Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 234 of 333
Found at i:77013432 original size:104 final size:104
Alignment explanation
Indices: 77013230--77013435 Score: 342
Period size: 104 Copynumber: 2.0 Consensus size: 104
77013220 AAATAACTAT
* * *
77013230 AAAAAAATTTACATTCATAAAAAATTACAAAACACTAAACTAAACACTAACATTTTATAACCTAA
1 AAAAAAATTTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAA
77013295 TCATAAATTACTAACAAAATAACTATAAAATAATTTTAA
66 TCATAAATTACTAACAAAATAACTATAAAATAATTTTAA
77013334 AAAATAAATTTACATTAATAAAAAATCACAAAACACTAAACTAAACAC-AACAATTTATAACCTA
1 AAAA-AAATTTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTA
* * *
77013398 ATTATAAGTTATTAACAAAATAACTATAAAATAATTTT
65 ATCATAAATTACTAACAAAATAACTATAAAATAATTTT
77013436 GAAGGACAGT
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
104 54 0.57
105 41 0.43
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (104 bp):
AAAAAAATTTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAA
TCATAAATTACTAACAAAATAACTATAAAATAATTTTAA
Found at i:77013932 original size:23 final size:23
Alignment explanation
Indices: 77013892--77013941 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
77013882 TTTTTTTCCC
* * *
77013892 TTTCTTCTTCTGCTTCTCTTTTA
1 TTTCTTCTCCTGCCTCTCCTTTA
* *
77013915 TTTCTTCTCCTTCCTCTCCTTTC
1 TTTCTTCTCCTGCCTCTCCTTTA
77013938 TTTC
1 TTTC
77013942 CCTATTTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.02, C:0.34, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTCTTCTCCTGCCTCTCCTTTA
Found at i:77014098 original size:17 final size:18
Alignment explanation
Indices: 77014070--77014108 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
77014060 CACTACTAAT
*
77014070 AAAATAATAATTTTTTTA
1 AAAATAATAATTTATTTA
77014088 AAAATAA-AATTTATTTA
1 AAAATAATAATTTATTTA
77014105 AAAA
1 AAAA
77014109 AATTGTAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATAATAATTTATTTA
Found at i:77014109 original size:18 final size:18
Alignment explanation
Indices: 77014070--77014109 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
77014060 CACTACTAAT
*
77014070 AAAATAATAATTTTTTTA
1 AAAATAATAATTTTTTAA
77014088 AAAATAA-AATTTATTTAA
1 AAAATAATAATTT-TTTAA
77014106 AAAA
1 AAAA
77014110 ATTGTAGTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATAATAATTTTTTAA
Found at i:77014455 original size:31 final size:31
Alignment explanation
Indices: 77014392--77014456 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
77014382 TCGTTAATTT
* * *
77014392 TGCTGACATGATAAATGATGCTGATGTAGCA
1 TGCTGACATGAAAAATGATGCTAACGTAGCA
* *
77014423 TGCTGACATGAAAAATGGTGCTAACGTGGCA
1 TGCTGACATGAAAAATGATGCTAACGTAGCA
77014454 TGC
1 TGC
77014457 CACGTTAGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (31 bp):
TGCTGACATGAAAAATGATGCTAACGTAGCA
Found at i:77014796 original size:28 final size:28
Alignment explanation
Indices: 77014765--77014828 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
77014755 CTGAGACATG
*
77014765 AATATTATATAATTTATAA-TTTAATTTA
1 AATATTATAT-ATTTATAATTTTAATTGA
* *
77014793 AATAATGATCTATTTATAATTTTAATTGA
1 AAT-ATTATATATTTATAATTTTAATTGA
77014822 AA-ATTAT
1 AATATTAT
77014829 TAAATTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
27 4 0.13
28 11 0.37
29 15 0.50
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (28 bp):
AATATTATATATTTATAATTTTAATTGA
Found at i:77018075 original size:19 final size:20
Alignment explanation
Indices: 77018039--77018084 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
77018029 ACTTTACGAA
77018039 ATACATATATACTTGCATAC
1 ATACATATATACTTGCATAC
*
77018059 ATACATATGTA-TTGCATAC
1 ATACATATATACTTGCATAC
*
77018078 TTACATA
1 ATACATA
77018085 AAAATAGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (20 bp):
ATACATATATACTTGCATAC
Found at i:77030640 original size:32 final size:32
Alignment explanation
Indices: 77030594--77030673 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 32
77030584 TGTCAATCAT
*
77030594 TTCAATATCCAACAAGCTT-AAAACATAATAAA
1 TTCAATATCCAACAA-ATTCAAAACATAATAAA
* * *
77030626 TTCAATATCTAACAAATTCAAGACATAATAAT
1 TTCAATATCCAACAAATTCAAAACATAATAAA
*
77030658 TTCAAAATCCAACAAA
1 TTCAATATCCAACAAA
77030674 CTAAAATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 2 0.05
32 39 0.95
ACGTcount: A:0.53, C:0.19, G:0.03, T:0.26
Consensus pattern (32 bp):
TTCAATATCCAACAAATTCAAAACATAATAAA
Found at i:77032900 original size:55 final size:55
Alignment explanation
Indices: 77032823--77032929 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 55
77032813 CCCATGTGCA
* * *
77032823 ATACTGACTTCAACACATGGCCATGGCACATGCCCGTGCGACCTGCCCGTGTACG
1 ATACTGACTTCAACACACGGCCATGGCACACGCCCGTGCGACCTACCCGTGTACG
* * * *
77032878 ATACTGACTTTAAGACACGGCCATGGCACACGCCCGTGTGGCCTACCCGTGT
1 ATACTGACTTCAACACACGGCCATGGCACACGCCCGTGCGACCTACCCGTGT
77032930 TCAACACTGA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.21, C:0.34, G:0.24, T:0.21
Consensus pattern (55 bp):
ATACTGACTTCAACACACGGCCATGGCACACGCCCGTGCGACCTACCCGTGTACG
Found at i:77032939 original size:55 final size:55
Alignment explanation
Indices: 77032825--77032941 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 55
77032815 CATGTGCAAT
* * * * *
77032825 ACTGACTTCAACACATGGCCATGGCACATGCCCGTGCGACCTGCCCGTGTACGAT
1 ACTGACTTCAACACACGGCCATGGCACACGCCCGTGCGACCTACCCGTGTACAAC
* * * * *
77032880 ACTGACTTTAAGACACGGCCATGGCACACGCCCGTGTGGCCTACCCGTGTTCAAC
1 ACTGACTTCAACACACGGCCATGGCACACGCCCGTGCGACCTACCCGTGTACAAC
77032935 ACTGACT
1 ACTGACT
77032942 AAAAATTTTA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.22, C:0.34, G:0.23, T:0.21
Consensus pattern (55 bp):
ACTGACTTCAACACACGGCCATGGCACACGCCCGTGCGACCTACCCGTGTACAAC
Found at i:77033384 original size:11 final size:11
Alignment explanation
Indices: 77033364--77033398 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
77033354 AAGCGGCATT
*
77033364 GAAAGAAAAGA
1 GAAAGGAAAGA
*
77033375 GAAATGAAAGA
1 GAAAGGAAAGA
77033386 GAAAGGAAAGA
1 GAAAGGAAAGA
77033397 GA
1 GA
77033399 GTAAGCATAA
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:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (11 bp):
GAAAGGAAAGA
Found at i:77033916 original size:47 final size:45
Alignment explanation
Indices: 77033688--77034003 Score: 199
Period size: 47 Copynumber: 6.7 Consensus size: 45
77033678 GATAAGTTAT
* *
77033688 CGATGCCATGTCTCAGACATGGTCTTACACTGGCTAGCATCATCGAGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATCATC-TCGAGGC
* * * *
77033737 CGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTATACACG-GGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATC--AT-CTCGAGGC
* * * * *
77033787 TGATGCATGTCCCAAACATGTCTTACACTAGCA-CAACTCTTA-GC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCATCATCTC-GAGGC
** * * * *
77033831 CGATGTGTATCCTAGACACGTCTTACACTGTCTATCATCATCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-ATCATC-TCGAGGC
* *
77033878 CGATGCATGTCCCAGACATGTCTTATACTGGCACTCATCTCTG-TGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCA-TCATCTC-GAGGC
* * * * * * *
77033924 TGATGCCATGTCCTAGACATGGTTTTATACTAGCACTCATCTCTACGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCA-TCATCTCGAGGC
*
77033972 CGATGCATGTCCCAGACATGCCTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
77034004 GCACAAGTAA
Statistics
Matches: 209, Mismatches: 44, Indels: 31
0.74 0.15 0.11
Matches are distributed among these distances:
43 2 0.01
44 26 0.12
45 1 0.00
46 23 0.11
47 61 0.29
48 38 0.18
49 46 0.22
50 7 0.03
51 4 0.02
52 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCATCATCTCGAGGC
Found at i:77033989 original size:141 final size:140
Alignment explanation
Indices: 77033688--77034003 Score: 345
Period size: 141 Copynumber: 2.2 Consensus size: 140
77033678 GATAAGTTAT
* *
77033688 CGATGCCATGTCTCAGACATGGTCTTACACTGGCTAGCATCATCGAGGCCGATGCCATGTCCCAG
1 CGATG-CATGTCCCAGACA-CGTCTTACACTGGCTAGCATCATCGAGGCCGATGCCATGTCCCAG
*
77033753 ACATGGTCTTATACTAGCTCTCGTATACACGGGCTGATGCATGTCCCAAACATGTCTTACACTAG
64 ACATGGTCTTATACTAGCACTCG-ATACACGGGCTGATGCATGTCCCAAACATGTCTTACACTAG
77033818 CACAACTCTTAGC
128 CACAACTCTTAGC
** * * * *
77033831 CGATGTGTATCCTAGACACGTCTTACACTGTCTATCATCATCGAGGCCGATG-CATGTCCCAGAC
1 CGATGCATGTCCCAGACACGTCTTACACTGGCTAGCATCATCGAGGCCGATGCCATGTCCCAGAC
* * * * * * *
77033895 AT-GTCTTATACTGGCACTC-AT-CTCTGTGCTGATGCCATGTCCTAGACATGGTTTTATACTAG
66 ATGGTCTTATACTAGCACTCGATACAC-GGGCTGATG-CATGTCCCAAACAT-GTCTTACACTAG
*
77033957 CAC-TCATCTCTACGC
128 CACAAC-TCT-TA-GC
* *
77033972 CGATGCATGTCCCAGACATGCCTTACACTGGC
1 CGATGCATGTCCCAGACACGTCTTACACTGGC
77034004 GCACAAGTAA
Statistics
Matches: 143, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
136 2 0.01
137 10 0.07
138 13 0.09
139 31 0.22
140 16 0.11
141 58 0.41
142 8 0.06
143 5 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (140 bp):
CGATGCATGTCCCAGACACGTCTTACACTGGCTAGCATCATCGAGGCCGATGCCATGTCCCAGAC
ATGGTCTTATACTAGCACTCGATACACGGGCTGATGCATGTCCCAAACATGTCTTACACTAGCAC
AACTCTTAGC
Found at i:77034383 original size:52 final size:52
Alignment explanation
Indices: 77034305--77034408 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
77034295 GTACTCATTT
77034305 AGTCACTAATTACAATTATTCAATCATAAATCCACATATTTAGCAAAATGAC
1 AGTCACTAATTACAATTATTCAATCATAAATCCACATATTTAGCAAAATGAC
*
77034357 AGTCACTAATTACAATTATTCAATCATAAATCCACATCTTTAGCAAAATGAC
1 AGTCACTAATTACAATTATTCAATCATAAATCCACATATTTAGCAAAATGAC
77034409 CATTTTGCCC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (52 bp):
AGTCACTAATTACAATTATTCAATCATAAATCCACATATTTAGCAAAATGAC
Found at i:77034435 original size:30 final size:30
Alignment explanation
Indices: 77034394--77034451 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
77034384 AAATCCACAT
*
77034394 CTTTAGCAAAATGACCATTTTGCCCCTAGA
1 CTTTAGCAAAATGACCATTTTACCCCTAGA
*
77034424 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTAGCAAAATGACCATTTTACCCCTA
77034452 TGCTCGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (30 bp):
CTTTAGCAAAATGACCATTTTACCCCTAGA
Found at i:77036403 original size:28 final size:30
Alignment explanation
Indices: 77036346--77036411 Score: 100
Period size: 28 Copynumber: 2.3 Consensus size: 30
77036336 TCTAACGAAC
*
77036346 AACAAGCATAAACTTTATGCAAAACCTAGA
1 AACAAACATAAACTTTATGCAAAACCTAGA
77036376 AACAAACATAAAC-TT-TGCAAAACCTAGA
1 AACAAACATAAACTTTATGCAAAACCTAGA
*
77036404 AATAAACA
1 AACAAACA
77036412 GATTAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 20 0.59
29 2 0.06
30 12 0.35
ACGTcount: A:0.55, C:0.20, G:0.08, T:0.18
Consensus pattern (30 bp):
AACAAACATAAACTTTATGCAAAACCTAGA
Found at i:77036437 original size:3 final size:3
Alignment explanation
Indices: 77036429--77036534 Score: 203
Period size: 3 Copynumber: 35.3 Consensus size: 3
77036419 TAAAGCATAA
*
77036429 AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
77036477 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
77036525 AAG AAG AAG A
1 AAG AAG AAG A
77036535 TTCTTCAATA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 101 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:77047240 original size:28 final size:28
Alignment explanation
Indices: 77047192--77047309 Score: 114
Period size: 28 Copynumber: 4.2 Consensus size: 28
77047182 GTGAAAATGA
* *
77047192 CACTTAGTGCT-CGAGATATCCAAGATGG
1 CACTTAGTG-TGCGAAACATCCAAGATGG
*
77047220 CACTTAGTGTGCGAAACATCCAGAAATGG
1 CACTTAGTGTGCGAAACATCCA-AGATGG
** *
77047249 CACTTAGTGTGCGAATTATTGCAA-ATGG
1 CACTTAGTGTGCGAAACA-TCCAAGATGG
* * *
77047277 CACTTAGCGTGCGAGACATCCAGGATGG
1 CACTTAGTGTGCGAAACATCCAAGATGG
77047305 CACTT
1 CACTT
77047310 TGTGCACGAT
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
27 4 0.05
28 45 0.61
29 22 0.30
30 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (28 bp):
CACTTAGTGTGCGAAACATCCAAGATGG
Found at i:77047256 original size:57 final size:58
Alignment explanation
Indices: 77047186--77047314 Score: 151
Period size: 57 Copynumber: 2.3 Consensus size: 58
77047176 CTGATTGTGA
* *
77047186 AAATGACACTTAGTGCT-CGAGA-TA-TCCAAGATGGCACTTAGTGTGCGAAACATCCAG
1 AAATGGCACTTAGTGCTGCGA-ATTATTCCAA-ATGGCACTTAGCGTGCGAAACATCCAG
* *
77047243 AAATGGCACTTAGTG-TGCGAATTATTGCAAATGGCACTTAGCGTGCGAGACATCCAG
1 AAATGGCACTTAGTGCTGCGAATTATTCCAAATGGCACTTAGCGTGCGAAACATCCAG
* *
77047300 -GATGGCACTTTGTGC
1 AAATGGCACTTAGTGC
77047315 ACGATACATC
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
56 14 0.23
57 44 0.71
58 4 0.06
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (58 bp):
AAATGGCACTTAGTGCTGCGAATTATTCCAAATGGCACTTAGCGTGCGAAACATCCAG
Found at i:77054733 original size:28 final size:28
Alignment explanation
Indices: 77054692--77054818 Score: 132
Period size: 28 Copynumber: 4.5 Consensus size: 28
77054682 GTGAAAATGA
* *
77054692 CACTTAGTGCGCGAGATATCCAAGATGG
1 CACTTAGTGTGCGAGACATCCAAGATGG
* * *
77054720 CACTTAGTGTGCGAAACATCTAGAAATGG
1 CACTTAGTGTGCGAGACATCCA-AGATGG
* *
77054749 CACTTAGTGTGCGA-ATTATTGCAA-ATGG
1 CACTTAGTGTGCGAGA-CA-TCCAAGATGG
*
77054777 CACTTAGTGTGCGAGACATCCAGGATGG
1 CACTTAGTGTGCGAGACATCCAAGATGG
*
77054805 CACTGAGTGTGCGA
1 CACTTAGTGTGCGA
77054819 AATTTGAGAA
Statistics
Matches: 82, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
27 3 0.04
28 55 0.67
29 22 0.27
30 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (28 bp):
CACTTAGTGTGCGAGACATCCAAGATGG
Found at i:77054756 original size:57 final size:57
Alignment explanation
Indices: 77054686--77054819 Score: 166
Period size: 57 Copynumber: 2.4 Consensus size: 57
77054676 TTGATTGTGA
* * *
77054686 AAATGACACTTAGTGCGCGAGA-TA-TCCAAGATGGCACTTAGTGTGCGAAACATCTAG
1 AAATGGCACTTAGTGTGCGA-ATTATTCCAA-ATGGCACTTAGTGTGCGAAACATCCAG
* *
77054743 AAATGGCACTTAGTGTGCGAATTATTGCAAATGGCACTTAGTGTGCGAGACATCCAG
1 AAATGGCACTTAGTGTGCGAATTATTCCAAATGGCACTTAGTGTGCGAAACATCCAG
* *
77054800 -GATGGCACTGAGTGTGCGAA
1 AAATGGCACTTAGTGTGCGAA
77054820 ATTTGAGAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
56 19 0.28
57 45 0.66
58 4 0.06
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.24
Consensus pattern (57 bp):
AAATGGCACTTAGTGTGCGAATTATTCCAAATGGCACTTAGTGTGCGAAACATCCAG
Found at i:77059583 original size:49 final size:47
Alignment explanation
Indices: 77059482--77059698 Score: 215
Period size: 49 Copynumber: 4.6 Consensus size: 47
77059472 CGATGCCGAC
* * * *
77059482 GCCATGTTCCAAACATGGCCTTACACTAGCTCTCACATCTAAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTCTCACATCTAAGTCGAT
* *
77059530 GCCATGTCCCAGACAAGTCTTACACTGGCTCTCACTTATCTATGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCAC--ATCTAAGTCGAT
* ** * * *
77059579 GCCATGTCCTAGACAGGTCTTACACT--AACACACCTC-AAGCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCACATCTAAGTCGAT
* * **
77059623 GCCATGTCCCAGATAGGTCTTACATTGGCTCTCACTTATCTGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCAC--ATCTAAGTCGAT
*
77059672 GCCGTGTCCCAGACAGGTCTTACACTG
1 GCCATGTCCCAGACAGGTCTTACACTG
77059699 ACACACACAT
Statistics
Matches: 135, Mismatches: 27, Indels: 13
0.77 0.15 0.07
Matches are distributed among these distances:
44 29 0.21
45 2 0.01
46 4 0.03
47 21 0.16
48 15 0.11
49 64 0.47
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (47 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTCTCACATCTAAGTCGAT
Found at i:77059630 original size:93 final size:93
Alignment explanation
Indices: 77059526--77059704 Score: 295
Period size: 93 Copynumber: 1.9 Consensus size: 93
77059516 ACATCTAAGT
*
77059526 CGATGCCATGTCCCAGACAAGTCTTACACTGGCTCTCACTTATCTATGTCGATGCCATGTCCTAG
1 CGATGCCATGTCCCAGACAAGTCTTACACTGGCTCTCACTTATCTATGTCGATGCCATGTCCCAG
77059591 ACAGGTCTTACACTAACACACCTCAAGC
66 ACAGGTCTTACACTAACACACCTCAAGC
* * * * *
77059619 CGATGCCATGTCCCAGATAGGTCTTACATTGGCTCTCACTTATCTGTGTCGATGCCGTGTCCCAG
1 CGATGCCATGTCCCAGACAAGTCTTACACTGGCTCTCACTTATCTATGTCGATGCCATGTCCCAG
*
77059684 ACAGGTCTTACACTGACACAC
66 ACAGGTCTTACACTAACACAC
77059705 ACATCACCCA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 79 1.00
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.27
Consensus pattern (93 bp):
CGATGCCATGTCCCAGACAAGTCTTACACTGGCTCTCACTTATCTATGTCGATGCCATGTCCCAG
ACAGGTCTTACACTAACACACCTCAAGC
Found at i:77061678 original size:27 final size:28
Alignment explanation
Indices: 77061648--77061796 Score: 167
Period size: 28 Copynumber: 5.4 Consensus size: 28
77061638 TATTAAGTCT
* * *
77061648 GCACACTCAGTGCTATATAATC-AGCTC
1 GCACACTTAGTGCTACATAATCAAACTC
* *
77061675 GCACACCTAGTGCTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTC
*
77061703 GCACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAATCAAACTC
* *
77061731 GCACACTTAGTGCTACATATTC-AATTC
1 GCACACTTAGTGCTACATAATCAAACTC
* * * *
77061758 GCACACTTAGTGCTGCACAATTTAAACCC
1 GCACACTTAGTGCTACATAA-TCAAACTC
77061787 GCACACTTAG
1 GCACACTTAG
77061797 CGCCAATCTC
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
27 40 0.39
28 50 0.49
29 13 0.13
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
GCACACTTAGTGCTACATAATCAAACTC
Found at i:77061708 original size:55 final size:54
Alignment explanation
Indices: 77061647--77061771 Score: 162
Period size: 55 Copynumber: 2.3 Consensus size: 54
77061637 ATATTAAGTC
* * *
77061647 TGCACACTCAGTGCTATATAATC-AGCTCGCACACCTAGTGCTACATAATCAAACT
1 TGCACACTTAGTGCTACATAATCAAACTCGCACACCTAGTGCTACATAATC-AA-T
* * *
77061702 TGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATATTCAAT
1 TGCACACTTAGTGCTACATAATCAAACTCGCACACCTAGTGCTACATAATCAAT
77061756 TCGCACACTTAGTGCT
1 T-GCACACTTAGTGCT
77061772 GCACAATTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
54 2 0.03
55 36 0.58
56 24 0.39
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (54 bp):
TGCACACTTAGTGCTACATAATCAAACTCGCACACCTAGTGCTACATAATCAAT
Found at i:77082458 original size:19 final size:22
Alignment explanation
Indices: 77082414--77082459 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 22
77082404 TCATTTGGTA
*
77082414 AAATTATAGTTTTTATTATAAT
1 AAATTATAGTTTTGATTATAAT
77082436 -AATTATA-TTTTGA-TA-AAT
1 AAATTATAGTTTTGATTATAAT
77082454 AAATTA
1 AAATTA
77082460 AAAATAGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 3 0.14
19 7 0.32
20 5 0.23
21 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
AAATTATAGTTTTGATTATAAT
Found at i:77084768 original size:46 final size:46
Alignment explanation
Indices: 77084622--77084838 Score: 212
Period size: 46 Copynumber: 4.7 Consensus size: 46
77084612 TGTGTGAACT
* * *
77084622 AGTGTAAGACATGTCTGGGACATGCATCGGCCAT--ATTATGTGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGA-GATGTAAGCC
* * * * *
77084668 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACG-AGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-AGCC
* *
77084716 AGTGTAAGACATGTCTAGAACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
* *
77084762 AGTGTAAGACATGTCTGGGACATGCATCAG-CTGCGAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCC
77084806 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
77084839 ACCTTACCCC
Statistics
Matches: 144, Mismatches: 17, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
44 11 0.08
45 16 0.11
46 66 0.46
47 28 0.19
48 22 0.15
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
Found at i:77085377 original size:46 final size:46
Alignment explanation
Indices: 77085310--77085401 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
77085300 AAAAGTGTTG
*
77085310 GCTTGGGATAGATCCCACACTTGATATTAAGCCTTGAATGATGGCT
1 GCTTGAGATAGATCCCACACTTGATATTAAGCCTTGAATGATGGCT
* * *
77085356 GCTTGAGATAGATTCCTCACTTGGTATTAAGCCTTGAATGATGGCT
1 GCTTGAGATAGATCCCACACTTGATATTAAGCCTTGAATGATGGCT
77085402 AACATTCATT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (46 bp):
GCTTGAGATAGATCCCACACTTGATATTAAGCCTTGAATGATGGCT
Found at i:77092330 original size:43 final size:43
Alignment explanation
Indices: 77092276--77092574 Score: 339
Period size: 43 Copynumber: 7.0 Consensus size: 43
77092266 ATTTCGTACA
* * * ** *
77092276 ATGCCAATGTCCCAGACGCGGTCTTACATGTAATCGTATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACATATAATCACATATCG
** * * *
77092319 ATGCCATTGTCCTAGACAG-GGTCTTACATGTAATCACATATTG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACATATAATCACATATCG
* * *
77092362 ATGCCGACGTCCAAGACGTGGTCTTACACATAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATATAATCACATATCG
* * * *
77092405 ATGTCGACGTCCCAGACGTGGTCTTACACATAATCATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATATAATCACATATCG
* *
77092448 ATGCCAACGTCCCAGACGTGGTCTTACATATAATCATATATAG
1 ATGCCAACGTCCCAGACGTGGTCTTACATATAATCACATATCG
* * *
77092491 ATGCCAACATCCCAAACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATATAATCACATATCG
* * * *
77092534 ATGCCAACGTTCCAGATGTGGTCTTACACATAATTACATAT
1 ATGCCAACGTCCCAGACGTGGTCTTACATATAATCACATAT
77092575 TGATATCACA
Statistics
Matches: 224, Mismatches: 30, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
42 1 0.00
43 222 0.99
44 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATATAATCACATATCG
Found at i:77101029 original size:20 final size:22
Alignment explanation
Indices: 77101006--77101046 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
77100996 GGCACATGCC
77101006 CATGT-AAA-GAAGCACACAAA
1 CATGTGAAAGGAAGCACACAAA
*
77101026 CATGTGAAAGGAGGCACACAA
1 CATGTGAAAGGAAGCACACAA
77101047 TCGTGTGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 3 0.17
22 10 0.56
ACGTcount: A:0.49, C:0.20, G:0.22, T:0.10
Consensus pattern (22 bp):
CATGTGAAAGGAAGCACACAAA
Found at i:77109505 original size:18 final size:18
Alignment explanation
Indices: 77109482--77109520 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
77109472 AACCTATGCA
77109482 TAATATA-TTTAATTTGTT
1 TAATATATTTTAATTT-TT
77109500 TAATATATTTTAATTTTT
1 TAATATATTTTAATTTTT
77109518 TAA
1 TAA
77109521 ACTTAATCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TAATATATTTTAATTTTT
Found at i:77109610 original size:19 final size:21
Alignment explanation
Indices: 77109572--77109611 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
77109562 TTATTTTTAT
*
77109572 TTTTATAAAATTATATTTAAA
1 TTTTATAAAATTATACTTAAA
77109593 TTTTA-AAAATTAT-CTTAAA
1 TTTTATAAAATTATACTTAAA
77109612 ACTTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 8 0.44
21 5 0.28
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTATAAAATTATACTTAAA
Found at i:77112296 original size:11 final size:11
Alignment explanation
Indices: 77112280--77112327 Score: 53
Period size: 11 Copynumber: 4.2 Consensus size: 11
77112270 GAGAGAAAGG
77112280 AGAAGAAAAAA
1 AGAAGAAAAAA
77112291 AGAAGAAGAGAAGA
1 AGAAGAA-A-AA-A
*
77112305 AGAAGAAAGAA
1 AGAAGAAAAAA
77112316 AGAA-AAAAAA
1 AGAAGAAAAAA
77112326 AG
1 AG
77112328 GTGATGTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
10 7 0.22
11 12 0.38
12 2 0.06
13 3 0.09
14 8 0.25
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (11 bp):
AGAAGAAAAAA
Found at i:77112318 original size:14 final size:14
Alignment explanation
Indices: 77112267--77112319 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
77112257 CCACACACCG
* *
77112267 GAAGAGAGAAAGGA
1 GAAGAAAGAAAGAA
*
77112281 GAAGAAAAAAAGAA
1 GAAGAAAGAAAGAA
77112295 GAAG--AG-AAGAA
1 GAAGAAAGAAAGAA
77112306 GAAGAAAGAAAGAA
1 GAAGAAAGAAAGAA
77112320 AAAAAAAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
11 9 0.28
12 1 0.03
13 2 0.06
14 20 0.62
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (14 bp):
GAAGAAAGAAAGAA
Found at i:77112570 original size:60 final size:60
Alignment explanation
Indices: 77112491--77112608 Score: 191
Period size: 60 Copynumber: 2.0 Consensus size: 60
77112481 TTGTTTTTTA
* * * *
77112491 TAATTATTTTAAGATTAATTTGTTAGTAATTTAGGATTATGTTAAAAATTTTTGTGTTCG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTAAAAATTATTGTGTTCG
*
77112551 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTATTGTGTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTAAAAATTATTGTGTT
77112609 TAGTTTACTA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.35, C:0.01, G:0.13, T:0.52
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTAAAAATTATTGTGTTCG
Found at i:77113127 original size:17 final size:18
Alignment explanation
Indices: 77113098--77113134 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
77113088 CTTTTTTATA
77113098 TTAAAAAATATA-TATTT
1 TTAAAAAATATATTATTT
77113115 TTAAATAAA-ATATTATTT
1 TTAAA-AAATATATTATTT
77113133 TT
1 TT
77113135 TTATTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAAAAATATATTATTT
Found at i:77113141 original size:26 final size:27
Alignment explanation
Indices: 77113110--77113165 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
77113100 AAAAAATATA
*
77113110 TATTTTTAA-ATAAAATA-TTATTTTTT
1 TATTTTTAATA-AAAATATTTAATTTTT
*
77113136 TATTTTTATTAAAAATATTTAATTTTT
1 TATTTTTAATAAAAATATTTAATTTTT
77113163 TAT
1 TAT
77113166 ATAGGTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TATTTTTAATAAAAATATTTAATTTTT
Found at i:77119393 original size:36 final size:36
Alignment explanation
Indices: 77119346--77119414 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
77119336 TTAGGGATTT
**
77119346 TCGTCCCCGAAAATCTTACCGGTGAATAGGTTCGAA
1 TCGTCCCCGAAAATCTTACCAATGAATAGGTTCGAA
*
77119382 TCGTCCCCGAAAATCTTATCAATGAATAGGTTC
1 TCGTCCCCGAAAATCTTACCAATGAATAGGTTC
77119415 AAATAACATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (36 bp):
TCGTCCCCGAAAATCTTACCAATGAATAGGTTCGAA
Found at i:77121072 original size:13 final size:13
Alignment explanation
Indices: 77121054--77121078 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77121044 TACTCGTAAA
77121054 CACATATCGAAGT
1 CACATATCGAAGT
77121067 CACATATCGAAG
1 CACATATCGAAG
77121079 CCATGGTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (13 bp):
CACATATCGAAGT
Found at i:77122468 original size:46 final size:46
Alignment explanation
Indices: 77122362--77122576 Score: 179
Period size: 47 Copynumber: 4.6 Consensus size: 46
77122352 TGAGAGTCAA
* * *
77122362 TGTAAGACTATGTCTGGGACATGGCATCAGCATCGAGACGAGTGCTAC
1 TGTAAGAC-ATGTCTGGGACAT-GCATCGGCATCGAGACGAGAGCTAG
* * * * *
77122410 TGTAAAATATGTCTGGGACATGTATTGGCCTCGAGACGTA-AGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCATCGAGACG-AGAGCTAG
* *
77122456 TGTAAGACATGTCTGGGACATGCATCGGCTAT-GAGATGATAG-TCAG
1 TGTAAGACATGTCTGGGACATGCATCGGC-ATCGAGACGAGAGCT-AG
* * * *
77122502 TGTAAGACCATGTCTGGGACATGGCACCGACAT-GAGA-TATAAGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGA-GAGCTAG
77122549 TGTAAGACCATGTCTGGGACATGGCATC
1 TGTAAGA-CATGTCTGGGACAT-GCATC
77122577 AGCACCTTAC
Statistics
Matches: 140, Mismatches: 19, Indels: 17
0.80 0.11 0.10
Matches are distributed among these distances:
45 2 0.01
46 59 0.42
47 66 0.47
48 13 0.09
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCTAG
Found at i:77122523 original size:47 final size:47
Alignment explanation
Indices: 77122448--77122576 Score: 185
Period size: 47 Copynumber: 2.8 Consensus size: 47
77122438 CCTCGAGACG
*
77122448 TAAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGAGATGA
1 TAAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-ATGAGAT-A
*
77122495 T-AG-TCAGTGTAAGACCATGTCTGGGACATGGCACCGACATGAGATA
1 TAAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACATGAGATA
77122541 TAAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 TAAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
77122577 AGCACCTTAC
Statistics
Matches: 74, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
45 1 0.01
46 13 0.18
47 53 0.72
48 7 0.09
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
TAAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATGAGATA
Found at i:77127090 original size:37 final size:37
Alignment explanation
Indices: 77127040--77127118 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
77127030 TTATTACGAA
* * *
77127040 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
77127077 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
77127114 GTCTT
1 GTCTT
77127119 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:77127324 original size:47 final size:47
Alignment explanation
Indices: 77127281--77127759 Score: 769
Period size: 47 Copynumber: 10.1 Consensus size: 47
77127271 TTGGCCACTC
* * * *
77127281 GGCCTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
* * *
77127328 GGCCTTATCACATATATACACTTTCACATTCAGCACATCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
*
77127375 GGCCTTATCACACACATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
*
77127422 GGCCTTATCACACACATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
*
77127469 GGCCTTATCACACATATACACTTTCACATTCATCACCTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
*
77127516 GGCCCTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
77127563 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
*
77127610 GGCCCTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
* * *
77127657 GGCCTTATCACACATATACACTTTCACATTCATCACATCGACCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
* * * *
77127704 GGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCAC--ACATATACACTTTCACATTCATCACGTCGGCTATTA
77127753 GGCCTTA
1 GGCCTTA
77127760 CTATCATTTC
Statistics
Matches: 409, Mismatches: 21, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
47 369 0.90
49 40 0.10
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
Found at i:77133792 original size:47 final size:47
Alignment explanation
Indices: 77133698--77133794 Score: 131
Period size: 47 Copynumber: 2.1 Consensus size: 47
77133688 GAAATTGAAA
* *
77133698 AAAATAAATTTGATAAGTTCAGAGGTTTAAATAATAAGTAATGAGAT
1 AAAATAAATTTGATAAGTTCAGAGATTTAAATAATAAGTAATAAGAT
* ** * *
77133745 AAAATAAATTTGTTAAGTTGGGAGATTTAAATAATAATTACTAAGAT
1 AAAATAAATTTGATAAGTTCAGAGATTTAAATAATAAGTAATAAGAT
77133792 AAA
1 AAA
77133795 TATTGGTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.49, C:0.02, G:0.15, T:0.33
Consensus pattern (47 bp):
AAAATAAATTTGATAAGTTCAGAGATTTAAATAATAAGTAATAAGAT
Found at i:77134932 original size:25 final size:24
Alignment explanation
Indices: 77134886--77134931 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
77134876 ATATTTTCTC
*
77134886 TTTTACATGTAATTTTAATTTTGT
1 TTTTACATATAATTTTAATTTTGT
77134910 TTTTACA-ATAATATTTAATTTT
1 TTTTACATATAAT-TTTAATTTT
77134932 TAGGATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTTACATATAATTTTAATTTTGT
Found at i:77138254 original size:49 final size:49
Alignment explanation
Indices: 77138192--77138291 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
77138182 TAGTATGGCG
*
77138192 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
77138241 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATTTGTGATAAGGCC
1 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
77138290 TA
1 TA
77138292 TATATATGTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.32
Consensus pattern (49 bp):
TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:77138298 original size:22 final size:20
Alignment explanation
Indices: 77138270--77138311 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
77138260 TGTGAAAGTG
*
77138270 TATATATTTGTGATAAGGCC
1 TATATATATGTGATAAGGCC
77138290 TATATATATGTGATAAGGCC
1 TATATATATGTGATAAGGCC
77138310 TA
1 TA
77138312 ATGGCCGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (20 bp):
TATATATATGTGATAAGGCC
Found at i:77138320 original size:69 final size:67
Alignment explanation
Indices: 77138221--77138358 Score: 249
Period size: 69 Copynumber: 2.0 Consensus size: 67
77138211 TGTGAAAGTG
77138221 TATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATTTGTGATAA
1 TATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA--TGTGATAA
77138286 GGCC
64 GGCC
*
77138290 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 TATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
77138355 CC
66 CC
77138357 TA
1 TA
77138359 ATAGCCGATG
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
67 14 0.21
69 54 0.79
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.33
Consensus pattern (67 bp):
TATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CC
Found at i:77138390 original size:96 final size:96
Alignment explanation
Indices: 77138290--77138784 Score: 831
Period size: 96 Copynumber: 5.2 Consensus size: 96
77138280 TGATAAGGCC
77138290 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
*
77138355 CCTAATAGCCGATGTGATGAATGTGAAAGTG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTG
*
77138386 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATGTGATAAGG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
*
77138451 CCTAATGGCTGATGTGATGAATGTGAAAGTG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTG
77138482 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
77138545 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG
64 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG
77138578 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
77138643 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG
64 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
77138676 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* * * * *
77138739 CCGAGTGGCCAACGTGATGGATGTGAAAGTG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTG
77138770 TATA-A-ATGTGATAAG
1 TATATATATGTGATAAG
77138785 TCCCGAAGGG
Statistics
Matches: 382, Mismatches: 11, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
94 97 0.25
95 1 0.00
96 188 0.49
98 96 0.25
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:77138398 original size:116 final size:117
Alignment explanation
Indices: 77138192--77138407 Score: 407
Period size: 116 Copynumber: 1.8 Consensus size: 117
77138182 TAGTATGGCG
77138192 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATAGCCGATGTGAT
*
77138257 GAATGTGAAAGTGTATATATTTGTGATAAGGCCTATATATATGTGATAAGGCC
65 GAATGTGAAAGTGTATATATATGTGATAAGGCCTATATATATGTGATAAGGCC
77138310 TAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 TAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATAGCCGATGTGATG
77138374 AATGTGAAAGTGTATATATATGTGATAAGGCCTA
66 AATGTGAAAGTGTATATATATGTGATAAGGCCTA
77138408 ATGGCCGATG
Statistics
Matches: 97, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
116 68 0.70
118 29 0.30
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.31
Consensus pattern (117 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATAGCCGATGTGATG
AATGTGAAAGTGTATATATATGTGATAAGGCCTATATATATGTGATAAGGCC
Found at i:77138415 original size:49 final size:49
Alignment explanation
Indices: 77138290--77138784 Score: 825
Period size: 47 Copynumber: 10.3 Consensus size: 49
77138280 TGATAAGGCC
77138290 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
77138339 --TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
77138386 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
77138435 --TATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
77138482 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
77138529 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
77138578 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
77138627 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
77138676 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * *
77138723 --TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
77138770 TATA-A-ATGTGATAAG
1 TATATATATGTGATAAG
77138785 TCCCGAAGGG
Statistics
Matches: 427, Mismatches: 13, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
47 234 0.55
48 1 0.00
49 192 0.45
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:77138443 original size:25 final size:25
Alignment explanation
Indices: 77138415--77138493 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
77138405 CTAATGGCCG
77138415 ATGTGATGAATGTGAAAATGTATAT
1 ATGTGATGAATGTGAAAATGTATAT
** ** *
77138440 ATGTGAT-AA-G-GCCTAATGGCT-G
1 ATGTGATGAATGTG-AAAATGTATAT
*
77138462 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAATGTATAT
77138487 ATGTGAT
1 ATGTGAT
77138494 AAGGCCTAAT
Statistics
Matches: 38, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 7 0.18
25 15 0.39
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAATGTATAT
Found at i:77143005 original size:48 final size:48
Alignment explanation
Indices: 77142942--77143212 Score: 278
Period size: 48 Copynumber: 5.6 Consensus size: 48
77142932 GATATGTGTG
*
77142942 CAGTGTAAGACCATGTTTGGGACATGGCATCTGTCACGATATGAGAGC
1 CAGTGTAAGACCATGTTTGGGACATGGCATCTGACACGATATGAGAGC
* * * * * * * *
77142990 CAATGTAAGATCATGTTTGGAACATGGCATCGGAGATGTTGTGAGAGC
1 CAGTGTAAGACCATGTTTGGGACATGGCATCTGACACGATATGAGAGC
* * * *
77143038 CAATGTAAAACCATGTTTGGGACATGGCATCT-ACACTGATATGTGTGC
1 CAGTGTAAGACCATGTTTGGGACATGGCATCTGACAC-GATATGAGAGC
* * * * *
77143086 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACAACATGAGAGC
1 CAGTGTAAGACCATGTTTGGGACATGGCATCTGACACGATATGAGAGC
* * * * *
77143134 CAGTGTAAGATCATGTCTGGGACATGGCATCTG-CAATGAGACGAGAGC
1 CAGTGTAAGACCATGTTTGGGACATGGCATCTGAC-ACGATATGAGAGC
*
77143182 TAGTGTAAGACCATGTTT-GGAGCATGGCATC
1 CAGTGTAAGACCATGTTTGGGA-CATGGCATC
77143213 AGCAATTCAC
Statistics
Matches: 180, Mismatches: 39, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
47 6 0.03
48 171 0.95
49 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACCATGTTTGGGACATGGCATCTGACACGATATGAGAGC
Found at i:77143111 original size:96 final size:96
Alignment explanation
Indices: 77142945--77143212 Score: 306
Period size: 96 Copynumber: 2.8 Consensus size: 96
77142935 ATGTGTGCAG
* * * *
77142945 TGTAAGACCATGTTTGGGACATGGCATCTGTCAC-GATATGAGAGCCAATGTAAGATCATGTTTG
1 TGTAAGACCATGTTTGGGACATGGCATCT-ACACTGATATGAGAGCTAGTGTAAGACCATGTTTG
* * *****
77143009 GAACATGGCATCGGAGATGTTGTGAGAGCCAA
65 GGACATGGCATCGGACACAACATGAGAGCCAA
* * *
77143041 TGTAAAACCATGTTTGGGACATGGCATCTACACTGATATGTGTGCTAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTTTGGGACATGGCATCTACACTGATATGAGAGCTAGTGTAAGACCATGTTTGG
* *
77143106 GACATGGCATCGGCCACAACATGAGAGCCAG
66 GACATGGCATCGGACACAACATGAGAGCCAA
* * * * * *
77143137 TGTAAGATCATGTCTGGGACATGGCATCTGCAATGAGACGAGAGCTAGTGTAAGACCATGTTT-G
1 TGTAAGACCATGTTTGGGACATGGCATCTACACTGATATGAGAGCTAGTGTAAGACCATGTTTGG
77143201 GAGCATGGCATC
66 GA-CATGGCATC
77143213 AGCAATTCAC
Statistics
Matches: 145, Mismatches: 25, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
95 6 0.04
96 139 0.96
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (96 bp):
TGTAAGACCATGTTTGGGACATGGCATCTACACTGATATGAGAGCTAGTGTAAGACCATGTTTGG
GACATGGCATCGGACACAACATGAGAGCCAA
Found at i:77143208 original size:144 final size:143
Alignment explanation
Indices: 77142931--77143212 Score: 390
Period size: 144 Copynumber: 2.0 Consensus size: 143
77142921 GACATTTGGG
* * * *
77142931 TGATATGTGTGCAGTGTAAGACCATGTTTGGGACATGGCATCTGTCACGATATGAGAGCCAATGT
1 TGATATGTGTGCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACAACATGAGAGCCAATGT
* * * *
77142996 AAGATCATGTTTGGAACATGGCATCGGAGATGTTGTGAGAGCCAATGTAAAACCATGTTTGGGAC
66 AAGATCATGTCTGGAACATGGCATCGCAGATGTAGCGAGAGCCAATGTAAAACCATGTTTGGGAC
77143061 ATGGCATCTACAC
131 ATGGCATCTACAC
*
77143074 TGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACAACATGAGAGCCAGTG
1 TGATATGTGTGC-AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACAACATGAGAGCCAATG
* * * *
77143139 TAAGATCATGTCTGGGACATGGCATCTGCA-ATG-AGACGAGAGCTAGTGTAAGACCATGTTT-G
65 TAAGATCATGTCTGGAACATGGCATC-GCAGATGTAG-CGAGAGCCAATGTAAAACCATGTTTGG
77143201 GAGCATGGCATC
128 GA-CATGGCATC
77143213 AGCAATTCAC
Statistics
Matches: 122, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
143 16 0.13
144 104 0.85
145 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (143 bp):
TGATATGTGTGCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACAACATGAGAGCCAATGT
AAGATCATGTCTGGAACATGGCATCGCAGATGTAGCGAGAGCCAATGTAAAACCATGTTTGGGAC
ATGGCATCTACAC
Found at i:77147356 original size:20 final size:20
Alignment explanation
Indices: 77147331--77147378 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
77147321 GTAATAGTAG
*
77147331 TCGACACATATAGTGTCTCT
1 TCGACACATATAGTGTCTCA
77147351 TCGACACATATAGTGTCTCA
1 TCGACACATATAGTGTCTCA
77147371 TCGACACA
1 TCGACACA
77147379 CAGTCGGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (20 bp):
TCGACACATATAGTGTCTCA
Found at i:77148309 original size:17 final size:17
Alignment explanation
Indices: 77148279--77148322 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
77148269 TAATTAGATA
*
77148279 ATATAATATAATTTACT
1 ATATATTATAATTTACT
*
77148296 ATATATTATTATTTACT
1 ATATATTATAATTTACT
*
77148313 -TATATAATAA
1 ATATATTATAA
77148323 GTAAGTACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATTATAATTTACT
Found at i:77148519 original size:19 final size:20
Alignment explanation
Indices: 77148485--77148522 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
77148475 AGTCCTTTCA
77148485 CTAAATTAACCTTAATTAAG
1 CTAAATTAACCTTAATTAAG
*
77148505 CTAAATTTA-CTTAATTAA
1 CTAAATTAACCTTAATTAA
77148523 AATCTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (20 bp):
CTAAATTAACCTTAATTAAG
Found at i:77154951 original size:14 final size:15
Alignment explanation
Indices: 77154927--77154955 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
77154917 CCGTATGGAA
77154927 TGTTGATCATTTTTG
1 TGTTGATCATTTTTG
77154942 TGTT-ATCATTTTTG
1 TGTTGATCATTTTTG
77154956 AAAATGTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.14, C:0.07, G:0.17, T:0.62
Consensus pattern (15 bp):
TGTTGATCATTTTTG
Found at i:77159295 original size:28 final size:28
Alignment explanation
Indices: 77159238--77159390 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
77159228 TAAATTGTGC
* *
77159238 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
77159265 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
77159293 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
77159321 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* * *
77159349 AGCACTAGGTGTGCGAG-CTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
77159376 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
77159391 GACTTAATAT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 37 0.32
28 79 0.68
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:77159381 original size:83 final size:83
Alignment explanation
Indices: 77159238--77159390 Score: 236
Period size: 83 Copynumber: 1.8 Consensus size: 83
77159228 TAAATTGTGC
* *
77159238 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
77159303 GTGCGAGTTTGACTATGT
66 GTGCGAGTTTGACTATGT
* * * *
77159321 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAGGTGTGCGAG-CTGATTATATAGCACTGAG
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAG
77159385 TGTGCG
65 TGTGCG
77159391 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
83 38 0.60
84 25 0.40
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (83 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
GTGCGAGTTTGACTATGT
Found at i:77167429 original size:27 final size:27
Alignment explanation
Indices: 77167393--77167543 Score: 230
Period size: 27 Copynumber: 5.6 Consensus size: 27
77167383 TAAATTGTGC
* *
77167393 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
77167420 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGATTATGT
*
77167448 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
77167475 AGCACTAAGTGTGCGAGTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
77167502 AGCACTAGGTGTGCGAGCTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
77167529 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
77167544 GACTTAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 88 0.77
28 26 0.23
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:77182231 original size:64 final size:64
Alignment explanation
Indices: 77182150--77182333 Score: 176
Period size: 67 Copynumber: 2.8 Consensus size: 64
77182140 AGACATTATG
* * *
77182150 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACTCCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
77182214 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGTTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
77182279 AA
63 AA
* * * *
77182281 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
77182334 CGAACTATAT
Statistics
Matches: 95, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 16 0.17
67 29 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:77186516 original size:42 final size:42
Alignment explanation
Indices: 77186361--77186516 Score: 199
Period size: 42 Copynumber: 3.7 Consensus size: 42
77186351 TACCGTACCA
* * *
77186361 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCTAGATATGGTCTTACACG-AAGTCTCATATCG
* * * * *
77186403 ATGCCCATAGCCAAGCTATGGTCTTACACAAAGTCTCATATCA
1 ATG-CCATATCCTAGATATGGTCTTACACGAAGTCTCATATCG
77186446 ATGCCATATCCTAGATATGGTCTTACACGAAGTCTCATA-CTG
1 ATGCCATATCCTAGATATGGTCTTACACGAAGTCTCATATC-G
77186488 ATGCCATATCCTAGATATGGTCTTACACG
1 ATGCCATATCCTAGATATGGTCTTACACG
77186517 TAATCTTAGT
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.01
42 66 0.67
43 32 0.32
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:77192940 original size:42 final size:42
Alignment explanation
Indices: 77192833--77192982 Score: 185
Period size: 42 Copynumber: 3.5 Consensus size: 42
77192823 GTACCAATGT
** *
77192833 CATATCCCAGATATGGTCTTACATTTAA-TCTCGTATCGATGC
1 CATATCCCAGATATGGTCTTACA-CAAAGTCTCATATCGATGC
* * * *
77192875 CAATAGCCCAGCTTTGGTCTTACACAAAGTCTTATATCGATGC
1 C-ATATCCCAGATATGGTCTTACACAAAGTCTCATATCGATGC
* *
77192918 CATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGT
1 CATATCCCAGATATGGTCTTACACAAAGTCTCATATCGATGC
*
77192960 CATATCCGAGATATGGTCTTACA
1 CATATCCCAGATATGGTCTTACA
77192983 TGTAATCTTA
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
42 60 0.65
43 32 0.35
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACAAAGTCTCATATCGATGC
Found at i:77195313 original size:26 final size:26
Alignment explanation
Indices: 77195283--77195352 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
77195273 TCATCCCAAA
77195283 TTTACCCCAATAAAATTTTTGACAAT
1 TTTACCCCAATAAAATTTTTGACAAT
* * **
77195309 TTTACCTTCGATAAAA-TTTTGAGGAT
1 TTTACC-CCAATAAAATTTTTGACAAT
* *
77195335 TTTATCCCAGTAAAATTT
1 TTTACCCCAATAAAATTT
77195353 CGAGAAAATT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
25 6 0.18
26 21 0.62
27 7 0.21
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (26 bp):
TTTACCCCAATAAAATTTTTGACAAT
Found at i:77196257 original size:12 final size:13
Alignment explanation
Indices: 77196229--77196261 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
77196219 TTATTTCTTT
77196229 TTCTCCATCTACC
1 TTCTCCATCTACC
*
77196242 TTCTCC-TCTTCC
1 TTCTCCATCTACC
77196254 TTCTCCAT
1 TTCTCCAT
77196262 AGTCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:77197357 original size:28 final size:28
Alignment explanation
Indices: 77197325--77197389 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
77197315 ATTTACTAGA
*
77197325 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
77197353 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
77197381 ATACCCCTA
1 ATACCCCTA
77197390 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:77197553 original size:27 final size:28
Alignment explanation
Indices: 77197495--77197584 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
77197485 AGGAAGCGTC
*
77197495 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
77197523 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
77197550 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
77197579 CTGGTG
1 CTGGTG
77197585 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:77197595 original size:29 final size:28
Alignment explanation
Indices: 77197505--77197595 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
77197495 CTGGTGGCTA
* * *
77197505 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
77197533 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
77197560 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
77197589 TGTCACA
1 TGCCACA
77197596 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:77197603 original size:55 final size:56
Alignment explanation
Indices: 77197495--77197609 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
77197485 AGGAAGCGTC
* * *
77197495 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
77197550 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
77197606 CTGG
1 CTGG
77197610 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:77203293 original size:69 final size:68
Alignment explanation
Indices: 77203182--77203423 Score: 211
Period size: 69 Copynumber: 3.5 Consensus size: 68
77203172 TTCATGTGGC
* * *
77203182 CTAAAACAATTAGCGAA-AG-AAAGACTCTCAGTTGTCATATTAAGGTTCGAAGGCGAAGAGCCG
1 CTAAAACAATTAGC-AAGAGCAAAG-CTCCCAATTGTCATATTAAGGTTC-AAGGCGAAGAGCCA
77203245 CAACCT
63 CAACCT
* ** ** *
77203251 CTAAAACAATTAGCAAGAGCAAAGCTCCCAACTGTCATATTAAATTTCTCAA-GCGAAGAGTTAT
1 CTAAAACAATTAGCAAGAGCAAAGCTCCCAATTGTCATATT-AAGGT-TCAAGGCGAAGAGCCAC
*
77203315 ATCCT
64 AACCT
* * * * * * *
77203320 CTAAAACAGTTACCGAGATCAAAGCTCCCAATTGCCATATTAAGGTTCACAGGCAAAAAGCCACA
1 CTAAAACAATTAGCAAGAGCAAAGCTCCCAATTGTCATATTAAGGTTCA-AGGCGAAGAGCCACA
77203385 ACCT
65 ACCT
* * * * *
77203389 CCAAAATAGTTAGCAAGAGTAAAGCTCCCAGTTGT
1 CTAAAACAATTAGCAAGAGCAAAGCTCCCAATTGT
77203424 GTCGCGTGTG
Statistics
Matches: 135, Mismatches: 32, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
67 3 0.02
68 6 0.04
69 115 0.85
70 9 0.07
71 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (68 bp):
CTAAAACAATTAGCAAGAGCAAAGCTCCCAATTGTCATATTAAGGTTCAAGGCGAAGAGCCACAA
CCT
Found at i:77205348 original size:69 final size:69
Alignment explanation
Indices: 77204960--77205323 Score: 467
Period size: 69 Copynumber: 5.3 Consensus size: 69
77204950 AGAGTTATCA
* * * * *
77204960 AGCTGTCATATTAAGGTTCGCAGGCAAAGAGCTGCAACCTCTAAAATAGTTAGCTAGAGCAAAGC
1 AGCTGTCATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCGAGAGCAAAGC
77205025 TCCC
66 TCCC
* *
77205029 AGCTGTCATATTAAGGTTCACAGGCGAAGAGCCACAACCTCCAAAATAGTTAGTGAGAGCAAAGC
1 AGCTGTCATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCGAGAGCAAAGC
*
77205094 TCCT
66 TCCC
* * * * * *
77205098 AGTTGTCATATTAAGGTTCACAGGCGAAGAGCTGCAACCTCCAAAACAGTTAGTGAGAGAAAAGT
1 AGCTGTCATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCGAGAGCAAAGC
77205163 TCCC
66 TCCC
* * ** * * * *
77205167 AGTTGTCATATTAAGATTTGCAGGCGAAGAGCCGCAAGCTTCAAAATAGTTAGCAAGAACAAAGC
1 AGCTGTCATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCGAGAGCAAAGC
*
77205232 TCCT
66 TCCC
* * * *
77205236 AGCTATCATATTAAGGTTCACAAGCAAAGAGCCGTAACCTCCAAAATAGTTAGCGAGAGCAAAGC
1 AGCTGTCATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCGAGAGCAAAGC
77205301 TCCC
66 TCCC
* *
77205305 AGCTATCATATAAAGGTTC
1 AGCTGTCATATTAAGGTTC
77205324 GTAGACGAAT
Statistics
Matches: 253, Mismatches: 42, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 253 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (69 bp):
AGCTGTCATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCGAGAGCAAAGC
TCCC
Found at i:77208304 original size:46 final size:46
Alignment explanation
Indices: 77208251--77208390 Score: 112
Period size: 46 Copynumber: 3.2 Consensus size: 46
77208241 AAATTACCTT
77208251 TGTTTTAATTGTAGAAACCATACTATTGATAAAAGAAGGAAATAGA
1 TGTTTTAATTGTAGAAACCATACTATTGATAAAAGAAGGAAATAGA
** * * * * * * * ** ** *
77208297 TGTTTTAAAAGAAAAAAGCAAAGT-TT-CT-GAA-AATTACCT--T
1 TGTTTTAATTGTAGAAACCATACTATTGATAAAAGAAGGAAATAGA
77208337 TGTTTTAATTGTAGAAACCATACTATTGATAAAAGAAGGAAATAGA
1 TGTTTTAATTGTAGAAACCATACTATTGATAAAAGAAGGAAATAGA
77208383 TGTTTTAA
1 TGTTTTAA
77208391 AAGAAAAAAT
Statistics
Matches: 60, Mismatches: 28, Indels: 12
0.60 0.28 0.12
Matches are distributed among these distances:
40 17 0.28
41 2 0.03
42 5 0.08
43 4 0.07
44 5 0.08
45 2 0.03
46 25 0.42
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (46 bp):
TGTTTTAATTGTAGAAACCATACTATTGATAAAAGAAGGAAATAGA
Found at i:77208326 original size:86 final size:86
Alignment explanation
Indices: 77208181--77208439 Score: 484
Period size: 86 Copynumber: 3.0 Consensus size: 86
77208171 CCTTACCCTC
*
77208181 ACCATACTATCGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAAGCAAAGTTTCTGAAAATT
1 ACCATACTATTGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAAGCAAAGTTTCTGAAAATT
77208246 ACCTTTGTTTTAATTGTAGAA
66 ACCTTTGTTTTAATTGTAGAA
77208267 ACCATACTATTGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAAGCAAAGTTTCTGAAAATT
1 ACCATACTATTGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAAGCAAAGTTTCTGAAAATT
77208332 ACCTTTGTTTTAATTGTAGAA
66 ACCTTTGTTTTAATTGTAGAA
77208353 ACCATACTATTGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAATG-AAAGTTTCTGAAAAT
1 ACCATACTATTGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAA-GCAAAGTTTCTGAAAAT
*
77208417 TACCTTTATTTTAATTGTAGAA
65 TACCTTTGTTTTAATTGTAGAA
77208439 A
1 A
77208440 ACGCTGAGAA
Statistics
Matches: 170, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
86 169 0.99
87 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (86 bp):
ACCATACTATTGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAAGCAAAGTTTCTGAAAATT
ACCTTTGTTTTAATTGTAGAA
Found at i:77219730 original size:22 final size:21
Alignment explanation
Indices: 77219681--77219735 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
77219671 TAGATGAAAA
*
77219681 AAATGTATATAATATGGTATT
1 AAATGTATATAATATAGTATT
*
77219702 AATATGTGTATAATATAGTATTT
1 AA-ATGTATATAATATAGTA-TT
77219725 AAATGTATATA
1 AAATGTATATA
77219736 CATAATGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 23 0.79
23 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (21 bp):
AAATGTATATAATATAGTATT
Found at i:77220653 original size:4 final size:4
Alignment explanation
Indices: 77220644--77220673 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
77220634 AAATTTTCTC
77220644 TTAT TTAT TTAT TTAT TTA- TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA
77220674 ATATATATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:77221132 original size:12 final size:12
Alignment explanation
Indices: 77221115--77221139 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77221105 TTGGGTTAGT
77221115 GTTTTGGGCTAA
1 GTTTTGGGCTAA
77221127 GTTTTGGGCTAA
1 GTTTTGGGCTAA
77221139 G
1 G
77221140 GGTTTTGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (12 bp):
GTTTTGGGCTAA
Found at i:77221311 original size:22 final size:20
Alignment explanation
Indices: 77221272--77221312 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
77221262 TTAAATTAGT
*
77221272 TTTTTTATTTAGACATTAAA
1 TTTTTTATTTAGAAATTAAA
77221292 TTTTTTATTTGAGCAAATTAA
1 TTTTTTATTT-AG-AAATTAA
77221313 GAATGAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (20 bp):
TTTTTTATTTAGAAATTAAA
Found at i:77223306 original size:16 final size:16
Alignment explanation
Indices: 77223285--77223315 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
77223275 ATACCAACTC
*
77223285 ATTTAATATAAATAAG
1 ATTTAACATAAATAAG
77223301 ATTTAACATAAATAA
1 ATTTAACATAAATAA
77223316 CTCCTCGGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (16 bp):
ATTTAACATAAATAAG
Found at i:77226902 original size:28 final size:28
Alignment explanation
Indices: 77226827--77226932 Score: 113
Period size: 28 Copynumber: 3.8 Consensus size: 28
77226817 GAAGTAATTG
*
77226827 GGCCTGATGGGCCATATGAATGTGATTA
1 GGCCTAATGGGCCATATGAATGTGATTA
* **
77226855 GGCCTGATGGAACATATGAATGTGATTA
1 GGCCTAATGGGCCATATGAATGTGATTA
* * * *
77226883 GGCCTAATGGGCCATGTGAACGAGATTG
1 GGCCTAATGGGCCATATGAATGTGATTA
* *
77226911 GGCCTAAAGGGGCCAAATGAAT
1 GGCCT-AATGGGCCATATGAAT
77226933 AAGTGTGGAT
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
28 52 0.81
29 12 0.19
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (28 bp):
GGCCTAATGGGCCATATGAATGTGATTA
Found at i:77227262 original size:27 final size:27
Alignment explanation
Indices: 77227232--77227518 Score: 317
Period size: 27 Copynumber: 10.7 Consensus size: 27
77227222 TAATGAAGGG
* * *
77227232 AAATTATCAAAATACCCTCGGTTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
77227259 AAATTACCGAAGTACCCTCGGTTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
77227286 AAATTACCAAAATACCCTCGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
77227312 AAATTACTGAAATACCATCAATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* * * * *
77227339 AAATTACCAAAACACTCTTGATTTTTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
77227366 AAGTTACCGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
77227393 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
77227420 AAATTACCAAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
77227447 AAATTACCGAAACACCCCCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
77227474 AAATTATCAAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
77227501 AAATTACCGAAATACCCT
1 AAATTACCGAAATACCCT
77227519 TGTAGTGCAA
Statistics
Matches: 217, Mismatches: 41, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
26 22 0.10
27 195 0.90
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:77227530 original size:27 final size:27
Alignment explanation
Indices: 77227473--77227550 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
77227463 CCCAATTTGT
* * *
77227473 AAAATTATCAAAATACCCTTGTAGTGT
1 AAAATTACCGAAATACCCTTGTAGTGC
77227500 AAAATTACCGAAATACCCTTGTAGTGC
1 AAAATTACCGAAATACCCTTGTAGTGC
* *
77227527 AAAATGACCGACATACACC-TGTAG
1 AAAATTACCGAAATAC-CCTTGTAG
77227551 GGTAAAATGA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
27 43 0.96
28 2 0.04
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.26
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTTGTAGTGC
Found at i:77227557 original size:27 final size:27
Alignment explanation
Indices: 77227483--77227561 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
77227473 AAAATTATCA
*
77227483 AAATACCCTTGTAGTGTAAAATTACCG
1 AAATACCCTTGTAGTGTAAAATGACCG
*
77227510 AAATACCCTTGTAGTGCAAAATGACCG
1 AAATACCCTTGTAGTGTAAAATGACCG
* *
77227537 ACATACACC-TGTAGGGTAAAATGAC
1 AAATAC-CCTTGTAGTGTAAAATGAC
77227562 TGTTTTGCCC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 44 0.96
28 2 0.04
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (27 bp):
AAATACCCTTGTAGTGTAAAATGACCG
Found at i:77231787 original size:34 final size:34
Alignment explanation
Indices: 77231748--77231816 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
77231738 CCAGGGGTGT
* * *
77231748 TTTGGTTTGTACAATTAAATATTAAACATGAGAG
1 TTTGGTCTGTACAATCAAATATTAAACATAAGAG
77231782 TTTGGTCTGTACAATCAAATATTAAACATAAGAG
1 TTTGGTCTGTACAATCAAATATTAAACATAAGAG
77231816 T
1 T
77231817 GTCAGCTGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (34 bp):
TTTGGTCTGTACAATCAAATATTAAACATAAGAG
Found at i:77233758 original size:47 final size:45
Alignment explanation
Indices: 77233654--77233963 Score: 209
Period size: 47 Copynumber: 6.7 Consensus size: 45
77233644 TACGCGTGCT
* * * * *
77233654 GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-TA-GTC
1 GATGCATGTCCCAGACATGTCTTACATTGGC-TATCTCTGTAGGCC
*
77233698 GATGCATGTCCCAGACACGTCTTACATTGGCTATCTCTGTCAAGGCC
1 GATGCATGTCCCAGACATGTCTTACATTGGCTATCTCTGT--AGGCC
* *
77233745 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGT--GCC
1 GATGCATGTCCCAGACATGTCTTACA-TTG-GCT-ATCTCTGTAGGCC
* * *
77233791 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGTATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACATTGGCTATC-TCTGTA-GGCC
*** ** * *
77233839 GATGCATGTCCCAGACATGTCTTACACAAGCCCTCGTCTGGATGCC
1 GATGCATGTCCCAGACATGTCTTACATTGGCTATC-TCTGTAGGCC
* * **
77233885 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGT-GGCC
1 GATG-CATGTCCCAGACAT-GTCTTACATTGGCTATC-T-CTGTAGGCC
* * * *
77233933 AAAGCATGTCCTAGACATGTCTTACACTGGC
1 GATGCATGTCCCAGACATGTCTTACATTGGC
77233964 GCACAAATCA
Statistics
Matches: 215, Mismatches: 34, Indels: 32
0.77 0.12 0.11
Matches are distributed among these distances:
43 5 0.02
44 29 0.13
45 5 0.02
46 44 0.20
47 85 0.40
48 36 0.17
49 3 0.01
50 8 0.04
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACATTGGCTATCTCTGTAGGCC
Found at i:77233858 original size:94 final size:95
Alignment explanation
Indices: 77233604--77233960 Score: 401
Period size: 94 Copynumber: 3.8 Consensus size: 95
77233594 TTATATTGCG
* * ** *
77233604 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATATACGCGT-GCTGATGCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATA-A-GTATGGCCGATGCATGTCCCAG
* *
77233668 ACATGTCTTACACTAGCA--CAACTCT-TAGTC
64 ACATGTCTTACACTAGCACTCATCTCTGT-GCC
* * ** *
77233698 GATG-CATGTCCCAGACA-CGTCTTACATTGGCTATC-TCTGTCAAGGCCGATGCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAAGT-ATGGCCGATGCATGTCCCAGA
77233760 CATGTCTTACACTAGCACTCATCTCTGTGCC
65 CATGTCTTACACTAGCACTCATCTCTGTGCC
*
77233791 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGTATGGCTGATGCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAAGTATGGCCGATGCATGTCCCAGAC
* * * *
77233855 ATGTCTTACACAAGCCCTCGTCT-GGATGCC
66 ATGTCTTACACTAGCACTCATCTCTG-TGCC
* * * * *
77233885 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAG-GTGGCCAAAGCATGTCCTAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAAGTATGGCCGATGCATGTCCCAGAC
77233949 ATGTCTTACACT
66 ATGTCTTACACT
77233961 GGCGCACAAA
Statistics
Matches: 225, Mismatches: 28, Indels: 20
0.82 0.10 0.07
Matches are distributed among these distances:
89 1 0.00
91 35 0.16
92 14 0.06
93 26 0.12
94 128 0.57
95 20 0.09
96 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (95 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAAGTATGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCACTCATCTCTGTGCC
Found at i:77233941 original size:141 final size:138
Alignment explanation
Indices: 77233604--77233963 Score: 365
Period size: 141 Copynumber: 2.6 Consensus size: 138
77233594 TTATATTGCG
* *
77233604 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATATACGCGT-GCTGATGCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-A-G-GTGGCCGATGCATGTCCCAG
* * *** *
77233668 ACATGTCTTACACTAGCACAACTCTTAGTCGATGCATGTCCCAGACACGTCTTACATTGGCTATC
63 ACATGTCTTACACTGGCACAACTCATAGTCGATGCATGTCCCAGACACGTCTTACACAAGCCATC
77233733 TCTGTCAAGGCC
128 TCTG-CAAGGCC
* * ***
77233745 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCAT-CTCTGTGCCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTG-GCCGATG-CATGTCCCAGA
* * *
77233807 CATGGTCTTACACTGGCTATCATAGT-AT-GGCTGATGCATGTCCCAGACATGTCTTACACAAGC
64 CAT-GTCTTACACTGGC-A-CA-ACTCATAGTC-GATGCATGTCCCAGACACGTCTTACACAAGC
* * *
77233870 CCTCGTCTG-GATGCC
124 CATC-TCTGCAAGGCC
* * *
77233885 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTGGCCAAAGCATGTCCTAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTGGCCGATGCATGTCCCAGACA
77233950 TGTCTTACACTGGC
66 TGTCTTACACTGGC
77233964 GCACAAATCA
Statistics
Matches: 180, Mismatches: 27, Indels: 25
0.78 0.12 0.11
Matches are distributed among these distances:
135 1 0.01
137 6 0.03
138 14 0.08
139 28 0.16
140 38 0.21
141 63 0.35
142 28 0.16
143 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (138 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTGGCCGATGCATGTCCCAGACA
TGTCTTACACTGGCACAACTCATAGTCGATGCATGTCCCAGACACGTCTTACACAAGCCATCTCT
GCAAGGCC
Found at i:77242278 original size:26 final size:26
Alignment explanation
Indices: 77242237--77242299 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
77242227 TGAATATCAA
* * *
77242237 GCCTTGAGTCGGTGTTTATTTACCAT
1 GCCTTGAGCCGCTGTTTATTTACCAG
*
77242263 GCCTTGAGCCGCTGTTTATTTAGCAG
1 GCCTTGAGCCGCTGTTTATTTACCAG
*
77242289 GCTTTGAGCCG
1 GCCTTGAGCCG
77242300 ATGATGTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.14, C:0.22, G:0.27, T:0.37
Consensus pattern (26 bp):
GCCTTGAGCCGCTGTTTATTTACCAG
Found at i:77242313 original size:25 final size:25
Alignment explanation
Indices: 77242281--77242346 Score: 132
Period size: 25 Copynumber: 2.6 Consensus size: 25
77242271 CCGCTGTTTA
77242281 TTTAGCAGGCTTTGAGCCGATGATG
1 TTTAGCAGGCTTTGAGCCGATGATG
77242306 TTTAGCAGGCTTTGAGCCGATGATG
1 TTTAGCAGGCTTTGAGCCGATGATG
77242331 TTTAGCAGGCTTTGAG
1 TTTAGCAGGCTTTGAG
77242347 TCGCTGAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.20, C:0.15, G:0.32, T:0.33
Consensus pattern (25 bp):
TTTAGCAGGCTTTGAGCCGATGATG
Found at i:77243998 original size:37 final size:37
Alignment explanation
Indices: 77243948--77244021 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
77243938 TGAAGAAAAG
77243948 TATGAATAAATGAAAAATGCGGGCTTTATGAGTACAA
1 TATGAATAAATGAAAAATGCGGGCTTTATGAGTACAA
77243985 TATGAATAAATGAAAAATGCGGGCTTTATGAGTACAA
1 TATGAATAAATGAAAAATGCGGGCTTTATGAGTACAA
77244022 ATAACAATCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (37 bp):
TATGAATAAATGAAAAATGCGGGCTTTATGAGTACAA
Found at i:77250770 original size:34 final size:31
Alignment explanation
Indices: 77250715--77250794 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 31
77250705 ATCTCATTAT
* *
77250715 GAAAAGG-AATTTCACCTAAAAGGGTGAC-ACTT
1 GAAAAGGAAATGT-ACCTAAAA-GGT-ACAACTG
77250747 GAAAAGGATATATGTACCTAAAAGGTACAACTG
1 GAAAAGGA-A-ATGTACCTAAAAGGTACAACTG
77250780 GAAAAGGAAATGTAC
1 GAAAAGGAAATGTAC
77250795 ACTGTGTGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
31 6 0.14
32 10 0.24
33 14 0.33
34 9 0.21
35 3 0.07
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.20
Consensus pattern (31 bp):
GAAAAGGAAATGTACCTAAAAGGTACAACTG
Found at i:77250808 original size:33 final size:32
Alignment explanation
Indices: 77250771--77250883 Score: 104
Period size: 33 Copynumber: 3.5 Consensus size: 32
77250761 TACCTAAAAG
77250771 GTACAACTGGAAAAGGAAATGTACACTGTGTGT
1 GTACAACTGGAAAAGGAAATGTACACT-TGTGT
** * * *
77250804 GTACAACTAAAAAAAGAAACGTACACTTTGTGG
1 GTACAACTGGAAAAGGAAATGTACAC-TTGTGT
* * *
77250837 GTAC-ACTTGAAAAGGAAGTGTACGCCTTGTGT
1 GTACAACTGGAAAAGGAAATGTAC-ACTTGTGT
77250869 GTACAA-TGTGAAAAG
1 GTACAACTG-GAAAAG
77250884 TGGTAGCTTC
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
32 24 0.38
33 38 0.60
34 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (32 bp):
GTACAACTGGAAAAGGAAATGTACACTTGTGT
Found at i:77250913 original size:31 final size:31
Alignment explanation
Indices: 77250876--77251151 Score: 310
Period size: 31 Copynumber: 8.8 Consensus size: 31
77250866 TGTGTACAAT
77250876 GTGAAAAGTGGTAGCTTCAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCAGCTACCTGATCA
77250907 GTGAAAAGTGGTAGCTTC-GACTACCTGATCA
1 GTGAAAAGTGGTAGCTTCAG-CTACCTGATCA
* *
77250938 GTGAAAAGTGGTAGCTTCGGTTACCTGATCA
1 GTGAAAAGTGGTAGCTTCAGCTACCTGATCA
* * *
77250969 GTGAAAAGTAGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCAGCTACCTGATCA
* *
77251000 GTGAAAAGTGGTAGCTCCAGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCAGCTACCTGATCA
* * *
77251031 GTGAATAGTGGTAGCTTCGGCTACAAGTGA-CAA
1 GTGAAAAGTGGTAGCTTCAGCTAC--CTGATC-A
77251064 GTGAAAAGTGGTAGC-TCTAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTC-AGCTACCTGATCA
* *
77251095 GTGAATAGTGGTAGCTTCGGCT-CCAAGTGA-CAA
1 GTGAAAAGTGGTAGCTTCAGCTACC---TGATC-A
* *
77251128 GTGATAAGTGGTAGCTTTAGCTAC
1 GTGAAAAGTGGTAGCTTCAGCTAC
77251152 ACTTATCTGA
Statistics
Matches: 211, Mismatches: 21, Indels: 23
0.83 0.08 0.09
Matches are distributed among these distances:
30 3 0.01
31 155 0.73
32 7 0.03
33 45 0.21
34 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCAGCTACCTGATCA
Found at i:77250947 original size:62 final size:62
Alignment explanation
Indices: 77250876--77251151 Score: 344
Period size: 62 Copynumber: 4.4 Consensus size: 62
77250866 TGTGTACAAT
*
77250876 GTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCGACTACCTGATCA
1 GTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * * *
77250938 GTGAAAAGTGGTAGCTTCGGTTACCTGATCAGTGAAAAGTAGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * * *
77251000 GTGAAAAGTGGTAGCTCCAGCTACCTGATTAGTGAATAGTGGTAGCTTCGGCTACAAGTGA-CAA
1 GTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCGGCTAC--CTGATC-A
*
77251064 GTGAAAAGTGGTAGC-TCTAGCTACCTGATCAGTGAATAGTGGTAGCTTCGGCT-CCAAGTGA-C
1 GTGAAAAGTGGTAGCTTC-AGCTACCTGATCAGTGAAAAGTGGTAGCTTCGGCTACC---TGATC
77251126 AA
62 -A
* *
77251128 GTGATAAGTGGTAGCTTTAGCTAC
1 GTGAAAAGTGGTAGCTTCAGCTAC
77251152 ACTTATCTGA
Statistics
Matches: 188, Mismatches: 18, Indels: 14
0.85 0.08 0.06
Matches are distributed among these distances:
62 106 0.56
63 2 0.01
64 79 0.42
65 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (62 bp):
GTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:77251246 original size:27 final size:27
Alignment explanation
Indices: 77251208--77251272 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
77251198 TAGTTGAACT
*
77251208 ATGGCAAAGTGATAAAGTGTGCCAATC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
* *
77251235 ATGGCAAAGTGATATAGTGTTCCAAAC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
*
77251262 ATAGCAAAGTG
1 ATGGCAAAGTG
77251273 TTCAGTGATC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (27 bp):
ATGGCAAAGTGATAAAGTGTGCCAAAC
Found at i:77251399 original size:34 final size:34
Alignment explanation
Indices: 77251327--77251408 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
77251317 CATGGCAAAG
77251327 TGTGAAACGTAGGTATGGTATTTCCATACCGAGC
1 TGTGAAACGTAGGTATGGTATTTCCATACCGAGC
* * * *
77251361 TGTGAAATGTAGGTATGGTGTTTCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTTCCATACCGAGC
*
77251395 TGTGAATCGT-GGTA
1 TGTGAAACGTAGGTA
77251409 CTGAGCAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 4 0.10
34 38 0.90
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.34
Consensus pattern (34 bp):
TGTGAAACGTAGGTATGGTATTTCCATACCGAGC
Found at i:77252567 original size:15 final size:15
Alignment explanation
Indices: 77252547--77252577 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
77252537 ATCTCTCTTG
77252547 AGACTAAAAACAACT
1 AGACTAAAAACAACT
77252562 AGACTAAAAACAACT
1 AGACTAAAAACAACT
77252577 A
1 A
77252578 ACTCTAGGTT
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:0.61, C:0.19, G:0.06, T:0.13
Consensus pattern (15 bp):
AGACTAAAAACAACT
Found at i:77255672 original size:13 final size:13
Alignment explanation
Indices: 77255654--77255693 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
77255644 GAAGTAATAG
*
77255654 CACACGGGTGTGT
1 CACACGGGCGTGT
77255667 CACACGGGCGTGT
1 CACACGGGCGTGT
77255680 CACACGGGCGTGT
1 CACACGGGCGTGT
77255693 C
1 C
77255694 CCTGCCAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.15, C:0.30, G:0.38, T:0.17
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:77258513 original size:43 final size:42
Alignment explanation
Indices: 77258447--77258603 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 42
77258437 AAGCTCCTAC
* *
77258447 ATGCCAATGTCCCAGACGTGGTCTTACTTGTAATCAAATATTG
1 ATGCCACTGTCCCAGACGTGGTCTTACATGTAATCAAATA-TG
* ** *
77258490 ATGCCACTATCCCAGACAG-GGTCTTACGCGAAATCAAATATG
1 ATGCCACTGTCCCAGAC-GTGGTCTTACATGTAATCAAATATG
* *
77258532 ACGCCAAC-GTCCCAGACGTGGTCTTACATGTAAATCATAAGT-CG
1 ATGCC-ACTGTCCCAGACGTGGTCTTACATGT-AATCA-AA-TATG
*
77258576 ATGCCAAC-GTCTCAGACGTGGTCTTACA
1 ATGCC-ACTGTCCCAGACGTGGTCTTACA
77258604 GGATAACACA
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.01
42 23 0.24
43 40 0.42
44 30 0.32
45 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACGTGGTCTTACATGTAATCAAATATG
Found at i:77260870 original size:19 final size:19
Alignment explanation
Indices: 77260846--77260886 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
77260836 ACAACTCTAT
77260846 AACATTATCAACCGAATTA
1 AACATTATCAACCGAATTA
77260865 AACATTATCAACCGAATTA
1 AACATTATCAACCGAATTA
77260884 AAC
1 AAC
77260887 CAAGACAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.49, C:0.22, G:0.05, T:0.24
Consensus pattern (19 bp):
AACATTATCAACCGAATTA
Found at i:77267929 original size:46 final size:46
Alignment explanation
Indices: 77267862--77268031 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
77267852 TGTAACCCGC
*
77267862 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
*
77267908 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGC-A--T
* *** * * * *
77267954 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
77268001 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
77268032 TTCGGATGCC
Statistics
Matches: 101, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 61 0.60
47 29 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
Found at i:77267978 original size:93 final size:93
Alignment explanation
Indices: 77267870--77268041 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
77267860 GCCCATAAGT
* * *
77267870 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
77267935 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
77267963 GAACTCAGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
77268028 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
77268042 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:77268056 original size:46 final size:46
Alignment explanation
Indices: 77267913--77268056 Score: 111
Period size: 46 Copynumber: 3.1 Consensus size: 46
77267903 CGCATCCATA
* * *
77267913 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATC-CT
* * * *
77267962 --CGAACTCAGACTCAACTCAACGAGTTC--A-G-ACATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC-T
*
77268005 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCT
77268052 AGTGA
1 AGTGA
77268057 CATGTCACTT
Statistics
Matches: 73, Mismatches: 12, Indels: 23
0.68 0.11 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 5 0.07
44 1 0.01
45 1 0.01
46 30 0.41
47 25 0.34
48 5 0.07
49 1 0.01
50 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCT
Found at i:77270933 original size:13 final size:13
Alignment explanation
Indices: 77270915--77270939 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77270905 GGCATGAACC
77270915 ACGGCCGTGTGAT
1 ACGGCCGTGTGAT
77270928 ACGGCCGTGTGA
1 ACGGCCGTGTGA
77270940 AAACAGGGCA
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:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACGGCCGTGTGAT
Found at i:77286500 original size:178 final size:172
Alignment explanation
Indices: 77286135--77286566 Score: 564
Period size: 178 Copynumber: 2.5 Consensus size: 172
77286125 TCTTGCTACC
* * *
77286135 TCAGAGAGATAAGGCT-GGTGGCTTAAATCA-GCTCCATTGCCGATACATGGAGATAAGATTTAC
1 TCAGGGAGATAAGGCTCGG-GGCTTAAAT-ATGTTCCATTGCCGATACATGGAGATAAGATTCAC
* *
77286198 CATCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTTCTTTAGTCTGCTTCCTTGCTAC
64 C-TCTTCGATCTGCTCCGCTACTGCTTAGGGAAATAAGATCTTCTTTAATCTGCTTCCTTGCTAC
* * *
77286263 CACAGGAAGATAAAACTTGTATTTTGAACCCGCTCCACTGCAATT
128 CACAGGAAGATAAAACTTGTATCTCGAACCCGCTCCACTGCAACT
* ** *
77286308 TCAGGGAGATAAGGCTCGAGGGCTTAAATTTGTTCCATTGCTAATACATGGAGATAAAATTCACC
1 TCAGGGAGATAAGGCTCG-GGGCTTAAATATGTTCCATTGCCGATACATGGAGATAAGATTCACC
* *
77286373 TCTTCCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTTCAATCTTTAATTTGCTTCCTTGC
65 TCTT-CGATCTGCTCCGCTACTGCTTAGGGAAATAAGATC-T---TCTTTAATCTGCTTCCTTGC
** *
77286438 TACCTTAGGAAGATAAGACTTGTATCTCGAACCCGCTCCACTGCAACT
125 TACCACAGGAAGATAAAACTTGTATCTCGAACCCGCTCCACTGCAACT
* *
77286486 TCAGGGAGATAAGGCTCGGGGCTTAAATATGCTT-TATTGCCGATACATGGAGATAAGATTCGCC
1 TCAGGGAGATAAGGCTCGGGGCTTAAATATG-TTCCATTGCCGATACATGGAGATAAGATTCACC
*
77286550 TCTTTCGATCTACTCCG
65 TC-TTCGATCTGCTCCG
77286567 TTGCACCTCA
Statistics
Matches: 225, Mismatches: 24, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
173 19 0.08
174 72 0.32
175 2 0.01
177 50 0.22
178 82 0.36
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (172 bp):
TCAGGGAGATAAGGCTCGGGGCTTAAATATGTTCCATTGCCGATACATGGAGATAAGATTCACCT
CTTCGATCTGCTCCGCTACTGCTTAGGGAAATAAGATCTTCTTTAATCTGCTTCCTTGCTACCAC
AGGAAGATAAAACTTGTATCTCGAACCCGCTCCACTGCAACT
Found at i:77295774 original size:67 final size:71
Alignment explanation
Indices: 77295611--77295774 Score: 219
Period size: 75 Copynumber: 2.3 Consensus size: 71
77295601 CACACCACAG
* * *
77295611 AAATTACAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAGAGATATATATATGTGTGTGG
1 AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAG--A-ATATATGTGTGTCG
77295676 TGAAGCCACC
63 TG-AGCCACC
* *
77295686 AGATTGCGGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAG-ATATATGTG-G-CGTG-
1 AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGAATATATGTGTGTCGTGA
77295747 GCCACC
66 GCCACC
77295753 AAATTGCAGCGAGGCTGCCAGA
1 AAATTGCAGCGAGGCTGCCAGA
77295775 ACGCTTCCTC
Statistics
Matches: 82, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
67 26 0.32
69 3 0.04
70 1 0.01
71 9 0.11
75 43 0.52
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.20
Consensus pattern (71 bp):
AAATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGAATATATGTGTGTCGTGA
GCCACC
Found at i:77308682 original size:8 final size:8
Alignment explanation
Indices: 77308669--77308697 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
77308659 GATAATAGAA
77308669 GAATTGAT
1 GAATTGAT
77308677 GAATTGAT
1 GAATTGAT
77308685 GAATTGAT
1 GAATTGAT
77308693 GAATT
1 GAATT
77308698 TAAAATCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (8 bp):
GAATTGAT
Found at i:77309073 original size:25 final size:26
Alignment explanation
Indices: 77309025--77309077 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
77309015 TGTAACAGAT
77309025 TTTAAAAAAATGATTATGTAAATAAA
1 TTTAAAAAAATGATTATGTAAATAAA
*
77309051 TTTAAAAGAATG-TGTATGT-AATAAA
1 TTTAAAAAAATGAT-TATGTAAATAAA
77309076 TT
1 TT
77309078 AATGATGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (26 bp):
TTTAAAAAAATGATTATGTAAATAAA
Found at i:77321269 original size:40 final size:40
Alignment explanation
Indices: 77321214--77321431 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
77321204 TTGATGATAA
* * *
77321214 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
77321254 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
77321294 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTGTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
77321334 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
77321374 CTGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
77321414 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
77321432 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 16 0.10
40 144 0.90
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:77329459 original size:40 final size:40
Alignment explanation
Indices: 77329404--77329619 Score: 285
Period size: 40 Copynumber: 5.4 Consensus size: 40
77329394 GATGATAACT
* * *
77329404 GGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCC
77329444 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
77329484 GGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
77329524 GGGCTAAGTCCCGATGGCATTGGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * * *
77329564 GAGCTATGTCCCGAAGGCATTTGAGTGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
77329604 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
77329620 TACTTGGCTT
Statistics
Matches: 157, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 15 0.10
40 142 0.90
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:77343407 original size:12 final size:12
Alignment explanation
Indices: 77343389--77343430 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
77343379 ACCACACGAT
77343389 CGTAGATTCTGA
1 CGTAGATTCTGA
*
77343401 TGTAGATTCTGA
1 CGTAGATTCTGA
77343413 CGTAGATTCTGA
1 CGTAGATTCTGA
77343425 CGTAGA
1 CGTAGA
77343431 CACACACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (12 bp):
CGTAGATTCTGA
Found at i:77346665 original size:10 final size:10
Alignment explanation
Indices: 77346650--77346677 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
77346640 ATATTACATG
77346650 TTTACTTTGT
1 TTTACTTTGT
77346660 TTTACTTTGT
1 TTTACTTTGT
77346670 TTTACTTT
1 TTTACTTT
77346678 TTCCCCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.71
Consensus pattern (10 bp):
TTTACTTTGT
Found at i:77364258 original size:27 final size:27
Alignment explanation
Indices: 77364116--77364255 Score: 181
Period size: 27 Copynumber: 5.2 Consensus size: 27
77364106 GGCTATTTTG
77364116 CCCTTATAGGGTAAAATGACTGAAATA
1 CCCTTATAGGGTAAAATGACTGAAATA
* * *
77364143 CGCTCATAGGGTAAAATAACTGAAATA
1 CCCTTATAGGGTAAAATGACTGAAATA
* *
77364170 CCCTCATAGGGTAAAATGACTGAAATT
1 CCCTTATAGGGTAAAATGACTGAAATA
* *
77364197 CCCCTATAGGGTAAAATCACTGAAATA
1 CCCTTATAGGGTAAAATGACTGAAATA
* * * *
77364224 CCCTTGTAGGATAAAATGATTGTAATA
1 CCCTTATAGGGTAAAATGACTGAAATA
77364251 CCCTT
1 CCCTT
77364256 GTATTCTACA
Statistics
Matches: 97, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (27 bp):
CCCTTATAGGGTAAAATGACTGAAATA
Found at i:77364626 original size:18 final size:18
Alignment explanation
Indices: 77364574--77364629 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
77364564 GCTTGCATAT
* *
77364574 TGCACTGTTTGCTGTTAC
1 TGCACTGATTACTGTTAC
* * *
77364592 TGCATTAATCA-TGGTTAC
1 TGCACTGATTACT-GTTAC
77364610 TGCACTGATTACTGTTAC
1 TGCACTGATTACTGTTAC
77364628 TG
1 TG
77364630 AAATGGGCTA
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
17 1 0.04
18 26 0.93
19 1 0.04
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (18 bp):
TGCACTGATTACTGTTAC
Found at i:77364666 original size:34 final size:34
Alignment explanation
Indices: 77364619--77364716 Score: 126
Period size: 34 Copynumber: 2.9 Consensus size: 34
77364609 CTGCACTGAT
*
77364619 TACTGTTACTGAAATGGGCTAAAGCCCAGACCGC
1 TACTGTTACTGAAATGGGCTAAGGCCCAGACCGC
* * *
77364653 TACTGTTATTGAAATGGACTAAGGCCCAGACTGC
1 TACTGTTACTGAAATGGGCTAAGGCCCAGACCGC
* *
77364687 TACTATTACT-AATATGGGCTTAGGCCCAGA
1 TACTGTTACTGAA-ATGGGCTAAGGCCCAGA
77364717 ATGTATTCGC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
33 2 0.04
34 53 0.96
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (34 bp):
TACTGTTACTGAAATGGGCTAAGGCCCAGACCGC
Found at i:77368722 original size:19 final size:18
Alignment explanation
Indices: 77368694--77368729 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
77368684 TACACGGTCT
*
77368694 AAGGACACGGGCGTGTCA
1 AAGGACACGGACGTGTCA
77368712 AAGGCACACGGACGTGTC
1 AAGG-ACACGGACGTGTC
77368730 CTTTCATGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.28, C:0.25, G:0.36, T:0.11
Consensus pattern (18 bp):
AAGGACACGGACGTGTCA
Found at i:77373429 original size:46 final size:45
Alignment explanation
Indices: 77373376--77373550 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
77373366 TGGTTGAGCA
77373376 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
* * * *
77373422 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G
* *
77373467 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
* *
77373515 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
77373551 GGCGGGTTAC
Statistics
Matches: 107, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.55
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATG
Found at i:77373532 original size:93 final size:93
Alignment explanation
Indices: 77373373--77373543 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
77373363 GGATGGTTGA
* * * *
77373373 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
77373438 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
77373466 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
77373531 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
77373544 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:77379198 original size:15 final size:15
Alignment explanation
Indices: 77379173--77379211 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
77379163 GAAGAACCTA
*
77379173 AACCTTAAGCCTAAC
1 AACCCTAAGCCTAAC
*
77379188 AACTCTAAGCCTAAC
1 AACCCTAAGCCTAAC
77379203 AACCCTAAG
1 AACCCTAAG
77379212 AAGTCATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.41, C:0.33, G:0.08, T:0.18
Consensus pattern (15 bp):
AACCCTAAGCCTAAC
Done.