Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 179 of 335
Found at i:53743030 original size:21 final size:20
Alignment explanation
Indices: 53743006--53743052 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
53742996 CTTAAGTAAT
53743006 TGAGCTAAAAGAAAGCTAAAA
1 TGAGCTAAAA-AAAGCTAAAA
* *
53743027 TGAGCTCAAACAAGCTAAAA
1 TGAGCTAAAAAAAGCTAAAA
*
53743047 TAAGCT
1 TGAGCT
53743053 TAAGTGAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (20 bp):
TGAGCTAAAAAAAGCTAAAA
Found at i:53745951 original size:29 final size:29
Alignment explanation
Indices: 53745891--53745980 Score: 146
Period size: 29 Copynumber: 3.1 Consensus size: 29
53745881 ACATACATGT
* *
53745891 ATATGGCCCACTAGGCCC-AATCTCATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
53745919 ATATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
*
53745948 ATATGACCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
53745977 ATAT
1 ATAT
53745981 ACATGTTTTC
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
28 17 0.29
29 41 0.71
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Found at i:53748340 original size:46 final size:46
Alignment explanation
Indices: 53748290--53748414 Score: 187
Period size: 46 Copynumber: 2.7 Consensus size: 46
53748280 TCGGCATCCA
* *
53748290 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCG
* *
53748336 AACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCG
* * *
53748382 AGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53748415 GCAGGTTACA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCG
Found at i:53750685 original size:15 final size:15
Alignment explanation
Indices: 53750665--53750694 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
53750655 AATATGAAAC
53750665 ATATGTTTTGGATTG
1 ATATGTTTTGGATTG
*
53750680 ATATGTTTTGTATTG
1 ATATGTTTTGGATTG
53750695 GAATTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTG
Found at i:53751350 original size:44 final size:45
Alignment explanation
Indices: 53751245--53751356 Score: 136
Period size: 45 Copynumber: 2.5 Consensus size: 45
53751235 TAAGACTCTG
* * * *
53751245 ATATGTGTTTTCGTGTAAGACCATGTTTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCAAT
* * *
53751290 ATATGTATTTTTGTGTAAGACCACGTCTAGGATGTT-GCATCAAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCAAT
* *
53751334 ATATGTGGTTACGTGTAAGACCA
1 ATATGTGTTTTCGTGTAAGACCA
53751357 TATGTGGGAC
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
44 26 0.46
45 30 0.54
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCAAT
Found at i:53752411 original size:27 final size:27
Alignment explanation
Indices: 53752380--53752433 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
53752370 TATTATGGTA
*
53752380 GGTATGTTTTATGATATATAATTGAAC
1 GGTATGCTTTATGATATATAATTGAAC
53752407 GGTATGCTTTATGATATATAATTGAAC
1 GGTATGCTTTATGATATATAATTGAAC
53752434 AGTAAATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.43
Consensus pattern (27 bp):
GGTATGCTTTATGATATATAATTGAAC
Found at i:53754617 original size:43 final size:43
Alignment explanation
Indices: 53754568--53754718 Score: 198
Period size: 43 Copynumber: 3.5 Consensus size: 43
53754558 TATCCCAAAT
* * *
53754568 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCTAGAC
* * *
53754611 AGGGTCTTACATGAAATCGA-ATAACGATGCCAATGTCCTAGAC
1 ATGGTCTTACATGTAATC-ACATATCGATGCCAATGTCCTAGAC
* *
53754654 ATGGTCTTACACGTAATCACA-ATACAATGCCAATGTCCTAGAC
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATGTCCTAGAC
53754697 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
53754719 CTTGTAACCT
Statistics
Matches: 92, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
42 2 0.02
43 89 0.97
44 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCTAGAC
Found at i:53756537 original size:29 final size:29
Alignment explanation
Indices: 53756504--53756562 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
53756494 AGTTTTACGC
53756504 TAACCTTTATAACCATGATTTGGAGTTTA
1 TAACCTTTATAACCATGATTTGGAGTTTA
*
53756533 TAACCTTTATGACCATGATTTGGAGTTTA
1 TAACCTTTATAACCATGATTTGGAGTTTA
53756562 T
1 T
53756563 CTTTGTTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (29 bp):
TAACCTTTATAACCATGATTTGGAGTTTA
Found at i:53760309 original size:8 final size:8
Alignment explanation
Indices: 53760296--53760327 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
53760286 CTAGATCGGC
53760296 AAAAGCCG
1 AAAAGCCG
53760304 AAAAGCCG
1 AAAAGCCG
*
53760312 AAATGCCG
1 AAAAGCCG
53760320 AAAAGCCG
1 AAAAGCCG
53760328 GTATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:53760614 original size:28 final size:28
Alignment explanation
Indices: 53760574--53760638 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
53760564 ATGTACTAGA
*
53760574 ATACCCCTATGTATGCAAAATTACC-ATT
1 ATACCCCTATGTATGCAAAATGACCTA-T
53760602 ATACCCCTATGTATGCAAAATGACCTAT
1 ATACCCCTATGTATGCAAAATGACCTAT
53760630 ATACCCCTA
1 ATACCCCTA
53760639 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 34 0.97
29 1 0.03
ACGTcount: A:0.35, C:0.28, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTAT
Found at i:53760798 original size:27 final size:28
Alignment explanation
Indices: 53760764--53760830 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 28
53760754 TGCCATAAAT
* *
53760764 TATCTGTTCTGGTGGCCCTACCAC-ATA
1 TATCTGTTCTGGTGGCACTACCACAACA
*
53760791 TATCTGTTCTGGTGGCACTGCCACAACA
1 TATCTGTTCTGGTGGCACTACCACAACA
53760819 TATCTGTATCTG
1 TATCTGT-TCTG
53760831 TGACTCTGTC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
27 22 0.63
28 9 0.26
29 4 0.11
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.34
Consensus pattern (28 bp):
TATCTGTTCTGGTGGCACTACCACAACA
Found at i:53760843 original size:28 final size:28
Alignment explanation
Indices: 53760764--53760843 Score: 74
Period size: 27 Copynumber: 2.9 Consensus size: 28
53760754 TGCCATAAAT
* * * *
53760764 TATCTGTTCTGGTGGCCCTACCAC-ATA
1 TATCTGTTCTGGTGACACTGCCACAACA
*
53760791 TATCTGTTCTGGTGGCACTGCCACAACA
1 TATCTGTTCTGGTGACACTGCCACAACA
* *
53760819 TATCTGTATCT-GTGACTCTGTCACA
1 TATCTGT-TCTGGTGACACTGCCACA
53760844 TTTTCTGTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 22 0.49
28 20 0.44
29 3 0.07
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.34
Consensus pattern (28 bp):
TATCTGTTCTGGTGACACTGCCACAACA
Found at i:53761998 original size:103 final size:102
Alignment explanation
Indices: 53761820--53762024 Score: 401
Period size: 103 Copynumber: 2.0 Consensus size: 102
53761810 TTTGGAATGG
53761820 GTTTACAAAAACAAAGATCTTCTAAAAAAAATTGGTTTTTAAAATCTGGACTCCTGAAGGTGGCA
1 GTTTACAAAAACAAAGATCTTCTAAAAAAAATTGGTTTTTAAAATCTGGACTCCTGAAGGTGGCA
53761885 TTCCGAATCTCCGGCCCAAGCCTGTAAGTATTCTGAA
66 TTCCGAATCTCCGGCCCAAGCCTGTAAGTATTCTGAA
53761922 GTTTACAAAAACAAAGATCTTCTAAAAAAAAATTGGTTTTTAAAATCTGGACTCCTGAAGGTGGC
1 GTTTACAAAAACAAAGATCTTCT-AAAAAAAATTGGTTTTTAAAATCTGGACTCCTGAAGGTGGC
53761987 ATTCCGAATCTCCGGCCCAAGCCTGTAAGTATTCTGAA
65 ATTCCGAATCTCCGGCCCAAGCCTGTAAGTATTCTGAA
53762025 TTTTTCTGAA
Statistics
Matches: 102, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
102 23 0.23
103 79 0.77
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (102 bp):
GTTTACAAAAACAAAGATCTTCTAAAAAAAATTGGTTTTTAAAATCTGGACTCCTGAAGGTGGCA
TTCCGAATCTCCGGCCCAAGCCTGTAAGTATTCTGAA
Found at i:53762044 original size:11 final size:10
Alignment explanation
Indices: 53762016--53762049 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
53762006 AGCCTGTAAG
53762016 TATTCTGAAT
1 TATTCTGAAT
*
53762026 TTTTCTGAAT
1 TATTCTGAAT
53762036 ATATTCTGAAT
1 -TATTCTGAAT
53762047 TAT
1 TAT
53762050 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:53768603 original size:28 final size:28
Alignment explanation
Indices: 53768563--53768655 Score: 150
Period size: 28 Copynumber: 3.3 Consensus size: 28
53768553 ATGTACTAGA
53768563 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
53768591 ATACCCCTCTGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* * *
53768619 ATACCCCTATGTATACAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
53768647 ATACCCCTA
1 ATACCCCTA
53768656 GGGTTAATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:53768819 original size:27 final size:27
Alignment explanation
Indices: 53768772--53768850 Score: 113
Period size: 27 Copynumber: 2.8 Consensus size: 27
53768762 TGGTGGCTAA
*
53768772 GCCACAAATTATCTGTTCTGGTGGCCCT
1 GCCACAAA-TATCTGTTCTGGTGGCACT
*
53768800 GCCACATATATCTGTTCTGGTGGCACT
1 GCCACAAATATCTGTTCTGGTGGCACT
53768827 GCCACAACATATCTGTATCTGGTG
1 GCCACAA-ATATCTGT-TCTGGTG
53768851 ACTCTGTCAC
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 24 0.52
28 15 0.33
29 7 0.15
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (27 bp):
GCCACAAATATCTGTTCTGGTGGCACT
Found at i:53774951 original size:40 final size:40
Alignment explanation
Indices: 53774907--53775125 Score: 217
Period size: 40 Copynumber: 5.5 Consensus size: 40
53774897 GCTCGACTGT
* * * *
53774907 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACATAACCCGGTTTTAGTAACTCGCACAAATGC
* *
53774947 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAACCCGGTTTTAGTAACTCGCACAAATGC
* *
53774987 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAACCCGGTTTTAGTAACTCGCACAAATGC
* * *
53775027 CTTCGGGACTTAACCCGGTTTTGGTAACTCGTACAAATGC
1 CTTCGGGACATAACCCGGTTTTAGTAACTCGCACAAATGC
* * * * * * *
53775067 CTTTGGGA-ATTGACCCGGATTTAATCACTTAGCACAAAAGC
1 CTTCGGGACA-TAACCCGGTTTTAGTAAC-TCGCACAAATGC
* *
53775108 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAACCCGG
53775126 ACATCATTCG
Statistics
Matches: 151, Mismatches: 23, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 128 0.85
41 22 0.15
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGACATAACCCGGTTTTAGTAACTCGCACAAATGC
Found at i:53775019 original size:80 final size:80
Alignment explanation
Indices: 53774907--53775126 Score: 260
Period size: 80 Copynumber: 2.7 Consensus size: 80
53774897 GCTCGACTGT
* * * * * *
53774907 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
53774972 AACTCGCACAAATGC
66 AACTCGCACAAATGC
* * * *
53774987 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
*
53775052 AACTCGTACAAATGC
66 AACTCGCACAAATGC
* * * * * * * *
53775067 CTTTGGGAATTGACCCGGATTTAATCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAACCCGGTTTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
53775127 CATCATTCGA
Statistics
Matches: 117, Mismatches: 22, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
80 90 0.77
81 27 0.23
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (80 bp):
CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
AACTCGCACAAATGC
Found at i:53779944 original size:43 final size:43
Alignment explanation
Indices: 53779883--53779968 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
53779873 GGTTTCGGGA
53779883 CCACTAAACCGAGTCATAAAAATAATTAATTGTTATATTCTAT
1 CCACTAAACCGAGTCATAAAAATAATTAATTGTTATATTCTAT
53779926 CCACTAAACCGAGTCATAAAAATAATTAATTGTTATATTCTAT
1 CCACTAAACCGAGTCATAAAAATAATTAATTGTTATATTCTAT
53779969 GCTTACTATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (43 bp):
CCACTAAACCGAGTCATAAAAATAATTAATTGTTATATTCTAT
Found at i:53781630 original size:40 final size:40
Alignment explanation
Indices: 53781571--53781712 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
53781561 AAATTGAATG
* * *
53781571 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
53781611 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
53781651 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
53781691 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
53781713 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:53781713 original size:40 final size:39
Alignment explanation
Indices: 53781610--53781738 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
53781600 TGCTGGAAAT
* * *
53781610 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
53781650 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
53781690 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
53781730 TATATCCGG
1 TATATCCGG
53781739 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:53789661 original size:40 final size:40
Alignment explanation
Indices: 53789602--53789743 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
53789592 AAATTGAATG
* * *
53789602 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
53789642 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
53789682 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
53789722 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
53789744 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:53789744 original size:40 final size:39
Alignment explanation
Indices: 53789641--53789769 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
53789631 TGCTGGAAAT
* * *
53789641 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
53789681 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
53789721 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
53789761 TATATCCGG
1 TATATCCGG
53789770 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:53794852 original size:38 final size:38
Alignment explanation
Indices: 53794801--53794898 Score: 133
Period size: 38 Copynumber: 2.6 Consensus size: 38
53794791 TGAAATGAGG
*
53794801 TGTTATTCAGGCTTAGTGCCTAGTAGGCTTAGAGCCGA
1 TGTTATTCAGGCTTAGTGCCTAGTAGGATTAGAGCCGA
** * *
53794839 TGTTATTCAGGCTTAGTGCCTAGTAGGATTAGTTCTGG
1 TGTTATTCAGGCTTAGTGCCTAGTAGGATTAGAGCCGA
* *
53794877 TGTTAATCAGGCTTAGAGCCTA
1 TGTTATTCAGGCTTAGTGCCTA
53794899 ACAAACTTAG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.35
Consensus pattern (38 bp):
TGTTATTCAGGCTTAGTGCCTAGTAGGATTAGAGCCGA
Found at i:53794944 original size:22 final size:21
Alignment explanation
Indices: 53794919--53794970 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
53794909 TGCTTAGCAG
53794919 GCTTAGTGCTAGTGTTAATCAA
1 GCTTAGTGCTAGTGTTAATC-A
*
53794941 GCTTAGTGCTAGTGTTATTCA
1 GCTTAGTGCTAGTGTTAATCA
53794962 GACTTAGTG
1 G-CTTAGTG
53794971 AGTAGCACGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.23, C:0.13, G:0.25, T:0.38
Consensus pattern (21 bp):
GCTTAGTGCTAGTGTTAATCA
Found at i:53798803 original size:21 final size:21
Alignment explanation
Indices: 53798779--53798829 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
53798769 ATGAATATTC
* *
53798779 GGCCTTGGGTAGCCTATTGAA
1 GGCCTTAGCTAGCCTATTGAA
**
53798800 GGCCTTAGCTTTCCTATTGAA
1 GGCCTTAGCTAGCCTATTGAA
53798821 GGCCTTAGC
1 GGCCTTAGC
53798830 ATTTCCTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (21 bp):
GGCCTTAGCTAGCCTATTGAA
Found at i:53799469 original size:39 final size:40
Alignment explanation
Indices: 53799384--53799471 Score: 126
Period size: 39 Copynumber: 2.2 Consensus size: 40
53799374 CTAGGTGTGC
53799384 TATATCCGGGCTAAGACCCGAAAGGCATTCGTGCGAGTAT
1 TATATCCGGGCTAAGACCCGAAAGGCATTCGTGCGAGTAT
* * *
53799424 TCTATCCGGGCTAAGACCCG-AAGGCATTTGTGC-ACGTGT
1 TATATCCGGGCTAAGACCCGAAAGGCATTCGTGCGA-GTAT
53799463 TATATCCGG
1 TATATCCGG
53799472 TTATATTCCG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 1 0.02
39 23 0.53
40 19 0.44
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAAGGCATTCGTGCGAGTAT
Found at i:53807365 original size:40 final size:40
Alignment explanation
Indices: 53807299--53807441 Score: 121
Period size: 40 Copynumber: 3.6 Consensus size: 40
53807289 AAATTGAATG
* ** *
53807299 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGAAACT
* * ***
53807338 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGAAACT
* * ** *
53807378 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-ATGCAAGAAACT
*
53807418 CTAT-CGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
53807442 TTTGTGCACA
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 35 0.41
40 51 0.59
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGAAACT
Found at i:53807436 original size:39 final size:39
Alignment explanation
Indices: 53807337--53807449 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 39
53807327 TGCTGGAAAT
* **
53807337 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCAAGTCAC
* *
53807377 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCAAGTCAC
*
53807417 TCTAT-CGGGCTAAGACCCGAAGGCATTTGTGCA
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCA
53807450 CATGGTTATA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
39 27 0.42
40 37 0.58
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCAAGTCAC
Found at i:53810668 original size:31 final size:31
Alignment explanation
Indices: 53810630--53810689 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
53810620 TTCACACTTA
*
53810630 ATATTTCATAACACTGGGCTGAAGCCTTTTC
1 ATATTTCATAACACTAGGCTGAAGCCTTTTC
**
53810661 ATATTTCATATTACTAGGCTGAAGCCTTT
1 ATATTTCATAACACTAGGCTGAAGCCTTT
53810690 ATTGTAAACG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (31 bp):
ATATTTCATAACACTAGGCTGAAGCCTTTTC
Found at i:53810986 original size:25 final size:25
Alignment explanation
Indices: 53810871--53811048 Score: 231
Period size: 25 Copynumber: 7.2 Consensus size: 25
53810861 AGCATAGTTG
*
53810871 CTTTATCATATAACTGGAGGCCT-AGCC
1 CTTTATC--ATAACTGG-GGCATAAGCC
*
53810898 TCTTT-TAATAACTGGGGCA-AAGCC
1 -CTTTATCATAACTGGGGCATAAGCC
* *
53810922 CTTT-TAACAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
* *
53810946 CTTT-TAATAACTGGGGTATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
53810970 CTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
53810995 CTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
53811020 CTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
53811045 CTTT
1 CTTT
53811049 TACACTTCCT
Statistics
Matches: 140, Mismatches: 7, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
23 17 0.12
24 38 0.27
25 80 0.57
27 1 0.01
28 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (25 bp):
CTTTATCATAACTGGGGCATAAGCC
Found at i:53811124 original size:20 final size:20
Alignment explanation
Indices: 53811099--53811165 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
53811089 TTATGAATAC
53811099 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
53811119 ATCATGTGCATATCATATAT
1 ATCATGTGCATATCATACAT
*
53811139 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
53811159 ACCATGT
1 ATCATGT
53811166 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:53811130 original size:11 final size:11
Alignment explanation
Indices: 53811099--53811154 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
53811089 TTATGAATAC
53811099 ATCATGTGCAT
1 ATCATGTGCAT
*
53811110 ATCA--TACAT
1 ATCATGTGCAT
53811119 ATCATGTGCAT
1 ATCATGTGCAT
*
53811130 ATCATAT--AT
1 ATCATGTGCAT
*
53811139 GTCATGTGCAT
1 ATCATGTGCAT
53811150 ATCAT
1 ATCAT
53811155 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:53818806 original size:31 final size:31
Alignment explanation
Indices: 53818768--53818830 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
53818758 CTTTTCACAC
53818768 TTCATATTTCATAACACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
**
53818799 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
53818830 T
1 T
53818831 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCGAAGCCTT
Found at i:53819128 original size:25 final size:25
Alignment explanation
Indices: 53819015--53819192 Score: 213
Period size: 25 Copynumber: 7.2 Consensus size: 25
53819005 AGCATAGTTG
*
53819015 CTTTATCATATAACTGGAGGCCT-AGCC
1 CTTTATC--ATAACTGG-GGCATAAGCC
*
53819042 TCTTT-TAATAACTGGGGCA-AAGCC
1 -CTTTATCATAACTGGGGCATAAGCC
* * *
53819066 CTTT-TAACAACTGGGACATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
* *
53819090 CTTT-TAATAACTGGGGTATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
*
53819114 GTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
53819139 CTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
53819164 CTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
53819189 CTTT
1 CTTT
53819193 TACACTTCCT
Statistics
Matches: 136, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
23 16 0.12
24 36 0.26
25 79 0.58
27 1 0.01
28 4 0.03
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (25 bp):
CTTTATCATAACTGGGGCATAAGCC
Found at i:53819268 original size:20 final size:20
Alignment explanation
Indices: 53819243--53819309 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
53819233 TTATGAATAC
53819243 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
53819263 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
53819283 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
53819303 ACCATGT
1 ATCATGT
53819310 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:53819274 original size:11 final size:11
Alignment explanation
Indices: 53819243--53819298 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
53819233 TTATGAATAC
53819243 ATCATGTGCAT
1 ATCATGTGCAT
*
53819254 ATCA--TACAT
1 ATCATGTGCAT
53819263 ATCATGTGCAT
1 ATCATGTGCAT
*
53819274 ATCA--TACAT
1 ATCATGTGCAT
*
53819283 GTCATGTGCAT
1 ATCATGTGCAT
53819294 ATCAT
1 ATCAT
53819299 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:53839647 original size:29 final size:27
Alignment explanation
Indices: 53839609--53839673 Score: 69
Period size: 29 Copynumber: 2.4 Consensus size: 27
53839599 AAAAGAGCTC
*
53839609 AAAATGAATAGTGTGTAAAAAAGAAATTT
1 AAAATAAATAGTGT-TAAAAAA-AAATTT
* * *
53839638 AAAATAAATATTGTTCAAAAATAATTT
1 AAAATAAATAGTGTTAAAAAAAAATTT
53839665 -AAATAAATA
1 AAAATAAATA
53839674 AATATATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 9 0.28
27 5 0.16
28 6 0.19
29 12 0.38
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATAAATAGTGTTAAAAAAAAATTT
Found at i:53839929 original size:2 final size:2
Alignment explanation
Indices: 53839922--53839952 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
53839912 GTTTAAAATA
*
53839922 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
53839953 CATGTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:53840105 original size:3 final size:3
Alignment explanation
Indices: 53840097--53840141 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
53840087 AAATAAATGC
53840097 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
53840142 GTAGATAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:53842173 original size:132 final size:133
Alignment explanation
Indices: 53841836--53842339 Score: 742
Period size: 133 Copynumber: 3.8 Consensus size: 133
53841826 AGATTTGCTA
* * * *
53841836 TGCTCCACTGCAACATC-AGAGAGATAAGATCTACAATCTTTAGCCTACTCCACTACAACTTTAG
1 TGCTCCACTGCAACTTCAAG-GAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAG
* * * *
53841900 GGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCATCTTCAAGAAGACTAGATTCACCATCTCC
65 GGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCGCCATCTTC
53841965 GATC
130 GATC
* *
53841969 TGTTCCACTGCAACTTCAAGGAAACAAGATCTACCATCTTCAGCCTACTCCACTACAACTTTAGG
1 TGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGG
* * * * * * * *
53842034 GAGCTAGGATGGTGGCTTAAATCTGTTTTACTGCAACTTCAGGAAAACAATATTTGCCGTCTTCG
66 GAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCGCCATCTTCG
53842099 ATC
131 ATC
53842102 TGCTCCACTGCAACTTC-AGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGG
1 TGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGG
* * *
53842166 GAGCTAGGATGGTGGCTTAAATCTGCTTCATTGCATCTTCAGGAAGACTAGATTCGCCATCTTCG
66 GAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCGCCATCTTCG
53842231 ATC
131 ATC
* *
53842234 TGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTTAGCCTACTCTACTACAACTTTAGG
1 TGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGG
* * * *
53842299 GAGATAGGATGGTGGTTTAAATTTGTTTTACTGCAACTTCA
66 GAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCA
53842340 TAGAGACAAG
Statistics
Matches: 331, Mismatches: 38, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
132 122 0.37
133 207 0.63
134 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (133 bp):
TGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGG
GAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCGCCATCTTCG
ATC
Found at i:53842249 original size:265 final size:257
Alignment explanation
Indices: 53841762--53842339 Score: 854
Period size: 265 Copynumber: 2.2 Consensus size: 257
53841752 CCACTACAAC
* * * * * *
53841762 CCACTACAA-TATATGGAGATAAGATGGTGGCTTAAATCTGCTTCATTGCAACTTCAGGAAAACA
1 CCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGTTTTACTGCAACTTCAGGAAAACA
* * *
53841826 AGATTTGCTATGCTCCACTGCAACATCAGAGAGATAAGATCTACAATCTTTAGCCTACTCCACTA
66 AGATTTGCTATGCTCCACTGCAACATCAGAGAAACAAGATCTACAATCTTCAGCCTACTCCACTA
53841891 CAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCATCTTCAAGAAGACTAGATTC
131 CAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCATCTTCAAGAAGACTAGATTC
* *
53841956 ACCATCTCCGATCTGTTCCACTGCAACTTCAAGGAAACAAGATCTACCATCTTCAGCCTACT
196 ACCATCTCCGATCTGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACT
*
53842018 CCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGTTTTACTGCAACTTCAGGAAAACA
1 CCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGTTTTACTGCAACTTCAGGAAAACA
* *
53842083 ATATTTGCCGTCTTCGATCTGCTCCACTGCAACTTCAG-GAAACAAGATCTACAATCTTCAGCCT
66 AGATTT---G-C-T--A--TGCTCCACTGCAACATCAGAGAAACAAGATCTACAATCTTCAGCCT
* * *
53842147 ACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCATTGCATCTTCAGGAAG
122 ACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCATCTTCAAGAAG
* * *
53842212 ACTAGATTCGCCATCTTCGATCTGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTTAG
187 ACTAGATTCACCATCTCCGATCTGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAG
53842277 CCTACT
252 CCTACT
* * *
53842283 CTACTACAACTTTAGGGAGATAGGATGGTGGTTTAAATTTGTTTTACTGCAACTTCA
1 CCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGTTTTACTGCAACTTCA
53842340 TAGAGACAAG
Statistics
Matches: 288, Mismatches: 24, Indels: 11
0.89 0.07 0.03
Matches are distributed among these distances:
256 9 0.03
257 53 0.18
260 1 0.00
261 1 0.00
262 1 0.00
264 1 0.00
265 204 0.71
266 18 0.06
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (257 bp):
CCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGTTTTACTGCAACTTCAGGAAAACA
AGATTTGCTATGCTCCACTGCAACATCAGAGAAACAAGATCTACAATCTTCAGCCTACTCCACTA
CAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCATCTTCAAGAAGACTAGATTC
ACCATCTCCGATCTGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACT
Found at i:53842251 original size:45 final size:44
Alignment explanation
Indices: 53841921--53842264 Score: 121
Period size: 45 Copynumber: 7.8 Consensus size: 44
53841911 GGTGGCTTAA
* * * * *
53841921 ATCTGCTTCACTGCATCTTCAAGAAGACTAGATTCACCATCTCCG
1 ATCTGCTCCACTGCAACTTCAGGAAGACTAGA-TCGCCATCTTCG
* * *
53841966 ATCTGTTCCACTGCAACTTCAAGGAA-ACAAGATCTACCATCTTC-
1 ATCTGCTCCACTGCAACTTC-AGGAAGACTAGATC-GCCATCTTCG
* * * * * **** **
53842010 AGCCTACTCCACTACAACTTTAGGGAG-CTAGGAT-GGTGGCTTAA
1 A-TCTGCTCCACTGCAACTTCAGGAAGACTA-GATCGCCATCTTCG
* ** * * * * *
53842054 ATCTGTTTTACTGCAACTTCAGGAAAACAATATTTGCCGTCTTCG
1 ATCTGCTCCACTGCAACTTCAGGAAGACTAGA-TCGCCATCTTCG
* * *
53842099 ATCTGCTCCACTGCAACTTCAGGAA-ACAAGATCTACAATCTTC-
1 ATCTGCTCCACTGCAACTTCAGGAAGACTAGATC-GCCATCTTCG
* * * * * **** **
53842142 AGCCTACTCCACTACAACTTTAGGGAG-CTAGGAT-GGTGGCTTAA
1 A-TCTGCTCCACTGCAACTTCAGGAAGACTA-GATCGCCATCTTCG
* * *
53842186 ATCTGCTTCATTGCATCTTCAGGAAGACTAGATTCGCCATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGAAGACTAGA-TCGCCATCTTCG
*
53842231 ATCTGCTCCACTGCAACTTCAAGGAA-ACAAGATC
1 ATCTGCTCCACTGCAACTTC-AGGAAGACTAGATC
53842265 TACAATCTTT
Statistics
Matches: 208, Mismatches: 73, Indels: 37
0.65 0.23 0.12
Matches are distributed among these distances:
43 44 0.21
44 52 0.25
45 103 0.50
46 9 0.04
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGAAGACTAGATCGCCATCTTCG
Found at i:53842384 original size:221 final size:220
Alignment explanation
Indices: 53842108--53842547 Score: 745
Period size: 221 Copynumber: 2.0 Consensus size: 220
53842098 GATCTGCTCC
* *
53842108 ACTGCAACTTCAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAG
1 ACTGCAACTTCAAGAAACAAGATCTACAATCTTCAGCCTACTCCACCACAACTTTAGGGAGCTAG
*
53842173 GATGGTGGCTTAAATCTGCTTCATTGCATCTTCAGGAAGACTAGATTCGCCATCTTCGATCTGCT
66 GATGGTGGCTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTCGCCATCTTCGATCTGCT
* *
53842238 CCACTGCAACTTCAAGGAAACAAGATCTACAATCTTTAGCCTACTCTACTACAACTTTAGGGAGA
131 CCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGA
* *
53842303 TAGGATGGTGGTTTAAATTTGTTTT
196 TAGGATGGTGGCTTAAATCTGTTTT
*
53842328 ACTGCAACTTCATAGAGACAAGATCTACAATCTTCAGCCTACTCCACCACAACTTTAGGGAGCTA
1 ACTGCAACTTCA-AGAAACAAGATCTACAATCTTCAGCCTACTCCACCACAACTTTAGGGAGCTA
*
53842393 GGATGGTGGGTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTCGCCATCTTCGATCTGC
65 GGATGGTGGCTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTCGCCATCTTCGATCTGC
* * * *
53842458 TCCACTGCAACTTCATGGAGACAAGATCTACGATCTTCAGCCTACTCCGCTACAACTTTAGGGAG
130 TCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAG
*
53842523 CTAGGATGGTGGCTTAAATCTGTTT
195 ATAGGATGGTGGCTTAAATCTGTTT
53842548 CACTACATCT
Statistics
Matches: 205, Mismatches: 14, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
220 12 0.06
221 193 0.94
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (220 bp):
ACTGCAACTTCAAGAAACAAGATCTACAATCTTCAGCCTACTCCACCACAACTTTAGGGAGCTAG
GATGGTGGCTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTCGCCATCTTCGATCTGCT
CCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGA
TAGGATGGTGGCTTAAATCTGTTTT
Found at i:53842389 original size:88 final size:88
Alignment explanation
Indices: 53842231--53842431 Score: 280
Period size: 88 Copynumber: 2.3 Consensus size: 88
53842221 GCCATCTTCG
* * * *
53842231 ATCTGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTTAGCCTACTCTACTACAACTTT
1 ATCTGCTTCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACCACAACTTT
*
53842296 AGGGAGATAGGATGGTGGTTTAA
66 AGGGAGATAGGATGGTGGGTTAA
* * * *
53842319 ATTTGTTTTACTGCAACTTCATA-GAGACAAGATCTACAATCTTCAGCCTACTCCACCACAACTT
1 ATCTGCTTCACTGCAACTTCA-AGGAAACAAGATCTACAATCTTCAGCCTACTCCACCACAACTT
*
53842383 TAGGGAGCTAGGATGGTGGGTTAA
65 TAGGGAGATAGGATGGTGGGTTAA
*
53842407 ATCTGCTTCACTGCATCTTC-AGGAA
1 ATCTGCTTCACTGCAACTTCAAGGAA
53842432 GACTAGATTC
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
86 1 0.01
87 2 0.02
88 92 0.96
89 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (88 bp):
ATCTGCTTCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACCACAACTTT
AGGGAGATAGGATGGTGGGTTAA
Found at i:53842472 original size:45 final size:45
Alignment explanation
Indices: 53842407--53842605 Score: 115
Period size: 45 Copynumber: 4.5 Consensus size: 45
53842397 GGTGGGTTAA
* *
53842407 ATCTGCTTCACTGCATCTTCAGGAAGACTAGATTCGCCATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGAAGACTAGATTCGCCATCTTCG
*
53842452 ATCTGCTCCACTGCAACTTCATGG-AGACAAGATCTACG--ATCTTC-
1 ATCTGCTCCACTGCAACTTCA-GGAAGACTAGAT-T-CGCCATCTTCG
* * * * * * **** **
53842496 AGCCTACTCCGCTACAACTTTAGGGAG-CTAGGA-T-GGTGGCTTAA
1 A-TCTGCTCCACTGCAACTTCAGGAAGACTA-GATTCGCCATCTTCG
* * * * * *
53842540 ATCTGTTTCACTACATCTTCAGGAAGACTAGATTCACCGTCTTCG
1 ATCTGCTCCACTGCAACTTCAGGAAGACTAGATTCGCCATCTTCG
53842585 ATCTGCTCCACTGCAACTTCA
1 ATCTGCTCCACTGCAACTTCA
53842606 AAGAAACAAG
Statistics
Matches: 112, Mismatches: 30, Indels: 24
0.67 0.18 0.14
Matches are distributed among these distances:
41 1 0.01
43 23 0.21
44 10 0.09
45 73 0.65
46 3 0.03
47 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (45 bp):
ATCTGCTCCACTGCAACTTCAGGAAGACTAGATTCGCCATCTTCG
Found at i:53842494 original size:133 final size:133
Alignment explanation
Indices: 53842328--53842619 Score: 485
Period size: 133 Copynumber: 2.2 Consensus size: 133
53842318 AATTTGTTTT
53842328 ACTGCAACTTCATAGAGACAAGATCTACAATCTTCAGCCTACTCCACCACAACTTTAGGGAGCTA
1 ACTGCAACTTCATAGAGACAAGATCTACAATCTTCAGCCTACTCCACCACAACTTTAGGGAGCTA
* * *
53842393 GGATGGTGGGTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTCGCCATCTTCGATCTGC
66 GGATGGTGGCTTAAATCTGCTTCACTACATCTTCAGGAAGACTAGATTCACCATCTTCGATCTGC
53842458 TCC
131 TCC
* * * *
53842461 ACTGCAACTTCATGGAGACAAGATCTACGATCTTCAGCCTACTCCGCTACAACTTTAGGGAGCTA
1 ACTGCAACTTCATAGAGACAAGATCTACAATCTTCAGCCTACTCCACCACAACTTTAGGGAGCTA
* *
53842526 GGATGGTGGCTTAAATCTGTTTCACTACATCTTCAGGAAGACTAGATTCACCGTCTTCGATCTGC
66 GGATGGTGGCTTAAATCTGCTTCACTACATCTTCAGGAAGACTAGATTCACCATCTTCGATCTGC
53842591 TCC
131 TCC
* *
53842594 ACTGCAACTTCAAAGAAACAAGATCT
1 ACTGCAACTTCATAGAGACAAGATCT
53842620 GTAGAATTGG
Statistics
Matches: 147, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
133 147 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (133 bp):
ACTGCAACTTCATAGAGACAAGATCTACAATCTTCAGCCTACTCCACCACAACTTTAGGGAGCTA
GGATGGTGGCTTAAATCTGCTTCACTACATCTTCAGGAAGACTAGATTCACCATCTTCGATCTGC
TCC
Found at i:53848095 original size:30 final size:30
Alignment explanation
Indices: 53848054--53848115 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
53848044 CCTGTAAGTT
53848054 AGGACACGATACCATGAACTCCCGAACACA
1 AGGACACGATACCATGAACTCCCGAACACA
*
53848084 AGGACATGATACCATGAACTCCCGAACACA
1 AGGACACGATACCATGAACTCCCGAACACA
53848114 AG
1 AG
53848116 TTTTAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.40, C:0.31, G:0.18, T:0.11
Consensus pattern (30 bp):
AGGACACGATACCATGAACTCCCGAACACA
Found at i:53848771 original size:2 final size:2
Alignment explanation
Indices: 53848766--53848798 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
53848756 ACACACACAC
*
53848766 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
53848799 AGTATGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:53849164 original size:29 final size:27
Alignment explanation
Indices: 53849126--53849190 Score: 69
Period size: 29 Copynumber: 2.4 Consensus size: 27
53849116 AAAAGAGCTC
*
53849126 AAAATGAATAGTGTGTAAAAAAGAAATTT
1 AAAATAAATAGTGT-TAAAAAA-AAATTT
* * *
53849155 AAAATAAATATTGTTCAAAAATAATTT
1 AAAATAAATAGTGTTAAAAAAAAATTT
53849182 -AAATAAATA
1 AAAATAAATA
53849191 AATGTATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 9 0.28
27 5 0.16
28 6 0.19
29 12 0.38
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATAAATAGTGTTAAAAAAAAATTT
Found at i:53849427 original size:2 final size:2
Alignment explanation
Indices: 53849420--53849454 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
53849410 AATGTTTAAA
* *
53849420 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
53849455 CATGTAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:53849605 original size:3 final size:3
Alignment explanation
Indices: 53849597--53849641 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
53849587 AAATAAATGC
53849597 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
53849642 GTAGGTAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:53850433 original size:29 final size:27
Alignment explanation
Indices: 53850395--53850459 Score: 69
Period size: 29 Copynumber: 2.4 Consensus size: 27
53850385 AAAAGAGCTC
*
53850395 AAAATGAATAGTGTGTAAAAAAGAAATTT
1 AAAATAAATAGTGT-TAAAAAA-AAATTT
* * *
53850424 AAAATAAATATTGTTCAAAAATAATTT
1 AAAATAAATAGTGTTAAAAAAAAATTT
53850451 -AAATAAATA
1 AAAATAAATA
53850460 AATGTATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 9 0.28
27 5 0.16
28 6 0.19
29 12 0.38
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATAAATAGTGTTAAAAAAAAATTT
Found at i:53850865 original size:3 final size:3
Alignment explanation
Indices: 53850857--53850898 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
53850847 AAATAAATGC
53850857 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
53850899 GTAGGTAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:53851799 original size:18 final size:17
Alignment explanation
Indices: 53851749--53851800 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
53851739 TGATTTTAGG
* *
53851749 AAAA-AAAGAAAATAAA
1 AAAATAAAGAAAAGAGA
* *
53851765 AAAATAAAGAGACGAGA
1 AAAATAAAGAAAAGAGA
53851782 AAAATAAAGAAATAGAGA
1 AAAATAAAGAAA-AGAGA
53851800 A
1 A
53851801 TGAAACTCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
16 4 0.14
17 19 0.68
18 5 0.18
ACGTcount: A:0.75, C:0.02, G:0.15, T:0.08
Consensus pattern (17 bp):
AAAATAAAGAAAAGAGA
Found at i:53858208 original size:42 final size:41
Alignment explanation
Indices: 53858098--53858238 Score: 149
Period size: 42 Copynumber: 3.3 Consensus size: 41
53858088 ACCATACCAT
* * * *
53858098 TGCCATATCCCAAATATGGTCATACATGTAATCTCGTATCA
1 TGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCA
* *
53858139 CTGCCAATAGCCCAGCTATGGTCTTACATGAAATCTCATATCGA
1 -TGCC-ATATCCCAGATATGGTCTTACATGAAATCTCATATC-A
* * *
53858183 TGCCATATCCCAGATATGCTCTTACACGAAGAT-TCATACTAA
1 TGCCATATCCCAGATATGGTCTTACATGAA-ATCTCATA-TCA
53858225 TGCCATATCCCAGA
1 TGCCATATCCCAGA
53858239 AACGATCTTA
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
42 46 0.55
43 37 0.44
44 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.28
Consensus pattern (41 bp):
TGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCA
Found at i:53875381 original size:53 final size:53
Alignment explanation
Indices: 53875189--53875393 Score: 203
Period size: 53 Copynumber: 3.8 Consensus size: 53
53875179 TAGGGTTTAT
* * * * * *
53875189 GGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAG-TTCATAAGGCAA
* * * * * * * *
53875243 GGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATATGGAAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAA
* * * * *
53875298 AGATCCCATGTAAGACCATGGCAAGGCATGGCAATGGTGAGTTCATAAGGCAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGCAA
*
53875351 GGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
53875394 TAAAAAGGAA
Statistics
Matches: 118, Mismatches: 31, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
53 44 0.37
54 36 0.31
55 38 0.32
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
GGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGCAA
Found at i:53885570 original size:53 final size:53
Alignment explanation
Indices: 53885388--53885594 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 53
53885378 ATTAGCGTTT
* * * * * * * *
53885388 AAGGATACCAAGTAAGAACATGCCAAGGCATGGCATTGGTAAGTTTAACAAGAC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * *
53885442 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
53885497 AAAGAT-CTCATGTAAGACCATGGCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATAC-CATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGC
53885550 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
53885595 TAAAAAGAAA
Statistics
Matches: 123, Mismatches: 26, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
53 46 0.37
54 38 0.31
55 39 0.32
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:53887337 original size:81 final size:81
Alignment explanation
Indices: 53887202--53887364 Score: 299
Period size: 81 Copynumber: 2.0 Consensus size: 81
53887192 ATGTTTCATT
* *
53887202 TTAGCGGAAGCTTAGGAAAATCGTCGTGTTTAAGGAAAACAGTTCGCATTTTTTTAGAAAATCAT
1 TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGGAAAACAGTTCACATTTTTTTAGAAAATCAT
53887267 GTTTCAGGTAAAACCC
66 GTTTCAGGTAAAACCC
53887283 TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGGAAAACAGTTCACATTTTTTTAGAAAATCAT
1 TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGGAAAACAGTTCACATTTTTTTAGAAAATCAT
*
53887348 GTTTCAGGTACAACCC
66 GTTTCAGGTAAAACCC
53887364 T
1 T
53887365 CATAGTAATA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (81 bp):
TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGGAAAACAGTTCACATTTTTTTAGAAAATCAT
GTTTCAGGTAAAACCC
Found at i:53887350 original size:38 final size:38
Alignment explanation
Indices: 53887228--53887351 Score: 97
Period size: 38 Copynumber: 3.1 Consensus size: 38
53887218 AAAATCGTCG
*
53887228 TGTTTAAGGAAAACAGTTCGCATTTTTTTAGAAAATCA
1 TGTTTAAGGAAAACAGTTCACATTTTTTTAGAAAATCA
* ** ******
53887266 TGTTTCAGGTAAAACCCTT-AGCGGAAGCTTAGGAAAATCGTCA
1 TGTTTAAGG-AAAACAGTTCA-CATTTTTTTA-GAAAA---TCA
53887309 TGTTTAAGGAAAACAGTTCACATTTTTTTAGAAAATCA
1 TGTTTAAGGAAAACAGTTCACATTTTTTTAGAAAATCA
53887347 TGTTT
1 TGTTT
53887352 CAGGTACAAC
Statistics
Matches: 60, Mismatches: 19, Indels: 14
0.65 0.20 0.15
Matches are distributed among these distances:
38 16 0.27
39 11 0.18
40 5 0.08
41 5 0.08
42 11 0.18
43 12 0.20
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (38 bp):
TGTTTAAGGAAAACAGTTCACATTTTTTTAGAAAATCA
Found at i:53892868 original size:23 final size:23
Alignment explanation
Indices: 53892838--53892884 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
53892828 TAAAGATTCG
53892838 CACCTTAGACAGTCCCCAATCCT
1 CACCTTAGACAGTCCCCAATCCT
53892861 CACCTTAGACAGTCCCCAATCCT
1 CACCTTAGACAGTCCCCAATCCT
53892884 C
1 C
53892885 CAACACTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.45, G:0.09, T:0.21
Consensus pattern (23 bp):
CACCTTAGACAGTCCCCAATCCT
Found at i:53896316 original size:41 final size:40
Alignment explanation
Indices: 53896178--53896321 Score: 198
Period size: 40 Copynumber: 3.6 Consensus size: 40
53896168 TATAGTGATC
* * * *
53896178 CGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACT
1 CGCACAAATGCCTTCGGGACTTAACCCGGTTTTAGTAACT
* *
53896218 CGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACT
1 CGCACAAATGCCTTCGGGACTTAACCCGGTTTTAGTAACT
*
53896258 CGCACAAATGCCTTCGGGACTTAACCCGGTTTTAGTCACTT
1 CGCACAAATGCCTTCGGGACTTAACCCGGTTTTAGTAAC-T
* *
53896299 AGCACAAAAGCCTTCGGGACTTA
1 CGCACAAATGCCTTCGGGACTTA
53896322 GCCTGGACAC
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 70 0.76
41 22 0.24
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGTTTTAGTAACT
Found at i:53898312 original size:17 final size:18
Alignment explanation
Indices: 53898290--53898329 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
53898280 GTAGACGTGC
*
53898290 ATCAGTATC-TTAATCAG
1 ATCAGTATCAGTAATCAG
53898307 ATCAGTATCAAGTAATCAG
1 ATCAGTATC-AGTAATCAG
53898326 ATCA
1 ATCA
53898330 TCAACTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
19 11 0.55
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.30
Consensus pattern (18 bp):
ATCAGTATCAGTAATCAG
Found at i:53900092 original size:42 final size:43
Alignment explanation
Indices: 53900009--53900176 Score: 230
Period size: 43 Copynumber: 3.9 Consensus size: 43
53899999 GATCAGGACT
* * *
53900009 TTTAGCAGCGTTTGTAGGAAAAACGCCTCTAAAAGTCATGGCC
1 TTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGCC
* *
53900052 TTTTGCGGCGTTTGTGGGAAAAGCG-CGCTAAAAGTCATGGCC
1 TTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGCC
* *
53900094 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAAGTCATGGCC
1 TTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGCC
* * * *
53900137 TTTAGTAGCGTTTATGGGAAAAGCACCGCTAAAAGCCATG
1 TTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATG
53900177 TTACAAACGC
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 39 0.35
43 72 0.65
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (43 bp):
TTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGCC
Found at i:53900126 original size:85 final size:86
Alignment explanation
Indices: 53900009--53900176 Score: 232
Period size: 85 Copynumber: 2.0 Consensus size: 86
53899999 GATCAGGACT
* * * *
53900009 TTTAGCAGCGTTTGTAGGAAAAACGCCTCTAAAAGTCATGGCCTTTTGCGGCGTTTGTGGGAAAA
1 TTTAGCAGCGTTTGTAGGAAAAACGCCGCTAAAAGTCATGGCCTTTAGCAGCGTTTATGGGAAAA
* *
53900074 GC-GCGCTAAAAGTCATGGCC
66 GCACCGCTAAAAGCCATGGCC
* * *
53900094 TTTAGCGGCGTTTGT-GGTAAAAGCGCCGCTAAAAGTCATGGCCTTTAGTAGCGTTTATGGGAAA
1 TTTAGCAGCGTTTGTAGG-AAAAACGCCGCTAAAAGTCATGGCCTTTAGCAGCGTTTATGGGAAA
53900158 AGCACCGCTAAAAGCCATG
65 AGCACCGCTAAAAGCCATG
53900177 TTACAAACGC
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
84 2 0.03
85 57 0.79
86 13 0.18
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (86 bp):
TTTAGCAGCGTTTGTAGGAAAAACGCCGCTAAAAGTCATGGCCTTTAGCAGCGTTTATGGGAAAA
GCACCGCTAAAAGCCATGGCC
Found at i:53900627 original size:21 final size:21
Alignment explanation
Indices: 53900559--53900631 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
53900549 TCTGCTACTA
*
53900559 TCGCTGCTGCC-TCTGCTTCCC
1 TCGCTGCTGCCGT-TGCCTCCC
* * *
53900580 TCACTACTGTCGTTGCCTCCC
1 TCGCTGCTGCCGTTGCCTCCC
*
53900601 TCGCTGCTGCCGTTGCCTCTC
1 TCGCTGCTGCCGTTGCCTCCC
*
53900622 TTGCTGCTGC
1 TCGCTGCTGC
53900632 ATCCGCTCTA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 41 0.98
22 1 0.02
ACGTcount: A:0.03, C:0.42, G:0.21, T:0.34
Consensus pattern (21 bp):
TCGCTGCTGCCGTTGCCTCCC
Found at i:53905449 original size:49 final size:50
Alignment explanation
Indices: 53905377--53905520 Score: 175
Period size: 49 Copynumber: 2.9 Consensus size: 50
53905367 GCCGAAGCTA
* *
53905377 TCTGGTACGCATAGTACCCTGCACTTAGTACTACACATGCGACCAATAG-
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGT
* * * *
53905426 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-TAACAGTT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG-T
* * *
53905476 TCCGGGTACGCATAGTAGCCTGTACTTAGTACTACACATACGACC
1 T-CTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
53905521 TCGCAATAGA
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
48 4 0.05
49 38 0.49
50 1 0.01
51 35 0.45
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (50 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGT
Found at i:53907690 original size:15 final size:15
Alignment explanation
Indices: 53907634--53907698 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
53907624 TAAAGATAAC
*
53907634 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
53907648 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
53907663 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
53907678 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
53907693 AAGAAA
1 AAGAAA
53907699 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:53907700 original size:30 final size:31
Alignment explanation
Indices: 53907634--53907702 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
53907624 TAAAGATAAC
*
53907634 AAGAAAACC-GAATAAAGAAATCCAAGATAG
1 AAGAAACCCAGAATAAAGAAATCCAAGATAG
53907664 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATAG
53907693 AAGAAACCCA
1 AAGAAACCCA
53907703 AGATACGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.61, C:0.17, G:0.13, T:0.09
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:53910767 original size:49 final size:50
Alignment explanation
Indices: 53910693--53910886 Score: 162
Period size: 51 Copynumber: 3.9 Consensus size: 50
53910683 TAGCCGAAGC
* * *
53910693 TATCTGGTACGCATAGTACCCTGCACTTAGTACTACACATGCGA-C-CAA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACAA
* * * *
53910741 TAGTCTGGTACACTTAGTAGCCTGCACTTAGT--TACACACGTGACCTCAC
1 TA-TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACAA
* ** * * * * * *
53910790 CATCTAATACACGTAGTAGCCAGTACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACA-A
* * * *
53910841 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
53910887 TCGCAATAGA
Statistics
Matches: 113, Mismatches: 27, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
47 9 0.08
48 27 0.24
49 29 0.26
50 14 0.12
51 34 0.30
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACAA
Found at i:53915560 original size:40 final size:39
Alignment explanation
Indices: 53915524--53915630 Score: 151
Period size: 39 Copynumber: 2.7 Consensus size: 39
53915514 ATATCCGGAC
*
53915524 TAAGATCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
* * * *
53915564 TAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
53915603 TAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
53915631 CTATAACCGG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.58
40 25 0.42
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
Found at i:53915631 original size:40 final size:40
Alignment explanation
Indices: 53915530--53915656 Score: 177
Period size: 40 Copynumber: 3.2 Consensus size: 40
53915520 GGACTAAGAT
* * *
53915530 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
*
53915569 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
53915609 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
53915649 CCGAAGGC
1 CCGAAGGC
53915657 CTTTGAGCGA
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 34 0.43
40 36 0.46
41 9 0.11
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:53915692 original size:79 final size:79
Alignment explanation
Indices: 53915529--53915694 Score: 176
Period size: 79 Copynumber: 2.1 Consensus size: 79
53915519 CGGACTAAGA
* * *
53915529 TCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
*
53915594 AACCCGGGTTAAGT
66 AACCCGGGTTAAAT
* * * * *
53915608 CCCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTCCCGAAGGCCTTTGAGCGAGTCG
1 TCCGAAGGCATTCGTGCGAGTTAATA-AATCC-GGGTTAAG-CCCGAAGGCATTTGAGCGAGTCA
* * *
53915671 TTATATCC-GGTTAAAT
63 CTAAACCCGGGTTAAAT
53915687 TCCGAAGG
1 TCCGAAGG
53915695 TACGTGATTC
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
79 40 0.56
80 31 0.44
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
AACCCGGGTTAAAT
Found at i:53923568 original size:40 final size:39
Alignment explanation
Indices: 53923532--53923638 Score: 160
Period size: 39 Copynumber: 2.7 Consensus size: 39
53923522 ATATCCGGAC
*
53923532 TAAGATCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
* * *
53923572 TAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
53923611 TAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
53923639 CTATAACCGG
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.58
40 25 0.42
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
Found at i:53923639 original size:40 final size:40
Alignment explanation
Indices: 53923538--53923664 Score: 179
Period size: 40 Copynumber: 3.2 Consensus size: 40
53923528 GGACTAAGAT
* *
53923538 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
*
53923577 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
*
53923617 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AATCC-GGGTTAAGTC
53923657 CCGAAGGC
1 CCGAAGGC
53923665 CTTTGAGCGA
Statistics
Matches: 80, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
39 35 0.44
40 38 0.47
41 7 0.09
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:53923702 original size:79 final size:79
Alignment explanation
Indices: 53923538--53923694 Score: 176
Period size: 79 Copynumber: 2.0 Consensus size: 79
53923528 GGACTAAGAT
* * *
53923538 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTAA
*
53923603 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * **
53923617 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTCCCGAAGGCCTTTGAGCGAGTCGT
1 CCGAAGGCATTCGTGCGAGTTAATA-AATCC-GGGTTAAG-CCCGAAGGCATTTGAGCGAGTCAC
*
53923680 TATATCC-GGTTAAAT
63 TAAATCCGGGTTAAAT
53923695 TCTGAAGGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
79 33 0.51
80 32 0.49
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTAA
ATCCGGGTTAAATC
Found at i:53925643 original size:9 final size:9
Alignment explanation
Indices: 53925629--53925890 Score: 155
Period size: 9 Copynumber: 29.0 Consensus size: 9
53925619 TAAGTATAAT
53925629 TAAGTTATG
1 TAAGTTATG
53925638 TAAGTTATG
1 TAAGTTATG
* * *
53925647 ATATGATATA
1 -TAAGTTATG
*
53925657 T-ATTTATG
1 TAAGTTATG
53925665 T-A-TTATG
1 TAAGTTATG
53925672 TAAGTTATG
1 TAAGTTATG
* *
53925681 TAAATTATA
1 TAAGTTATG
53925690 TAAGTTATG
1 TAAGTTATG
* * *
53925699 AAATGTGATCTT
1 TAA-GT--TATG
*
53925711 TAAATTATG
1 TAAGTTATG
53925720 TAAGTTATG
1 TAAGTTATG
53925729 T-A-TTATG
1 TAAGTTATG
53925736 TAAGTTATG
1 TAAGTTATG
*
53925745 TAAATTATG
1 TAAGTTATG
53925754 TAAGTTATG
1 TAAGTTATG
* * *
53925763 AAATTTGATCTT
1 TAAGTT-A--TG
*
53925775 TAAATTATG
1 TAAGTTATG
*
53925784 TTAGTTATG
1 TAAGTTATG
53925793 T-A-TTATG
1 TAAGTTATG
53925800 TAAGTTATG
1 TAAGTTATG
*
53925809 TAAATTATG
1 TAAGTTATG
53925818 TAAGTTATG
1 TAAGTTATG
* * *
53925827 AAATTTGAACTT
1 TAAGTT--A-TG
* *
53925839 TAAATTATA
1 TAAGTTATG
*
53925848 TTAGTTATG
1 TAAGTTATG
53925857 T-A-TTATG
1 TAAGTTATG
53925864 TAAGTTATG
1 TAAGTTATG
*
53925873 TAAATTATG
1 TAAGTTATG
53925882 TAAGTTATG
1 TAAGTTATG
53925891 AAATTTGAAC
Statistics
Matches: 193, Mismatches: 42, Indels: 36
0.71 0.15 0.13
Matches are distributed among these distances:
7 24 0.12
8 12 0.06
9 130 0.67
10 10 0.05
11 3 0.02
12 14 0.07
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:53925732 original size:64 final size:64
Alignment explanation
Indices: 53925660--53925951 Score: 485
Period size: 64 Copynumber: 4.6 Consensus size: 64
53925650 TGATATATAT
* * *
53925660 TTATGTATTATGTAAGTTATGTAAATTATATAAGTTATGAAATGTGATCTTTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAG
* *
53925724 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTTAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAG
* *
53925788 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATATTAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAG
53925852 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAG
* * * *
53925916 TTATGCATTATGTAAATTATATAAATTATGTGAGTT
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTT
53925952 GCTAGTGAAC
Statistics
Matches: 217, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 217 1.00
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.47
Consensus pattern (64 bp):
TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAG
Found at i:53925934 original size:9 final size:9
Alignment explanation
Indices: 53925666--53925946 Score: 138
Period size: 9 Copynumber: 32.8 Consensus size: 9
53925656 ATATTTATGT
53925666 ATTATGTAA
1 ATTATGTAA
*
53925675 GTTATGTAA
1 ATTATGTAA
*
53925684 ATTATATAA
1 ATTATGTAA
*
53925693 GTTATG-AA
1 ATTATGTAA
*
53925701 ATGTGATCTTTAA
1 AT-T-A--TGTAA
53925714 ATTATGTAA
1 ATTATGTAA
*
53925723 GTTATGT--
1 ATTATGTAA
53925730 ATTATGTAA
1 ATTATGTAA
*
53925739 GTTATGTAA
1 ATTATGTAA
53925748 ATTATGTAA
1 ATTATGTAA
*
53925757 GTTATG-AA
1 ATTATGTAA
*
53925765 ATTTGATCTTTAA
1 A-TT-A--TGTAA
*
53925778 ATTATGTTA
1 ATTATGTAA
*
53925787 GTTATGT--
1 ATTATGTAA
53925794 ATTATGTAA
1 ATTATGTAA
*
53925803 GTTATGTAA
1 ATTATGTAA
53925812 ATTATGTAA
1 ATTATGTAA
*
53925821 GTTATG-AA
1 ATTATGTAA
53925829 ATT-TG--A
1 ATTATGTAA
*
53925835 ACT-T-TAA
1 ATTATGTAA
* *
53925842 ATTATATTA
1 ATTATGTAA
*
53925851 GTTATGT--
1 ATTATGTAA
53925858 ATTATGTAA
1 ATTATGTAA
*
53925867 GTTATGTAA
1 ATTATGTAA
53925876 ATTATGTAA
1 ATTATGTAA
*
53925885 GTTATG-AA
1 ATTATGTAA
53925893 ATT-TG--A
1 ATTATGTAA
*
53925899 ACT-T-TAA
1 ATTATGTAA
53925906 ATTATGTAA
1 ATTATGTAA
* *
53925915 GTTATG--C
1 ATTATGTAA
53925922 ATTATGTAA
1 ATTATGTAA
*
53925931 ATTATATAA
1 ATTATGTAA
53925940 ATTATGT
1 ATTATGT
53925947 GAGTTGCTAG
Statistics
Matches: 205, Mismatches: 41, Indels: 52
0.69 0.14 0.17
Matches are distributed among these distances:
6 8 0.04
7 33 0.16
8 15 0.07
9 133 0.65
10 2 0.01
11 2 0.01
12 5 0.02
13 7 0.03
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (9 bp):
ATTATGTAA
Found at i:53926007 original size:128 final size:128
Alignment explanation
Indices: 53925660--53926003 Score: 315
Period size: 128 Copynumber: 2.7 Consensus size: 128
53925650 TGATATATAT
* * * * * * *
53925660 TTATGTATTATGTAAGTTATGTAAATTATATAAGTTATGAAATGTGATCTTTAAAT--TATGTAA
1 TTATGCATTATGTAAATTATATAAATTATGTAAGTTATGAAATGTGAACTTAAAATAAAAT-TAA
* * * ** * *
53925723 GTTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTTAG
65 -TTATGAATTAGGTAAATTAAATAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAG
* * * * * * * *
53925788 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATATTAGT
1 TTATGCATTATGTAAATTATATAAATTATGTAAGTTATGAAATGTGAACTTAAAATAAAATTAAT
* * * **
53925853 TATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAG
66 TATGAATTAGGTAAATTAAATAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAG
* **
53925916 TTATGCATTATGTAAATTATATAAATTATGTGAG-T-TGCTA-GTGAACTTGAAAATAAAACTTA
1 TTATGCATTATGTAAATTATATAAATTATGTAAGTTATGAAATGTGAACTT-AAAATAAAA-TTA
53925978 ATT-T-AATTAGGTAAATTGAAAATAAA
64 ATTATGAATTAGGTAAATT--AAATAAA
53926004 ATTAAAGAAA
Statistics
Matches: 188, Mismatches: 22, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
125 17 0.09
126 10 0.05
127 11 0.06
128 145 0.77
129 2 0.01
130 3 0.02
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (128 bp):
TTATGCATTATGTAAATTATATAAATTATGTAAGTTATGAAATGTGAACTTAAAATAAAATTAAT
TATGAATTAGGTAAATTAAATAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAG
Found at i:53926150 original size:99 final size:99
Alignment explanation
Indices: 53926045--53927243 Score: 1046
Period size: 99 Copynumber: 11.7 Consensus size: 99
53926035 AATTAAAGTG
53926045 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTATGT-AATGTTAAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAAAT-TTAAA
*
53926109 ATAAAATAAAATATTGAAATTAATTTTCGCGATTC
65 ATAAAATAAAATATTGAAATTAATTTTCGTGATTC
** * * *
53926144 AAATAAAATAAAATATTTAAAATGTAACTTTAAATA-TACTTTAATTTAATTAGGTAAATTGAAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAAC-TTAATTTAATTATGTAAATTTAAA
*** * *
53926208 ATAAAATTAAAGA-AAACAAAAT-ATTTTTGTGATT-
65 ATAAAA-TAAA-ATATTGAAATTAATTTTCGTGATTC
* * *
53926242 AAATTAAAGT-GAA-A--TAAAATAAAATATTTAAAATACAACTTAATTTAATTATGT-AATGTT
1 AAA-TAAAATAAAATATTTAAAATAAAA-CTTT-AAATACAACTTAATTTAATTATGTAAAT-TT
*
53926302 AAAATAAAATAAAATATTGAAATTAATTTTCGCGATTC
62 AAAATAAAATAAAATATTGAAATTAATTTTCGTGATTC
* * * *
53926340 AAATAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATT-TGGTAAATTGAAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTAT-GTAAATTTAAA
* * *** * * * *
53926404 ATAAAATTAAAGAAAAAAAATATTTTTCATGATTAAATTAAAGTG
65 ATAAAATAAAATATTGAAATTAATTTTC--G--T-GA-T----TC
53926449 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTATGT-AATGTTAAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAAAT-TTAAA
* *
53926513 ATAAAATAAAATATTGAAATTAATTTTCATAATTC
65 ATAAAATAAAATATTGAAATTAATTTTCGTGATTC
* * * * *
53926548 AAATAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTAAAAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAAATTTAAAA
*** * * * *
53926613 TAAAATTAAAGA-AAACAAAATATTTTTCATGATTAAATTAAAGTG
66 TAAAA-TAAA-ATATTGAAATTAATTTTC--G--T-GA-T----TC
*
53926658 AAATAAAATAAAATATTTAAAATACAACTTTAAATACAACTTAATTTAATTATGT-AATGTTAAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAAAT-TTAAA
53926722 ATAAAATAAAATATTGAAATTAATTTTCGTGATTC
65 ATAAAATAAAATATTGAAATTAATTTTCGTGATTC
* * * * * *
53926757 AAATAAAATAAAATATTTAAATTGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTGAAAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAAATTTAAAA
*** * * * * *
53926822 TAAAATTAAAGA-AAACAAAATATTTTTTTGATTAAATTAAAGTG
66 TAAAA-TAAA-ATATTGAAATTA-ATTTTCG--T-GA-T----TC
*
53926866 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTCATTATGT-AATGTTAAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAAAT-TTAAA
*
53926930 ATAAAATAAAATATTAAAATTAATTTTCGTGATTC
65 ATAAAATAAAATATTGAAATTAATTTTCGTGATTC
* * * * * *
53926965 AAATAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTGAAAG
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAAATTTAAAA
* * * * * * *
53927030 TAAAATTAAAGAAAAT-AAAATATTTTTTTGATTAAATTA
66 TAAAA-TAAA-ATATTGAAATTA-ATTTTCG--T-GATTC
**
53927069 AAATGAAATAAATTAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAACGT
1 AAAT---A-AAA-TAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAAATT
53927134 TAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTC
61 TAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTC
* * ** * * *
53927173 AAATAAAATAAAACATTTAAAATGAAACTTTAAATATTATTTAATTTAATTAGGTAAATTGAAAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAAATTTAAAA
53927238 TAAAAT
66 TAAAAT
53927244 CAAAGAAAAC
Statistics
Matches: 880, Mismatches: 148, Indels: 144
0.75 0.13 0.12
Matches are distributed among these distances:
95 9 0.01
96 15 0.02
97 45 0.05
98 15 0.02
99 355 0.40
100 64 0.07
101 27 0.03
103 5 0.01
104 21 0.02
105 8 0.01
106 1 0.00
107 16 0.02
108 29 0.03
109 208 0.24
110 62 0.07
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (99 bp):
AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAAATTTAAAA
TAAAATAAAATATTGAAATTAATTTTCGTGATTC
Found at i:53926518 original size:208 final size:208
Alignment explanation
Indices: 53926256--53927256 Score: 1779
Period size: 208 Copynumber: 4.8 Consensus size: 208
53926246 TAAAGTGAAA
*
53926256 TAAAATAAAATATTTAAAATACAACTTAATTTAATTATGTAATGTTAAAATAAAATAAAATATTG
1 TAAAATAAAA-CTTT-AAATACAACTTAATTTAATTATGTAATGTTAAAATAAAATAAAATATTG
*
53926321 AAATTAATTTTCGCGATTCAAATAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATT
64 AAATTAATTTTCGTGATTCAAATAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATT
*
53926386 TAATTTGGTAAATTGAAAATAAAATTAAAGAAAA-AAAATATTTTTCATGATTAAATTAAAGTGA
129 TAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTT-ATGATTAAATTAAAGTGA
53926450 AATAAAATAAAATATT
193 AATAAAATAAAATATT
53926466 TAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAATGTTAAAATAAAATAAAATATTGAA
1 TAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAATGTTAAAATAAAATAAAATATTGAA
* *
53926531 ATTAATTTTCATAATTCAAATAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTA
66 ATTAATTTTCGTGATTCAAATAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTA
*
53926596 ATTAGGTAAATTAAAAATAAAATTAAAGAAAACAAAATATTTTTCATGATTAAATTAAAGTGAAA
131 ATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTT-ATGATTAAATTAAAGTGAAA
53926661 TAAAATAAAATATT
195 TAAAATAAAATATT
*
53926675 TAAAATACAACTTTAAATACAACTTAATTTAATTATGTAATGTTAAAATAAAATAAAATATTGAA
1 TAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAATGTTAAAATAAAATAAAATATTGAA
*
53926740 ATTAATTTTCGTGATTCAAATAAAATAAAATATTTAAATTGAAACTTTAAATATAATTTAATTTA
66 ATTAATTTTCGTGATTCAAATAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTA
*
53926805 ATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTTTGATTAAATTAAAGTGAAAT
131 ATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTATGATTAAATTAAAGTGAAAT
53926870 AAAATAAAATATT
196 AAAATAAAATATT
* *
53926883 TAAAATAAAACTTTAAATACAACTTAATTTCATTATGTAATGTTAAAATAAAATAAAATATTAAA
1 TAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAATGTTAAAATAAAATAAAATATTGAA
53926948 ATTAATTTTCGTGATTCAAATAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTA
66 ATTAATTTTCGTGATTCAAATAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTA
* * * *
53927013 ATTAGGTAAATTGAAAGTAAAATTAAAGAAAATAAAATATTTTTTTGATTAAATTAAAATGAAAT
131 ATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTATGATTAAATTAAAGTGAAAT
*
53927078 AAATTAAAATATT
196 AAAATAAAATATT
*
53927091 TAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAACGTTAAAATAAAATAAAATATTGAA
1 TAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAATGTTAAAATAAAATAAAATATTGAA
* *
53927156 ATTAATTTTCGTGATTCAAATAAAATAAAACATTTAAAATGAAACTTTAAATATTATTTAATTTA
66 ATTAATTTTCGTGATTCAAATAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTA
*
53927221 ATTAGGTAAATTGAAAATAAAATCAAAGAAAACAAA
131 ATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAA
53927257 TGTATGCCAT
Statistics
Matches: 762, Mismatches: 28, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
208 534 0.70
209 218 0.29
210 10 0.01
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (208 bp):
TAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAATGTTAAAATAAAATAAAATATTGAA
ATTAATTTTCGTGATTCAAATAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTA
ATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTATGATTAAATTAAAGTGAAAT
AAAATAAAATATT
Found at i:53926745 original size:38 final size:37
Alignment explanation
Indices: 53926703--53926779 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
53926693 ACAACTTAAT
53926703 TTAATTATGTAATG-TTAAAATAAAATAAAATATTGAAA
1 TTAATT-T-TAATGATTAAAATAAAATAAAATATTGAAA
** * *
53926741 TTAATTTTCGTGATTCAAATAAAATAAAATATTTAAA
1 TTAATTTTAATGATTAAAATAAAATAAAATATTGAAA
53926778 TT
1 TT
53926780 GAAACTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 3 0.09
37 25 0.74
38 6 0.18
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (37 bp):
TTAATTTTAATGATTAAAATAAAATAAAATATTGAAA
Found at i:53926907 original size:417 final size:416
Alignment explanation
Indices: 53925966--53927256 Score: 2230
Period size: 417 Copynumber: 3.1 Consensus size: 416
53925956 GTGAACTTGA
* * *
53925966 AAATAAAACTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTCGTG
1 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTCATG
*
53926031 ATAAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATT
66 ATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATT
*
53926096 ATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGCGATTCAAATAAAATAAAATATT
131 ATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAATAAAATAAAATATT
* *
53926161 TAAAATGTAACTTTAAATATACTTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACA
196 TAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACA
*
53926226 AAATATTTTTGTGATTAAATTAAAGTGAAATAAAATAAAATA-TT----T--A----AAATACAA
261 AAATATTTTTATGATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAACTTTAAATACAA
*
53926280 CTTAATTTAATTATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGCGATTCAAATA
326 CTTAATTTAATTATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAATA
53926345 AAATAAAATATTTAAAATGAAACTTT
391 AAATAAAATATTTAAAATGAAACTTT
*
53926371 AAATATAATTTAATTTAATTTGGTAAATTGAAAATAAAATTAAAGAAAA-AAAATATTTTTCATG
1 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTCATG
53926435 ATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATT
66 ATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATT
* *
53926500 ATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCATAATTCAAATAAAATAAAATATT
131 ATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAATAAAATAAAATATT
*
53926565 TAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTAAAAATAAAATTAAAGAAAACA
196 TAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACA
53926630 AAATATTTTTCATGATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATACAACTTTAAATAC
261 AAATATTTTT-ATGATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATA-AACTTTAAATAC
53926695 AACTTAATTTAATTATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAA
324 AACTTAATTTAATTATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAA
*
53926760 TAAAATAAAATATTTAAATTGAAACTTT
389 TAAAATAAAATATTTAAAATGAAACTTT
*
53926788 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTT-TTG
1 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTCATG
*
53926852 ATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTCATT
66 ATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATT
*
53926917 ATGTAATGTTAAAATAAAATAAAATATTAAAATTAATTTTCGTGATTCAAATAAAATAAAATATT
131 ATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAATAAAATAAAATATT
* *
53926982 TAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTGAAAGTAAAATTAAAGAAAATA
196 TAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACA
* * *
53927047 AAATATTTTTTTGATTAAATTAAAATGAAATAAATTAAAATATTTAAAATAAAACTTTAAATACA
261 AAATATTTTTATGATTAAATTAAAGTGAAATAAAATAAAATATTTAAAAT-AAACTTTAAATACA
*
53927112 ACTTAATTTAATTATGTAACGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAAT
325 ACTTAATTTAATTATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAAT
*
53927177 AAAATAAAACATTTAAAATGAAACTTT
390 AAAATAAAATATTTAAAATGAAACTTT
* *
53927204 AAATATTATTTAATTTAATTAGGTAAATTGAAAATAAAATCAAAGAAAACAAA
1 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAA
53927257 TGTATGCCAT
Statistics
Matches: 840, Mismatches: 31, Indels: 19
0.94 0.03 0.02
Matches are distributed among these distances:
404 212 0.25
405 77 0.09
406 2 0.00
410 1 0.00
413 1 0.00
416 190 0.23
417 346 0.41
418 11 0.01
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (416 bp):
AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTCATG
ATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATT
ATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAATAAAATAAAATATT
TAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACA
AAATATTTTTATGATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAACTTTAAATACAA
CTTAATTTAATTATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAATA
AAATAAAATATTTAAAATGAAACTTT
Found at i:53927488 original size:625 final size:617
Alignment explanation
Indices: 53925966--53927268 Score: 1742
Period size: 625 Copynumber: 2.1 Consensus size: 617
53925956 GTGAACTTGA
* * * * * ** *
53925966 AAATAAAACTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTCGTG
1 AAATATAATTTAATTTAATTAGGTAAATTAAAAATAAAATCAAAGAAAACAAAATATATGCCATG
* * *
53926031 A-TAAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAAT
66 ACT-AAATTAAAGTGAAATAAAACAAAATATTTAAAATACAACTTT-AATACAACTTAA-TTAAC
** * * * ** *
53926095 TATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGCGATTCAAATAAAATAAAATAT
128 TATGTAATGGAAAAATAAAATAAAAGATGGAAAGTAATGATCG-TATTCAAATAAAATAAAATAT
* * * * *
53926160 TTAAAATGTAACTTTAAATATACTTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAAC
192 GTAAATTGAAACTTTAAATATA-TTCAA--TAACTA-G--AATTGAAAATAAAATTAAAGAAAAC
* * *
53926225 AAAATATTTTTGTGATTAAATTAAA-G--------T-GAA-A--TAAAATAAAATATTTAAAATA
251 AAAATATTTTTTTAATTAAATTAAAGGAAATAAAATAAAATATTTAAAATAAAATATTTAAAATA
*
53926277 CAACTTAATTTAATTATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGCGATTCAA
316 CAACTTAATTTAATTATGTAATGTTAAAATAAAATAAAATATTAAAATTAATTTTCGCGATTCAA
*
53926342 ATAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTTGGTAAATTGAAAATA
381 ATAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTGAAAATA
*
53926407 AAATTAAAGAAAAAAAATATTTTTCATGATTAAATTAAAGTGAAATAAAATAAAATATTTAAAAT
446 AAATTAAAGAAAAAAAATATTTTTCATGATTAAATTAAAATGAAATAAAATAAAATATTTAAAAT
*
53926472 AAAACTTTAAATACAACTTAATTTAATTATGTAATGTTAAAATAAAATAAAATATTGAAATTAAT
511 AAAACTTTAAATACAACTTAATTTAATTATGTAACGTTAAAATAAAATAAAATATTGAAATTAAT
*
53926537 TTTCATAATTCAAATAAAATAAAATATTTAAAATGAAACTTT
576 TTTCATAATTCAAATAAAATAAAACATTTAAAATGAAACTTT
* * **
53926579 AAATATAATTTAATTTAATTAGGTAAATTAAAAATAAAATTAAAGAAAACAAAATATTTTTCATG
1 AAATATAATTTAATTTAATTAGGTAAATTAAAAATAAAATCAAAGAAAACAAAATATATGCCATG
* * *
53926644 ATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATACAACTTTAAATACAACTTAATTTAATT
66 ACTAAATTAAAGTGAAATAAAACAAAATATTTAAAATACAACTTT-AATACAACTTAA-TTAACT
** * * * ** *
53926709 ATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAATAAAATAAAATATT
129 ATGTAATGGAAAAATAAAATAAAAGATGGAAAGTAATGATCGT-ATTCAAATAAAATAAAATATG
* *
53926774 TAAATTGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACA
193 TAAATTGAAACTTTAAATAT-ATTCAA--TAACTA-G--AATTGAAAATAAAATTAAAGAAAACA
* *
53926839 AAATATTTTTTTGATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAA-CTTT-AAATA
252 AAATATTTTTTTAATTAAATTAAAG-GAAATAAAATAAAATATTTAAAATAAAATATTTAAAATA
* *
53926902 CAACTTAATTTCATTATGTAATGTTAAAATAAAATAAAATATTAAAATTAATTTTCGTGATTCAA
316 CAACTTAATTTAATTATGTAATGTTAAAATAAAATAAAATATTAAAATTAATTTTCGCGATTCAA
*
53926967 ATAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTGAAAGTA
381 ATAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTGAAAATA
* *
53927032 AAATTAAAGAAAATAAAATATTTTT-TTGATTAAATTAAAATGAAATAAATTAAAATATTTAAAA
446 AAATTAAAGAAAA-AAAATATTTTTCATGATTAAATTAAAATGAAATAAAATAAAATATTTAAAA
53927096 TAAAACTTTAAATACAACTTAATTTAATTATGTAACGTTAAAATAAAATAAAATATTGAAATTAA
510 TAAAACTTTAAATACAACTTAATTTAATTATGTAACGTTAAAATAAAATAAAATATTGAAATTAA
* *
53927161 TTTTCGTGATTCAAATAAAATAAAACATTTAAAATGAAACTTT
575 TTTTCATAATTCAAATAAAATAAAACATTTAAAATGAAACTTT
* * *
53927204 AAATATTATTTAATTTAATTAGGTAAATTGAAAATAAAATCAAAGAAAAC-AAATGTATGCCATG
1 AAATATAATTTAATTTAATTAGGTAAATTAAAAATAAAATCAAAGAAAACAAAATATATGCCATG
53927268 A
66 A
53927269 ACACCTAACA
Statistics
Matches: 642, Mismatches: 30, Indels: 25
0.92 0.04 0.04
Matches are distributed among these distances:
613 270 0.42
614 2 0.00
615 1 0.00
623 1 0.00
624 13 0.02
625 331 0.52
626 14 0.02
627 10 0.02
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (617 bp):
AAATATAATTTAATTTAATTAGGTAAATTAAAAATAAAATCAAAGAAAACAAAATATATGCCATG
ACTAAATTAAAGTGAAATAAAACAAAATATTTAAAATACAACTTTAATACAACTTAATTAACTAT
GTAATGGAAAAATAAAATAAAAGATGGAAAGTAATGATCGTATTCAAATAAAATAAAATATGTAA
ATTGAAACTTTAAATATATTCAATAACTAGAATTGAAAATAAAATTAAAGAAAACAAAATATTTT
TTTAATTAAATTAAAGGAAATAAAATAAAATATTTAAAATAAAATATTTAAAATACAACTTAATT
TAATTATGTAATGTTAAAATAAAATAAAATATTAAAATTAATTTTCGCGATTCAAATAAAATAAA
ATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGA
AAAAAAATATTTTTCATGATTAAATTAAAATGAAATAAAATAAAATATTTAAAATAAAACTTTAA
ATACAACTTAATTTAATTATGTAACGTTAAAATAAAATAAAATATTGAAATTAATTTTCATAATT
CAAATAAAATAAAACATTTAAAATGAAACTTT
Found at i:53929629 original size:21 final size:21
Alignment explanation
Indices: 53929605--53929652 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
53929595 AGCTTAAAAT
*
53929605 CTAAACTATATCCTCTAAACC
1 CTAAACTATATCCCCTAAACC
53929626 CTAAACTATATCCCCTAAACC
1 CTAAACTATATCCCCTAAACC
*
53929647 ATAAAC
1 CTAAAC
53929653 CACAAAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (21 bp):
CTAAACTATATCCCCTAAACC
Found at i:53929836 original size:182 final size:182
Alignment explanation
Indices: 53929623--53930045 Score: 828
Period size: 182 Copynumber: 2.3 Consensus size: 182
53929613 TATCCTCTAA
* *
53929623 ACCCTAAACTATATCCCCTAAACCATAAACCACAAAACAATAACCCCTAAGCCTTAACCACAAAA
1 ACCCTAAACAATATCCCCTAAACCCTAAACCACAAAACAATAACCCCTAAGCCTTAACCACAAAA
53929688 TGTATGAATTAATTATAACCCTAAACTATATCCACTGATCCTTAAACCACAAAACAATAACACTA
66 TGTATGAATTAATTATAACCCTAAACTATATCCACTGATCCTTAAACCACAAAACAATAACACTA
53929753 ATTAATCAATACTCTAAACCTTAAACCATTAAACTATATCCCCTACTAAAGT
131 ATTAATCAATACTCTAAACCTTAAACCATTAAACTATATCCCCTACTAAAGT
53929805 ACCCTAAACAATATCCCCTAAACCCTAAACCACAAAACAATAACCCCTAAGCCTTAACCACAAAA
1 ACCCTAAACAATATCCCCTAAACCCTAAACCACAAAACAATAACCCCTAAGCCTTAACCACAAAA
53929870 TGTATGAATTAATTATAACCCTAAACTATATCCACTGATCCTTAAACCACAAAACAATAACACTA
66 TGTATGAATTAATTATAACCCTAAACTATATCCACTGATCCTTAAACCACAAAACAATAACACTA
53929935 ATTAATCAATACTCTAAACCTTAAACCATTAAACTATATCCCCTACTAAAGT
131 ATTAATCAATACTCTAAACCTTAAACCATTAAACTATATCCCCTACTAAAGT
53929987 ACCCTAAACAATATCCCCTAAACCCTAAACCACAAAACAATAACCCCTAAGCCTTAACC
1 ACCCTAAACAATATCCCCTAAACCCTAAACCACAAAACAATAACCCCTAAGCCTTAACC
53930046 CTTAAACCAT
Statistics
Matches: 239, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
182 239 1.00
ACGTcount: A:0.45, C:0.30, G:0.03, T:0.23
Consensus pattern (182 bp):
ACCCTAAACAATATCCCCTAAACCCTAAACCACAAAACAATAACCCCTAAGCCTTAACCACAAAA
TGTATGAATTAATTATAACCCTAAACTATATCCACTGATCCTTAAACCACAAAACAATAACACTA
ATTAATCAATACTCTAAACCTTAAACCATTAAACTATATCCCCTACTAAAGT
Found at i:53929851 original size:29 final size:28
Alignment explanation
Indices: 53929810--53929869 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
53929800 AAAGTACCCT
*
53929810 AAACAATATCCCCTAAACCCTAAACCACA
1 AAACAATAACCCCT-AACCCTAAACCACA
* *
53929839 AAACAATAACCCCTAAGCCTTAACCACA
1 AAACAATAACCCCTAACCCTAAACCACA
53929867 AAA
1 AAA
53929870 TGTATGAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 15 0.54
29 13 0.46
ACGTcount: A:0.50, C:0.35, G:0.02, T:0.13
Consensus pattern (28 bp):
AAACAATAACCCCTAACCCTAAACCACA
Found at i:53930111 original size:22 final size:22
Alignment explanation
Indices: 53930028--53930108 Score: 103
Period size: 22 Copynumber: 3.7 Consensus size: 22
53930018 ACAAAACAAT
*
53930028 AACCCCTAAGCCTTAACCCTTA
1 AACCCCTAACCCTTAACCCTTA
** *
53930050 AACCATTAACCCATAACCCTTA
1 AACCCCTAACCCTTAACCCTTA
53930072 AACCCCTAA-CCTATAACCCTTA
1 AACCCCTAACCCT-TAACCCTTA
53930094 AACCCC-AACCCTTAA
1 AACCCCTAACCCTTAA
53930109 ACCATAAGCC
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
21 7 0.14
22 43 0.86
ACGTcount: A:0.37, C:0.41, G:0.01, T:0.21
Consensus pattern (22 bp):
AACCCCTAACCCTTAACCCTTA
Found at i:53930159 original size:15 final size:15
Alignment explanation
Indices: 53930106--53930153 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
53930096 CCCCAACCCT
*
53930106 TAAA-CCATAAGCCA
1 TAAACCCATAATCCA
*
53930120 TAAA--CATAATCCC
1 TAAACCCATAATCCA
53930133 TAAACCCATAATCCA
1 TAAACCCATAATCCA
53930148 TAAACC
1 TAAACC
53930154 TTTAATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 11 0.38
14 4 0.14
15 14 0.48
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:53932142 original size:47 final size:47
Alignment explanation
Indices: 53932088--53932219 Score: 147
Period size: 47 Copynumber: 2.8 Consensus size: 47
53932078 CAAAATCGAT
* * *
53932088 AAGTACCTATATTATGGCCCGTAGCCAAATCAAGGTAACTTATCCCG
1 AAGTACCTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
* * * * * *
53932135 GAGTACCTATACCATGGCCCATAGCCAAATCAAGATAACTCCTCTCA
1 AAGTACCTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
* * *
53932182 AAATACCTATATCATGGCCTTGTAGCCAAATCACGGTA
1 AAGTACCTATATCATGGCC-CGTAGCCAAATCAAGGTA
53932220 TTATTCGCAC
Statistics
Matches: 68, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
47 54 0.79
48 14 0.21
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.24
Consensus pattern (47 bp):
AAGTACCTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
Found at i:53943149 original size:53 final size:53
Alignment explanation
Indices: 53943085--53943191 Score: 144
Period size: 53 Copynumber: 2.0 Consensus size: 53
53943075 TTTTCCTTTT
* * * *
53943085 TGAACTTACCAATGCCATGTCTTGACATGGTATTACGTGGTATCC-TTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTATTACATGGGA-CCTTTGCCTTA
* *
53943138 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTATTACATGGGACCTTTGCCTTA
53943191 T
1 T
53943192 AGTATGTAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
52 2 0.04
53 45 0.96
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (53 bp):
TGAACTCACCAATGCCATGCCTTGACATGGTATTACATGGGACCTTTGCCTTA
Found at i:53945028 original size:20 final size:21
Alignment explanation
Indices: 53944992--53945039 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
53944982 ATTTTGATAT
*
53944992 ACATGATTTGATATGATATGC
1 ACATGATATGATATGATATGC
53945013 ACATGATATG-TATGATATGC
1 ACATGATATGATATGATATGC
53945033 ACATGAT
1 ACATGAT
53945040 GTATTCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (21 bp):
ACATGATATGATATGATATGC
Found at i:53945121 original size:25 final size:25
Alignment explanation
Indices: 53945087--53945181 Score: 156
Period size: 25 Copynumber: 3.8 Consensus size: 25
53945077 GAGGAAGTGC
53945087 AAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACTG
*
53945112 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACTG
*
53945137 AAAAGGGCTTTGCCCCAGTTTA-TCA
1 AAAAGGGCTTTGCCCCAGTTTACT-G
53945162 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
53945182 ATTAAAAGAG
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACTG
Found at i:53945194 original size:24 final size:24
Alignment explanation
Indices: 53945087--53945217 Score: 147
Period size: 25 Copynumber: 5.2 Consensus size: 24
53945077 GAGGAAGTGC
53945087 AAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTA-TG
*
53945112 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTA-TG
*
53945137 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTAT-G
*
53945162 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATG
**
53945185 AAAAGAGGCTAGGCCTCCAGTTATATG
1 AAAAG-GGCTTTGCC-CCAGTT-TATG
53945212 ATAAAG
1 A-AAAG
53945218 CAACTATGCT
Statistics
Matches: 93, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
23 5 0.05
24 11 0.12
25 68 0.73
26 1 0.01
27 4 0.04
28 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATG
Found at i:53945464 original size:30 final size:32
Alignment explanation
Indices: 53945428--53945492 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 32
53945418 TGATATAAGT
*
53945428 TGTGAATTAT-AAAAGGCTTCTGCCCAGTA-A
1 TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
*
53945458 TGTGAATTATGAAGAGGCTTCGGCCCAGTATA
1 TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
53945490 TGT
1 TGT
53945493 TGAGATTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 10 0.32
31 17 0.55
32 4 0.13
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (32 bp):
TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
Found at i:53956535 original size:25 final size:25
Alignment explanation
Indices: 53956499--53956565 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
53956489 GAGGAAGTGC
*
53956499 AAAAGGGATTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
**
53956524 AAAAGGGCTTTGCCAAAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
53956549 AAAAGGGCTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
53956566 ATTATTAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:53956851 original size:30 final size:32
Alignment explanation
Indices: 53956815--53956879 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
53956805 TGATATGAGT
*
53956815 TGTGAATTAT-AAAAGGCTTCGGCCTAGTA-A
1 TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
* *
53956845 TGTGAATTATGAAGAGGCTTTGGCCCAGTATA
1 TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
53956877 TGT
1 TGT
53956880 TGAGATTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 10 0.33
31 16 0.53
32 4 0.13
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.32
Consensus pattern (32 bp):
TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
Found at i:53957641 original size:54 final size:54
Alignment explanation
Indices: 53957549--53957712 Score: 202
Period size: 54 Copynumber: 3.0 Consensus size: 54
53957539 GGGGTGTTAC
* * * * *
53957549 ATAGTAACTCATCAATGCCATGTCTCGACATGGTCTTACATGATTTCCTTGCCTT
1 ATAG-AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTACCTT
* *
53957604 ATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACGTAATTTCCTTACCTT
1 ATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTACCTT
* * * * * *
53957658 ATAGAACTTATTAATACCATGCCTTAGTATGGTCTTACATGATATCCTTATCTT
1 ATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTACCTT
53957712 A
1 A
53957713 CCAAATGCCA
Statistics
Matches: 94, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
54 90 0.96
55 4 0.04
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (54 bp):
ATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTACCTT
Found at i:53957737 original size:47 final size:47
Alignment explanation
Indices: 53957685--53957806 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
53957675 CATGCCTTAG
* *
53957685 TATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 TATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
53957732 TATGGTCTTACATGGTATCATTGTCTTACCAAATGCCATGTTCCAAA
1 TATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
53957779 CATGGTCTTACATGGTATCCTTGTCTTA
1 TATGGTCTTACATGGTATCCTTGTCTTA
53957807 GTGCTAATGC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (47 bp):
TATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:53964449 original size:28 final size:27
Alignment explanation
Indices: 53964409--53964464 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
53964399 ACGCCCCAAT
* **
53964409 TTTTGGGTTTTCTGTGTTTTTTAAAATA
1 TTTTGGGTGTTCTG-GTTGGTTAAAATA
*
53964437 TTTTGTGTGTTCTGGTTGGTTAAAATA
1 TTTTGGGTGTTCTGGTTGGTTAAAATA
53964464 T
1 T
53964465 ATATTTTAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.18, C:0.04, G:0.21, T:0.57
Consensus pattern (27 bp):
TTTTGGGTGTTCTGGTTGGTTAAAATA
Found at i:53965937 original size:26 final size:27
Alignment explanation
Indices: 53965908--53965967 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
53965898 CCACATATAT
*
53965908 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
53965934 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
53965961 ATATCTG
1 ATATCTG
53965968 GCAGCCTCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:53966357 original size:18 final size:18
Alignment explanation
Indices: 53966336--53966373 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
53966326 TTTTTCTAAG
*
53966336 TTAGTTTATTTTTATTAT
1 TTAGTTTACTTTTATTAT
53966354 TTAGTTTACTTTTATTAT
1 TTAGTTTACTTTTATTAT
53966372 TT
1 TT
53966374 TTATATTCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (18 bp):
TTAGTTTACTTTTATTAT
Found at i:53966388 original size:27 final size:27
Alignment explanation
Indices: 53966341--53966393 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
53966331 CTAAGTTAGT
*
53966341 TTATTTTTATTATTTAGTTTACTTTTA
1 TTATTTTTATTATTTAGTTTAATTTTA
53966368 TTATTTTTA-TATTCT-GATTTAATTTT
1 TTATTTTTATTATT-TAG-TTTAATTTT
53966394 GGGTTTTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.70
Consensus pattern (27 bp):
TTATTTTTATTATTTAGTTTAATTTTA
Found at i:53974170 original size:161 final size:161
Alignment explanation
Indices: 53973960--53974284 Score: 555
Period size: 161 Copynumber: 2.0 Consensus size: 161
53973950 TCTAGTTAAT
* * *
53973960 TGATTTAATATATGTGAATTACTTCGGTTGTTCATATAACGATAAGTGTTGCAAATACTTATGAA
1 TGATTTAATAAATGTGAATTACTTCGATTATTCATATAACGATAAGTGTTGCAAATACTTATGAA
*
53974025 TATATGAAATTGAGAAAATATTATTAGTAATG-TTTTTCTTGGATTTGTATTAAAGTTATAT-TC
66 TATATGAAATTGAGAAAAGATTATTAGTAATGTTTTTTCTTGGATTTGTATTAAAGTTATATGT-
53974088 GAATGAGATGAATTTATGTATGTATACAAAAA
130 GAATGAGATGAATTTATGTATGTATACAAAAA
* *
53974120 TGATTTATATAAATGTGAATTACTTCGATTATTTATATAACGATAAGTGTTGCAAATACTTATGT
1 TGATTTA-ATAAATGTGAATTACTTCGATTATTCATATAACGATAAGTGTTGCAAATACTTATGA
*
53974185 ATATATGAAATTGAGAAAAGATTATTGGTAATGTTTTTTCTTGGATTTGTATTAAAGTTATATGT
65 ATATATGAAATTGAGAAAAGATTATTAGTAATGTTTTTTCTTGGATTTGTATTAAAGTTATATGT
53974250 GAATGAGATGAATTTATGTATGTATACAAAAA
130 GAATGAGATGAATTTATGTATGTATACAAAAA
53974282 TGA
1 TGA
53974285 AACAGTGCCC
Statistics
Matches: 155, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
160 7 0.05
161 83 0.54
162 64 0.41
163 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.42
Consensus pattern (161 bp):
TGATTTAATAAATGTGAATTACTTCGATTATTCATATAACGATAAGTGTTGCAAATACTTATGAA
TATATGAAATTGAGAAAAGATTATTAGTAATGTTTTTTCTTGGATTTGTATTAAAGTTATATGTG
AATGAGATGAATTTATGTATGTATACAAAAA
Found at i:53974312 original size:20 final size:20
Alignment explanation
Indices: 53974287--53974434 Score: 100
Period size: 20 Copynumber: 7.4 Consensus size: 20
53974277 AAAAATGAAA
*
53974287 CAGTGCCCCTGTTTGCACAT
1 CAGTGCCCTTGTTTGCACAT
* *
53974307 CAGTGCCCTTGTTTGTACTT
1 CAGTGCCCTTGTTTGCACAT
* * *
53974327 C-GATACCCCTATTTGCACAT
1 CAG-TGCCCTTGTTTGCACAT
* * *
53974347 CAGTGCCCTTGATTGTACTT
1 CAGTGCCCTTGTTTGCACAT
* * *
53974367 CGGTACCCTTATTTGCACAT
1 CAGTGCCCTTGTTTGCACAT
* * *
53974387 CAGTGCCATTGTTTGTACTT
1 CAGTGCCCTTGTTTGCACAT
** * * *
53974407 TGGTACCCTTGATTGCATAT
1 CAGTGCCCTTGTTTGCACAT
53974427 CAGTGCCC
1 CAGTGCCC
53974435 CTGATTATAC
Statistics
Matches: 89, Mismatches: 37, Indels: 4
0.68 0.28 0.03
Matches are distributed among these distances:
19 1 0.01
20 87 0.98
21 1 0.01
ACGTcount: A:0.17, C:0.28, G:0.18, T:0.36
Consensus pattern (20 bp):
CAGTGCCCTTGTTTGCACAT
Found at i:53974347 original size:40 final size:40
Alignment explanation
Indices: 53974292--53974456 Score: 215
Period size: 40 Copynumber: 4.1 Consensus size: 40
53974282 TGAAACAGTG
* * *
53974292 CCCCTGTTTGCACATCAGTGCCCTTGTTTGTACTTCGATA
1 CCCCTATTTGCACATCAGTGCCCTTGATTGTACTTCGGTA
53974332 CCCCTATTTGCACATCAGTGCCCTTGATTGTACTTCGGTA
1 CCCCTATTTGCACATCAGTGCCCTTGATTGTACTTCGGTA
* * * *
53974372 CCCTTATTTGCACATCAGTGCCATTGTTTGTACTTTGGTA
1 CCCCTATTTGCACATCAGTGCCCTTGATTGTACTTCGGTA
* * * *
53974412 CCCTTGA-TTGCATATCAGTGCCCCTGATTATACTTCGGTA
1 CCCCT-ATTTGCACATCAGTGCCCTTGATTGTACTTCGGTA
53974452 CCCCT
1 CCCCT
53974457 GAATGCACAT
Statistics
Matches: 110, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 109 0.99
41 1 0.01
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (40 bp):
CCCCTATTTGCACATCAGTGCCCTTGATTGTACTTCGGTA
Found at i:53974487 original size:80 final size:80
Alignment explanation
Indices: 53974300--53974499 Score: 192
Period size: 80 Copynumber: 2.5 Consensus size: 80
53974290 TGCCCCTGTT
* * * * * *
53974300 TGCACATCAGTGCC-CTTGTTTGTACTTCGATACCCCT-ATTTGCACATCAGTGCCCTTGATTGT
1 TGCACATCAGTGCCAC-TATTTGCACTTTGGTACCCCTGA-TTGCACATCAGTGCCCCTGATTAT
* *
53974363 ACTTCGGTACCCTTATT
64 ACTTCGGTACCCTGATA
* * * * *
53974380 TGCACATCAGTGCCATTGTTTGTACTTTGGTACCCTTGATTGCATATCAGTGCCCCTGATTATAC
1 TGCACATCAGTGCCACTATTTGCACTTTGGTACCCCTGATTGCACATCAGTGCCCCTGATTATAC
53974445 TTCGGTACCCCTGA-A
66 TTCGGTA-CCCTGATA
* * *
53974460 TGCACATCTGTTTCC-CTATTTGCACTTTGGTGCCCCTGAT
1 TGCACATCAG-TGCCACTATTTGCACTTTGGTACCCCTGAT
53974500 CACACATTTA
Statistics
Matches: 100, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
80 91 0.91
81 9 0.09
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.37
Consensus pattern (80 bp):
TGCACATCAGTGCCACTATTTGCACTTTGGTACCCCTGATTGCACATCAGTGCCCCTGATTATAC
TTCGGTACCCTGATA
Found at i:53974533 original size:20 final size:20
Alignment explanation
Indices: 53974479--53974534 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
53974469 GTTTCCCTAT
*
53974479 TTGCACTTTGGTGCCCCTGA
1 TTGCACTTTGGTGCTCCTGA
** * *
53974499 TCACACATTT-ATGCTCTTGA
1 TTGCAC-TTTGGTGCTCCTGA
53974519 TTGCACTTTGGTGCTC
1 TTGCACTTTGGTGCTC
53974535 GTGTTATGCA
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
19 3 0.12
20 20 0.77
21 3 0.12
ACGTcount: A:0.14, C:0.27, G:0.20, T:0.39
Consensus pattern (20 bp):
TTGCACTTTGGTGCTCCTGA
Found at i:53975996 original size:20 final size:22
Alignment explanation
Indices: 53975971--53976010 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
53975961 GGTATAGAAA
53975971 TTTGGT-TATTTT-ATGCATGT
1 TTTGGTATATTTTAATGCATGT
*
53975991 TTTGGTATGTTTTAATGCAT
1 TTTGGTATATTTTAATGCAT
53976011 TGGTCATGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 5 0.29
22 6 0.35
ACGTcount: A:0.17, C:0.05, G:0.20, T:0.57
Consensus pattern (22 bp):
TTTGGTATATTTTAATGCATGT
Found at i:53976150 original size:43 final size:43
Alignment explanation
Indices: 53976103--53976193 Score: 155
Period size: 43 Copynumber: 2.1 Consensus size: 43
53976093 CACAGCTTAA
*
53976103 GACACGGATGTGTGCCTCAACCGTGTATGACACACGACTATGT
1 GACACGGACGTGTGCCTCAACCGTGTATGACACACGACTATGT
* *
53976146 GACACGGGCGTGTGCCTCAGCCGTGTATGACACACGACTATGT
1 GACACGGACGTGTGCCTCAACCGTGTATGACACACGACTATGT
53976189 GACAC
1 GACAC
53976194 TATCGTGTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.21
Consensus pattern (43 bp):
GACACGGACGTGTGCCTCAACCGTGTATGACACACGACTATGT
Found at i:53976201 original size:43 final size:43
Alignment explanation
Indices: 53976112--53976207 Score: 147
Period size: 43 Copynumber: 2.2 Consensus size: 43
53976102 AGACACGGAT
*
53976112 GTGTGCCTCAACCGTGTATGACACACGACTATGTGACACGGGC
1 GTGTGCCTCAACCGTGTATGACACACGACTATGTGACACGAGC
* * *
53976155 GTGTGCCTCAGCCGTGTATGACACACGACTATGTGACACTATC
1 GTGTGCCTCAACCGTGTATGACACACGACTATGTGACACGAGC
53976198 GTGTGTCCTC
1 GTGTG-CCTC
53976208 TCTAGGTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
43 44 0.92
44 4 0.08
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (43 bp):
GTGTGCCTCAACCGTGTATGACACACGACTATGTGACACGAGC
Found at i:53985233 original size:22 final size:22
Alignment explanation
Indices: 53985207--53985250 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
53985197 GAAAATGATC
*
53985207 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTCATTAT
* *
53985229 AAAATTATTTAAAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
53985251 GCTAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:53987296 original size:43 final size:42
Alignment explanation
Indices: 53987235--53987399 Score: 131
Period size: 43 Copynumber: 3.9 Consensus size: 42
53987225 CAATGCCATA
* **
53987235 TCCCAGATATGGTCTTACATGTTATCACATATCGATGTCTTTG
1 TCCCAGACATGGTCTTACATGAAATCACATATCGATG-CTTTG
* **
53987278 TCCCAGACAGGGTCTTACATGAAATCGA-ATAAT-GATGCCAATG
1 TCCCAGACATGGTCTTACATGAAATC-ACAT-ATCGATG-CTTTG
* * * *
53987321 TCCCAAACATGGTCTTACA-CATATTCACA-ATACAATGCTATTG
1 TCCCAGACATGGTCTTACATGA-AATCACATAT-CGATGCT-TTG
* *
53987364 TCCCAGACATGGTCTTACATGTAATCACATCTCGAT
1 TCCCAGACATGGTCTTACATGAAATCACATATCGAT
53987400 AACCTAATGT
Statistics
Matches: 93, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
41 2 0.02
42 3 0.03
43 84 0.90
44 4 0.04
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACATGAAATCACATATCGATGCTTTG
Found at i:53990190 original size:2 final size:2
Alignment explanation
Indices: 53990183--53990208 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
53990173 CGGCTCTAGC
53990183 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
53990209 GTTTGCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53991018 original size:40 final size:40
Alignment explanation
Indices: 53990923--53991095 Score: 177
Period size: 40 Copynumber: 4.3 Consensus size: 40
53990913 ATATCCGAGC
* * *
53990923 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGT
* * * * *
53990964 CAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACTGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
* *
53991004 TAAGTCCCGAAGGCATTTATGCGAGTTACTAAATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
* * * * *
53991044 TAATTCCCGAAGGCAATTGTGCGAATCACTATAA-CCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGT
*
53991084 TATGTCCCGAAG
1 TAAGTCCCGAAG
53991096 ACAATCGAGC
Statistics
Matches: 109, Mismatches: 22, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
40 88 0.81
41 21 0.19
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
Found at i:53991091 original size:80 final size:81
Alignment explanation
Indices: 53990921--53991095 Score: 219
Period size: 80 Copynumber: 2.2 Consensus size: 81
53990911 TGATATCCGA
* * *
53990921 GCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGC
1 GCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGC
* * *
53990986 GAGTTACCAAAACTGG
66 GAATCACCAAAACCGG
* * *
53991002 GTTAAGTCCCGAAGGCATTTATGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTG
1 GCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTG
* *
53991065 CGAATCACTATAACCGG
65 CGAATCACCAAAACCGG
*
53991082 GCTATGTCCCGAAG
1 GCTAAGTCCCGAAG
53991096 ACAATCGAGC
Statistics
Matches: 80, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.01
80 58 0.73
81 21 0.26
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (81 bp):
GCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGC
GAATCACCAAAACCGG
Found at i:53991108 original size:80 final size:80
Alignment explanation
Indices: 53990951--53991135 Score: 187
Period size: 80 Copynumber: 2.3 Consensus size: 80
53990941 GTGCTAAGTG
* * * * *
53990951 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACTGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
* **
53991016 GCATTTATGCGAGTT
66 ACATCGATGCGAGTT
* * *
53991031 ACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAA
*
53991095 GACAATCGA-GCGAGTC
65 GAC-ATCGATGCGAGTT
* * * *
53991111 GCTATATCCGGTTAAATT-CCGAAGG
1 ACTAAATCCGGGTCAATTCCCGAAGG
53991136 TACGTGATTC
Statistics
Matches: 86, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
79 8 0.09
80 75 0.87
81 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (80 bp):
ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACATCGATGCGAGTT
Found at i:53991116 original size:40 final size:40
Alignment explanation
Indices: 53991038--53991121 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
53991028 GTTACTAAAT
* * *
53991038 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
53991078 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
53991118 CCGG
1 CCGG
53991122 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:53994128 original size:71 final size:71
Alignment explanation
Indices: 53994040--53994203 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
53994030 GAGATGTATC
53994040 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
53994105 AGGACA
66 AGGACA
*
53994111 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
53994176 CGGACA
66 AGGACA
53994182 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
53994204 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Done.