTTTACAAATTAAGGGTGTTTCAGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATTGAGGGTGTTTCAGTAATTTTACAAATTG
* * * * * * *
19062361 AGGGTGTTTTGGTAATTTTAGAAATCGATGGTGTTTCGGTAATTTCACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATTGAGGGTGTTTCAGTAATTTTACAAATTG
** * * *
19062415 AGGGTATTTTAGTAATTTTACAAATTGAGGGTATTTTAGTAATTTCAC-AATTG
1 AGGGTATTTCGGTAATTTTACAAATTGAGGGTGTTTCAGTAATTTTACAAATTG
** *
19062468 AGGGTATTTCGACAATTTTACAAATTG-GGG-GTATTCAATAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATTGAGGGTGT-TTCAGTAATTTTACAAATTG
19062521 AGGGT
1 AGGGT
19062526 GTAACACCCC
Statistics
Matches: 185, Mismatches: 30, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
51 1 0.01
52 14 0.08
53 85 0.46
54 85 0.46
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTACAAATTGAGGGTGTTTCAGTAATTTTACAAATTG
Found at i:19062991 original size:19 final size:19
Alignment explanation
Indices: 19062967--19063005 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
19062957 ATGAGTAAGC
19062967 TTTACGCTTAGTAAGTTCA
1 TTTACGCTTAGTAAGTTCA
19062986 TTTACGCTTAGTAAGTTCA
1 TTTACGCTTAGTAAGTTCA
19063005 T
1 T
19063006 ATGAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (19 bp):
TTTACGCTTAGTAAGTTCA
Found at i:19063974 original size:51 final size:49
Alignment explanation
Indices: 19063857--19064046 Score: 229
Period size: 49 Copynumber: 3.8 Consensus size: 49
19063847 GAAGTTATCT
* * * * *
19063857 GGTACTCATAGTAGCCTGCACTTAGTACTATACATGCGACCAA-TAATC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATTC
* * * * *
19063905 TGGTACACGTAGTAGCCTGCAGTTAGTACTACACACGTGATCACAGTTTTTG
1 -GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATTC
* * *
19063957 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATTC
19064006 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
19064047 TCACAATAGT
Statistics
Matches: 117, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 77 0.66
50 2 0.02
51 36 0.31
52 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATTC
Found at i:19063974 original size:100 final size:100
Alignment explanation
Indices: 19063857--19064044 Score: 315
Period size: 100 Copynumber: 1.9 Consensus size: 100
19063847 GAAGTTATCT
* * *
19063857 GGTACTCATAGTAGCCTGCACTTAGTACTATACATGCGACCAATAA-TCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATTC-GGTACACATAGTAGC
*
19063921 CTGCAGTTAGTACTACACACGTGATCACAGTTTTTG
65 CTGCACTTAGTACTACACACGTGATCACAGTTTTTG
*
19063957 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACATAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATTCGGTACACATAGTAGCC
19064022 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
19064045 CCTCACAATA
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 80 0.98
101 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATTCGGTACACATAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTTG
Found at i:19068400 original size:27 final size:27
Alignment explanation
Indices: 19068303--19068391 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
19068293 TTTAGTTTAC
* * *
19068303 TAAAATTACCGAAATACCCT-TAGTTG
1 TAAAATTACTGAAATACCCTCGACTTG
* *
19068329 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGACTTG
*
19068356 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCCTCGACTTG
19068383 TAAAATTAC
1 TAAAATTAC
19068392 CAAAGTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 18 0.33
27 37 0.67
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.31
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGACTTG
Found at i:19068609 original size:27 final size:27
Alignment explanation
Indices: 19068397--19068608 Score: 230
Period size: 27 Copynumber: 7.9 Consensus size: 27
19068387 ATTACCAAAG
*
19068397 TACCCCCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * **
19068424 TACCCCCGATTTACATAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
19068451 TACCCCCGATTTACATAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* * *
19068478 TACCCTCAACTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* *
19068505 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
19068532 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
19068559 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
19068586 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
19068609 AAAATACCCT
Statistics
Matches: 159, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
27 159 1.00
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:19068616 original size:27 final size:27
Alignment explanation
Indices: 19068559--19068807 Score: 173
Period size: 27 Copynumber: 9.1 Consensus size: 27
19068549 ATTACTGTTT
* * ***
19068559 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTTGATTTATAAAATTACCAAAA
* * *
19068586 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* *
19068613 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* *
19068640 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTATAAAATTACCAAAA
* * * *
19068667 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTATAAAATTACCAAAA
*
19068694 TA-CCTTCAATTTATAAAATTACCAAAA
1 TACCCTT-GATTTATAAAATTACCAAAA
* * *
19068721 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTTGATTTATAAAATTACCA-AAA
* *
19068748 TACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAT-AAAATTACCA-AAA
* * * **
19068777 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTATAAAATTACCAAAA
19068804 TACC
1 TACC
19068808 TTTGGTTTGT
Statistics
Matches: 178, Mismatches: 36, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
26 6 0.03
27 144 0.81
28 10 0.06
29 18 0.10
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTATAAAATTACCAAAA
Found at i:19068897 original size:27 final size:27
Alignment explanation
Indices: 19068856--19068934 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
19068846 AAATGACTAA
*
19068856 AATACCCCTATTAGGGTAAAGTGACCGT
1 AATACCCCT-GTAGGGTAAAGTGACCGT
*
19068884 AA-AGCCCTTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAGTGACCGT
* *
19068911 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAGTGAC
19068935 GAATATGCCC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
27 37 0.84
28 7 0.16
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAGTGACCGT
Found at i:19069765 original size:26 final size:26
Alignment explanation
Indices: 19069736--19069833 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
19069726 GAGGAAGTGT
*
19069736 AAAAAGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
19069762 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
19069788 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
19069814 AAAAGGGCTT-TGCCTCAGTT
1 AAAAGGGCTTATGCCCCAGTT
19069834 ATTGAAAAGG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 9 0.14
26 57 0.86
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:19069814 original size:52 final size:50
Alignment explanation
Indices: 19069736--19069843 Score: 180
Period size: 52 Copynumber: 2.1 Consensus size: 50
19069726 GAGGAAGTGT
*
19069736 AAAAAGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAG-TTATTG
*
19069788 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCTCAGTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTATTG
19069838 AAAAGG
1 AAAAGG
19069844 CTAGGCCTCC
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
50 12 0.22
51 7 0.13
52 35 0.65
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (50 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTATTG
Found at i:19070037 original size:42 final size:42
Alignment explanation
Indices: 19069978--19070069 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
19069968 TAGTCTCCCC
** ** *
19069978 AAATGGGCTTGCATACATTTATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
19070020 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
19070062 AAATGGGC
1 AAATGGGC
19070070 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:19070129 original size:31 final size:31
Alignment explanation
Indices: 19070084--19070171 Score: 131
Period size: 31 Copynumber: 2.8 Consensus size: 31
19070074 GGGCCATACC
*
19070084 ATTTATAGTAAAGGCTTCGGCCCAGTGAAATG
1 ATTTAT-GAAAAGGCTTCGGCCCAGTGAAATG
* * *
19070116 ATTTATGAAAAGGCTTTGGCCCAGTTATATG
1 ATTTATGAAAAGGCTTCGGCCCAGTGAAATG
19070147 ATTTATGAAAAGGCTTCGGCCCAGT
1 ATTTATGAAAAGGCTTCGGCCCAGT
19070172 ATATGTCAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
31 45 0.88
32 6 0.12
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (31 bp):
ATTTATGAAAAGGCTTCGGCCCAGTGAAATG
Found at i:19073677 original size:37 final size:37
Alignment explanation
Indices: 19073627--19073705 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
19073617 TTATTACGAA
* *
19073627 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
19073664 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
19073701 GTCTT
1 GTCTT
19073706 TAAGCTCGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:19073901 original size:47 final size:47
Alignment explanation
Indices: 19073823--19074331 Score: 876
Period size: 47 Copynumber: 10.7 Consensus size: 47
19073813 CCCTTCGGGA
* * * * * *
19073823 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19073870 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19073917 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19073964 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19074011 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19074058 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19074107 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19074154 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19074201 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19074250 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19074297 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
19074332 AGAATCCTAA
Statistics
Matches: 445, Mismatches: 12, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 350 0.79
49 94 0.21
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19074136 original size:143 final size:143
Alignment explanation
Indices: 19073823--19074331 Score: 898
Period size: 143 Copynumber: 3.6 Consensus size: 143
19073813 CCCTTCGGGA
* * * * * * * *
19073823 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
19073888 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
19073951 TCGGCCATTAGGC
131 TCGGCCATTAGGC
19073964 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
19074029 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
19074094 TCGGCCATTAGGC
131 TCGGCCATTAGGC
19074107 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
19074172 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
19074237 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
19074250 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGCA-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
19074314 TGTTCACATCCATCACAT
66 T-TTCACATTCATCACAT
19074332 AGAATCCTAA
Statistics
Matches: 355, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
141 94 0.26
142 1 0.00
143 260 0.73
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:19088531 original size:30 final size:29
Alignment explanation
Indices: 19088466--19088574 Score: 105
Period size: 29 Copynumber: 3.8 Consensus size: 29
19088456 TTCACATACC
* * * *
19088466 TGTATCTGGCCCATTAAGCTC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
19088494 T-TCATATGGCCCCTTTAGGCCCAAATCACC
1 TGT-ATATGG-CCCATTAGGCCCAAATCACA
*
19088524 TGTATATGGCCCATTAGGACCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
19088553 TTTATATGGCCCGTTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
19088575 GACACATTCA
Statistics
Matches: 65, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
27 1 0.02
28 6 0.09
29 45 0.69
30 12 0.18
31 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:19088570 original size:58 final size:58
Alignment explanation
Indices: 19088463--19088574 Score: 147
Period size: 58 Copynumber: 1.9 Consensus size: 58
19088453 AAATTCACAT
* * *
19088463 ACCTGTATCTGGCCCATTAAGCTCAATCATATTCATATGGCCCCTTTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCTCAATCACATTCATATGGCCCCGTTAGGCCCAAATC
* *
19088521 ACCTGTATATGGCCCATTAGGAC-CAAATCACATTTATATGG-CCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAG-CTC-AATCACATTCATATGGCCCCGTTAGGCCCA
19088575 GACACATTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 32 0.68
59 15 0.32
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCTCAATCACATTCATATGGCCCCGTTAGGCCCAAATC
Found at i:19096760 original size:23 final size:23
Alignment explanation
Indices: 19096726--19096771 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
19096716 CAGAATAGTT
*
19096726 GTATAAGGAGTAGTAATGGACTC
1 GTATAAGAAGTAGTAATGGACTC
19096749 GTATAAGAAGTAGTAATGGACTC
1 GTATAAGAAGTAGTAATGGACTC
19096772 TTTCAGCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (23 bp):
GTATAAGAAGTAGTAATGGACTC
Found at i:19099935 original size:68 final size:67
Alignment explanation
Indices: 19099863--19100048 Score: 175
Period size: 67 Copynumber: 2.8 Consensus size: 67
19099853 CATCATGTGC
* * * *
19099863 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
19099925 ATGTAG
62 ATGTAG
** * *
19099931 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
19099996 AG
66 AG
* ** * *
19099998 ACAAGAGAGCTACGAGATA-AACTAGCTAGGTCACATGGGTGG-TACTAAGTG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATAC-AAGTG
19100049 TTCACCATGT
Statistics
Matches: 100, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
64 20 0.20
65 9 0.09
66 28 0.28
67 30 0.30
68 13 0.13
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:19099968 original size:64 final size:63
Alignment explanation
Indices: 19099887--19100058 Score: 191
Period size: 67 Copynumber: 2.7 Consensus size: 63
19099877 AGACATTATG
*
19099887 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
19099950 TATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 -ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
19100015 TA
62 TA
** * * * *
19100017 AACTAGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
19100059 GTATAAGAGA
Statistics
Matches: 87, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
63 9 0.10
64 21 0.24
65 8 0.09
66 19 0.22
67 30 0.34
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:19100431 original size:49 final size:49
Alignment explanation
Indices: 19100374--19100471 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
19100364 AATACAAAGA
19100374 AAGTGTTAAAGAGTGAATTAGCAATAAAACTGTTTTGGACAGTAGCAGT
1 AAGTGTTAAAGAGTGAATTAGCAATAAAACTGTTTTGGACAGTAGCAGT
19100423 AAGTGTTAAAGAGTGAATTAGCAATAAAACTGTTTTGGACAGTAGCAGT
1 AAGTGTTAAAGAGTGAATTAGCAATAAAACTGTTTTGGACAGTAGCAGT
19100472 GACGTGATTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (49 bp):
AAGTGTTAAAGAGTGAATTAGCAATAAAACTGTTTTGGACAGTAGCAGT
Found at i:19108533 original size:25 final size:25
Alignment explanation
Indices: 19108505--19108584 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
19108495 CTCTTATGAT
*
19108505 CTTACTGATATTTAGCTCGGAGGAG
1 CTTACTGATATTTAACTCGGAGGAG
* *
19108530 CTTAC-CATTATTTAACTTGGAGGAG
1 CTTACTGA-TATTTAACTCGGAGGAG
* * * *
19108555 CTTACTGTTATTCAACTCAGAGAAG
1 CTTACTGATATTTAACTCGGAGGAG
19108580 CTTAC
1 CTTAC
19108585 CATTTATAGC
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
24 1 0.02
25 43 0.98
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (25 bp):
CTTACTGATATTTAACTCGGAGGAG
Found at i:19111988 original size:43 final size:43
Alignment explanation
Indices: 19111940--19112023 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
19111930 TGAGATATGT
19111940 AGCAT-CTGAGCTCGTTGAGAAGTCCGAGTTCATTATGGATGCG
1 AGCATCCT-AGCTCGTTGAGAAGTCCGAGTTCATTATGGATGCG
* ** * *
19111983 AGCATCCTAGCTTGTTGAGTGGTCTGATTTCATTATGGATG
1 AGCATCCTAGCTCGTTGAGAAGTCCGAGTTCATTATGGATG
19112024 TGTTACATGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 33 0.94
44 2 0.06
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (43 bp):
AGCATCCTAGCTCGTTGAGAAGTCCGAGTTCATTATGGATGCG
Found at i:19122791 original size:22 final size:22
Alignment explanation
Indices: 19122763--19122806 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
19122753 TTTTGAACCA
19122763 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
19122785 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
19122807 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:19127856 original size:27 final size:26
Alignment explanation
Indices: 19127804--19127877 Score: 130
Period size: 27 Copynumber: 2.8 Consensus size: 26
19127794 CTCTTTTAAT
19127804 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
19127830 AACTGGGGCATAAAGCCCTTTTTGGTA
1 AACTGGGGCAT-AAGCCCTTTTCGGTA
19127857 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
19127878 GCACTTCCTC
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
26 21 0.46
27 25 0.54
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:19135432 original size:26 final size:26
Alignment explanation
Indices: 19135402--19135474 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
19135392 CTCTTTTAAC
19135402 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
19135428 AACTGGGGCATAAACCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
19135454 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
19135475 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:19135549 original size:9 final size:9
Alignment explanation
Indices: 19135535--19135568 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
19135525 TCATGTGCAG
19135535 ATCATACAT
1 ATCATACAT
19135544 ATCATATGCAT
1 ATCATA--CAT
19135555 ATCATACAT
1 ATCATACAT
19135564 ATCAT
1 ATCAT
19135569 GTGCATATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 14 0.61
11 9 0.39
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.35
Consensus pattern (9 bp):
ATCATACAT
Found at i:19135553 original size:20 final size:20
Alignment explanation
Indices: 19135525--19135580 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
19135515 TATGAAAACG
*
19135525 TCATGTGCAGATCATACATA
1 TCATGTGCATATCATACATA
*
19135545 TCATATGCATATCATACATA
1 TCATGTGCATATCATACATA
19135565 TCATGTGCATATCATA
1 TCATGTGCATATCATA
19135581 TCAATATTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.34
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:19135587 original size:11 final size:11
Alignment explanation
Indices: 19135541--19135581 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
19135531 GCAGATCATA
19135541 CATATCATATG
1 CATATCATATG
19135552 CATATCATA--
1 CATATCATATG
*
19135561 CATATCATGTG
1 CATATCATATG
19135572 CATATCATAT
1 CATATCATAT
19135582 CAATATTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 8 0.31
11 18 0.69
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (11 bp):
CATATCATATG
Found at i:19143652 original size:27 final size:27
Alignment explanation
Indices: 19143618--19143795 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19143608 TAAATTGTAC
19143618 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
19143645 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19143671 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
19143699 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
19143727 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19143754 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19143781 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19143796 GACTTAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:19143732 original size:82 final size:81
Alignment explanation
Indices: 19143619--19143774 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19143609 AAATTGTACA
* *
19143619 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
19143683 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
19143700 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
19143765 TGCGAGTTGA
65 TGCGAATTGA
19143775 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:19143786 original size:82 final size:81
Alignment explanation
Indices: 19143615--19143795 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
19143605 GGTTAAATTG
* *
19143615 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
19143680 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
19143696 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
19143760 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
19143778 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
19143796 GACTTAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:19145176 original size:21 final size:20
Alignment explanation
Indices: 19145147--19145185 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
19145137 GGGGTGTTAC
*
19145147 AATTTAGCTCATAGTTTTAGT
1 AATTAAGCTCAT-GTTTTAGT
*
19145168 AATTAAGCTGATGTTTTA
1 AATTAAGCTCATGTTTTA
19145186 TGACAGTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (20 bp):
AATTAAGCTCATGTTTTAGT
Found at i:19153615 original size:43 final size:43
Alignment explanation
Indices: 19153563--19153646 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
19153553 TGAGGTATGT
* *
19153563 AGCATCCGAGCTCGTTGAGAGGTCCAAGTTCATTATGGATGCC
1 AGCATCCGAGCTCGTTGAGAGGTCCAAGCTCATGATGGATGCC
* *
19153606 AGCATCCGAGCTCGTTGAGTGGTCCGAGCTCATGATGGATG
1 AGCATCCGAGCTCGTTGAGAGGTCCAAGCTCATGATGGATG
19153647 TGATTCATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.25
Consensus pattern (43 bp):
AGCATCCGAGCTCGTTGAGAGGTCCAAGCTCATGATGGATGCC
Found at i:19153695 original size:51 final size:51
Alignment explanation
Indices: 19153608--19153707 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 51
19153598 TGGATGCCAG
* * * *
19153608 CATCCGAGCTCGTTGAGTGGTCCGAGCTCATGATGGATGTGATT-CATGTAA
1 CATCCGAGATCATTGAGAGGTCCAAGCTCATGATGGATGTG-TTACATGTAA
** *
19153659 CATCCGAGATCATTGAGAGGTCCAATTTCATTATGGATGTGTTACATGT
1 CATCCGAGATCATTGAGAGGTCCAAGCTCATGATGGATGTGTTACATGT
19153708 TATATGGTAG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 2 0.05
51 39 0.95
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (51 bp):
CATCCGAGATCATTGAGAGGTCCAAGCTCATGATGGATGTGTTACATGTAA
Found at i:19158257 original size:7 final size:7
Alignment explanation
Indices: 19158245--19158270 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19158235 TTGTTATATT
19158245 GTATGTA
1 GTATGTA
19158252 GTATGTA
1 GTATGTA
19158259 GTATGTA
1 GTATGTA
19158266 GTATG
1 GTATG
19158271 CGGTACTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.31, T:0.42
Consensus pattern (7 bp):
GTATGTA
Found at i:19160988 original size:28 final size:27
Alignment explanation
Indices: 19160936--19160990 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
19160926 ATTTTGAGAA
19160936 ATATGATTAAATTTGCTACACAACTTTT
1 ATATGATTAAATTT-CTACACAACTTTT
*
19160964 ATATTATTAAATTT-TACAACTAACTTT
1 ATATGATTAAATTTCTAC-AC-AACTTT
19160991 GAATTTTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 3 0.12
27 2 0.08
28 19 0.79
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (27 bp):
ATATGATTAAATTTCTACACAACTTTT
Found at i:19164729 original size:19 final size:17
Alignment explanation
Indices: 19164691--19164723 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19164681 AAATACACTC
19164691 TCTCTTTACTCTCCCAT
1 TCTCTTTACTCTCCCAT
*
19164708 TCTCTTTATTCTCCCA
1 TCTCTTTACTCTCCCA
19164724 CATTCTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.39, G:0.00, T:0.48
Consensus pattern (17 bp):
TCTCTTTACTCTCCCAT
Found at i:19173102 original size:22 final size:22
Alignment explanation
Indices: 19173072--19173116 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
19173062 TAAAGAAGAA
19173072 AGATAGATCATTGAGATTATGC
1 AGATAGATCATTGAGATTATGC
*
19173094 AGATGGATCATTGAGATTATGC
1 AGATAGATCATTGAGATTATGC
19173116 A
1 A
19173117 TTGATTATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (22 bp):
AGATAGATCATTGAGATTATGC
Found at i:19177855 original size:46 final size:46
Alignment explanation
Indices: 19177803--19178019 Score: 220
Period size: 46 Copynumber: 4.6 Consensus size: 46
19177793 TGTGTGAGCT
* ***
19177803 AGTGTAAGACATGTCTGGGACATGCATCAGCCACCTTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAAAGCC
* * * * * * *
19177849 AGTGTAAGACCATGTCTAGGATATGGCATC-GACATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGAAAGCC
* * * *
19177897 AGTGTAAGTCATTTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAAAGCC
* * *
19177943 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAAAGCC
19177989 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
19178020 ACTTGAGATA
Statistics
Matches: 137, Mismatches: 28, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
46 70 0.51
47 42 0.31
48 25 0.18
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAAAGCC
Found at i:19178018 original size:94 final size:92
Alignment explanation
Indices: 19177798--19178069 Score: 289
Period size: 94 Copynumber: 2.9 Consensus size: 92
19177788 AATTGTGTGT
* *** *
19177798 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACCTTATGAAAGCCAGTGTAAGACCATG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-GCCTCGAGATGTAAGCCAGTGTAAGACCATG
*
19177863 TCTAGGATATGGCATCGACATTGAGACGA
65 TCTAGGATAT-GCATCGACATCGAGACGA
* *
19177892 GAGCTAGTGTAAGTCATTTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGA-CATG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-GCCTCGAGATGTAAGCCAGTGTAAGACCATG
* * * *
19177956 TCTGGGACATGCATCGGC-TACGAGATGA
65 TCTAGGATATGCATCGACAT-CGAGACGA
* * * * * *
19177984 TAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAGCCAGTATAAGACCA
1 GAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGCCTCGAGATGTAAGCCAGTGTAAGACCA
19178048 TGTCTAGGATATGACATCGACA
63 TGTCTAGGATATG-CATCGACA
19178070 CCTTACCCAC
Statistics
Matches: 147, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
91 2 0.01
92 23 0.16
93 46 0.31
94 70 0.48
95 6 0.04
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (92 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGCCTCGAGATGTAAGCCAGTGTAAGACCATGT
CTAGGATATGCATCGACATCGAGACGA
Found at i:19178028 original size:47 final size:46
Alignment explanation
Indices: 19177803--19178068 Score: 224
Period size: 47 Copynumber: 5.7 Consensus size: 46
19177793 TGTGTGAGCT
*
19177803 AGTGTAAGA-CATGTCTGGGACATGCATCAGCCACCTT---ATGAAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATC-G--A-CTTGAGATGATAGCC
* * * * *
19177849 AGTGTAAGACCATGTCTAGGATATGGCATCGACATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGAC-TTGAGATGATAGCC
* * * *
19177897 AGTGTAAG-TCATTTCTGGGACATGCATCGGCCTCGAGATG-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATC-GACTTGAGATGAT-AGCC
* * *
19177943 AGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGACT-TGAGATGATAGCC
19177989 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGAT-ATGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGACTTGAGATGAT-AGCC
* * *
19178036 AGTATAAGACCATGTCTAGGATATGACATCGAC
1 AGTGTAAGACCATGTCTGGGACATG-CATCGAC
19178069 ACCTTACCCA
Statistics
Matches: 182, Mismatches: 23, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
44 1 0.01
45 6 0.03
46 71 0.39
47 77 0.42
48 27 0.15
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGACTTGAGATGATAGCC
Found at i:19180259 original size:21 final size:20
Alignment explanation
Indices: 19180231--19180269 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
19180221 TAGTACACGG
* *
19180231 CCTAACCACATGGGTGTGCC
1 CCTAACCAAACGGGTGTGCC
19180251 CCTAGACCAAACGGGTGTG
1 CCTA-ACCAAACGGGTGTG
19180270 TGAGCCTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.23, C:0.31, G:0.28, T:0.18
Consensus pattern (20 bp):
CCTAACCAAACGGGTGTGCC
Found at i:19183026 original size:11 final size:11
Alignment explanation
Indices: 19183010--19183043 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
19183000 ATGTCAAATC
*
19183010 ATCAAGAATAA
1 ATCAAGAACAA
19183021 ATCAAGAACAA
1 ATCAAGAACAA
19183032 ATCAAGAACAA
1 ATCAAGAACAA
19183043 A
1 A
19183044 ACTAGATGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.65, C:0.15, G:0.09, T:0.12
Consensus pattern (11 bp):
ATCAAGAACAA
Found at i:19188256 original size:11 final size:11
Alignment explanation
Indices: 19188240--19188274 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
19188230 CATGTCAAAT
19188240 AATCAAGAATA
1 AATCAAGAATA
*
19188251 AATCAAGAACA
1 AATCAAGAATA
19188262 AATCAAGAATA
1 AATCAAGAATA
19188273 AA
1 AA
19188275 ACTAGATGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.66, C:0.11, G:0.09, T:0.14
Consensus pattern (11 bp):
AATCAAGAATA
Found at i:19190407 original size:10 final size:10
Alignment explanation
Indices: 19190394--19190418 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19190384 CTTAATGTGG
19190394 TATTTATTGT
1 TATTTATTGT
19190404 TATTTATTGT
1 TATTTATTGT
19190414 TATTT
1 TATTT
19190419 GGTGTTAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (10 bp):
TATTTATTGT
Found at i:19190804 original size:162 final size:162
Alignment explanation
Indices: 19190537--19190845 Score: 451
Period size: 162 Copynumber: 1.9 Consensus size: 162
19190527 AAAATTATGA
*
19190537 TTTTAATGATTAAATTGATATTTAAGATTGCTGGTCACCTTATTTAAATTTTTAAATAAACAATT
1 TTTTAATGATTAAATTGATATTTAAGATTGCTGGTCACCTTATTTAAATTGTTAAATAAACAATT
* *
19190602 TAAAGGTGGTCGAATCAGGTACATTTCGAGCCTAACTAATTAGCATGAATACAAAACTAGTATGG
66 TAAAAGTGGTCGAATCAGGTACATTTCGAGCCTAACTAATTAGCATGAATACAAAACTAGTATAG
19190667 TTGACCAAATAATTGTACGCTGATATTTATAC
131 TTGACCAAATAATTGTACGCTGATATTTATAC
* *** * ***
19190699 TTTTAATGATTAAATTGATATTTAAGCTTG-TGGGTTGGCTTATTTCAATTGTTAAATAAGTGAT
1 TTTTAATGATTAAATTGATATTTAAGATTGCT-GGTCACCTTATTTAAATTGTTAAATAAACAAT
* ** *
19190763 TTAAAAGTGG-CTGAATTAGGTATGTTTTGAGCCTAACTAATTAGCATGAATACAAAACTAGTAT
65 TTAAAAGTGGTC-GAATCAGGTACATTTCGAGCCTAACTAATTAGCATGAATACAAAACTAGTAT
19190827 AGTTGACCAAATAATTGTA
129 AGTTGACCAAATAATTGTA
19190846 TGTTCATATT
Statistics
Matches: 130, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
161 2 0.02
162 128 0.98
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.38
Consensus pattern (162 bp):
TTTTAATGATTAAATTGATATTTAAGATTGCTGGTCACCTTATTTAAATTGTTAAATAAACAATT
TAAAAGTGGTCGAATCAGGTACATTTCGAGCCTAACTAATTAGCATGAATACAAAACTAGTATAG
TTGACCAAATAATTGTACGCTGATATTTATAC
Found at i:19191816 original size:12 final size:12
Alignment explanation
Indices: 19191775--19191816 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
19191765 CCCCACACAC
*
19191775 CCGTGTGCCAGG
1 CCGTGTGCTAGG
**
19191787 CCGTGCACTAGG
1 CCGTGTGCTAGG
19191799 CCGTGTGCTAGG
1 CCGTGTGCTAGG
19191811 CCGTGT
1 CCGTGT
19191817 AACTACCTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.10, C:0.31, G:0.38, T:0.21
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:19195448 original size:27 final size:27
Alignment explanation
Indices: 19195416--19195539 Score: 108
Period size: 27 Copynumber: 4.6 Consensus size: 27
19195406 ATTTGAAAAA
19195416 AGAAGCCTTTGTGGCAATCTATGAAAT
1 AGAAGCCTTTGTGGCAATCTATGAAAT
* * *
19195443 AGAAGCCTTTATGGAAATCGATGAAAT
1 AGAAGCCTTTGTGGCAATCTATGAAAT
* *
19195470 -GAAAGCTTTTGTGGCAAT-TGTGAAAT
1 AG-AAGCCTTTGTGGCAATCTATGAAAT
* * * * *
19195496 AGGAGCTTTTGTGGCGATCCATGGAAAG
1 AGAAGCCTTTGTGGCAATCTAT-GAAAT
* *
19195524 AAAAGCCTTCGTGGCA
1 AGAAGCCTTTGTGGCA
19195540 CATTCTAAAG
Statistics
Matches: 75, Mismatches: 18, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
26 21 0.28
27 39 0.52
28 15 0.20
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (27 bp):
AGAAGCCTTTGTGGCAATCTATGAAAT
Found at i:19195529 original size:54 final size:54
Alignment explanation
Indices: 19195418--19195539 Score: 131
Period size: 54 Copynumber: 2.3 Consensus size: 54
19195408 TTGAAAAAAG
*
19195418 AAGCCTTTGTGGCAATCTATGAAATAGAAGCCTTTATGGAAATCGATGAAATGA
1 AAGCCTTTGTGGCAATCTATGAAATAGAAGCCTTTATGGAAATCCATGAAATGA
* * * * * **
19195472 AAGCTTTTGTGGCAAT-TGTGAAATAGGAGCTTTTGTGGCGATCCATGGAAA-GAA
1 AAGCCTTTGTGGCAATCTATGAAATAGAAGCCTTTATGGAAATCCAT-GAAATG-A
*
19195526 AAGCCTTCGTGGCA
1 AAGCCTTTGTGGCA
19195540 CATTCTAAAG
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
53 24 0.43
54 32 0.57
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (54 bp):
AAGCCTTTGTGGCAATCTATGAAATAGAAGCCTTTATGGAAATCCATGAAATGA
Found at i:19207266 original size:13 final size:13
Alignment explanation
Indices: 19207248--19207272 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19207238 GCTGTTTAAT
19207248 TATAATTAAATGA
1 TATAATTAAATGA
19207261 TATAATTAAATG
1 TATAATTAAATG
19207273 TGTTCATGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
TATAATTAAATGA
Found at i:19208704 original size:26 final size:26
Alignment explanation
Indices: 19208645--19208706 Score: 83
Period size: 24 Copynumber: 2.5 Consensus size: 26
19208635 ATTTTGAAGT
19208645 TTAAAAAAAAAGAAAAAAATACGAAA
1 TTAAAAAAAAAGAAAAAAATACGAAA
* * *
19208671 TT--AAAAAAATAAAAAAATGCGAGA
1 TTAAAAAAAAAGAAAAAAATACGAAA
19208695 TTAAAAAAAAAG
1 TTAAAAAAAAAG
19208707 TGAAGTGCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 21 0.70
26 9 0.30
ACGTcount: A:0.73, C:0.03, G:0.10, T:0.15
Consensus pattern (26 bp):
TTAAAAAAAAAGAAAAAAATACGAAA
Found at i:19220166 original size:28 final size:28
Alignment explanation
Indices: 19220134--19220203 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
19220124 ATAGTAAGTC
19220134 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
19220162 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
19220190 CGCACACTTAGTGC
1 CGCACACTTAGTGC
19220204 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:19227958 original size:28 final size:28
Alignment explanation
Indices: 19227926--19227995 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
19227916 ATAGTAAGTC
19227926 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
19227954 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
19227982 CGCACACTTAGTGC
1 CGCACACTTAGTGC
19227996 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:19232860 original size:96 final size:96
Alignment explanation
Indices: 19232735--19232953 Score: 323
Period size: 96 Copynumber: 2.3 Consensus size: 96
19232725 GACCTCATAT
* *
19232735 CGATTCCATGTCCCAGGA-ATGGTCTTATACGAAATCACTTATCGATGCCGAAGCCATATCCCTG
1 CGATGCCATGTCCCA-GACATGGTCTTATACGAAATCACTTATCGACGCCGAAGCCATATCCCTG
*
19232799 ATATGGTCTTACACGGGATAGTGTATCGATGC
65 ATATGGTCTTACACGGGATAGCGTATCGATGC
* * * *
19232831 CGATGCCATGTCCCAGACATGGTCTTATACGTAATCACTTATTGACGCTGAAGCCATATCCTTGA
1 CGATGCCATGTCCCAGACATGGTCTTATACGAAATCACTTATCGACGCCGAAGCCATATCCCTGA
* * *
19232896 TATGGTCTTACATGGGATCGCGTATTGATGC
66 TATGGTCTTACACGGGATAGCGTATCGATGC
*
19232927 TGATGCCATGTCCCAGACATGGTCTTA
1 CGATGCCATGTCCCAGACATGGTCTTA
19232954 CATGAGATCT
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
95 2 0.02
96 109 0.98
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.30
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTATACGAAATCACTTATCGACGCCGAAGCCATATCCCTGA
TATGGTCTTACACGGGATAGCGTATCGATGC
Found at i:19232957 original size:48 final size:48
Alignment explanation
Indices: 19232778--19232955 Score: 167
Period size: 48 Copynumber: 3.7 Consensus size: 48
19232768 ATCACTTATC
* * * * *
19232778 GATGCCGAAGCCATATCCCTGATATGGTCTTACACGGGATAGTGTATC
1 GATGCCGAAGCCATATCCCAGACATGGTCTTACACGGGATCGCGTATT
* * * ** * *
19232826 GATGCCGATGCCATGTCCCAGACATGGTCTTATACGTAATCACTTATT
1 GATGCCGAAGCCATATCCCAGACATGGTCTTACACGGGATCGCGTATT
* * ** * *
19232874 GACGCTGAAGCCATATCCTTGATATGGTCTTACATGGGATCGCGTATT
1 GATGCCGAAGCCATATCCCAGACATGGTCTTACACGGGATCGCGTATT
* * *
19232922 GATGCTGATGCCATGTCCCAGACATGGTCTTACA
1 GATGCCGAAGCCATATCCCAGACATGGTCTTACA
19232956 TGAGATCTCG
Statistics
Matches: 99, Mismatches: 31, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
48 99 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (48 bp):
GATGCCGAAGCCATATCCCAGACATGGTCTTACACGGGATCGCGTATT
Found at i:19235416 original size:11 final size:11
Alignment explanation
Indices: 19235400--19235434 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
19235390 GGAAGAGAGG
19235400 TTGATTTTTGC
1 TTGATTTTTGC
*
19235411 TTGATTTTAGC
1 TTGATTTTTGC
*
19235422 TTGATTCTTGC
1 TTGATTTTTGC
19235433 TT
1 TT
19235435 AACTGAAGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.11, C:0.11, G:0.17, T:0.60
Consensus pattern (11 bp):
TTGATTTTTGC
Found at i:19239130 original size:47 final size:47
Alignment explanation
Indices: 19238962--19239134 Score: 160
Period size: 47 Copynumber: 3.7 Consensus size: 47
19238952 ATTTGTGTGC
* * * *
19238962 CAGTGGAAGA-CATGTCTGGGACAT-GCATTGGCCTCGACAT-G-TAAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCA-TCGCCTCGA-GTCGAT-AGT
19239008 CAGTGTAAGA-CATGTCTGGGACATGGCATCTGCCTCGATGTCGATAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCGA-GTCGATAGT
* * *
19239056 CAGTATAAGACCATGTCTGGGACATGGCATCGTCTTGA-TCGATGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGAGTCGAT-AGT
* * *
19239103 TAGTGTAAGACCATGTTTGGGCCATGGCATCG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCG
19239135 GTATTATACC
Statistics
Matches: 109, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
46 29 0.27
47 42 0.39
48 17 0.16
49 21 0.19
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.26
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGAGTCGATAGT
Found at i:19248573 original size:118 final size:119
Alignment explanation
Indices: 19248392--19248613 Score: 299
Period size: 118 Copynumber: 1.9 Consensus size: 119
19248382 TCCTCGTTCA
*
19248392 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
19248457 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * **
19248511 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
19248573 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
19248614 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
117 4 0.04
118 66 0.73
119 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:19248613 original size:40 final size:40
Alignment explanation
Indices: 19248390--19248613 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
19248380 GCTCCTCGTT
* *
19248390 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
19248430 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
19248470 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
19248510 C-AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
19248548 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
19248589 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19248614 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 24 0.15
39 21 0.13
40 107 0.65
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:19256343 original size:39 final size:40
Alignment explanation
Indices: 19256298--19256480 Score: 198
Period size: 39 Copynumber: 4.6 Consensus size: 40
19256288 GCTACTCGTT
*
19256298 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
19256338 C-AATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
19256377 CAAATGCCTTCGGG-CTTAGCCCAG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
19256416 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
19256457 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
19256481 ACATCATTCA
Statistics
Matches: 120, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
38 2 0.02
39 64 0.53
40 42 0.35
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:19256422 original size:79 final size:80
Alignment explanation
Indices: 19256298--19256479 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 80
19256288 GCTACTCGTT
* **
19256298 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATGCCTTCGGGA-CTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAATGCCTTC-GGATCTTAACCCGG
* *
19256362 ATTTAGTAAC-TCGCA
65 ATATAGTAACTTAGCA
* **
19256377 CAAATGCCTTCGGG-CTTAGCCCAGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGCAC-AATGCCTTCGGATCTTAACCCG
* *
19256440 GATATGGTCACTTAGCA
64 GATATAGTAACTTAGCA
19256457 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
19256480 GACATCATTC
Statistics
Matches: 88, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
78 22 0.25
79 50 0.57
80 16 0.18
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:19269830 original size:47 final size:47
Alignment explanation
Indices: 19269761--19269932 Score: 237
Period size: 47 Copynumber: 3.7 Consensus size: 47
19269751 GGATGGTTGA
19269761 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
19269808 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
*
19269856 GC--CCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
19269901 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
19269933 ACTTATGGAT
Statistics
Matches: 108, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 4 0.04
46 27 0.25
47 59 0.55
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:19269884 original size:46 final size:46
Alignment explanation
Indices: 19269812--19269986 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
19269802 AACTAGGCAT
19269812 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
19269858 CCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
19269903 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
19269951 TCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19269987 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 4 0.04
46 60 0.55
47 27 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:19269904 original size:93 final size:93
Alignment explanation
Indices: 19269765--19269979 Score: 403
Period size: 93 Copynumber: 2.3 Consensus size: 93
19269755 GGTTGAGCAT
19269765 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
19269830 GTCCGAGTTCACTTATGGATGCGAACGC
66 GTCCGAGTTCACTTATGGATGCGAACGC
*
19269858 CCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
19269923 GTCCGAGTTCACTTATGGATGCGAACGC
66 GTCCGAGTTCACTTATGGATGCGAACGC
* *
19269951 TCGAGCTCGTTGAGTTGAGTCCGAGTTCG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCG
19269980 CTTATGGGCG
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 118 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGA
GTCCGAGTTCACTTATGGATGCGAACGC
Found at i:19273431 original size:11 final size:12
Alignment explanation
Indices: 19273405--19273434 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
19273395 TCAAGTATAA
19273405 CAAACAACCAAT
1 CAAACAACCAAT
19273417 CAAACAACC-AT
1 CAAACAACCAAT
19273428 CAAACAA
1 CAAACAA
19273435 ATTAGCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.60, C:0.33, G:0.00, T:0.07
Consensus pattern (12 bp):
CAAACAACCAAT
Found at i:19276622 original size:21 final size:21
Alignment explanation
Indices: 19276598--19276666 Score: 52
Period size: 21 Copynumber: 3.1 Consensus size: 21
19276588 CATCATGAAC
19276598 TCAGACCATAACTCAATGAGT
1 TCAGACCATAACTCAATGAGT
**
19276619 TCAGATGCCACATATA-TC-ATGAAA
1 TCAGA---C-CATA-ACTCAATGAGT
*
19276643 TCAGACCACAACTCAATGAGT
1 TCAGACCATAACTCAATGAGT
19276664 TCA
1 TCA
19276667 TGTCACATAG
Statistics
Matches: 36, Mismatches: 5, Indels: 14
0.65 0.09 0.25
Matches are distributed among these distances:
19 1 0.03
20 5 0.14
21 13 0.36
24 10 0.28
25 6 0.17
26 1 0.03
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.23
Consensus pattern (21 bp):
TCAGACCATAACTCAATGAGT
Found at i:19277896 original size:11 final size:11
Alignment explanation
Indices: 19277880--19277906 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
19277870 CATATCATGG
19277880 ATCATCAAATA
1 ATCATCAAATA
19277891 ATCATCAAATA
1 ATCATCAAATA
19277902 ATCAT
1 ATCAT
19277907 TTCTATTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.30
Consensus pattern (11 bp):
ATCATCAAATA
Found at i:19281590 original size:41 final size:41
Alignment explanation
Indices: 19281535--19281675 Score: 101
Period size: 41 Copynumber: 3.5 Consensus size: 41
19281525 GTGCCAAAAA
* * *
19281535 ATAGCTAAAACTATTAT-AATCTAGGACACTAAGTG-CAGCAC
1 ATAGCCAAAGCTATT-TCAATCTAGCACACTAAGTGCCA-CAC
* * *
19281576 ATAGCCAAAGCTATTTCAGTCTCGCACACTAAGTGCCACAT
1 ATAGCCAAAGCTATTTCAATCTAGCACACTAAGTGCCACAC
* * * *** *
19281617 ATAGCCGAAGCTACTCCAAATC--GCACACTAAGTGCTTTAT
1 ATAGCCAAAGCTATTTC-AATCTAGCACACTAAGTGCCACAC
*
19281657 ATAGCCAAAGCTATCTCAA
1 ATAGCCAAAGCTATTTCAA
19281676 ACGCGCACTA
Statistics
Matches: 80, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
39 2 0.03
40 29 0.36
41 44 0.55
42 5 0.06
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (41 bp):
ATAGCCAAAGCTATTTCAATCTAGCACACTAAGTGCCACAC
Found at i:19281659 original size:40 final size:40
Alignment explanation
Indices: 19281560--19281690 Score: 133
Period size: 40 Copynumber: 3.3 Consensus size: 40
19281550 ATAATCTAGG
* * **
19281560 ACACTAAGTG-CAGCACATAGCCAAAGCTATTTCAGTCTCGC
1 ACACTAAGTGCCA-CATATAGCCAAAGCTATCTCA-AATCGC
*
19281601 ACACTAAGTGCCACATATAGCCGAAGCTA-CTCCAAATCGC
1 ACACTAAGTGCCACATATAGCCAAAGCTATCT-CAAATCGC
***
19281641 ACACTAAGTGCTTTATATAGCCAAAGCTATCTCAAA-CGC
1 ACACTAAGTGCCACATATAGCCAAAGCTATCTCAAATCGC
*
19281680 GCACTAAGTGC
1 ACACTAAGTGC
19281691 AAAACATAGT
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
39 13 0.17
40 34 0.44
41 28 0.36
42 2 0.03
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (40 bp):
ACACTAAGTGCCACATATAGCCAAAGCTATCTCAAATCGC
Found at i:19298893 original size:40 final size:40
Alignment explanation
Indices: 19298809--19298992 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
19298799 TTGAATGCTG
* * * *
19298809 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
19298848 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
19298889 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
19298929 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
19298969 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
19298993 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:19298946 original size:80 final size:81
Alignment explanation
Indices: 19298809--19298989 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
19298799 TTGAATGCTG
* * *
19298809 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
19298873 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
19298889 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
19298950 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
19298969 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
19298990 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:19299013 original size:39 final size:38
Alignment explanation
Indices: 19298890--19299039 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 38
19298880 GTTATTAATT
* ** * *
19298890 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACT-ATA
** * *
19298930 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-ATA
*
19298969 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAT-A
* *
19299009 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
19299040 GAGCTATATC
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.35
40 60 0.65
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTATA
Found at i:19306797 original size:40 final size:40
Alignment explanation
Indices: 19306713--19306896 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
19306703 TTGAATGCTG
* * * *
19306713 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
19306752 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
19306793 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
19306833 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
19306873 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
19306897 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:19306850 original size:80 final size:81
Alignment explanation
Indices: 19306713--19306893 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
19306703 TTGAATGCTG
* * *
19306713 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
19306777 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
19306793 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
19306854 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
19306873 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
19306894 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:19306917 original size:39 final size:38
Alignment explanation
Indices: 19306794--19306943 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 38
19306784 GTTATTAATT
* ** * *
19306794 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACT-ATA
** * *
19306834 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-ATA
*
19306873 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAT-A
* *
19306913 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
19306944 GAGCTATATC
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.35
40 60 0.65
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTATA
Done.