Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 158 of 196
Found at i:46395053 original size:7 final size:7
Alignment explanation
Indices: 46395034--46395089 Score: 62
Period size: 7 Copynumber: 8.0 Consensus size: 7
46395024 TTAGCCTCTC
46395034 CATTTTT
1 CATTTTT
46395041 -ACTTTTT
1 CA-TTTTT
46395048 CATTTTT
1 CATTTTT
46395055 CATTTTT
1 CATTTTT
*
46395062 C-CTTTT
1 CATTTTT
46395068 CATTTTT
1 CATTTTT
*
46395075 CATTTCAT
1 CATTT-TT
46395083 CATTTTT
1 CATTTTT
46395090 TAATGACTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
6 6 0.15
7 28 0.68
8 7 0.17
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:46395060 original size:13 final size:13
Alignment explanation
Indices: 46395043--46395089 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 13
46395033 CCATTTTTAC
46395043 TTTTTCATTTTTCA
1 TTTTTCA-TTTTCA
*
46395057 TTTTTCCTTTTCA
1 TTTTTCATTTTCA
46395070 TTTTTCATTTCATCA
1 TTTTTCATTT--TCA
46395085 TTTTT
1 TTTTT
46395090 TAATGACTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 15 0.52
14 6 0.21
15 8 0.28
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTTCATTTTCA
Found at i:46395067 original size:20 final size:21
Alignment explanation
Indices: 46395034--46395079 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
46395024 TTAGCCTCTC
*
46395034 CATTTTTACTTTTTCATTTTT
1 CATTTTTACCTTTTCATTTTT
46395055 CATTTTT-CCTTTTCATTTTT
1 CATTTTTACCTTTTCATTTTT
46395075 CATTT
1 CATTT
46395080 CATCATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (21 bp):
CATTTTTACCTTTTCATTTTT
Found at i:46400031 original size:7 final size:7
Alignment explanation
Indices: 46400019--46400043 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46400009 TATATGTATA
46400019 TATAAAG
1 TATAAAG
46400026 TATAAAG
1 TATAAAG
46400033 TATAAAG
1 TATAAAG
46400040 TATA
1 TATA
46400044 TAAAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (7 bp):
TATAAAG
Found at i:46400707 original size:20 final size:19
Alignment explanation
Indices: 46400660--46400716 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
46400650 TCTTTTTTTT
* * *
46400660 AAATATCAGAAAAAAATAAA
1 AAATATGAGAAGAAAAT-AG
46400680 AAATATGA-AACGAAAATAG
1 AAATATGAGAA-GAAAATAG
46400699 AAATAATGAGAAGAAAAT
1 AAAT-ATGAGAAGAAAAT
46400717 CTCCAAGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 7 0.23
20 22 0.71
21 2 0.06
ACGTcount: A:0.68, C:0.04, G:0.12, T:0.16
Consensus pattern (19 bp):
AAATATGAGAAGAAAATAG
Found at i:46404660 original size:40 final size:40
Alignment explanation
Indices: 46404616--46404746 Score: 124
Period size: 40 Copynumber: 3.3 Consensus size: 40
46404606 AACGGCGTTT
*
46404616 TTAGCGGA-GTTTGGAT-AAAAACGCCTCTAAAGATCGAGCA
1 TTAGC-GACGTTT-GATGAAAAACGCCGCTAAAGATCGAGCA
*
46404656 TTAGCGACGTTTTATGAAAAACGCCGCTAAAGATCGAGCA
1 TTAGCGACGTTTGATGAAAAACGCCGCTAAAGATCGAGCA
* * ** * * * * *
46404696 TTAGTGGCGTTTTTTGGAAAACTCTGCTAAAAAT-AAGCA
1 TTAGCGACGTTTGATGAAAAACGCCGCTAAAGATCGAGCA
46404735 TTAGCGACGTTT
1 TTAGCGACGTTT
46404747 TCCAGAAAGC
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 18 0.23
40 59 0.77
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (40 bp):
TTAGCGACGTTTGATGAAAAACGCCGCTAAAGATCGAGCA
Found at i:46404746 original size:39 final size:40
Alignment explanation
Indices: 46404632--46404747 Score: 126
Period size: 40 Copynumber: 2.9 Consensus size: 40
46404622 GAGTTTGGAT
* * *
46404632 AAAAACGCCTCTAAAGATCGAGCATTAGCGACGTTTTATG
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGACGTTTTATG
* * * * *
46404672 AAAAACGCCGCTAAAGATCGAGCATTAGTGGCGTTTTTTG
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGACGTTTTATG
* * *
46404712 GAAAACTCTGCTAAAAAT-AAGCATTAGCGACGTTTT
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGACGTTTT
46404748 CCAGAAAGCA
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
39 15 0.23
40 50 0.77
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCAAGCATTAGCGACGTTTTATG
Found at i:46404852 original size:41 final size:41
Alignment explanation
Indices: 46404793--46404903 Score: 172
Period size: 41 Copynumber: 2.7 Consensus size: 41
46404783 TGAACTTTCG
*
46404793 GGGCTTTAGCGGCATTTTT-AGGAAAGCG-TCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGA-GAAAGCGCT-GCTAATGCTCA
*
46404834 GGGCTTTAGCGGCGTTTTTGAGTAAGCGCTGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCTGCTAATGCTCA
46404875 GGGCTTTAGCGGCGTTTTTGAGAAAGCGC
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGC
46404904 CGCAAAAAGT
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
41 63 0.97
42 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.30
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAGAAAGCGCTGCTAATGCTCA
Found at i:46405446 original size:21 final size:21
Alignment explanation
Indices: 46405422--46405463 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
46405412 TAGGGCTTGA
** *
46405422 TGTTTATGGTTTATGGTTTAC
1 TGTTTATAATTTAAGGTTTAC
46405443 TGTTTATAATTTAAGGTTTAC
1 TGTTTATAATTTAAGGTTTAC
46405464 AATGCATGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.05, G:0.19, T:0.55
Consensus pattern (21 bp):
TGTTTATAATTTAAGGTTTAC
Found at i:46406991 original size:122 final size:122
Alignment explanation
Indices: 46406824--46407068 Score: 411
Period size: 122 Copynumber: 2.0 Consensus size: 122
46406814 CAACTGCTTT
* *
46406824 CCCTGACATACAACATTAGGATTCTATGTTATATACACTTTGAACCTTTCTGCATTCAGCATTGA
1 CCCTGACATACAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTGCAGTCAGCATTGA
* *
46406889 CTTGAAAACTGGGAATCTAAGCTCAGAAATTGTGA-ATGGATCAAGTGGCACCTCATA
66 CTAGAAAACTGGGAATCTAAGCTCAAAAATTGTGACA-GGATCAAGTGGCACCTCATA
* *
46406946 CCCTTACATGCAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTGCAGTCAGCATTGA
1 CCCTGACATACAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTGCAGTCAGCATTGA
*
46407011 CTAGAAAACTGGGAATCTAAGCTCAAAAATTGTGACAGTATCAAGTGGCACCTCATA
66 CTAGAAAACTGGGAATCTAAGCTCAAAAATTGTGACAGGATCAAGTGGCACCTCATA
46407068 C
1 C
46407069 AGCATGCATC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
122 114 0.99
123 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (122 bp):
CCCTGACATACAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTGCAGTCAGCATTGA
CTAGAAAACTGGGAATCTAAGCTCAAAAATTGTGACAGGATCAAGTGGCACCTCATA
Found at i:46408951 original size:41 final size:42
Alignment explanation
Indices: 46408906--46408992 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
46408896 ATTATTTTTT
* * *
46408906 TAAAGATATGTTTT-TAGCGGCGTTTATGTAAAAAGTGCCGC
1 TAAAGATATGTTTTATAGCCGCGTTTATGGAAAAAGCGCCGC
* * * *
46408947 TAAAGGTTTGTTTTATAGCCGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGATATGTTTTATAGCCGCGTTTATGGAAAAAGCGCCGC
46408989 TAAA
1 TAAA
46408993 AGTCATGATC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 12 0.32
42 26 0.68
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (42 bp):
TAAAGATATGTTTTATAGCCGCGTTTATGGAAAAAGCGCCGC
Found at i:46408982 original size:42 final size:43
Alignment explanation
Indices: 46408920--46409139 Score: 219
Period size: 43 Copynumber: 5.2 Consensus size: 43
46408910 GATATGTTTT
* ** * *
46408920 TAGCGGCGTTTATGTAAAAAGTGCCGCTAAAGGT-TTGTTTTA
1 TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCTTGATCTA
* * * *
46408962 TAGCCGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCTTGATCTA
* * * * * * *
46409005 TAGCAGAGTTTGTGGGATAAGCGCCACTAAAGATCTTGATCTG
1 TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCTTGATCTA
* * *
46409048 TAGCGGCGTTTG-CGTAAAAGTGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCTTGATCTA
* ** *
46409090 TAGCGGTGTTTGTCAGAAAAGTGCCGCTAAAGGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCTTGATCTA
46409133 TAGCGGC
1 TAGCGGC
46409140 ATTTATTTCT
Statistics
Matches: 144, Mismatches: 32, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
42 61 0.42
43 83 0.58
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCTTGATCTA
Found at i:46409089 original size:85 final size:85
Alignment explanation
Indices: 46408960--46409139 Score: 207
Period size: 85 Copynumber: 2.1 Consensus size: 85
46408950 AGGTTTGTTT
* * * ** *
46408960 TATAGCCGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAGCAGAGTTTGTGGGATAA
1 TATAGCGGCGTTTG-CGTAAAAGCGCCGCTAAAAGTCATGATCTATAGCAGAGTTTGTCAGAAAA
*
46409025 GCGCCACTAAAGATCTTGATC
65 GCGCCACTAAAGATCATGATC
* * * * * *
46409046 TGTAGCGGCGTTTGCGTAAAAGTGCCGCTAAAGGTCCTGATCTATAGCGGTGTTTGTCAGAAAAG
1 TATAGCGGCGTTTGCGTAAAAGCGCCGCTAAAAGTCATGATCTATAGCAGAGTTTGTCAGAAAAG
* * *
46409111 TGCCGCTAAAGGTCATGATC
66 CGCCACTAAAGATCATGATC
46409131 TATAGCGGC
1 TATAGCGGC
46409140 ATTTATTTCT
Statistics
Matches: 77, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
85 65 0.84
86 12 0.16
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (85 bp):
TATAGCGGCGTTTGCGTAAAAGCGCCGCTAAAAGTCATGATCTATAGCAGAGTTTGTCAGAAAAG
CGCCACTAAAGATCATGATC
Found at i:46413961 original size:22 final size:22
Alignment explanation
Indices: 46413926--46413977 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
46413916 TCCTACTCGT
46413926 GAAATAGCAACAAAACAACAAC
1 GAAATAGCAACAAAACAACAAC
* *
46413948 GAAATGGCAGCAAAACAACATA-
1 GAAATAGCAACAAAACAACA-AC
46413970 GAAATAGC
1 GAAATAGC
46413978 TAATTCAGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.58, C:0.19, G:0.15, T:0.08
Consensus pattern (22 bp):
GAAATAGCAACAAAACAACAAC
Found at i:46414978 original size:38 final size:38
Alignment explanation
Indices: 46414895--46414978 Score: 87
Period size: 38 Copynumber: 2.2 Consensus size: 38
46414885 CCGGCCCATT
* *
46414895 TTTAAAATAATTTTTTAAAAAAATTTAAAAATAAAAAA
1 TTTAAAAAAATATTTTAAAAAAATTTAAAAATAAAAAA
* * ** * **
46414933 ATAAAAAAAATATTTTAAAAGTATTTTAAAATTTAAAA
1 TTTAAAAAAATATTTTAAAAAAATTTAAAAATAAAAAA
46414971 TTTAAAAA
1 TTTAAAAA
46414979 TAAAAATAAA
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (38 bp):
TTTAAAAAAATATTTTAAAAAAATTTAAAAATAAAAAA
Found at i:46415003 original size:5 final size:6
Alignment explanation
Indices: 46414973--46415001 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
46414963 ATTTAAAATT
46414973 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
46415002 TATATATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:46415628 original size:26 final size:25
Alignment explanation
Indices: 46415594--46415663 Score: 63
Period size: 28 Copynumber: 2.6 Consensus size: 25
46415584 TTAATATCAA
46415594 TATAGATATAAATATATAATTATTATT
1 TATA-ATATAAATATATAA-TATTATT
*
46415621 TA-ACATATATAATTAATATAATATTTTT
1 TATA-ATATA-AA-T-ATATAATATTATT
46415649 TATAATAT-AATATAT
1 TATAATATAAATATAT
46415664 TCGAGCCAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
24 4 0.11
25 1 0.03
26 8 0.22
27 4 0.11
28 13 0.35
29 7 0.19
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (25 bp):
TATAATATAAATATATAATATTATT
Found at i:46420267 original size:22 final size:22
Alignment explanation
Indices: 46420239--46420281 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
46420229 ATAAGTTGTT
*
46420239 TTGCTACCATTTTGTTATTATA
1 TTGCTACCATTGTGTTATTATA
* *
46420261 TTGCTACTATTGTGTTGTTAT
1 TTGCTACCATTGTGTTATTAT
46420282 TGTTTGGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.56
Consensus pattern (22 bp):
TTGCTACCATTGTGTTATTATA
Found at i:46420636 original size:19 final size:19
Alignment explanation
Indices: 46420612--46420703 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
46420602 AATTTTTGAG
46420612 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
46420631 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
46420650 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
46420669 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46420688 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
46420704 ATATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:46421887 original size:98 final size:98
Alignment explanation
Indices: 46421764--46421958 Score: 336
Period size: 98 Copynumber: 2.0 Consensus size: 98
46421754 AAAAATCATG
* * *
46421764 AAGGAAATATTCTGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTCTT
46421829 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* *
46421862 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTAGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTCTT
*
46421927 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
46421959 TTTATTGTAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTAGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:46425510 original size:13 final size:12
Alignment explanation
Indices: 46425488--46425522 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
46425478 AGTTCAGATT
46425488 AAAAAAAAACAA
1 AAAAAAAAACAA
46425500 AAAACAAAAACAA
1 AAAA-AAAAACAA
46425513 AAATAAAAAA
1 AAA-AAAAAA
46425523 TGAAAGTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.19
13 16 0.76
14 1 0.05
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.03
Consensus pattern (12 bp):
AAAAAAAAACAA
Found at i:46426941 original size:44 final size:44
Alignment explanation
Indices: 46426772--46427604 Score: 184
Period size: 44 Copynumber: 18.9 Consensus size: 44
46426762 TTCCTCGTTT
* * * *
46426772 GTAGTCGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA
1 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCT-AGG-CA
* * * * ** * * *
46426818 -TAGTGGAGTACATTGAAGCTAG-TAATTCTACTTCCCTGGGCA
1 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTAGGCA
* * ** * * * *
46426860 GTAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
1 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTAGGCA
* *
46426904 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA
1 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCT-AGG-CA
* * ****** * * *
46426950 -TAGTGGAGTACATTGAAG-CCAATAATTCTACTTCCCTGGGCA
1 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTAGGCA
* * ** * * * * *
46426992 GCAGTGGAATAGATTAAAGATAGCAGATTTTGCCTTCCT--GTA
1 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTAGGCA
* * * * * *
46427034 TTGACAGCGAAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA
1 --G-TAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCT-AGG-CA
* * ***** * * * *
46427083 -TAGTGGAGTACATTGAAG-TCAATAATTCTACTTTCCTGGGCA
1 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTAGGCA
* * * ** ** * * * *
46427125 GCAGTGGAATAGATTGAAGATTTCAAATCTTATCTCCCTAAGAA
1 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTAGGCA
* *
46427169 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA
1 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCT-AGG-CA
* * *** ** * *
46427215 -TAGTGGAGTACATTGAAGCCAG-TAATTCTACTTCCCTAGGCA
1 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTAGGCA
** * * ** * * * *
46427257 ACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
1 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTAGGCA
* * * * *
46427301 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCATGTGGTTA
1 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCT-AGG-CA
* * * * ** * * *
46427347 -TAGTGGAGTACATTGAAGCTAG-TAATTCTACTTCCCTGGGCA
1 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTAGGCA
* * * ** * * * *
46427389 GCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
1 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTAGGCA
* * * *
46427433 GTAGTGGAGCAGATTGAAGATTGCGGATTTTACCTCCCT--GTA
1 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTAGGCA
* * * * ** * *
46427475 GTTACAGTGGAGTACATTGAAGCTAG-TAATTCTACTTCCCTAGGCA
1 G-T--AGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTAGGCA
* * * ** * * * *
46427521 ATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
1 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTAGGCA
*
46427565 GTAGTGGAGTAGATCGAAGATGGTGGATTTTACCTCCCTA
1 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTA
46427605 TGGTTACAGT
Statistics
Matches: 540, Mismatches: 218, Indels: 60
0.66 0.27 0.07
Matches are distributed among these distances:
42 10 0.02
43 104 0.19
44 291 0.54
45 127 0.24
46 5 0.01
48 1 0.00
49 2 0.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (44 bp):
GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTAGGCA
Found at i:46427012 original size:132 final size:132
Alignment explanation
Indices: 46426772--46427691 Score: 1380
Period size: 132 Copynumber: 7.0 Consensus size: 132
46426762 TTCCTCGTTT
*
46426772 GTAGTCGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* *
46426837 TAGTAATTCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
46426902 CA
131 CA
*
46426904 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* * ** * ** *
46426969 CAATAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAGCAGATTTTGCCTTCCT--G
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
*
46427032 TA
131 CA
* * *
46427034 TTGACAGCGAAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGA
1 --G-TAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGA
* * * *
46427099 AGTCAATAATTCTACTTTCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAAATCTTATCTCCCT
63 AGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT
*
46427164 AAGAA
128 AAGCA
*
46427169 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* *
46427234 CAGTAATTCTACTTCCCTAGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
46427299 CA
131 CA
* *
46427301 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCATGTGGTTATAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
*
46427366 TAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
46427431 CA
131 CA
* * * *
46427433 GTAGTGGAGCAGATTGAAGATTGCGGATTTTACCTCCCTGTAGTTACAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* * **
46427498 TAGTAATTCTACTTCCCTAGGCAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
46427563 CA
131 CA
* * * * *
46427565 GTAGTGGAGTAGATCGAAGATGGTGGATTTTACCTCCCTATGGTTACAGTGGAGTACATTGAAGT
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* * *
46427630 CAGTAATTCTA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATCTCCCT
66 CAGTAATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT
46427692 GCAGTTGCAG
Statistics
Matches: 713, Mismatches: 68, Indels: 14
0.90 0.09 0.02
Matches are distributed among these distances:
130 2 0.00
131 1 0.00
132 592 0.83
133 116 0.16
135 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (132 bp):
GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
CA
Found at i:46427526 original size:88 final size:89
Alignment explanation
Indices: 46426894--46427542 Score: 240
Period size: 88 Copynumber: 7.4 Consensus size: 89
46426884 AGATCTTATC
* * * * * *
46426894 TCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGT
1 TCCCTAGGCAATAGTGGAGTAGATTGAAGATTGCGGATTTTACCTCCCTGTAGTTACAGTGGAGT
** *
46426959 ACATTGAAGCCAATA-ATTCTACT
66 ACATTGAAGATAGTAGATTCTACT
* ** * * * * * * * *
46426982 TCCCTGGGCAGCAGTGGAATAGATTAAAGATAGCAGATTTTGCCTTCCTGTA-TTGACAGCGAAG
1 TCCCTAGGCAATAGTGGAGTAGATTGAAGATTGCGGATTTTACCTCCCTGTAGTT-ACAGTGGAG
* * * * ** * *
46427046 CAGATCGAAGATGGCGGATTTTACC
65 TACATTGAAGATAGTAGATTCTACT
* ** * ***** * * * **
46427071 TCCCTGTGGTTATAGTGGAGTACATTGAAG-TCAATAATTCTACTTTCCTG--GGCAGCAGTGGA
1 TCCCT-AGGCAATAGTGGAGTAGATTGAAGATTGCGGATTTTACCTCCCTGTAGTTA-CAGTGGA
* * * *
46427133 ATAGATTGAAGAT-TTCA-AATCTTA-T
64 GTACATTGAAGATAGT-AGATTC-TACT
* * * * *
46427158 CTCCCTAAG-AAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGA
1 -TCCCTAGGCAA-TAGTGGAGTAGATTGAAGATTGCGGATTTTACCTCCCTGTAGTTACAGTGGA
**
46427222 GTACATTGAAGCCAGTA-ATTCTACT
64 GTACATTGAAGATAGTAGATTCTACT
* * * * * * *
46427247 TCCCTAGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG-T--AGTGGA
1 TCCCTAGGCAATAGTGGAGTAGATTGAAGATTGCGGATTTTACCTCCCT--GTAGTTACAGTGGA
* * * * * * *
46427309 GCAGATCGAAGATGGCAGATTTTACC
64 GTACATTGAAGATAGTAGATTCTACT
* * ** * * * ** * * **
46427335 TCCATGTGGTTATAGTGGAGTACATTGAAGCTAG-TAATTCTACTTCCCTG--GGCAGCAGTGGA
1 TCCCT-AGGCAATAGTGGAGTAGATTGAAGATTGCGGATTTTACCTCCCTGTAGTTA-CAGTGGA
* * *
46427397 ATAGATTGAAGAT-TTCAGA-TCTTA-T
64 GTACATTGAAGATAGT-AGATTC-TACT
* * *
46427422 CTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCGGATTTTACCTCCCTGTAGTTACAGTGGAG
1 -TCCCTAGGCAATAGTGGAGTAGATTGAAGATTGCGGATTTTACCTCCCTGTAGTTACAGTGGAG
*
46427487 TACATTGAAGCTAGTA-ATTCTACT
65 TACATTGAAGATAGTAGATTCTACT
*
46427511 TCCCTAGGCAATAGTGGAATAGATTGAAGATT
1 TCCCTAGGCAATAGTGGAGTAGATTGAAGATT
46427543 TCAGATCTTA
Statistics
Matches: 385, Mismatches: 144, Indels: 64
0.65 0.24 0.11
Matches are distributed among these distances:
84 1 0.00
86 2 0.01
87 58 0.15
88 214 0.56
89 86 0.22
90 24 0.06
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (89 bp):
TCCCTAGGCAATAGTGGAGTAGATTGAAGATTGCGGATTTTACCTCCCTGTAGTTACAGTGGAGT
ACATTGAAGATAGTAGATTCTACT
Found at i:46427670 original size:43 final size:44
Alignment explanation
Indices: 46427523--46427716 Score: 114
Period size: 44 Copynumber: 4.4 Consensus size: 44
46427513 CCTAGGCAAT
* * * * *
46427523 AGTGGAATAGATTGAAGAT-TTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATAGTAAG-TCTTATCTCCCTGAGTAGC
* * * * * *
46427567 AGTGGAGTAGATCGAAGATGGT-GGATTTTACCTCCCT-ATGGTTA-C
1 AGTGGAATAGATTGAAGATAGTAAG-TCTTATCTCCCTGA--G-TAGC
* * *
46427612 AGTGGAGTACATTGAAG-TCAGTAATTC-TATCTCCCTG-GTCAGC
1 AGTGGAATAGATTGAAGAT-AGTAAGTCTTATCTCCCTGAGT-AGC
* * *
46427655 AGTGGAATAGGTTGAAGATTGTAAGTCTTATCTCCCTGCAGTTGC
1 AGTGGAATAGATTGAAGATAGTAAGTCTTATCTCCCTG-AGTAGC
46427700 AGTGGAATAGATTGAAG
1 AGTGGAATAGATTGAAG
46427717 CACTAGCTCC
Statistics
Matches: 115, Mismatches: 22, Indels: 25
0.71 0.14 0.15
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 22 0.19
44 49 0.43
45 38 0.33
46 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (44 bp):
AGTGGAATAGATTGAAGATAGTAAGTCTTATCTCCCTGAGTAGC
Found at i:46427944 original size:19 final size:19
Alignment explanation
Indices: 46427920--46428011 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
46427910 AATTTTTGAG
46427920 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
46427939 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
46427958 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
46427977 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46427996 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
46428012 ATATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:46429193 original size:98 final size:98
Alignment explanation
Indices: 46429072--46429263 Score: 357
Period size: 98 Copynumber: 2.0 Consensus size: 98
46429062 AATCATGAAG
*
46429072 GAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
46429137 TCTTGGATAAGTGGATGTTCTTTTAAAGTAAAT
66 TCTTGGATAAGTGGATGTTCTTTTAAAGTAAAT
*
46429170 GAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
*
46429235 TCTTGGATGAGTGGATGTTCTTTTAAAGT
66 TCTTGGATAAGTGGATGTTCTTTTAAAGT
46429264 TTTATTGTAT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.38
Consensus pattern (98 bp):
GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
TCTTGGATAAGTGGATGTTCTTTTAAAGTAAAT
Found at i:46440867 original size:24 final size:24
Alignment explanation
Indices: 46440840--46440885 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
46440830 CTATAACGAA
*
46440840 TAGCTCCAAAGAGCAATTAATGAG
1 TAGCACCAAAGAGCAATTAATGAG
*
46440864 TAGCACCGAAGAGCAATTAATG
1 TAGCACCAAAGAGCAATTAATG
46440886 GGAAGCATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (24 bp):
TAGCACCAAAGAGCAATTAATGAG
Found at i:46440994 original size:26 final size:25
Alignment explanation
Indices: 46440929--46440988 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 25
46440919 AAGCGAGCAC
*
46440929 TAACGGGAAGCTCACAAAGAGCCTT
1 TAACGGGAAGCTCACAAAGAGCCTA
*
46440954 TAATCGGGAAGCTCACGAAGAGCCATA
1 TAA-CGGGAAGCTCACAAAGAGCC-TA
46440981 TAACGGGA
1 TAACGGGA
46440989 CACTCATAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 3 0.10
26 24 0.77
27 4 0.13
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.15
Consensus pattern (25 bp):
TAACGGGAAGCTCACAAAGAGCCTA
Found at i:46445874 original size:17 final size:18
Alignment explanation
Indices: 46445839--46445881 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
46445829 TAGGAAGTAG
46445839 ACAAAAAAAAACATTATCA
1 ACAAAAAAAAACA-TATCA
* *
46445858 CCAAAAAAAAAGA-ATCA
1 ACAAAAAAAAACATATCA
46445875 ACAAAAA
1 ACAAAAA
46445882 GTTCTGAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 10 0.48
19 11 0.52
ACGTcount: A:0.72, C:0.16, G:0.02, T:0.09
Consensus pattern (18 bp):
ACAAAAAAAAACATATCA
Found at i:46446599 original size:21 final size:21
Alignment explanation
Indices: 46446566--46446606 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
46446556 TTCTCCTTCA
* *
46446566 ACTTCCTATAATATATTATCT
1 ACTTCCTAAAATAGATTATCT
*
46446587 ACTTTCTAAAATAGATTATC
1 ACTTCCTAAAATAGATTATC
46446607 ACATAATCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.17, G:0.02, T:0.44
Consensus pattern (21 bp):
ACTTCCTAAAATAGATTATCT
Found at i:46452779 original size:20 final size:20
Alignment explanation
Indices: 46452754--46452821 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
46452744 AAGACACCAG
*
46452754 AATATCGTAGTTCATAATGA
1 AATATCATAGTTCATAATGA
*
46452774 AATATCAATA-TCTTATAATGA
1 AATATC-ATAGT-TCATAATGA
46452795 AATATCATAGTTCATAATGA
1 AATATCATAGTTCATAATGA
46452815 AATATCA
1 AATATCA
46452822 ATATCTCATA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 25 0.60
21 17 0.40
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.35
Consensus pattern (20 bp):
AATATCATAGTTCATAATGA
Found at i:46452793 original size:21 final size:21
Alignment explanation
Indices: 46452765--46452832 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
46452755 ATATCGTAGT
46452765 TCATAATGAAATATCAATATC
1 TCATAATGAAATATCAATATC
*
46452786 TTATAATGAAATATC-ATAGT-
1 TCATAATGAAATATCAATA-TC
46452806 TCATAATGAAATATCAATATC
1 TCATAATGAAATATCAATATC
46452827 TCATAA
1 TCATAA
46452833 AATCATTTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 18 0.43
21 24 0.57
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (21 bp):
TCATAATGAAATATCAATATC
Found at i:46452799 original size:41 final size:41
Alignment explanation
Indices: 46452754--46452832 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
46452744 AAGACACCAG
* *
46452754 AATATCGTAGTTCATAATGAAATATCAATATCTTATAATGA
1 AATATCATAGTTCATAATGAAATATCAATATCTCATAATGA
46452795 AATATCATAGTTCATAATGAAATATCAATATCTCATAA
1 AATATCATAGTTCATAATGAAATATCAATATCTCATAA
46452833 AATCATTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (41 bp):
AATATCATAGTTCATAATGAAATATCAATATCTCATAATGA
Found at i:46455712 original size:40 final size:40
Alignment explanation
Indices: 46455657--46455753 Score: 194
Period size: 40 Copynumber: 2.4 Consensus size: 40
46455647 CTAGAACACT
46455657 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCATC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCATC
46455697 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCATC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCATC
46455737 GGCATTAAGCCTGCTAG
1 GGCATTAAGCCTGCTAG
46455754 GCACAGGACC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (40 bp):
GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCATC
Found at i:46458380 original size:397 final size:397
Alignment explanation
Indices: 46457647--46458840 Score: 2325
Period size: 397 Copynumber: 3.0 Consensus size: 397
46457637 TACAAGAGCT
46457647 CAGAACCTAAACATGTATTCTCGAGTCCGCAACATATGCAAGAGGTTGGAACCTAGGCAAAATTC
1 CAGAACCTAAACATGTATTCTCGAGTCCGCAACATATGCAAGAGGTTGGAACCTAGGCAAAATTC
* *
46457712 ATTACCTTGTATAAGAGGTTTTACTAATTTTGTAACACCACTAACTCATATCCATCACCGAAACA
66 ATTACCTTGTATAAGAGGTTTTACTAATTTTGTAACACCCCTAACCCATATCCATCACCGAAACA
46457777 AGGTTACGGAGCATTACCAGAGTTTATAGATTTAAAAATAGTTTACACATATCATTTACTATTCA
131 AGGTTACGGAGCATTACCAGAGTTTATAGATTTAAAAATAGTTTACACATATCATTTACTATTCA
46457842 TAACCGAAATCAAACATATTCAATCATAATGTCCCTTGAATGGGCCCTCGAGACCCAATTTTTGC
196 TAACCGAAATCAAACATATTCAATCATAATGTCCCTTGAATGGGCCCTCGAGACCCAATTTTTGC
46457907 TTTAGAAACAAGTCGGGACTAAATCTGGAACTCTGAGAATTTTTCACAAAATCTCAAAATTTTTC
261 TTTAGAAACAAGTCGGGACTAAATCTGGAACTCTGAGAATTTTTCACAAAATCTCAAAATTTTTC
46457972 TTAGGTGCAGGGGACACACGCCCGTGTGGCTAGGCCGTGTGGCTTTCACGGCCAAGTGACATGCC
326 TTAGGTGCAGGGGACACACGCCCGTGTGGCTAGGCCGTGTGGCTTTCACGGCCAAGTGACATGCC
46458037 CATGTCC
391 CATGTCC
46458044 CAGAACCTAAACATGTATTCTCGAGTCCGCAACATATGCAAGAGGTTGGAACCTAGGCAAAATTC
1 CAGAACCTAAACATGTATTCTCGAGTCCGCAACATATGCAAGAGGTTGGAACCTAGGCAAAATTC
46458109 ATTACCTTGTATAAGAGGTTTTACTAATTTTGTAACACCCCTAACCCATATCCATCACCGAAACA
66 ATTACCTTGTATAAGAGGTTTTACTAATTTTGTAACACCCCTAACCCATATCCATCACCGAAACA
46458174 AGGTTACGGAGCATTACCAGAGTTTATAGATTTAAAAATAGTTTACACATATCATTTACTATTCA
131 AGGTTACGGAGCATTACCAGAGTTTATAGATTTAAAAATAGTTTACACATATCATTTACTATTCA
*
46458239 TAACCGAAATCAAACATATTCAATCATAATGTCCCTTGAATGGGCCCTCGAGACCTAATTTTTGC
196 TAACCGAAATCAAACATATTCAATCATAATGTCCCTTGAATGGGCCCTCGAGACCCAATTTTTGC
46458304 TTTAGAAACAAGTCGGGACTAAATCTGGAACTCTGAGAATTTTTCACAAAATCTCAAAATTTTTC
261 TTTAGAAACAAGTCGGGACTAAATCTGGAACTCTGAGAATTTTTCACAAAATCTCAAAATTTTTC
* *
46458369 TTAGCTGCAGGGGACACACGCCCATGTGGCTAGGCCGTGTGGCTTTCACGGCCAAGTGACATGCC
326 TTAGGTGCAGGGGACACACGCCCGTGTGGCTAGGCCGTGTGGCTTTCACGGCCAAGTGACATGCC
46458434 CATGTCC
391 CATGTCC
*
46458441 CAGAACCTAAACATGTATTCTCGAGTCCACAACATATGCAAGAGGTTGGAACCTAGGCAAAATTC
1 CAGAACCTAAACATGTATTCTCGAGTCCGCAACATATGCAAGAGGTTGGAACCTAGGCAAAATTC
46458506 ATTACCTTGTATAAGAGGTTTTACTAATTTTGTAACACCCCTAACCCATATCCATCACCGAAACA
66 ATTACCTTGTATAAGAGGTTTTACTAATTTTGTAACACCCCTAACCCATATCCATCACCGAAACA
*
46458571 AGGTTACGGAGCATTACCAGAGTTTATATATTTAAAAATAGTTTACACATATCATTTACTATTCA
131 AGGTTACGGAGCATTACCAGAGTTTATAGATTTAAAAATAGTTTACACATATCATTTACTATTCA
46458636 TAACCGAAATCAAACATATTCAATCATAATGTCCCTTGAATGGGCCCTCGAGACCCAATTTTTGC
196 TAACCGAAATCAAACATATTCAATCATAATGTCCCTTGAATGGGCCCTCGAGACCCAATTTTTGC
46458701 TTTAGAAACAAGTCGGGACTAAATCTGGAACTCTGAGAATTTTTCACAAAATCTCAAAATTTTTC
261 TTTAGAAACAAGTCGGGACTAAATCTGGAACTCTGAGAATTTTTCACAAAATCTCAAAATTTTTC
46458766 TTAGGTGCAGGGGACACACGCCCGTGTGGCTAGGCCGTGTGGCTTTCACGGCCAAGTGACATGCC
326 TTAGGTGCAGGGGACACACGCCCGTGTGGCTAGGCCGTGTGGCTTTCACGGCCAAGTGACATGCC
46458831 CATGTCC
391 CATGTCC
46458838 CAG
1 CAG
46458841 GCCATGTGGG
Statistics
Matches: 787, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
397 787 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (397 bp):
CAGAACCTAAACATGTATTCTCGAGTCCGCAACATATGCAAGAGGTTGGAACCTAGGCAAAATTC
ATTACCTTGTATAAGAGGTTTTACTAATTTTGTAACACCCCTAACCCATATCCATCACCGAAACA
AGGTTACGGAGCATTACCAGAGTTTATAGATTTAAAAATAGTTTACACATATCATTTACTATTCA
TAACCGAAATCAAACATATTCAATCATAATGTCCCTTGAATGGGCCCTCGAGACCCAATTTTTGC
TTTAGAAACAAGTCGGGACTAAATCTGGAACTCTGAGAATTTTTCACAAAATCTCAAAATTTTTC
TTAGGTGCAGGGGACACACGCCCGTGTGGCTAGGCCGTGTGGCTTTCACGGCCAAGTGACATGCC
CATGTCC
Found at i:46462510 original size:3 final size:3
Alignment explanation
Indices: 46462502--46462529 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
46462492 TCGGTGCAAC
46462502 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
46462530 TTGACCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:46467526 original size:15 final size:14
Alignment explanation
Indices: 46467506--46467539 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
46467496 AAAAAGGTAC
*
46467506 AAAAAATAATAATA
1 AAAAAATAAAAATA
46467520 GAAAAAATAAAAATA
1 -AAAAAATAAAAATA
46467535 AAAAA
1 AAAAA
46467540 CTACCTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (14 bp):
AAAAAATAAAAATA
Found at i:46475457 original size:46 final size:45
Alignment explanation
Indices: 46475382--46475501 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 45
46475372 CCCTTCTCAC
* * *
46475382 ATACTACACTCTTTCTCGCGTGTTCTTAGGTATTAAAAAACTTAAA
1 ATACTAC-CTCTTTCTCACATGTTCTTAGGAATTAAAAAACTTAAA
*
46475428 ATACTACCTTCTTTCTCACATGTTTTTAGGAATTAAAAAACTTAAA
1 ATACTACC-TCTTTCTCACATGTTCTTAGGAATTAAAAAACTTAAA
* *
46475474 ATATCATA-CTCTTTCTCACGTATTCTTA
1 ATA-C-TACCTCTTTCTCACATGTTCTTA
46475502 AATATTAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
45 1 0.02
46 59 0.92
47 2 0.03
48 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (45 bp):
ATACTACCTCTTTCTCACATGTTCTTAGGAATTAAAAAACTTAAA
Found at i:46475547 original size:27 final size:28
Alignment explanation
Indices: 46475504--46475562 Score: 111
Period size: 27 Copynumber: 2.1 Consensus size: 28
46475494 TATTCTTAAA
46475504 TATTAAAAATACCATACTCTTTCTCACG
1 TATTAAAAATACCATACTCTTTCTCACG
46475532 TATT-AAAATACCATACTCTTTCTCACG
1 TATTAAAAATACCATACTCTTTCTCACG
46475559 TATT
1 TATT
46475563 CTTAAATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 27 0.87
28 4 0.13
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (28 bp):
TATTAAAAATACCATACTCTTTCTCACG
Found at i:46481711 original size:17 final size:18
Alignment explanation
Indices: 46481686--46481719 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
46481676 CCATTATATT
*
46481686 TTTTTAATTT-TTTTATA
1 TTTTCAATTTATTTTATA
46481703 TTTTCAATTTATTTTAT
1 TTTTCAATTTATTTTAT
46481720 TTTATTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTCAATTTATTTTATA
Found at i:46482090 original size:21 final size:23
Alignment explanation
Indices: 46482046--46482090 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
46482036 AGTTGTTGAT
*
46482046 TTTTTGAATATTTTTATTAATTA
1 TTTTTGAATATTTTTATGAATTA
*
46482069 TTTTT-AA-ATTTTTATGACTTA
1 TTTTTGAATATTTTTATGAATTA
46482090 T
1 T
46482091 ACTTGGACTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 2 0.10
23 5 0.25
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (23 bp):
TTTTTGAATATTTTTATGAATTA
Found at i:46484576 original size:42 final size:41
Alignment explanation
Indices: 46484468--46484585 Score: 168
Period size: 41 Copynumber: 2.9 Consensus size: 41
46484458 GATTTCTTTG
46484468 AAGCGCCGCTAATATATGGTCTTTTAGCGGCGTTTTTATAT
1 AAGCGCCGCTAATATATGGTCTTTTAGCGGCGTTTTTATAT
* * *
46484509 AAGCGCCGCTAA-AGTTAAGAT-TTTTAGCGGGGTTTTTATGAT
1 AAGCGCCGCTAATA--TATGGTCTTTTAGCGGCGTTTTTAT-AT
46484551 AAGCGCCGCTAATATATGGTCTTTTAGCGGCGTTT
1 AAGCGCCGCTAATATATGGTCTTTTAGCGGCGTTT
46484586 ATGTTGAAGC
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
40 1 0.02
41 33 0.50
42 31 0.47
43 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (41 bp):
AAGCGCCGCTAATATATGGTCTTTTAGCGGCGTTTTTATAT
Found at i:46485528 original size:22 final size:21
Alignment explanation
Indices: 46485503--46485560 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
46485493 GGTTTAGGGG
*
46485503 TTAGGATTTATGGGTTAGGAAT
1 TTAGGGTTTA-GGGTTAGGAAT
* *
46485525 TTAGGGGTTAGGGGTTAGGGAT
1 TTAGGGTTTA-GGGTTAGGAAT
46485547 TTAGGGTTTAGGGT
1 TTAGGGTTTAGGGT
46485561 GTCAAGGGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
21 4 0.13
22 27 0.87
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (21 bp):
TTAGGGTTTAGGGTTAGGAAT
Found at i:46485532 original size:15 final size:14
Alignment explanation
Indices: 46485495--46485559 Score: 67
Period size: 15 Copynumber: 4.5 Consensus size: 14
46485485 GGATATAAGG
46485495 TTTAGGGGTTAGGA
1 TTTAGGGGTTAGGA
*
46485509 TTTATGGGTTAGGAA
1 TTTAGGGGTTAGG-A
*
46485524 TTTAGGGGTTAGGG
1 TTTAGGGGTTAGGA
* * *
46485538 GTTAGGGATTTAGGG
1 TTTAGGG-GTTAGGA
46485553 TTTAGGG
1 TTTAGGG
46485560 TGTCAAGGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
14 18 0.42
15 25 0.58
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (14 bp):
TTTAGGGGTTAGGA
Found at i:46485560 original size:7 final size:7
Alignment explanation
Indices: 46485475--46485560 Score: 59
Period size: 7 Copynumber: 12.0 Consensus size: 7
46485465 GAGGTATGGA
46485475 TTAGGGT
1 TTAGGGT
46485482 TT-GGGAT
1 TTAGGG-T
* *
46485489 ATAAGGT
1 TTAGGGT
*
46485496 TTAGGGG
1 TTAGGGT
*
46485503 TTAGGAT
1 TTAGGGT
46485510 TTATGGG-
1 TTA-GGGT
*
46485517 TTAGGAAT
1 TTAGG-GT
*
46485525 TTAGGGG
1 TTAGGGT
*
46485532 TTAGGGG
1 TTAGGGT
46485539 TTAGGGAT
1 TTAGGG-T
46485547 TTAGGGT
1 TTAGGGT
46485554 TTAGGGT
1 TTAGGGT
46485561 GTCAAGGGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
6 5 0.08
7 41 0.67
8 15 0.25
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (7 bp):
TTAGGGT
Found at i:46486889 original size:23 final size:23
Alignment explanation
Indices: 46486847--46486893 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
46486837 AATTCATGAA
*
46486847 TTTTTTTTCCCTTTTCTCTCTTT
1 TTTTTTTTCCCTTCTCTCTCTTT
46486870 TTTTTTCTTCCCTTCT-TCTCTTT
1 TTTTTT-TTCCCTTCTCTCTCTTT
46486893 T
1 T
46486894 CCTTGCTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTTTTCCCTTCTCTCTCTTT
Found at i:46488845 original size:15 final size:14
Alignment explanation
Indices: 46488821--46488850 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
46488811 TATTCCATAT
46488821 ATAAAAATTTATAA
1 ATAAAAATTTATAA
46488835 ATAATAAATTTATAA
1 ATAA-AAATTTATAA
46488850 A
1 A
46488851 GTCGAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAAAAATTTATAA
Found at i:46498792 original size:23 final size:22
Alignment explanation
Indices: 46498760--46498851 Score: 69
Period size: 23 Copynumber: 4.0 Consensus size: 22
46498750 TTACTTGAAA
*
46498760 TTAATAATATTATTATAAAAAT
1 TTAAAAATATTATTATAAAAAT
*
46498782 TGTAAAAATATTTTTA-AAAAACGT
1 T-TAAAAATATTATTATAAAAA--T
* *
46498806 TTAAAAATATTTTTTTATAAAAT
1 TTAAAAATATTATTATA-AAAAT
* *
46498829 TATAAAATATATAATTCTAAAAA
1 T-TAAAA-ATATTATTATAAAAA
46498852 GGTATTTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
22 6 0.11
23 27 0.47
24 12 0.21
25 12 0.21
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAAAATATTATTATAAAAAT
Found at i:46498976 original size:24 final size:25
Alignment explanation
Indices: 46498947--46498993 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46498937 TTAAATTATA
46498947 TATTTT-AAAATTTTTATAAAAATT
1 TATTTTCAAAATTTTTATAAAAATT
* *
46498971 TATTTTCAAACTTTTTTTAAAAA
1 TATTTTCAAAATTTTTATAAAAA
46498994 AATTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (25 bp):
TATTTTCAAAATTTTTATAAAAATT
Found at i:46499150 original size:14 final size:14
Alignment explanation
Indices: 46499131--46499199 Score: 58
Period size: 14 Copynumber: 5.1 Consensus size: 14
46499121 AAAGTATTTT
46499131 TTTTAATATTTAAA
1 TTTTAATATTTAAA
46499145 TTTTAATATTATAAA
1 TTTTAATATT-TAAA
*
46499160 TTTCT-AT-TTTTAA
1 TTT-TAATATTTAAA
46499173 -TTTAA-ATTTAATA
1 TTTTAATATTTAA-A
*
46499186 TTTTTAT-TTTAAA
1 TTTTAATATTTAAA
46499199 T
1 T
46499200 AAACCTAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
11 1 0.02
12 7 0.16
13 6 0.13
14 21 0.47
15 9 0.20
16 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTAATATTTAAA
Found at i:46499189 original size:20 final size:20
Alignment explanation
Indices: 46499132--46499199 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
46499122 AAGTATTTTT
*
46499132 TTTAATATTTAA-ATTTTAATA
1 TTTAA-ATTTAATATTTTTA-A
*
46499153 TTATAAATTT-CTATTTTTAA
1 TT-TAAATTTAATATTTTTAA
*
46499173 TTTAAATTTAATATTTTTAT
1 TTTAAATTTAATATTTTTAA
46499193 TTTAAAT
1 TTTAAAT
46499200 AAACCTAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 7 0.17
20 18 0.45
21 12 0.30
22 3 0.08
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTAAATTTAATATTTTTAA
Found at i:46500542 original size:7 final size:7
Alignment explanation
Indices: 46500509--46500541 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
46500499 CCGGTCCATC
46500509 GGCCTTA
1 GGCCTTA
46500516 GGCCTTA
1 GGCCTTA
46500523 GGCCTTA
1 GGCCTTA
*
46500530 GGCCTCA
1 GGCCTTA
46500537 GGCCT
1 GGCCT
46500542 CTTAGCTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.12, C:0.33, G:0.30, T:0.24
Consensus pattern (7 bp):
GGCCTTA
Found at i:46517631 original size:50 final size:49
Alignment explanation
Indices: 46517546--46517640 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 49
46517536 CCCCTTCCTT
46517546 TTTAACTCAATGTCATCATTCCCATGAAGACGCGGGCATCAATCAGTCA
1 TTTAACTCAATGTCATCATTCCCATGAAGACGCGGGCATCAATCAGTCA
* * * *
46517595 TTTAATTCAATGTCATCCGTTCCCATGAAGATGCGGGCATCGATCA
1 TTTAACTCAATGTCAT-CATTCCCATGAAGACGCGGGCATCAATCA
46517641 TGACTGAACT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 15 0.37
50 26 0.63
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (49 bp):
TTTAACTCAATGTCATCATTCCCATGAAGACGCGGGCATCAATCAGTCA
Found at i:46532305 original size:2 final size:2
Alignment explanation
Indices: 46532298--46532331 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
46532288 TACATACATA
*
46532298 TG TG TG TG TG CG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
46532332 AAATTTTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.03, G:0.50, T:0.47
Consensus pattern (2 bp):
TG
Found at i:46536827 original size:43 final size:41
Alignment explanation
Indices: 46536769--46536871 Score: 143
Period size: 43 Copynumber: 2.4 Consensus size: 41
46536759 AATATGTCAT
46536769 AATAATATCCTATAATATCATATTAGAAATCAAATTGCTAATA
1 AATAATATCC-ATAATATCATATTAGAAATCAAATTGCTAA-A
* *
46536812 AATAATATCTCATAATATCTTATTAGGAATCAAATTGCTAAA
1 AATAATATC-CATAATATCATATTAGAAATCAAATTGCTAAA
46536854 AGATAATATCCCATAATA
1 A-ATAATAT-CCATAATA
46536872 ATATTCTAAC
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
42 2 0.04
43 51 0.93
44 2 0.04
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.34
Consensus pattern (41 bp):
AATAATATCCATAATATCATATTAGAAATCAAATTGCTAAA
Found at i:46541167 original size:53 final size:53
Alignment explanation
Indices: 46541101--46541206 Score: 160
Period size: 53 Copynumber: 2.0 Consensus size: 53
46541091 AGCACTAATA
* *
46541101 AAAACATATTTAAACGATTTTGTTCAAGACCT-ACAACATTATGTCTTACAAAT
1 AAAACATAATTAAACAATTTTGTTCAAGA-CTGACAACATTATGTCTTACAAAT
* *
46541154 AAAACATAATTAAATAATTTTGTTCAAGACTGACAACATTGTGTCTTACAAAT
1 AAAACATAATTAAACAATTTTGTTCAAGACTGACAACATTATGTCTTACAAAT
46541207 TGAAAAATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 2 0.04
53 46 0.96
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.34
Consensus pattern (53 bp):
AAAACATAATTAAACAATTTTGTTCAAGACTGACAACATTATGTCTTACAAAT
Found at i:46545911 original size:59 final size:61
Alignment explanation
Indices: 46545842--46545958 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 61
46545832 ATAACTTTAA
* **
46545842 TATTAAATTAATATAATACTTA-T-CAAGATAAATATTATGTTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATACTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATCT
* * *
46545901 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAATTTTGATATTAA
1 TATTAAATTAATAGAATACTTA-CTACAAGATAAATATTAAATTAAATTTAATATTAA
46545959 GATAATCACT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 20 0.41
61 1 0.02
62 28 0.57
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (61 bp):
TATTAAATTAATAGAATACTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:46549838 original size:18 final size:18
Alignment explanation
Indices: 46549800--46549891 Score: 62
Period size: 18 Copynumber: 4.9 Consensus size: 18
46549790 GTTGATTGGA
**
46549800 AAAAAATATTAAAAACAAT
1 AAAAAAT-TTAAAAATTAT
46549819 AAAAAATTTAAAAATTAT
1 AAAAAATTTAAAAATTAT
* *
46549837 --AACATTGTAACAACTTATT
1 AAAAAATT-TAA-AAATTA-T
*
46549856 AAAAAATTGCAAAAATTAT
1 AAAAAATT-TAAAAATTAT
* *
46549875 AAAAAATGTAAATATTA
1 AAAAAATTTAAAAATTA
46549892 ACAAATTATT
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
16 5 0.09
17 3 0.05
18 21 0.36
19 16 0.28
20 5 0.09
21 8 0.14
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAAAATTTAAAAATTAT
Found at i:46551380 original size:17 final size:18
Alignment explanation
Indices: 46551358--46551392 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
46551348 GATATATAAT
*
46551358 TATATTTTAAAA-TAAAA
1 TATATTCTAAAATTAAAA
46551375 TATATTCTAAAATTAAAA
1 TATATTCTAAAATTAAAA
46551393 AGGAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
TATATTCTAAAATTAAAA
Found at i:46553453 original size:21 final size:21
Alignment explanation
Indices: 46553427--46553505 Score: 108
Period size: 21 Copynumber: 3.9 Consensus size: 21
46553417 GGTGGATCAA
*
46553427 CTCTTACGAGCTTCTATTCAG
1 CTCTTACGAGCTTCTGTTCAG
* *
46553448 CTCTTATGAGCTTCTGTTCAA
1 CTCTTACGAGCTTCTGTTCAG
*
46553469 CTCTTATGAGCTTCTGTTCAG
1 CTCTTACGAGCTTCTGTTCAG
46553490 CT-TT-CGAGCTTCTGTT
1 CTCTTACGAGCTTCTGTT
46553506 GGTGTATTCG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
19 11 0.21
20 2 0.04
21 40 0.75
ACGTcount: A:0.15, C:0.25, G:0.16, T:0.43
Consensus pattern (21 bp):
CTCTTACGAGCTTCTGTTCAG
Found at i:46553470 original size:42 final size:40
Alignment explanation
Indices: 46553423--46553505 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 40
46553413 ATTGGGTGGA
*
46553423 TCAACTCTTACGAGCTTCTATTCAGCTCTTATGAGCTTCTGT
1 TCAACTCTTACGAGCTTCTATTCAGCT-TT-CGAGCTTCTGT
* *
46553465 TCAACTCTTATGAGCTTCTGTTCAGCTTTCGAGCTTCTGT
1 TCAACTCTTACGAGCTTCTATTCAGCTTTCGAGCTTCTGT
46553505 T
1 T
46553506 GGTGTATTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 11 0.29
41 2 0.05
42 25 0.66
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.42
Consensus pattern (40 bp):
TCAACTCTTACGAGCTTCTATTCAGCTTTCGAGCTTCTGT
Found at i:46556005 original size:30 final size:29
Alignment explanation
Indices: 46555972--46556027 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
46555962 CCCTTTTGTT
*
46555972 TTTTTA-TTTCGATTTCGCCCCCTTTTTGG
1 TTTTTACTTT-GATTTAGCCCCCTTTTTGG
*
46556001 TTTTTACTTTGATTTAGTCCCCTTTTT
1 TTTTTACTTTGATTTAGCCCCCTTTTT
46556028 AGTATTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.09, C:0.21, G:0.11, T:0.59
Consensus pattern (29 bp):
TTTTTACTTTGATTTAGCCCCCTTTTTGG
Found at i:46556078 original size:3 final size:3
Alignment explanation
Indices: 46556049--46556134 Score: 67
Period size: 3 Copynumber: 29.7 Consensus size: 3
46556039 TATTTTCTTC
* * *
46556049 ATT ATT -TT AAT A-T ATT ATC ATTT ATT ATT ATT ATT ATT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
*
46556093 ATT -TCT ATT ATT ATT A-T ATT A-T ATT ATTT ATC A-T ATT ATT AT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT AT
46556135 ACGATAGTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
2 10 0.15
3 51 0.76
4 6 0.09
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:46559653 original size:18 final size:20
Alignment explanation
Indices: 46559614--46559654 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
46559604 GTTGTTACTA
46559614 TTTTGTTGTCATTGTATAAT
1 TTTTGTTGTCATTGTATAAT
*
46559634 TTTTGTT-TTATTGT-TAAT
1 TTTTGTTGTCATTGTATAAT
46559652 TTT
1 TTT
46559655 GTTACTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 6 0.30
20 7 0.35
ACGTcount: A:0.17, C:0.02, G:0.12, T:0.68
Consensus pattern (20 bp):
TTTTGTTGTCATTGTATAAT
Found at i:46559654 original size:17 final size:19
Alignment explanation
Indices: 46559613--46559657 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
46559603 TGTTGTTACT
46559613 ATTTTGTTGTCATTGTATA
1 ATTTTGTTGTCATTGTATA
*
46559632 ATTTTTGTT-TTATTGT-TA
1 A-TTTTGTTGTCATTGTATA
46559650 ATTTTGTT
1 ATTTTGTT
46559658 ACTATTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.29
18 3 0.12
19 7 0.29
20 7 0.29
ACGTcount: A:0.18, C:0.02, G:0.13, T:0.67
Consensus pattern (19 bp):
ATTTTGTTGTCATTGTATA
Found at i:46559663 original size:18 final size:19
Alignment explanation
Indices: 46559614--46559663 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
46559604 GTTGTTACTA
*
46559614 TTTTGTTGTCATTGTATAAT
1 TTTTGTTCT-ATTGTATAAT
*
46559634 TTTTGTTTTATTGT-TAA-
1 TTTTGTTCTATTGTATAAT
46559651 TTTTGTTACTATT
1 TTTTGTT-CTATT
46559664 TTAGAGGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 5 0.19
20 8 0.30
ACGTcount: A:0.18, C:0.04, G:0.12, T:0.66
Consensus pattern (19 bp):
TTTTGTTCTATTGTATAAT
Found at i:46560918 original size:23 final size:21
Alignment explanation
Indices: 46560863--46560921 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
46560853 AATATGTATG
*
46560863 TTGATTATTATTTATTAAATTT
1 TTGATTA-TATTTATTAAAGTT
* *
46560885 TTTAATA-ATTTCATTATAAGTT
1 TTGATTATATTT-ATTA-AAGTT
46560907 TTGATTATATTTATT
1 TTGATTATATTTATT
46560922 TTTAATAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
20 4 0.14
21 4 0.14
22 17 0.59
23 4 0.14
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (21 bp):
TTGATTATATTTATTAAAGTT
Found at i:46562465 original size:21 final size:21
Alignment explanation
Indices: 46562439--46562489 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
46562429 AGCGGTGGCG
*
46562439 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
* *
46562460 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
46562481 GTGAGATTA
1 GTGAGATTA
46562490 AAAACAATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.31
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:46567890 original size:18 final size:20
Alignment explanation
Indices: 46567852--46567891 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
46567842 TACAACACAA
46567852 TTCAATTTCATATCGAATAT
1 TTCAATTTCATATCGAATAT
*
46567872 TTCAATTTTAT-TC-AATAT
1 TTCAATTTCATATCGAATAT
46567890 TT
1 TT
46567892 TCCTAAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 2 0.11
20 10 0.53
ACGTcount: A:0.33, C:0.12, G:0.03, T:0.53
Consensus pattern (20 bp):
TTCAATTTCATATCGAATAT
Found at i:46577624 original size:132 final size:132
Alignment explanation
Indices: 46577382--46577642 Score: 371
Period size: 132 Copynumber: 2.0 Consensus size: 132
46577372 TCAGACATGA
* * * * *
46577382 ATACAATATCAAACGCTTGCAGTGACAAACATCTTGTTTGTCATAAGTAATATCTACTTAGACCT
1 ATACAATATCAAACACATGCAGTGACAAACATCTTATTTATCATAAGTAATATCTACTCAGACCT
* *
46577447 AGACACATGCATAATTTCTCAAAACATCTACAGTGAAACCACCAGAGTTGTAAAATACCCTTAAA
66 AGACACATACATAATTTCTCAAAACACCTACAGTGAAACCACCAGAGTTGTAAAATACCCTTAAA
46577512 CT
131 CT
* * * *
46577514 ATACAATATCAAACACATGCTGTGACCAACATTTTATTTATCATAAGTAATATCTACTCAGAGCT
1 ATACAATATCAAACACATGCAGTGACAAACATCTTATTTATCATAAGTAATATCTACTCAGACCT
* * **
46577579 AGACACATACAT-ATTTCCTCAAAATACCTACAGTGAAACCTCCAGAGTTGTATGATACCCTTAA
66 AGACACATACATAATTT-CTCAAAACACCTACAGTGAAACCACCAGAGTTGTAAAATACCCTTAA
46577643 CTCTTGTAAT
Statistics
Matches: 113, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
131 4 0.04
132 109 0.96
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (132 bp):
ATACAATATCAAACACATGCAGTGACAAACATCTTATTTATCATAAGTAATATCTACTCAGACCT
AGACACATACATAATTTCTCAAAACACCTACAGTGAAACCACCAGAGTTGTAAAATACCCTTAAA
CT
Found at i:46581880 original size:19 final size:20
Alignment explanation
Indices: 46581858--46581905 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
46581848 TTTTCTTTCC
*
46581858 TTTCCTCTC-GTCTCTTTTT
1 TTTCCTCTCTCTCTCTTTTT
46581877 TTTCTCTCTCTCTCTCTTTTT
1 TTTC-CTCTCTCTCTCTTTTT
46581898 TCTTCCTC
1 T-TTCCTC
46581906 CCTCAACCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 4 0.16
20 5 0.20
21 13 0.52
22 3 0.12
ACGTcount: A:0.00, C:0.35, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTCCTCTCTCTCTCTTTTT
Found at i:46584827 original size:41 final size:41
Alignment explanation
Indices: 46584764--46584879 Score: 205
Period size: 41 Copynumber: 2.8 Consensus size: 41
46584754 TGATTCAGTA
46584764 CACCGGCACTTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATGTAT
46584806 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
* *
46584847 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTG
46584880 TATTACATTC
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
41 64 0.89
42 8 0.11
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
Found at i:46592350 original size:41 final size:41
Alignment explanation
Indices: 46592305--46592419 Score: 214
Period size: 41 Copynumber: 2.8 Consensus size: 41
46592295 TGATTCAGTA
46592305 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATGTAT
46592346 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
46592387 CACCGGCATTAAGCCTGCTAGACATATAGTCTG
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTG
46592420 TATTAACATT
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
40 2 0.03
41 71 0.97
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
Found at i:46597385 original size:62 final size:62
Alignment explanation
Indices: 46597319--46597481 Score: 159
Period size: 62 Copynumber: 2.6 Consensus size: 62
46597309 AAGCATAAAT
* *
46597319 AGTGAGTTACACGGCCTGGACACACACCCGTGTCATTGATCATGTGGTTTTATACCACAAAA
1 AGTGAGTTACACGGCCTGGACACACGCCCGTGTCATTGATCATGTGGTCTTATACCACAAAA
* * * * * * * * * *
46597381 AGTGAGTTACCCGGCCTAGG-CAAATGCTCGTGTCCTTGGTCGTGTGGTCTTATTCCACACAC
1 AGTGAGTTACACGGCCT-GGACACACGCCCGTGTCATTGATCATGTGGTCTTATACCACAAAA
* *
46597443 AGTAAGTTACACAGTCC-GGACACACGCCCGTGTCCATTG
1 AGTGAGTTACAC-GGCCTGGACACACGCCCGTGT-CATTG
46597482 CCTGTGTGAA
Statistics
Matches: 78, Mismatches: 19, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
61 2 0.03
62 67 0.86
63 9 0.12
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (62 bp):
AGTGAGTTACACGGCCTGGACACACGCCCGTGTCATTGATCATGTGGTCTTATACCACAAAA
Found at i:46610948 original size:9 final size:9
Alignment explanation
Indices: 46610934--46610972 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
46610924 ACTTGTCTTT
*
46610934 AAAATATTA
1 AAAATAATA
46610943 AAAATAATA
1 AAAATAATA
*
46610952 ATAATAATA
1 AAAATAATA
*
46610961 ATAATAATA
1 AAAATAATA
46610970 AAA
1 AAA
46610973 CATCAAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAATAATA
Found at i:46610953 original size:3 final size:3
Alignment explanation
Indices: 46610945--46610970 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
46610935 AAATATTAAA
46610945 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
46610971 AACATCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:46614316 original size:24 final size:25
Alignment explanation
Indices: 46614272--46614319 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
46614262 TATAACAGGA
*
46614272 AGCTCACAAAGAGCCTATAATGAGT
1 AGCTCACAAAGAGCATATAATGAGT
46614297 AGCTC-CAAAGAGCA-ATTAATGAG
1 AGCTCACAAAGAGCATA-TAATGAG
46614320 AAGCACCGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 15 0.71
25 5 0.24
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (25 bp):
AGCTCACAAAGAGCATATAATGAGT
Found at i:46615238 original size:24 final size:24
Alignment explanation
Indices: 46615211--46615261 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
46615201 AGAACCTATG
*
46615211 ACGAGTAGCTCCAAAGAGCAATTA
1 ACGAGTAGCACCAAAGAGCAATTA
*
46615235 ACGAGTAGCACCGAAGAGCAATTA
1 ACGAGTAGCACCAAAGAGCAATTA
46615259 ACG
1 ACG
46615262 GGAAGCACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.14
Consensus pattern (24 bp):
ACGAGTAGCACCAAAGAGCAATTA
Found at i:46615268 original size:24 final size:24
Alignment explanation
Indices: 46615224--46615269 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
46615214 AGTAGCTCCA
*
46615224 AAGAGCAATTAACGAGTAGCACCG
1 AAGAGCAATTAACGAGAAGCACCG
*
46615248 AAGAGCAATTAACGGGAAGCAC
1 AAGAGCAATTAACGAGAAGCAC
46615270 TGGATAGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.20, G:0.26, T:0.11
Consensus pattern (24 bp):
AAGAGCAATTAACGAGAAGCACCG
Found at i:46615333 original size:25 final size:25
Alignment explanation
Indices: 46615305--46615352 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
46615295 AAGCGAGCAC
*
46615305 TAATGGGAAGCTCACAAAGAGCCTT
1 TAATCGGAAGCTCACAAAGAGCCTT
*
46615330 TAATCGGAAGCTCACGAAGAGCC
1 TAATCGGAAGCTCACAAAGAGCC
46615353 ATATAACGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (25 bp):
TAATCGGAAGCTCACAAAGAGCCTT
Found at i:46616844 original size:124 final size:125
Alignment explanation
Indices: 46616700--46616980 Score: 354
Period size: 124 Copynumber: 2.3 Consensus size: 125
46616690 TTTTTTTGAG
* ** ** * *
46616700 TTGACGTTTCTG-GTTAAATAGTGGGAAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGT
* * * *
46616764 CAAATAGTGGCCTCGTGGACGCGATTTCGCTACAG-TGGTCATGT-GAGAAATAA-TTTTTT
65 AAAATAGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGCCATGTAG-GAAATAATTTTTTT
* * *
46616823 TTGACGCTTTCTGAGGAAATAGTATAAAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGT
1 TTGACG-TTTCTGAGCAAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGT
* *
46616888 AAAATCGCGCCCTCGTGGATGCGATTTCGCTACAGTTGGCCATGTAGGAAATAATTTTTTT
65 AAAATAGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGCCATGTAGGAAATAATTTTTTT
*
46616949 TTGACGTTTCTGAGCAAATAGTGTCAAATCGC
1 TTGACGTTTCTGAGCAAATAGTGTAAAATCGC
46616981 GCCCTCGTGG
Statistics
Matches: 135, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
123 6 0.04
124 77 0.57
125 39 0.29
126 13 0.10
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.32
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTA
AAATAGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGCCATGTAGGAAATAATTTTTTT
Found at i:46620253 original size:61 final size:60
Alignment explanation
Indices: 46620182--46621618 Score: 1191
Period size: 61 Copynumber: 23.9 Consensus size: 60
46620172 GGGTTTTTAA
* *
46620182 TTTAGTTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATAGGTTAGGGTTTGAGTT
1 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATAGGTTA-GGTTTGGGTT
* *
46620243 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAA-TT-A--AATTAGGTTAGGGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATAGGTTA-GGTTTGGGTT
* *
46620300 TTTAATTTAGTTAAATTAGGTTAGGTTAGGGTTTTTAATTTATTTAATTAGGTTAGGATTTGGGT
1 TTT-A---A-TTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATAGGTTAGG-TTTGGGT
46620365 T
60 T
* * *
46620366 TTTAATT-AA--A--TTAGGTTAGGGTTTTTAA-TT-A--AATTAGGTTAGAATTAGGGTT
1 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATAGGTTAG-GTTTGGGTT
* *
46620418 TTTAATTATTTAAATTAAGTTAGGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTT
1 TTT-A--A-TTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATAGGTTA-GGTTTGGGTT
* *
46620483 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAA-TT-A--AATTAGGTTAGGTTAGGG-T
1 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATAGGTTAGGTTTGGGTT
* *
46620538 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTTAGTTAAATTAGGTTAGGTTAGGGTT
1 TTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTTAATTAAA-TAGGTTAGGTTTGGGTT
* * * **
46620600 TTTAATTTATTTAAATAGGTTAGAGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTT---
1 TTTAA-TTA---AATTAGGTTAG-GTTAGGGTTTTTAATTTAATTA-AATAGGTTA-GGTTTGGG
46620662 TT
59 TT
* * *
46620664 AATTTAATTAAATTAAGTTAGGTTATGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTT
1 --TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATAGGTTA-GGTTTGGGTT
* * *
46620727 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA-TTATTTAAATTAAGTTAGGTTAGGGTT
1 TTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTTAATTAAA-TAGGTTAGGTTTGGGTT
* * * * *
46620788 TTTAATTTAATTA-ATTAGGTTAGGGTTTGGGTT--TTTAATAAAATTAGATTAGGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGTTAGGGTTT---TTAATTTAATTAAA-TAGGTTAGGTTTGGGTT
* *
46620849 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAA-TT-A--AATTAGGTTAGGGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATAGGTTA-GGTTTGGGTT
* * *
46620906 TTTAATTTAGTTAAATTAGGTTAGGTTAGGGTTTTCAATTTATTTAAATAGGTTAGGGTTTGAGT
1 TTT-A---A-TTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATAGGTTA-GGTTTGGGT
46620971 T
60 T
* * *
46620972 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAAGTTAAGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAA-TAGGTTAGGTTTGGGTT
* * *
46621033 TTTAATTTAATTA-ATTAGGTTAGGGTTTGGGTT--TTTAATT-AA-A--TTAGGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGTTAGGGTTT---TTAATTTAATTAAATAGGTTAGGTTTGGGTT
* * * *
46621089 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA-TTATTTAAATTAAGTTAAGTTAGGGTT
1 TTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTTAATTAAA-TAGGTTAGGTTTGGGTT
* *
46621150 TTTAATTTAATTA-ATTAGGTTAGGGTTTGGGTT--TTTAATTAAATTAGGTTAGGTTT---TT
1 TTTAATTAAATTAGGTTAGGTTAGGGTTT---TTAATTTAATTAAA-TAGGTTAGGTTTGGGTT
* * *
46621208 TAATTATTTAAATTAAGTTAGGTTAGGGTTTTTAATTTATTTAAATAGGTTAGGGTTTGGGTT
1 T--TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATAGGTTA-GGTTTGGGTT
* * *
46621271 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA-TTATTTAAATTAAGTTAGGTTAGGGTT
1 TTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTTAATTAAA-TAGGTTAGGTTTGGGTT
* * * *
46621332 TTTAATTTAATTA-ATTAGGTTAGGGTTAGGGTT--TTTAATT-AA-A--TTAGGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGTTAGGGTT---TTTAATTTAATTAAATAGGTTAGGTTTGGGTT
* * *
46621388 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA-TTATTTAAATTAAGTTAGGTTAGGGTT
1 TTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTTAATTAAA-TAGGTTAGGTTTGGGTT
* * * *
46621449 TTTAATTTAATTA-ATTAGGTTTGGGTTTGGGTT--TTTAATT-AA-A--TTAGGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGTTAGGGTTT---TTAATTTAATTAAATAGGTTAGGTTTGGGTT
* * *
46621505 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA-TTATTTAAATTAAGTTAGGTTAGGGTT
1 TTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTTAATTAAA-TAGGTTAGGTTTGGGTT
* *
46621566 TTTAATTTAATTA-ATTAGGTTAGGGTTTGAGTT--TTTAATTAAATTAGGTTAGG
1 TTTAATTAAATTAGGTTAGGTTAGGGTTT---TTAATTTAATTAAA-TAGGTTAGG
46621619 GTTTTTAATT
Statistics
Matches: 1159, Mismatches: 96, Indels: 242
0.77 0.06 0.16
Matches are distributed among these distances:
52 21 0.02
53 1 0.00
55 28 0.02
56 137 0.12
57 65 0.06
58 42 0.04
59 69 0.06
60 83 0.07
61 435 0.38
62 146 0.13
63 15 0.01
64 3 0.00
65 28 0.02
66 82 0.07
67 4 0.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.49
Consensus pattern (60 bp):
TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATAGGTTAGGTTTGGGTT
Found at i:46620391 original size:23 final size:23
Alignment explanation
Indices: 46620342--46620407 Score: 96
Period size: 23 Copynumber: 2.8 Consensus size: 23
46620332 TTTTAATTTA
** *
46620342 TTTAATTAGGTTAGGATTTGGGTT
1 TTTAATTAAATTAGG-TTAGGGTT
46620366 TTTAATTAAATTAGGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGGTT
46620389 TTTAATTAAATTAGGTTAG
1 TTTAATTAAATTAGGTTAG
46620408 AATTAGGGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
23 26 0.67
24 13 0.33
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (23 bp):
TTTAATTAAATTAGGTTAGGGTT
Found at i:46620481 original size:117 final size:118
Alignment explanation
Indices: 46620146--46621628 Score: 1249
Period size: 117 Copynumber: 12.4 Consensus size: 118
46620136 TACAATTTAA
46620146 TTAGGGTTTTTAATTAAA-TA-G---GGTTAGGGTTTTTAATTTAGTTAAATTAGGTTA-GGTTA
1 TTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTA-TTAAATTAGGTTAGGGTTA
* *
46620205 GGGTTTTTAATTTAATTAAATAGGTTAGGGTTTGAGTTTTTAATTAAATTAGGTTAGG
65 GGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAA--A--TTAGG
46620263 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTTAGTTAAATTAGGTTA-GGTT
1 TTAGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTTA-TTAAATTAGGTTAGGGTT
* *
46620327 AGGGTTTTTAATTTATTTAATTAGGTTAGGATTTGGGTTTTTAATT-AAATTAGG
64 AGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAAATTAGG
* *
46620381 TTAGGGTTTTTAATTAAATTAGGTTAGAATTAGGGTTTTTAA-TTATTTAAATTAAGTTA-GGTT
1 TTAGGGTTTTTAATTAAATTAGGTTAG-GTTAGGGTTTTTAATTTA-TTAAATTAGGTTAGGGTT
46620444 AGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAATTAGGTTAGG
64 AGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAA--A--TTAGG
46620503 TTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGG-TTTT-A---ATTAAATTAGGTTAGGGTTAG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTATTAAATTAGGTTAGGGTTAG
* *
46620563 GGTTTTTAATTTAGTTAAATTAGGTTA-GGTTAGGGTTTTTAATTTATTTAAATAGGTTAGAG
66 GGTTTTTAATTTAATT-AATTAGGTTAGGGTTTGGGTTTTT-A---A-TTAAA-A--TTAG-G
* *
46620625 TTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAAGTTA-GGTTA
1 TTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTT-ATTAAATTAGGTTAGGGTTA
*
46620689 TGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGG
65 GGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAA--A--TTA-GG
*
46620748 TTAGGGTTTTTAATTATTTAAATTAAGTTAGGTTAGGGTTTTTAATTTAATT-AATTAGGTTAGG
1 TTAGGGTTTTT-A--A-TTAAATTAGGTTAGGTTAGGGTTTTTAATTT-ATTAAATTAGGTTAGG
* * *
46620812 GTTTGGGTTTTTAA--TAA--AATTAGATTA-GGTTAGGGTTTTTAATTAAATTAGGTTAGG
61 GTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAA--A--TTAGG
46620869 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTTAGTTAAATTAGGTTA-GGTT
1 TTAGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTTA-TTAAATTAGGTTAGGGTT
* * * *
46620933 AGGGTTTTCAATTTATTTAAATAGGTTAGGGTTTGAGTTTTTAATTAAATTAGGTTAGG
64 AGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAA--A--TTAGG
* *
46620992 TTAGGGTTTTTAATTTAATTAAATTAAGTTAAGTTAGGGTTTTTAATTTAATT-AATTAGGTTAG
1 TTAGGG---TT--TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTT-ATTAAATTAGGTTAG
* * **
46621056 GGTTTGGGTTTTTAA-TT-A--AATTAGGTTAGGGTTT---TTAATTAAATT-AGGTTAGGG
60 GGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTT--TTTAATTAAAATTA-GG
* *
46621110 TTAGGGTTTTTAATTATTTAAATTAAGTTAAGTTAGGGTTTTTAATTTAATT-AATTAGGTTAGG
1 TTAGGGTTTTT-A--A-TTAAATTAGGTTAGGTTAGGGTTTTTAATTT-ATTAAATTAGGTTAGG
* * *** *
46621174 GTTTGGGTTTTTAA-TT-A--AATTAGGTTAGGTTTTTTAATTATTTAAATT-AAGTTAGG
61 GTTAGGGTTTTTAATTTAATTAATTAGGTTAGG-GTTTGGGTT-TTT-AATTAAAATTAGG
* *
46621230 TTAGGGTTTTTAATTTATTTAAATAGGTTAGGGTTTGGGTTTTT-A---ATTAAATTAGGTTAGG
1 TTAGGGTTTTTAA-TTA---AATTAGGTTA-GGTTAGGGTTTTTAATTTATTAAATTAGGTTAGG
* * *
46621291 GTTAGGGTTTTTAA-TTATTTAAATTAAGTTA-GGTTAGGGTTTTTAATTTAATTAATTAGG
61 GTTAGGGTTTTTAATTTAATT-AATTAGGTTAGGGTTTGGGTTTTTAA-TTAA--AATTAGG
**
46621351 TTAGGGTTAGGGTTT--TT-AATTAAATTAGGTTAGGGTTTTT-A---ATTAAATTAGGTTAGGG
1 TTAGGGTT----TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTATTAAATTAGGTTAGGG
* * *
46621409 TTAGGGTTTTTAA-TTATTTAAATTAAGTTA-GGTTAGGGTTTTTAATTTAATTAATTAGG
62 TTAGGGTTTTTAATTTAATT-AATTAGGTTAGGGTTTGGGTTTTTAA-TTAA--AATTAGG
* * **
46621468 TTTGGGTTTGGGTT--TTTAATTAAATTAGGTTAGGGTTTTT-A---ATTAAATTAGGTTAGGGT
1 TTAGGGTTT---TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTATTAAATTAGGTTAGGGT
* * *
46621527 TAGGGTTTTTAA-TTATTTAAATTAAGTTA-GGTTAGGGTTTTTAATTTAATTAATTAGG
63 TAGGGTTTTTAATTTAATT-AATTAGGTTAGGGTTTGGGTTTTTAA-TTAA--AATTAGG
* **
46621585 TTAGGGTTTGAGTT--TTTAATTAAATTAGGTTAGGGTTTTTAATT
1 TTAGGGTTT---TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATT
46621629 AAGTAGGGTT
Statistics
Matches: 1216, Mismatches: 65, Indels: 167
0.84 0.04 0.12
Matches are distributed among these distances:
113 4 0.00
114 1 0.00
115 2 0.00
116 20 0.02
117 476 0.39
118 117 0.10
119 18 0.01
120 37 0.03
121 74 0.06
122 121 0.10
123 160 0.13
124 3 0.00
125 6 0.00
126 35 0.03
127 111 0.09
128 31 0.03
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.49
Consensus pattern (118 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTATTAAATTAGGTTAGGGTTAG
GGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAAATTAGG
Found at i:46620498 original size:94 final size:88
Alignment explanation
Indices: 46620182--46621630 Score: 1306
Period size: 94 Copynumber: 16.1 Consensus size: 88
46620172 GGGTTTTTAA
* * ** *
46620182 TTTAGTTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTA-AATAGGTTAGGGTTTGAGTT-TT
1 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTT---TTAAT
*
46620245 TAATTAAATTAGGTTAGGTTAGGGTT
63 TATTTAAATTAGGTTAGGTTAGGGTT
46620271 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTTAGTTAAATTAGGTTAGGTTAGGGTTTTT
1 TTTAATTAAATTAGGTTA-GGTTAGGGTTTTT-A---A-TTAAATTAGGTTAGGTTAGGGTTTTT
*
46620336 AATTTATTT-AATTAGGTTAGGATTTGGGTT
60 AA-TTATTTAAATTAGGTTAGG-TTAGGGTT
*
46620366 TTTAATT-AA--A--TTAGGTTAGGGTTTTTAATTAAATTAGGTTAGAATTAGGGTTTTTAATTA
1 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAG-GTTAGGGTTTTTAATTA
*
46620426 TTTAAATTAAGTTAGGTTAGGGTT
65 TTTAAATTAGGTTAGGTTAGGGTT
*
46620450 TTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTT-
1 TTTAA-TT-A--AATTAGGTTA-GGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTA
46620514 A--A-TTAAATTAGGTTAGGTTAGGG-T
61 ATTATTTAAATTAGGTTAGGTTAGGGTT
46620538 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTTAGTTAAATTAGGTTAGGTTAGGGTTTTT
1 TTTAATTAAATTAGGTTA-GGTTAGGGTTTTT-A---A-TTAAATTAGGTTAGGTTAGGGTTTTT
*
46620603 AATTTATTTAAA-TAGGTTAGAGTTTGGGTT
60 AA-TTATTTAAATTAGGTTAG-GTTAGGGTT
* *
46620633 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAAGTTAGGTTATGGTTTTTA
1 TTTAATTAAATTAGGTTAGGTTAGGG---TT--TTTAATTAAATTAGGTTAGGTTAGGGTTTTTA
* *
46620698 ATTTAATT-AATTAGGTTAGGGTTTGGGTT
61 A-TTATTTAAATTAGGTTA-GGTTAGGGTT
*
46620727 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTATTTAAATTAAGTTAGGTTAGGGTTTTTA
1 TTTAATTAAATTAGGTTA-GGTTAGGGTTTTT-A--A-TTAAATTAGGTTAGGTTAGGGTTTTTA
* *
46620792 ATTTAATT-AATTAGGTTAGGGTTTGGGTT
61 A-TTATTTAAATTAGGTTA-GGTTAGGGTT
* *
46620821 TTTAATAAAATTAGATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTT-A--A-
1 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAT
46620882 TTAAATTAGGTTAGGGTTAGGGTT
66 TTAAATTAGGTTA-GGTTAGGGTT
* * * **
46620906 TTTAATTTAGTTAAATTAGGTTAGGTTAGGGTTTTCAATTTATTTA-AATAGGTTAGGGTTTGAG
1 TTT-A---A-TTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTT---
* *
46620970 TT-TTTAATTAAATTAGGTTAGGTTAGGGTTTTT
58 TTAATTATTTAAATTAGGTTAGGTTAGGG---TT
* * * * ***
46621003 AATTTAATTAAATTAAGTTAAGTTAGGGTTTTTAATTTAATTA-ATTAGGTTAGGG-TTTGGGTT
1 --TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATT
**
46621066 -TTT-AATTAAATTAGGTTAGGGTT
64 ATTTAAATTAGGTTAGGTTAGGGTT
* *
46621089 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTATTTAAATTAAGTTAAGTTAGGGTTTTTA
1 TTTAATTAAATTAGGTTA-GGTTAGGGTTTTT-A--A-TTAAATTAGGTTAGGTTAGGGTTTTTA
* *
46621154 ATTTAATT-AATTAGGTTAGGGTTTGGGTT
61 A-TTATTTAAATTAGGTTA-GGTTAGGGTT
* * *
46621183 TTTAATTAAATTAGGTTAGGTT---TTTTAATTATTTAAATTAAGTTAGGTTAGGGTTTTTAATT
1 TTTAATTAAATTAGGTTAGGTTAGGGTTT--TTAATTAAATTAGGTTAGGTTAGGGTTTTTAA-T
*
46621245 TATTTAAA-TAGGTTAGGGTTTGGGTT
63 TATTTAAATTAGGTTA-GGTTAGGGTT
*
46621271 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTATTTAAATTAAGTTAGGTTAGGGTTTTTA
1 TTTAATTAAATTAGGTTA-GGTTAGGGTTTTT-A--A-TTAAATTAGGTTAGGTTAGGGTTTTTA
*
46621336 ATTTAATT-AATTAGGTTAGGGTTAGGGTT
61 A-TTATTTAAATTAGGTTA-GGTTAGGGTT
46621365 TTTAATT-AA--A--TTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTA
1 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTA
*
46621425 TTTAAATTAAGTTAGGTTAGGGTT
65 TTTAAATTAGGTTAGGTTAGGGTT
* *
46621449 TTTAATTTAATTAATTAGGTTTGGGTTTGGGTTTTTAATT-AA--A--TTAGGTTAGGGTTTTT-
1 TTTAA-TT-A--AATTAGG-TTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTA
46621508 A--A-TTAAATTAGGTTAGGGTTAGGGTT
61 ATTATTTAAATTAGGTTA-GGTTAGGGTT
* * * * *
46621534 TTTAATTATTTAAATTAAGTTAGGTTAGGGTTTTTAATTTAATTA-ATTAGGTTAGGG-TTTGAG
1 TTT-A--A-TTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAA
**
46621597 TT-TTT-AATTAAATTAGGTTAGGGTT
62 TTATTTAAATTAGGTTAGGTTAGGGTT
46621622 TTTAATTAA
1 TTTAATTAA
46621631 GTAGGGTTAG
Statistics
Matches: 1176, Mismatches: 74, Indels: 225
0.80 0.05 0.15
Matches are distributed among these distances:
84 140 0.12
85 114 0.10
86 6 0.01
87 10 0.01
88 133 0.11
89 162 0.14
90 73 0.06
91 13 0.01
92 14 0.01
93 63 0.05
94 354 0.30
95 69 0.06
96 13 0.01
97 4 0.00
98 2 0.00
99 6 0.01
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.49
Consensus pattern (88 bp):
TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAT
TTAAATTAGGTTAGGTTAGGGTT
Found at i:46620762 original size:24 final size:26
Alignment explanation
Indices: 46620703--46620907 Score: 108
Period size: 28 Copynumber: 7.0 Consensus size: 26
46620693 TTTTAATTTA
*
46620703 ATTAATTAGGTTAGGGTTTGGGTTTTT
1 ATTAATTAGGTTAGGGTTAGGG-TTTT
46620730 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 -ATT-AATTAGGTTAGGGTTAGGG-TTTT
* **
46620759 AATTATTTAAATTAAGTTAGGTTAGGGTTTTTAATTT
1 -ATTAATTAGGTT-AG---GGTTAGGG----T--TTT
*
46620796 AATTAATTAGGTTAGGGTTTGGGTTTTT
1 -ATTAATTAGGTTAGGGTTAGGG-TTTT
* *
46620824 AATAAAATTAGATTA-GGTTAGGGTTTTT
1 -AT-TAATTAGGTTAGGGTTAGGG-TTTT
46620852 AATTAAATTAGGTTA-GGTTAGGGTTTTT
1 -ATT-AATTAGGTTAGGGTTAGGG-TTTT
46620880 AATTAAATTAGGTTAGGGTTAGGGTTTT
1 -ATT-AATTAGGTTAGGGTTAGGGTTTT
46620908 TAATTTAGTT
Statistics
Matches: 151, Mismatches: 13, Indels: 26
0.79 0.07 0.14
Matches are distributed among these distances:
28 71 0.47
29 46 0.30
30 2 0.01
32 8 0.05
33 7 0.05
35 2 0.01
36 2 0.01
37 13 0.09
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (26 bp):
ATTAATTAGGTTAGGGTTAGGGTTTT
Found at i:46620855 original size:23 final size:25
Alignment explanation
Indices: 46620828--46620899 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 25
46620818 GTTTTTAATA
46620828 AAATTAGATTAGGTTAGGGTTTTTAATT
1 AAATTAGATTAGGTTAGGG--TTT-ATT
*
46620856 AAATTAGGTTAGGTTAGGGTTT-TT
1 AAATTAGATTAGGTTAGGGTTTATT
*
46620880 -AATTAAATTAGGTTAGGGTT
1 AAATTAGATTAGGTTAGGGTT
46620900 AGGGTTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 18 0.44
24 2 0.05
26 3 0.07
28 18 0.44
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (25 bp):
AAATTAGATTAGGTTAGGGTTTATT
Found at i:46621046 original size:23 final size:23
Alignment explanation
Indices: 46621013--46621111 Score: 72
Period size: 23 Copynumber: 3.9 Consensus size: 23
46621003 AATTTAATTA
*
46621013 AATTAAGTTAAGTTAGGGTTTTT
1 AATTAAATTAAGTTAGGGTTTTT
*
46621036 AATTTAATTAATTAGGTTAGGGTTTGGGTTTTT
1 AA-TT-A--AATTAAGTTAGGG--T---TTT-T
*
46621069 AATTAAATTAGGTTAGGGTTTTT
1 AATTAAATTAAGTTAGGGTTTTT
*
46621092 AATTAAATTAGGTTAGGGTT
1 AATTAAATTAAGTTAGGGTT
46621112 AGGGTTTTTA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
23 23 0.36
24 5 0.08
25 1 0.02
27 12 0.19
29 14 0.22
31 1 0.02
32 5 0.08
33 3 0.05
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.47
Consensus pattern (23 bp):
AATTAAATTAAGTTAGGGTTTTT
Found at i:46621306 original size:24 final size:25
Alignment explanation
Indices: 46621247--46621307 Score: 61
Period size: 29 Copynumber: 2.3 Consensus size: 25
46621237 TTTTAATTTA
* *
46621247 TTTAAATAGGTTAGGGTTTGGGTTTT
1 TTTAATTAGGTTAGGGTTAGGG-TTT
46621273 TAATTAAATTAGGTTAGGGTTAGGG-TT
1 T--TT-AATTAGGTTAGGGTTAGGGTTT
46621300 TTTAATTA
1 TTTAATTA
46621308 TTTAAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
24 5 0.17
25 2 0.07
26 1 0.03
27 3 0.10
28 2 0.07
29 17 0.57
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (25 bp):
TTTAATTAGGTTAGGGTTAGGGTTT
Found at i:46621385 original size:23 final size:23
Alignment explanation
Indices: 46621355--46621410 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
46621345 ATTAGGTTAG
46621355 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
46621378 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
46621401 GGTTAGGGTT
1 GGTTAGGGTT
46621411 AGGGTTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:46621503 original size:23 final size:23
Alignment explanation
Indices: 46621472--46621527 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
46621462 ATTAGGTTTG
*
46621472 GGTTTGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
46621495 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
46621518 GGTTAGGGTT
1 GGTTAGGGTT
46621528 AGGGTTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:46621611 original size:33 final size:33
Alignment explanation
Indices: 46620164--46621621 Score: 1211
Period size: 33 Copynumber: 48.2 Consensus size: 33
46620154 TTTAATTAAA
*
46620164 TAGGGTTAGGGTTTTTAATTTAGTTAAATTAGGT
1 TAGGGTTAGGGTTTTTAA-TTAATTAAATTAGGT
46620198 TA-GGTTAGGGTTTTTAATTTAATTAAA-TAGGT
1 TAGGGTTAGGGTTTTTAA-TTAATTAAATTAGGT
* *
46620230 TAGGGTTTGAG--TTT--TTAATTAAATTAGGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
46620259 TA-GGTTAGGG--TTT--TTAATTAAATTAGGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
*
46620287 TAGGGTTAGGGTTTTTAATTTAGTTAAATTAGGT
1 TAGGGTTAGGGTTTTTAA-TTAATTAAATTAGGT
* *
46620321 TA-GGTTAGGGTTTTTAATTTATTTAATTAGGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
* *
46620353 TAGGATTTGGG--TTT--TTAATT-AA--A--T
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
*
46620377 TA-GGTTAGGGTTTTTAATTAAA----TTAGGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
** * *
46620405 TAGAATTAGGGTTTTTAATTATTTAAATTAAGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
46620438 TA-GGTTAGGGTTTTTAATTTAATT-AATTAGGT
1 TAGGGTTAGGGTTTTTAA-TTAATTAAATTAGGT
*
46620470 TAGGGTTTGGG--TTT--TTAATTAAATTAGGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
46620499 TA-GGTTAGGG--TTT--TTAATTAAATTAGGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
46620527 TA-GGTTAGGG---TT--TTAATTAAATTAGGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
*
46620554 TAGGGTTAGGGTTTTTAATTTAGTTAAATTAGGT
1 TAGGGTTAGGGTTTTTAA-TTAATTAAATTAGGT
*
46620588 TA-GGTTAGGGTTTTTAATTTATTTAAA-TAGGT
1 TAGGGTTAGGGTTTTTAA-TTAATTAAATTAGGT
* *
46620620 TAGAGTTTGGG--TTT--TTAATTAAATTAGGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
*
46620649 TA-GGTTAGGGTTTTTAATTTAATTAAATTAAGT
1 TAGGGTTAGGGTTTTTAA-TTAATTAAATTAGGT
*
46620682 TA-GGTTATGGTTTTTAATTTAATT-AATTAGGT
1 TAGGGTTAGGGTTTTTAA-TTAATTAAATTAGGT
*
46620714 TAGGGTTTGGG--TTT--TTAATTAAATTAGGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
* *
46620743 TAGGGTTAGGGTTTTTAATTATTTAAATTAAGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
46620776 TA-GGTTAGGGTTTTTAATTTAATT-AATTAGGT
1 TAGGGTTAGGGTTTTTAA-TTAATTAAATTAGGT
* *
46620808 TAGGGTTTGGGTTTTTAA-T-A--AAATTAGAT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
46620837 TA-GGTTAGGG--TTT--TTAATTAAATTAGGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
46620865 TA-GGTTAGGG--TTT--TTAATTAAATTAGGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
*
46620893 TAGGGTTAGGGTTTTTAATTTAGTTAAATTAGGT
1 TAGGGTTAGGGTTTTTAA-TTAATTAAATTAGGT
* *
46620927 TA-GGTTAGGGTTTTCAATTTATTTAAA-TAGGT
1 TAGGGTTAGGGTTTTTAA-TTAATTAAATTAGGT
* *
46620959 TAGGGTTTGAG--TTT--TTAATTAAATTAGGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
*
46620988 TA-GGTTAGGGTTTTTAATTTAATTAAATTAAGT
1 TAGGGTTAGGGTTTTTAA-TTAATTAAATTAGGT
*
46621021 TA-AGTTAGGGTTTTTAATTTAATT-AATTAGGT
1 TAGGGTTAGGGTTTTTAA-TTAATTAAATTAGGT
*
46621053 TAGGGTTTGGG--TTT--TTAATT-AA--A--T
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
*
46621077 TA-GGTTAGGGTTTTTAATTAAA----TTAGGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
* *
46621105 TAGGGTTAGGGTTTTTAATTATTTAAATTAAGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
*
46621138 TA-AGTTAGGGTTTTTAATTTAATT-AATTAGGT
1 TAGGGTTAGGGTTTTTAA-TTAATTAAATTAGGT
*
46621170 TAGGGTTTGGG--TTT--TTAATTAAATTAGGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
* *
46621199 TA-GG-T----TTTTTAATTATTTAAATTAAGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
*
46621226 TA-GGTTAGGGTTTTTAATTTATTTAAA-TAGGT
1 TAGGGTTAGGGTTTTTAA-TTAATTAAATTAGGT
*
46621258 TAGGGTTTGGG--TTT--TTAATTAAATTAGGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
* *
46621287 TAGGGTTAGGGTTTTTAATTATTTAAATTAAGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
46621320 TA-GGTTAGGGTTTTTAATTTAATT-AATTAGGT
1 TAGGGTTAGGGTTTTTAA-TTAATTAAATTAGGT
46621352 TAGGGTTAGGG--TTT--TTAATT-AA--A--T
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
*
46621376 TA-GGTTAGGGTTTTTAATTAAA----TTAGGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
* *
46621404 TAGGGTTAGGGTTTTTAATTATTTAAATTAAGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
46621437 TA-GGTTAGGGTTTTTAATTTAATT-AATTAGGT
1 TAGGGTTAGGGTTTTTAA-TTAATTAAATTAGGT
* *
46621469 TTGGGTTTGGG--TTT--TTAATT-AA--A--T
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
*
46621493 TA-GGTTAGGGTTTTTAATTAAA----TTAGGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
* *
46621521 TAGGGTTAGGGTTTTTAATTATTTAAATTAAGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
46621554 TA-GGTTAGGGTTTTTAATTTAATT-AATTAGGT
1 TAGGGTTAGGGTTTTTAA-TTAATTAAATTAGGT
* *
46621586 TAGGGTTTGAG--TTT--TTAATTAAATTAGGT
1 TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
46621615 TAGGGTT
1 TAGGGTT
46621622 TTTAATTAAG
Statistics
Matches: 1194, Mismatches: 99, Indels: 267
0.77 0.06 0.17
Matches are distributed among these distances:
23 28 0.02
24 11 0.01
25 16 0.01
26 12 0.01
27 53 0.04
28 224 0.19
29 189 0.16
30 7 0.01
31 50 0.04
32 206 0.17
33 348 0.29
34 50 0.04
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.48
Consensus pattern (33 bp):
TAGGGTTAGGGTTTTTAATTAATTAAATTAGGT
Found at i:46621622 original size:23 final size:24
Alignment explanation
Indices: 46621576--46621655 Score: 83
Period size: 23 Copynumber: 3.4 Consensus size: 24
46621566 TTTAATTTAA
** * *
46621576 TTAATTAGGTTAGGGTTTGAGTTT
1 TTAATTAAATTAGGGTTAGGGTTT
46621600 TTAATTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGGTTAGGGTTT
* *
46621623 TTAATT-AAGTAGGGTTAGGGATT
1 TTAATTAAATTAGGGTTAGGGTTT
*
46621646 TTAATCAAAT
1 TTAATTAAAT
46621656 AATGTCAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
22 4 0.09
23 30 0.65
24 12 0.26
ACGTcount: A:0.30, C:0.01, G:0.24, T:0.45
Consensus pattern (24 bp):
TTAATTAAATTAGGGTTAGGGTTT
Found at i:46624019 original size:21 final size:22
Alignment explanation
Indices: 46623995--46624035 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
46623985 TTTGGAGATG
46623995 TTTT-GAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
46624016 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
46624036 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:46624043 original size:30 final size:30
Alignment explanation
Indices: 46624007--46624065 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
46623997 TTGAAGGAAA
* *
46624007 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
*
46624037 TTGAGAGAATTTTGGAAGTAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
46624066 AAATTTTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:46624103 original size:22 final size:21
Alignment explanation
Indices: 46624037--46624104 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
46624027 ATTTGAGAGT
* *
46624037 TTGAGAGAATTTTGGAAGTAAA
1 TTGAGAGAATTTTGAAAG-GAA
*
46624059 TTGAGAGAAATTTTGAAGGGAA
1 TTGAGAG-AATTTTGAAAGGAA
46624081 TTGAGAGAATTTTTGAAAGGAA
1 TTGAGAGAA-TTTTGAAAGGAA
46624103 TT
1 TT
46624105 TGTTTGTGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.05
22 29 0.73
23 9 0.22
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (21 bp):
TTGAGAGAATTTTGAAAGGAA
Found at i:46629445 original size:24 final size:25
Alignment explanation
Indices: 46629408--46629455 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
46629398 TTTCAAGAAA
46629408 TTTTAAAATATTAT-TT-TTTTTAC
1 TTTTAAAATATTATATTATTTTTAC
46629431 TTTTAAATATATTATATTATTTTTA
1 TTTTAAA-ATATTATATTATTTTTA
46629456 TTTAATAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.32
24 7 0.32
25 2 0.09
26 6 0.27
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTTAAAATATTATATTATTTTTAC
Found at i:46629459 original size:24 final size:22
Alignment explanation
Indices: 46629409--46629460 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 22
46629399 TTCAAGAAAT
46629409 TTTAAAATATTATTTTTTTTAC
1 TTTAAAATATTATTTTTTTTAC
46629431 TTTTAAATATATTATATTATTTTTA-
1 -TTTAAA-ATATTAT-TT-TTTTTAC
46629456 TTTAA
1 TTTAA
46629461 TAAACTATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.23
24 12 0.46
25 2 0.08
26 6 0.23
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTAAAATATTATTTTTTTTAC
Found at i:46635230 original size:30 final size:30
Alignment explanation
Indices: 46635196--46635254 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
46635186 TACGAGCTTT
46635196 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
1 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
* * * *
46635226 GGGGCAAAATTGTAATTTTGCCAAAGTTT
1 GGGGCAAAAGTGTAAATATGCAAAAGTTT
46635255 GAGTCAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGCAAAAGTTTA
Found at i:46635736 original size:23 final size:23
Alignment explanation
Indices: 46635704--46635801 Score: 151
Period size: 23 Copynumber: 4.3 Consensus size: 23
46635694 GTGTTATTGA
*
46635704 TCAGTGGTAGCTTCGACTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* *
46635727 TTAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
46635750 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* *
46635773 TCAGTGGTAACTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
46635796 TCAGTG
1 TCAGTG
46635802 TGGCACTTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.34
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:46635757 original size:46 final size:46
Alignment explanation
Indices: 46635703--46635801 Score: 171
Period size: 46 Copynumber: 2.2 Consensus size: 46
46635693 AGTGTTATTG
* *
46635703 ATCAGTGGTAGCTTCGACTACATTTTAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGACTACATTTCAGTGGTAACTTCGGCTACAT
*
46635749 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAACTTCGGCTACAT
1 ATCAGTGGTAGCTTCGACTACATTTCAGTGGTAACTTCGGCTACAT
46635795 ATCAGTG
1 ATCAGTG
46635802 TGGCACTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.33
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGACTACATTTCAGTGGTAACTTCGGCTACAT
Found at i:46636003 original size:37 final size:38
Alignment explanation
Indices: 46635931--46636003 Score: 114
Period size: 38 Copynumber: 1.9 Consensus size: 38
46635921 ATGTATGGAA
*
46635931 TTGAATTGAATATTGACTTGAAAATGAAAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
46635969 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAA-TGAAAAAGTGAA
46636004 ATTATGAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 4 0.12
37 14 0.42
38 15 0.45
ACGTcount: A:0.47, C:0.01, G:0.21, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:46648930 original size:26 final size:24
Alignment explanation
Indices: 46648876--46648923 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 24
46648866 AATAATACTT
46648876 AAAAAAATAAAAATAAATAAGGAA
1 AAAAAAATAAAAATAAATAAGGAA
46648900 AAAAATAATAATAAA-AGAATAAGG
1 AAAAA-AATAA-AAATA-AATAAGG
46648924 GGAAAAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 6 0.29
26 10 0.48
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (24 bp):
AAAAAAATAAAAATAAATAAGGAA
Found at i:46654804 original size:23 final size:21
Alignment explanation
Indices: 46654762--46654804 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
46654752 AATAGAGAAA
*
46654762 ACGAAATTTCTGGTATATGTT
1 ACGAAATTTCTGGTAGATGTT
46654783 ACGAAATTTCATTGGTAGATGT
1 ACGAAATTTC--TGGTAGATGT
46654805 CTCATTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
23 9 0.47
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (21 bp):
ACGAAATTTCTGGTAGATGTT
Found at i:46658723 original size:20 final size:20
Alignment explanation
Indices: 46658698--46658737 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
46658688 GATTTTGTTG
46658698 TTGTTTGAA-TCGATTCAAAA
1 TTGTTT-AACTCGATTCAAAA
*
46658718 TTGTTTAACTCGATTTAAAA
1 TTGTTTAACTCGATTCAAAA
46658738 CCCAACAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (20 bp):
TTGTTTAACTCGATTCAAAA
Found at i:46665028 original size:12 final size:12
Alignment explanation
Indices: 46665011--46665038 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
46665001 TTACATGCAA
46665011 ACCATGAAGCAG
1 ACCATGAAGCAG
46665023 ACCATGAAGCAG
1 ACCATGAAGCAG
46665035 ACCA
1 ACCA
46665039 AGCTGCCCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.29, G:0.21, T:0.07
Consensus pattern (12 bp):
ACCATGAAGCAG
Found at i:46670098 original size:41 final size:39
Alignment explanation
Indices: 46669991--46670098 Score: 114
Period size: 37 Copynumber: 2.7 Consensus size: 39
46669981 GGATAATTCG
* *
46669991 AAGTAATAAGTTGACACCTAGTGTCTCATCGGTTAAACCG
1 AAGTAATAA-TTGACACCTAGTGTCTCATCGATTAAACCA
* *
46670031 AAGT-A-AATT-AGCACCTAGTGCCTCATCGAATTAATCCA
1 AAGTAATAATTGA-CACCTAGTGTCTCATCG-ATTAAACCA
*
46670069 AAGTAATAGATTGACACCCAGTGTCTCATC
1 AAGTAATA-ATTGACACCTAGTGTCTCATC
46670099 AACTCGAAGT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
36 1 0.02
37 18 0.32
38 12 0.21
39 2 0.04
40 5 0.09
41 17 0.30
42 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (39 bp):
AAGTAATAATTGACACCTAGTGTCTCATCGATTAAACCA
Found at i:46671121 original size:51 final size:51
Alignment explanation
Indices: 46671000--46671178 Score: 288
Period size: 51 Copynumber: 3.5 Consensus size: 51
46670990 CTTACGTATG
* * * *
46671000 ATCACTTATCACTTGTCCCTGATCAAATAAGTGTAGCT-AAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
* * *
46671050 ATCACTTGCCACTAGTCACTGATCAGATAAGTGTAGCTGAAACTACTACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
46671101 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
46671152 ATCACTTGTCACTTGTCACTGATCAGA
1 ATCACTTGTCACTTGTCACTGATCAGA
46671179 AGTACTCAAA
Statistics
Matches: 118, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 33 0.28
51 85 0.72
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
Found at i:46673696 original size:30 final size:32
Alignment explanation
Indices: 46673656--46673725 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
46673646 TTTTATTTAT
*
46673656 TATATTTACTT-ATTATA-ATAT-ATAATATAA
1 TATATATACTTAATTA-AGATATAATAATATAA
*
46673686 TATATATACTTAGATTAAGATATAATATTATAA
1 TATATATACTTA-ATTAAGATATAATAATATAA
46673719 TATATAT
1 TATATAT
46673726 TTTAACTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 10 0.29
31 1 0.03
32 8 0.24
33 15 0.44
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (32 bp):
TATATATACTTAATTAAGATATAATAATATAA
Found at i:46676763 original size:16 final size:16
Alignment explanation
Indices: 46676742--46676787 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
46676732 TTATTAAATT
46676742 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
46676758 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
46676773 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
46676788 CTTTTATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:46676830 original size:120 final size:120
Alignment explanation
Indices: 46676613--46677025 Score: 701
Period size: 120 Copynumber: 3.5 Consensus size: 120
46676603 AATTATTTTA
* * * **
46676613 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAAT-AT--TT-T-TCAAATTATAGTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTT
*
46676673 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAT
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAT
46676728 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTT
* *
46676793 ATAGTATCATATATTATGATTAGAGTAAATTCATATAAGAATATTAATTATTAAT
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAT
46676848 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTT
*
46676913 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAT
46676968 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
46677026 ATGATTAAAT
Statistics
Matches: 281, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
115 39 0.14
116 2 0.01
118 2 0.01
119 1 0.00
120 231 0.82
121 6 0.02
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAT
Found at i:46676843 original size:66 final size:65
Alignment explanation
Indices: 46676661--46676955 Score: 197
Period size: 59 Copynumber: 4.8 Consensus size: 65
46676651 AATATTTTTC
** * * *
46676661 AAATTATAGTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTA--T
1 AAATTATCTTTTATAGTATCATATATTATGA-TTGAGTAAATTCATATAAGAATAATAATTATGT
46676724 T
65 T
* * * * * **
46676725 -AA-TA-ATTTTATTA-AATTATATATTTTAATT-A-T-AA-T-ATAT-TTAATAATAATTATGT
1 AAATTATCTTTTA-TAGTATCATATATTATGATTGAGTAAATTCATATAAGAATAATAATTATGT
46676780 T
65 T
*
46676781 AAATTATCTTTTATAGTATCATATATTATGATTAGAGTAAATTCATATAAGAATATTAATTA--T
1 AAATTATCTTTTATAGTATCATATATTATGATT-GAGTAAATTCATATAAGAATAATAATTATGT
46676844 T
65 T
* * * * * **
46676845 -AA-TA-ATTTTATTA-AATTATATATTTTAATT-A-T-AA-T-ATAT-TTAATAATAATTATGT
1 AAATTATCTTTTA-TAGTATCATATATTATGATTGAGTAAATTCATATAAGAATAATAATTATGT
46676900 T
65 T
46676901 AAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
1 AAATTATCTTTTATAGTATCATATATTATGA-TTGAGTAAATTCATATAAGAATA
46676956 TTGATTATTA
Statistics
Matches: 171, Mismatches: 32, Indels: 54
0.67 0.12 0.21
Matches are distributed among these distances:
54 19 0.11
55 8 0.05
56 6 0.04
57 8 0.05
58 10 0.06
59 36 0.21
60 4 0.02
61 36 0.21
62 10 0.06
63 8 0.05
64 4 0.02
65 8 0.05
66 14 0.08
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (65 bp):
AAATTATCTTTTATAGTATCATATATTATGATTGAGTAAATTCATATAAGAATAATAATTATGTT
Found at i:46676882 original size:18 final size:18
Alignment explanation
Indices: 46676836--46676883 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
46676826 TATAAGAATA
*
46676836 TTAATTATTA-ATA-ATT
1 TTAATTATAATATATATT
46676852 TT-ATTA-AATTATATATT
1 TTAATTATAA-TATATATT
46676869 TTAATTATAATATAT
1 TTAATTATAATATAT
46676884 TTAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 4 0.15
16 5 0.19
17 5 0.19
18 9 0.35
19 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTATAATATATATT
Found at i:46676883 original size:16 final size:16
Alignment explanation
Indices: 46676836--46676907 Score: 53
Period size: 16 Copynumber: 4.5 Consensus size: 16
46676826 TATAAGAATA
46676836 TTAATTATTAATA-ATT
1 TTAATTA-TAATATATT
*
46676852 TT-ATTAAATTATATATT
1 TTAATT--ATAATATATT
46676869 TTAATTATAATATA-T
1 TTAATTATAATATATT
*
46676884 TTAATAATAAT-TATGT
1 TTAATTATAATATAT-T
*
46676900 TAAATTAT
1 TTAATTAT
46676908 CTTTTATAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
14 2 0.04
15 14 0.31
16 20 0.44
17 6 0.13
18 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (16 bp):
TTAATTATAATATATT
Found at i:46676985 original size:59 final size:57
Alignment explanation
Indices: 46676682--46676985 Score: 166
Period size: 57 Copynumber: 5.1 Consensus size: 57
46676672 TATAGTATCA
*
46676682 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAATAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAA-AATTTTATTAAAT
* * * * *
46676741 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTA-TGTTAAATTATCTTT-TATAGTAT
1 TATATTATGATTTAAGTA-AAT-TCATATAAGAAT-ATTATTATTAAA--AT-TTTAT-TA-AAT
46676800 CATATATTATGA-TTAGAGTAAATTCATATAAGAATATTAATTATTAATAATTTTATTAAAT
1 --TATATTATGATTTA-AGTAAATTCATATAAGAATATT-ATTATTAA-AATTTTATTAAAT
* * * * *
46676861 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTA-TGTTAAATTATCTTT-TATAGTAT
1 TATATTATGATTTAAGTA-AAT-TCATATAAGAAT-ATTATTATTAAA--AT-TTTAT-TA-AAT
*
46676920 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATT-ATTATTAA-AATTTTATTAAAT
46676981 TATAT
1 TATAT
46676986 ATTTTAATTA
Statistics
Matches: 185, Mismatches: 22, Indels: 76
0.65 0.08 0.27
Matches are distributed among these distances:
55 2 0.01
56 19 0.10
57 33 0.18
58 24 0.13
59 17 0.09
61 12 0.06
62 24 0.13
63 33 0.18
64 19 0.10
65 2 0.01
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (57 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTATTATTAAAATTTTATTAAAT
Found at i:46677003 original size:16 final size:16
Alignment explanation
Indices: 46676982--46677023 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
46676972 TTATTAAATT
*
46676982 ATATATTTTAATTATA
1 ATATATTTTAATAATA
46676998 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
46677013 AT-TATGTTTAA
1 ATATAT-TTTAA
46677024 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:46677008 original size:15 final size:15
Alignment explanation
Indices: 46676973--46677014 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46676963 TTAAGAATTT
*
46676973 TATTAAATTAT-ATA
1 TATTTAATTATAATA
46676987 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
46677001 TATTTAATAATAAT
1 TATTTAATTATAAT
46677015 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:46689590 original size:8 final size:8
Alignment explanation
Indices: 46689579--46689610 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
46689569 AATTATTCAA
46689579 TTTTTTAT
1 TTTTTTAT
46689587 TTTTTTATT
1 TTTTTTA-T
46689596 TTTTTTAT
1 TTTTTTAT
46689604 TTTTTTA
1 TTTTTTA
46689611 AATTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTAT
Found at i:46689598 original size:9 final size:9
Alignment explanation
Indices: 46689579--46689623 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
46689569 AATTATTCAA
46689579 TTTTTTA-T
1 TTTTTTATT
46689587 TTTTTTATT
1 TTTTTTATT
46689596 TTTTTTATT
1 TTTTTTATT
* *
46689605 TTTTTAAAT
1 TTTTTTATT
*
46689614 TTTTTAATT
1 TTTTTTATT
46689623 T
1 T
46689624 AACTAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
8 7 0.21
9 26 0.79
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTATT
Done.