Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 68 of 320
Found at i:20749125 original size:7 final size:7
Alignment explanation
Indices: 20749059--20749126 Score: 50
Period size: 7 Copynumber: 9.9 Consensus size: 7
20749049 AAACAAAAAT
*
20749059 AAAAGAA
1 AAAATAA
*
20749066 AAAATTA
1 AAAATAA
20749073 AAAATAA
1 AAAATAA
*
20749080 AACA-AA
1 AAAATAA
*
20749086 AAAATAG
1 AAAATAA
*
20749093 AAAAT-G
1 AAAATAA
20749099 AAAATGAA
1 AAAAT-AA
* *
20749107 AAAAGAT
1 AAAATAA
20749114 AAAATAA
1 AAAATAA
20749121 AAAATA
1 AAAATA
20749127 TGTTTGGAGT
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
6 11 0.23
7 32 0.68
8 4 0.09
ACGTcount: A:0.78, C:0.01, G:0.07, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:20749802 original size:22 final size:21
Alignment explanation
Indices: 20749760--20749804 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
20749750 ATTAAAATAA
* * *
20749760 AGAAAAATTACTAAAACAAAT
1 AGAAAAATAAATAAAAAAAAT
20749781 AGAAAAATAAATAAAAGAAAAT
1 AGAAAAATAAATAAAA-AAAAT
20749803 AG
1 AG
20749805 GATTACCTCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.71, C:0.04, G:0.09, T:0.16
Consensus pattern (21 bp):
AGAAAAATAAATAAAAAAAAT
Found at i:20754311 original size:108 final size:110
Alignment explanation
Indices: 20754167--20754364 Score: 321
Period size: 108 Copynumber: 1.8 Consensus size: 110
20754157 ATCCTTTTGA
* *
20754167 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGA-A-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAGACCTCACCAA
20754230 -TGCCATGCCTTGGCATGGTCTTACATGAGACCTTTTCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGAGACCTTTTCCTTATAGT
* * *
20754275 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAGACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAGACCTCACCAAT
20754340 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
20754365 CGGTATCCTT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 2 0.02
108 48 0.59
109 7 0.09
110 25 0.30
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAGACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGAGACCTTTTCCTTATAGT
Found at i:20754374 original size:55 final size:54
Alignment explanation
Indices: 20754120--20754375 Score: 237
Period size: 55 Copynumber: 4.8 Consensus size: 54
20754110 ACACGGGTAC
* * **
20754120 CTTACC-ATTGCCATGACTTGTCATGGTCTTATGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
*
20754169 CTTACC-ATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * *
20754222 CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGAG-A-CCTTTTCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATG-GTATCC-TTGCC-T-TAGAAA
* * * * *
20754277 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAGAC
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGA-AA
* *
20754331 CTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTTG
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
20754376 AACCCTAATG
Statistics
Matches: 169, Mismatches: 23, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
49 39 0.23
52 4 0.02
53 40 0.24
54 14 0.08
55 70 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:20764825 original size:16 final size:16
Alignment explanation
Indices: 20764794--20764852 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
20764784 ATGAATCAGC
*
20764794 AAAAGCTGAAATGCCG
1 AAAAGCCGAAATGCCG
* *
20764810 AAATGCCGAAAAGCCG
1 AAAAGCCGAAATGCCG
* * *
20764826 AAAAGCCAAAATACTG
1 AAAAGCCGAAATGCCG
*
20764842 AAAAGGCGAAA
1 AAAAGCCGAAA
20764853 GTGTGGCTAC
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.51, C:0.19, G:0.22, T:0.08
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:20764828 original size:24 final size:24
Alignment explanation
Indices: 20764794--20764852 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
20764784 ATGAATCAGC
* * * *
20764794 AAAAGCTGAAATGCCGAAATGCCG
1 AAAAGCCGAAAAGCCAAAATACCG
*
20764818 AAAAGCCGAAAAGCCAAAATACTG
1 AAAAGCCGAAAAGCCAAAATACCG
*
20764842 AAAAGGCGAAA
1 AAAAGCCGAAA
20764853 GTGTGGCTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.51, C:0.19, G:0.22, T:0.08
Consensus pattern (24 bp):
AAAAGCCGAAAAGCCAAAATACCG
Found at i:20764829 original size:8 final size:8
Alignment explanation
Indices: 20764794--20764836 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
20764784 ATGAATCAGC
*
20764794 AAAAGCTG
1 AAAAGCCG
*
20764802 AAATGCCG
1 AAAAGCCG
*
20764810 AAATGCCG
1 AAAAGCCG
20764818 AAAAGCCG
1 AAAAGCCG
20764826 AAAAGCC-
1 AAAAGCCG
20764833 AAAA
1 AAAA
20764837 TACTGAAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
7 4 0.12
8 28 0.88
ACGTcount: A:0.51, C:0.21, G:0.21, T:0.07
Consensus pattern (8 bp):
AAAAGCCG
Found at i:20765117 original size:29 final size:28
Alignment explanation
Indices: 20765062--20765140 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
20765052 GTGAGCATGA
*
20765062 ATATGAATGTG-CCTGGGCCTAACGGGCC
1 ATATGAATGTGATCTGGGCCT-ACGGGCC
*
20765090 ATATGAATGTGATGTGGGCCTACTGGGCC
1 ATATGAATGTGATCTGGGCCTAC-GGGCC
* *
20765119 ATAT-ACAGGTGATTTGGGCCTA
1 ATATGA-ATGTGATCTGGGCCTA
20765141 AAGGGGCCAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
28 14 0.32
29 30 0.68
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.27
Consensus pattern (28 bp):
ATATGAATGTGATCTGGGCCTACGGGCC
Found at i:20772813 original size:40 final size:40
Alignment explanation
Indices: 20772787--20773016 Score: 320
Period size: 40 Copynumber: 5.8 Consensus size: 40
20772777 GGATATGGTC
* * *
20772787 ACTAGCTCAAATGCCTTCGGGACTTAGCGCGG-ATATAGTA
1 ACTAGCACAAATGCCTTCGGGACTTAACCCGGAAT-TAGTA
* * *
20772827 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTA
1 ACTAGCACAAATGCCTTCGGGACTTAACCCGGAATTAGTA
*
20772867 ACTCA-CACAAATGCCTTCGGGACTTAACCCAGAATTAGTA
1 ACT-AGCACAAATGCCTTCGGGACTTAACCCGGAATTAGTA
*
20772907 ACTCGCACAAATGCCTTCGGGACTTAACCCGGAATTAGTA
1 ACTAGCACAAATGCCTTCGGGACTTAACCCGGAATTAGTA
* * *
20772947 ACTCGCACAAATGCCTTCGGGACTTAACCCGGAATTAATC
1 ACTAGCACAAATGCCTTCGGGACTTAACCCGGAATTAGTA
*
20772987 ACTAGCACAAATGTCTTCGGGACTTAACCC
1 ACTAGCACAAATGCCTTCGGGACTTAACCC
20773017 CGTTATCATC
Statistics
Matches: 173, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
40 171 0.99
41 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (40 bp):
ACTAGCACAAATGCCTTCGGGACTTAACCCGGAATTAGTA
Found at i:20772856 original size:80 final size:80
Alignment explanation
Indices: 20772755--20773012 Score: 326
Period size: 80 Copynumber: 3.2 Consensus size: 80
20772745 TAACCACTTG
* * * * * * *
20772755 CAAA-GCCATCGGGCCTTAGCCCGG-ATATGGTCACTAGCTCAAATGCCTTCGGGACTTAGCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCTTCGGGACTTAACCCG
20772818 G-ATATAGTAACTCGCA
65 GAAT-TAGTAACTCGCA
* *
20772834 CAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTCA-CACAAATGCCTTCGGGACTTAACCCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACT-AGCACAAATGCCTTCGGGACTTAACCCG
20772898 GAATTAGTAACTCGCA
65 GAATTAGTAACTCGCA
* *
20772914 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGG
* * *
20772979 AATTAATCACTAGCA
66 AATTAGTAACTCGCA
*
20772994 CAAATGTCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
20773013 ACCCCGTTAT
Statistics
Matches: 157, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
79 4 0.03
80 148 0.94
81 5 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:20781123 original size:40 final size:40
Alignment explanation
Indices: 20781101--20781326 Score: 355
Period size: 40 Copynumber: 5.7 Consensus size: 40
20781091 ATGGTCACTA
*
20781101 GCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTC
1 GCACAAATGCCTTCGGGACTTAACCCGGAAT-TAGTAACTC
*
20781141 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTC
*
20781181 GCACAAATGCCTTCGAGACTTAACCCGGAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTC
20781221 GCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTC
* * * *
20781261 GCACAAATGCCTTCAGGACTTAACCCGGAATTAATCACTA
1 GCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTC
* *
20781301 GCACAAATGTCTTCAGGACTTAACCC
1 GCACAAATGCCTTCGGGACTTAACCC
20781327 CGTTATCATC
Statistics
Matches: 177, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
40 175 0.99
41 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTC
Found at i:20781169 original size:80 final size:80
Alignment explanation
Indices: 20781065--20781322 Score: 342
Period size: 80 Copynumber: 3.2 Consensus size: 80
20781055 TAACCACTCG
* * * * * *
20781065 CAAA-GCCATCGGGCCTTAGCCCGG-ATATGGTCACTAGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
20781128 G-ATATAGTAACTCGCA
65 GAAT-TAATAACTCGCA
*
20781144 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
20781209 AATTAGTAACTCGCA
66 AATTAATAACTCGCA
* *
20781224 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
20781289 AATTAATCACTAGCA
66 AATTAATAACTCGCA
* *
20781304 CAAATGTCTTCAGGACTTA
1 CAAATGCCTTCGGGACTTA
20781323 ACCCCGTTAT
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
79 4 0.02
80 153 0.95
81 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAATAACTCGCA
Found at i:20786829 original size:26 final size:26
Alignment explanation
Indices: 20786763--20786832 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
20786753 CGTTCCGACC
* *
20786763 CACAGCTCATGTGAACAGACCCATTT
1 CACAGCTCATGTGAGCATACCCATTT
* * *
20786789 CACAGCTCGTGTGAGCATACTCTTTT
1 CACAGCTCATGTGAGCATACCCATTT
20786815 CACAGCTCATGTGAGCAT
1 CACAGCTCATGTGAGCAT
20786833 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:20790989 original size:28 final size:28
Alignment explanation
Indices: 20790901--20790977 Score: 154
Period size: 28 Copynumber: 2.8 Consensus size: 28
20790891 ATGTACTATT
20790901 ATACCCCTATGTATGCAAAATTACCATA
1 ATACCCCTATGTATGCAAAATTACCATA
20790929 ATACCCCTATGTATGCAAAATTACCATA
1 ATACCCCTATGTATGCAAAATTACCATA
20790957 ATACCCCTATGTATGCAAAAT
1 ATACCCCTATGTATGCAAAAT
20790978 GACCTTTATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.39, C:0.25, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATA
Found at i:20791158 original size:27 final size:27
Alignment explanation
Indices: 20791100--20791189 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
20791090 AGGAAGCGTC
20791100 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
20791128 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
20791155 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
20791184 CTGGTG
1 CTGGTG
20791190 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:20795322 original size:30 final size:30
Alignment explanation
Indices: 20795277--20795333 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
20795267 ATTTAATACG
*
20795277 AACTTTGGCAAAATTACATTTTTGCCCTTA
1 AACTTTGGCAAAATTACACTTTTGCCCTTA
* *
20795307 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTGGCAAAATTACACTTTTGCCC
20795334 CTAGGCTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCTTA
Found at i:20818161 original size:20 final size:22
Alignment explanation
Indices: 20818115--20818161 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
20818105 GGAATCCAAG
20818115 AATTTTCGTTATGTTTTAGTTA
1 AATTTTCGTTATGTTTTAGTTA
*
20818137 AATTTTC-TTA-GTTTTATTTA
1 AATTTTCGTTATGTTTTAGTTA
*
20818157 CATTT
1 AATTT
20818162 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:0.23, C:0.06, G:0.09, T:0.62
Consensus pattern (22 bp):
AATTTTCGTTATGTTTTAGTTA
Found at i:20818805 original size:21 final size:21
Alignment explanation
Indices: 20818779--20818822 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
20818769 ATACACTCAG
20818779 CTTAATTGAGCT-ATTACTAAA
1 CTTAATTGAGCTAATTA-TAAA
20818800 CTTAATTGAGCTAATTATAAA
1 CTTAATTGAGCTAATTATAAA
20818821 CT
1 CT
20818823 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:20828124 original size:46 final size:46
Alignment explanation
Indices: 20828066--20828239 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
20828056 ACACCTTATA
20828066 GCCGATGCATGTCCCAAACATGTCTTACACTAGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCTCT-CATCTCGAG
* * * *
20828112 GCCAATGCATGTCCCAAACATGTCTTACATTAGCTCTCATCTCAAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATCTCGAG
** * * * * *
20828158 GTTGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCAT-CTCGAG
* *
20828206 GCCGATGCATGTCTCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGC
20828240 ACACAAATAA
Statistics
Matches: 104, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
46 56 0.54
47 25 0.24
48 22 0.21
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATCTCGAG
Found at i:20835579 original size:50 final size:50
Alignment explanation
Indices: 20835503--20835738 Score: 196
Period size: 50 Copynumber: 4.8 Consensus size: 50
20835493 TGCTAGGGAT
*
20835503 ATATAAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAG
* * * * * * *
20835553 ATATGAGAGCTAGGGTAAGACAATGTCTGGGATAGGGAATCA-ACT--TG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAG
* * * * * ** *
20835600 ATATGTG-TC-AGTATAAGACCATGTTTAGGACATGGCATTGGCAC-CGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTCGAG
* * * * * *
20835648 AGATGAGAGCTAGTGTAAGACCATGTTTGAGACATGGTATCGGCCTCGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAG
* * *
20835698 AAATGAGAGTTAGTGTAAGACAATGTCTGGGACATGGCATC
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
20835739 GACTTTGATG
Statistics
Matches: 142, Mismatches: 37, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
45 21 0.15
46 1 0.01
47 8 0.06
48 5 0.04
49 4 0.03
50 103 0.73
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (50 bp):
ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAG
Found at i:20836178 original size:41 final size:41
Alignment explanation
Indices: 20836132--20836211 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
20836122 AGTAGGTCGA
*
20836132 TACCTATGGTGTATAATTATGTGGTAAATTTGATGGATGGT
1 TACCTATGGTGTATAATTATGTGGTAAATTTGACGGATGGT
20836173 TACCTATGGTGTATAATTATGTGGTAAATTTGACGGATG
1 TACCTATGGTGTATAATTATGTGGTAAATTTGACGGATG
20836212 ATTATGTGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.28, C:0.06, G:0.26, T:0.40
Consensus pattern (41 bp):
TACCTATGGTGTATAATTATGTGGTAAATTTGACGGATGGT
Found at i:20841635 original size:13 final size:13
Alignment explanation
Indices: 20841617--20841641 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20841607 TATGTGATAT
20841617 GTGTGAAAATTTC
1 GTGTGAAAATTTC
20841630 GTGTGAAAATTT
1 GTGTGAAAATTT
20841642 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:20842795 original size:22 final size:22
Alignment explanation
Indices: 20842764--20842806 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
20842754 GCAAATACGT
20842764 TTGGCACAAAACCATAATCAGG
1 TTGGCACAAAACCATAATCAGG
* *
20842786 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAACCATAATCAG
20842807 AATAATTGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (22 bp):
TTGGCACAAAACCATAATCAGG
Found at i:20843289 original size:27 final size:27
Alignment explanation
Indices: 20843225--20843597 Score: 270
Period size: 27 Copynumber: 13.8 Consensus size: 27
20843215 ATTTCACCCT
* * *
20843225 TCAAGGGTGTTTTGGTAAATCTACAAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
* * *
20843252 CCAAGGTTATTTTGGTAATTTTGCAAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
* * * **
20843279 TTAACGGTATTTCT-ATAATTTTTGAAA
1 TCAAGGGTATTT-TGGTAATTTTACAAA
* ** *
20843306 GTCAAGGGTATTTTTGCCATTTTATAAA
1 -TCAAGGGTATTTTGGTAATTTTACAAA
* *
20843334 TCAGGGGTAGTTTT-GTAATTTTCCAAA
1 TCAAGGGTA-TTTTGGTAATTTTACAAA
* * * *
20843361 TCAAGGATATTTCGATAATTTTCCAAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
* * *
20843388 TCAGGGGTATTTCT-ATAATGTTACAAA
1 TCAAGGGTATTT-TGGTAATTTTACAAA
** * *
20843415 TTTAGGGTATTTCGGTAATTTTACAAG
1 TCAAGGGTATTTTGGTAATTTTACAAA
** *
20843442 TCGAA-GGTATTTCAGTAATTTTACAAG
1 TC-AAGGGTATTTTGGTAATTTTACAAA
* * *
20843469 TCGAGGGTATTTCGGTAATTTTACAAG
1 TCAAGGGTATTTTGGTAATTTTACAAA
* *
20843496 TCAAGGGTATTTCGGTAATTTCACAAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
* * *
20843523 -CTAGGGTATTTCGATAATTTTACAAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
* * * *
20843549 CCAGGGGTATTTTGGTAATTTTGCTAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
*
20843576 TCAATGGTATTTTGGTAATTTT
1 TCAAGGGTATTTTGGTAATTTT
20843598 GTAAACTAAG
Statistics
Matches: 275, Mismatches: 61, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
26 27 0.10
27 224 0.81
28 24 0.09
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (27 bp):
TCAAGGGTATTTTGGTAATTTTACAAA
Found at i:20843604 original size:80 final size:81
Alignment explanation
Indices: 20843418--20843623 Score: 226
Period size: 80 Copynumber: 2.6 Consensus size: 81
20843408 TTACAAATTT
* * * **
20843418 AGGGTATTTCGGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTACAAGTCGAGGGTATTTC
1 AGGGTATTTCGGTAATTTCACAA-ACTAAGGGTATTTCAGTAATTTTACAAACCGAGGGTATTTC
20843482 GGTAATTTTACAAGTCA
65 GGTAATTTTACAAGTCA
20843499 AGGGTATTTCGGTAATTTCACAAACT-AGGGTATTTC-GATAATTTTACAAACC-AGGGGTATTT
1 AGGGTATTTCGGTAATTTCACAAACTAAGGGTATTTCAG-TAATTTTACAAACCGA-GGGTATTT
* *
20843561 TGGTAATTTTGCTAA-TCA
64 CGGTAATTTTAC-AAGTCA
* * ***
20843579 ATGGTATTTTGGTAATTTTGTAAACTAAGGGTA-TTCAGTAATTTT
1 AGGGTATTTCGGTAATTTCACAAACTAAGGGTATTTCAGTAATTTT
20843624 GTAAACTAAG
Statistics
Matches: 107, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
79 3 0.03
80 73 0.68
81 31 0.29
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGTATTTCGGTAATTTCACAAACTAAGGGTATTTCAGTAATTTTACAAACCGAGGGTATTTCG
GTAATTTTACAAGTCA
Found at i:20843611 original size:27 final size:27
Alignment explanation
Indices: 20843472--20843640 Score: 141
Period size: 27 Copynumber: 6.3 Consensus size: 27
20843462 TTACAAGTCG
*
20843472 AGGGTATTTCGGTAA-TTT-TACAAGTCA
1 AGGGTATTTCGGTAATTTTGTA-AACT-A
***
20843499 AGGGTATTTCGGTAATTTCACAAACT-
1 AGGGTATTTCGGTAATTTTGTAAACTA
* ** *
20843525 AGGGTATTTCGATAATTTTACAAACCA
1 AGGGTATTTCGGTAATTTTGTAAACTA
* * *
20843552 GGGGTATTTTGGTAATTTTGCTAATC-A
1 AGGGTATTTCGGTAATTTTG-TAAACTA
* *
20843579 ATGGTATTTTGGTAATTTTGTAAACTA
1 AGGGTATTTCGGTAATTTTGTAAACTA
*
20843606 AGGGTA-TTCAGTAATTTTGTAAACTA
1 AGGGTATTTCGGTAATTTTGTAAACTA
*
20843632 AGGGCATTT
1 AGGGTATTT
20843641 TAGTAATTCT
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
26 50 0.43
27 58 0.50
28 8 0.07
29 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTGTAAACTA
Found at i:20843641 original size:80 final size:80
Alignment explanation
Indices: 20843226--20843648 Score: 230
Period size: 81 Copynumber: 5.2 Consensus size: 80
20843216 TTTCACCCTT
* * * ** * * ** * *
20843226 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGTTATTTTGGTAATTTTGCAAATTAACGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAGTCAAGGGTATTTCGGTAATTTCACAAACT-AGGGTATTT
* ** *
20843291 CTATAATTTTTGAAAGT
65 CGATAATTTTACAAA-C
* ** * * * * * *
20843308 CAAGGGTATTTTTGCCATTTTATAAATCAGGGGTAGTTT-TGTAATTTTC-CAAATCAAGGATAT
1 CAAGGGTATTTTGGTAATTTTACAAGTCAAGGGTA-TTTCGGTAA-TTTCACAAA-CTAGGGTAT
* *
20843371 TTCGATAATTTTCCAAAT
63 TTCGATAATTTTACAAAC
* * * * ** * * * *
20843389 CAGGGGTATTTCT-ATAATGTTACAAATTTAGGGTATTTCGGTAATTTTACAAGTCGAAGGTATT
1 CAAGGGTATTT-TGGTAATTTTACAAGTCAAGGGTATTTCGGTAATTTCACAA-ACTAGGGTATT
**
20843453 TC-AGTAATTTTACAAGT
64 TCGA-TAATTTTACAAAC
* *
20843470 CGAGGGTATTTCGGTAATTTTACAAGTCAAGGGTATTTCGGTAATTTCACAAACTAGGGTATTTC
1 CAAGGGTATTTTGGTAATTTTACAAGTCAAGGGTATTTCGGTAATTTCACAAACTAGGGTATTTC
20843535 GATAATTTTACAAAC
66 GATAATTTTACAAAC
* * * * ***
20843550 CAGGGGTATTTTGGTAATTTTGCTAA-TCAATGGTATTTTGGTAATTTTGTAAACTAAGGGTA-T
1 CAAGGGTATTTTGGTAATTTTAC-AAGTCAAGGGTATTTCGGTAATTTCACAAACT-AGGGTATT
**
20843613 TC-AGTAATTTTGTAAAC
64 TCGA-TAATTTTACAAAC
* * *
20843630 TAAGGGCATTTTAGTAATT
1 CAAGGGTATTTTGGTAATT
20843649 CTACCCTACA
Statistics
Matches: 263, Mismatches: 65, Indels: 28
0.74 0.18 0.08
Matches are distributed among these distances:
79 1 0.00
80 100 0.38
81 103 0.39
82 53 0.20
83 6 0.02
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (80 bp):
CAAGGGTATTTTGGTAATTTTACAAGTCAAGGGTATTTCGGTAATTTCACAAACTAGGGTATTTC
GATAATTTTACAAAC
Found at i:20843663 original size:27 final size:27
Alignment explanation
Indices: 20843633--20843713 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
20843623 TGTAAACTAA
*
20843633 GGGCATTTTAGTAATTCTACCCTACAG
1 GGGCATTTCAGTAATTCTACCCTACAG
*
20843660 GGGCATTTCAGTAATTCTATCCTACAG
1 GGGCATTTCAGTAATTCTACCCTACAG
* *
20843687 GGGCATTTCAGTAATACTAGCCTACAG
1 GGGCATTTCAGTAATTCTACCCTACAG
20843714 ATATGAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (27 bp):
GGGCATTTCAGTAATTCTACCCTACAG
Found at i:20851374 original size:6 final size:6
Alignment explanation
Indices: 20851328--20851386 Score: 59
Period size: 6 Copynumber: 10.0 Consensus size: 6
20851318 TTTTTCTCGA
* * *
20851328 TTTTC- TTTTCT TTGTCA TTTTCT TTCTT-T TTTTCT TGTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TT-TTCT TTTTCT TTTTCT TTTTCT
*
20851375 TTTACT TTTTCT
1 TTTTCT TTTTCT
20851387 ACATACTCTT
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
5 7 0.16
6 34 0.79
7 2 0.05
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTTCT
Found at i:20854428 original size:30 final size:30
Alignment explanation
Indices: 20854393--20854473 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
20854383 TTTACGAGTC
* *
20854393 TAGGGGCAAAAATGTAATTTTGACAAAGTT
1 TAGGGGCAAAATTGTAATTTTGACAAAATT
*
20854423 TAGGGGCAAAATTGTAATTTTGATAAAATT
1 TAGGGGCAAAATTGTAATTTTGACAAAATT
* *
20854453 TAAGGGCAAAATTATAATTTT
1 TAGGGGCAAAATTGTAATTTT
20854474 TTTCAAAATA
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:20859144 original size:21 final size:21
Alignment explanation
Indices: 20859118--20859160 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
20859108 AGTTTATGCT
*
20859118 TAAAAAAATATTTG-AAAATAG
1 TAAAAAAA-AGTTGAAAAATAG
20859139 TAAAAAAAAGTTGAAAAATAG
1 TAAAAAAAAGTTGAAAAATAG
20859160 T
1 T
20859161 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:20860957 original size:44 final size:48
Alignment explanation
Indices: 20860894--20860982 Score: 114
Period size: 46 Copynumber: 1.9 Consensus size: 48
20860884 TTCTATTTTT
*
20860894 GAAAACTTATATTCAATTCC-AAATGATT-CCATTTCTCTATTTCAGA
1 GAAAACTTATAATCAATTCCTAAATGATTCCCATTTCTCTATTTCAGA
* * *
20860940 GAAAAC-TATAATC-ATTCCTGAATGTTTCCCATTTCTCTTTTTC
1 GAAAACTTATAATCAATTCCTAAATGATTCCCATTTCTCTATTTC
20860983 TATCCATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 5 0.14
45 12 0.32
46 20 0.54
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (48 bp):
GAAAACTTATAATCAATTCCTAAATGATTCCCATTTCTCTATTTCAGA
Found at i:20865096 original size:12 final size:13
Alignment explanation
Indices: 20865079--20865116 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
20865069 ATCTTGGAAT
20865079 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
20865091 ATTAAGAACACATA
1 ATTAAGAACA-AGA
20865105 ATTAAGAACAAG
1 ATTAAGAACAAG
20865117 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:20871891 original size:5 final size:5
Alignment explanation
Indices: 20871881--20871923 Score: 50
Period size: 5 Copynumber: 7.8 Consensus size: 5
20871871 AAAAGGCAAT
20871881 TAAAA TAAAA TATAGAGA TAAAAA TAAAA TAAAA TAAAA TAAA
1 TAAAA TAAAA TA-A-A-A T-AAAA TAAAA TAAAA TAAAA TAAA
20871924 TAGAAGGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
5 25 0.74
6 3 0.09
7 2 0.06
8 3 0.09
9 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:20897368 original size:22 final size:23
Alignment explanation
Indices: 20897343--20897385 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
20897333 TATCCCCACA
*
20897343 TGGAGTGCAG-GGCTGGACGGAG
1 TGGAGTGCAGAGGCTGAACGGAG
*
20897365 TGGAGTGTAGAGGCTGAACGG
1 TGGAGTGCAGAGGCTGAACGG
20897386 GTCGGATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.21, C:0.12, G:0.51, T:0.16
Consensus pattern (23 bp):
TGGAGTGCAGAGGCTGAACGGAG
Found at i:20911984 original size:42 final size:42
Alignment explanation
Indices: 20911932--20912046 Score: 110
Period size: 42 Copynumber: 2.8 Consensus size: 42
20911922 AAGAATCTTG
* *
20911932 CACATTAAGTGCCAATACATAGCCCAAGCTATCTCAAT-TACA
1 CACACTAAGTGCCAATACATAGCCAAAGCTATCTCAATCT-CA
* * **
20911974 CACACTAAGTGCCAACT-CATAGTCAAAGCCATCTTGATCTCA
1 CACACTAAGTGCCAA-TACATAGCCAAAGCTATCTCAATCTCA
* **
20912016 CACACTAAGTGCC-ATATATAGCTGAAGCTAT
1 CACACTAAGTGCCAATACATAGCCAAAGCTAT
20912047 GTAGAATTGC
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
40 1 0.02
41 11 0.19
42 45 0.76
43 2 0.03
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.24
Consensus pattern (42 bp):
CACACTAAGTGCCAATACATAGCCAAAGCTATCTCAATCTCA
Found at i:20932031 original size:20 final size:20
Alignment explanation
Indices: 20932008--20932081 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
20931998 TTCAAATTCG
20932008 CAACAAAGGTACTTAATTAA
1 CAACAAAGGTACTTAATTAA
20932028 CAACAAAGGTCAGTCCTATACATT-A
1 CAACAAAGGT-A---CT-TA-ATTAA
* *
20932053 CCA-AAAGATACTTAATTAA
1 CAACAAAGGTACTTAATTAA
20932072 CAACAAAGGT
1 CAACAAAGGT
20932082 CAGTCCTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 16
0.68 0.06 0.26
Matches are distributed among these distances:
18 3 0.07
19 5 0.12
20 17 0.40
21 1 0.02
23 1 0.02
24 7 0.17
25 5 0.12
26 3 0.07
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23
Consensus pattern (20 bp):
CAACAAAGGTACTTAATTAA
Found at i:20932700 original size:40 final size:40
Alignment explanation
Indices: 20932644--20932811 Score: 282
Period size: 40 Copynumber: 4.2 Consensus size: 40
20932634 AACAACCAGA
*
20932644 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGC
1 ACGAATGCCTTCGGGACTTAACCCGATTATAATAACCCGC
*
20932684 ACGAATGCCTTTGGGACTTAACCCGATTATAATAACCCGC
1 ACGAATGCCTTCGGGACTTAACCCGATTATAATAACCCGC
* *
20932724 ACCAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGC
1 ACGAATGCCTTCGGGACTTAACCCGATTATAATAACCCGC
*
20932764 ACGAATGCCTTTGGGACTTAACCCGATTATAATAACCCGC
1 ACGAATGCCTTCGGGACTTAACCCGATTATAATAACCCGC
*
20932804 ATGAATGC
1 ACGAATGC
20932812 TATGCACATA
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 119 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (40 bp):
ACGAATGCCTTCGGGACTTAACCCGATTATAATAACCCGC
Found at i:20932811 original size:80 final size:80
Alignment explanation
Indices: 20932644--20932811 Score: 318
Period size: 80 Copynumber: 2.1 Consensus size: 80
20932634 AACAACCAGA
20932644 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACGAATGCCTTTGGGACTTAACCCG
1 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACGAATGCCTTTGGGACTTAACCCG
20932709 ATTATAATAACCCGC
66 ATTATAATAACCCGC
*
20932724 ACCAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACGAATGCCTTTGGGACTTAACCCG
1 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACGAATGCCTTTGGGACTTAACCCG
20932789 ATTATAATAACCCGC
66 ATTATAATAACCCGC
*
20932804 ATGAATGC
1 ACGAATGC
20932812 TATGCACATA
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (80 bp):
ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACGAATGCCTTTGGGACTTAACCCG
ATTATAATAACCCGC
Found at i:20941013 original size:40 final size:40
Alignment explanation
Indices: 20940948--20941082 Score: 216
Period size: 40 Copynumber: 3.4 Consensus size: 40
20940938 CGGATGTAAC
* **
20940948 AACCAGCACGAATGCCTTCAAGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
20940988 AACCTGTACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
20941028 AACCCGCATGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
20941068 AACCCGCACGAATGC
1 AACCCGCACGAATGC
20941083 TATGCACATA
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:20945626 original size:35 final size:35
Alignment explanation
Indices: 20945580--20945650 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
20945570 TCTTGGAAAG
20945580 TTGATATAGCCATGTTAGAGGTTATTAATTTTATC
1 TTGATATAGCCATGTTAGAGGTTATTAATTTTATC
20945615 TTGATATAGCCATGTTAGAGGTTATTAATTTTATC
1 TTGATATAGCCATGTTAGAGGTTATTAATTTTATC
20945650 T
1 T
20945651 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:20958972 original size:34 final size:34
Alignment explanation
Indices: 20958928--20958992 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
20958918 TTTCAGTTAA
* * *
20958928 GGCCTTAGCCCATACCAGTAATAGTAGCAGTCTC
1 GGCCTGAGCCCATACCAGTAACAGTACCAGTCTC
**
20958962 GGCCTGAGCCCATTTCAGTAACAGTACCAGT
1 GGCCTGAGCCCATACCAGTAACAGTACCAGT
20958993 AGGGCTTAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (34 bp):
GGCCTGAGCCCATACCAGTAACAGTACCAGTCTC
Found at i:20963598 original size:24 final size:24
Alignment explanation
Indices: 20963553--20963598 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
20963543 AAGCCCTCTC
* *
20963553 GAGCTTTCCGTATAAGGTTCTTGT
1 GAGCTTCCCGTATAAGGCTCTTGT
20963577 GAGCTTCCCG-ATAATGGCTCTT
1 GAGCTTCCCGTATAA-GGCTCTT
20963599 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:20965041 original size:27 final size:27
Alignment explanation
Indices: 20964999--20965063 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
20964989 GGGCAAAGCA
* *
20964999 GTCATTTTACCCTACAGGGGTATGTCG
1 GTCATTTTACACTACAAGGGTATGTCG
* *
20965026 GTCATTTTACAGTACAAGGGTATTTCG
1 GTCATTTTACACTACAAGGGTATGTCG
*
20965053 GTAATTTTACA
1 GTCATTTTACA
20965064 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:20965075 original size:27 final size:27
Alignment explanation
Indices: 20965042--20965286 Score: 289
Period size: 27 Copynumber: 9.2 Consensus size: 27
20965032 TTACAGTACA
20965042 AGGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATTG
* *
20965069 AGTGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATTG
* *
20965096 AGGGTGTTTCGGT-ATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATTG
* * *
20965122 AGGGTGTTTCGGTAATTTTAGAAATCG
1 AGGGTATTTCGGTAATTTTACAAATTG
* * *
20965149 ATGGTGTTTCGGTAATTTCACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATTG
* *
20965176 AGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATTG
** *
20965203 AGGGTATTTTAGTAATTTCAC-AATTG
1 AGGGTATTTCGGTAATTTTACAAATTG
**
20965229 AGGGTATTTCGACAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATTG
* **
20965256 GGGGTA-TTCAATAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATTG
20965282 AGGGT
1 AGGGT
20965287 GTAACACCCC
Statistics
Matches: 188, Mismatches: 28, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
26 67 0.36
27 121 0.64
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATTG
Found at i:20965115 original size:80 final size:81
Alignment explanation
Indices: 20965016--20965286 Score: 291
Period size: 80 Copynumber: 3.4 Consensus size: 81
20965006 TACCCTACAG
* * * * *
20965016 GGGTATGTCGGTCATTTTAC-AGTACAAGGGTATTTCGGTAATTTTACAAATTGAGTGTATTTTG
1 GGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTCGGTAATTTTACAAATTGAGTGTATTTCG
20965080 GTAATTTTACAAATTGA
65 GTAATTTTACAAATTGA
* * * * *
20965097 GGGTGTTTCGGT-ATTTTACAAATCGAGGGTGTTTCGGTAATTTTAGAAATCGA-TGGTGTTTCG
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATTGAGT-GTATTTCG
*
20965160 GTAATTTCACAAATTGA
65 GTAATTTTACAAATTGA
* ** * * *
20965177 GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCAC-AATTGAGGGTATTTCGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATTGAGTGTATTTCGG
* *
20965241 CAATTTTACAAATTGG
66 TAATTTTACAAATTGA
** *
20965257 GGGTA-TTCAATAATTTTACAAATTGAGGGT
1 GGGTATTTCGGTAATTTTACAAATCGAGGGT
20965287 GTAACACCCC
Statistics
Matches: 160, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
79 24 0.15
80 95 0.59
81 41 0.26
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (81 bp):
GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATTGAGTGTATTTCGG
TAATTTTACAAATTGA
Found at i:20965136 original size:53 final size:54
Alignment explanation
Indices: 20965016--20965286 Score: 282
Period size: 53 Copynumber: 5.1 Consensus size: 54
20965006 TACCCTACAG
* * * * *
20965016 GGGTATGTCGGTCATTTTAC-AGTACAAGGGTATTTCGGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTTACAAAT-CGAGGGTGTTTCGGTAATTTTACAAATTGA
* * * *
20965070 GTGTATTTTGGTAATTTTACAAATTGAGGGTGTTTCGGT-ATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATTGA
* * * *
20965123 GGGTGTTTCGGTAATTTTAGAAATCGATGGTGTTTCGGTAATTTCACAAATTGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATTGA
* * ** *
20965177 GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCAC-AATTGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATTGA
** * **
20965230 GGGTATTTCGACAATTTTACAAATTG-GGG-GTATTCAATAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTGT-TTCGGTAATTTTACAAATTGA
20965283 GGGT
1 GGGT
20965287 GTAACACCCC
Statistics
Matches: 181, Mismatches: 32, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
51 1 0.01
52 14 0.08
53 84 0.46
54 80 0.44
55 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (54 bp):
GGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATTGA
Found at i:20965232 original size:107 final size:107
Alignment explanation
Indices: 20965048--20965253 Score: 270
Period size: 107 Copynumber: 1.9 Consensus size: 107
20965038 TACAAGGGTA
* * ** * * *
20965048 TTTCGGTAATTTTACAAATTGAGTGTATTTTGGTAATTTTACAAATTGAGGGTGTTTCGGTATTT
1 TTTCGGTAATTTCACAAATTGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTATTT
* * ** *
20965113 TACAAATCGAGGGTGTTTCGGTAATTTTAGAAATCGATGGTG
66 CACAAATCGAGGGTATTTCGACAATTTTACAAATCGATGGTG
*
20965155 TTTCGGTAATTTCACAAATTGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATT
1 TTTCGGTAATTTCACAAATTGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGT-ATT
*
20965220 TCAC-AATTGAGGGTATTTCGACAATTTTACAAAT
65 TCACAAATCGAGGGTATTTCGACAATTTTACAAAT
20965254 TGGGGGTATT
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
107 78 0.93
108 6 0.07
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (107 bp):
TTTCGGTAATTTCACAAATTGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTATTT
CACAAATCGAGGGTATTTCGACAATTTTACAAATCGATGGTG
Found at i:20966716 original size:51 final size:51
Alignment explanation
Indices: 20966599--20966747 Score: 185
Period size: 51 Copynumber: 2.9 Consensus size: 51
20966589 GAAGTTATCT
* * * *
20966599 GGTACGCATAGTAGCCTGCACTTAGTACTATACATGCGA-C-CAATAATCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAATAATCG
* * * **
20966648 GGTACACGTAGTAGCCTGCAGTTAGTACTACACACGTGATCACAATTTTCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAATAATCG
20966699 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTCACAATA
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA--TCACAATA
20966748 GTTCATTTGT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
49 33 0.40
50 1 0.01
51 42 0.51
53 7 0.08
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (51 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAATAATCG
Found at i:20971094 original size:27 final size:27
Alignment explanation
Indices: 20970997--20971085 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
20970987 TTTAGTTTAC
* * *
20970997 TAAAATTACCGAAATACCCT-TAGTTG
1 TAAAATTACTGAAATACCCTCGACTTG
* *
20971023 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGACTTG
*
20971050 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCCTCGACTTG
20971077 TAAAATTAC
1 TAAAATTAC
20971086 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:20971302 original size:27 final size:27
Alignment explanation
Indices: 20971091--20971303 Score: 223
Period size: 27 Copynumber: 7.9 Consensus size: 27
20971081 ATTACCAAAG
*
20971091 TACCCCCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
20971118 TACCCCCGATTTACATAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * * *
20971145 TACCCCCGTTTTACATAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-ATTT
* * * *
20971172 TACCCTCAACTTATAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-ATTT
**
20971199 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
20971226 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
*
20971253 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
20971280 TACCCTCGATTTACAAAATTACTA
1 TACCCTCGATTTACAGAATTACTA
20971304 AAATACCCTT
Statistics
Matches: 160, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
27 160 1.00
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:20971310 original size:27 final size:27
Alignment explanation
Indices: 20971253--20971501 Score: 141
Period size: 27 Copynumber: 9.1 Consensus size: 27
20971243 ATTACTGTTT
* ***
20971253 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTTGATTTACAAAATTACTAAAA
*
20971280 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* ** *
20971307 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* ** *
20971334 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACTAAAA
* *** *
20971361 TACCCTTGGTTTGTGAAATTA-TCGAAA
1 TACCCTTGATTTACAAAATTACT-AAAA
* ** *
20971388 TA-CCTTCAATTTGTAAAATTACCAAAA
1 TACCCTT-GATTTACAAAATTACTAAAA
* *
20971415 TACCCCTGATTTACAAAGTTAC-AGAAA
1 TACCCTTGATTTACAAAATTACTA-AAA
20971442 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACTA-AAA
* * *
20971471 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTAAAA
20971498 TACC
1 TACC
20971502 TTTGGTTTGT
Statistics
Matches: 177, Mismatches: 32, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
26 5 0.03
27 143 0.81
28 10 0.06
29 19 0.11
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTAAAA
Found at i:20971312 original size:81 final size:81
Alignment explanation
Indices: 20971091--20971301 Score: 255
Period size: 81 Copynumber: 2.6 Consensus size: 81
20971081 ATTACCAAAG
* * * * **
20971091 TACCCCCGATTTACAGAATTACTATTTTACCCCCGATTTACATAATTACCATTTTACCCCCGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAATT
*
20971156 TACATAATTATCGTTT
66 TACAGAATTATCGTTT
* * * * * *
20971172 TACCCTCAACTTATAGAATTA-TCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAAT
1 TACCCTCGATTTACAGAATTACT-ATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAAT
*
20971236 TTATAGAATTA-CTGTTT
65 TTACAGAATTATC-GTTT
*
20971253 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
20971302 TAAAATACCC
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
80 2 0.02
81 105 0.97
82 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCAATT
TACAGAATTATCGTTT
Found at i:20971442 original size:54 final size:52
Alignment explanation
Indices: 20971294--20971503 Score: 165
Period size: 54 Copynumber: 3.8 Consensus size: 52
20971284 CTCGATTTAC
* * * *
20971294 AAAATTACTAAAATACCCTTGGTTTGTA-AAATTACCAAAATACC-CCTAGTTTGT
1 AAAATTACCAAAATACCCTTGG-TT-TACAAATTA-CGAAATACCTTC-AATTTGT
**
20971348 AAAATTACCAAAATACCCTTGGTTTGTGAAATTATCGAAATACCTTCAATTTGT
1 AAAATTACCAAAATACCCTTGGTTT-ACAAATTA-CGAAATACCTTCAATTTGT
* * * * *
20971402 AAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAATACCCTTGACTTTCT
1 AAAATTACCAAAATACCCTTGGTTTACAAA-TTAC-GAAATA-CCTTCAATTTGT
* *
20971457 AAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCTT
1 -AAAATTACCA-AAATACCCTTGGTTTAC-AAATTAC-GAAATACCTT
20971504 TGGTTTGTTG
Statistics
Matches: 129, Mismatches: 18, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
52 1 0.01
53 6 0.05
54 73 0.57
55 15 0.12
56 31 0.24
57 3 0.02
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.32
Consensus pattern (52 bp):
AAAATTACCAAAATACCCTTGGTTTACAAATTACGAAATACCTTCAATTTGT
Found at i:20971591 original size:27 final size:27
Alignment explanation
Indices: 20971561--20971628 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
20971551 ATACCTCTAT
* *
20971561 TAGGGTAAAGTGATCGTAA-AGCCCTTG
1 TAGGGTAAAGTGACCGTAATA-CCCCTG
20971588 TAGGGTAAAGTGACCGTAATACCCCTG
1 TAGGGTAAAGTGACCGTAATACCCCTG
* *
20971615 TATGGTAAAATGAC
1 TAGGGTAAAGTGAC
20971629 GAATATGCCC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 35 0.97
28 1 0.03
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.25
Consensus pattern (27 bp):
TAGGGTAAAGTGACCGTAATACCCCTG
Found at i:20972508 original size:52 final size:50
Alignment explanation
Indices: 20972430--20972537 Score: 189
Period size: 52 Copynumber: 2.1 Consensus size: 50
20972420 GAGGAAGTGC
*
20972430 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAG-TTATTG
20972482 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTATTG
20972532 AAAAGG
1 AAAAGG
20972538 CTAGGCCTCC
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
50 12 0.22
51 7 0.13
52 36 0.65
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (50 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTATTG
Found at i:20972527 original size:25 final size:26
Alignment explanation
Indices: 20972430--20972527 Score: 162
Period size: 26 Copynumber: 3.8 Consensus size: 26
20972420 GAGGAAGTGC
20972430 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
20972456 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
20972482 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
20972508 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
20972528 ATTGAAAAGG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 10 0.15
26 56 0.85
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:20972731 original size:42 final size:42
Alignment explanation
Indices: 20972672--20972763 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
20972662 TAGTCTCCCC
* ** *
20972672 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
20972714 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
20972756 AAATGGGC
1 AAATGGGC
20972764 CTATGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:20972825 original size:31 final size:31
Alignment explanation
Indices: 20972787--20972865 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
20972777 CGTTTACAGT
*
20972787 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
* * *
20972818 AAAGGCTTTGGCCCAGTTATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
20972849 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
20972866 AATCGTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:20986680 original size:29 final size:29
Alignment explanation
Indices: 20986627--20986704 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
20986617 AATCATATTC
* *
20986627 ATATGGCCCCTTTAGGCCCAAATCACCTAT
1 ATATGG-CCCATTAGGCCCAAATCACATAT
* *
20986657 ATATGGCCCATTAGGCCCAAATCATATTT
1 ATATGGCCCATTAGGCCCAAATCACATAT
*
20986686 ATATGGCCCGTTAGGCCCA
1 ATATGGCCCATTAGGCCCA
20986705 GACACATTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 37 0.86
30 6 0.14
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATAT
Found at i:20998151 original size:64 final size:63
Alignment explanation
Indices: 20998070--20998253 Score: 199
Period size: 67 Copynumber: 2.9 Consensus size: 63
20998060 AGACATTATG
*
20998070 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
20998133 TATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 -ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
20998198 TA
62 TA
** * * * *
20998200 AACTAGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
20998254 CGAACTATAT
Statistics
Matches: 98, Mismatches: 18, Indels: 9
0.78 0.14 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 19 0.19
67 30 0.31
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:21006673 original size:25 final size:25
Alignment explanation
Indices: 21006645--21006724 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
21006635 CTCTTATGAT
*
21006645 CTTACTGATATTTAGCTCGGAGGAG
1 CTTACTGATATTTAACTCGGAGGAG
* *
21006670 CTTAC-CATTATTTAACTTGGAGGAG
1 CTTACTGA-TATTTAACTCGGAGGAG
* * * *
21006695 CTTACTGTTATTCAACTCAGAGAAG
1 CTTACTGATATTTAACTCGGAGGAG
21006720 CTTAC
1 CTTAC
21006725 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:21010127 original size:43 final size:43
Alignment explanation
Indices: 21010079--21010162 Score: 98
Period size: 43 Copynumber: 2.0 Consensus size: 43
21010069 TGAGATATGT
21010079 AGCAT-CTGAGCTCGTTAAGAAGTCCGAGTTCATTATGGATGCG
1 AGCATCCT-AGCTCGTTAAGAAGTCCGAGTTCATTATGGATGCG
* * ** * *
21010122 AGCATCCTAGCTTGTTGAGTGGTCTGATTTCATTATGGATG
1 AGCATCCTAGCTCGTTAAGAAGTCCGAGTTCATTATGGATG
21010163 TGCTACATGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 32 0.94
44 2 0.06
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
AGCATCCTAGCTCGTTAAGAAGTCCGAGTTCATTATGGATGCG
Found at i:21017538 original size:40 final size:40
Alignment explanation
Indices: 21017494--21017755 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
21017484 GCTCCTCGTT
* *
21017494 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
21017534 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
21017574 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
21017613 CAAATGCCTTTGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
21017652 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
21017691 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
21017732 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21017756 CATCATTCAA
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 126 0.62
40 64 0.32
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:21027565 original size:25 final size:25
Alignment explanation
Indices: 21027537--21027623 Score: 113
Period size: 26 Copynumber: 3.4 Consensus size: 25
21027527 CTGGAGGCCT
*
21027537 AGCCTCTTTTAAT-AACTGGGGCATA
1 AGCC-CTTTTGATAAACTGGGGCATA
*
21027562 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTT-GATAAACTGGGGCATA
*
21027588 AGCCCTTTTTGGTAAACTGGGGCATA
1 AGCCC-TTTTGATAAACTGGGGCATA
21027614 AGCCCTTTTG
1 AGCCCTTTTG
21027624 CACTTCCTCC
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
24 5 0.09
25 10 0.18
26 38 0.67
27 4 0.07
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCATA
Found at i:21027580 original size:26 final size:26
Alignment explanation
Indices: 21027550--21027622 Score: 137
Period size: 26 Copynumber: 2.8 Consensus size: 26
21027540 CTCTTTTAAT
21027550 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
21027576 AACTGGGGCATAAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
21027602 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
21027623 GCACTTCCTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:21035165 original size:25 final size:26
Alignment explanation
Indices: 21035137--21035222 Score: 122
Period size: 26 Copynumber: 3.3 Consensus size: 26
21035127 CTGGAGGCCT
21035137 AGCCTCTTTT-AAT-AACTGGGGCATA
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
21035162 AGCCCTTTTCAGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
21035188 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
21035214 AGCCCTTTT
1 AGCCCTTTT
21035223 GCACTTCCTC
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
24 5 0.09
25 6 0.11
26 46 0.81
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:21035180 original size:26 final size:26
Alignment explanation
Indices: 21035150--21035222 Score: 137
Period size: 26 Copynumber: 2.8 Consensus size: 26
21035140 CTCTTTTAAT
21035150 AACTGGGGCATAAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
21035176 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
21035202 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
21035223 GCACTTCCTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAGTA
Found at i:21035297 original size:9 final size:9
Alignment explanation
Indices: 21035283--21035316 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
21035273 TCATGTGCAG
21035283 ATCATACAT
1 ATCATACAT
21035292 ATCATATGCAT
1 ATCATA--CAT
21035303 ATCATACAT
1 ATCATACAT
21035312 ATCAT
1 ATCAT
21035317 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:21035301 original size:20 final size:20
Alignment explanation
Indices: 21035272--21035328 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
21035262 TTATGAAAAC
*
21035272 ATCATGTGCAGATCATACAT
1 ATCATGTGCATATCATACAT
*
21035292 ATCATATGCATATCATACAT
1 ATCATGTGCATATCATACAT
21035312 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
21035329 TCAATATTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:21035335 original size:11 final size:11
Alignment explanation
Indices: 21035272--21035329 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 11
21035262 TTATGAAAAC
* *
21035272 ATCATGTGCAG
1 ATCATATGCAT
21035283 ATCATA--CAT
1 ATCATATGCAT
21035292 ATCATATGCAT
1 ATCATATGCAT
21035303 ATCATA--CAT
1 ATCATATGCAT
*
21035312 ATCATGTGCAT
1 ATCATATGCAT
21035323 ATCATAT
1 ATCATAT
21035330 CAATATTGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.41
11 23 0.59
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.34
Consensus pattern (11 bp):
ATCATATGCAT
Found at i:21035403 original size:25 final size:25
Alignment explanation
Indices: 21035375--21035422 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
21035365 ATAATTAAAC
* * *
21035375 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
21035400 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
21035423 CATACTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:21041776 original size:21 final size:20
Alignment explanation
Indices: 21041747--21041785 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
21041737 AATTTTATGC
*
21041747 AATTTAGCTCATAGTTTTAGT
1 AATTAAGCTCAT-GTTTTAGT
*
21041768 AATTAAGCTGATGTTTTA
1 AATTAAGCTCATGTTTTA
21041786 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:21050215 original size:43 final size:43
Alignment explanation
Indices: 21050163--21050246 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
21050153 TGAGGTATGT
* *
21050163 AGCATCCGAGCTCGTTGAGAGGTCCAAGTTCATTATGGATGCC
1 AGCATCCGAGCTCATTGAGAGGTCCAAGTTCATGATGGATGCC
* *
21050206 AGCATCCGAGCTCATTGAGTGGTCCGAGTTCATGATGGATG
1 AGCATCCGAGCTCATTGAGAGGTCCAAGTTCATGATGGATG
21050247 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:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (43 bp):
AGCATCCGAGCTCATTGAGAGGTCCAAGTTCATGATGGATGCC
Found at i:21061323 original size:19 final size:17
Alignment explanation
Indices: 21061285--21061317 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21061275 TAAAATACAC
21061285 TCTCTTTACTCTCCCAT
1 TCTCTTTACTCTCCCAT
*
21061302 TCTCTTTATTCTCCCA
1 TCTCTTTACTCTCCCA
21061318 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:21069692 original size:22 final size:22
Alignment explanation
Indices: 21069662--21069706 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
21069652 TAAAGAAGAA
21069662 AGATAGATCATTGAGATTATGC
1 AGATAGATCATTGAGATTATGC
*
21069684 AGATGGATCATTGAGATTATGC
1 AGATAGATCATTGAGATTATGC
21069706 A
1 A
21069707 TTGATTACAG
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:21074445 original size:46 final size:46
Alignment explanation
Indices: 21074393--21074606 Score: 232
Period size: 46 Copynumber: 4.6 Consensus size: 46
21074383 TGTGAGCTAA
***
21074393 TGTAAGACATGTCTGGGACATGCATCAGCCACCTTATGAAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAAAGCCAG
* * * * * *
21074439 TGTAAGACCATGTCTGGGATATGGCATC-GACATTGAGACGAGAGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-CGAGATGAAAGCCAG
* * *
21074487 TGTAAGTCATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAAAGCCAG
* * * *
21074533 TGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAAAGCCAG
21074579 TGTAAGACCATGTCTGGGACATGGCATC
1 TGTAAGA-CATGTCTGGGACAT-GCATC
21074607 TACTTGAGAT
Statistics
Matches: 137, Mismatches: 25, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
46 68 0.50
47 45 0.33
48 24 0.18
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAAAGCCAG
Found at i:21074498 original size:47 final size:47
Alignment explanation
Indices: 21074393--21074656 Score: 229
Period size: 47 Copynumber: 5.7 Consensus size: 47
21074383 TGTGAGCTAA
* * *** *
21074393 TGTAAGA-CATGTCTGGGACAT-GCATCAGCCACCTTATGAAAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATC-GACTCGAGATGAGAGCCAG
* * * *
21074439 TGTAAGACCATGTCTGGGATATGGCATCGACATTGAGACGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGAC-TCGAGATGAGAGCCAG
* *
21074487 TGTAAG-TCATGTCTGGGACAT-GCATCAGCCTCGAGATGTA-AGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATC-GACTCGAGATG-AGAGCCAG
* * *
21074533 TGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGATAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACT-CGAGATGAGAGCCAG
* *
21074579 TGTAAGACCATGTCTGGGACATGGCATCTACTTGAGAT-ATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATGA-GAGCCAG
* * * *
21074626 TATAAGACCATGTCTAGGATATGACATCGAC
1 TGTAAGACCATGTCTGGGACATGGCATCGAC
21074657 ACCTTACCCA
Statistics
Matches: 179, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
45 4 0.02
46 68 0.38
47 81 0.45
48 26 0.15
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATGAGAGCCAG
Found at i:21074606 original size:94 final size:93
Alignment explanation
Indices: 21074386--21074657 Score: 293
Period size: 94 Copynumber: 2.9 Consensus size: 93
21074376 AATTGTGTGT
* * *** *
21074386 GAGCTAATGTAAGACATGTCTGGGACATGCATCAGCCACCTTATGAAAGCCAGTGTAAGACCATG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCCAGTGTAAGACCATG
*
21074451 TCTGGGATATGGCATCGACATTGAGACGA
66 TCTGGGATAT-GCATCGACATCGAGACGA
*
21074480 GAGCTAGTGTAAGTCATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCCAGTGTAAGA-CATG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCCAGTGTAAGACCATG
* * *
21074544 TCTGGGACATGCATCGGC-TACGAGATGA
66 TCTGGGATATGCATCGACAT-CGAGACGA
* * * * *
21074572 TAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCTA--CTTGAGATATGAGCCAGTATAAGAC
1 GAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATC-AGCCTCGAGATGTAAGCCAGTGTAAGAC
*
21074634 CATGTCTAGGATATGACATCGACA
62 CATGTCTGGGATATG-CATCGACA
21074658 CCTTACCCAC
Statistics
Matches: 150, Mismatches: 20, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
91 2 0.01
92 23 0.15
93 47 0.31
94 71 0.47
95 7 0.05
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (93 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCCAGTGTAAGACCATG
TCTGGGATATGCATCGACATCGAGACGA
Found at i:21076847 original size:21 final size:20
Alignment explanation
Indices: 21076819--21076857 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
21076809 TAGTACATGG
* *
21076819 CCTAACCACATGGGTGTGCC
1 CCTAACCAAACGGGTGTGCC
21076839 CCTAGACCAAACGGGTGTG
1 CCTA-ACCAAACGGGTGTG
21076858 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:21079616 original size:11 final size:11
Alignment explanation
Indices: 21079600--21079633 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
21079590 ATGTCAAATC
*
21079600 ATCAAGAATAA
1 ATCAAGAACAA
21079611 ATCAAGAACAA
1 ATCAAGAACAA
21079622 ATCAAGAACAA
1 ATCAAGAACAA
21079633 A
1 A
21079634 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:21084843 original size:11 final size:11
Alignment explanation
Indices: 21084827--21084861 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
21084817 CATGTCAAAT
21084827 AATCAAGAATA
1 AATCAAGAATA
*
21084838 AATCAAGAACA
1 AATCAAGAATA
21084849 AATCAAGAATA
1 AATCAAGAATA
21084860 AA
1 AA
21084862 ACTAGATGCG
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:21086993 original size:10 final size:10
Alignment explanation
Indices: 21086980--21087004 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
21086970 CTTAATTTGG
21086980 TATTTATTGT
1 TATTTATTGT
21086990 TATTTATTGT
1 TATTTATTGT
21087000 TATTT
1 TATTT
21087005 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:21087390 original size:162 final size:162
Alignment explanation
Indices: 21087123--21087431 Score: 442
Period size: 162 Copynumber: 1.9 Consensus size: 162
21087113 AAAATTATGA
* *
21087123 TTTTAATTATTAAATTGATATTTAAGATTGCTGGTCACCTTATTTAAATTTTTAAATAAACAATT
1 TTTTAATGATTAAATTGATATTTAAGATTGCTGGTCACCTTATTTAAATTGTTAAATAAACAATT
* *
21087188 TAAAGGTGGTCGAATCAGGTACATTTCGAGCCTAACTAATTAGCATGAATACAAAACTAGTATGG
66 TAAAAGTGGTCGAATCAGGTACATTTCGAGCCTAACTAATTAGCATGAATACAAAACTAGTATAG
21087253 TTGACCAAATAATTGTACGCTGATATTTATAC
131 TTGACCAAATAATTGTACGCTGATATTTATAC
* *** * ***
21087285 TTTTAATGATTAAATTGATATTTAAGCTTG-TGGGTTGGCTTATTTCAATTGTTAAATAAGTGAT
1 TTTTAATGATTAAATTGATATTTAAGATTGCT-GGTCACCTTATTTAAATTGTTAAATAAACAAT
* ** *
21087349 TTAAAAGTGG-CTGAATTAGGTATGTTTTGAGCCTAACTAATTAGCATGAATACAAAACTAGTAT
65 TTAAAAGTGGTC-GAATCAGGTACATTTCGAGCCTAACTAATTAGCATGAATACAAAACTAGTAT
21087413 AGTTGACCAAATAATTGTA
129 AGTTGACCAAATAATTGTA
21087432 TGTTCATATT
Statistics
Matches: 129, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
161 2 0.02
162 127 0.98
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (162 bp):
TTTTAATGATTAAATTGATATTTAAGATTGCTGGTCACCTTATTTAAATTGTTAAATAAACAATT
TAAAAGTGGTCGAATCAGGTACATTTCGAGCCTAACTAATTAGCATGAATACAAAACTAGTATAG
TTGACCAAATAATTGTACGCTGATATTTATAC
Found at i:21088392 original size:12 final size:12
Alignment explanation
Indices: 21088360--21088394 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
21088350 CCCCACACAC
*
21088360 CCGTGTGCCAGG
1 CCGTGTGCTAGG
21088372 CCGTGTGCTAGG
1 CCGTGTGCTAGG
21088384 CCGTGTGCTAG
1 CCGTGTGCTAG
21088395 TCCATGTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.09, C:0.29, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:21092034 original size:27 final size:27
Alignment explanation
Indices: 21092002--21092125 Score: 108
Period size: 27 Copynumber: 4.6 Consensus size: 27
21091992 ATTTGAAAAA
21092002 AGAAGCCTTTGTGGCAATCTATGAAAT
1 AGAAGCCTTTGTGGCAATCTATGAAAT
* * * *
21092029 AGAAGCCTTTATGGAAATCGATGGAAT
1 AGAAGCCTTTGTGGCAATCTATGAAAT
* *
21092056 -GAAAGCTTTTGTGGCAAT-TGTGAAAT
1 AG-AAGCCTTTGTGGCAATCTATGAAAT
* * * *
21092082 AGGAGCTTTTGTGGCAATCCATGGAAAG
1 AGAAGCCTTTGTGGCAATCTAT-GAAAT
* *
21092110 AAAAGCCTTCGTGGCA
1 AGAAGCCTTTGTGGCA
21092126 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 38 0.51
28 16 0.21
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (27 bp):
AGAAGCCTTTGTGGCAATCTATGAAAT
Found at i:21092115 original size:54 final size:54
Alignment explanation
Indices: 21092000--21092125 Score: 148
Period size: 53 Copynumber: 2.4 Consensus size: 54
21091990 ACATTTGAAA
*
21092000 AAAG-AAGCCTTTGTGGCAATCTATGAAATAGAAGCCTTTATGGAAATCGATGG
1 AAAGAAAGCCTTTGTGGCAATCTATGAAATAGAAGCCTTTATGGAAATCCATGG
* * * * * * *
21092053 AATGAAAGCTTTTGTGGCAAT-TGTGAAATAGGAGCTTTTGTGGCAATCCATGG
1 AAAGAAAGCCTTTGTGGCAATCTATGAAATAGAAGCCTTTATGGAAATCCATGG
*
21092106 AAAGAAAAGCCTTCGTGGCA
1 AAAG-AAAGCCTTTGTGGCA
21092126 CATTCTAAAG
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
53 32 0.53
54 28 0.47
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.27
Consensus pattern (54 bp):
AAAGAAAGCCTTTGTGGCAATCTATGAAATAGAAGCCTTTATGGAAATCCATGG
Found at i:21104244 original size:15 final size:15
Alignment explanation
Indices: 21104224--21104254 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
21104214 TGAAGACTAG
21104224 TAGAAGATGCATGGA
1 TAGAAGATGCATGGA
21104239 TAGAAGATGCATGGA
1 TAGAAGATGCATGGA
21104254 T
1 T
21104255 GACAAGCTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TAGAAGATGCATGGA
Found at i:21105303 original size:26 final size:26
Alignment explanation
Indices: 21105244--21105305 Score: 83
Period size: 24 Copynumber: 2.5 Consensus size: 26
21105234 ATTTTGAAGT
21105244 TTAAAAAAAAAGAAAAAAATACGAAA
1 TTAAAAAAAAAGAAAAAAATACGAAA
* * *
21105270 TT--AAAAAAATAAAAAAATGCGAGA
1 TTAAAAAAAAAGAAAAAAATACGAAA
21105294 TTAAAAAAAAAG
1 TTAAAAAAAAAG
21105306 TGAAGTGTTC
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:21106228 original size:27 final size:27
Alignment explanation
Indices: 21106226--21106323 Score: 58
Period size: 30 Copynumber: 3.4 Consensus size: 27
21106216 AAAGAAAAAG
21106226 AAAAGAAAAAATGAGAAAAAGAACACAAG
1 AAAAGAAAAAATGAGAAAAAGAA-A-AAG
* *
21106255 AATAGCAAAAGA-GAGAGAAAAGAAAATTAG
1 AAAAG-AAAAAATGAGA-AAAAGAAAA--AG
* *
21106285 AAAAG--AAAAGGATGAACAAGAAAAAG
1 AAAAGAAAAAATGA-GAAAAAGAAAAAG
21106311 AAAATAGAAAAAA
1 -AAA-AGAAAAAA
21106324 AAAGTTTGAT
Statistics
Matches: 54, Mismatches: 5, Indels: 19
0.69 0.06 0.24
Matches are distributed among these distances:
26 2 0.04
27 6 0.11
28 13 0.24
29 11 0.20
30 22 0.41
ACGTcount: A:0.70, C:0.04, G:0.19, T:0.06
Consensus pattern (27 bp):
AAAAGAAAAAATGAGAAAAAGAAAAAG
Found at i:21106242 original size:21 final size:21
Alignment explanation
Indices: 21106195--21106248 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
21106185 AAATCAATTG
21106195 AGAGAAAAAG-AAAGAAAGGAA
1 AGAGAAAAAGAAAAGAAA-GAA
*
21106216 AAAGAAAAAGAAAAGAAA-AA
1 AGAGAAAAAGAAAAGAAAGAA
21106236 ATGAGAAAAAGAA
1 A-GAGAAAAAGAA
21106249 CACAAGAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 3 0.10
21 19 0.66
22 7 0.24
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (21 bp):
AGAGAAAAAGAAAAGAAAGAA
Found at i:21106321 original size:7 final size:6
Alignment explanation
Indices: 21106197--21106326 Score: 52
Period size: 6 Copynumber: 20.0 Consensus size: 6
21106187 ATCAATTGAG
*
21106197 AGAAAA AGAAAGAA AGGAAAA AGAAAA AGAAAA GAAAAAA TGAGAAAA
1 AGAAAA AG-AA-AA A-GAAAA AGAAAA AGAAAA -AGAAAA --AGAAAA
* * * *
21106245 AGAACACA AG-AAT AGCAAA AGAGAG AG-AAA AGAAAA TTAG-AAA AGAAAA
1 AGAA-A-A AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA --AGAAAA AGAAAA
*
21106294 GGATGAACA AGAAAA AGAAAA TAGAAAA A-AAAA
1 --A-GAAAA AGAAAA AGAAAA -AGAAAA AGAAAA
21106327 GTTTGATTGC
Statistics
Matches: 97, Mismatches: 11, Indels: 33
0.69 0.08 0.23
Matches are distributed among these distances:
5 11 0.11
6 42 0.43
7 22 0.23
8 17 0.18
9 5 0.05
ACGTcount: A:0.72, C:0.03, G:0.20, T:0.05
Consensus pattern (6 bp):
AGAAAA
Found at i:21129817 original size:48 final size:48
Alignment explanation
Indices: 21129765--21129948 Score: 172
Period size: 48 Copynumber: 3.8 Consensus size: 48
21129755 CGAAATCACT
* *
21129765 TATCGATGCCGAAGCCATATCCCTGATATGGTCTTACACGGGATAGTG
1 TATCGATGCCGAAGCCATATCCCAGACATGGTCTTACACGGGATAGTG
* * * ** *
21129813 TATCGATGCCGATGCCATGTCCCAGACATGGTCTTATACGTAATCACT-
1 TATCGATGCCGAAGCCATATCCCAGACATGGTCTTACACGGGAT-AGTG
* * * ** * * * *
21129861 TATTGACGCTGAAGCCATATCCTTGATATGGTCTTACATGGGATCGCG
1 TATCGATGCCGAAGCCATATCCCAGACATGGTCTTACACGGGATAGTG
* * *
21129909 TATCGATGCTGATGCCATGTCCCAGACATGGTCTTACACG
1 TATCGATGCCGAAGCCATATCCCAGACATGGTCTTACACG
21129949 AGATCTCGTT
Statistics
Matches: 103, Mismatches: 31, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
48 101 0.98
49 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (48 bp):
TATCGATGCCGAAGCCATATCCCAGACATGGTCTTACACGGGATAGTG
Found at i:21129851 original size:96 final size:96
Alignment explanation
Indices: 21129726--21129949 Score: 333
Period size: 96 Copynumber: 2.3 Consensus size: 96
21129716 GACCTCATAT
* *
21129726 CGATTCCATGTCCCAGGA-ATGGTCTTATACGAAATCACTTATCGATGCCGAAGCCATATCCCTG
1 CGATGCCATGTCCCA-GACATGGTCTTATACGAAATCACTTATCGACGCCGAAGCCATATCCCTG
*
21129790 ATATGGTCTTACACGGGATAGTGTATCGATGC
65 ATATGGTCTTACACGGGATAGCGTATCGATGC
* * * *
21129822 CGATGCCATGTCCCAGACATGGTCTTATACGTAATCACTTATTGACGCTGAAGCCATATCCTTGA
1 CGATGCCATGTCCCAGACATGGTCTTATACGAAATCACTTATCGACGCCGAAGCCATATCCCTGA
* *
21129887 TATGGTCTTACATGGGATCGCGTATCGATGC
66 TATGGTCTTACACGGGATAGCGTATCGATGC
* *
21129918 TGATGCCATGTCCCAGACATGGTCTTACACGA
1 CGATGCCATGTCCCAGACATGGTCTTATACGA
21129950 GATCTCGTTA
Statistics
Matches: 115, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
95 2 0.02
96 113 0.98
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTATACGAAATCACTTATCGACGCCGAAGCCATATCCCTGA
TATGGTCTTACACGGGATAGCGTATCGATGC
Found at i:21132407 original size:11 final size:11
Alignment explanation
Indices: 21132391--21132425 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
21132381 GGAAGAGAGG
21132391 TTGATTTTTGC
1 TTGATTTTTGC
*
21132402 TTGATTTTAGC
1 TTGATTTTTGC
*
21132413 TTGATTCTTGC
1 TTGATTTTTGC
21132424 TT
1 TT
21132426 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:21138951 original size:47 final size:47
Alignment explanation
Indices: 21138784--21138956 Score: 151
Period size: 47 Copynumber: 3.7 Consensus size: 47
21138774 ATTTGTGTGC
* * * *
21138784 TAGTGGAAGA-CATGTCTGGGACAT-GCATTGGCCTCGACAT-G-TAAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCA-TCGCCTCGA-GTCGAT-AGT
*
21138830 TAGTGTAAGA-CATGTCTGGGACTTGGCATCTGCCTCGATGTCGATAGT
1 TAGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCGA-GTCGATAGT
* * * *
21138878 CAGTATAAGACCATGTCTGGGACATGGCATCGTCTTGA-TCGATGAGT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGAGTCGAT-AGT
* *
21138925 TAGTGTAAGACCATGTTTGGGCCATGGCATCG
1 TAGTGTAAGACCATGTCTGGGACATGGCATCG
21138957 GTATTATACC
Statistics
Matches: 106, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
46 28 0.26
47 42 0.40
48 16 0.15
49 20 0.19
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (47 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGAGTCGATAGT
Found at i:21148231 original size:18 final size:18
Alignment explanation
Indices: 21148208--21148276 Score: 77
Period size: 18 Copynumber: 3.8 Consensus size: 18
21148198 AGGATGTGTC
21148208 ATTCATTTTCAAAACGTT
1 ATTCATTTTCAAAACGTT
* *
21148226 ATTCATTATCAAAAAGTT
1 ATTCATTTTCAAAACGTT
* *
21148244 ATAC-TCTTTCAAAACATT
1 ATTCAT-TTTCAAAACGTT
*
21148262 ATTAATTTTCAAAAC
1 ATTCATTTTCAAAAC
21148277 ATCACTTATT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
17 1 0.02
18 39 0.95
19 1 0.02
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.41
Consensus pattern (18 bp):
ATTCATTTTCAAAACGTT
Found at i:21149346 original size:17 final size:18
Alignment explanation
Indices: 21149309--21149346 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
21149299 CCCAAAATTT
*
21149309 CCACACGCTCGTGTGGGC
1 CCACACGCCCGTGTGGGC
*
21149327 CCACACGCCCTTGT-GGC
1 CCACACGCCCGTGTGGGC
21149344 CCA
1 CCA
21149347 TACGACCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.13, C:0.45, G:0.26, T:0.16
Consensus pattern (18 bp):
CCACACGCCCGTGTGGGC
Found at i:21150272 original size:24 final size:22
Alignment explanation
Indices: 21150228--21150274 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
21150218 AACTCTAAAC
* *
21150228 ATATCCCTAAAAATTCTCCACA
1 ATATCCCCAAAAATTCGCCACA
21150250 ATATCCTCCAAAAATTCGGCCACA
1 ATATCC-CCAAAAATTC-GCCACA
21150274 A
1 A
21150275 CAACCCCACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 9 0.43
24 6 0.29
ACGTcount: A:0.40, C:0.32, G:0.04, T:0.23
Consensus pattern (22 bp):
ATATCCCCAAAAATTCGCCACA
Found at i:21152812 original size:6 final size:6
Alignment explanation
Indices: 21152794--21152961 Score: 139
Period size: 6 Copynumber: 27.3 Consensus size: 6
21152784 AAGAAACATT
*
21152794 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
21152841 GTCACAGA ATCAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CCGA ATCAAA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * *
21152892 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
21152943 A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
21152962 GTGAATGCAA
Statistics
Matches: 130, Mismatches: 18, Indels: 28
0.74 0.10 0.16
Matches are distributed among these distances:
5 8 0.06
6 107 0.82
7 11 0.08
8 4 0.03
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:21152852 original size:31 final size:31
Alignment explanation
Indices: 21152803--21152961 Score: 182
Period size: 31 Copynumber: 5.2 Consensus size: 31
21152793 TATCAGAACT
*
21152803 AGAATCAGAATCA-G-AATCAGAATCAGAATC
1 AGAATCAGAATCAGGTAA-CAGAATCAAAATC
* * * *
21152833 AGAATTAG-GTCACAG-AATCAGAATCAGAATC
1 AGAATCAGAATCA-GGTAA-CAGAATCAAAATC
* *
21152864 AGAATCAGTATCAGGTAACCGAATCAAAATC
1 AGAATCAGAATCAGGTAACAGAATCAAAATC
*
21152895 AGAATCAGTATCAGGTAACAGAATCAAAATC
1 AGAATCAGAATCAGGTAACAGAATCAAAATC
*
21152926 AGAATCAGTATCAGGTAACAGAATCAAAATC
1 AGAATCAGAATCAGGTAACAGAATCAAAATC
21152957 AGAAT
1 AGAAT
21152962 GTGAATGCAA
Statistics
Matches: 117, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
29 3 0.03
30 7 0.06
31 102 0.87
32 5 0.04
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGGTAACAGAATCAAAATC
Found at i:21152918 original size:19 final size:19
Alignment explanation
Indices: 21152894--21152951 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
21152884 GAATCAAAAT
21152894 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
*
21152913 CAGAATCA--A--A---AT
1 CAGAATCAGTATCAGGTAA
21152925 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
21152944 CAGAATCA
1 CAGAATCA
21152952 AAATCAGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 9 0.30
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
19 17 0.57
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (19 bp):
CAGAATCAGTATCAGGTAA
Found at i:21153121 original size:27 final size:26
Alignment explanation
Indices: 21153081--21153188 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
21153071 AGCATGACTG
* * * *
21153081 CCAGAATAGATATTGTGACAGAGTCA
1 CCAGAACAAATATTGTGGCAGAGCCA
* *
21153107 CCAGATACATATATTGTGGTAGAGCCA
1 CCAGA-ACAAATATTGTGGCAGAGCCA
*
21153134 CCAGAACAAATATTTGTGGCATAGCCA
1 CCAGAACAAATA-TTGTGGCAGAGCCA
* *
21153161 CCAGAATCAAATAATGTGGCAAAGCCA
1 CCAGAA-CAAATATTGTGGCAGAGCCA
21153188 C
1 C
21153189 TTAACAGAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 11 0.16
27 52 0.75
28 6 0.09
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.21
Consensus pattern (26 bp):
CCAGAACAAATATTGTGGCAGAGCCA
Found at i:21153783 original size:27 final size:27
Alignment explanation
Indices: 21153746--21154153 Score: 380
Period size: 27 Copynumber: 15.2 Consensus size: 27
21153736 GGCAAAAAGG
* * *
21153746 GTAATTTTACCCTATAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
21153773 GTAATTGTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * * *
21153800 ATATTTCTACCCTACAAGCGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
21153827 GTAATTCTATCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
21153854 GTAATTCTA-CCTCCAGGGGTATTT-T
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
21153879 GATATTTCTACCCTATAAGGGTATTTTA
1 G-TAATTCTACCCTACAAGGGTATTTCA
* * *
21153907 GTATTTCTATCCTAC-AGGGGATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
21153933 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
21153960 GTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
21153986 GATATTTCTACGCTACAAGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCA
* * *
21154014 GTAATTCTACCC--CTAGGGGCATTTCG
1 GTAATTCTACCCTAC-AAGGGTATTTCA
* **
21154040 GTAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
21154067 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
21154094 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* ***
21154121 GTAATTTTA-TAAATCAAGGGTATTTCA
1 GTAATTCTACCCTA-CAAGGGTATTTCA
21154148 GTAATT
1 GTAATT
21154154 TTACAATTAA
Statistics
Matches: 316, Mismatches: 55, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
25 2 0.01
26 64 0.20
27 247 0.78
28 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:21153903 original size:80 final size:81
Alignment explanation
Indices: 21153745--21154120 Score: 454
Period size: 80 Copynumber: 4.7 Consensus size: 81
21153735 GGGCAAAAAG
* * * * *
21153745 GGTAATTTTACCCTATAAGGGTATCTCAGTAATTGTACCCTACAGGGGTATTTCAATATTTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTAC
*
21153810 CCTACAAGCGTATTTC
66 CCTACAAGGGTATTTC
* * * * *
21153826 GGTAATTCTATCCTATAGGGGTATTTCAGTAATTCTA-CCTCCAGGGGTATTTTGATATTTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTAC
* *
21153890 CCTATAAGGGTATTTT
66 CCTACAAGGGTATTTC
* * * * * *
21153906 AGTATTTCTATCCTAC-AGGGGATTTCAATAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTAC
21153970 CCTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
* * * * * *
21153986 GATATTTCTACGCTACAAGGGTATTTCAGTAATTCTACCC--CTAGGGGCATTTCGGTAATTCTA
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTAC-AGGGGTATTTCGATATTTCTA
* *
21154049 CCCTACAGGGGTATTTT
65 CCCTACAAGGGTATTTC
* *
21154066 GGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCG
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCG
21154121 GTAATTTTAT
Statistics
Matches: 252, Mismatches: 38, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
79 18 0.07
80 170 0.67
81 63 0.25
82 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTAC
CCTACAAGGGTATTTC
Found at i:21153912 original size:107 final size:108
Alignment explanation
Indices: 21153745--21154119 Score: 429
Period size: 107 Copynumber: 3.5 Consensus size: 108
21153735 GGGCAAAAAG
* * * * * * * *
21153745 GGTAATTTTACCCTATAAGGGTA-TCTCAGTAATTGTACCCTACAGGGGTATTTCAATATTTCTA
1 GGTAATTCTACCCTACAAGGGTATTTTGA-TATTTCTACCCTACAAGGGTATTTCAGTATTTCTA
* * * *
21153809 CCCTACAAGCGTATTTCGGTAATTCTATCCTATAGGGGTATTTC
65 CCCTACAAGGGCATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * * * *
21153853 AGTAATTCTA-CCTCCAGGGGTATTTTGATATTTCTACCCTATAAGGGTATTTTAGTATTTCTAT
1 GGTAATTCTACCCTACAAGGGTATTTTGATATTTCTACCCTACAAGGGTATTTCAGTATTTCTAC
* **
21153917 CCTAC-AGGGGATTTCAATAATTCTACCCTACAGGGGTATTTC
66 CCTACAAGGGCATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
21153959 GGTATTTCTACCCTACAAGGGTATTTCGATATTTCTACGCTACAAGGGTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTTGATATTTCTACCCTACAAGGGTATTTCAGTATTTCTAC
* *
21154024 CC--CTAGGGGCATTTCGGTAATTCTACCCTACAGGGGTATTTT
66 CCTAC-AAGGGCATTTCGGTAATTCTACCCTACAGGGGTATTTC
*
21154066 GGTAATTCTACCCTACAAGGGTATTTT-AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTTGA-TATTTCTACCCTACAAGGGTATTTC
21154120 GGTAATTTTA
Statistics
Matches: 223, Mismatches: 39, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
105 1 0.00
106 40 0.18
107 171 0.77
108 11 0.05
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (108 bp):
GGTAATTCTACCCTACAAGGGTATTTTGATATTTCTACCCTACAAGGGTATTTCAGTATTTCTAC
CCTACAAGGGCATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:21154154 original size:27 final size:27
Alignment explanation
Indices: 21154108--21154293 Score: 151
Period size: 27 Copynumber: 7.0 Consensus size: 27
21154098 TTCTACCCTA
21154108 CAAGGGTATTTCGGTAATTTTATAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* *
21154135 CAAGGGTATTTCAGTAATTTTA-CAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * * *
21154161 TAACGATATTTCGGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * * *
21154188 CGAGGATATTTGGGTAATTTTATAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * * * *
21154215 CTAGGGTACTTGGGTAATTTTACAAGT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* ** *
21154242 CGAGGGTATTTTAGTAATTTTA-CAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * * *
21154268 CGACGATATTTCAGTAATTTTATAAA
1 CAAGGGTATTTCGGTAATTTTATAAA
21154294 CTGGGGGTAC
Statistics
Matches: 128, Mismatches: 29, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
26 42 0.33
27 86 0.67
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTATAAAT
Found at i:21154198 original size:134 final size:134
Alignment explanation
Indices: 21153934--21154206 Score: 293
Period size: 134 Copynumber: 2.0 Consensus size: 134
21153924 GGGATTTCAA
* * * ***
21153934 TAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGATATTTCTACGC
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGATATTTCTAAAA
** ** * ** *
21153999 TACAAGGGTATTTCAGTAATTCTACCCCTAGGGGCATTTCGGTAATTCTACCCTACAGGGGTATT
66 TACAAGGGTATTTCAGTAATTCTACAACTAACGACATTTCGGTAATTCTACAATACAGGGATATT
*
21154064 TTGG
131 TGGG
* *
21154068 TAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGGTAATTT-TATA
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAT-ATTTCTA-A
* * * *
21154132 AAT-CAAGGGTATTTCAGTAATTTTACAATTAACGATATTTCGGTAATTTTACAA-ATC-GAGGA
64 AATACAAGGGTATTTCAGTAATTCTACAACTAACGACATTTCGGTAATTCTACAATA-CAG-GGA
21154194 TATTTGGG
127 TATTTGGG
21154202 TAATT
1 TAATT
21154207 TTATAAACCT
Statistics
Matches: 114, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
133 2 0.02
134 107 0.94
135 5 0.04
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (134 bp):
TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGATATTTCTAAAA
TACAAGGGTATTTCAGTAATTCTACAACTAACGACATTTCGGTAATTCTACAATACAGGGATATT
TGGG
Found at i:21154207 original size:80 final size:80
Alignment explanation
Indices: 21154114--21154319 Score: 225
Period size: 80 Copynumber: 2.6 Consensus size: 80
21154104 CCTACAAGGG
* * * *
21154114 TATTTCGGTAATTTTATAAATCAAGGGTATTTCAGTAATTTTACAA-TTAACGATATTTCGGTAA
1 TATTTCGGTAATTTTATAAACCAAGGGTACTTCAGTAATTTTACAAGTCAACGATATTTCAGTAA
*
21154178 TTTTACAAATCGAGGA
66 TTTTAC-AATCGACGA
* * ** * * * *
21154194 TATTTGGGTAATTTTATAAACCTAGGGTACTTGGGTAATTTTACAAGTCGAGGGTATTTTAGTAA
1 TATTTCGGTAATTTTATAAACCAAGGGTACTTCAGTAATTTTACAAGTCAACGATATTTCAGTAA
21154259 TTTTACAATCGACGA
66 TTTTACAATCGACGA
* *** **
21154274 TATTTCAGTAATTTTATAAACTGGGGGTACTTTGGTAATTTTACAA
1 TATTTCGGTAATTTTATAAACCAAGGGTACTTCAGTAATTTTACAA
21154320 CTGGGGGTAT
Statistics
Matches: 106, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 88 0.83
81 18 0.17
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (80 bp):
TATTTCGGTAATTTTATAAACCAAGGGTACTTCAGTAATTTTACAAGTCAACGATATTTCAGTAA
TTTTACAATCGACGA
Found at i:21154326 original size:27 final size:27
Alignment explanation
Indices: 21154174--21154340 Score: 105
Period size: 27 Copynumber: 6.3 Consensus size: 27
21154164 CGATATTTCG
* * *
21154174 GTAATTTTACAAATCGAGGATA-TTTGG
1 GTAATTTTACAACTCGAGGGTACTTT-A
* * **
21154201 GTAATTTTATAAAC-CTAGGGTACTTGG
1 GTAATTTTA-CAACTCGAGGGTACTTTA
* *
21154228 GTAATTTTACAAGTCGAGGGTATTTTA
1 GTAATTTTACAACTCGAGGGTACTTTA
* *
21154255 GTAATTTTACAA-TCGACGATA-TTTCA
1 GTAATTTTACAACTCGAGGGTACTTT-A
* * *
21154281 GTAATTTTATAAACT-GGGGGTACTTTG
1 GTAATTTTA-CAACTCGAGGGTACTTTA
*
21154308 GTAATTTTACAACT-GGGGGTA-TTTCA
1 GTAATTTTACAACTCGAGGGTACTTT-A
21154334 GTAATTT
1 GTAATTT
21154341 GGTAAACTAA
Statistics
Matches: 112, Mismatches: 20, Indels: 17
0.75 0.13 0.11
Matches are distributed among these distances:
25 6 0.05
26 37 0.33
27 61 0.54
28 8 0.07
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAACTCGAGGGTACTTTA
Found at i:21154348 original size:27 final size:25
Alignment explanation
Indices: 21154274--21154340 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 25
21154264 CAATCGACGA
21154274 TATTTCAGTAATTTTATAAACTGGGGG
1 TATTTCAGTAA-TTT-TAAACTGGGGG
*
21154301 TACTTT-GGTAATTTTACAACTGGGGG
1 TA-TTTCAGTAATTTTA-AACTGGGGG
21154327 TATTTCAGTAATTT
1 TATTTCAGTAATTT
21154341 GGTAAACTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
25 5 0.14
26 21 0.60
27 6 0.17
28 3 0.09
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (25 bp):
TATTTCAGTAATTTTAAACTGGGGG
Found at i:21156291 original size:18 final size:17
Alignment explanation
Indices: 21156263--21156296 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
21156253 GGCTTTAACC
21156263 CATTACAGAATAAGAAA
1 CATTACAGAATAAGAAA
*
21156280 CATTATCAGAATCAGAA
1 CATTA-CAGAATAAGAA
21156297 TCAGAATCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (17 bp):
CATTACAGAATAAGAAA
Found at i:21156293 original size:6 final size:6
Alignment explanation
Indices: 21156284--21156433 Score: 101
Period size: 6 Copynumber: 24.3 Consensus size: 6
21156274 AAGAAACATT
* * *
21156284 ATCAGA ATCAGA ATCAGA ATCAGA ATTAGA ATTA-A GTCACAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
21156333 ATCAGA ATCAGT ATCAGGTA A-CCGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* * * *
21156384 A-CAGA ATCAAA ATCAGA ATCAGT ATTAGGTA A-CAGA ATCAAA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
21156432 AT
1 AT
21156434 GTGAATGCAA
Statistics
Matches: 112, Mismatches: 20, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
5 8 0.07
6 91 0.81
7 8 0.07
8 5 0.04
ACGTcount: A:0.48, C:0.15, G:0.16, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:21156328 original size:31 final size:31
Alignment explanation
Indices: 21156322--21156433 Score: 197
Period size: 31 Copynumber: 3.6 Consensus size: 31
21156312 GAATTAAGTC
*
21156322 ACAGAATCAGAATCAGAATCAGTATCAGGTA
1 ACAGAATCAAAATCAGAATCAGTATCAGGTA
*
21156353 ACCGAATCAAAATCAGAATCAGTATCAGGTA
1 ACAGAATCAAAATCAGAATCAGTATCAGGTA
*
21156384 ACAGAATCAAAATCAGAATCAGTATTAGGTA
1 ACAGAATCAAAATCAGAATCAGTATCAGGTA
21156415 ACAGAATCAAAATCAGAAT
1 ACAGAATCAAAATCAGAAT
21156434 GTGAATGCAA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (31 bp):
ACAGAATCAAAATCAGAATCAGTATCAGGTA
Found at i:21156368 original size:62 final size:62
Alignment explanation
Indices: 21156292--21156433 Score: 203
Period size: 62 Copynumber: 2.3 Consensus size: 62
21156282 TTATCAGAAT
* * * * *
21156292 CAGAATCAGAATCAGAATTAGAATTAAGTCACAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGAATCAAGTAACAGAATCAAAATCAGAATCAGTATCAGGTAA
* * * *
21156354 CCGAATCAAAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAGAATCAGTATTAGGTAA
1 CAGAATCAAAATCAGAATCAGAATCAAGTAACAGAATCAAAATCAGAATCAGTATCAGGTAA
21156416 CAGAATCAAAATCAGAAT
1 CAGAATCAAAATCAGAAT
21156434 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 70 1.00
ACGTcount: A:0.48, C:0.15, G:0.16, T:0.20
Consensus pattern (62 bp):
CAGAATCAAAATCAGAATCAGAATCAAGTAACAGAATCAAAATCAGAATCAGTATCAGGTAA
Found at i:21156590 original size:27 final size:26
Alignment explanation
Indices: 21156560--21156659 Score: 76
Period size: 27 Copynumber: 3.8 Consensus size: 26
21156550 CTGCAATAAT
*
21156560 AGATATTGTGACAGAGTCACCAGATAC
1 AGATATTGTGACAGAGCCACCAGA-AC
**
21156587 AGATATTGTGGTAGAGCCACCAGAAC
1 AGATATTGTGACAGAGCCACCAGAAC
* * * *
21156613 AAATATTTGTGGCATAGCCA-CAAAATC
1 AGATA-TTGTGACAGAGCCACCAGAA-C
* * *
21156640 AGATAATGTGGCAAAGCCAC
1 AGATATTGTGACAGAGCCAC
21156660 TTAACAAATA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 22 0.37
27 38 0.63
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (26 bp):
AGATATTGTGACAGAGCCACCAGAAC
Found at i:21156741 original size:32 final size:31
Alignment explanation
Indices: 21156672--21156747 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 31
21156662 AACAAATACG
* *
21156672 TGGCACAAAGCCATCAATAACTGTAATAACT
1 TGGCACAAAGCCATCAATAACGGTAATAAAT
* * *
21156703 TGGGCACATAGCCATCAGTGACGGTAATATAAT
1 T-GGCACAAAGCCATCAATAACGGTAATA-AAT
*
21156736 TGGCACACAGCC
1 TGGCACAAAGCC
21156748 TTCGGTAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
31 1 0.03
32 33 0.89
33 3 0.08
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.21
Consensus pattern (31 bp):
TGGCACAAAGCCATCAATAACGGTAATAAAT
Found at i:21157268 original size:27 final size:27
Alignment explanation
Indices: 21157238--21157657 Score: 508
Period size: 27 Copynumber: 15.7 Consensus size: 27
21157228 TTTACCACAT
*
21157238 AAGGGTATCTT-AGTAATTCTAACCTAC
1 AAGGGTAT-TTCAGTAATTCTACCCTAC
* *
21157265 AAGGGTATTTCGGTATTTCTACCCTAC
1 AAGGGTATTTCAGTAATTCTACCCTAC
* *
21157292 AAGGGTATTTCGGTAATTCTATCCTAC
1 AAGGGTATTTCAGTAATTCTACCCTAC
* * *
21157319 AGGGGTATTTCAGTACTTCTA-CTTAC
1 AAGGGTATTTCAGTAATTCTACCCTAC
* * *
21157345 AGGGGTATTTGA-TATTTCTACCCTAC
1 AAGGGTATTTCAGTAATTCTACCCTAC
* * *
21157371 AAGGGTATTTCGGTATTTCTATCCTAC
1 AAGGGTATTTCAGTAATTCTACCCTAC
* *
21157398 AGGGGTATTTCAATAATTCTACCCTAC
1 AAGGGTATTTCAGTAATTCTACCCTAC
* * *
21157425 AGGGGTATTTCGGTATTTCTACCCTAC
1 AAGGGTATTTCAGTAATTCTACCCTAC
** *
21157452 AAGGGTATTTTGGTATTTCTACCCTAC
1 AAGGGTATTTCAGTAATTCTACCCTAC
21157479 AAGGGTATTTCAGTAATTCTACCCTAC
1 AAGGGTATTTCAGTAATTCTACCCTAC
*
21157506 -AGGCGTATTTCAGTAATTCTACCTTAC
1 AAGG-GTATTTCAGTAATTCTACCCTAC
** **
21157533 TGGGGTATTTCAGTAATTCTACATTAC
1 AAGGGTATTTCAGTAATTCTACCCTAC
*
21157560 -AGGGTATTTCGGTAATTCTACCCTAC
1 AAGGGTATTTCAGTAATTCTACCCTAC
* *
21157586 AGGGGTATTTCGGTAATTCTACCCTAC
1 AAGGGTATTTCAGTAATTCTACCCTAC
21157613 AAGGGTATTTCAGTAATTCTACCCTAC
1 AAGGGTATTTCAGTAATTCTACCCTAC
*
21157640 AAGGGTATTTCAATAATT
1 AAGGGTATTTCAGTAATT
21157658 TTATAAATCG
Statistics
Matches: 347, Mismatches: 40, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
25 7 0.02
26 55 0.16
27 283 0.82
28 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
AAGGGTATTTCAGTAATTCTACCCTAC
Found at i:21157325 original size:81 final size:81
Alignment explanation
Indices: 21157238--21157657 Score: 569
Period size: 81 Copynumber: 5.2 Consensus size: 81
21157228 TTTACCACAT
* *
21157238 AAGGGTATCTT-AGTAATTCTAACCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTT
1 AAGGGTAT-TTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTT
*
21157302 CGGTAATTCTATCCTAC
65 CGGTAATTCTACCCTAC
* * * *
21157319 AGGGGTATTTCAGTACTTCTA-CTTACAGGGGTATTT-GATATTTCTACCCTACAAGGGTATTTC
1 AAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
* *
21157382 GGTATTTCTATCCTAC
66 GGTAATTCTACCCTAC
* * *
21157398 AGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTT
1 AAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
*
21157463 GGTATTTCTACCCTAC
66 GGTAATTCTACCCTAC
* * * * **
21157479 AAGGGTATTTCAGTAATTCTACCCTACAGGCGTATTTCAGTAATTCTACCTTACTGGGGTATTTC
1 AAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
* **
21157544 AGTAATTCTACATTAC
66 GGTAATTCTACCCTAC
* *
21157560 -AGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
1 AAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
*
21157624 AGTAATTCTACCCTAC
66 GGTAATTCTACCCTAC
*
21157640 AAGGGTATTTCAATAATT
1 AAGGGTATTTCAGTAATT
21157658 TTATAAATCG
Statistics
Matches: 300, Mismatches: 35, Indels: 8
0.87 0.10 0.02
Matches are distributed among these distances:
79 60 0.20
80 101 0.34
81 139 0.46
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
GGTAATTCTACCCTAC
Found at i:21157611 original size:134 final size:133
Alignment explanation
Indices: 21157238--21157710 Score: 555
Period size: 134 Copynumber: 3.5 Consensus size: 133
21157228 TTTACCACAT
* * * *
21157238 AAGGGTATCTT-AGTAATTCTAACCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTT
1 AAGGGTAT-TTCAGTAATTCT-ACCTACAGGGGTATTTCAGTAATTCTACACTAC-AGGGTATTT
* * * * * * *
21157302 CGGTAATTCTATCCTACAGGGGTATTTCAGTACTTCTA-CTTACAGGGGTATTTGA-TATTTCTA
63 CGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTA
21157365 CCCTAC
128 CCCTAC
* * * *
21157371 AAGGGTATTTCGGTATTTCTATCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
1 AAGGGTATTTCAGTAATTCTA-CCTACAGGGGTATTTCAGTAATTCTACACTACA-GGGTATTTC
* * * *
21157436 GGTATTTCTACCCTACAAGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTAC
64 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
21157501 CCTAC
129 CCTAC
* *
21157506 -AGGCGTATTTCAGTAATTCTACCTTACTGGGGTATTTCAGTAATTCTACATTACAGGGTATTTC
1 AAGG-GTATTTCAGTAATTCTACC-TACAGGGGTATTTCAGTAATTCTACACTACAGGGTATTTC
21157570 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
64 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
21157635 CCTAC
129 CCTAC
* * * * * *
21157640 AAGGGTATTTCAATAATTTTA--TAAATCGAGGGTATTTCAGTAATTTTACAATTA-ACGGTATT
1 AAGGGTATTTCAGTAATTCTACCTACA--G-GGGTATTTCAGTAATTCTAC-ACTACAGGGTATT
21157702 TCGGTAATT
62 TCGGTAATT
21157711 TTGCAAATCG
Statistics
Matches: 296, Mismatches: 32, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
131 2 0.01
132 4 0.01
133 84 0.28
134 144 0.49
135 62 0.21
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (133 bp):
AAGGGTATTTCAGTAATTCTACCTACAGGGGTATTTCAGTAATTCTACACTACAGGGTATTTCGG
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
TAC
Done.