Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 184 of 213
Found at i:55438608 original size:20 final size:20
Alignment explanation
Indices: 55438583--55438637 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
55438573 TGTGGTTCAA
*
55438583 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
55438603 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
55438623 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
55438638 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:55443729 original size:32 final size:31
Alignment explanation
Indices: 55443673--55443733 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 31
55443663 TAGAGAAAAT
55443673 AGAAAGACTTGGATTTAAGTGAAAAAAATGA
1 AGAAAGACTTGGATTTAAGTGAAAAAAATGA
55443704 AGAAAGA-TCTGGTATTTATAG-GAAAAAAAT
1 AGAAAGACT-TGG-ATTTA-AGTGAAAAAAAT
55443734 TACAATTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 1 0.04
31 10 0.37
32 14 0.52
33 2 0.07
ACGTcount: A:0.51, C:0.03, G:0.21, T:0.25
Consensus pattern (31 bp):
AGAAAGACTTGGATTTAAGTGAAAAAAATGA
Found at i:55445690 original size:18 final size:18
Alignment explanation
Indices: 55445667--55445703 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
55445657 GAGGAGGAGC
55445667 AAGCGGA-GATGGCGAAGA
1 AAGCGGAGGA-GGCGAAGA
55445685 AAGCGGAGGAGGCGAAGA
1 AAGCGGAGGAGGCGAAGA
55445703 A
1 A
55445704 GAGACAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.41, C:0.11, G:0.46, T:0.03
Consensus pattern (18 bp):
AAGCGGAGGAGGCGAAGA
Found at i:55455188 original size:15 final size:15
Alignment explanation
Indices: 55455146--55455191 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
55455136 GTTTAATTTT
55455146 ATTTAAAAT-AA-AA
1 ATTTAAAATAAATAA
* *
55455159 ACTTAAAAAATAATAA
1 ATTTAAAATA-AATAA
55455175 ATTTAAAATAAATAA
1 ATTTAAAATAAATAA
55455190 AT
1 AT
55455192 ATAAGCAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.27
15 9 0.35
16 10 0.38
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTTAAAATAAATAA
Found at i:55459201 original size:24 final size:24
Alignment explanation
Indices: 55459155--55459201 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
55459145 AAATGTTAAA
* *
55459155 TTAAAAATAATATAAATATATATT
1 TTAAAAAAAATAAAAATATATATT
55459179 TTAAAAAAAATTAAAAATA-ATAT
1 TTAAAAAAAA-TAAAAATATATAT
55459202 GGACGGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
TTAAAAAAAATAAAAATATATATT
Found at i:55461030 original size:25 final size:25
Alignment explanation
Indices: 55461001--55461055 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
55460991 TGTAAACAGT
*
55461001 AAGCTCTTCCAAGCTGAATAACGAG
1 AAGCTCATCCAAGCTGAATAACGAG
* * *
55461026 AAGCTCATGCGAGCTGAATATCGAG
1 AAGCTCATCCAAGCTGAATAACGAG
55461051 AAGCT
1 AAGCT
55461056 TATAAGAGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (25 bp):
AAGCTCATCCAAGCTGAATAACGAG
Found at i:55461064 original size:25 final size:25
Alignment explanation
Indices: 55461012--55461066 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
55461002 AGCTCTTCCA
**
55461012 AGCTGAATAACGAGAAGCTCATGCG
1 AGCTGAATAACGAGAAGCTCATAAG
* *
55461037 AGCTGAATATCGAGAAGCTTATAAG
1 AGCTGAATAACGAGAAGCTCATAAG
55461062 AGCTG
1 AGCTG
55461067 TTGTGTGTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.20
Consensus pattern (25 bp):
AGCTGAATAACGAGAAGCTCATAAG
Found at i:55463484 original size:12 final size:11
Alignment explanation
Indices: 55463462--55463534 Score: 64
Period size: 12 Copynumber: 6.6 Consensus size: 11
55463452 ACCCTTTTAA
*
55463462 TATATAAAAAT
1 TATAAAAAAAT
55463473 TATTAAAAAAAT
1 TA-TAAAAAAAT
*
55463485 CAT---AAAAT
1 TATAAAAAAAT
55463493 TATAAACAAAATT
1 TATAAA-AAAA-T
55463506 TATAAAAAAAGT
1 TATAAAAAAA-T
55463518 TATAAAAAAAT
1 TATAAAAAAAT
55463529 T-TAAAA
1 TATAAAA
55463535 CTATAAACTT
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
8 7 0.13
10 5 0.10
11 5 0.10
12 28 0.54
13 7 0.13
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
TATAAAAAAAT
Found at i:55463491 original size:21 final size:22
Alignment explanation
Indices: 55463465--55463513 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 22
55463455 CTTTTAATAT
55463465 ATAAAAATTATTAAA-AAAA-TC
1 ATAAAAATTA-TAAACAAAATTC
*
55463486 AT-AAAATTATAAACAAAATTT
1 ATAAAAATTATAAACAAAATTC
55463507 ATAAAAA
1 ATAAAAA
55463514 AAGTTATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 11 0.46
21 5 0.21
22 4 0.17
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (22 bp):
ATAAAAATTATAAACAAAATTC
Found at i:55474002 original size:15 final size:15
Alignment explanation
Indices: 55473984--55474016 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
55473974 TTGTACAATT
55473984 TTAATT-TGATAAATA
1 TTAATTATGAT-AATA
55473999 TTAATTATGATAATA
1 TTAATTATGATAATA
55474014 TTA
1 TTA
55474017 TTCATTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
TTAATTATGATAATA
Found at i:55480423 original size:60 final size:61
Alignment explanation
Indices: 55480341--55480471 Score: 201
Period size: 60 Copynumber: 2.2 Consensus size: 61
55480331 AACAAAGCAA
* ** * *
55480341 AGCAGCAAGGGTTACAGAGAGACGTGAAGAGGCAGTAAAGTAGTTGCC-AGAAAAAATAAT
1 AGCAGCAAGGGTTACAAAGAGACGTGAAGAGGCAACAAAGCAGTTGCCAAAAAAAAATAAT
*
55480401 AGCAGCAAGGGTTGCAAAGAGACGTGAAGAGGCAACAAAGCAGTTGCCAAAAAAAAATAAT
1 AGCAGCAAGGGTTACAAAGAGACGTGAAGAGGCAACAAAGCAGTTGCCAAAAAAAAATAAT
55480462 AGCAGCAAGG
1 AGCAGCAAGG
55480472 CAGAGACGTG
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
60 43 0.67
61 21 0.33
ACGTcount: A:0.45, C:0.14, G:0.29, T:0.12
Consensus pattern (61 bp):
AGCAGCAAGGGTTACAAAGAGACGTGAAGAGGCAACAAAGCAGTTGCCAAAAAAAAATAAT
Found at i:55480724 original size:60 final size:60
Alignment explanation
Indices: 55480645--55480789 Score: 168
Period size: 60 Copynumber: 2.4 Consensus size: 60
55480635 GCAAATTAGT
* * * ** *
55480645 AGGGGTTACAGAGAAATGTGAAGAGATAGCTAAGTA-GTTGTCGAAAAAAA-TAATAGCAGC
1 AGGGGTTGCAGAGAGATGTGAAGAGACAGC-AACAAGGTTG-CCAAAAAAAGTAATAGCAGC
* *
55480705 AGGGGTTGCAGAGAGATGTGAAGAGGCAGCAACAAGGTTGCCAAAAAAAGTAATAGCAGT
1 AGGGGTTGCAGAGAGATGTGAAGAGACAGCAACAAGGTTGCCAAAAAAAGTAATAGCAGC
* *
55480765 AGGGGTTGCAAAGAGACGTGAAGAG
1 AGGGGTTGCAGAGAGATGTGAAGAG
55480790 GCAACAAAGC
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 11 0.15
60 62 0.85
ACGTcount: A:0.41, C:0.10, G:0.33, T:0.17
Consensus pattern (60 bp):
AGGGGTTGCAGAGAGATGTGAAGAGACAGCAACAAGGTTGCCAAAAAAAGTAATAGCAGC
Found at i:55480805 original size:60 final size:59
Alignment explanation
Indices: 55480688--55480874 Score: 179
Period size: 60 Copynumber: 3.4 Consensus size: 59
55480678 GTAGTTGTCG
* * *
55480688 AAAAAAATAATAGCAGCAGGGGTTGCAGAGAGATGTGAAGAGGCAGCAACAAGGTTGCC
1 AAAAAAATAATAGCAGCAGGGGTTGCAAAGAGACGTGAAGAGGCAACAACAAGGTTGCC
*
55480747 AAAAAAAGTAATAGCAGTAGGGGTTGCAAAGAGACGTGAAGAGGCAAC-A-AAGCAGTTGCC
1 AAAAAAA-TAATAGCAGCAGGGGTTGCAAAGAGACGTGAAGAGGCAACAACAAG--GTTGCC
* *
55480807 --GAAAA-AATAGCAGCA-GGG-T----AGAGACGTG-A-A-GCAACAA-AACAGTTGCC
1 AAAAAAATAATAGCAGCAGGGGTTGCAAAGAGACGTGAAGAGGCAACAACAA-GGTTGCC
55480854 AAAAAAATAATAGCAGCAGGG
1 AAAAAAATAATAGCAGCAGGG
55480875 TAGAGACGTG
Statistics
Matches: 111, Mismatches: 8, Indels: 26
0.77 0.06 0.18
Matches are distributed among these distances:
47 11 0.10
48 4 0.04
49 5 0.05
50 19 0.17
51 2 0.02
54 1 0.01
55 3 0.03
56 9 0.08
58 7 0.06
59 8 0.07
60 42 0.38
ACGTcount: A:0.44, C:0.14, G:0.29, T:0.12
Consensus pattern (59 bp):
AAAAAAATAATAGCAGCAGGGGTTGCAAAGAGACGTGAAGAGGCAACAACAAGGTTGCC
Found at i:55480850 original size:47 final size:49
Alignment explanation
Indices: 55480776--55480887 Score: 156
Period size: 50 Copynumber: 2.2 Consensus size: 49
55480766 GGGGTTGCAA
* *
55480776 AGAGACGTGAAGAGGCAACAAAGCAGTTGCC-GAAAA-AATAGCAGCAGGGT
1 AGAGACGTG-A-A-GCAACAAAACAGTTGCCAAAAAATAATAGCAGCAGGGT
55480826 AGAGACGTGAAGCAACAAAACAGTTGCCAAAAAAATAATAGCAGCAGGGT
1 AGAGACGTGAAGCAACAAAACAGTTGCC-AAAAAATAATAGCAGCAGGGT
55480876 AGAGACGTGAAG
1 AGAGACGTGAAG
55480888 ATAGAATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
47 16 0.28
48 1 0.02
49 5 0.09
50 35 0.61
ACGTcount: A:0.45, C:0.15, G:0.29, T:0.11
Consensus pattern (49 bp):
AGAGACGTGAAGCAACAAAACAGTTGCCAAAAAATAATAGCAGCAGGGT
Found at i:55484481 original size:58 final size:58
Alignment explanation
Indices: 55484378--55484546 Score: 194
Period size: 58 Copynumber: 2.9 Consensus size: 58
55484368 TGAATCCGCA
* * * * * * * * *
55484378 AGTTGTTTTAAATTTAGGCTTATTTTCTGATATAATCAACAGAGAATATAAATCCTTG
1 AGTTGTTTTGAACTTAGGCATATTTTCTGAAATACTCAGCTGAGAATGTAAATCCTCG
* * *
55484436 AGTTGTTTTGAAGTTAGGCATATTTTCTGAAACACTCAGCTGAGAATGTGAATCCTCG
1 AGTTGTTTTGAACTTAGGCATATTTTCTGAAATACTCAGCTGAGAATGTAAATCCTCG
* * * *
55484494 AGCTATTTTGAACTTAGGCATATTTTCTGAGATACTCAGCTGGGAATGTAAAT
1 AGTTGTTTTGAACTTAGGCATATTTTCTGAAATACTCAGCTGAGAATGTAAAT
55484547 TCGAGAGCTA
Statistics
Matches: 93, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 93 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (58 bp):
AGTTGTTTTGAACTTAGGCATATTTTCTGAAATACTCAGCTGAGAATGTAAATCCTCG
Found at i:55484671 original size:70 final size:70
Alignment explanation
Indices: 55484577--55484754 Score: 198
Period size: 70 Copynumber: 2.5 Consensus size: 70
55484567 ACGATAAACT
* * ** * * *
55484577 TGCGAGCCTTAAAAAAACAACTAGGAGCTTTTGGCTCTCGT-TAACTATTTGGGTGG-TGTGGTA
1 TGCGAGCCTTAAAATAACAGCTAGGAGCTTTTAACTCT-GTCTAACTATTT-GATGGCTATGATA
55484640 TTGAACC
64 TTGAACC
* *
55484647 TGCGAGCCTTAAAATAAGAGCTAGGAGCTTTTAACTCTTTCTAACTATTTGATGGCTATGATATT
1 TGCGAGCCTTAAAATAACAGCTAGGAGCTTTTAACTCTGTCTAACTATTTGATGGCTATGATATT
55484712 GAACC
66 GAACC
* * * * *
55484717 TACAAGCATTAGAATGACAGCTAGGAGCTTTTAACTCT
1 TGCGAGCCTTAAAATAACAGCTAGGAGCTTTTAACTCT
55484755 CGCTAATTGT
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
69 5 0.05
70 86 0.95
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (70 bp):
TGCGAGCCTTAAAATAACAGCTAGGAGCTTTTAACTCTGTCTAACTATTTGATGGCTATGATATT
GAACC
Found at i:55484782 original size:70 final size:70
Alignment explanation
Indices: 55484597--55485045 Score: 308
Period size: 70 Copynumber: 6.5 Consensus size: 70
55484587 AAAAAAACAA
** * * * ** *
55484597 CTAGGAGCTTTTGGCTCTCGTTAACTATTTGGGTGGTGTGGTATTGAACCTGCGAGCC-TTAAAA
1 CTAGGAGCTTTTAACTCTCGCTAACTGTTTGGG-GCTACGGTATTGAACCTGCGAGCCATTAGAA
* *
55484661 TAAGAG
65 TGACAG
** * * * * * *
55484667 CTAGGAGCTTTTAACTCTTTCTAACTATTTGATGGCTATGATATTGAACCTACAAG-CATTAGAA
1 CTAGGAGCTTTTAACTCTCGCTAACTGTTTG-GGGCTACGGTATTGAACCTGCGAGCCATTAGAA
55484731 TGACAG
65 TGACAG
* * * *
55484737 CTAGGAGCTTTTAACTCTCGCTAATTGTTAGGGGACTACGGTATTGAGCATGCGAGCCA-TAGAA
1 CTAGGAGCTTTTAACTCTCGCTAACTGTTTGGGG-CTACGGTATTGAACCTGCGAGCCATTAGAA
55484801 TGATC-G
65 TGA-CAG
* * * * * * *
55484807 TTAAGAGCTTTTAACTCTCGCTAACTATTTGGGGCTTGCAGTATTGAGCCTGCGAGTC-TTAGAA
1 CTAGGAGCTTTTAACTCTCGCTAACTGTTTGGGGC-TACGGTATTGAACCTGCGAGCCATTAGAA
*
55484871 TGATAG
65 TGACAG
* * **
55484877 CT-GAGAACTTTTAACTCTCGCTAACTGTTTGCGGGCT---GCATTGAACCTATGAGCC-TTAGA
1 CTAG-GAGCTTTTAACTCTCGCTAACTGTTTG-GGGCTACGGTATTGAACCTGCGAGCCATTAGA
* *
55484937 ATGATAT
64 ATGACAG
* * * * * * * * * **
55484944 CTAGGAGTTTTTAACTCTCACTAAATATTTAGGGGATGCGGTATTAAACTTGTGAGCCAAAAG-A
1 CTAGGAGCTTTTAACTCTCGCTAACTGTTT-GGGGCTACGGTATTGAACCTGCGAGCCATTAGAA
*
55485008 TGACAA
65 TGACAG
*
55485014 CTGGGAGCTTTTAACTCTCGCTAACTGTTTGG
1 CTAGGAGCTTTTAACTCTCGCTAACTGTTTGG
55485046 ATTTTCGATG
Statistics
Matches: 298, Mismatches: 65, Indels: 33
0.75 0.16 0.08
Matches are distributed among these distances:
67 51 0.17
68 2 0.01
69 6 0.02
70 229 0.77
71 10 0.03
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.33
Consensus pattern (70 bp):
CTAGGAGCTTTTAACTCTCGCTAACTGTTTGGGGCTACGGTATTGAACCTGCGAGCCATTAGAAT
GACAG
Found at i:55490052 original size:43 final size:43
Alignment explanation
Indices: 55489946--55490137 Score: 171
Period size: 43 Copynumber: 4.5 Consensus size: 43
55489936 AAATTCCTCG
* * * *
55489946 AGGGGTTGCTAAGTGCTGATTCC-CTGGAT-TATTGATTCT-AA
1 AGGGGTTGCTAAGTGCTGATTCCACCGTATAT-TTGAATGTGAA
* *
55489987 AGATGGTTGCTAAGTGCTGATTCCACCGTATATTTGACTGTGAA
1 AG-GGGTTGCTAAGTGCTGATTCCACCGTATATTTGAATGTGAA
* * * *
55490031 AGGGGTTGCTATGTGCTGATTCC-CCGTATCA-CTAAATAT-AA
1 AGGGGTTGCTAAGTGCTGATTCCACCGTAT-ATTTGAATGTGAA
* * *
55490072 ACGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAA
1 A-GGGGTTGCTAAGTGCTGATTCCACCGTATATTTGAATGTGAA
* *
55490116 AGGGGTTGCTATGTACTGATTC
1 AGGGGTTGCTAAGTGCTGATTC
55490138 TCAGTATCAC
Statistics
Matches: 121, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
41 5 0.04
42 50 0.41
43 58 0.48
44 8 0.07
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.35
Consensus pattern (43 bp):
AGGGGTTGCTAAGTGCTGATTCCACCGTATATTTGAATGTGAA
Found at i:55490089 original size:85 final size:83
Alignment explanation
Indices: 55489946--55490183 Score: 287
Period size: 85 Copynumber: 2.8 Consensus size: 83
55489936 AAATTCCTCG
* * * * * *
55489946 AGGGGTTGCTAAGTGCTGATTCCCTGGATTATTGATTCTAAAGATGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCAGTATCACTGAAT-TAAAG-TGGTTGCTAAGTGCTGATTCC
55490011 ACCGTATATTTGACTGTGAA
64 ACCGTATATTTGACTGTGAA
* *
55490031 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTAAATATAAACGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCAGTATCACTGAAT-TAAA-GTGGTTGCTAAGTGCTGATTCC
* *
55490096 ACCGTATCTTTGATTGTGAA
64 ACCGTATATTTGACTGTGAA
* * * * * *
55490116 AGGGGTTGCTATGTACTGATTCTCAGTATCACTGAATTTAAGGTGGTCGCTAAGTGTTGAATCCA
1 AGGGGTTGCTATGTGCTGATTCCCAGTATCACTGAA-TTAAAGTGGTTGCTAAGTGCTGATTCCA
55490181 CCG
65 CCG
55490184 AGTAACGGAT
Statistics
Matches: 133, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
84 23 0.17
85 108 0.81
86 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (83 bp):
AGGGGTTGCTATGTGCTGATTCCCAGTATCACTGAATTAAAGTGGTTGCTAAGTGCTGATTCCAC
CGTATATTTGACTGTGAA
Found at i:55493353 original size:51 final size:50
Alignment explanation
Indices: 55493223--55493405 Score: 190
Period size: 51 Copynumber: 3.6 Consensus size: 50
55493213 AAAGTGATGG
* *
55493223 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAATGATAGA
* * * * *
55493273 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GAATAGTTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAAT-G-ATAGA
* * * * *
55493324 TTACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGGTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAATGAT-A-GA
* *
55493375 TCACATGTATAGTACTATGTGCAGGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
55493406 TATGAACCAA
Statistics
Matches: 109, Mismatches: 19, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
49 5 0.05
50 37 0.34
51 66 0.61
52 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAATGATAGA
Found at i:55493467 original size:45 final size:45
Alignment explanation
Indices: 55493416--55493502 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
55493406 TATGAACCAA
* *
55493416 ACATCATTAATTAGTAAGGTGGTTGCTATATGTTGATTCCACTGG
1 ACATCATTAATTAATAAGGTGGTTGCTATATGTTGAATCCACTGG
* *
55493461 ACATCATTGATTAATAAGGTGGTTGCTATGTGTTGAATCCAC
1 ACATCATTAATTAATAAGGTGGTTGCTATATGTTGAATCCAC
55493503 CGAGTATCTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.37
Consensus pattern (45 bp):
ACATCATTAATTAATAAGGTGGTTGCTATATGTTGAATCCACTGG
Found at i:55498323 original size:32 final size:31
Alignment explanation
Indices: 55498252--55498325 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 31
55498242 ATAAAACACC
* * *
55498252 ACAAAAAGTAGCACCAAAACAGCACCAAACA
1 ACAAAAAATAGCACCAAAAAAACACCAAACA
*
55498283 ACATAAAAATAGCA-CAAAAAAATACCAAACA
1 ACA-AAAAATAGCACCAAAAAAACACCAAACA
55498314 GTACAAAAAATA
1 --ACAAAAAATA
55498326 ACATCACCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 17 0.47
32 16 0.44
33 3 0.08
ACGTcount: A:0.64, C:0.22, G:0.07, T:0.08
Consensus pattern (31 bp):
ACAAAAAATAGCACCAAAAAAACACCAAACA
Found at i:55501637 original size:30 final size:30
Alignment explanation
Indices: 55501601--55501659 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
55501591 CCAGCTTAAG
55501601 TAAGTAAATAATAATAAAGAAAGACCGAGC
1 TAAGTAAATAATAATAAAGAAAGACCGAGC
55501631 TAAGTAAATAATAATAAAGAAAGACCGAG
1 TAAGTAAATAATAATAAAGAAAGACCGAG
55501660 AGTCCAAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.58, C:0.08, G:0.17, T:0.17
Consensus pattern (30 bp):
TAAGTAAATAATAATAAAGAAAGACCGAGC
Found at i:55501781 original size:9 final size:9
Alignment explanation
Indices: 55501767--55502011 Score: 262
Period size: 9 Copynumber: 27.6 Consensus size: 9
55501757 TGATAAAGTT
*
55501767 AAGAAGGAG
1 AAGAAGAAG
55501776 AAGAAGAAG
1 AAGAAGAAG
55501785 AAGAAGAAG
1 AAGAAGAAG
55501794 AAGAAGAAG
1 AAGAAGAAG
55501803 AAGAAGAAG
1 AAGAAGAAG
*
55501812 AAAAAGAAG
1 AAGAAGAAG
55501821 AAGAAGAAG
1 AAGAAGAAG
55501830 AAGAAGAAG
1 AAGAAGAAG
55501839 AAGAAGAAG
1 AAGAAGAAG
*
55501848 AAGAAAAAG
1 AAGAAGAAG
55501857 AAGAAGAAG
1 AAGAAGAAG
*
55501866 AAGAAAAAG
1 AAGAAGAAG
*
55501875 AAGAAGGAG
1 AAGAAGAAG
*
55501884 AAGGAGAAG
1 AAGAAGAAG
*
55501893 AAGAAAAAG
1 AAGAAGAAG
55501902 AAGAAGAA-
1 AAGAAGAAG
55501910 AA-AAG-AG
1 AAGAAGAAG
*
55501917 AAGGAGAAG
1 AAGAAGAAG
* * *
55501926 GAGGAGGAG
1 AAGAAGAAG
* * *
55501935 GAGGAGGAG
1 AAGAAGAAG
* *
55501944 GAGGAGAAG
1 AAGAAGAAG
* *
55501953 GAGAAGGAG
1 AAGAAGAAG
* *
55501962 AAGGAGAAA
1 AAGAAGAAG
*
55501971 AAGAAGAAA
1 AAGAAGAAG
*
55501980 AAGAAGAAA
1 AAGAAGAAG
*
55501989 AATAAGAAG
1 AAGAAGAAG
55501998 AAGAAGAAG
1 AAGAAGAAG
55502007 AAGAA
1 AAGAA
55502012 AAATTGAAAT
Statistics
Matches: 206, Mismatches: 27, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
6 1 0.00
7 5 0.02
8 4 0.02
9 196 0.95
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (9 bp):
AAGAAGAAG
Found at i:55501783 original size:6 final size:6
Alignment explanation
Indices: 55501767--55502011 Score: 262
Period size: 6 Copynumber: 41.3 Consensus size: 6
55501757 TGATAAAGTT
* *
55501767 AAGAAG GAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAA
1 AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG
*
55501815 AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAAAAG AAGAAG
1 AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG
* * * *
55501863 AAGAAG AAAAAG AAGAAG GAGAAG GAGAAG AAGAAA AAGAAG AAGAA-
1 AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG
* * * * * * * * * *
55501910 AA-AAG -AGAAG GAGAAG GAGGAG GAGGAG GAGGAG GAGGAG AAGGAG
1 AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG
* * * * * *
55501956 AAGGAG AAGGAG AAAAAG AAGAAA AAGAAG AAAAAT AAGAAG AAGAAG
1 AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG
55502004 AAGAAG AA
1 AAGAAG AA
55502012 AAATTGAAAT
Statistics
Matches: 213, Mismatches: 23, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
4 3 0.01
5 5 0.02
6 205 0.96
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (6 bp):
AAGAAG
Found at i:55505673 original size:23 final size:23
Alignment explanation
Indices: 55505647--55505714 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
55505637 ATGTGTGTAT
55505647 ATATAATAAAGGCGTATGAAAGC
1 ATATAATAAAGGCGTATGAAAGC
* * * *
55505670 ATAT-TTATA----TATGTAAGT
1 ATATAATAAAGGCGTATGAAAGC
55505688 ATATAATAAAGGCGTATGAAAGC
1 ATATAATAAAGGCGTATGAAAGC
55505711 ATAT
1 ATAT
55505715 TTATATACAT
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
18 11 0.34
19 3 0.09
22 3 0.09
23 15 0.47
ACGTcount: A:0.46, C:0.06, G:0.18, T:0.31
Consensus pattern (23 bp):
ATATAATAAAGGCGTATGAAAGC
Found at i:55505967 original size:3 final size:3
Alignment explanation
Indices: 55505959--55505990 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
55505949 AAAAAGGGAA
55505959 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
55505991 GCTAAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:55506909 original size:27 final size:26
Alignment explanation
Indices: 55506862--55506913 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
55506852 GTCAGAGGCG
*
55506862 GCGGTGGCAGGGCAAGTGGGCTAGGT
1 GCGGTGGCAGGGCAAGGGGGCTAGGT
**
55506888 GCGGTGGCTAGGGTTAGGGGGCTAGG
1 GCGGTGGC-AGGGCAAGGGGGCTAGG
55506914 GTTTTCTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.13, C:0.13, G:0.56, T:0.17
Consensus pattern (26 bp):
GCGGTGGCAGGGCAAGGGGGCTAGGT
Found at i:55507570 original size:43 final size:43
Alignment explanation
Indices: 55507439--55507574 Score: 107
Period size: 43 Copynumber: 3.2 Consensus size: 43
55507429 GTTCTTAGGA
* * *
55507439 AGGCAATATCTGCTTCTTTAACTAGCTCCACTGCAACCGATGA
1 AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
* *** * * * * * *
55507482 AGGCAAGACTTTG-TT-TTTGGTCTGCTTCGCTGTTAA-TGTAAGG
1 AGGCAAGA-TCTGCTTCTTTAACCAGCTCCACTG-CAACCG-ATGG
55507525 AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
1 AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
55507568 AGGCAAG
1 AGGCAAG
55507575 GCTTTGTTTT
Statistics
Matches: 64, Mismatches: 23, Indels: 12
0.65 0.23 0.12
Matches are distributed among these distances:
42 14 0.22
43 35 0.55
44 15 0.23
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (43 bp):
AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
Found at i:55507791 original size:88 final size:88
Alignment explanation
Indices: 55507435--55508067 Score: 630
Period size: 88 Copynumber: 7.3 Consensus size: 88
55507425 GCTAGTTCTT
* * * * * * *
55507435 AGGAAGGCAATATCTGCT-TCTTTAACTAGCTCCACTGCAACCGATGA-AGGCAAGACTTTGT-T
1 AGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGA-GAGAGGCAAG-GTTTGTGT
* ** *
55507497 -TTTGGTCTGCTTCGCTGTTAATGTA-
64 CTTCGACCTGCTTCGCTGTCAA--TAC
* * * *
55507522 AGG-AGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGCTTTGT-T
1 AGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGA-GAGAGGCAAGG-TTTGTGT
* * * *
55507583 -TTCGATCTGCTTCGTTGTTAATGC
64 CTTCGACCTGCTTCGCTGTCAATAC
* * * * * * *
55507607 AAGAAGGCAAGACCTGCT-TCTTTAACCATCTCCACTGCAACCGATG-GAGGCAAGGCTTTGT-T
1 AGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGA-GAGAGGCAAGG-TTTGTGT
* ** * * **
55507669 -TTTGGTCTGCTTCACTGTTAATGT
64 CTTCGACCTGCTTCGCTGTCAATAC
* * * * *
55507693 AGGAAGGCAAGACCTTTTGTCTTCAACCAGCTCC-ATCACAACTGAGAGAAGCAAGGTTTGTGTC
1 AGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCT-ACAACCGAGAGAGGCAAGGTTTGTGTC
55507757 TTCGACCTGCTTCGCTGTCAATAC
65 TTCGACCTGCTTCGCTGTCAATAC
*
55507781 AGGAAGGCAAGATCTGTTGTCTTCAACCAGGTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCT
1 AGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCT
*
55507846 TTGACCTGCTTCGCTGTCAATAC
66 TCGACCTGCTTCGCTGTCAATAC
** * *
55507869 AAAAAGACAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAAAGAGGCAAGGTTTGTGTCT
1 AGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCT
55507934 TCGACCTGCTTCGCTGTCAATAC
66 TCGACCTGCTTCGCTGTCAATAC
* * * *
55507957 AGGAAGGCAAGATCTATTGTCTTCAACCAGCTGCACCACAACCGAGAGAGGCAAGGTTTGTGTCT
1 AGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCT
* *
55508022 TCGATCTGCTTCGCTGTCAATTC
66 TCGACCTGCTTCGCTGTCAATAC
55508045 AGGAAGGCAAGATCTGTTGTCTT
1 AGGAAGGCAAGATCTGTTGTCTT
55508068 TATTGATCTG
Statistics
Matches: 481, Mismatches: 55, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
84 1 0.00
85 2 0.00
86 168 0.35
87 31 0.06
88 278 0.58
89 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (88 bp):
AGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCT
TCGACCTGCTTCGCTGTCAATAC
Found at i:55507833 original size:44 final size:44
Alignment explanation
Indices: 55507697--55508011 Score: 162
Period size: 44 Copynumber: 7.2 Consensus size: 44
55507687 TAATGTAGGA
* * * *
55507697 AGGCAAGACCTTTTGTCTTCAACCAGCTCC-ATCACAACTGAGAG
1 AGGCAAGATCTGTTGTCTTCAACCAGCTCCGCT-ACAACCGAGAG
* * * * * * * *
55507741 AAGCAAGGTTTG-TGTCTTCGACCTGCTTCGCTGTCAATAC-AG-G
1 AGGCAAGATCTGTTGTCTTCAACCAGCTCCGCT-ACAA-CCGAGAG
*
55507784 AAGGCAAGATCTGTTGTCTTCAACCAGGTCCGCTACAACCGAGAG
1 -AGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAG
* * ** * * * * * *
55507829 AGGCAAGGTTTG-TGTCTTTGACCTGCTTCGCTGTCAATAC-AAAA
1 AGGCAAGATCTGTTGTCTTCAACCAGCTCCGCT-ACAA-CCGAGAG
* *
55507873 AGACAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAAAG
1 AGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAG
* * * * * * *
55507917 AGGCAAGGTTTG-TGTCTTCGACCTGCTTCGCTGTCAATAC-AG-G
1 AGGCAAGATCTGTTGTCTTCAACCAGCTCCGCT-ACAA-CCGAGAG
* * * *
55507960 AAGGCAAGATCTATTGTCTTCAACCAGCTGCACCACAACCGAGAG
1 -AGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAG
55508005 AGGCAAG
1 AGGCAAG
55508012 GTTTGTGTCT
Statistics
Matches: 193, Mismatches: 62, Indels: 32
0.67 0.22 0.11
Matches are distributed among these distances:
43 51 0.26
44 91 0.47
45 51 0.26
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (44 bp):
AGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAG
Found at i:55508053 original size:44 final size:43
Alignment explanation
Indices: 55507743--55508055 Score: 190
Period size: 44 Copynumber: 7.1 Consensus size: 43
55507733 ACTGAGAGAA
55507743 GCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGGAAG
1 GCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAAT-CAGGAAG
* * * * * * * *
55507787 GCAAGATCTGTTGTCTTCAACCAGGTCCGCT-ACAA-CCGAGAGAG
1 GCAAGGTTTG-TGTCTTCGACCTGCTTCGCTGTCAATCAG-GA-AG
* **
55507831 GCAAGGTTTGTGTCTTTGACCTGCTTCGCTGTCAATACAAAAAG
1 GCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAAT-CAGGAAG
* * * * * * * * *
55507875 ACAAGATCTGTTGTCTTCAACCAGCTCCGCT-ACAA-CCGAAAGAG
1 GCAAGGTTTG-TGTCTTCGACCTGCTTCGCTGTCAATCAG-GA-AG
55507919 GCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGGAAG
1 GCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAAT-CAGGAAG
* * * * * ** *
55507963 GCAAGATCTAT-TGTCTTCAACCAGCTGCAC-CACAA-CCGAGAGAG
1 GCAAGGT-T-TGTGTCTTCGACCTGCTTCGCTGTCAATCAG-GA-AG
*
55508007 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATTCAGGAAG
1 GCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAA-TCAGGAAG
55508051 GCAAG
1 GCAAG
55508056 ATCTGTTGTC
Statistics
Matches: 194, Mismatches: 55, Indels: 40
0.67 0.19 0.14
Matches are distributed among these distances:
42 6 0.03
43 53 0.27
44 77 0.40
45 52 0.27
46 6 0.03
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (43 bp):
GCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATCAGGAAG
Found at i:55509338 original size:5 final size:5
Alignment explanation
Indices: 55509324--55509376 Score: 58
Period size: 5 Copynumber: 10.8 Consensus size: 5
55509314 GGCCTCTCCT
*
55509324 TTTTC TTTT- TCTTT- TTTTC TTCTTT TTTTC TTTTC TTTTC TTTTC TTTT-
1 TTTTC TTTTC T-TTTC TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC
55509373 TTTT
1 TTTT
55509377 TGAAATATTC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
4 8 0.19
5 31 0.72
6 4 0.09
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTTC
Found at i:55509377 original size:25 final size:25
Alignment explanation
Indices: 55509323--55509375 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 25
55509313 TGGCCTCTCC
55509323 TTTTTCTTTTTCTTTTTTTCTTCTT
1 TTTTTCTTTTTCTTTTTTTCTTCTT
*
55509348 TTTTTC-TTTTCTTTTCTT-TTCTT
1 TTTTTCTTTTTCTTTTTTTCTTCTT
55509371 TTTTT
1 TTTTT
55509376 TTGAAATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 10 0.37
24 11 0.41
25 6 0.22
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (25 bp):
TTTTTCTTTTTCTTTTTTTCTTCTT
Found at i:55510719 original size:13 final size:13
Alignment explanation
Indices: 55510701--55510726 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55510691 CCTGCATGAT
55510701 ATTCGCATTGTGC
1 ATTCGCATTGTGC
55510714 ATTCGCATTGTGC
1 ATTCGCATTGTGC
55510727 CATTTGGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (13 bp):
ATTCGCATTGTGC
Found at i:55514194 original size:21 final size:21
Alignment explanation
Indices: 55514169--55514208 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
55514159 ATGTGAATTA
* *
55514169 TAAAATATATATAATATATTT
1 TAAAATATAAAGAATATATTT
55514190 TAAAATATAAAGAATATAT
1 TAAAATATAAAGAATATAT
55514209 AAATATGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (21 bp):
TAAAATATAAAGAATATATTT
Found at i:55514370 original size:12 final size:12
Alignment explanation
Indices: 55514353--55514396 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
55514343 AAAGCATATT
55514353 TATATATGTAAG
1 TATATATGTAAG
* *
55514365 TATATATATATATT
1 TATATATGTA-A-G
55514379 TATATATGTAAG
1 TATATATGTAAG
55514391 TATATA
1 TATATA
55514397 ATAAAGGCGT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 15 0.58
13 2 0.08
14 9 0.35
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (12 bp):
TATATATGTAAG
Found at i:55514680 original size:15 final size:15
Alignment explanation
Indices: 55514662--55514692 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
55514652 GAAAAAAGGG
55514662 AAAATAAAAATAATA
1 AAAATAAAAATAATA
*
55514677 AAAATAATAATAATA
1 AAAATAAAAATAATA
55514692 A
1 A
55514693 GCTAAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATAAAAATAATA
Found at i:55516083 original size:24 final size:25
Alignment explanation
Indices: 55516027--55516085 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
55516017 GTCATGTAAT
* * * *
55516027 GGGAAGCTCTTACGAGCCAATTATC
1 GGGAAGCTCATACAAGCCAATAAAC
55516052 GGGAAGCTCATACAAGCC-ATAAAC
1 GGGAAGCTCATACAAGCCAATAAAC
55516076 GGGAAGCTCA
1 GGGAAGCTCA
55516086 AGAGAGCCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 14 0.47
25 16 0.53
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (25 bp):
GGGAAGCTCATACAAGCCAATAAAC
Found at i:55517289 original size:15 final size:15
Alignment explanation
Indices: 55517265--55517296 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
55517255 TATGCATGTA
*
55517265 AAATATAAAAGACAT
1 AAATACAAAAGACAT
55517280 AAATACAAAAGACAT
1 AAATACAAAAGACAT
55517295 AA
1 AA
55517297 TAGTTGAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:55521636 original size:114 final size:116
Alignment explanation
Indices: 55521300--55521922 Score: 490
Period size: 114 Copynumber: 5.5 Consensus size: 116
55521290 AATATCTGGC
* * * *
55521300 ATTAGCGGCGCTT-CAAGCAAAACGCCG-TAAAAG-AACA-TAATTAGCGGCGTTTTTG-GTTAT
1 ATTAGTGGCGCTTACAA-TAAAACGCCGCT-AAAGTAACAGT-ATTAGCGGCG-CTTTGAGTTAA
* * * ** *
55521360 GCGCCGCAAAATCT-CAAGACCAAAACGCATCGTCTTT-GTATTGATGTATACAATA
62 GCGCCGCAAGATATGCTA-ACCAAAACGCAGAGT-TTTGGTATTGATGTATACTATA
* ** * * * **
55521415 ATTAGTGGCGATTATGATAAAACGCCGCTAAAGT-A-AGTAATAGCGGCGCATTGTGGGAAGCGC
1 ATTAGTGGCGCTTACAATAAAACGCCGCTAAAGTAACAGTATTAGCGGCGCTTTGAGTTAAGCGC
* * *
55521478 CGCAA-AAAT-CTTAACCAAAACGCAGCGTTTTGGTATCGATGTATACTATA
66 CGCAAGATATGC-TAACCAAAACGCAGAGTTTTGGTATTGATGTATACTATA
*
55521528 ATTAGTGGCGCTTACAATAAAACGCCGCTAAA-TAACAGTATTAGCGGCGCTTTCAGTTAAGCGC
1 ATTAGTGGCGCTTACAATAAAACGCCGCTAAAGTAACAGTATTAGCGGCGCTTTGAGTTAAGCGC
* * * *
55521592 CGCAAGATATGC-ACACCAAAATGCAGAG-TTTGGTATTGAGGTATATTAGA
66 CGCAAGATATGCTA-ACCAAAACGCAGAGTTTTGGTATTGATGTATACTATA
* ** *
55521642 ATTAGTGGCGCTTA-TAGGAAACGCCGCTAAAGTATAC--TATTAGCGGCGCTTATGA-TAAAGC
1 ATTAGTGGCGCTTACAATAAAACGCCGCTAAAGTA-ACAGTATTAGCGGCGCTT-TGAGTTAAGC
* * * * *
55521703 GCCGCTATAT-TTCTTAACCAAAACTCA-ACGTTTTGGTCTTGATGTATACTATA
64 GCCGCAAGATATGC-TAACCAAAACGCAGA-GTTTTGGTATTGATGTATACTATA
* * * *
55521756 ATTAGTGGCGTTTACAATAAAACGCCGCTACA-TAACAGTATTAGCGGCAC-TTAACGTTAAGCG
1 ATTAGTGGCGCTTACAATAAAACGCCGCTAAAGTAACAGTATTAGCGGCGCTTTGA-GTTAAGCG
* * * *
55521819 CCGCAAGATACGC-ACACCAAAGCGCAGAG-TTTGGTATTGATGTATATTAGA
65 CCGCAAGATATGCTA-ACCAAAACGCAGAGTTTTGGTATTGATGTATACTATA
** * *
55521870 ATTAGTGGCGCTTATTGA-AAAACGCCGTTAAAGTATAC--TATTAGCAGCGCTTT
1 ATTAGTGGCGCTTA-CAATAAAACGCCGCTAAAGTA-ACAGTATTAGCGGCGCTTT
55521923 CCTAGAAGCA
Statistics
Matches: 406, Mismatches: 71, Indels: 62
0.75 0.13 0.12
Matches are distributed among these distances:
112 7 0.02
113 121 0.30
114 176 0.43
115 95 0.23
116 7 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (116 bp):
ATTAGTGGCGCTTACAATAAAACGCCGCTAAAGTAACAGTATTAGCGGCGCTTTGAGTTAAGCGC
CGCAAGATATGCTAACCAAAACGCAGAGTTTTGGTATTGATGTATACTATA
Found at i:55521720 original size:228 final size:226
Alignment explanation
Indices: 55521378--55521921 Score: 714
Period size: 228 Copynumber: 2.4 Consensus size: 226
55521368 AAATCTCAAG
** * * ** * * *
55521378 ACCAAAACGCATCGTCTTTGTATTGATGTATACAATAATTAGTGGCGATTATGATAAAACGCCGC
1 ACCAAAACGCAGAGT-TTGGTATTGAGGTATATTAGAATTAGTGGCGCTTAT-AGAAAACGCCGC
* * * * *
55521443 TAAAGTA-AGTAATAGCGGCGCATTGTGGGAAGCGCCGCAAAAATCTTAACCAAAACGCAGCGTT
64 TAAAGTATACTATTAGCGGCGC-TTATGGAAAGCGCCGCAAAAATCTTAACCAAAACGCAACGTT
55521507 TTGGTATCGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGCTAAATAACAGTATTAG
128 TTGGTATCGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGCTAAATAACAGTATTAG
* * *
55521572 CGGCGCTT-TCAGTTAAGCGCCGCAAGATATGCAC
193 CGGCACTTAAC-GTTAAGCGCCGCAAGATACGCAC
* *
55521606 ACCAAAATGCAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATAGGAAACGCCGCTA
1 ACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATAGAAAACGCCGCTA
* * ** *
55521671 AAGTATACTATTAGCGGCGCTTATGATAAAGCGCCGCTATATTTCTTAACCAAAACTCAACGTTT
66 AAGTATACTATTAGCGGCGCTTATG-GAAAGCGCCGC-AAAAATCTTAACCAAAACGCAACGTTT
* * * *
55521736 TGGTCTTGATGTATACTATAATTAGTGGCGTTTACAATAAAACGCCGCTACATAACAGTATTAGC
129 TGGTATCGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGCTAAATAACAGTATTAGC
55521801 GGCACTTAACGTTAAGCGCCGCAAGATACGCAC
194 GGCACTTAACGTTAAGCGCCGCAAGATACGCAC
* * * *
55521834 ACCAAAGCGCAGAGTTTGGTATTGATGTATATTAGAATTAGTGGCGCTTATTGAAAAACGCCGTT
1 ACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATAG-AAAACGCCGCT
*
55521899 AAAGTATACTATTAGCAGCGCTT
65 AAAGTATACTATTAGCGGCGCTT
55521922 TCCTAGAAGC
Statistics
Matches: 276, Mismatches: 35, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
226 21 0.08
227 51 0.18
228 172 0.62
229 32 0.12
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (226 bp):
ACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATAGAAAACGCCGCTA
AAGTATACTATTAGCGGCGCTTATGGAAAGCGCCGCAAAAATCTTAACCAAAACGCAACGTTTTG
GTATCGATGTATACTATAATTAGTGGCGCTTACAATAAAACGCCGCTAAATAACAGTATTAGCGG
CACTTAACGTTAAGCGCCGCAAGATACGCAC
Found at i:55522051 original size:229 final size:228
Alignment explanation
Indices: 55521378--55522053 Score: 644
Period size: 228 Copynumber: 3.0 Consensus size: 228
55521368 AAATCTCAAG
** * * ** * * *
55521378 ACCAAAACGCATCGTCTTTGTATTGATGTATACAATAATTAGTGGCGATTATGATAAAACGCCGC
1 ACCAAAACGCAGAGT-TTGGTATTGAGGTATATTAGAATTAGTGGCGCTTAT-AGAAAACGCCGC
* * * * *** * * * *
55521443 TAAAGTA-AGTAATAGCGGCGCATTGT-GGGAAGCGCCGCAA-AAATCTTAACCAAAACGCAGCG
64 TAAAGTATACTATTAGCAGCGC-TTATCATAAAGCACCGCAAGATATATTAACCAAAACGCAACG
*** * * * * *
55521505 TTTTGGTATCGATGTATACTATAATTAGTGGCGCTT-ACAATAAAACGCCGCTAAATAACAGTAT
128 TTTAAATCTTGATGTATACTAGAATTAGTGGCG-TTCACAAGAAAACGCCACTAAATAACAGTAT
* *
55521569 TAGCGGCGCTTTCAGTTAAGCGCCGCAAGATATGCAC
192 TAGCGGCGCTTTAAGTTAAGCGCCGCAAGATACGCAC
* *
55521606 ACCAAAATGCAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATAGGAAACGCCGCTA
1 ACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATAGAAAACGCCGCTA
* * * * * * * *
55521671 AAGTATACTATTAGCGGCGCTTATGATAAAGCGCCGCTATATTTCTTAACCAAAACTCAACGTTT
66 AAGTATACTATTAGCAGCGCTTATCATAAAGCACCGCAAGATATATTAACCAAAACGCAACGTTT
*** * * * * *
55521736 TGGTCTTGATGTATACTATAATTAGTGGCGTTTACAATAAAACGCCGCTACATAACAGTATTAGC
131 AAATCTTGATGTATACTAGAATTAGTGGCGTTCACAAGAAAACGCCACTAAATAACAGTATTAGC
*
55521801 GGCAC-TTAACGTTAAGCGCCGCAAGATACGCAC
196 GGCGCTTTAA-GTTAAGCGCCGCAAGATACGCAC
* * * *
55521834 ACCAAAGCGCAGAGTTTGGTATTGATGTATATTAGAATTAGTGGCGCTTATTGAAAAACGCCGTT
1 ACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATAG-AAAACGCCGCT
* * **
55521899 AAAGTATACTATTAGCAGCGCTT-TCCTAGAAGCACCGCAAGATATATTAACCGAAACGCTGCGT
65 AAAGTATACTATTAGCAGCGCTTATCATA-AAGCACCGCAAGATATATTAACCAAAACGCAACGT
* * * * * * *
55521963 TTAAATCTTGATGTATATTGGAATTAGTGGCGTTCACGAGAAATCGCCACTAAATCATATTATTA
129 TTAAATCTTGATGTATACTAGAATTAGTGGCGTTCACAAGAAAACGCCACTAAATAACAGTATTA
** *
55522028 GCGGCGCTTTTTGATAAGCGCCGCAA
194 GCGGCGCTTTAAGTTAAGCGCCGCAA
55522054 AAGATCTTTA
Statistics
Matches: 375, Mismatches: 65, Indels: 15
0.82 0.14 0.03
Matches are distributed among these distances:
226 20 0.05
227 57 0.15
228 170 0.45
229 126 0.34
230 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (228 bp):
ACCAAAACGCAGAGTTTGGTATTGAGGTATATTAGAATTAGTGGCGCTTATAGAAAACGCCGCTA
AAGTATACTATTAGCAGCGCTTATCATAAAGCACCGCAAGATATATTAACCAAAACGCAACGTTT
AAATCTTGATGTATACTAGAATTAGTGGCGTTCACAAGAAAACGCCACTAAATAACAGTATTAGC
GGCGCTTTAAGTTAAGCGCCGCAAGATACGCAC
Found at i:55522850 original size:14 final size:17
Alignment explanation
Indices: 55522816--55522851 Score: 51
Period size: 14 Copynumber: 2.3 Consensus size: 17
55522806 TATAATACAT
55522816 TAATTGAATAATATAAA
1 TAATTGAATAATATAAA
55522833 TAATT-AATAAT-T-AA
1 TAATTGAATAATATAAA
55522847 TAATT
1 TAATT
55522852 TTAAATATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 7 0.37
15 1 0.05
16 6 0.32
17 5 0.26
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
TAATTGAATAATATAAA
Found at i:55525311 original size:17 final size:17
Alignment explanation
Indices: 55525289--55525321 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
55525279 TTATTTTCTA
55525289 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
55525306 TATAAGTTTTCTAAAT
1 TATAAGTTTTCTAAAT
55525322 AATTTTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:55525367 original size:61 final size:61
Alignment explanation
Indices: 55525300--55525447 Score: 169
Period size: 61 Copynumber: 2.4 Consensus size: 61
55525290 ATAAGTTTTC
*
55525300 TAAATTTATAAGTTTTCTAAATAATTTTTCTAAATTAATTAGT-ATAAAAATTTAGT-AGTAT
1 TAAATTTATAAGTTTTCTAAATAATTGTTCTAAATTAATTAGTAAT-AAAATTTA-TAAGTAT
* * *
55525361 TAAATTTATAAGTTTTCTAAA-AAGTTGTTCTAGATTTATTATTAATAAAATTTATAAGTAT
1 TAAATTTATAAGTTTTCTAAATAA-TTGTTCTAAATTAATTAGTAATAAAATTTATAAGTAT
* * *
55525422 CAATTTTACAAGTTTTGC-AAATAATT
1 TAAATTTATAAGTTTT-CTAAATAATT
55525448 ATATTTTTTA
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
60 3 0.04
61 67 0.89
62 5 0.07
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (61 bp):
TAAATTTATAAGTTTTCTAAATAATTGTTCTAAATTAATTAGTAATAAAATTTATAAGTAT
Found at i:55525532 original size:25 final size:25
Alignment explanation
Indices: 55525504--55525629 Score: 106
Period size: 25 Copynumber: 5.3 Consensus size: 25
55525494 GTTTTAATAT
*
55525504 ACATAACCAAAATAACTCAAATTTA
1 ACATAACTAAAATAACTCAAATTTA
* * *
55525529 ACATAACTTACATAAAT-AAA--TA
1 ACATAACTAAAATAACTCAAATTTA
* *
55525551 AC-TTACATAAAATAAAT--AA-TTA
1 ACATAAC-TAAAATAACTCAAATTTA
*
55525573 A-ATAACTTAAATAACTCAAATTTA
1 ACATAACTAAAATAACTCAAATTTA
*
55525597 ACATAACCAAAATAACTCAAATTTA
1 ACATAACTAAAATAACTCAAATTTA
*
55525622 TCATAACT
1 ACATAACT
55525630 TACATAAATA
Statistics
Matches: 80, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
21 13 0.16
22 18 0.22
23 2 0.03
24 7 0.09
25 40 0.50
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.29
Consensus pattern (25 bp):
ACATAACTAAAATAACTCAAATTTA
Found at i:55525541 original size:9 final size:9
Alignment explanation
Indices: 55525529--55525947 Score: 190
Period size: 9 Copynumber: 47.7 Consensus size: 9
55525519 CTCAAATTTA
55525529 ACATAACTT
1 ACATAACTT
*
55525538 ACATAA-AT
1 ACATAACTT
*
55525546 AAATAACTT
1 ACATAACTT
**
55525555 ACATAAAAT
1 ACATAACTT
*
55525564 AAATAA-TT
1 ACATAACTT
*
55525572 AAATAACTT
1 ACATAACTT
*
55525581 AAATAAC-T
1 ACATAACTT
*
55525589 -CA-AATTT
1 ACATAACTT
**
55525596 AACATAACCA
1 -ACATAACTT
*
55525606 AAATAAC-T
1 ACATAACTT
*
55525614 -CA-AATTT
1 ACATAACTT
55525621 ATCATAACTT
1 A-CATAACTT
*
55525631 ACATAA-AT
1 ACATAACTT
*
55525639 AAATAACTT
1 ACATAACTT
*
55525648 ACATAACTC
1 ACATAACTT
*
55525657 AAATTTAA-TAT
1 ACA--TAACT-T
*
55525668 ACATAAATT
1 ACATAACTT
55525677 A-AGTAACTT
1 ACA-TAACTT
55525686 ACATAACTT
1 ACATAACTT
**
55525695 ACATAAAAT
1 ACATAACTT
* *
55525704 AAATAATTT
1 ACATAACTT
55525713 ACATAACTT
1 ACATAACTT
*
55525722 ACATAAATT
1 ACATAACTT
*
55525731 AAATAACTT
1 ACATAACTT
*
55525740 AAATAACTT
1 ACATAACTT
55525749 ACATAACTTT
1 ACATAAC-TT
**
55525759 GACCGAA-TT
1 -ACATAACTT
*
55525768 AAATAACTT
1 ACATAACTT
55525777 ACATAATAACTT
1 AC---ATAACTT
55525789 ACATAAAC-T
1 ACAT-AACTT
*
55525798 AAATAACTT
1 ACATAACTT
55525807 ACATAACTT
1 ACATAACTT
55525816 ACATAATAACTT
1 AC---ATAACTT
*
55525828 ACATTA--T
1 ACATAACTT
* *
55525835 ACACAACTC
1 ACATAACTT
55525844 ACATAA-TT
1 ACATAACTT
*
55525852 A-AT-ATTAT
1 ACATAACT-T
*
55525860 ACACAACTT
1 ACATAACTT
55525869 ACATAA--T
1 ACATAACTT
*
55525876 ACATTACTT
1 ACATAACTT
55525885 ACATAACTT
1 ACATAACTT
55525894 ACAGT-ACTT
1 ACA-TAACTT
55525903 ACATAA--T
1 ACATAACTT
55525910 ACATAA--T
1 ACATAACTT
55525917 ACATAA--T
1 ACATAACTT
55525924 ACATAACTT
1 ACATAACTT
55525933 ACATAACTT
1 ACATAACTT
55525942 ACATAA
1 ACATAA
55525948 TACATAAAAA
Statistics
Matches: 313, Mismatches: 57, Indels: 80
0.70 0.13 0.18
Matches are distributed among these distances:
6 5 0.02
7 39 0.12
8 32 0.10
9 192 0.61
10 18 0.06
11 9 0.03
12 18 0.06
ACGTcount: A:0.51, C:0.16, G:0.01, T:0.32
Consensus pattern (9 bp):
ACATAACTT
Found at i:55525583 original size:22 final size:22
Alignment explanation
Indices: 55525526--55525583 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
55525516 TAACTCAAAT
*
55525526 TTAACATAACTT-ACATAAATAA
1 TTAA-ATAACTTAAAATAAATAA
* * * *
55525548 ATAACTTACATAAAATAAATAA
1 TTAAATAACTTAAAATAAATAA
55525570 TTAAATAACTTAAA
1 TTAAATAACTTAAA
55525584 TAACTCAAAT
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (22 bp):
TTAAATAACTTAAAATAAATAA
Found at i:55525636 original size:25 final size:25
Alignment explanation
Indices: 55525570--55525636 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
55525560 AAATAAATAA
55525570 TTAA-ATAACTTAAATAACTCAAAT
1 TTAACATAACTTAAATAACTCAAAT
**
55525594 TTAACATAACCAAAATAACTCAAAT
1 TTAACATAACTTAAATAACTCAAAT
* *
55525619 TTATCATAACTTACATAA
1 TTAACATAACTTAAATAA
55525637 ATAAATAACT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 4 0.11
25 32 0.89
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.31
Consensus pattern (25 bp):
TTAACATAACTTAAATAACTCAAAT
Found at i:55525786 original size:12 final size:12
Alignment explanation
Indices: 55525769--55525831 Score: 72
Period size: 12 Copynumber: 5.0 Consensus size: 12
55525759 GACCGAATTA
55525769 AATAACTTACAT
1 AATAACTTACAT
55525781 AATAACTTACAT
1 AATAACTTACAT
* * *
55525793 AAACTAAATAACTT
1 -AA-TAACTTACAT
55525807 ACATAACTTACAT
1 A-ATAACTTACAT
55525820 AATAACTTACAT
1 AATAACTTACAT
55525832 TATACACAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
12 23 0.55
13 11 0.26
14 8 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (12 bp):
AATAACTTACAT
Found at i:55525848 original size:67 final size:65
Alignment explanation
Indices: 55525715--55525850 Score: 157
Period size: 67 Copynumber: 2.0 Consensus size: 65
55525705 AATAATTTAC
* * * *
55525715 ATAACTTACATAAATTAAATAACTTAAATAACTTACATAACTTTGACCGAATTAAATAACTTACA
1 ATAACTTACATAAACTAAATAACTTAAATAACTTACATAA--TTAACCGAATTAAACAACTCACA
55525780 TA
64 TA
* **
55525782 ATAACTTACATAAACTAAATAACTTACATAACTTACATAA-TAACTTACATTATACACAACTCAC
1 ATAACTTACATAAACTAAATAACTTAAATAACTTACATAATTAACCGA-ATTA-A-ACAACTCAC
55525846 ATA
63 ATA
55525849 AT
1 AT
55525851 TAATATTATA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
64 4 0.07
65 4 0.07
66 1 0.02
67 50 0.85
ACGTcount: A:0.49, C:0.18, G:0.01, T:0.32
Consensus pattern (65 bp):
ATAACTTACATAAACTAAATAACTTAAATAACTTACATAATTAACCGAATTAAACAACTCACATA
Found at i:55525887 original size:25 final size:25
Alignment explanation
Indices: 55525782--55525952 Score: 122
Period size: 25 Copynumber: 6.7 Consensus size: 25
55525772 AACTTACATA
* *
55525782 ATAACTTACATAAACTAAATAACTTAC
1 ATAACTTACAT-AA-TACATTACTTAC
55525809 ATAACTTACATAATA-ACTTACATTATAC
1 ATAACTTACATAATACA-TTAC--T-TAC
* * *
55525837 ACAACTCACATAATTA-A-TATTATAC
1 ATAACTTACATAA-TACATTACT-TAC
*
55525862 ACAACTTACATAATACATTACTTAC
1 ATAACTTACATAATACATTACTTAC
* *
55525887 ATAACTTACAGTACTTACA-TA-ATAC
1 ATAACTTACA-TA-ATACATTACTTAC
*
55525912 ATAA--TACATAATACATAACTTAC
1 ATAACTTACATAATACATTACTTAC
55525935 ATAACTTACATAATACAT
1 ATAACTTACATAATACAT
55525953 AAAAATATAT
Statistics
Matches: 119, Mismatches: 12, Indels: 28
0.75 0.08 0.18
Matches are distributed among these distances:
21 4 0.03
22 3 0.03
23 11 0.09
24 3 0.03
25 54 0.45
26 9 0.08
27 18 0.15
28 14 0.12
29 3 0.03
ACGTcount: A:0.48, C:0.19, G:0.01, T:0.32
Consensus pattern (25 bp):
ATAACTTACATAATACATTACTTAC
Found at i:55525914 original size:7 final size:7
Alignment explanation
Indices: 55525902--55525954 Score: 70
Period size: 7 Copynumber: 7.0 Consensus size: 7
55525892 TTACAGTACT
55525902 TACATAA
1 TACATAA
55525909 TACATAA
1 TACATAA
55525916 TACATAA
1 TACATAA
55525923 TACATAA
1 TACATAA
55525930 CTTACATAA
1 --TACATAA
55525939 CTTACATAA
1 --TACATAA
55525948 TACATAA
1 TACATAA
55525955 AAATATATCA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
7 28 0.64
9 16 0.36
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (7 bp):
TACATAA
Found at i:55525934 original size:39 final size:41
Alignment explanation
Indices: 55525868--55525954 Score: 135
Period size: 39 Copynumber: 2.2 Consensus size: 41
55525858 ATACACAACT
*
55525868 TACATAATACATTACTTACATAACTTACAGT-ACTTACATAA
1 TACATAATACATTACATACATAACTTACA-TAACTTACATAA
55525909 TACATAATACA-TA-ATACATAACTTACATAACTTACATAA
1 TACATAATACATTACATACATAACTTACATAACTTACATAA
55525948 TACATAA
1 TACATAA
55525955 AAATATATCA
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
38 1 0.02
39 30 0.68
40 2 0.05
41 11 0.25
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.32
Consensus pattern (41 bp):
TACATAATACATTACATACATAACTTACATAACTTACATAA
Found at i:55531745 original size:19 final size:18
Alignment explanation
Indices: 55531721--55531756 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
55531711 AAATTCACTT
55531721 TTATTTATATCAATTAATA
1 TTATTTAT-TCAATTAATA
*
55531740 TTATTTATTCATTTAAT
1 TTATTTATTCAATTAAT
55531757 TTGAAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATTTATTCAATTAATA
Found at i:55531989 original size:42 final size:43
Alignment explanation
Indices: 55531923--55532016 Score: 136
Period size: 42 Copynumber: 2.2 Consensus size: 43
55531913 TCAAAACAGT
*
55531923 GGCGTTTGTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGC
1 GGCGTTTGTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGA
* * * *
55531966 GGCGTTTTTG-AACAAGCGTCGCTATAGAACATTACTTTTAGA
1 GGCGTTTGTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGA
55532008 GGCGTTTGT
1 GGCGTTTGT
55532017 TAGAGTATGC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
42 36 0.80
43 9 0.20
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (43 bp):
GGCGTTTGTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGA
Found at i:55533578 original size:42 final size:42
Alignment explanation
Indices: 55533516--55533665 Score: 239
Period size: 42 Copynumber: 3.5 Consensus size: 42
55533506 TCCAACAGCC
*
55533516 TTTTCTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG
1 TTTT-TTCCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG
*
55533559 TTTTTTCCTAAGCGCCGCTAAAGAACATGATCTTTTGCGGCG
1 TTTTTTCCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG
55533601 TTTTTTCCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG
1 TTTTTTCCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG
*
55533643 TTTTTTTCTGTAAGCGCCG-TAAA
1 -TTTTTTC-CTAAGCGCCGCTAAA
55533666 AGTTAACGAC
Statistics
Matches: 101, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
42 77 0.76
43 15 0.15
44 9 0.09
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (42 bp):
TTTTTTCCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG
Found at i:55542335 original size:25 final size:26
Alignment explanation
Indices: 55542287--55542335 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
55542277 TCTTAATGTC
* *
55542287 AAAAATTTAAAAATACGATCCTTAAT
1 AAAAACTTAAAAATACGATACTTAAT
*
55542313 AAAAACTTAAAAA-ACGTTACTTA
1 AAAAACTTAAAAATACGATACTTA
55542336 TTAAGACTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.55, C:0.12, G:0.04, T:0.29
Consensus pattern (26 bp):
AAAAACTTAAAAATACGATACTTAAT
Found at i:55543906 original size:23 final size:24
Alignment explanation
Indices: 55543876--55543922 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
55543866 AAATTAAATC
55543876 TCTAAGATTACA-AAATCATATCT
1 TCTAAGATTACATAAATCATATCT
* *
55543899 TCTAAGATTGCATATATCATATCT
1 TCTAAGATTACATAAATCATATCT
55543923 AAGATTGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (24 bp):
TCTAAGATTACATAAATCATATCT
Found at i:55554919 original size:12 final size:13
Alignment explanation
Indices: 55554902--55554938 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
55554892 GAACCGGACA
55554902 CGAACCGAA-CTC
1 CGAACCGAAGCTC
55554914 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
55554926 CGAACCGTAGCTC
1 CGAACCGAAGCTC
55554939 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:55559171 original size:87 final size:85
Alignment explanation
Indices: 55559036--55559257 Score: 229
Period size: 87 Copynumber: 2.5 Consensus size: 85
55559026 AAACTTTAAA
* ** *
55559036 AAAAAAAGCAATTAACCTCTTGTTTTTTCTTATACTCAATTGGGTACTTGAACCT-T-TAAATTG
1 AAAAAAAGCAATTAACC-CTTGTTTTTT-TT-CACTCAATTGAATACTTGAA-CTGTCGAAA-TG
* *
55559099 CAT-AAAAATGCCCTCA-ATTTTTTTC
61 CATCAAAAATGCCCT-AGA-CTTGTTC
*
55559124 AAAAAAAGCAAATAAGCCCTTGCTTTTTTTTCACTCAATTGAATACTTGAACTGTCGAAATGCAT
1 AAAAAAAGCAATTAA-CCCTTG-TTTTTTTTCACTCAATTGAATACTTGAACTGTCGAAATGCAT
55559189 CAAAAATGCCCTAGACTTGTTC
64 CAAAAATGCCCTAGACTTGTTC
* *
55559211 AAAAAAGGCAATTAAACCCTT-TTATTTTTGCACTCAATTGAATACTT
1 AAAAAAAGCAATT-AACCCTTGTT-TTTTTTCACTCAATTGAATACTT
55559258 TAACAGTTGA
Statistics
Matches: 116, Mismatches: 10, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
85 2 0.02
86 24 0.21
87 45 0.39
88 37 0.32
89 8 0.07
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (85 bp):
AAAAAAAGCAATTAACCCTTGTTTTTTTTCACTCAATTGAATACTTGAACTGTCGAAATGCATCA
AAAATGCCCTAGACTTGTTC
Found at i:55559432 original size:10 final size:10
Alignment explanation
Indices: 55559397--55559432 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
55559387 AAATTTTAAT
55559397 AAAAAATATA
1 AAAAAATATA
*
55559407 TAAAAATAGTA
1 AAAAAATA-TA
55559418 AAAAAATATA
1 AAAAAATATA
55559428 AAAAA
1 AAAAA
55559433 CCGGAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (10 bp):
AAAAAATATA
Found at i:55559460 original size:20 final size:20
Alignment explanation
Indices: 55559443--55559481 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
55559433 CCGGAAAATT
55559443 TTATAAAAAT-CATAAAAAAA
1 TTAT-AAAATGCATAAAAAAA
55559463 TTATAAAATGCATAAAAAA
1 TTATAAAATGCATAAAAAA
55559482 TGTCCTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (20 bp):
TTATAAAATGCATAAAAAAA
Found at i:55559660 original size:20 final size:21
Alignment explanation
Indices: 55559610--55559664 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 21
55559600 AAGTAAAAAT
*
55559610 TAATAAA-AATATTTTCATAA
1 TAATAAATATTATTTTCATAA
** *
55559630 TAATATTTATTATTTTTA-AA
1 TAATAAATATTATTTTCATAA
55559650 TAATAAATATT-TTTT
1 TAATAAATATTATTTT
55559665 AATTAAATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 4 0.14
20 16 0.57
21 8 0.29
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATAAATATTATTTTCATAA
Found at i:55560133 original size:40 final size:41
Alignment explanation
Indices: 55560088--55560184 Score: 135
Period size: 40 Copynumber: 2.4 Consensus size: 41
55560078 ATCTTCAAGG
55560088 ATATGCAATCTTAGATATGATATGCAATCTT-AGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTGAGATATGAT
*
55560128 ATATGCAATCTTGGATATGATATGCAATCTTGGAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTT-G-AGATATGAT
* *
55560171 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
55560185 GATTTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 30 0.60
42 11 0.22
43 9 0.18
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (41 bp):
ATATGCAATCTTAGATATGATATGCAATCTTGAGATATGAT
Found at i:55560161 original size:19 final size:19
Alignment explanation
Indices: 55560087--55560158 Score: 117
Period size: 19 Copynumber: 3.7 Consensus size: 19
55560077 AATCTTCAAG
55560087 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
55560106 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
55560125 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
55560146 GATATGCAATCTT
1 GATATGCAATCTT
55560159 GGAAGATATG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:55562164 original size:23 final size:23
Alignment explanation
Indices: 55562097--55562164 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
55562087 ACGTGTGTAC
55562097 ATAAAATAATAATAATTACAT-T
1 ATAAAATAATAATAATTACATAT
* *
55562119 ATAGAA-AATATATACA-TATATAT
1 ATAAAATAATA-ATA-ATTACATAT
55562142 ATAAAATAATAATAATTACATAT
1 ATAAAATAATAATAATTACATAT
55562165 GAAAATTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
21 4 0.11
22 13 0.35
23 16 0.43
24 4 0.11
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (23 bp):
ATAAAATAATAATAATTACATAT
Found at i:55563338 original size:12 final size:12
Alignment explanation
Indices: 55563321--55563345 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55563311 ATTTGGACTC
55563321 TATTTTTCTATT
1 TATTTTTCTATT
55563333 TATTTTTCTATT
1 TATTTTTCTATT
55563345 T
1 T
55563346 GTTTATTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTTTTCTATT
Found at i:55567356 original size:12 final size:12
Alignment explanation
Indices: 55567339--55567365 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
55567329 CGTAAATTCA
55567339 CACATTCTTTTG
1 CACATTCTTTTG
55567351 CACATTCTTTTG
1 CACATTCTTTTG
55567363 CAC
1 CAC
55567366 TTACTACGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.30, G:0.07, T:0.44
Consensus pattern (12 bp):
CACATTCTTTTG
Found at i:55569588 original size:88 final size:88
Alignment explanation
Indices: 55569435--55570016 Score: 840
Period size: 88 Copynumber: 6.6 Consensus size: 88
55569425 AATCACAAAA
* * * * * * *
55569435 CCTTGCCTTCCTGGTTTGCAGCGGAGAAGGTTGAAGATAGCAGATCTTGCCTTCTTGTACTGACA
1 CCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACA
** *
55569500 GTGAAGCAGATTAAAGATACCGG
66 GTGAAGCAGATCGAAGATACCAG
* * *
55569523 CCTTGCCTCCTTGGGTTGTAGTGGACCAGGTTGAAGATAGCAGATCTTGCCTTTCTGTACCGACA
1 CCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACA
55569588 GTGAAGCAGATCGAAGATACCAG
66 GTGAAGCAGATCGAAGATACCAG
* * * *
55569611 CCTTGCCTCCCTGGGTTGTAGTGGAGCAAGTTGAACATAGCAAATCTTGCCTTCCTGTACCAACA
1 CCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACA
*
55569676 GTGAAGCAGATCGAAGATATCAG
66 GTGAAGCAGATCGAAGATACCAG
* * *
55569699 CCTTGCCTCCCTGGGTCGTAGTGGAGCAAGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
1 CCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACA
55569764 GTGAAGCAGATCGAAGATACCAG
66 GTGAAGCAGATCGAAGATACCAG
* *
55569787 CCTTGCCTCCCTGGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTATACCGACA
1 CCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACA
* *
55569852 GTGAAACAGATCGAGGATACCAG
66 GTGAAGCAGATCGAAGATACCAG
* *
55569875 CCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAACAGATCTTACCTTCCTGTACCGACA
1 CCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACA
*
55569940 GTGAAGCAGATCAAAGATACCAG
66 GTGAAGCAGATCGAAGATACCAG
* * * * * * * *
55569963 TCTTGCCTCCCTGGGTTGTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
1 CCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTC
55570017 ATTTATTGGC
Statistics
Matches: 443, Mismatches: 51, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 443 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (88 bp):
CCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACA
GTGAAGCAGATCGAAGATACCAG
Found at i:55570089 original size:264 final size:264
Alignment explanation
Indices: 55569467--55570110 Score: 763
Period size: 264 Copynumber: 2.4 Consensus size: 264
55569457 GGAGAAGGTT
* * * *
55569467 GAAGATAGCAGATCTTGCCTTCTTGTACTGACAGTGAAGCAGATTAAAGATACCGGCCTTGCCTC
1 GAAGAAAGCAGATCTTGCCTTCATGTACTGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTC
* * * * * * * * * * *
55569532 CTTGGGTTGTAGTGGACCAGGTTGAAGATAGCAGATCTTGCCTTTCTGTACCGACAGTGAAGCAG
66 CATGGATTGGAGTGAAGCTGATCGAAGATAGCAGATCTTGCCTTCCTATACCGACAGTGAAACAG
* *
55569597 ATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAAGTTGAACATAGCAAATCTTGCC
131 ATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAAGTTGAACATAACAAATCTTACC
* * *
55569662 TTCCTGTACCAACAGTGAAGCAGATCGAAGATATCAGCCTTGCCTCCCTGGGTCGTAGTGGAGCA
196 TTCCTGTACCAACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTCGTAGTGAAGCA
*
55569727 AGTT
261 AGTC
* * *
55569731 GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTC
1 GAAGAAAGCAGATCTTGCCTTCATGTACTGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTC
* * * * * *
55569796 CCTGGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTATACCGACAGTGAAACAG
66 CATGGATTGGAGTGAAGCTGATCGAAGATAGCAGATCTTGCCTTCCTATACCGACAGTGAAACAG
* * * *
55569861 ATCGAGGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAACAGATCTTACC
131 ATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAAGTTGAACATAACAAATCTTACC
* * * * *
55569926 TTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAGTCTTGCCTCCCTGGGTTGTCGTGAAG-T
196 TTCCTGTACCAACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTCGTAGTGAAGCA
55569990 AGATC
261 AG-TC
* * * * * * * * *
55569995 GAAGAAAGCAGATCTTGTCTTCATTTATTGGC-GTGAAGTAGATCAAATATAGCAGATCTTGTCT
1 GAAGAAAGCAGATCTTGCCTTCATGTACTGACAGTGAAGCAGATCAAAGATACCAG-CCTTGCCT
* * * * *
55570059 TCATGTATTGGCGTGAAG-TAGATCGAAGATAGCAGATCTTGTCTTCCCATAC
65 CCATGGATTGGAGTGAAGCT-GATCGAAGATAGCAGATCTTGCCTTCCTATAC
55570111 TGGTGGCGAA
Statistics
Matches: 329, Mismatches: 48, Indels: 6
0.86 0.13 0.02
Matches are distributed among these distances:
263 22 0.07
264 307 0.93
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (264 bp):
GAAGAAAGCAGATCTTGCCTTCATGTACTGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTC
CATGGATTGGAGTGAAGCTGATCGAAGATAGCAGATCTTGCCTTCCTATACCGACAGTGAAACAG
ATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAAGTTGAACATAACAAATCTTACC
TTCCTGTACCAACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTCGTAGTGAAGCA
AGTC
Found at i:55570129 original size:264 final size:264
Alignment explanation
Indices: 55569590--55570399 Score: 736
Period size: 264 Copynumber: 3.1 Consensus size: 264
55569580 TACCGACAGT
* * *
55569590 GAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAAGTTGAACATAGCAAA
1 GAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGA
* * *
55569655 TCTTGCCTTCCTGTACCAACAGTGAAGCAGATCGAAGATATCAGCCTTGCCTCCCTGGGTCGTAG
66 TCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTCGTAG
* * * * * * * * * *
55569720 TGGAGCA-AGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGATAC
131 TGAAGTAGA-TCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCGAAGATAG
* * * * ** ** * * * * *
55569784 CAG-CCTTGCCTCCCTGGGTTGTAGTGGAGCT-GGTTGAAGATAGCAGATCTTGCCTTCCTATAC
194 CAGATCTTGTCTTCATGTATTGGCGTGAAG-TAGATCGAAGATAGCAGATCTTGTCTTCCCATAC
* *** *
55569847 CGACAGT
258 TGGTGGC
* * *
55569854 GAAACAGATCGAGGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAACAGA
1 GAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGA
* * * *
55569919 TCTTACCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAGTCTTGCCTCCCTGGGTTGTCG
66 TCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTCGTAG
* * *
55569984 TGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTTATTGGCGTGAAGTAGATCAAATATAGCA
131 TGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
55570049 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGG
196 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGG
55570114 TGGC
261 TGGC
* * * * * * * ** * * * **
55570118 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGT-GTGAAGTAGATCAAAGATAGCA
1 GAAGCAGATCGAAGATACCAG-CCTTGCCTCCCTGGGTT-GTAGTGGAGCAGGTTGAAGATAGCA
* * ** ** * * * * * **
55570182 GATCTTGTCTTCATGTATTG-GGGTGAAGTAGATCGAGGATAGCAGATTTTGTCTTCCCAT-ACT
64 GATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAG-TCTTG-CCTCCC-TGGGT
* * * *
55570245 GGTGGTGAAATAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGC--GAAGTAGATCGAAGA
126 CGTAGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
* * * * * * * *
55570308 AAGCAGATCTTGTCTTCATGTATCGGCATGAAATAGATCAAAGGTAGCAGATTTTATCTTCCCAT
191 TAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCAT
55570373 ACTGGTGGC
256 ACTGGTGGC
*
55570382 GAAGTAGATCGAAGATAC
1 GAAGCAGATCGAAGATAC
55570400 AAGTCTTATC
Statistics
Matches: 445, Mismatches: 93, Indels: 16
0.80 0.17 0.03
Matches are distributed among these distances:
263 20 0.04
264 326 0.73
265 47 0.11
266 51 0.11
267 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (264 bp):
GAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGA
TCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGTCTTGCCTCCCTGGGTCGTAG
TGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGG
TGGC
Found at i:55570157 original size:89 final size:89
Alignment explanation
Indices: 55569982--55570396 Score: 453
Period size: 89 Copynumber: 4.7 Consensus size: 89
55569972 CCTGGGTTGT
* ** * * * * * *
55569982 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTTATTGG-CGTGAAGTAGATCAAATATA
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCACATACTGGTGGCGAAGTAGATCGAAGAAA
55570046 GCAGATCTTGTCTTCATGTATTGG
66 GCAGATCTTGTCTTCATGTATTGG
*
55570070 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCACATACTGGTGGCGAAGTAGATCGAAGAAA
55570135 GCAGATCTTGTCTTCATGTATTGG
66 GCAGATCTTGTCTTCATGTATTGG
* * ** * * * *
55570159 TGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG-GGTGAAGTAGATCGAGGATA
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCACATACTGGTGGCGAAGTAGATCGAAGAAA
* *** *
55570223 GCAGATTTTGTCTTCCCATACTGG
66 GCAGATCTTGTCTTCATGTATTGG
* * * * **
55570247 TGGTGAAATAGATCGAAGAAAGTAGATCTTGTCTTCATGTA-T--TGGCGAAGTAGATCGAAGAA
1 -CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCACATACTGGTGGCGAAGTAGATCGAAGAA
*
55570309 AGCAGATCTTGTCTTCATGTATCGG
65 AGCAGATCTTGTCTTCATGTATTGG
* * * * * * *
55570334 CATGAAATAGATCAAAGGTAGCAGATTTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCACATACTGGTGGCGAAGTAGATCGAAGA
55570397 TACAAGTCTT
Statistics
Matches: 272, Mismatches: 49, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
86 29 0.11
87 36 0.13
88 76 0.28
89 131 0.48
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (89 bp):
CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCACATACTGGTGGCGAAGTAGATCGAAGAAA
GCAGATCTTGTCTTCATGTATTGG
Found at i:55570157 original size:133 final size:133
Alignment explanation
Indices: 55569985--55570396 Score: 657
Period size: 133 Copynumber: 3.1 Consensus size: 133
55569975 GGGTTGTCGT
* *
55569985 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTTATTGGCGTGAAGTAGATCAAATATAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAG
*
55570050 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGT
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATTTTGTCTTCCCATACTGGT
55570115 GGC
131 GGC
*
55570118 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCAAAGATAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAG
* *
55570183 ATCTTGTCTTCATGTATTGGGGTGAAGTAGATCGAGGATAGCAGATTTTGTCTTCCCATACTGGT
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATTTTGTCTTCCCATACTGGT
*
55570248 GGT
131 GGC
* * * *
55570251 GAAATAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGC--GAAGTAGATCGAAGAAAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAG
* * * * * *
55570314 ATCTTGTCTTCATGTATCGGCATGAAATAGATCAAAGGTAGCAGATTTTATCTTCCCATACTGGT
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATTTTGTCTTCCCATACTGGT
55570379 GGC
131 GGC
55570382 GAAGTAGATCGAAGA
1 GAAGTAGATCGAAGA
55570397 TACAAGTCTT
Statistics
Matches: 257, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
131 92 0.36
133 165 0.64
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (133 bp):
GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAG
ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATTTTGTCTTCCCATACTGGT
GGC
Found at i:55570368 original size:44 final size:44
Alignment explanation
Indices: 55569982--55570368 Score: 454
Period size: 44 Copynumber: 8.8 Consensus size: 44
55569972 CCTGGGTTGT
* *
55569982 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTTATTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* *
55570026 CGTGAAGTAGATCAAATATAGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
*** *
55570070 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* * *
55570114 TGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
1 -CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* *
55570159 TGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * *** *
55570203 GGTGAAGTAGATCGAGGATAGCAGATTTTGTCTTCCCATACTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * *
55570247 TGGTGAAATAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGG
1 -CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* *
55570292 C--GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATCGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * * * *
55570334 CATGAAATAGATCAAAGGTAGCAGATTTTATCTTC
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTC
55570369 CCATACTGGT
Statistics
Matches: 291, Mismatches: 48, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
42 39 0.13
44 180 0.62
45 72 0.25
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (44 bp):
CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
Found at i:55570767 original size:21 final size:21
Alignment explanation
Indices: 55570743--55570807 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 21
55570733 TCTTCAAGGA
55570743 TATGCAATCTTAGATATGATT
1 TATGCAATCTTAGATATGATT
*
55570764 TATGCAATCTTGGATATGA--
1 TATGCAATCTTAGATATGATT
55570783 TATGCAATCTTGGAAGATATGATT
1 TATGCAATCTT---AGATATGATT
55570807 T
1 T
55570808 TGTAATTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 11 0.30
21 18 0.49
22 7 0.19
24 1 0.03
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.40
Consensus pattern (21 bp):
TATGCAATCTTAGATATGATT
Found at i:55570788 original size:19 final size:19
Alignment explanation
Indices: 55570741--55570796 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
55570731 AATCTTCAAG
*
55570741 GATATGCAATCTTAGATAT
1 GATATGCAATCTTGGATAT
55570760 GATTTATGCAATCTTGGATAT
1 GA--TATGCAATCTTGGATAT
55570781 GATATGCAATCTTGGA
1 GATATGCAATCTTGGA
55570797 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 16 0.47
21 18 0.53
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTGGATAT
Found at i:55571209 original size:21 final size:19
Alignment explanation
Indices: 55571163--55571237 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
55571153 AATCTTCAAG
55571163 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
55571182 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
55571201 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
55571222 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
55571238 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:55577793 original size:17 final size:16
Alignment explanation
Indices: 55577756--55577794 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
55577746 AATAAACAAT
55577756 TAAA-TAAATTGGAAA
1 TAAATTAAATTGGAAA
55577771 TAAAATTAAATTGGGAAA
1 T-AAATTAAATT-GGAAA
55577789 TAAATT
1 TAAATT
55577795 CGGATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 3 0.14
17 11 0.52
18 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (16 bp):
TAAATTAAATTGGAAA
Found at i:55581622 original size:23 final size:22
Alignment explanation
Indices: 55581596--55581642 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 22
55581586 TTCTAAGTCG
55581596 ATATTCA-ATTCAATTCCACACTT
1 ATATTCATATTCAATT--ACACTT
55581619 ATATTCATTATTCAATTACACTT
1 ATATTCA-TATTCAATTACACTT
55581642 A
1 A
55581643 GTCAATTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 14 0.64
25 8 0.36
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (22 bp):
ATATTCATATTCAATTACACTT
Found at i:55581734 original size:45 final size:45
Alignment explanation
Indices: 55581684--55581771 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
55581674 AACAGATACT
* *
55581684 CGGTGGATTCAACACATAGCAACCACCTTATTAAT-AATTGATGCC
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAA-TGATGCC
*
55581729 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATG
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATG
55581772 TTTGGTTCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
45 37 0.95
46 2 0.05
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (45 bp):
CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGCC
Found at i:55581841 original size:51 final size:51
Alignment explanation
Indices: 55581779--55581919 Score: 176
Period size: 51 Copynumber: 2.8 Consensus size: 51
55581769 ATGTTTGGTT
* *
55581779 CACATAGTAGCCTGCACATAGTACTACACATATGACCATTACCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACATGACCATAACCATCCGATA
* * * * * *
55581830 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACATGA-CCATAACCATCCGATA
* *
55581881 CGCATAGTAGCCTACACATAGTACTACACACATGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACATGACCAT
55581920 CACTTTCACT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
50 2 0.03
51 71 0.95
52 2 0.03
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACATGACCATAACCATCCGATA
Found at i:55581938 original size:51 final size:50
Alignment explanation
Indices: 55581780--55581949 Score: 148
Period size: 51 Copynumber: 3.3 Consensus size: 50
55581770 TGTTTGGTTC
* * * *
55581780 ACATAGTAGCCTGCACATAGTACTACACATATGACCATTACCATCC-GAT
1 ACATAGTAGCCTACACATAGTACTACACACATGACCATAACTATCCTGAT
* * * *
55581829 ACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTAT-CTGGT
1 ACA--TAGTAGCCTACACATAGTACTACACACATGA-CCATAACTATCCTGAT
* * **
55581880 ACGCATAGTAGCCTACACATAGTACTACACACATGACCATCACTTTCACTTTT
1 A--CATAGTAGCCTACACATAGTACTACACACATGACCATAACTATC-CTGAT
*
55581933 ACATAGTGGCCTACACA
1 ACATAGTAGCCTACACA
55581950 CAATCCGTGC
Statistics
Matches: 98, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
49 3 0.03
50 3 0.03
51 84 0.86
52 2 0.02
53 6 0.06
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (50 bp):
ACATAGTAGCCTACACATAGTACTACACACATGACCATAACTATCCTGAT
Found at i:55584947 original size:25 final size:25
Alignment explanation
Indices: 55584913--55585002 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
55584903 CTCGAGCCAT
* *
55584913 ATAATGGGAAGCTCATGTGAGTTGC
1 ATAACGGGAAGCTCATGTGAGCTGC
* * * *
55584938 ATAACGGGAAGCTTATTTGGGCTGT
1 ATAACGGGAAGCTCATGTGAGCTGC
**
55584963 ATAACGGGAAGCTCATAAGAGC--C
1 ATAACGGGAAGCTCATGTGAGCTGC
55584986 ATAATCGGGAAGCTCAT
1 ATAA-CGGGAAGCTCAT
55585003 ACGAGCCAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
23 4 0.08
24 12 0.23
25 37 0.70
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (25 bp):
ATAACGGGAAGCTCATGTGAGCTGC
Found at i:55584999 original size:24 final size:23
Alignment explanation
Indices: 55584963--55585049 Score: 93
Period size: 24 Copynumber: 3.6 Consensus size: 23
55584953 TTTGGGCTGT
55584963 ATAACGGGAAGCTCATAAGAGCC
1 ATAACGGGAAGCTCATAAGAGCC
*
55584986 ATAATCGGGAAGCTCATACGAGCC
1 ATAA-CGGGAAGCTCATAAGAGCC
* * *
55585010 AATAACGGGTAGCTGAGAAGAGCC
1 -ATAACGGGAAGCTCATAAGAGCC
*
55585034 ATTAATCGAGAAGCTC
1 A-TAA-CGGGAAGCTC
55585050 CGAATAGCCA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
23 5 0.10
24 36 0.69
25 11 0.21
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.16
Consensus pattern (23 bp):
ATAACGGGAAGCTCATAAGAGCC
Found at i:55585059 original size:49 final size:48
Alignment explanation
Indices: 55584963--55585059 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 48
55584953 TTTGGGCTGT
* * * *
55584963 ATAACGGGAAGCTCATAAGAGCCATAATCGGGAAGCTCATACGAGCCA
1 ATAACGGGAAGCTCAGAAGAGCCATAATCGAGAAGCTCAGAAGAGCCA
* * * *
55585011 ATAACGGGTAGCTGAGAAGAGCCATTAATCGAGAAGCTCCGAATAGCCA
1 ATAACGGGAAGCTCAGAAGAGCCA-TAATCGAGAAGCTCAGAAGAGCCA
55585060 TCTATCAGGA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
48 21 0.52
49 19 0.47
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (48 bp):
ATAACGGGAAGCTCAGAAGAGCCATAATCGAGAAGCTCAGAAGAGCCA
Found at i:55585430 original size:25 final size:25
Alignment explanation
Indices: 55585396--55585485 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
55585386 CTCGAGCCAT
* *
55585396 ATAATGGGAAGCTCATGTGAGTTGC
1 ATAACGGGAAGCTCATGTGAGCTGC
* * * *
55585421 ATAACGGGAAGCTTATTTGGGCTGT
1 ATAACGGGAAGCTCATGTGAGCTGC
**
55585446 ATAACGGGAAGCTCATAAGAGC--C
1 ATAACGGGAAGCTCATGTGAGCTGC
55585469 ATAATCGGGAAGCTCAT
1 ATAA-CGGGAAGCTCAT
55585486 ACGAGCCAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
23 4 0.08
24 12 0.23
25 37 0.70
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (25 bp):
ATAACGGGAAGCTCATGTGAGCTGC
Found at i:55585482 original size:24 final size:23
Alignment explanation
Indices: 55585446--55585532 Score: 93
Period size: 24 Copynumber: 3.6 Consensus size: 23
55585436 TTTGGGCTGT
55585446 ATAACGGGAAGCTCATAAGAGCC
1 ATAACGGGAAGCTCATAAGAGCC
*
55585469 ATAATCGGGAAGCTCATACGAGCC
1 ATAA-CGGGAAGCTCATAAGAGCC
* * *
55585493 AATAACGGGTAGCTGAGAAGAGCC
1 -ATAACGGGAAGCTCATAAGAGCC
*
55585517 ATTAATCGAGAAGCTC
1 A-TAA-CGGGAAGCTC
55585533 CGAATAGCCA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
23 5 0.10
24 36 0.69
25 11 0.21
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.16
Consensus pattern (23 bp):
ATAACGGGAAGCTCATAAGAGCC
Found at i:55585523 original size:483 final size:483
Alignment explanation
Indices: 55584617--55586067 Score: 2857
Period size: 483 Copynumber: 3.0 Consensus size: 483
55584607 CAATTTAGCC
*
55584617 AATAGCCTAAACACATATTCTCATCAAACTTGTTAGTCATGTAATTCACATGAATTCTAAGAAAC
1 AATAGCCTAAACACATATTCTCATCAAACTTGTTAGTTATGTAATTCACATGAATTCTAAGAAAC
*
55584682 AAGGATGATCTCATCATGTTACAAATCATATACATGAATTTCAAATATGTTTCCATAATAATTCA
66 AAGGATGATCTCATCATGTTACAAATCATATACATGAATTTCAAATACGTTTCCATAATAATTCA
55584747 TCCCAAGTTCAGATTATCTCATGTCGGAACTTTGCCTATTGAATTTATTTGAAATTCTGATAGAT
131 TCCCAAGTTCAGATTATCTCATGTCGGAACTTTGCCTATTGAATTTATTTGAAATTCTGATAGAT
*
55584812 GCATAGGTAGTACACACGAAGTGTACAAAACTTTAATTTGTCAATTCATTTTTGGGAGTGCTCAT
196 GCATAGGTAGTACACACGAAGTGTACAAAACTTTAATCTGTCAATTCATTTTTGGGAGTGCTCAT
55584877 ACAAGCATATAAACGGGAAGCACTCTCTCGAGCCATATAATGGGAAGCTCATGTGAGTTGCATAA
261 ACAAGCATATAAACGGGAAGCACTCTCTCGAGCCATATAATGGGAAGCTCATGTGAGTTGCATAA
55584942 CGGGAAGCTTATTTGGGCTGTATAACGGGAAGCTCATAAGAGCCATAATCGGGAAGCTCATACGA
326 CGGGAAGCTTATTTGGGCTGTATAACGGGAAGCTCATAAGAGCCATAATCGGGAAGCTCATACGA
55585007 GCCAATAACGGGTAGCTGAGAAGAGCCATTAATCGAGAAGCTCCGAATAGCCATCTATCAGGAAG
391 GCCAATAACGGGTAGCTGAGAAGAGCCATTAATCGAGAAGCTCCGAATAGCCATCTATCAGGAAG
55585072 TTCAAGCGAGCCATATTATGAAGCTCCG
456 TTCAAGCGAGCCATATTATGAAGCTCCG
55585100 AATAGCCTAAACACATATTCTCATCAAACTTGTTAGTTATGTAATTCACATGAATTCTAAGAAAC
1 AATAGCCTAAACACATATTCTCATCAAACTTGTTAGTTATGTAATTCACATGAATTCTAAGAAAC
55585165 AAGGATGATCTCATCATGTTACAAATCATATACATGAATTTCAAATACGTTTCCATAATAATTCA
66 AAGGATGATCTCATCATGTTACAAATCATATACATGAATTTCAAATACGTTTCCATAATAATTCA
55585230 TCCCAAGTTCAGATTATCTCATGTCGGAACTTTGCCTATTGAATTTATTTGAAATTCTGATAGAT
131 TCCCAAGTTCAGATTATCTCATGTCGGAACTTTGCCTATTGAATTTATTTGAAATTCTGATAGAT
55585295 GCATAGGTAGTACACACGAAGTGTACAAAACTTTAATCTGTCAATTCATTTTTGGGAGTGCTCAT
196 GCATAGGTAGTACACACGAAGTGTACAAAACTTTAATCTGTCAATTCATTTTTGGGAGTGCTCAT
*
55585360 ACAAGCATATAAATGGGAAGCACTCTCTCGAGCCATATAATGGGAAGCTCATGTGAGTTGCATAA
261 ACAAGCATATAAACGGGAAGCACTCTCTCGAGCCATATAATGGGAAGCTCATGTGAGTTGCATAA
55585425 CGGGAAGCTTATTTGGGCTGTATAACGGGAAGCTCATAAGAGCCATAATCGGGAAGCTCATACGA
326 CGGGAAGCTTATTTGGGCTGTATAACGGGAAGCTCATAAGAGCCATAATCGGGAAGCTCATACGA
55585490 GCCAATAACGGGTAGCTGAGAAGAGCCATTAATCGAGAAGCTCCGAATAGCCATCTATCAGGAAG
391 GCCAATAACGGGTAGCTGAGAAGAGCCATTAATCGAGAAGCTCCGAATAGCCATCTATCAGGAAG
55585555 TTCAAGCGAGCCATATTATGAAGCTCCG
456 TTCAAGCGAGCCATATTATGAAGCTCCG
55585583 AATAGCCTAAACACATATTCTCATCAAACTTGTTAGTTATGTAATTCACATGAATTCTAAGAAAC
1 AATAGCCTAAACACATATTCTCATCAAACTTGTTAGTTATGTAATTCACATGAATTCTAAGAAAC
55585648 AAGGATGATCTCATCATGTTACAAATCATATACATGAATTTCAAATACGTTTCCATAATAATTCA
66 AAGGATGATCTCATCATGTTACAAATCATATACATGAATTTCAAATACGTTTCCATAATAATTCA
55585713 TCCCAAGTTCAGATTATCTCATGTCGGAACTTTGCCTATTGAATTTATTTGAAATTCTGATAGAT
131 TCCCAAGTTCAGATTATCTCATGTCGGAACTTTGCCTATTGAATTTATTTGAAATTCTGATAGAT
55585778 GCATAGGTAGTACACACGAAGTGTACAAAACTTTAATCTGTCAATTCATTTTTGGGAGTGCTCAT
196 GCATAGGTAGTACACACGAAGTGTACAAAACTTTAATCTGTCAATTCATTTTTGGGAGTGCTCAT
55585843 ACAAGCATATAAACGGGAAGCACTCTCTCGAGCCATATAATGGGAAGCTCATGTGAGTTGCATAA
261 ACAAGCATATAAACGGGAAGCACTCTCTCGAGCCATATAATGGGAAGCTCATGTGAGTTGCATAA
55585908 CGGGAAGCTTATTTGGGCTGTATAACGGGAAGCTCATAAGAGCCATAATCGGGAAGCTCATACGA
326 CGGGAAGCTTATTTGGGCTGTATAACGGGAAGCTCATAAGAGCCATAATCGGGAAGCTCATACGA
*
55585973 GCCAATAACGGGTAGCTGAGAAGAGCCATTAATCGAGAAGCTCCGAATAGCCATCTATCGGGAAG
391 GCCAATAACGGGTAGCTGAGAAGAGCCATTAATCGAGAAGCTCCGAATAGCCATCTATCAGGAAG
55586038 TTCAAGCGAGCCATATTATGAAGCTCCG
456 TTCAAGCGAGCCATATTATGAAGCTCCG
55586066 AA
1 AA
55586068 GTGCCATTAT
Statistics
Matches: 962, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
483 962 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (483 bp):
AATAGCCTAAACACATATTCTCATCAAACTTGTTAGTTATGTAATTCACATGAATTCTAAGAAAC
AAGGATGATCTCATCATGTTACAAATCATATACATGAATTTCAAATACGTTTCCATAATAATTCA
TCCCAAGTTCAGATTATCTCATGTCGGAACTTTGCCTATTGAATTTATTTGAAATTCTGATAGAT
GCATAGGTAGTACACACGAAGTGTACAAAACTTTAATCTGTCAATTCATTTTTGGGAGTGCTCAT
ACAAGCATATAAACGGGAAGCACTCTCTCGAGCCATATAATGGGAAGCTCATGTGAGTTGCATAA
CGGGAAGCTTATTTGGGCTGTATAACGGGAAGCTCATAAGAGCCATAATCGGGAAGCTCATACGA
GCCAATAACGGGTAGCTGAGAAGAGCCATTAATCGAGAAGCTCCGAATAGCCATCTATCAGGAAG
TTCAAGCGAGCCATATTATGAAGCTCCG
Found at i:55585542 original size:49 final size:48
Alignment explanation
Indices: 55585446--55585542 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 48
55585436 TTTGGGCTGT
* * * *
55585446 ATAACGGGAAGCTCATAAGAGCCATAATCGGGAAGCTCATACGAGCCA
1 ATAACGGGAAGCTCAGAAGAGCCATAATCGAGAAGCTCAGAAGAGCCA
* * * *
55585494 ATAACGGGTAGCTGAGAAGAGCCATTAATCGAGAAGCTCCGAATAGCCA
1 ATAACGGGAAGCTCAGAAGAGCCA-TAATCGAGAAGCTCAGAAGAGCCA
55585543 TCTATCAGGA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
48 21 0.52
49 19 0.47
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (48 bp):
ATAACGGGAAGCTCAGAAGAGCCATAATCGAGAAGCTCAGAAGAGCCA
Found at i:55585913 original size:25 final size:25
Alignment explanation
Indices: 55585879--55585968 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
55585869 CTCGAGCCAT
* *
55585879 ATAATGGGAAGCTCATGTGAGTTGC
1 ATAACGGGAAGCTCATGTGAGCTGC
* * * *
55585904 ATAACGGGAAGCTTATTTGGGCTGT
1 ATAACGGGAAGCTCATGTGAGCTGC
**
55585929 ATAACGGGAAGCTCATAAGAGC--C
1 ATAACGGGAAGCTCATGTGAGCTGC
55585952 ATAATCGGGAAGCTCAT
1 ATAA-CGGGAAGCTCAT
55585969 ACGAGCCAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
23 4 0.08
24 12 0.23
25 37 0.70
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (25 bp):
ATAACGGGAAGCTCATGTGAGCTGC
Found at i:55585965 original size:24 final size:23
Alignment explanation
Indices: 55585929--55586015 Score: 93
Period size: 24 Copynumber: 3.6 Consensus size: 23
55585919 TTTGGGCTGT
55585929 ATAACGGGAAGCTCATAAGAGCC
1 ATAACGGGAAGCTCATAAGAGCC
*
55585952 ATAATCGGGAAGCTCATACGAGCC
1 ATAA-CGGGAAGCTCATAAGAGCC
* * *
55585976 AATAACGGGTAGCTGAGAAGAGCC
1 -ATAACGGGAAGCTCATAAGAGCC
*
55586000 ATTAATCGAGAAGCTC
1 A-TAA-CGGGAAGCTC
55586016 CGAATAGCCA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
23 5 0.10
24 36 0.69
25 11 0.21
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.16
Consensus pattern (23 bp):
ATAACGGGAAGCTCATAAGAGCC
Found at i:55586025 original size:49 final size:48
Alignment explanation
Indices: 55585929--55586025 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 48
55585919 TTTGGGCTGT
* * * *
55585929 ATAACGGGAAGCTCATAAGAGCCATAATCGGGAAGCTCATACGAGCCA
1 ATAACGGGAAGCTCAGAAGAGCCATAATCGAGAAGCTCAGAAGAGCCA
* * * *
55585977 ATAACGGGTAGCTGAGAAGAGCCATTAATCGAGAAGCTCCGAATAGCCA
1 ATAACGGGAAGCTCAGAAGAGCCA-TAATCGAGAAGCTCAGAAGAGCCA
55586026 TCTATCGGGA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
48 21 0.52
49 19 0.47
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (48 bp):
ATAACGGGAAGCTCAGAAGAGCCATAATCGAGAAGCTCAGAAGAGCCA
Found at i:55586241 original size:25 final size:25
Alignment explanation
Indices: 55586208--55586271 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
55586198 GAAGAGCTAT
*
55586208 TAACAGGAAGCTCGCAAGAACAATA
1 TAACGGGAAGCTCGCAAGAACAATA
* *
55586233 TAACGGGAAGCTCACAAGAATAATA
1 TAACGGGAAGCTCGCAAGAACAATA
*
55586258 TAACGAGAAGCTCG
1 TAACGGGAAGCTCG
55586272 AGAGGGCTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (25 bp):
TAACGGGAAGCTCGCAAGAACAATA
Found at i:55595888 original size:44 final size:44
Alignment explanation
Indices: 55595832--55596608 Score: 329
Period size: 44 Copynumber: 17.8 Consensus size: 44
55595822 GATCATTTGT
* * *
55595832 TTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTAGC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGC
* * * * *
55595876 TTCAATCTGCTCCGCTGTAATCTCAGGAAGATAAGA--CCT-GA
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGC
*** * * * ** *
55595917 TACGATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATCTTTTA-T
1 TTTAATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-TACTAGC
* * * *
55595961 TTTAATCCGCTCCACTGTAATCTCATGGAGATAGGATTACTATC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGC
* * * *
55596005 TTTAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCCT-TTA-T
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGAT--TACTAGC
* * *
55596049 TTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGC
* *
55596093 TTTAATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTGAC-A-C
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TT-ACTAGC
* * * * * *
55596137 ---GATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-T
1 TTTAATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT--TACTAGC
* *
55596178 TTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGC
* * * ** **
55596222 TTCAATCTACTCCACTGTAATCTCAGGAAGATAAGATCTAAAATTT
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-TACTA-GC
** * * *
55596268 TTTGGTCTGTTCCACTGTAATCTCAGGGAAATAAGA--CCTGACGC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACT-A-GC
* * ** * * *
55596312 ---GATCTACTCTGCTGTAA-CTTCAGAGAGATAAGA-TCCTTCA-T
1 TTTAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTAC-T-AGC
** * *
55596353 TTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAAC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGC
* * * * *
55596397 TTCAATCTGCTTCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-GC
*** * * *
55596443 TTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGA--CCT-GAC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAG-C
* * * ** ** * *
55596485 -GTGATCTACTCTGCTGTAA-CTTCAAAGAGATAAGA-TCCTTCA-T
1 TTTAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTAC-T-AGC
*** * * *
55596528 TTTAATCCATTCCACTGTAATCTTAGGGAGATAGGATTACTAAC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGC
* *
55596572 TTCAATCTGCTCCACTGTAATCTTAGGGAGATAAGAT
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGAT
55596609 CTGACACGAT
Statistics
Matches: 538, Mismatches: 146, Indels: 98
0.69 0.19 0.13
Matches are distributed among these distances:
40 5 0.01
41 101 0.19
42 10 0.02
43 12 0.02
44 328 0.61
45 18 0.03
46 64 0.12
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGC
Found at i:55595968 original size:129 final size:129
Alignment explanation
Indices: 55595725--55596437 Score: 523
Period size: 129 Copynumber: 5.5 Consensus size: 129
55595715 CTCCGCAACG
* * * * * * * *
55595725 TCAGAGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGAAGGTAAAACCTGATG
1 TCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGAAGATAAGACCTGATG
* * * *
55595790 CGATCTACTCTACTGTAACTTCTGTGAGATAAGATCATTTGTTTTAATCCGCTCCACTGTAATC
66 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAATC
* * *
55595854 TCAGGGAAATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGAAGATAAGACCTGATA
1 TCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGAAGATAAGACCTGATG
*
55595919 CGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAATC
66 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAATC
* * * * *
55595983 TCATGGAGATAGGATTACTATCTTTAATCTGCTCCGCTGTAATCTCAAGG-AGATAAGATCCTTT
1 TCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTC-AGGAAGATAAGA-CC-TG
*** ** * * * ** * * *
55596047 ATTTTAATCCGCTCCACTGTAA-TCTCAGGGAGATAGGAT-TACTATCTTTAATCTGCTCCGCTA
63 A-TGCGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCTTTTAT-TTTAATCCGCTCCACTG
55596110 TAATC
125 TAATC
* * * * *
55596115 TCAGGGAGATAAGATT--T-GAC-ACGATCTACTCTACTGTAA-CTTCA-GAGAGATAAGATCCT
1 TCAGGGAGATAGGATTACTAG-CTTCAATCTGCTCCACTGTAATC-TCAGGA-AGATAAGA-CC-
* *** ** * * * ** * * **
55596174 TTATTTTAATCCGCTCCACTGTAA-TCTCAGGGAGATAGGAT-TACTAGCTTCAATCTACTCCAC
61 TGA-TGCGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCTTTTA-TTTTAATCCGCTCCAC
55596237 TGTAATC
123 TGTAATC
* * ** ** *** *
55596244 TCAGGAAGATAAGATCTAAAATTTTTTGGTCTGTTCCACTGTAATCTCAGGGAA-ATAAGACCTG
1 TCAGGGAGATAGGAT-TACTA-GCTTCAATCTGCTCCACTGTAATCTCA-GGAAGATAAGACCTG
* * * * *
55596308 ACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCACTCCACTGTAA
63 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAA
55596373 TC
128 TC
* * * * *
55596375 TCAGGGAGATAGGATTACTAACTTCAATCTGCTTCGCTGTAATCTCAGGGAGATAAGATCTGA
1 TCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGAAGATAAGACCTGA
55596438 AATTCTTCGG
Statistics
Matches: 471, Mismatches: 90, Indels: 46
0.78 0.15 0.08
Matches are distributed among these distances:
127 1 0.00
128 5 0.01
129 297 0.63
130 11 0.02
131 65 0.14
132 64 0.14
133 2 0.00
134 22 0.05
135 2 0.00
136 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (129 bp):
TCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGAAGATAAGACCTGATG
CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAATC
Found at i:55596102 original size:217 final size:216
Alignment explanation
Indices: 55595792--55596300 Score: 725
Period size: 217 Copynumber: 2.3 Consensus size: 216
55595782 ACCTGATGCG
* * *
55595792 ATCTACTCTACTGTAA-CTTCTGTGAGATAAGATCATTTGTTTTAATCCGCTCCACTGTAATCTC
1 ATCTACTCCACTGTAATC-TCAG-GAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTC
* *
55595856 AGGGAAATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGAAGATAAGACCTGATACG
64 AGGGAAATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGAAGATAAGACCTGACACG
* *
55595921 ATCTTCTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAATCTCA
129 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
* * *
55595986 TGGAGATAGGATTACTATCTTTA
194 GGGAGATAGGATTACTAGCTTCA
* * *
55596009 ATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
1 ATCTACTCCACTGTAATCTC-AGGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCA
* * * * **
55596074 GGGAGATAGGATTACTATCTTTAATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTGACACGA
65 GGGAAATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGAAGATAAGACCTGACACGA
55596139 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAG
130 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAG
55596204 GGAGATAGGATTACTAGCTTCA
195 GGAGATAGGATTACTAGCTTCA
* ** * *
55596226 ATCTACTCCACTGTAATCTCAGGAAGATAAGATCTAAAATT-TTTTGGTCTGTTCCACTGTAATC
1 ATCTACTCCACTGTAATCTCAGG-AGATAAGATC---ATTTATTTTAATCCGCTCCACTGTAATC
55596290 TCAGGGAAATA
62 TCAGGGAAATA
55596301 AGACCTGACG
Statistics
Matches: 258, Mismatches: 28, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
216 3 0.01
217 222 0.86
218 2 0.01
219 29 0.11
220 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (216 bp):
ATCTACTCCACTGTAATCTCAGGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAG
GGAAATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGAAGATAAGACCTGACACGAT
CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGG
GAGATAGGATTACTAGCTTCA
Found at i:55596342 original size:175 final size:174
Alignment explanation
Indices: 55595757--55596610 Score: 861
Period size: 175 Copynumber: 4.9 Consensus size: 174
55595747 TTCAATGTAC
* * * * * *
55595757 TCCACTGTAACCTCA-GGAAGGTAAAACCTGATGCGATCTACTCTACTGTAACTTCTGTGAGATA
1 TCCACTGTAATCTCAGGGAA-ATAAGACCTGACGCGATCTACTCTACTGTAACTTCAGAGAGATA
* * * *
55595821 AGATCATTTGTTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTAGCTTCAATCTGC
65 AGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGC
* * * * *
55595886 TCCGCTGTAATCTCAGGAAGATAAGACCT--GA--TACGATCT-T
130 TCCACTGTAATCTCAGGGAGATAAGATCTAAAATCTTCGATCTGT
* * * * * **** ** *
55595926 CTCTACTGTAA-CTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAA-TCTCATG-
1 -TCCACTGTAATC-TCAGGGAAATAAGA-C-CTGA-CGCGATCTACTCTACTGTAACT-TCA-GA
* * * * * * * * *
55595988 GAGATAGGAT--TACTATCTTTAATCTGCTCCGCTGTAATCTCAAGGAGATAAGA-TCCTTTATT
59 GAGATAAGATCCT-TTAT-TTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAC-TAACT
* * * ** ** *
55596050 TTAATCCGCTCCACTGTAATCTCAGGGAGATAGGAT-TACTATCTTTAATCTGC
121 TCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTAAAATCTTCGATCTGT
* * * ** *
55596103 TCCGCTATAATCTCAGGGAGATAAGATTTGACACGATCTACTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATCTACTCTACTGTAACTTCAGAGAGATAA
* *
55596168 GATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTACT
66 GATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCT
* * * *
55596233 CCACTGTAATCTCAGGAAGATAAGATCTAAAATTTTTTGGTCTGT
131 CCACTGTAATCTCAGGGAGATAAGATCTAAAA-TCTTCGATCTGT
*
55596278 TCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATCTACTCTACTGTAACTTCAGAGAGATAA
* *
55596343 GATCCTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCT
66 GATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCT
* * * *
55596408 TCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGT
131 CCACTGTAATCTCAGGGAGATAAGATCT-AAAATCTTCGATCTGT
* * *
55596453 TCCACTGTAATCTCAGGGAAATAAGACCTGACGTGATCTACTCTGCTGTAACTTCAAAGAGATAA
1 TCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATCTACTCTACTGTAACTTCAGAGAGATAA
* ** *
55596518 GATCCTTCATTTTAATCCATTCCACTGTAATCTTAGGGAGATAGGATTACTAACTTCAATCTGCT
66 GATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCT
*
55596583 CCACTGTAATCTTAGGGAGATAAGATCT
131 CCACTGTAATCTCAGGGAGATAAGATCT
55596611 GACACGATCT
Statistics
Matches: 565, Mismatches: 95, Indels: 43
0.80 0.14 0.06
Matches are distributed among these distances:
169 1 0.00
170 16 0.03
171 4 0.01
172 9 0.02
173 178 0.32
174 14 0.02
175 314 0.56
176 28 0.05
177 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (174 bp):
TCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATCTACTCTACTGTAACTTCAGAGAGATAA
GATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCT
CCACTGTAATCTCAGGGAGATAAGATCTAAAATCTTCGATCTGT
Found at i:55597775 original size:14 final size:15
Alignment explanation
Indices: 55597758--55597807 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
55597748 TTTTTTCCTA
55597758 TTTTGACTTTT-ATT
1 TTTTGACTTTTGATT
*
55597772 TTTTGATTTTTGATTT
1 TTTTGACTTTTGA-TT
*
55597788 TTTTGATTTTTTGATT
1 TTTTGA-CTTTTGATT
55597804 TTTT
1 TTTT
55597808 TTGATTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 10 0.31
15 1 0.03
16 14 0.44
17 7 0.22
ACGTcount: A:0.12, C:0.02, G:0.10, T:0.76
Consensus pattern (15 bp):
TTTTGACTTTTGATT
Found at i:55597828 original size:10 final size:9
Alignment explanation
Indices: 55597770--55597827 Score: 86
Period size: 9 Copynumber: 6.7 Consensus size: 9
55597760 TTGACTTTTA
55597770 TTTTTTGA-
1 TTTTTTGAT
55597778 -TTTTTGAT
1 TTTTTTGAT
55597786 TTTTTTGA-
1 TTTTTTGAT
55597794 TTTTTTGATT
1 TTTTTTGA-T
55597804 TTTTTTGAT
1 TTTTTTGAT
55597813 TTTTTTGAT
1 TTTTTTGAT
55597822 TTTTTT
1 TTTTTT
55597828 TTAGTCTGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.15
8 8 0.17
9 23 0.50
10 8 0.17
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.79
Consensus pattern (9 bp):
TTTTTTGAT
Found at i:55599901 original size:19 final size:20
Alignment explanation
Indices: 55599872--55599920 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
55599862 CACTTCGTGA
* *
55599872 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
55599891 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
55599911 AAATG-AATGC
1 AAATGTAATGC
55599921 CTAAAGAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:55603814 original size:75 final size:75
Alignment explanation
Indices: 55603743--55603894 Score: 187
Period size: 75 Copynumber: 2.0 Consensus size: 75
55603733 AGAACATTTT
* ** * *
55603743 CAAATCTATTTATATTTCTGAACCTCATATAAACTTATATAAAATTCATACCTAAACTCAAAATA
1 CAAATCTATTTACATTTCCAAACCTCATATAAACTTATATAAAAATCATACCCAAACTCAAAATA
55603808 ATAACATATA
66 ATAACATATA
* * * ** * *
55603818 CAATTGTATTTGCATTTCCAAATTTCATATAAACTTATATAAAAATCATACCCAAACTCAATACA
1 CAAATCTATTTACATTTCCAAACCTCATATAAACTTATATAAAAATCATACCCAAACTCAAAATA
*
55603883 AGAACATATA
66 ATAACATATA
55603893 CA
1 CA
55603895 TGTAAATCTA
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
75 64 1.00
ACGTcount: A:0.46, C:0.18, G:0.03, T:0.33
Consensus pattern (75 bp):
CAAATCTATTTACATTTCCAAACCTCATATAAACTTATATAAAAATCATACCCAAACTCAAAATA
ATAACATATA
Found at i:55613941 original size:46 final size:46
Alignment explanation
Indices: 55613874--55614187 Score: 457
Period size: 46 Copynumber: 6.8 Consensus size: 46
55613864 ATGGCCCAAA
* *
55613874 CTTGTCTTTCTGTATTTGGCAGCAGAGGAGATCGAAGATAGCAGAT
1 CTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGATAGCAGAT
* *
55613920 CTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAATATAGTAGAT
1 CTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGATAGCAGAT
*
55613966 CTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCAAAGATAGCAGAT
1 CTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGATAGCAGAT
* * *
55614012 CTTGTCTTCCTGTATTTGGCAGCGGAAGAGATCAAAGATAGTAGAT
1 CTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGATAGCAGAT
* * *
55614058 CTTGTCTTCCTGTATCTGGCAGTGGAGTAGATCGAAGATAGCAGAT
1 CTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGATAGCAGAT
* *
55614104 CTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAACAGAT
1 CTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGATAGCAGAT
* ** * * *
55614150 ATTGTCTTCCTGTATCCGGTAGCGAAGCAGATCGAAGA
1 CTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGA
55614188 CACAAGCCTG
Statistics
Matches: 244, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 244 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (46 bp):
CTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGATAGCAGAT
Found at i:55614372 original size:44 final size:44
Alignment explanation
Indices: 55614334--55614461 Score: 159
Period size: 44 Copynumber: 2.9 Consensus size: 44
55614324 CTTATCCCTA
*
55614334 TGAAGTTGCAATGGGGCAAGTTGAAGATACAAGTCTTATCTCCC
1 TGAAGTTGCAGTGGGGCAAGTTGAAGATACAAGTCTTATCTCCC
* * * ** *
55614378 TGAAGTTGCAGTAGAGC-AGATTGAAGTTATTAGTCCTATCTCCC
1 TGAAGTTGCAGTGGGGCAAG-TTGAAGATACAAGTCTTATCTCCC
*
55614422 TGAAGTTGCAGTGGGGCAAGTCGAAGATAGCAAGTCTTAT
1 TGAAGTTGCAGTGGGGCAAGTTGAAGATA-CAAGTCTTAT
55614462 GGAAGCTATA
Statistics
Matches: 67, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
43 2 0.03
44 56 0.84
45 9 0.13
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (44 bp):
TGAAGTTGCAGTGGGGCAAGTTGAAGATACAAGTCTTATCTCCC
Found at i:55614539 original size:44 final size:44
Alignment explanation
Indices: 55614471--55614591 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 44
55614461 TGGAAGCTAT
* * * *
55614471 AAATTACAAACCTTACCTCTCTGAAGTTGTAGTAGAGTAGGTTG
1 AAATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTG
*
55614515 AAATAACAAACCTTGTCTCTCTGAAGTTGCAGTAGAGCAGGTTG
1 AAATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTG
* * * * *
55614559 AAGTCACTAACCTTATCCCCCTGAAGTTGCAGT
1 AAATAACAAACCTTATCTCTCTGAAGTTGCAGT
55614592 GGGGCAAATT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (44 bp):
AAATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTG
Found at i:55615990 original size:3 final size:3
Alignment explanation
Indices: 55615984--55616035 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
55615974 ATCATTACAT
* * * *
55615984 TTA TTA TTA TTA TTG TTA TTT TTA TTA CTA TTA TTA CTA TT- TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
55616030 TTA TTA
1 TTA TTA
55616036 GTTTTATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:55615995 original size:21 final size:20
Alignment explanation
Indices: 55615969--55616035 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 20
55615959 TATTTGAATG
*
55615969 TTATTATCATTACATTTATTA
1 TTATTATTATTACATTT-TTA
*
55615990 TTATTATTGTT--ATTTTTA
1 TTATTATTATTACATTTTTA
*
55616008 TTACTATTATTACTATTTTTTA
1 TTATTATTATTAC-A-TTTTTA
55616030 TTATTA
1 TTATTA
55616036 GTTTTATTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 12 0.32
19 4 0.11
21 10 0.27
22 11 0.30
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.64
Consensus pattern (20 bp):
TTATTATTATTACATTTTTA
Found at i:55616302 original size:16 final size:16
Alignment explanation
Indices: 55616281--55616316 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
55616271 ATGTTCTATA
* *
55616281 ATTTATGTATACATAT
1 ATTTATATATACATAC
55616297 ATTTATATATACATAC
1 ATTTATATATACATAC
55616313 ATTT
1 ATTT
55616317 TTTTAAGCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (16 bp):
ATTTATATATACATAC
Found at i:55616488 original size:24 final size:24
Alignment explanation
Indices: 55616461--55616510 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
55616451 TATTCATATG
55616461 TTCGTTATTACTTTTAGGAAATGT
1 TTCGTTATTACTTTTAGGAAATGT
*
55616485 TTCGTTATTATTTTTAGGAAATGT
1 TTCGTTATTACTTTTAGGAAATGT
55616509 TT
1 TT
55616511 TAGTTTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.06, G:0.16, T:0.54
Consensus pattern (24 bp):
TTCGTTATTACTTTTAGGAAATGT
Found at i:55616523 original size:24 final size:25
Alignment explanation
Indices: 55616464--55616524 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
55616454 TCATATGTTC
*
55616464 GTTATTA-CTTTTAGGAAATGTTTC
1 GTTATTATCTTTTAGGAAATGTTTA
55616488 GTTATTAT-TTTTAGGAAATGTTTTA
1 GTTATTATCTTTTAGGAAATG-TTTA
55616513 GTT-TT-TCTTTTA
1 GTTATTATCTTTTA
55616525 TTGTTTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.03
24 26 0.79
25 6 0.18
ACGTcount: A:0.23, C:0.05, G:0.15, T:0.57
Consensus pattern (25 bp):
GTTATTATCTTTTAGGAAATGTTTA
Found at i:55618124 original size:75 final size:75
Alignment explanation
Indices: 55618023--55618226 Score: 228
Period size: 75 Copynumber: 2.7 Consensus size: 75
55618013 ATCTTCAAGT
* * * * * * ** * *
55618023 CTCATACACACTTTTATAATAGTCATACCTAAATTTAACGCAAGAACATATTCAAATATATTTAT
1 CTCATATAAACTTATATAAAAGTCATACCTAAACTCAAAACAAGAACATATACAAATATATTTAC
*
55618088 ATTTCCGAAC
66 ATTTCCAAAC
* * *
55618098 CTCATATAAACTTATATAAAAGTCATACCTAAACTCAAAACAATAACATATACAATTATATTTGC
1 CTCATATAAACTTATATAAAAGTCATACCTAAACTCAAAACAAGAACATATACAAATATATTTAC
*
55618163 ATTTCCAAAT
66 ATTTCCAAAC
* * * * *
55618173 TTCATATAAACTTACATAAAAATCATACCCAAACTCAATACAAGAACATATACA
1 CTCATATAAACTTATATAAAAGTCATACCTAAACTCAAAACAAGAACATATACA
55618227 TGTAAATATA
Statistics
Matches: 108, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
75 108 1.00
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (75 bp):
CTCATATAAACTTATATAAAAGTCATACCTAAACTCAAAACAAGAACATATACAAATATATTTAC
ATTTCCAAAC
Found at i:55619519 original size:13 final size:13
Alignment explanation
Indices: 55619501--55619525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55619491 TCAAACGATC
55619501 AAATTTTCACACG
1 AAATTTTCACACG
55619514 AAATTTTCACAC
1 AAATTTTCACAC
55619526 ATATAACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:55621618 original size:26 final size:26
Alignment explanation
Indices: 55621553--55621629 Score: 70
Period size: 26 Copynumber: 3.1 Consensus size: 26
55621543 AAGTCTAAGC
* *
55621553 GAGCCA-T-ATCAAGAAGCTC-CGAA
1 GAGCCATTAATCAGGAAGCTCACAAA
*
55621576 GAGCCATTAATCAGGAATCTCACAAA
1 GAGCCATTAATCAGGAAGCTCACAAA
* ** *
55621602 GAGCCTTTAATTGGGAAGCTCACGAA
1 GAGCCATTAATCAGGAAGCTCACAAA
55621628 GA
1 GA
55621630 ACCGTATATC
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
23 6 0.14
24 1 0.02
25 10 0.23
26 26 0.60
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
GAGCCATTAATCAGGAAGCTCACAAA
Found at i:55623357 original size:15 final size:17
Alignment explanation
Indices: 55623337--55623374 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
55623327 TCAAATAATG
55623337 ATTATTC-T-AAATATA
1 ATTATTCTTGAAATATA
*
55623352 ATTATTCTTGAAATATT
1 ATTATTCTTGAAATATA
55623369 ATTATT
1 ATTATT
55623375 TTAATCAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 1 0.05
17 12 0.60
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTATTCTTGAAATATA
Found at i:55623399 original size:25 final size:26
Alignment explanation
Indices: 55623371--55623420 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
55623361 GAAATATTAT
55623371 TATTTT-AATCAAGAATTATT-TTAAC
1 TATTTTCAA-CAAGAATTATTCTTAAC
55623396 TATTTTCAACAAGAATTATTCTTAA
1 TATTTTCAACAAGAATTATTCTTAA
55623421 ATAATAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (26 bp):
TATTTTCAACAAGAATTATTCTTAAC
Found at i:55623537 original size:17 final size:16
Alignment explanation
Indices: 55623493--55623561 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
55623483 TTTGGTTCGC
*
55623493 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
*
55623509 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
55623525 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
*
55623542 TGTATTGGATTAGATG
1 TGTATTGGATTAGAGG
55623558 TGTA
1 TGTA
55623562 ATAGCTAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
16 32 0.67
17 16 0.33
ACGTcount: A:0.26, C:0.01, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:55623547 original size:33 final size:32
Alignment explanation
Indices: 55623493--55623561 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
55623483 TTTGGTTCGC
55623493 TGTATTGGATTAAAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAAAGGCGTATTGGATTAGAGG
* * *
55623525 TGTATTGGGATTAGAGGTGTATTGGATTAGATG
1 TGTATT-GGATTAAAGGCGTATTGGATTAGAGG
55623558 TGTA
1 TGTA
55623562 ATAGCTAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 6 0.18
33 27 0.82
ACGTcount: A:0.26, C:0.01, G:0.35, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAAAGGCGTATTGGATTAGAGG
Found at i:55623918 original size:120 final size:120
Alignment explanation
Indices: 55623780--55625001 Score: 2293
Period size: 120 Copynumber: 10.2 Consensus size: 120
55623770 ATCATATTTA
55623780 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
* *
55623845 TATTCTTATATTAATTTACTGAAATCATAATATAGGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
55623900 AACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
55623965 TATTCTTATATTAATTTACACAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
55624020 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
55624085 TATTCTTATATTAATTTACTCAAATCATAATATATGATATTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
55624140 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
55624205 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
55624260 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
55624325 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
55624380 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
55624445 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
55624500 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
55624565 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
55624620 AACATAATTATTATTAAATATATTTTAATTAAACTATATATTTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
55624685 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTCTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* **
55624740 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
55624805 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
55624860 AACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAA-AAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
55624924 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
55624979 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
55625002 AACTTGAAAA
Statistics
Matches: 1079, Mismatches: 23, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
119 93 0.09
120 986 0.91
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:55623958 original size:17 final size:18
Alignment explanation
Indices: 55623917--55623951 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
55623907 TTATTATTAA
55623917 ATATAATTTAATTAAAAT
1 ATATAATTTAATTAAAAT
55623935 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
55623952 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Done.