Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 271 of 310
Found at i:89612843 original size:20 final size:20
Alignment explanation
Indices: 89612818--89612928 Score: 186
Period size: 20 Copynumber: 5.5 Consensus size: 20
89612808 AGCCTAGGTT
89612818 CAAAGCCATCAATAGTGGCA
1 CAAAGCCATCAATAGTGGCA
*
89612838 CAAAGCCATCAATAATGGCA
1 CAAAGCCATCAATAGTGGCA
* **
89612858 CCAAGCCATCAATAGCAGCA
1 CAAAGCCATCAATAGTGGCA
89612878 CAAAGCCATCAATAGTGGCA
1 CAAAGCCATCAATAGTGGCA
89612898 CAAAGCCATCAATAGTGGCA
1 CAAAGCCATCAATAGTGGCA
89612918 CAAAGCCATCA
1 CAAAGCCATCA
89612929 GTAGGTCTAA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 83 1.00
ACGTcount: A:0.41, C:0.28, G:0.17, T:0.14
Consensus pattern (20 bp):
CAAAGCCATCAATAGTGGCA
Found at i:89616666 original size:20 final size:20
Alignment explanation
Indices: 89616586--89616775 Score: 178
Period size: 20 Copynumber: 9.8 Consensus size: 20
89616576 CAATATTTAA
* *
89616586 CACAAAGCCATGAGTAGCGG
1 CACAAAGCCATCAGTAGTGG
* * * *
89616606 CACGAAGTCGTCCGTAGTGG
1 CACAAAGCCATCAGTAGTGG
89616626 CACAAAGCC-T-AG--GT--
1 CACAAAGCCATCAGTAGTGG
89616640 C-CAAAGCCATCAGTAGTGG
1 CACAAAGCCATCAGTAGTGG
* *
89616659 CACAAAGCCATCAATAATGG
1 CACAAAGCCATCAGTAGTGG
* * * *
89616679 AACCAAGCCATCAATAGCGG
1 CACAAAGCCATCAGTAGTGG
*
89616699 CACAAAGCCATCAATAGTGG
1 CACAAAGCCATCAGTAGTGG
**
89616719 CACAAAGCCATTTGTAGTGG
1 CACAAAGCCATCAGTAGTGG
* *
89616739 TACAAAGCCATCAATAGTGG
1 CACAAAGCCATCAGTAGTGG
89616759 CACAAAGCCATCAGTAG
1 CACAAAGCCATCAGTAG
89616776 GTCCACAGTC
Statistics
Matches: 136, Mismatches: 27, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
13 7 0.05
14 2 0.01
15 2 0.01
16 2 0.01
17 2 0.01
18 1 0.01
19 2 0.01
20 118 0.87
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (20 bp):
CACAAAGCCATCAGTAGTGG
Found at i:89616701 original size:40 final size:40
Alignment explanation
Indices: 89616641--89616775 Score: 198
Period size: 40 Copynumber: 3.4 Consensus size: 40
89616631 AGCCTAGGTC
* *
89616641 CAAAGCCATCAGTAGTGGCACAAAGCCATCAATAATGGAA
1 CAAAGCCATCAGTAGTGGCACAAAGCCATCAATAGTGGCA
* * *
89616681 CCAAGCCATCAATAGCGGCACAAAGCCATCAATAGTGGCA
1 CAAAGCCATCAGTAGTGGCACAAAGCCATCAATAGTGGCA
** *
89616721 CAAAGCCATTTGTAGTGGTACAAAGCCATCAATAGTGGCA
1 CAAAGCCATCAGTAGTGGCACAAAGCCATCAATAGTGGCA
89616761 CAAAGCCATCAGTAG
1 CAAAGCCATCAGTAG
89616776 GTCCACAGTC
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (40 bp):
CAAAGCCATCAGTAGTGGCACAAAGCCATCAATAGTGGCA
Found at i:89616820 original size:36 final size:36
Alignment explanation
Indices: 89616773--89616842 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
89616763 AAGCCATCAG
*
89616773 TAGGTCCACAGTCATCTTT-TGCGACCTGTGCAACCT
1 TAGGTCCACAGTCAT-TTTGTGCAACCTGTGCAACCT
*
89616809 TAGGTCCACAGTCGTTTTGTGCAACCTGTGCAAC
1 TAGGTCCACAGTCATTTTGTGCAACCTGTGCAAC
89616843 TATATCAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 3 0.10
36 28 0.90
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.30
Consensus pattern (36 bp):
TAGGTCCACAGTCATTTTGTGCAACCTGTGCAACCT
Found at i:89625773 original size:14 final size:14
Alignment explanation
Indices: 89625754--89625780 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
89625744 TAGGAATGTC
89625754 ATAAGAAAATTTTG
1 ATAAGAAAATTTTG
89625768 ATAAGAAAATTTT
1 ATAAGAAAATTTT
89625781 ATCGATTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
ATAAGAAAATTTTG
Found at i:89626509 original size:34 final size:34
Alignment explanation
Indices: 89626471--89626537 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
89626461 GTTTAGGGGT
*
89626471 AAAATGGTAATTTTGCCTAGGATGTAAATTGAGC
1 AAAATGGTAATTTTGCCTAAGATGTAAATTGAGC
89626505 AAAATGGTAATTTTGCCTAAGATGTAAATTGAG
1 AAAATGGTAATTTTGCCTAAGATGTAAATTGAG
89626538 TTTAATAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (34 bp):
AAAATGGTAATTTTGCCTAAGATGTAAATTGAGC
Found at i:89632431 original size:26 final size:27
Alignment explanation
Indices: 89632350--89632431 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
89632340 AAGGTTGCTG
* * **
89632350 GTAACAGTAT-CGTAGCAAAGCTGCCA
1 GTAACAGTATATGTCGCAAAGCCACCA
* * *
89632376 GTATCAGTATATGTGGCAAAGCCACTA
1 GTAACAGTATATGTCGCAAAGCCACCA
89632403 GTAACAGTATATGTCGC-AAGCCACCA
1 GTAACAGTATATGTCGCAAAGCCACCA
89632429 GTA
1 GTA
89632432 TAATTCACTT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
26 20 0.43
27 26 0.57
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (27 bp):
GTAACAGTATATGTCGCAAAGCCACCA
Found at i:89634660 original size:29 final size:29
Alignment explanation
Indices: 89634593--89634688 Score: 140
Period size: 29 Copynumber: 3.3 Consensus size: 29
89634583 AAGTCTACAT
* *
89634593 ACATGCATATGGCCCATAAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
89634621 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
89634650 ACATTCGTATGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
89634679 ACATTCATAT
1 ACATTCATAT
89634689 ACATGCTTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
28 21 0.35
29 39 0.65
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:89635528 original size:21 final size:21
Alignment explanation
Indices: 89635502--89635545 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
89635492 ATCTATCCAT
89635502 ATGCCAATTACGCCAAAATCA
1 ATGCCAATTACGCCAAAATCA
89635523 ATGCCAATTACGCCAAAATCA
1 ATGCCAATTACGCCAAAATCA
89635544 AT
1 AT
89635546 CATCGAGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.27, G:0.09, T:0.20
Consensus pattern (21 bp):
ATGCCAATTACGCCAAAATCA
Found at i:89637527 original size:12 final size:12
Alignment explanation
Indices: 89637510--89637536 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
89637500 CTTAATCCAA
89637510 ACTGAACTTAGC
1 ACTGAACTTAGC
89637522 ACTGAACTTAGC
1 ACTGAACTTAGC
89637534 ACT
1 ACT
89637537 AAAGCTTCAG
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:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (12 bp):
ACTGAACTTAGC
Found at i:89638972 original size:48 final size:48
Alignment explanation
Indices: 89638917--89639055 Score: 235
Period size: 48 Copynumber: 2.9 Consensus size: 48
89638907 ATAGCGAAGT
89638917 CATATCCCAGATATGGTCTTACAC-GTAATCTCATATCGATGCCGATGC
1 CATATCCCAGATATGGTCTTACACAG-AATCTCATATCGATGCCGATGC
* *
89638965 CATATCCCAGTTATGGTCTTACACAGGATCTCATATCGATGCCGATGC
1 CATATCCCAGATATGGTCTTACACAGAATCTCATATCGATGCCGATGC
*
89639013 CATATCCCAGATATGGTCTTACACAGGATCTCATATCGATGCC
1 CATATCCCAGATATGGTCTTACACAGAATCTCATATCGATGCC
89639056 ATGTCCCAGA
Statistics
Matches: 87, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
48 86 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (48 bp):
CATATCCCAGATATGGTCTTACACAGAATCTCATATCGATGCCGATGC
Found at i:89639071 original size:42 final size:42
Alignment explanation
Indices: 89638807--89639078 Score: 187
Period size: 48 Copynumber: 6.3 Consensus size: 42
89638797 AGTCCAACTG
* **
89638807 TGGTCTTACACA-AAGTCTCACATTAATGCCATGTCCCAGACA
1 TGGTCTTACACAGAA-TCTCATATCGATGCCATGTCCCAGACA
* * ***
89638849 TGGT-ATACA-A-AATCACATATCGATGCCGCATCCCAGACA
1 TGGTCTTACACAGAATCTCATATCGATGCCATGTCCCAGACA
** * * * * *
89638888 CAGTCTTACAC-GAAATCTCATAGCGAAGTCATATCCCAGATA
1 TGGTCTTACACAG-AATCTCATATCGATGCCATGTCCCAGACA
**
89638930 TGGTCTTACAC-GTAATCTCATATCGATGCCGATGCCATATCCCAGTTA
1 TGGTCTTACACAG-AATCTCATATCGATGCC-ATG-----TCCCAGACA
* *
89638978 TGGTCTTACACAGGATCTCATATCGATGCCGATGCCATATCCCAGATA
1 TGGTCTTACACAGAATCTCATATCGATGCC-ATG-----TCCCAGACA
*
89639026 TGGTCTTACACAGGATCTCATATCGATGCCATGTCCCAGACA
1 TGGTCTTACACAGAATCTCATATCGATGCCATGTCCCAGACA
89639068 TGGTCTTACAC
1 TGGTCTTACAC
89639079 GTATCACAAT
Statistics
Matches: 190, Mismatches: 29, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
39 22 0.12
40 7 0.04
41 4 0.02
42 69 0.36
43 2 0.01
47 3 0.02
48 82 0.43
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (42 bp):
TGGTCTTACACAGAATCTCATATCGATGCCATGTCCCAGACA
Found at i:89639165 original size:37 final size:36
Alignment explanation
Indices: 89639051--89639196 Score: 170
Period size: 37 Copynumber: 4.0 Consensus size: 36
89639041 TCTCATATCG
89639051 ATGCCAT-GTCCCAGAC-ATGGTCTTACACGTATCACA
1 ATGCCATAG-CCCAG-CTATGGTCTTACACGTATCACA
* * * **
89639087 ATGCCATAGCCAAGCTATGGTCTTATATGTCATCATG
1 ATGCCATAGCCCAGCTATGGTCTTACACGT-ATCACA
*
89639124 ATGCCATAGCCCAGCTATGGTCTTACACGCTATTACA
1 ATGCCATAGCCCAGCTATGGTCTTACACG-TATCACA
* *
89639161 ATGCCATAGCCCAGCCATGGTCTTACACGTACCACA
1 ATGCCATAGCCCAGCTATGGTCTTACACGTATCACA
89639197 TGTACTGCCA
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
35 1 0.01
36 28 0.30
37 62 0.67
38 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.26
Consensus pattern (36 bp):
ATGCCATAGCCCAGCTATGGTCTTACACGTATCACA
Found at i:89645413 original size:40 final size:40
Alignment explanation
Indices: 89645358--89645685 Score: 548
Period size: 40 Copynumber: 8.2 Consensus size: 40
89645348 GCATGAGCAT
89645358 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * *
89645398 TTGATATATCCGGGCTAAGACCCGAAGGCAATTCTGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
89645438 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTACGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
89645478 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
89645518 TTGATAAATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
89645558 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
89645598 TTGATATATCCGGGTTAAGACCCGAAGGCAATTATGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
89645638 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
89645678 TTGCTATA
1 TTGATATA
89645686 CCCGACCTTG
Statistics
Matches: 266, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 266 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:89648764 original size:42 final size:42
Alignment explanation
Indices: 89648658--89648771 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 42
89648648 CGTACCAATG
* * * *
89648658 CCATATCCCAGATATGGTCATACATGTAATCTCATATCGATT
1 CCATATCCCAGATATGGTCTTACACGTAATCCCATATCGATA
* ** *
89648700 CCAATATCCCAGCTATTATCTTATACG-AAGTCCCATATCGATA
1 CC-ATATCCCAGATATGGTCTTACACGTAA-TCCCATATCGATA
*
89648743 CCATATCCCAGATATGGTCTTACATGTAA
1 CCATATCCCAGATATGGTCTTACACGTAA
89648772 ATCTCAGTAA
Statistics
Matches: 56, Mismatches: 13, Indels: 5
0.76 0.18 0.07
Matches are distributed among these distances:
42 23 0.41
43 33 0.59
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACGTAATCCCATATCGATA
Found at i:89650937 original size:116 final size:116
Alignment explanation
Indices: 89650733--89650965 Score: 466
Period size: 116 Copynumber: 2.0 Consensus size: 116
89650723 CAGTTAGGAG
89650733 ACTGCACATAAATATTTAATTGTGTAAGAAAGTGACACAATTGAGTGTTTGGCTTAGTAGTTATG
1 ACTGCACATAAATATTTAATTGTGTAAGAAAGTGACACAATTGAGTGTTTGGCTTAGTAGTTATG
89650798 TGCTCTGGAAGTGTTTGAGAGGTCATGGGTTTAAGTCTTGGCTTCCACAAA
66 TGCTCTGGAAGTGTTTGAGAGGTCATGGGTTTAAGTCTTGGCTTCCACAAA
89650849 ACTGCACATAAATATTTAATTGTGTAAGAAAGTGACACAATTGAGTGTTTGGCTTAGTAGTTATG
1 ACTGCACATAAATATTTAATTGTGTAAGAAAGTGACACAATTGAGTGTTTGGCTTAGTAGTTATG
89650914 TGCTCTGGAAGTGTTTGAGAGGTCATGGGTTTAAGTCTTGGCTTCCACAAA
66 TGCTCTGGAAGTGTTTGAGAGGTCATGGGTTTAAGTCTTGGCTTCCACAAA
89650965 A
1 A
89650966 TTTTGGTTTT
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 117 1.00
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (116 bp):
ACTGCACATAAATATTTAATTGTGTAAGAAAGTGACACAATTGAGTGTTTGGCTTAGTAGTTATG
TGCTCTGGAAGTGTTTGAGAGGTCATGGGTTTAAGTCTTGGCTTCCACAAA
Found at i:89652860 original size:25 final size:25
Alignment explanation
Indices: 89652832--89652887 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 25
89652822 ATGGAGGAAG
89652832 CATACTGATACTGGTGGCTTTGCCA
1 CATACTGATACTGGTGGCTTTGCCA
* *
89652857 CATATATTGTTACTGGTGGCTTTGCCA
1 C--ATACTGATACTGGTGGCTTTGCCA
89652884 CATA
1 CATA
89652888 TCTATTGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 4 0.15
27 23 0.85
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (25 bp):
CATACTGATACTGGTGGCTTTGCCA
Found at i:89656637 original size:27 final size:27
Alignment explanation
Indices: 89656597--89656679 Score: 139
Period size: 27 Copynumber: 3.1 Consensus size: 27
89656587 TGGAGGAAGC
* *
89656597 ATACTGATACTGGTGGCTTCGCCACAT
1 ATACTGTTACTGGTGGCTTTGCCACAT
*
89656624 ATACTGTTATTGGTGGCTTTGCCACAT
1 ATACTGTTACTGGTGGCTTTGCCACAT
89656651 ATACTGTTACTGGTGGCTTTGCCACAT
1 ATACTGTTACTGGTGGCTTTGCCACAT
89656678 AT
1 AT
89656680 CTATTGATAC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (27 bp):
ATACTGTTACTGGTGGCTTTGCCACAT
Found at i:89661377 original size:29 final size:29
Alignment explanation
Indices: 89661342--89661415 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
89661332 GTTGTGAGAT
* *
89661342 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
89661371 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
89661400 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
89661416 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:89677892 original size:43 final size:43
Alignment explanation
Indices: 89677845--89677967 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 43
89677835 TTATGGTTAT
* *
89677845 TGAGATTTAAATGTAAGACCAAATCTGGGATATGGCATCGATA
1 TGAGATTTACATGTAAGACCATATCTGGGATATGGCATCGATA
* * * *
89677888 TGAGATTT-CGTGTAAGACCGTAGCTGGGCTATTGGCATCGATA
1 TGAGATTTACATGTAAGACCATATCTGGGATA-TGGCATCGATA
* *
89677931 TGAGA-TTACATGTAATACCATATCTAGGATATGGCAT
1 TGAGATTTACATGTAAGACCATATCTGGGATATGGCAT
89677968 TGGTACGGTA
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 25 0.38
43 41 0.62
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (43 bp):
TGAGATTTACATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:89679596 original size:24 final size:26
Alignment explanation
Indices: 89679533--89679603 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 26
89679523 GACTCACCAC
* *
89679533 AGCTCATATGAGCTTACTGATATATT
1 AGCTCGTAAGAGCTTACTGATATATT
* *
89679559 AGCTCGTAAAAGCTTACTG-T-TCTT
1 AGCTCGTAAGAGCTTACTGATATATT
**
89679583 AGCTCGTGGGAGCTTACTGAT
1 AGCTCGTAAGAGCTTACTGAT
89679604 TCAACTCGTC
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
24 19 0.51
25 2 0.05
26 16 0.43
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.35
Consensus pattern (26 bp):
AGCTCGTAAGAGCTTACTGATATATT
Found at i:89691440 original size:36 final size:36
Alignment explanation
Indices: 89691393--89691465 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
89691383 AATTGTGTGT
89691393 ACAATCGAGCTAGGTCACATGAGTGGTGCTAAGTGA
1 ACAATCGAGCTAGGTCACATGAGTGGTGCTAAGTGA
*
89691429 ACAATTGAGCTAGGTCACATGAGTGGTGCTAAGTGA
1 ACAATCGAGCTAGGTCACATGAGTGGTGCTAAGTGA
89691465 A
1 A
89691466 GGCCACTATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (36 bp):
ACAATCGAGCTAGGTCACATGAGTGGTGCTAAGTGA
Found at i:89695344 original size:85 final size:86
Alignment explanation
Indices: 89695188--89695347 Score: 268
Period size: 85 Copynumber: 1.9 Consensus size: 86
89695178 TAAAACGGCT
* *
89695188 TAATCGGTAAAAGTTGTTATTGTTCATAACTATATGTTAGAGTGAGAATTTAATGTTTCCATAGA
1 TAATCGGTAAAAGTTGTTATTGTTCATAAC-ATATGTTAGAGTGAGAATTTAATCTTGCCATAGA
89695253 AGGGAAAAATTATCAGCGTGTA
65 AGGGAAAAATTATCAGCGTGTA
* *
89695275 TAATCGGTAAAAGTTGTTATTGTTCATAAC-TGTGTTAGAGTGAGAATTTGATCTTGCCATAGAA
1 TAATCGGTAAAAGTTGTTATTGTTCATAACATATGTTAGAGTGAGAATTTAATCTTGCCATAGAA
89695339 GGGAAAAAT
66 GGGAAAAAT
89695348 GACCAGCATG
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
85 39 0.57
87 30 0.43
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (86 bp):
TAATCGGTAAAAGTTGTTATTGTTCATAACATATGTTAGAGTGAGAATTTAATCTTGCCATAGAA
GGGAAAAATTATCAGCGTGTA
Found at i:89696045 original size:67 final size:67
Alignment explanation
Indices: 89695970--89696189 Score: 431
Period size: 67 Copynumber: 3.3 Consensus size: 67
89695960 CATCATGTGT
89695970 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
89696035 AG
66 AG
89696037 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
89696102 AG
66 AG
89696104 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
89696169 AG
66 AG
*
89696171 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGGGATA
89696190 AACTGGCTAG
Statistics
Matches: 152, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 152 1.00
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.20
Consensus pattern (67 bp):
ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
AG
Found at i:89699490 original size:26 final size:26
Alignment explanation
Indices: 89699454--89699506 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
89699444 CTAAGCTTAG
* *
89699454 TAAGCTTGTATAATTTAGAATTAAAC
1 TAAGCTCGTATAATTCAGAATTAAAC
89699480 TAAGCTCGTATAATTCAGAATTAAAC
1 TAAGCTCGTATAATTCAGAATTAAAC
89699506 T
1 T
89699507 TTCCATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (26 bp):
TAAGCTCGTATAATTCAGAATTAAAC
Found at i:89699819 original size:22 final size:22
Alignment explanation
Indices: 89699791--89699842 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
89699781 GCTGGAAATG
* *
89699791 GGAAGCTCTATTGATCTGAACA
1 GGAAGCTCTATTGAGCAGAACA
* *
89699813 GGAAGCTCTTTTGAGCAGAACG
1 GGAAGCTCTATTGAGCAGAACA
89699835 GGAAGCTC
1 GGAAGCTC
89699843 ATACGAGCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (22 bp):
GGAAGCTCTATTGAGCAGAACA
Found at i:89700058 original size:16 final size:16
Alignment explanation
Indices: 89700014--89700062 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
89700004 CATTGCAAGT
89700014 ATTATAGTTCGATTCTA
1 ATTATAGTTCGATTC-A
89700031 ATTATA---CGATTCA
1 ATTATAGTTCGATTCA
89700044 ATTATAGTTCGATTCA
1 ATTATAGTTCGATTCA
89700060 ATT
1 ATT
89700063 CAATTCACTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.24
14 6 0.21
16 10 0.34
17 6 0.21
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (16 bp):
ATTATAGTTCGATTCA
Found at i:89703961 original size:17 final size:17
Alignment explanation
Indices: 89703939--89703981 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
89703929 GAGGCCATGT
89703939 GGGCCCAATGGGCCTAC
1 GGGCCCAATGGGCCTAC
89703956 GGGCCCAATGGGCCTAC
1 GGGCCCAATGGGCCTAC
89703973 GGGCCCAAT
1 GGGCCCAAT
89703982 TGGAGAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.19, C:0.35, G:0.35, T:0.12
Consensus pattern (17 bp):
GGGCCCAATGGGCCTAC
Found at i:89704206 original size:27 final size:27
Alignment explanation
Indices: 89704176--89704544 Score: 233
Period size: 27 Copynumber: 13.7 Consensus size: 27
89704166 CCCCCAGTTG
* *
89704176 TAAAATTACCAAAGTACCCCCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* *
89704203 TAAAACTACCCAAAA-ATCCTCGATTTA
1 TAAAATTA-CCAAAATACCCTCGATTTA
* ***
89704230 TAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * * ***
89704257 CAGAATTATCATTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* *** *
89704284 TAGAATTACCATTTTACCCTCGACTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * ***
89704311 TAGAATTATCATTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * ***
89704338 TAGAATTACTATTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * **** *
89704365 CAAAATTATCGTTTTACCCTCAATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * * *
89704392 CAAAATTACTAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* *
89704419 CAAAATTACCAAAATACCCTCGA-TCA
1 TAAAATTACCAAAATACCCTCGATTTA
* *
89704445 GTAAAATTACCAAAATACCC-CTGGTTTG
1 -TAAAATTACCAAAATACCCTC-GATTTA
* * * *
89704473 TAAAATTACTAAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCCTCGATTTA
* *
89704500 TAAAATTACCAAAATACCCTTGATTTG
1 TAAAATTACCAAAATACCCTCGATTTA
89704527 TAAAA-TACCAAAATACCC
1 TAAAATTACCAAAATACCC
89704545 CTATAGGGTA
Statistics
Matches: 290, Mismatches: 46, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
26 19 0.07
27 265 0.91
28 6 0.02
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCGATTTA
Found at i:89704278 original size:54 final size:54
Alignment explanation
Indices: 89704220--89704400 Score: 290
Period size: 54 Copynumber: 3.4 Consensus size: 54
89704210 ACCCAAAAAT
89704220 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTATCATTTTAC
1 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTATCATTTTAC
* *
89704274 CCTCGATTTATAGAATTACCATTTTACCCTCGACTTATAGAATTATCATTTTAC
1 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTATCATTTTAC
* * *
89704328 CCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTATCGTTTTAC
1 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTATCATTTTAC
* * *
89704382 CCTCAATTTACAAAATTAC
1 CCTCGATTTATAGAATTAC
89704401 TAAAATACCC
Statistics
Matches: 117, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 117 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (54 bp):
CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTATCATTTTAC
Found at i:89704410 original size:54 final size:54
Alignment explanation
Indices: 89704220--89704426 Score: 279
Period size: 54 Copynumber: 3.8 Consensus size: 54
89704210 ACCCAAAAAT
* *
89704220 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTATCATTTTAC
1 CCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTATCATTTTAC
* * * *
89704274 CCTCGATTTATAGAATTACCATTTTACCCTCGACTTATAGAATTATCATTTTAC
1 CCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTATCATTTTAC
*
89704328 CCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTATCGTTTTAC
1 CCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTATCATTTTAC
* * * *** * *
89704382 CCTCAATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTA
1 CCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTA
89704427 CCAAAATACC
Statistics
Matches: 138, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 138 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (54 bp):
CCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTATCATTTTAC
Found at i:89704567 original size:27 final size:27
Alignment explanation
Indices: 89704532--89704775 Score: 301
Period size: 27 Copynumber: 9.1 Consensus size: 27
89704522 ATTTGTAAAA
* *
89704532 TACCAAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
89704559 TACTGAAATACCCTTGTA-GGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
89704585 TACCGAAATACCCTTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
89704612 TACTGAAATACCCCTGTAAGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
89704639 TACCGAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
89704666 TACTGAAATACCCCTGTAAGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
89704693 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
** *
89704720 TACTAAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * * *
89704747 TACCGAGATACCCATGTGGGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
89704774 TA
1 TA
89704776 TCATTTTACC
Statistics
Matches: 184, Mismatches: 32, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 24 0.13
27 160 0.87
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAT
Found at i:89704769 original size:54 final size:54
Alignment explanation
Indices: 89704532--89704775 Score: 346
Period size: 54 Copynumber: 4.5 Consensus size: 54
89704522 ATTTGTAAAA
* * * * *
89704532 TACCAAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTGT-AGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAAT
89704585 TACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAAT
* *
89704639 TACCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAAT
* * * *
89704693 TACCGAAATACCCTTGTAGGGTAGAAATACTAAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAAT
* * * *
89704747 TACCGAGATACCCATGTGGGGTAAAATTA
1 TACCGAAATACCCTTGTAGGGTAGAATTA
89704776 TCATTTTACC
Statistics
Matches: 172, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 40 0.23
54 132 0.77
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (54 bp):
TACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAAT
Found at i:89705064 original size:24 final size:25
Alignment explanation
Indices: 89704982--89705051 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
89704972 AGGAAGTGCT
*
89704982 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
89705007 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
89705032 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
89705052 ATTAAAAGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:89705075 original size:50 final size:50
Alignment explanation
Indices: 89704982--89705076 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
89704972 AGGAAGTGCT
**
89704982 AAAAGGGCTTTGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCAAAAAGGGCTAGGCCCCAGTTTATCA
**
89705032 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCAAAAAG-GGCTAGGCC-CCAGTT
89705077 ATATGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 24 0.62
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCAAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:89709443 original size:40 final size:40
Alignment explanation
Indices: 89709395--89709502 Score: 189
Period size: 40 Copynumber: 2.7 Consensus size: 40
89709385 GCAAACACAT
* * *
89709395 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
89709435 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
89709475 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
89709503 TCCAATGCTC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:89724981 original size:27 final size:27
Alignment explanation
Indices: 89724962--89725145 Score: 201
Period size: 27 Copynumber: 6.8 Consensus size: 27
89724952 ATTACCAAAG
* *
89724962 TACCCCCGATTTATAGAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
89724989 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
89725016 TACCCTCGATTTATAGAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
89725043 TACCCCTCGATTTACAGAATTATCGTTT
1 TACCCC-CGATTTACAGAATTACCATTT
* * *
89725071 TACCCTCGATTTACAGAATTGCCGTTT
1 TACCCCCGATTTACAGAATTACCATTT
*
89725098 TACCCTCGA-TTACAGAATTA-CAGTTT
1 TACCCCCGATTTACAGAATTACCA-TTT
** *
89725124 TACCCTTGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
89725146 TAAAATACCC
Statistics
Matches: 138, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
25 1 0.01
26 21 0.15
27 93 0.67
28 23 0.17
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCATTT
Found at i:89725070 original size:82 final size:81
Alignment explanation
Indices: 89724962--89725145 Score: 275
Period size: 82 Copynumber: 2.3 Consensus size: 81
89724952 ATTACCAAAG
*
89724962 TACCCC-CGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAT
1 TACCCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGA-
*
89725026 TTATAGAATTACCA-TTT
65 TTACAGAATTA-CAGTTT
* *
89725043 TACCCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTGCCGTTTTACCCTCGAT
1 TACCCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAT
89725108 TACAGAATTACAGTTT
66 TACAGAATTACAGTTT
* *
89725124 TA-CCCTTGATTTACAAAATTAC
1 TACCCCTCGATTTACAGAATTAC
89725146 TAAAATACCC
Statistics
Matches: 94, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
80 19 0.20
81 21 0.22
82 54 0.57
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (81 bp):
TACCCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAT
TACAGAATTACAGTTT
Found at i:89725074 original size:55 final size:53
Alignment explanation
Indices: 89724962--89725145 Score: 262
Period size: 55 Copynumber: 3.4 Consensus size: 53
89724952 ATTACCAAAG
* *
89724962 TACCCCCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTA-CGTTT
* *
89725016 TACCCTCGATTTATAGAATTACCATTTTACCCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTA-CCCTCGATTTACAGAATTA-CGTTT
*
89725071 TACCCTCGATTTACAGAATTGCCGTTTTACCCTCGA-TTACAGAATTACAGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTAC-GTTT
* *
89725124 TACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
89725146 TAAAATACCC
Statistics
Matches: 119, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 34 0.29
54 34 0.29
55 50 0.42
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (53 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACGTTT
Found at i:89725154 original size:27 final size:27
Alignment explanation
Indices: 89725124--89725292 Score: 180
Period size: 27 Copynumber: 6.3 Consensus size: 27
89725114 ATTACAGTTT
* *
89725124 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
*
89725151 TACCCTTGGTTTATAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* *
89725178 TACCC-TCAATTAGTAAAATTACCAAAA
1 TACCCTTGATTTA-TAAAATTACCAAAA
* * * *
89725205 TACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* * *
89725232 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* * *
89725259 TACCATTGATTTGTAAAA-TACCGAAA
1 TACCCTTGATTTATAAAATTACCAAAA
89725285 TACCCTTG
1 TACCCTTG
89725293 TAGGGTAGAA
Statistics
Matches: 123, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
26 18 0.15
27 102 0.83
28 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
TACCCTTGATTTATAAAATTACCAAAA
Found at i:89725224 original size:81 final size:80
Alignment explanation
Indices: 89725138--89725289 Score: 232
Period size: 81 Copynumber: 1.9 Consensus size: 80
89725128 CTTGATTTAC
* *
89725138 AAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTCAATTAGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCATCAATTAGTAAAA-TACCAA
89725203 AATACCCCTGGTTTGT
65 AATACCCCTGGTTTGT
* ** * *
89725219 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCATTGATTTGTAAAATACCGAA
1 AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCATCAATTAGTAAAATACCAAA
89725284 ATACCC
66 ATACCC
89725290 TTGTAGGGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 12 0.19
81 52 0.81
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.30
Consensus pattern (80 bp):
AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCATCAATTAGTAAAATACCAAA
ATACCCCTGGTTTGT
Found at i:89725319 original size:27 final size:27
Alignment explanation
Indices: 89725281--89725520 Score: 245
Period size: 27 Copynumber: 8.9 Consensus size: 27
89725271 GTAAAATACC
89725281 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACT
** *
89725308 GAAATACCCTTGTATAGTAGAAATAC-
1 GAAATACCCTTGTAGGGTAGAATTACT
*
89725334 GAAATA-CCTCTGTAGGGTAGAATTATT
1 GAAATACCCT-TGTAGGGTAGAATTACT
*
89725361 GAAATACCCCTT-TAAGGTAGAATTA-T
1 GAAATA-CCCTTGTAGGGTAGAATTACT
*
89725387 CGAAATACCCCTGTAGGGTAGAATTACT
1 -GAAATACCCTTGTAGGGTAGAATTACT
* * * *
89725415 AAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACT
* * *
89725442 GAAATACCCTTGTAGGGCAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACT
* * *
89725469 GAAATACCCCTGTAGGATAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACT
* * * *
89725496 GAGATACCCATGTGGGGTAAAATTA
1 GAAATACCCTTGTAGGGTAGAATTA
89725521 TCATTTTGCC
Statistics
Matches: 179, Mismatches: 27, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
25 3 0.02
26 23 0.13
27 148 0.83
28 2 0.01
29 3 0.02
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACT
Found at i:89725401 original size:54 final size:54
Alignment explanation
Indices: 89725277--89725520 Score: 305
Period size: 54 Copynumber: 4.5 Consensus size: 54
89725267 ATTTGTAAAA
* * *
89725277 TACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCTTGTATA-GTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTA-AGGTAGAAT
* * *
89725331 TA-CGAAATACCTCTGTAGGGTAGAATTATTGAAATACCCCTTTAAGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAAT
* *
89725384 TATCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAAT
* * * *
89725438 TACCGAAATACCCTTGTAGGGCAGAAATACCGAAATACCCCTGT-AGGATAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGG-TAGAAT
* * * *
89725492 TACCGAGATACCCATGTGGGGTAAAATTA
1 TACCGAAATACCCCTGTAGGGTAGAATTA
89725521 TCATTTTGCC
Statistics
Matches: 165, Mismatches: 22, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
52 1 0.01
53 48 0.29
54 116 0.70
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (54 bp):
TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAAT
Found at i:89725503 original size:81 final size:81
Alignment explanation
Indices: 89725277--89725504 Score: 273
Period size: 81 Copynumber: 2.8 Consensus size: 81
89725267 ATTTGTAAAA
* * * *
89725277 TACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCTTGTA-TAGTAGAAATA-CGAAATA
1 TACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGA-TAGAATTACCGAAATA
* *
89725340 CCTCTGTAGGGTAGAAT
65 CCCCTGTAAGGTAGAAT
** * * * **
89725357 TATTGAAATACCCCTT-TAAGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACTAAAATA
1 TACCGAAATA-CCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCGAAATA
89725421 CCCCTGTAAGGTAGAAT
65 CCCCTGTAAGGTAGAAT
* * *
89725438 TACCGAAATACCCTTGTAGGGCAGAAATACCGAAATACCCCTGTAGGATAGAATTACCGAGATAC
1 TACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCGAAATAC
89725503 CC
66 CC
89725505 ATGTGGGGTA
Statistics
Matches: 121, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
80 45 0.37
81 76 0.63
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (81 bp):
TACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCGAAATAC
CCCTGTAAGGTAGAAT
Found at i:89725685 original size:16 final size:16
Alignment explanation
Indices: 89725664--89725694 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89725654 CAAATATGGG
89725664 CATGACATTCTGCATA
1 CATGACATTCTGCATA
*
89725680 CATGACATTTTGCAT
1 CATGACATTCTGCAT
89725695 GGGTTGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (16 bp):
CATGACATTCTGCATA
Found at i:89725811 original size:24 final size:25
Alignment explanation
Indices: 89725727--89725820 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
89725717 AGGAAGTGCT
*
89725727 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
89725752 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
89725777 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
89725801 AAAAGGTCTTTTCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
89725821 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
24 18 0.28
25 47 0.72
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:89725827 original size:23 final size:24
Alignment explanation
Indices: 89725727--89725833 Score: 126
Period size: 25 Copynumber: 4.4 Consensus size: 24
89725717 AGGAAGTGCT
* *
89725727 AAAAGGGCTTTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
89725751 GAAAAGGGCTTTGCCCCAGTTTACC
1 -AAAAGGGCTTTGCCCCAGTTTATC
89725776 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
* * *
89725801 AAAAGGTCTTTTCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
89725824 AAAAGAGGCT
1 AAAAG-GGCT
89725834 AGGCCTCTAG
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
23 9 0.12
24 19 0.25
25 47 0.63
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:89731543 original size:40 final size:40
Alignment explanation
Indices: 89731445--89731662 Score: 266
Period size: 40 Copynumber: 5.5 Consensus size: 40
89731435 AAGCCAAGTA
* * *
89731445 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
89731483 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
89731523 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
89731563 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
89731603 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATA
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
*
89731644 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
89731663 TTATCATCCA
Statistics
Matches: 159, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 12 0.08
39 17 0.11
40 104 0.65
41 22 0.14
42 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:89733886 original size:15 final size:15
Alignment explanation
Indices: 89733862--89733909 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
89733852 AGGAAACCGA
89733862 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
89733877 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
89733891 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
89733907 ATA
1 ATA
89733910 CGATACTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:89736567 original size:126 final size:128
Alignment explanation
Indices: 89736336--89736598 Score: 413
Period size: 126 Copynumber: 2.1 Consensus size: 128
89736326 TTTACACAAA
89736336 ATAAATATATTGCTATACATGCCATACTTAAGTAGTTGTACAAGCCATTTACCAAGATAAAAGTC
1 ATAAATATATTGCTATACATGCCATACTTAAGTA-TTGTACAAGCCATTTACCAAGATAAAAGTC
* * *
89736401 CTTTGGATAGTGTGATCGAACTTTCGACCTGTCCCAATTCCTGAGCCGGCTTGTTCAAAACTAC
65 CTTTGGATAGTGTGATCGAACCTTCGACCCGTCCCAATTCCCGAGCCGGCTTGTTCAAAACTAC
* *
89736465 ATAAATATATTGCTATACATGCCATACTTAAGT-TT-TACAAGCCATTTACCCAGATGAAAGTCC
1 ATAAATATATTGCTATACATGCCATACTTAAGTATTGTACAAGCCATTTACCAAGATAAAAGTCC
* ** *
89736528 TTTGGATAGTGTGATCGAACCTTCGGCCCGTCCTGATTCCCGAGCTGGCTTGTTCAAAACTAC
66 TTTGGATAGTGTGATCGAACCTTCGACCCGTCCCAATTCCCGAGCCGGCTTGTTCAAAACTAC
89736591 AGTAAATA
1 A-TAAATA
89736599 AAGAGGAGGG
Statistics
Matches: 124, Mismatches: 9, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
126 83 0.67
127 8 0.06
129 33 0.27
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (128 bp):
ATAAATATATTGCTATACATGCCATACTTAAGTATTGTACAAGCCATTTACCAAGATAAAAGTCC
TTTGGATAGTGTGATCGAACCTTCGACCCGTCCCAATTCCCGAGCCGGCTTGTTCAAAACTAC
Found at i:89737030 original size:46 final size:46
Alignment explanation
Indices: 89736963--89737240 Score: 211
Period size: 46 Copynumber: 5.7 Consensus size: 46
89736953 CCGCCCCTAA
* *
89736963 GTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAG
1 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
* * * * **
89737009 GTGAACTCAGACTCAACTCAACGAGTTTGG--ATGC-CTAGTTACATTTC
1 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA-TAG
**
89737056 ACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAATG
1 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A-G
* * * *
89737104 CCTAGTTACATTTCACGAACTCAGACTCAACTCAACGAGTTTGGACATTCGCATCCATAG
1 ----GTGA-A---CTCGGACTC------AACTCAACGAGTTCGGACATTCGCATCCATAG
*
89737164 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
*
89737210 GTGAACTGGGACTCAACTCAACGAGTTCGGA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGA
89737241 TGCTCAACCA
Statistics
Matches: 182, Mismatches: 27, Indels: 46
0.71 0.11 0.18
Matches are distributed among these distances:
43 1 0.01
44 4 0.02
46 91 0.50
47 30 0.16
49 4 0.02
50 1 0.01
52 8 0.04
53 1 0.01
55 1 0.01
56 10 0.05
60 1 0.01
61 1 0.01
62 29 0.16
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
GTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAG
Found at i:89737114 original size:62 final size:62
Alignment explanation
Indices: 89737039--89737162 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
89737029 ACGAGTTTGG
*
89737039 ATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
1 ATGCCTAGTTACATTTCACGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
*
89737101 ATGCCTAGTTACATTTCACGAACTCAGACTCAACTCAACGAGTTTGGACATTCGCATCCATA
1 ATGCCTAGTTACATTTCACGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
89737163 GGTGAACTCG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (62 bp):
ATGCCTAGTTACATTTCACGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
Found at i:89737259 original size:46 final size:47
Alignment explanation
Indices: 89737120--89737259 Score: 130
Period size: 46 Copynumber: 3.0 Consensus size: 47
89737110 TACATTTCAC
* * * *
89737120 GAACTCAGACTCAACTCAACGAGTTTGGACATTCGCATCCA---TAGGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATCCTA-GT
* * *
89737166 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATCCTAGT
* *
89737212 GAACTGGGACTCAACTCAACGAGTTCGG-ATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATCCTAGT
89737258 GA
1 GA
89737260 CATGTCACTT
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
44 9 0.11
46 73 0.88
47 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATCCTAGT
Found at i:89739757 original size:40 final size:40
Alignment explanation
Indices: 89739702--89739923 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
89739692 TATTCGAATG
*
89739702 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89739742 ATATCCGGCCTAAGTCCCGAAGGCATTTGTGTTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89739782 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
89739822 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89739862 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
* *
89739902 ATATCC-AGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
89739924 TACTTGGGTT
Statistics
Matches: 165, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 13 0.08
40 149 0.90
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:89746344 original size:65 final size:65
Alignment explanation
Indices: 89746221--89746349 Score: 154
Period size: 65 Copynumber: 2.0 Consensus size: 65
89746211 ATGTGGATAT
* * * *
89746221 GAATGTGTGAAAGTTTTAAGCTTCGATTTAGTCGATTGCATGTGAATTTAGTTAATAGGACTTAA
1 GAATGTGTGAAAGTTTCAAGCTCCAATTTAGTCGATTGCATGTGAAATTAGTTAATAGGACTTAA
* * * *
89746286 GAATGTGTGAAAGTTTCATGCTCCAATTTTGTC-ATTAGTATGTTAAATTA-TTAAATAGGACTT
1 GAATGTGTGAAAGTTTCAAGCTCCAATTTAGTCGATT-GCATGTGAAATTAGTT-AATAGGACTT
89746349 A
64 A
89746350 TGTGAGGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
64 5 0.09
65 49 0.91
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (65 bp):
GAATGTGTGAAAGTTTCAAGCTCCAATTTAGTCGATTGCATGTGAAATTAGTTAATAGGACTTAA
Found at i:89748049 original size:40 final size:40
Alignment explanation
Indices: 89747994--89748937 Score: 1433
Period size: 40 Copynumber: 23.6 Consensus size: 40
89747984 TATTCGAATG
89747994 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89748034 ATATCCGGGCTAAGTCCCGAAAGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89748074 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89748114 ATATCCGGGCTAAGTCCCGAAAGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89748154 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89748194 ATATCCGGGCTAAGTCCCGAAAGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89748234 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89748274 ATATCCGGGCTAAGTCCCGAAAGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89748314 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89748354 ATATCCGGGCTAAGTCCCGAAAGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89748394 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89748434 ATATCCGGGCTAAGTCCCGAAAGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89748474 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89748514 ATATCCGGGCTAAGTCCCGAAAGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89748554 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89748594 ATATCCGGGCTAAGTCCCGAAAGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89748634 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89748674 ATATCCGGGCTAAGTCCCGAAAGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89748714 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89748754 ATATCCGGGCTAAGTCCCGAAAGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89748794 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
89748834 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * * *
89748874 ATATCCAGGCTAAGACCCGAAGGCATTTGGGAACGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG--CTA-TTGACT
*
89748916 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
89748938 TACTTGGGTT
Statistics
Matches: 813, Mismatches: 88, Indels: 5
0.90 0.10 0.01
Matches are distributed among these distances:
40 786 0.97
41 14 0.02
42 10 0.01
43 3 0.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:89748127 original size:80 final size:80
Alignment explanation
Indices: 89747994--89748902 Score: 1764
Period size: 80 Copynumber: 11.4 Consensus size: 80
89747984 TATTCGAATG
* *
89747994 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAAGCA
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
89748059 TTTGTGCTATTGATT
66 TTTGTGCTATTGATT
89748074 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
89748139 TTTGTGCTATTGATT
66 TTTGTGCTATTGATT
89748154 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
89748219 TTTGTGCTATTGATT
66 TTTGTGCTATTGATT
89748234 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
89748299 TTTGTGCTATTGATT
66 TTTGTGCTATTGATT
89748314 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
89748379 TTTGTGCTATTGATT
66 TTTGTGCTATTGATT
89748394 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
89748459 TTTGTGCTATTGATT
66 TTTGTGCTATTGATT
89748474 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
89748539 TTTGTGCTATTGATT
66 TTTGTGCTATTGATT
89748554 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
89748619 TTTGTGCTATTGATT
66 TTTGTGCTATTGATT
89748634 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
89748699 TTTGTGCTATTGATT
66 TTTGTGCTATTGATT
89748714 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
89748779 TTTGTGCTATTGATT
66 TTTGTGCTATTGATT
* *
89748794 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCT
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
*
89748859 TTTGTGCTATTGACT
66 TTTGTGCTATTGATT
*
89748874 ATATCCAGGCTAAGACCCGAAGGCATTTG
1 ATATCCAGGCTAAGTCCCGAAGGCATTTG
89748903 GGAACGAGTT
Statistics
Matches: 823, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 823 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (80 bp):
ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAAGCA
TTTGTGCTATTGATT
Found at i:89755824 original size:80 final size:79
Alignment explanation
Indices: 89755702--89755909 Score: 285
Period size: 80 Copynumber: 2.6 Consensus size: 79
89755692 CCTTCAAAAT
** * * *
89755702 TTAG-CCGGATATAGCAACTTGCACAACTGCCTTCGGGACTTAGCCCGGACATAGTCACTAGCAC
1 TTAGCCCGGATATAATAACTAGCACAAATGCCTTC-GGACTTAGCCCGGACATAATCACTAGCAC
89755766 AAATGCCTTCGGGA-C
65 AAATGCCTTC-GGATC
* *
89755781 TTAGCCCGGATATAATAACTAGCACAAATGCCTTCAGGACTTAGCTCGGATATAATCACTAGCAC
1 TTAGCCCGGATATAATAACTAGCACAAATGCCTTC-GGACTTAGCCCGGACATAATCACTAGCAC
89755846 AAATGCCTTCGGATC
65 AAATGCCTTCGGATC
* *
89755861 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGATCTTAGTCCGG
1 TTAGCCCGGATATAATAACTAGCACAAATGCCTTCGGA-CTTAGCCCGG
89755910 TTATCATTCG
Statistics
Matches: 115, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
79 10 0.09
80 105 0.91
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAATAACTAGCACAAATGCCTTCGGACTTAGCCCGGACATAATCACTAGCACA
AATGCCTTCGGATC
Found at i:89755904 original size:40 final size:40
Alignment explanation
Indices: 89755722--89755897 Score: 282
Period size: 40 Copynumber: 4.4 Consensus size: 40
89755712 ATAGCAACTT
* * *
89755722 GCACAACTGCCTTCGGGACTTAGCCCGGACATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
*
89755762 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATAACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
* *
89755802 GCACAAATGCCTTCAGGACTTAGCTCGGATATAATCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
89755842 GCACAAATGCCTTC-GGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGGA-CTTAGCCCGGATATAATCACTA
89755882 GCACAAATGCCTTCGG
1 GCACAAATGCCTTCGG
89755898 ATCTTAGTCC
Statistics
Matches: 126, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 3 0.02
40 122 0.97
41 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
Found at i:89763689 original size:40 final size:40
Alignment explanation
Indices: 89763636--89763863 Score: 336
Period size: 40 Copynumber: 5.7 Consensus size: 40
89763626 ATAGCAACTC
* * * *
89763636 GCACGAATGCCTTCGGGA-CTTAGCCCAGACATAGTCACTA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGATATAATCACTA
*
89763676 GCACAAATGCCTTCGGGA-CTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGATATAATCACTA
* *
89763716 GCACAAATGCCTTCGGGA-CTTAGCCTGGATATAATCTCTA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGATATAATCACTA
89763756 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
*
89763796 GCACAAATGCCTTCGGATCTTAGCCCGGATAAAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
89763836 GCACAAATGCCTTCGGATCTTAGCCCGG
1 GCACAAATGCCTTCGGATCTTAGCCCGG
89763864 GTATCATTCG
Statistics
Matches: 178, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 3 0.02
40 175 0.98
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
Found at i:89767145 original size:27 final size:27
Alignment explanation
Indices: 89767115--89767292 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
89767105 ATATTGAGTC
* * * *
89767115 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
89767142 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
89767169 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
89767197 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
89767224 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
89767251 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
89767278 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
89767293 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:89767254 original size:82 final size:81
Alignment explanation
Indices: 89767136--89767291 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
89767126 TGCTATATAA
* *
89767136 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
89767201 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
89767218 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
89767282 CACTTAGTGC
65 CACTTAGTGC
89767292 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:89775323 original size:27 final size:27
Alignment explanation
Indices: 89775293--89775470 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
89775283 ATATTGAGTC
* * * *
89775293 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
89775320 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
89775347 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
89775375 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
89775402 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
89775429 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
89775456 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
89775471 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:89775432 original size:82 final size:81
Alignment explanation
Indices: 89775314--89775469 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
89775304 TGCTATATAA
* *
89775314 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
89775379 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
89775396 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
89775460 CACTTAGTGC
65 CACTTAGTGC
89775470 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:89777240 original size:45 final size:45
Alignment explanation
Indices: 89777176--89777302 Score: 140
Period size: 45 Copynumber: 2.9 Consensus size: 45
89777166 AAATATATAT
*
89777176 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGAT-A
1 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
* *
89777220 CTATTCGGGCTTTCGAGCCTAACAGGCTATAATACCGGTGAAATGA
1 -TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
* *
89777266 T-TTTGGGC-CTCGAGCCTAGCAGG-TGA-AATGCCGGTGA
1 TATTCGGGCTTTCGAGCCTAGCAGGCT-ATAATGCCGGTGA
89777303 TTTGAGAAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 10 0.14
45 36 0.50
46 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (45 bp):
TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
Found at i:89782603 original size:24 final size:24
Alignment explanation
Indices: 89782568--89782654 Score: 79
Period size: 24 Copynumber: 3.6 Consensus size: 24
89782558 AAACTACATG
* *
89782568 GCACTATTTGTGCGAGATTATATA
1 GCACTATGTGTGCGAGATAATATA
* *
89782592 GCACTATGTGTGCGAGGA-AATGTG
1 GCACTATGTGTGCGA-GATAATATA
* *
89782616 GCACTATGTGTGCGA-ATGAGTAAGA
1 GCACTATGTGTGCGAGAT-AAT-ATA
89782641 GCACTATGTGTGCG
1 GCACTATGTGTGCG
89782655 GACCTTTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
22 1 0.02
24 34 0.67
25 16 0.31
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (24 bp):
GCACTATGTGTGCGAGATAATATA
Found at i:89784598 original size:52 final size:52
Alignment explanation
Indices: 89784520--89784625 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
89784510 CCTCATTCTA
89784520 AGCCCGAATCTTGTTTTCCTTAATCTATAATATCACATTTAGCCTACTAATT
1 AGCCCGAATCTTGTTTTCCTTAATCTATAATATCACATTTAGCCTACTAATT
89784572 AGCCCGAATCTTGTTTTCCTTAATCTATAATATCACATTTAGCCTACTAATT
1 AGCCCGAATCTTGTTTTCCTTAATCTATAATATCACATTTAGCCTACTAATT
89784624 AG
1 AG
89784626 TCACCTTATT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (52 bp):
AGCCCGAATCTTGTTTTCCTTAATCTATAATATCACATTTAGCCTACTAATT
Found at i:89802508 original size:43 final size:42
Alignment explanation
Indices: 89802415--89802510 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 42
89802405 AACATTTACG
* * *
89802415 TGTAAGACCATATCTAGGATATGGCATCGATATGAGACTTTG
1 TGTAAGACCATAGCTAGGATATGGCATCGATATGAGACTATA
* *
89802457 TGTCAGACCATAGCT-GCGCTATTGGCATCGATATGAGA-TCATA
1 TGTAAGACCATAGCTAG-GATA-TGGCATCGATATGAGACT-ATA
89802500 TGTAAGACCAT
1 TGTAAGACCAT
89802511 GTTTGGGATA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.02
42 17 0.38
43 27 0.60
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATAGCTAGGATATGGCATCGATATGAGACTATA
Found at i:89805007 original size:12 final size:12
Alignment explanation
Indices: 89804990--89805014 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89804980 AATTAGGTAT
89804990 TTGAATTCTATG
1 TTGAATTCTATG
89805002 TTGAATTCTATG
1 TTGAATTCTATG
89805014 T
1 T
89805015 ATGGAATGGC
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:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (12 bp):
TTGAATTCTATG
Found at i:89806171 original size:23 final size:22
Alignment explanation
Indices: 89806134--89806176 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
89806124 TGGTTGTGGC
89806134 TAATTTGGTTGTATGTATATGCT
1 TAATTTGGTTGTATGT-TATGCT
89806157 TAATTTGG-TGTTATGTTATG
1 TAATTTGGTTG-TATGTTATG
89806177 TTGTGTAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.21, C:0.02, G:0.23, T:0.53
Consensus pattern (22 bp):
TAATTTGGTTGTATGTTATGCT
Found at i:89808443 original size:24 final size:24
Alignment explanation
Indices: 89808416--89808461 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
89808406 ATTTATCTAC
89808416 AGTTTAATAGTAACAGTACTAAAT
1 AGTTTAATAGTAACAGTACTAAAT
*
89808440 AGTTTAATAGTAATAGTACTAA
1 AGTTTAATAGTAACAGTACTAA
89808462 CTTAGAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.35
Consensus pattern (24 bp):
AGTTTAATAGTAACAGTACTAAAT
Found at i:89811435 original size:94 final size:94
Alignment explanation
Indices: 89811274--89811462 Score: 315
Period size: 94 Copynumber: 2.0 Consensus size: 94
89811264 TTTTTGGAGG
* * * *
89811274 TATCCATGTTGATCCGAAGAAGATTGAGGCCATTGTGGATTGGGAGCAACCGAAGAATTTTAATG
1 TATCCATGTTGATCCGAAGAAGATTGAGGCCATTGTGGATTAGAAGCAACCCAAGAATCTTAATG
89811339 AGATCTATAGTGTTCTTGGATTAGTCGGT
66 AGATCTATAGTGTTCTTGGATTAGTCGGT
* * *
89811368 TATCCATGTTGATCCGAAGAAGATTGAGGCCATTTTGGATTAGAAGCAGCCCAAGAATCTTAGTG
1 TATCCATGTTGATCCGAAGAAGATTGAGGCCATTGTGGATTAGAAGCAACCCAAGAATCTTAATG
89811433 AGATCTATAGTGTTCTTGGATTAGTCGGT
66 AGATCTATAGTGTTCTTGGATTAGTCGGT
89811462 T
1 T
89811463 TGTAACACCC
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 88 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (94 bp):
TATCCATGTTGATCCGAAGAAGATTGAGGCCATTGTGGATTAGAAGCAACCCAAGAATCTTAATG
AGATCTATAGTGTTCTTGGATTAGTCGGT
Found at i:89812310 original size:32 final size:31
Alignment explanation
Indices: 89812268--89812370 Score: 84
Period size: 32 Copynumber: 3.2 Consensus size: 31
89812258 ATACGGCTTT
*
89812268 AAGCCTTCAGTAGCGGTATTATAATTGGCACA
1 AAGCCATCAGTAGCGGTA-TATAATTGGCACA
* *
89812300 AAGCCATCAGTAACTGTA-ATAAGTTCGGCACA
1 AAGCCATCAGTAGCGGTATATAA-TT-GGCACA
** *
89812332 TTGCCATCAGT-GACGGTAATATATTTGGCACA
1 AAGCCATCAGTAG-CGGT-ATATAATTGGCACA
*
89812364 TAGCCAT
1 AAGCCAT
89812371 GGGTAAATAT
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
30 4 0.07
31 2 0.04
32 45 0.79
33 3 0.05
34 3 0.05
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (31 bp):
AAGCCATCAGTAGCGGTATATAATTGGCACA
Found at i:89812390 original size:27 final size:26
Alignment explanation
Indices: 89812359--89812451 Score: 62
Period size: 27 Copynumber: 3.5 Consensus size: 26
89812349 AATATATTTG
89812359 GCACATAGCCATGGGTAAATATGAT-C
1 GCACATAGCCAT-GGTAAATATGATAC
* * ** *
89812385 GACACAGAGTCATCAATAAATATGATAT
1 G-CACATAGCCAT-GGTAAATATGATAC
* **
89812413 GCACATAGCCACTGGTAAATACGATTT
1 GCACATAGCCA-TGGTAAATATGATAC
*
89812440 GCACAAAGCCAT
1 GCACATAGCCAT
89812452 AATCAACATA
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
26 2 0.04
27 47 0.92
28 2 0.04
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (26 bp):
GCACATAGCCATGGTAAATATGATAC
Found at i:89812893 original size:28 final size:27
Alignment explanation
Indices: 89812861--89812954 Score: 93
Period size: 27 Copynumber: 3.4 Consensus size: 27
89812851 TTTTACCTTA
*
89812861 CAGGGGTATTTCGGTAAAATTTT-CAAAT
1 CAGGGGTATTTCAGT--AATTTTACAAAT
*
89812889 CAGGGGTATTTTAGTAATTTTACAAAT
1 CAGGGGTATTTCAGTAATTTTACAAAT
* *
89812916 CGGGGGTATTT-TGATAATTTTACAAAT
1 CAGGGGTATTTCAG-TAATTTTACAAAT
**
89812943 TGGGGGTATTTC
1 CAGGGGTATTTC
89812955 GATAATCTAC
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
26 7 0.12
27 38 0.66
28 13 0.22
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTCAGTAATTTTACAAAT
Found at i:89812922 original size:27 final size:27
Alignment explanation
Indices: 89812878--89812960 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
89812868 ATTTCGGTAA
*
89812878 AATTTT-CAAATCAGGGGTATTTT-AGT
1 AATTTTACAAATCGGGGGTATTTTGA-T
89812904 AATTTTACAAATCGGGGGTATTTTGAT
1 AATTTTACAAATCGGGGGTATTTTGAT
* *
89812931 AATTTTACAAATTGGGGGTATTTCGAT
1 AATTTTACAAATCGGGGGTATTTTGAT
89812958 AAT
1 AAT
89812961 CTACTCAGCT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 6 0.12
27 45 0.87
28 1 0.02
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.41
Consensus pattern (27 bp):
AATTTTACAAATCGGGGGTATTTTGAT
Found at i:89815724 original size:13 final size:13
Alignment explanation
Indices: 89815706--89815735 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
89815696 TCGTGTCGTT
*
89815706 CACACGGTTGAGA
1 CACACGGCTGAGA
89815719 CACACGGCTGAGA
1 CACACGGCTGAGA
89815732 CACA
1 CACA
89815736 TGGCCATGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.30, G:0.27, T:0.10
Consensus pattern (13 bp):
CACACGGCTGAGA
Found at i:89818744 original size:49 final size:49
Alignment explanation
Indices: 89818683--89818856 Score: 213
Period size: 49 Copynumber: 3.5 Consensus size: 49
89818673 TGAGGTCATG
* ** *
89818683 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCGGATTATTGGTCGCA
1 TGTGTAGTACTAAGTACAGGCTACTACATGTATCGGATAATTGGTCGCA
* * ** * *
89818732 TGTGTAGTACTAAGTACAGGCTGCTACATGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTACAGGCTACTACATGTATCGGATAATT-GGTCGCA
* *
89818782 TGTGTAGTACTAAGTACAGGCTACTACATGTACCGGATAATTGGTCGTA
1 TGTGTAGTACTAAGTACAGGCTACTACATGTATCGGATAATTGGTCGCA
**
89818831 TGTGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTACAGGCTACTA
89818857 TGCGTACCAT
Statistics
Matches: 105, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 63 0.60
50 42 0.40
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTAAGTACAGGCTACTACATGTATCGGATAATTGGTCGCA
Found at i:89828750 original size:40 final size:40
Alignment explanation
Indices: 89828702--89828928 Score: 382
Period size: 40 Copynumber: 5.7 Consensus size: 40
89828692 GCAACCACAT
* *
89828702 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
89828742 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
**
89828782 TTGCCTTCGGGTCACAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
89828822 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
**
89828862 TTGCCTTCGGGTCACAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
89828902 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
89828929 ATCCAATGCT
Statistics
Matches: 173, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 173 1.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:89839501 original size:86 final size:86
Alignment explanation
Indices: 89839356--89839523 Score: 275
Period size: 86 Copynumber: 2.0 Consensus size: 86
89839346 TTACGACTTG
* * * *
89839356 GATATCTCCCTGTACAGGGCTTCAATTCTGATGTCGTTTGTTTCTATAGAAACTAGACTCAAAAA
1 GATATCTCCCTGTACAAGGCATCAATACTAATGTCGTTTGTTTCTATAGAAACTAGACTC-AAAA
89839421 T-GAATCTATGCATATATTGCT
65 TGGAATCTATGCATATATTGCT
*
89839442 GATATCTCCCTGTACAAGGCATCAATACTAATGTTGTTTGTTTCTATAGAAACTAGACTCAAAAT
1 GATATCTCCCTGTACAAGGCATCAATACTAATGTCGTTTGTTTCTATAGAAACTAGACTCAAAAT
89839507 GGAATCTATGCATATAT
66 GGAATCTATGCATATAT
89839524 GGCATGACTT
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
85 5 0.07
86 71 0.93
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (86 bp):
GATATCTCCCTGTACAAGGCATCAATACTAATGTCGTTTGTTTCTATAGAAACTAGACTCAAAAT
GGAATCTATGCATATATTGCT
Found at i:89840612 original size:37 final size:37
Alignment explanation
Indices: 89840551--89840629 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
89840541 TTATTACGAA
* * *
89840551 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
89840588 GTCTTACCCGGCCAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
89840625 GTCTT
1 GTCTT
89840630 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:89840826 original size:47 final size:47
Alignment explanation
Indices: 89840748--89841207 Score: 839
Period size: 47 Copynumber: 9.8 Consensus size: 47
89840738 CCCTTCGGGA
* * * * * *
89840748 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89840795 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89840842 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89840889 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89840936 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89840983 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89841030 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89841077 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89841124 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89841171 CTTATCACATATATACACTTTCACATTCATCAAATCG
1 CTTATCACATATATACACTTTCACATTCATCACATCG
89841208 AATCCTAAAT
Statistics
Matches: 402, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 402 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89841370 original size:52 final size:52
Alignment explanation
Indices: 89841292--89841395 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
89841282 CTTTCACGTA
*
89841292 TACACACTGTCTTGGCTGAATCTACATCTATCATTTTTCAATATCACAATTT
1 TACACACTGTCTTGGCTGAATCTACATCTATCATTTTCCAATATCACAATTT
89841344 TACACACTGTCTTGGCTGAATCTACATCTATCATTTTCCAATATCACAATTT
1 TACACACTGTCTTGGCTGAATCTACATCTATCATTTTCCAATATCACAATTT
89841396 AGAATTCATG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (52 bp):
TACACACTGTCTTGGCTGAATCTACATCTATCATTTTCCAATATCACAATTT
Found at i:89841952 original size:60 final size:60
Alignment explanation
Indices: 89841879--89842000 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
89841869 CAACTTTAAG
*
89841879 TATCTCATTATCGGAAATTCCTTTGCTTACACGGTTTCTTTTATAAGAAACTAGACTCAT
1 TATCTCATTATCGGAAATTCCTTTACTTACACGGTTTCTTTTATAAGAAACTAGACTCAT
89841939 TATCTCATTATCGGAAATTCCTTTACTTACACGGTTTCTTTTATAAGAAACTAGACTCAT
1 TATCTCATTATCGGAAATTCCTTTACTTACACGGTTTCTTTTATAAGAAACTAGACTCAT
89841999 TA
1 TA
89842001 AGCTTTAATT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.40
Consensus pattern (60 bp):
TATCTCATTATCGGAAATTCCTTTACTTACACGGTTTCTTTTATAAGAAACTAGACTCAT
Found at i:89842974 original size:56 final size:56
Alignment explanation
Indices: 89842907--89843026 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
89842897 TATTAGTTTA
89842907 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
89842963 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
89843019 TTGCCCAT
1 TTGCCCAT
89843027 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:89851345 original size:22 final size:22
Alignment explanation
Indices: 89851289--89851382 Score: 89
Period size: 22 Copynumber: 4.1 Consensus size: 22
89851279 TACCGATATA
* *
89851289 TCAGCTCATAAGAGCTTACTGTT
1 TCAGCTCGTCAGAGCTTACTG-T
*
89851312 CTCAGGTCGTCAGAGCTTACTGT
1 -TCAGCTCGTCAGAGCTTACTGT
* *
89851335 TCAGCTTGTCAGAGCTTACTATT
1 TCAGCTCGTCAGAGCTTACT-GT
* **
89851358 TCAACTCAACAGAGCTTACTGT
1 TCAGCTCGTCAGAGCTTACTGT
89851380 TCA
1 TCA
89851383 TCAGCTCAGG
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
22 22 0.38
23 18 0.31
24 18 0.31
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (22 bp):
TCAGCTCGTCAGAGCTTACTGT
Found at i:89861081 original size:18 final size:19
Alignment explanation
Indices: 89861054--89861089 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
89861044 GAACTTATCA
*
89861054 ATGCATATTTTA-AAAATG
1 ATGCACATTTTATAAAATG
89861072 ATGCACATTTTATAAAAT
1 ATGCACATTTTATAAAAT
89861090 TTCCTATCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (19 bp):
ATGCACATTTTATAAAATG
Found at i:89861261 original size:47 final size:48
Alignment explanation
Indices: 89861178--89861284 Score: 144
Period size: 47 Copynumber: 2.2 Consensus size: 48
89861168 ATCGCTGATT
*
89861178 TGCAGATAAACTGCCAATAATAACACTTTGTGGACAAGCCACCACATA
1 TGCAGATAAACTGCCAATAATAACACATTGTGGACAAGCCACCACATA
* * * *
89861226 TGCAGATATACTGCCATTGA-AACACATTGTGGACAAGCCACCACTGATT
1 TGCAGATAAACTGCCAATAATAACACATTGTGGACAAGCCACCAC--ATA
89861275 TGCAGATAAA
1 TGCAGATAAA
89861285 ATGCAACATA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
47 23 0.45
48 17 0.33
49 11 0.22
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.22
Consensus pattern (48 bp):
TGCAGATAAACTGCCAATAATAACACATTGTGGACAAGCCACCACATA
Found at i:89868760 original size:48 final size:48
Alignment explanation
Indices: 89868684--89868949 Score: 169
Period size: 47 Copynumber: 5.6 Consensus size: 48
89868674 GATAAATTGT
* * * *
89868684 CGATGCCATGTCCCTGATATGGTCTTACACTAGCTGTCATATATGTGTGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATATATGTGTGC
* * * *
89868734 TGATGCATGTCCCAGACATGTCTTACACTAG--CACA-ACTCT-TAGT--
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATA-TATGT-GTGC
* ** * * * *
89868778 CGATGCGTGTCTGAGACAAGTCTTACACTGGCTATC-TCTATCGAG-GC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATAT-GTGTGC
* * * * * *
89868825 CGATGCATGTCCTAGACATGTCTTACTCTGGCACTC--ATCTCTATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATATGTGTGC
*
89868871 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATTTG-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATATATGTGTGC
* *
89868919 TGAAGCATGTCCCAGACATGTCTTACACTGG
1 CGATGCATGTCCCAGACATGTCTTACACTGG
89868950 TGCACAAATC
Statistics
Matches: 165, Mismatches: 37, Indels: 32
0.71 0.16 0.14
Matches are distributed among these distances:
44 25 0.15
45 4 0.02
46 29 0.18
47 56 0.34
48 32 0.19
49 14 0.08
50 5 0.03
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (48 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATATGTGTGC
Found at i:89868936 original size:94 final size:92
Alignment explanation
Indices: 89868684--89868949 Score: 272
Period size: 94 Copynumber: 2.9 Consensus size: 92
89868674 GATAAATTGT
* * * *
89868684 CGATGCCATGTCCCTGATATGGTCTTACACTAGCTGTCATATATGTGTGCTGATGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTG-GCTGATGCATGTCCCAG
* *
89868749 ACATGTCTTACACTAGCACAACTCTTAGT
64 ACATGTCTTACACTGGCACAACTCTTAGC
* ** * * * *
89868778 CGATG-CGTGTCTGAGACA-AGTCTTACACTGGCTATCTC-T-ATCGAGGCCGATGCATGTCCTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATAAT-GTGGCTGATGCATGTCCCA
* *
89868839 GACATGTCTTACTCTGGCAC-TCATCTCTATGC
63 GACATGTCTTACACTGGCACAAC-TCT-TA-GC
* *
89868871 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATTTGGCTGAAGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCATGTCCCAGAC
89868936 ATGTCTTACACTGG
66 ATGTCTTACACTGG
89868950 TGCACAAATC
Statistics
Matches: 137, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
90 1 0.01
91 37 0.27
92 16 0.12
93 19 0.14
94 49 0.36
95 15 0.11
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (92 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCATGTCCCAGAC
ATGTCTTACACTGGCACAACTCTTAGC
Found at i:89870916 original size:27 final size:27
Alignment explanation
Indices: 89870886--89871063 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
89870876 ATATTGAGTC
* * * *
89870886 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
89870913 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
89870940 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
89870968 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
89870995 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
89871022 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
89871049 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
89871064 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:89871025 original size:82 final size:81
Alignment explanation
Indices: 89870907--89871062 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
89870897 TGCTATATAA
* *
89870907 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
89870972 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
89870989 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
89871053 CACTTAGTGC
65 CACTTAGTGC
89871063 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:89871562 original size:12 final size:12
Alignment explanation
Indices: 89871545--89871570 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
89871535 ATGGCATACT
89871545 TATGTATATATA
1 TATGTATATATA
89871557 TATGTATATATA
1 TATGTATATATA
89871569 TA
1 TA
89871571 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:89878117 original size:39 final size:39
Alignment explanation
Indices: 89878063--89878140 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
89878053 CATGAAAAAC
* *
89878063 TTAGAAAATTTCATGCATCAAGGCTCCACATGCCTGTGT
1 TTAGAAAATTTCATGCATCAAGGCTCCACACGCCCGTGT
89878102 TTAGAAAATTTCATGCATCAAGGCTCCACACGCCCGTGT
1 TTAGAAAATTTCATGCATCAAGGCTCCACACGCCCGTGT
89878141 GAATATAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (39 bp):
TTAGAAAATTTCATGCATCAAGGCTCCACACGCCCGTGT
Found at i:89879283 original size:47 final size:43
Alignment explanation
Indices: 89879176--89879291 Score: 117
Period size: 44 Copynumber: 2.6 Consensus size: 43
89879166 TATCTGTACT
89879176 GATGCATGTCCCAGACATGTCTTACACTAGTACAACTCTTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGTA-AACTCTTAGCC
** * * * *
89879220 GATGTGTGTCCGAGACACGTCTTACACTAGCT-ATCTCTGTCGAAGTC
1 GATGCATGTCCCAGACATGTCTTACACTAG-TAAACTCT-T---AGCC
89879267 GATGCATGTCCCAGACATGTCTTAC
1 GATGCATGTCCCAGACATGTCTTAC
89879292 TCTGGCACTC
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
43 5 0.09
44 27 0.47
45 1 0.02
47 24 0.42
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (43 bp):
GATGCATGTCCCAGACATGTCTTACACTAGTAAACTCTTAGCC
Found at i:89879322 original size:47 final size:46
Alignment explanation
Indices: 89879266--89879391 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 46
89879256 CTGTCGAAGT
* * *
89879266 CGATGCATGTCCCAGACATGTCTTACTCTGGCACTCAT-CTCTGTAC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATAATGTG-AC
* * *
89879312 CGATGCCATGTCCCAGACATGGTATTACACTGGCTCTCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATAATGTGAC
*
89879360 CGAAGCATGTCCCAGACATGTCTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
89879392 GCACAAATCA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
46 17 0.25
47 28 0.41
48 21 0.30
49 3 0.04
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATAATGTGAC
Found at i:89891956 original size:46 final size:46
Alignment explanation
Indices: 89891902--89892077 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
89891892 TGTTTGGGCA
*
89891902 TCCGAACTCGTTGAGTTGAGTGCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
** * * *
89891948 TCTAAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG
* *
89891993 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
89892041 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
89892078 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.07
44 1 0.01
45 2 0.02
46 61 0.57
47 25 0.23
48 2 0.02
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:89892057 original size:93 final size:93
Alignment explanation
Indices: 89891898--89892069 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
89891888 AGGATGTTTG
* * *
89891898 GGCATCCGAACTCGTTGAGTTGAGTGCGAGTTCACTTATGGATGCAAATGTCTAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCAAACTCGTTGAG
89891963 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
89891991 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCAAACTCGTTGAG
89892056 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
89892070 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCAAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:89895027 original size:15 final size:15
Alignment explanation
Indices: 89895007--89895054 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
89894997 CATAGTATCG
*
89895007 TATCCTGGGTTTCTT
1 TATCCTGGATTTCTT
*
89895022 TATCCTGGATCTCTT
1 TATCCTGGATTTCTT
*
89895037 TATTCTGGATTTCTT
1 TATCCTGGATTTCTT
89895052 TAT
1 TAT
89895055 TCGGTTTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.12, C:0.19, G:0.15, T:0.54
Consensus pattern (15 bp):
TATCCTGGATTTCTT
Found at i:89895065 original size:14 final size:15
Alignment explanation
Indices: 89895011--89895065 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
89895001 GTATCGTATC
* *
89895011 CTGGGTTTCTTTATC
1 CTGGATTTCTTTATT
*
89895026 CTGGATCTCTTTATT
1 CTGGATTTCTTTATT
89895041 CTGGATTTCTTTATT
1 CTGGATTTCTTTATT
*
89895056 C-GGTTTTCTT
1 CTGGATTTCTT
89895066 GTTATCTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
14 8 0.23
15 27 0.77
ACGTcount: A:0.09, C:0.18, G:0.16, T:0.56
Consensus pattern (15 bp):
CTGGATTTCTTTATT
Found at i:89900674 original size:40 final size:40
Alignment explanation
Indices: 89900591--89900893 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
89900581 TTGAATGCTG
* * * * * *
89900591 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
89900631 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
89900671 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
89900711 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
89900751 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
89900791 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
89900831 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
89900870 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
89900894 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:89907818 original size:109 final size:110
Alignment explanation
Indices: 89907694--89907915 Score: 428
Period size: 109 Copynumber: 2.0 Consensus size: 110
89907684 TTTTCTCATC
89907694 TTCATACTTGCCGAAACTAGAAAGAAAAACAAAGAAAAAAAAATTTCTCATCCTTTGGTTCATCC
1 TTCATACTTGCCGAAACTAGAAAGAAAAACAAAGAAAAAAAAATTTCTCATCCTTTGGTTCATCC
89907759 TTGGCCAATAATTTTAAGGAGGAAGGAAGAAGAAAGGTGAAGAGG
66 TTGGCCAATAATTTTAAGGAGGAAGGAAGAAGAAAGGTGAAGAGG
*
89907804 TTCA-ACTTGCCGAAACTAGAAAGAAAAACAAAGACAAAAAAATTTCTCATCCTTTGGTTCATCC
1 TTCATACTTGCCGAAACTAGAAAGAAAAACAAAGAAAAAAAAATTTCTCATCCTTTGGTTCATCC
89907868 TTGGCCAATAATTTTAAGGAGGAAGGAAGAAGAAAGGTGAAGAGG
66 TTGGCCAATAATTTTAAGGAGGAAGGAAGAAGAAAGGTGAAGAGG
89907913 TTC
1 TTC
89907916 GGCCATACAT
Statistics
Matches: 111, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
109 107 0.96
110 4 0.04
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (110 bp):
TTCATACTTGCCGAAACTAGAAAGAAAAACAAAGAAAAAAAAATTTCTCATCCTTTGGTTCATCC
TTGGCCAATAATTTTAAGGAGGAAGGAAGAAGAAAGGTGAAGAGG
Found at i:89908937 original size:40 final size:40
Alignment explanation
Indices: 89908853--89909036 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
89908843 TTGAATGCTG
* * * *
89908853 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
89908892 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
89908933 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
89908973 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
89909013 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
89909037 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:89908990 original size:80 final size:81
Alignment explanation
Indices: 89908853--89909033 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
89908843 TTGAATGCTG
* *
89908853 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
89908917 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
89908933 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
89908994 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
89909013 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
89909034 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:89912329 original size:72 final size:72
Alignment explanation
Indices: 89912212--89912353 Score: 248
Period size: 72 Copynumber: 2.0 Consensus size: 72
89912202 TTGGAGGGGA
* *
89912212 TGCCAGCTGTAATATCAGCAATGTTGGCACAGAAATATGTAAGAAAAGGGTGCGAAGCATACCTT
1 TGCCAGCTGTAATATCAGCAACGGTGGCACAGAAATATGTAAGAAAAGGGTGCGAAGCATACCTT
89912277 GCGTAGT
66 GCGTAGT
* *
89912284 TGCCAGCTGTAATATCATCAACGGTGGCCCAGAAATATGTAAGAAAAGGGTGCGAAGCATACCTT
1 TGCCAGCTGTAATATCAGCAACGGTGGCACAGAAATATGTAAGAAAAGGGTGCGAAGCATACCTT
89912349 GCGTA
66 GCGTA
89912354 TGTACTTGAT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (72 bp):
TGCCAGCTGTAATATCAGCAACGGTGGCACAGAAATATGTAAGAAAAGGGTGCGAAGCATACCTT
GCGTAGT
Found at i:89912981 original size:58 final size:58
Alignment explanation
Indices: 89912911--89913026 Score: 196
Period size: 58 Copynumber: 2.0 Consensus size: 58
89912901 ATGGATTTGA
* * * *
89912911 TGAATCGGATCTTCAGACCGTATTTGGATCGGTTCGTAGTTGTGTTCATTGATGACAT
1 TGAATCGGATCTTCAGACAGTATTTGGACCGGTTCATAGTTGTGTTCATTCATGACAT
89912969 TGAATCGGATCTTCAGACAGTATTTGGACCGGTTCATAGTTGTGTTCATTCATGACAT
1 TGAATCGGATCTTCAGACAGTATTTGGACCGGTTCATAGTTGTGTTCATTCATGACAT
89913027 CTTGGTCTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.37
Consensus pattern (58 bp):
TGAATCGGATCTTCAGACAGTATTTGGACCGGTTCATAGTTGTGTTCATTCATGACAT
Found at i:89914215 original size:38 final size:38
Alignment explanation
Indices: 89914172--89914251 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
89914162 ATTATGGATA
*
89914172 GCTAAGATTATAAGATACCGTTAGGGTTTAGATCTAGG
1 GCTAAGATTATAAGATACCGTTAGGGTTTAAATCTAGG
* * * *
89914210 GCTAAGATTATTAGTTATCTTTAGGGTTTAAATCTAGG
1 GCTAAGATTATAAGATACCGTTAGGGTTTAAATCTAGG
89914248 GCTA
1 GCTA
89914252 TTAGAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.36
Consensus pattern (38 bp):
GCTAAGATTATAAGATACCGTTAGGGTTTAAATCTAGG
Found at i:89915174 original size:146 final size:146
Alignment explanation
Indices: 89914910--89915205 Score: 583
Period size: 146 Copynumber: 2.0 Consensus size: 146
89914900 ATATCTAATT
89914910 CTACAAGCTCTTGTCAACAGTTTGAAATCAAGTTGACAAGGCCTACTCCTCCCCAAAGAAAAATT
1 CTACAAGCTCTTGTCAACAGTTTGAAATCAAGTTGACAAGGCCTACTCCTCCCCAAAGAAAAATT
*
89914975 AAAAAGTCCTGATTTTTTTTGAAGCTACTCATGTTTCTAATTTACTAGCTGATTATACTTATTTA
66 AAAAAGTCCTGAATTTTTTTGAAGCTACTCATGTTTCTAATTTACTAGCTGATTATACTTATTTA
89915040 GTGATCTTTACTGTGG
131 GTGATCTTTACTGTGG
89915056 CTACAAGCTCTTGTCAACAGTTTGAAATCAAGTTGACAAGGCCTACTCCTCCCCAAAGAAAAATT
1 CTACAAGCTCTTGTCAACAGTTTGAAATCAAGTTGACAAGGCCTACTCCTCCCCAAAGAAAAATT
89915121 AAAAAGTCCTGAATTTTTTTGAAGCTACTCATGTTTCTAATTTACTAGCTGATTATACTTATTTA
66 AAAAAGTCCTGAATTTTTTTGAAGCTACTCATGTTTCTAATTTACTAGCTGATTATACTTATTTA
89915186 GTGATCTTTACTGTGG
131 GTGATCTTTACTGTGG
89915202 CTAC
1 CTAC
89915206 GTTTCCACTT
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 149 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (146 bp):
CTACAAGCTCTTGTCAACAGTTTGAAATCAAGTTGACAAGGCCTACTCCTCCCCAAAGAAAAATT
AAAAAGTCCTGAATTTTTTTGAAGCTACTCATGTTTCTAATTTACTAGCTGATTATACTTATTTA
GTGATCTTTACTGTGG
Found at i:89921546 original size:31 final size:30
Alignment explanation
Indices: 89921510--89921584 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 30
89921500 TGTTAAGGTT
89921510 AGGACTAAAATT-TTAAAATTTAAAAAGTA-A
1 AGGACTAAAATTATT--AATTTAAAAAGTATA
89921540 AGGGACTAAAATTGATTAATTTAAAAAGTATA
1 A-GGACTAAAATT-ATTAATTTAAAAAGTATA
*
89921572 AGGATTAAAATTA
1 AGGACTAAAATTA
89921585 ATCAAACTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
30 2 0.05
31 34 0.85
32 2 0.05
33 2 0.05
ACGTcount: A:0.53, C:0.03, G:0.13, T:0.31
Consensus pattern (30 bp):
AGGACTAAAATTATTAATTTAAAAAGTATA
Found at i:89921596 original size:31 final size:31
Alignment explanation
Indices: 89921530--89921609 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
89921520 TTTTAAAATT
* * * **
89921530 TAAAAAGTA-AAGGGACTAAAATTGATTAATT
1 TAAAAAGTATAA-GGATTAAAATTAATCAAAC
89921561 TAAAAAGTATAAGGATTAAAATTAATCAAAC
1 TAAAAAGTATAAGGATTAAAATTAATCAAAC
89921592 T-AAAA-TATAAGGATTAAA
1 TAAAAAGTATAAGGATTAAA
89921610 TCCACAACAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 13 0.30
30 4 0.09
31 24 0.56
32 2 0.05
ACGTcount: A:0.56, C:0.04, G:0.12, T:0.28
Consensus pattern (31 bp):
TAAAAAGTATAAGGATTAAAATTAATCAAAC
Found at i:89929775 original size:28 final size:28
Alignment explanation
Indices: 89929716--89929775 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
89929706 ATTAACCGAA
* *
89929716 TTAATTAAAATTTTAAAATATTTAGTAG
1 TTAATTAAAATTTTAAAATATGTAGTAC
89929744 TTAATTAAAATTTTAAAAATATGTA-TAC
1 TTAATTAAAATTTT-AAAATATGTAGTAC
89929772 TTAA
1 TTAA
89929776 ATAATACTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 20 0.69
29 9 0.31
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (28 bp):
TTAATTAAAATTTTAAAATATGTAGTAC
Found at i:89932210 original size:24 final size:27
Alignment explanation
Indices: 89932165--89932215 Score: 72
Period size: 24 Copynumber: 2.0 Consensus size: 27
89932155 TTTTTTATAC
89932165 TATATATTGCTTTTATATGTATTATGTG
1 TATATATT-CTTTTATATGTATTATGTG
89932193 TATATATT-TTTT-TA-GTATTATGT
1 TATATATTCTTTTATATGTATTATGT
89932216 TTTTTATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 9 0.39
25 2 0.09
26 4 0.17
28 8 0.35
ACGTcount: A:0.25, C:0.02, G:0.12, T:0.61
Consensus pattern (27 bp):
TATATATTCTTTTATATGTATTATGTG
Found at i:89932259 original size:22 final size:23
Alignment explanation
Indices: 89932217--89932261 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
89932207 GTATTATGTT
89932217 TTTTATATACTATTATGTATATA
1 TTTTATATACTATTATGTATATA
*
89932240 TTTTA-ATATTATTA-GTTATATA
1 TTTTATATACTATTATG-TATATA
89932262 CCCTTTGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 14 0.70
23 5 0.25
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (23 bp):
TTTTATATACTATTATGTATATA
Found at i:89936984 original size:14 final size:14
Alignment explanation
Indices: 89936965--89937015 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
89936955 TTCATCCCTA
89936965 TTATTATTTATACT
1 TTATTATTTATACT
89936979 TTATTA-TTATCAC-
1 TTATTATTTAT-ACT
89936992 TTATTATTT-TACT
1 TTATTATTTATACT
*
89937005 ATTGTTATTTA
1 -TTATTATTTA
89937016 ATCTATTATC
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 11 0.35
14 18 0.58
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (14 bp):
TTATTATTTATACT
Found at i:89937061 original size:44 final size:44
Alignment explanation
Indices: 89936992--89937084 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
89936982 TTATTATCAC
* * * *
89936992 TTATTATTTTACTATTGTTATTTAATCTATTA-TCATTATCATTA
1 TTATTATTTTACTATTATAACTTAATATATTAGT-ATTATCATTA
* *
89937036 TTATTATTTTACTATTATAACTTAATATATTAGTATTATTATTT
1 TTATTATTTTACTATTATAACTTAATATATTAGTATTATCATTA
89937080 TTATT
1 TTATT
89937085 CTCGTCACTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 41 0.98
45 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.60
Consensus pattern (44 bp):
TTATTATTTTACTATTATAACTTAATATATTAGTATTATCATTA
Found at i:89937141 original size:3 final size:3
Alignment explanation
Indices: 89936979--89937129 Score: 76
Period size: 3 Copynumber: 50.3 Consensus size: 3
89936969 TATTTATACT
* * * *
89936979 TTA TTA TTA TCA CTTA TTA TT- TTA CTA TTG TTA TT- TAA TCTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * * * *
89937024 TCA TTA TCA TTA TTA TTA TT- TTA CTA TTA TAA CTTA ATA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * * ** * * * *
89937068 GTA TTA TTA TTT TTA TTC TCG TCA CTG TCA TTCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
89937114 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
89937130 ATGTTTTATT
Statistics
Matches: 108, Mismatches: 32, Indels: 16
0.69 0.21 0.10
Matches are distributed among these distances:
2 7 0.06
3 92 0.85
4 9 0.08
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:89937345 original size:28 final size:26
Alignment explanation
Indices: 89937265--89937346 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 26
89937255 CATACTATTC
* * *
89937265 ATATAT-TTTTATGTTATCTCATGCAT
1 ATATATATTTTATATT-TTTCATGTAT
*
89937291 ATATATATTTTAATATTATT-A-GT-T
1 ATATATATTTT-ATATTTTTCATGTAT
89937315 ATATATATATTTATATTGTTTCATGTAT
1 ATATATAT-TTTATATT-TTTCATGTAT
89937343 ATAT
1 ATAT
89937347 TTTTATATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
24 14 0.32
25 6 0.14
26 8 0.18
27 7 0.16
28 9 0.20
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (26 bp):
ATATATATTTTATATTTTTCATGTAT
Found at i:89937410 original size:21 final size:22
Alignment explanation
Indices: 89937378--89937430 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
89937368 ATTAATACTA
* *
89937378 GTATATGTTTT-AT-TATATAT
1 GTATATATTTTAATATATATAG
89937398 GTATATATCTTTAATATATATAG
1 GTATATAT-TTTAATATATATAG
89937421 GTATATATTT
1 GTATATATTT
89937431 ATGTAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.25
21 3 0.11
22 4 0.14
23 14 0.50
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (22 bp):
GTATATATTTTAATATATATAG
Found at i:89937521 original size:24 final size:25
Alignment explanation
Indices: 89937478--89937541 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
89937468 TTCTAATATG
* *
89937478 TATATATTATGTAGATATTTTAATA
1 TATATATTATGTATACATTTTAATA
**
89937503 T-TATATTATGTATACATTTTTTTA
1 TATATATTATGTATACATTTTAATA
*
89937527 TATATATTACGTATA
1 TATATATTATGTATA
89937542 TATATCTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
24 20 0.61
25 13 0.39
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (25 bp):
TATATATTATGTATACATTTTAATA
Found at i:89937571 original size:252 final size:248
Alignment explanation
Indices: 89937108--89937576 Score: 583
Period size: 252 Copynumber: 1.9 Consensus size: 248
89937098 TTCATTATTA
* * * *
89937108 TTATTATTATTATTATTATTATATGTTTTATTATATATGTATATATCTTTAATATATATATGTTT
1 TTATTATTATTAATACTAGTATATGTTTTATTATATATGTATATATCTTTAATATATATATATTT
* *
89937173 ATGTAGTATTATTAATAATTGTTTTGTAACATTATTATTCTTATTTCTAATATGTATATATTATG
66 ATGTAATATTATTAATAAGTGTTTTGTAAC--TATTA-T-TTATTTCTAATATGTATATATTATG
* * * * *
89937238 TATATATTTTTAAATATCATACTATTCATATATTTTTATGTTATCTCATGCATATATATATTTTA
127 TAGATATTTTTAAATATCATACTATTCATACATTTTTATATTATATCACGCATATATATATTTTA
89937303 ATATTATTAGTTATATATATATTTATATTGTTTCATGTATATATTTTTATATTATCC
192 ATATTATTAGTTATATATATATTTATATTGTTTCATGTATATATTTTTATATTATCC
89937360 TTATTATTATTAATACTAGTATATGTTTTATTATATATGTATATATCTTTAATATATATAGGTAT
1 TTATTATTATTAATACTAGTATATGTTTTATTATATATGTATATATC-TT--TA-ATATA--TAT
*
89937425 ATATTTATGTAATATTATTAATAGGTGTTTT-TAAC-ATTA-TTATTTCTAATATGTATATATTA
60 ATATTTATGTAATATTATTAATAAGTGTTTTGTAACTATTATTTATTTCTAATATGTATATATTA
* * * * * *
89937487 TGTAGATA-TTTT-AATATTATATTATGT-ATACATTTTTTTATATATATTACGTATATATATCT
125 TGTAGATATTTTTAAATATCATACTAT-TCATACATTTTTATAT-TATATCACGCATATATAT-A
*
89937549 TTTTAATATTGTATT-TTTATATATATAT
187 TTTTAATA-T-TATTAGTTATATATATAT
89937577 ATCATGTATA
Statistics
Matches: 187, Mismatches: 19, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
249 22 0.12
250 19 0.10
251 38 0.20
252 57 0.30
253 6 0.03
254 4 0.02
255 2 0.01
256 5 0.03
257 4 0.02
258 30 0.16
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.56
Consensus pattern (248 bp):
TTATTATTATTAATACTAGTATATGTTTTATTATATATGTATATATCTTTAATATATATATATTT
ATGTAATATTATTAATAAGTGTTTTGTAACTATTATTTATTTCTAATATGTATATATTATGTAGA
TATTTTTAAATATCATACTATTCATACATTTTTATATTATATCACGCATATATATATTTTAATAT
TATTAGTTATATATATATTTATATTGTTTCATGTATATATTTTTATATTATCC
Done.