Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 70 of 173
Found at i:21305541 original size:13 final size:12
Alignment explanation
Indices: 21305521--21305552 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
21305511 TCACCAACTT
21305521 ATATGTTAGTCC
1 ATATGTTAGTCC
21305533 ATGATGTTAGTCC
1 AT-ATGTTAGTCC
21305546 ATATGTT
1 ATATGTT
21305553 CAAAATAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (12 bp):
ATATGTTAGTCC
Found at i:21306876 original size:72 final size:72
Alignment explanation
Indices: 21306754--21306966 Score: 203
Period size: 72 Copynumber: 2.9 Consensus size: 72
21306744 TAGACGTGTC
* * * ** * **
21306754 TATTCCAACCTTTTAAAGGTTGTCTTAGACGGGTCTATCCTAACCTTTTTAAATGTTGTTTTAGA
1 TATTCCAACCTTTTTAGGGTTGTATTAGACGACTCTATCCTAACCTTTTTAAAGGTTACTTTAGA
*
21306819 TAAGGTA
66 CAAGGTA
* * * * *
21306826 TATTTCAACCTTTTTAGGGTTGTATTAGATGACTCTATCTTGACCTTTTTAAAGGTTACTTTCGA
1 TATTCCAACCTTTTTAGGGTTGTATTAGACGACTCTATCCTAACCTTTTTAAAGGTTACTTTAGA
*
21306891 CAAGGTC
66 CAAGGTA
* * ** * * *
21306898 TATCCCAACTTTTTTAGGGTTGCT-TTAGACGGGTCTATTCTAACCTTTTTTAAGGGTTACCTTA
1 TATTCCAACCTTTTTAGGGTTG-TATTAGACGACTCTATCCTAACC-TTTTTAAAGGTTACTTTA
21306962 GACAA
64 GACAA
21306967 TGTCTAGCCT
Statistics
Matches: 112, Mismatches: 27, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
72 91 0.81
73 21 0.19
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (72 bp):
TATTCCAACCTTTTTAGGGTTGTATTAGACGACTCTATCCTAACCTTTTTAAAGGTTACTTTAGA
CAAGGTA
Found at i:21306912 original size:37 final size:38
Alignment explanation
Indices: 21306871--21306972 Score: 111
Period size: 36 Copynumber: 2.8 Consensus size: 38
21306861 TATCTTGACC
* *
21306871 TTTTTAAAGGTTACTTTCGACAAGGTCTATCCCAA-CT
1 TTTTTAAGGGTTACTTTAGACAAGGTCTATCCCAACCT
* * * *
21306908 TTTTT-AGGGTTGCTTTAGAC-GGGTCTATTCTAACCT
1 TTTTTAAGGGTTACTTTAGACAAGGTCTATCCCAACCT
* *
21306944 TTTTTAAGGGTTACCTTAGACAATGTCTA
1 TTTTTAAGGGTTACTTTAGACAAGGTCTA
21306973 GCCTAATCTT
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
35 10 0.19
36 19 0.37
37 18 0.35
38 5 0.10
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (38 bp):
TTTTTAAGGGTTACTTTAGACAAGGTCTATCCCAACCT
Found at i:21306947 original size:35 final size:34
Alignment explanation
Indices: 21306743--21306952 Score: 118
Period size: 36 Copynumber: 5.9 Consensus size: 34
21306733 AAAAATTACC
* * *
21306743 TTAGACGTGTCTATTCCAACCTTTTAAAGGTTGT
1 TTAGACGGGTCTATTCTAACCTTTTTAAGGTTGT
* *
21306777 CTTAGACGGGTCTATCCTAACCTTTTTAAATGTTGTT
1 -TTAGACGGGTCTATTCTAACCTTTTT-AAGGTTG-T
** * *
21306814 TTAGATAAGGTATATT-TCAACCTTTTTAGGGTTGT
1 TTAGA-CGGGTCTATTCT-AACCTTTTTAAGGTTGT
* ** * *
21306849 ATTAGATGACTCTA-TCTTGACCTTTTTAAAGGTTACT
1 -TTAGACGGGTCTATTC-TAACCTTTTT-AAGGTT-GT
* * * * * *
21306886 TTCGACAAGGTCTATCCCAACTTTTTTAGGGTTGCT
1 TTAGAC-GGGTCTATTCTAACCTTTTTAAGGTTG-T
21306922 TTAGACGGGTCTATTCTAACCTTTTTTAAGG
1 TTAGACGGGTCTATTCTAACC-TTTTTAAGG
21306953 GTTACCTTAG
Statistics
Matches: 126, Mismatches: 36, Indels: 25
0.67 0.19 0.13
Matches are distributed among these distances:
34 1 0.01
35 45 0.36
36 51 0.40
37 28 0.22
38 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (34 bp):
TTAGACGGGTCTATTCTAACCTTTTTAAGGTTGT
Found at i:21308448 original size:47 final size:47
Alignment explanation
Indices: 21308394--21308488 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 47
21308384 TTTTTATTTT
21308394 TTATAGATGACAATCTTAGTTCTGGAGAAGTGTCATCAATGGAAATC
1 TTATAGATGACAATCTTAGTTCTGGAGAAGTGTCATCAATGGAAATC
** * * * * **
21308441 TTATAGATGGTAGTCTTATTTTTGGAGAAGTGTCGTCGGTGGAAATC
1 TTATAGATGACAATCTTAGTTCTGGAGAAGTGTCATCAATGGAAATC
21308488 T
1 T
21308489 CAAGTTGCGA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (47 bp):
TTATAGATGACAATCTTAGTTCTGGAGAAGTGTCATCAATGGAAATC
Found at i:21313122 original size:19 final size:18
Alignment explanation
Indices: 21313095--21313137 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
21313085 AAAATTACAA
*
21313095 AAAAATCAAAATAATTTTT
1 AAAAATCAAAAT-ATTTAT
*
21313114 AAAATTCAAAATATTTAT
1 AAAAATCAAAATATTTAT
21313132 AAAAAT
1 AAAAAT
21313138 TTTAAAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATCAAAATATTTAT
Found at i:21313184 original size:7 final size:7
Alignment explanation
Indices: 21313172--21313200 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
21313162 TATAAAGAAG
21313172 ATTTAAA
1 ATTTAAA
21313179 ATTTAAA
1 ATTTAAA
21313186 ATTTAAA
1 ATTTAAA
21313193 ATTTAAA
1 ATTTAAA
21313200 A
1 A
21313201 ATATTCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATTTAAA
Found at i:21316619 original size:4 final size:4
Alignment explanation
Indices: 21316610--21316649 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
21316600 TTCAAAACAC
21316610 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
21316650 AAAAAACTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:21317460 original size:21 final size:21
Alignment explanation
Indices: 21317431--21317471 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21317421 AAAATGCTAA
21317431 GTTTAGGATTCAAGATTTAGT
1 GTTTAGGATTCAAGATTTAGT
* * *
21317452 GTTTGGGATTTAAGGTTTAG
1 GTTTAGGATTCAAGATTTAG
21317472 GGTTCAAGTT
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:0.24, C:0.02, G:0.29, T:0.44
Consensus pattern (21 bp):
GTTTAGGATTCAAGATTTAGT
Found at i:21320238 original size:17 final size:17
Alignment explanation
Indices: 21320196--21320242 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
21320186 AATTCAATTT
21320196 TAATATAAAT-ATTCAA
1 TAATATAAATAATTCAA
21320212 T-ATGACTAAATAATTCAA
1 TAAT-A-TAAATAATTCAA
21320230 TAATATAAATAAT
1 TAATATAAATAAT
21320243 ATAAAATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.07
16 2 0.07
17 13 0.48
18 8 0.30
19 2 0.07
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (17 bp):
TAATATAAATAATTCAA
Found at i:21320539 original size:29 final size:31
Alignment explanation
Indices: 21320501--21320559 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
21320491 AGAGGTGGGA
*
21320501 TGGGAAGGGAATAAAAGTTTT-AGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTGAGGGAAAAG
* *
21320531 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTGAGGGAAAA
21320560 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.41, C:0.00, G:0.39, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGAGGGAAAAG
Found at i:21320786 original size:9 final size:9
Alignment explanation
Indices: 21320772--21320808 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
21320762 TATAGTTTGA
21320772 TATTCGAAT
1 TATTCGAAT
21320781 TATTCGAAT
1 TATTCGAAT
*
21320790 TATTCGAGT
1 TATTCGAAT
21320799 TATTCGAAT
1 TATTCGAAT
21320808 T
1 T
21320809 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:21321621 original size:22 final size:22
Alignment explanation
Indices: 21321596--21321654 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
21321586 AAGAGCGAAC
21321596 TATAGGGACAAAAAATTAGAAT
1 TATAGGGACAAAAAATTAGAAT
* *
21321618 TATAGGTACCAAAAATTAGAAT
1 TATAGGGACAAAAAATTAGAAT
* *
21321640 TACATGGACAAAAAA
1 TATAGGGACAAAAAA
21321655 AGACTAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.54, C:0.08, G:0.15, T:0.22
Consensus pattern (22 bp):
TATAGGGACAAAAAATTAGAAT
Found at i:21324708 original size:4 final size:4
Alignment explanation
Indices: 21324699--21324723 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
21324689 TAATAAGGAA
21324699 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
21324724 TAGAGGAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:21327591 original size:12 final size:12
Alignment explanation
Indices: 21327574--21327605 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
21327564 GCATGAATTA
21327574 AATTAATTATAG
1 AATTAATTATAG
21327586 AATTAATTATAG
1 AATTAATTATAG
21327598 AATTAATT
1 AATTAATT
21327606 TAATTGGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (12 bp):
AATTAATTATAG
Found at i:21331959 original size:74 final size:75
Alignment explanation
Indices: 21331836--21331995 Score: 207
Period size: 74 Copynumber: 2.1 Consensus size: 75
21331826 AATATGAAGA
* * * *
21331836 ACACATAATGAAGGTATTAAAGGATGCTAATGTATTATTGCAAAACATTAAACAAAGATGCATTT
1 ACACATAATGAAGGTATTAAAAGATGCAAATGTATTAATGCAAAACATTAAAAAAAGATGCATTT
*
21331901 AATAAACAAG
66 AACAAACAAG
* *
21331911 ACACATAATGCAA-GT-TTAAAATATGCAAATGTATTAATGTAAAACATTAAAAAAAGATGCATT
1 ACACATAATG-AAGGTATTAAAAGATGCAAATGTATTAATGCAAAACATTAAAAAAAGATGCATT
* *
21331974 TAACCAACATG
65 TAACAAACAAG
*
21331985 ACACAAAATGA
1 ACACATAATGA
21331996 TGAAAAACAT
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
73 1 0.01
74 59 0.80
75 12 0.16
76 2 0.03
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (75 bp):
ACACATAATGAAGGTATTAAAAGATGCAAATGTATTAATGCAAAACATTAAAAAAAGATGCATTT
AACAAACAAG
Found at i:21333445 original size:40 final size:40
Alignment explanation
Indices: 21333408--21333632 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
21333398 GCTACTCGTT
* *
21333408 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
21333448 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
21333488 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
21333528 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
21333567 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
21333608 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
21333633 CATCATTCGA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:21333592 original size:119 final size:120
Alignment explanation
Indices: 21333410--21333632 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
21333400 TACTCGTTCA
*
21333410 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
21333475 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
21333530 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
21333592 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
21333633 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:21334828 original size:56 final size:57
Alignment explanation
Indices: 21334756--21334881 Score: 227
Period size: 56 Copynumber: 2.2 Consensus size: 57
21334746 TTTCTTATTA
21334756 GTTTATTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACAT
1 GTTT-TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACAT
*
21334814 G-TTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACAT
1 GTTTTTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACAT
21334870 GTTTTTGCCCAT
1 GTTTTTGCCCAT
21334882 CATCCCTTGT
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
56 53 0.80
57 12 0.18
58 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.46
Consensus pattern (57 bp):
GTTTTTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACAT
Found at i:21341402 original size:40 final size:40
Alignment explanation
Indices: 21341328--21341511 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
21341318 GCTACTCGTT
*
21341328 CAAATGCCTTCGGGAC-AAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
21341367 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
21341407 CCAATGCCTTC-GGTCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
21341446 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
21341487 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21341512 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
39 52 0.42
40 58 0.47
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:21341495 original size:79 final size:80
Alignment explanation
Indices: 21341328--21341511 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
21341318 GCTACTCGTT
* *
21341328 CAAATGCCTTCGGGAC-AAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
21341391 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* * * **
21341408 CAATGCCTTC-GGTCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
21341471 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
21341487 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
21341512 CATCATTCGA
Statistics
Matches: 86, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
78 6 0.07
79 59 0.69
80 21 0.24
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:21342706 original size:56 final size:56
Alignment explanation
Indices: 21342639--21342758 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
21342629 TATTAGTTTA
*
21342639 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATATT
*
21342695 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATATT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATATT
21342751 TTGCCCAT
1 TTGCCCAT
21342759 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATATT
Found at i:21347638 original size:25 final size:25
Alignment explanation
Indices: 21347585--21347700 Score: 110
Period size: 25 Copynumber: 4.6 Consensus size: 25
21347575 ATACATGTAT
* *
21347585 GCTCATACGAGCTCTGAAT--CAGTAT
1 GCTCATACGAG--CTGAATAACGGTAA
* *
21347610 GCTCTTACGAGTTGAATAACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* *
21347635 GCTCATCCGAGCTGAATAATGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
** *
21347660 GCTCATGTGAGCTGAGTAACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
*
21347685 GCTCATACGAGATGAA
1 GCTCATACGAGCTGAA
21347701 ATCAATAACC
Statistics
Matches: 73, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
23 5 0.07
25 68 0.93
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:21352415 original size:384 final size:384
Alignment explanation
Indices: 21351706--21352476 Score: 1533
Period size: 384 Copynumber: 2.0 Consensus size: 384
21351696 TCTTAGAACT
21351706 ACACTGATATCGATATCACTATATTGTATGGGACTAGCGGAGTTAAAAGAGTTGAAAGTATAGTT
1 ACACTGATATCGATATCACTATATTGTATGGGACTAGCGGAGTTAAAAGAGTTGAAAGTATAGTT
21351771 GCAATAATTGCTAGATAGAGGGTTTATTTGACCAAGCATATCTTCCTAGAGTGAACCTGTGTTGT
66 GCAATAATTGCTAGATAGAGGGTTTATTTGACCAAGCATATCTTCCTAGAGTGAACCTGTGTTGT
21351836 TTGTGAAAAAGAAAGACGACTCCTTGAGATTGTGTATTGACTACAAACAGTTGAATAAAGTCACA
131 TTGTGAAAAAGAAAGACGACTCCTTGAGATTGTGTATTGACTACAAACAGTTGAATAAAGTCACA
21351901 ATAAAAAATAAGTATCCCTTGTCACGTATTGATGATTTGTTTGGTCAATTAAAAGGTTCCATAGT
196 ATAAAAAATAAGTATCCCTTGTCACGTATTGATGATTTGTTTGGTCAATTAAAAGGTTCCATAGT
21351966 GTTCTCAAAGATAGACCTCAGATCTAGGTATTATCAGTTGTGATTTAAGGATTGTGATGTGCCAA
261 GTTCTCAAAGATAGACCTCAGATCTAGGTATTATCAGTTGTGATTTAAGGATTGTGATGTGCCAA
21352031 AAACTGCTTTCAGAACTCGTTACGACCACTATGAGTTTCTAGTAATGCCATTTGGATTA
326 AAACTGCTTTCAGAACTCGTTACGACCACTATGAGTTTCTAGTAATGCCATTTGGATTA
21352090 ACACTGATATCGATATCACTATATTGTATGGGACTAGCGGAGTTAAAAGAGTTGAAAGTATAGTT
1 ACACTGATATCGATATCACTATATTGTATGGGACTAGCGGAGTTAAAAGAGTTGAAAGTATAGTT
21352155 GCAATAATTGCTAGATAGAGGGTTTATTTGACCAAGCATATCTTCCTAGAGTGAACCTGTGTTGT
66 GCAATAATTGCTAGATAGAGGGTTTATTTGACCAAGCATATCTTCCTAGAGTGAACCTGTGTTGT
*
21352220 TTGTGAAAAAGAAAGACGACTCCTTGAGATTGTGTATTGACTACAAACAGTTGAATAAAGTCATA
131 TTGTGAAAAAGAAAGACGACTCCTTGAGATTGTGTATTGACTACAAACAGTTGAATAAAGTCACA
21352285 ATAAAAAATAAGTATCCCTTGTCACGTATTGATGATTTGTTTGGTCAATTAAAAGGTTCCATAGT
196 ATAAAAAATAAGTATCCCTTGTCACGTATTGATGATTTGTTTGGTCAATTAAAAGGTTCCATAGT
21352350 GTTCTCAAAGATAGACCTCAGATCTAGGTATTATCAGTTGTGATTTAAGGATTGTGATGTGCCAA
261 GTTCTCAAAGATAGACCTCAGATCTAGGTATTATCAGTTGTGATTTAAGGATTGTGATGTGCCAA
21352415 AAACTGCTTTCAGAACTCGTTACGACCACTATGAGTTTCTAGTAATGCCATTTGGATTA
326 AAACTGCTTTCAGAACTCGTTACGACCACTATGAGTTTCTAGTAATGCCATTTGGATTA
21352474 ACA
1 ACA
21352477 AATGCTCCTG
Statistics
Matches: 386, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
384 386 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (384 bp):
ACACTGATATCGATATCACTATATTGTATGGGACTAGCGGAGTTAAAAGAGTTGAAAGTATAGTT
GCAATAATTGCTAGATAGAGGGTTTATTTGACCAAGCATATCTTCCTAGAGTGAACCTGTGTTGT
TTGTGAAAAAGAAAGACGACTCCTTGAGATTGTGTATTGACTACAAACAGTTGAATAAAGTCACA
ATAAAAAATAAGTATCCCTTGTCACGTATTGATGATTTGTTTGGTCAATTAAAAGGTTCCATAGT
GTTCTCAAAGATAGACCTCAGATCTAGGTATTATCAGTTGTGATTTAAGGATTGTGATGTGCCAA
AAACTGCTTTCAGAACTCGTTACGACCACTATGAGTTTCTAGTAATGCCATTTGGATTA
Found at i:21363633 original size:23 final size:25
Alignment explanation
Indices: 21363607--21363654 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
21363597 GGGAATGATG
*
21363607 ACAATTAAAA-GATTGA-AGATTTA
1 ACAAATAAAACGATTGAGAGATTTA
21363630 ACAAATAAAATCGATTGAGAGATTT
1 ACAAATAAAA-CGATTGAGAGATTT
21363655 GGGAGAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
25 6 0.29
26 6 0.29
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.29
Consensus pattern (25 bp):
ACAAATAAAACGATTGAGAGATTTA
Found at i:21365015 original size:32 final size:32
Alignment explanation
Indices: 21364979--21365044 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
21364969 ATACTATAAG
*
21364979 ACATAATTTTTTCTTATCGTATTTTTATTCAT
1 ACATAATTTTTTCTTATAGTATTTTTATTCAT
21365011 ACATAATTTTTTCTTATAGTATTTTTATTCAT
1 ACATAATTTTTTCTTATAGTATTTTTATTCAT
21365043 AC
1 AC
21365045 CGTCTGGCTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.03, T:0.58
Consensus pattern (32 bp):
ACATAATTTTTTCTTATAGTATTTTTATTCAT
Found at i:21372336 original size:45 final size:45
Alignment explanation
Indices: 21372229--21372401 Score: 138
Period size: 45 Copynumber: 3.9 Consensus size: 45
21372219 TGGCTTGAAG
* * *
21372229 AAAAA-GAATAAGACTATAGTTGAAAGACACTATGGCACTATA-C
1 AAAAATGAATAAGACCATAGATGAAAGACACTATGGCATTATATC
** * * *
21372272 TGGAACTGAATAAGTCCATAGATGAAAGAAACTATGGCATTATATC
1 -AAAAATGAATAAGACCATAGATGAAAGACACTATGGCATTATATC
* * *
21372318 AAAAATGAGTAAGACCATA-ACTGAAAGACGCTATGGCATAATGAT-
1 AAAAATGAATAAGACCATAGA-TGAAAGACACTATGGCATTAT-ATC
* * * * * *
21372363 TATAATGAGTAAGACCATAGCTAAAAGACATTATGGCAT
1 AAAAATGAATAAGACCATAGATGAAAGACACTATGGCAT
21372402 CACAATTCTA
Statistics
Matches: 102, Mismatches: 22, Indels: 9
0.77 0.17 0.07
Matches are distributed among these distances:
44 3 0.03
45 96 0.94
46 3 0.03
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.23
Consensus pattern (45 bp):
AAAAATGAATAAGACCATAGATGAAAGACACTATGGCATTATATC
Found at i:21372418 original size:45 final size:45
Alignment explanation
Indices: 21372324--21372560 Score: 253
Period size: 45 Copynumber: 5.3 Consensus size: 45
21372314 TATCAAAAAT
* * * * * * *
21372324 GAGTAAGACCATAACTGAAAGACGCTATGGCATAATGATTATAAT
1 GAGTAAGACCATAGCTAAAAGACGTTATGGCATCATAATTCTAAC
* *
21372369 GAGTAAGACCATAGCTAAAAGACATTATGGCATCACAATTCTAAC
1 GAGTAAGACCATAGCTAAAAGACGTTATGGCATCATAATTCTAAC
* * * *
21372414 GAGTAAGACCATAGCTGAAAGACGTTATGACATCATGATTGTAAC
1 GAGTAAGACCATAGCTAAAAGACGTTATGGCATCATAATTCTAAC
* *
21372459 GAGTAAGGCCATAGCTAGAAGACGTTATGGCATCATAATTCTAAC
1 GAGTAAGACCATAGCTAAAAGACGTTATGGCATCATAATTCTAAC
* * * * *
21372504 GAGTAAGACCATAGATGAAAGATGCTATGGTATCATGAA-TC-AGAC
1 GAGTAAGACCATAGCTAAAAGACGTTATGGCATCAT-AATTCTA-AC
*
21372549 GAATAAGACCAT
1 GAGTAAGACCAT
21372561 GGTTGGAAGA
Statistics
Matches: 161, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
44 1 0.01
45 158 0.98
46 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (45 bp):
GAGTAAGACCATAGCTAAAAGACGTTATGGCATCATAATTCTAAC
Found at i:21372539 original size:90 final size:90
Alignment explanation
Indices: 21372324--21372541 Score: 312
Period size: 90 Copynumber: 2.4 Consensus size: 90
21372314 TATCAAAAAT
* *
21372324 GAGTAAGACCATA-ACTGAAAGACGCTATGGCATAATGATTATAATGAGTAAGACCATAGCTAAA
1 GAGTAAGACCATAGA-TGAAAGACGCTATGGCATCATGATTATAACGAGTAAGACCATAGCTAAA
21372388 AGACATTATGGCATCACAATTCTAAC
65 AGACATTATGGCATCACAATTCTAAC
* * * * * *
21372414 GAGTAAGACCATAGCTGAAAGACGTTATGACATCATGATTGTAACGAGTAAGGCCATAGCTAGAA
1 GAGTAAGACCATAGATGAAAGACGCTATGGCATCATGATTATAACGAGTAAGACCATAGCTAAAA
* *
21372479 GACGTTATGGCATCATAATTCTAAC
66 GACATTATGGCATCACAATTCTAAC
* *
21372504 GAGTAAGACCATAGATGAAAGATGCTATGGTATCATGA
1 GAGTAAGACCATAGATGAAAGACGCTATGGCATCATGA
21372542 ATCAGACGAA
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
90 112 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (90 bp):
GAGTAAGACCATAGATGAAAGACGCTATGGCATCATGATTATAACGAGTAAGACCATAGCTAAAA
GACATTATGGCATCACAATTCTAAC
Found at i:21376070 original size:6 final size:6
Alignment explanation
Indices: 21376059--21376085 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21376049 GCCTCCTTCC
21376059 TCTCTT TCTCTT TCTCTT TCTCTT TCT
1 TCTCTT TCTCTT TCTCTT TCTCTT TCT
21376086 TATTTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
TCTCTT
Found at i:21384649 original size:6 final size:6
Alignment explanation
Indices: 21384638--21384669 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
21384628 ATATCATTAC
21384638 TCTCTT TCTCTT TCTCTT TCTCTT TCTTCTT T
1 TCTCTT TCTCTT TCTCTT TCTCTT TC-TCTT T
21384670 TTATAGGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
TCTCTT
Found at i:21391353 original size:47 final size:46
Alignment explanation
Indices: 21391295--21391509 Score: 238
Period size: 45 Copynumber: 4.7 Consensus size: 46
21391285 TGAATCAAAG
* *
21391295 AAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGGAAAAAT
1 AAATAAGACCATGGTTGAAAGACACTATGGCAACAAGAC-GAAAAAT
* * *
21391342 GAATAAGACCATGGTTGAAAGACACTATAGCAACACA-ATGAAAAAT
1 AAATAAGACCATGGTTGAAAGACACTATGGCAACA-AGACGAAAAAT
* * * ** * *
21391388 GAATAAGACCATGGTTGAAAGACATTACGGCATTAAGAAG-AGAAT
1 AAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAAAAAT
* * * *
21391433 AAATAAGACCATGGTTGAAAGACACCATGGCATCAAGAC-TAGAAT
1 AAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAAAAAT
*
21391478 AAATAAGACCATGGTTGAAAGACACCATGGCA
1 AAATAAGACCATGGTTGAAAGACACTATGGCA
21391510 CACTTTGATC
Statistics
Matches: 147, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
45 75 0.51
46 39 0.27
47 33 0.22
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.17
Consensus pattern (46 bp):
AAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAAAAAT
Found at i:21393303 original size:12 final size:12
Alignment explanation
Indices: 21393286--21393315 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21393276 TCAGGCAGTT
21393286 ACACGGCCTAGC
1 ACACGGCCTAGC
*
21393298 ACACGGCCTGGC
1 ACACGGCCTAGC
21393310 ACACGG
1 ACACGG
21393316 GCGTGTGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:21401254 original size:3 final size:3
Alignment explanation
Indices: 21401246--21401284 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
21401236 AATTGAATTG
*
21401246 TTA TTA TTA TTA TTA TTC TTA -TA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
21401285 ATTTATGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:21401272 original size:14 final size:14
Alignment explanation
Indices: 21401246--21401281 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
21401236 AATTGAATTG
21401246 TTATTATTATTATTA
1 TTATTA-TATTATTA
*
21401261 TTCTTATATTATTA
1 TTATTATATTATTA
21401275 TTATTAT
1 TTATTAT
21401282 TATATTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATTATATTATTA
Found at i:21401272 original size:17 final size:17
Alignment explanation
Indices: 21401250--21401287 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
21401240 GAATTGTTAT
*
21401250 TATTATTATTATTCTTA
1 TATTATTATTATTATTA
21401267 TATTATTATTATTATTA
1 TATTATTATTATTATTA
21401284 TATT
1 TATT
21401288 TATGCATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTATTATTATTATTA
Found at i:21405051 original size:18 final size:19
Alignment explanation
Indices: 21405013--21405059 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
21405003 TTGAGCTAAT
*
21405013 ATTCTTTTATTC-TTTACG
1 ATTCTTTCATTCTTTTACG
21405031 ATTCTTTCATTCTTTTA-G
1 ATTCTTTCATTCTTTTACG
21405049 ATT-TTTC-TTCT
1 ATTCTTTCATTCT
21405060 AAATCATTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 4 0.15
17 4 0.15
18 15 0.56
19 4 0.15
ACGTcount: A:0.15, C:0.17, G:0.04, T:0.64
Consensus pattern (19 bp):
ATTCTTTCATTCTTTTACG
Found at i:21405841 original size:6 final size:6
Alignment explanation
Indices: 21405830--21405871 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
21405820 AGATTCAATG
*
21405830 CAAAAA CAAAAA CAAAAA CAAAAG CAAAAA CAAAAA CAAAAA
1 CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA
21405872 AAGGGAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.81, C:0.17, G:0.02, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:21406449 original size:15 final size:14
Alignment explanation
Indices: 21406407--21406451 Score: 63
Period size: 15 Copynumber: 3.1 Consensus size: 14
21406397 AAAGATGTGA
*
21406407 AAAAATAAAAATAG
1 AAAAATAAAAATGG
21406421 AAAAATGAAAAATGG
1 AAAAAT-AAAAATGG
21406436 AAAAAGTAAAAATGG
1 AAAAA-TAAAAATGG
21406451 A
1 A
21406452 GAGGCTAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 6 0.21
15 21 0.75
16 1 0.04
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (14 bp):
AAAAATAAAAATGG
Found at i:21407948 original size:132 final size:132
Alignment explanation
Indices: 21407711--21408257 Score: 891
Period size: 132 Copynumber: 4.1 Consensus size: 132
21407701 ACAGCGAAGC
* *
21407711 AGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAGTAATTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
*
21407776 ATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCATTAGTGGA
66 ATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGA
21407841 GT
131 GT
21407843 AGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* * *
21407908 ATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCTTACCTCCCTAGGCATTAGTGGA
66 ATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGA
21407973 GT
131 GT
* *
21407975 AGATCGAAGATGGCAGATTTTACCTCCCTGAAGTTACAGTGGAGTACATTGAAGCCTGTAATTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
21408040 ATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGA
66 ATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGA
21408105 GT
131 GT
* * *
21408107 AGATCAAAGATGGCAGATTTTACCTCCTTGAGGTTATAGTGGAGTACATTGAAGCCAGTAATTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* * * * * *
21408172 ATCTCCCTGGTCAACAGTGGAATCA-ATCGAAGAATAGCAGCTCTTATCTCCCTAAGCAGTAGTG
66 ATCTCCCTGGGCAGCAGTGGAAT-AGATTGAAGATTA-CAGATCTTATCTCCCTAGGCAGTAGTG
21408236 GAGT
129 GAGT
*
21408240 AGA-CTGACGATGGCAGAT
1 AGATC-GAAGATGGCAGAT
21408258 CTGGTTTCCC
Statistics
Matches: 390, Mismatches: 22, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
132 346 0.89
133 44 0.11
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
AGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
ATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGA
GT
Found at i:21408124 original size:44 final size:44
Alignment explanation
Indices: 21407775--21408259 Score: 256
Period size: 44 Copynumber: 11.0 Consensus size: 44
21407765 CCAGTAATTC
* * **
21407775 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATGGCAGATCT
** * *
21407819 TATCTCCCTAGGCATTAGTGGAGTAGATCGAAGATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATGGCAGATCT
* * * *** *
21407863 TACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-AT-T
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAGATGGCAGATCT
* * * **
21407906 CTATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCT
1 -TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATGGCAGATCT
* ** * *
21407951 TACCTCCCTAGGCATTAGTGGAGTAGATCGAAGATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATGGCAGATCT
* ** * * *
21407995 TACCTCCCTGAAGTTA-CAGTGGAGTACATTGAAGCCT-GTA-AT-T
1 TATCTCCCT--AGGCAGCAGTGGAGTAGATTGAAG-ATGGCAGATCT
* * **
21408038 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
1 -TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATGGCAGATCT
* ** *
21408083 TATCTCCCTAGGCAGTAGTGGAGTAGATCAAAGATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATGGCAGATCT
* * * * * *** *
21408127 TACCTCCTTGAGGTTA-TAGTGGAGTACATTGAAGCCAGTA-AT-T
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAGATGGCAGATCT
* * * * *
21408170 CTATCTCCCT-GGTCAACAGTGGAATCA-ATCGAAGAATAGCAGCTCT
1 -TATCTCCCTAGG-CAGCAGTGGAGT-AGATTGAAG-ATGGCAGATCT
* * * *
21408216 TATCTCCCTAAGCAGTAGTGGAGTAGACTGACGATGGCAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATGGCAGATCT
21408260 GGTTTCCCCG
Statistics
Matches: 326, Mismatches: 91, Indels: 48
0.70 0.20 0.10
Matches are distributed among these distances:
42 8 0.02
43 51 0.16
44 177 0.54
45 82 0.25
46 8 0.02
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATGGCAGATCT
Found at i:21409853 original size:3 final size:3
Alignment explanation
Indices: 21409845--21409883 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
21409835 AATTGAATTG
*
21409845 TTA TTA TTA TTA TTA TTC TTA -TA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
21409884 ATTTATGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:21409871 original size:14 final size:14
Alignment explanation
Indices: 21409845--21409880 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
21409835 AATTGAATTG
21409845 TTATTATTATTATTA
1 TTATTA-TATTATTA
*
21409860 TTCTTATATTATTA
1 TTATTATATTATTA
21409874 TTATTAT
1 TTATTAT
21409881 TATATTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATTATATTATTA
Found at i:21409871 original size:17 final size:17
Alignment explanation
Indices: 21409849--21409886 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
21409839 GAATTGTTAT
*
21409849 TATTATTATTATTCTTA
1 TATTATTATTATTATTA
21409866 TATTATTATTATTATTA
1 TATTATTATTATTATTA
21409883 TATT
1 TATT
21409887 TATGCATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTATTATTATTATTA
Found at i:21410420 original size:66 final size:66
Alignment explanation
Indices: 21410314--21410453 Score: 271
Period size: 66 Copynumber: 2.1 Consensus size: 66
21410304 ATACTTATGC
*
21410314 ATTTTTTATCTCATATTCATACACATACTTGCAAAATTCACTTATATATCATACTTATATATACA
1 ATTTTGTATCTCATATTCATACACATACTTGCAAAATTCACTTATATATCATACTTATATATACA
21410379 T
66 T
21410380 ATTTTGTATCTCATATTCATACACATACTTGCAAAATTCACTTATATATCATACTTATATATACA
1 ATTTTGTATCTCATATTCATACACATACTTGCAAAATTCACTTATATATCATACTTATATATACA
21410445 T
66 T
21410446 ATTTTGTA
1 ATTTTGTA
21410454 AACATGTATA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 73 1.00
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.44
Consensus pattern (66 bp):
ATTTTGTATCTCATATTCATACACATACTTGCAAAATTCACTTATATATCATACTTATATATACA
T
Found at i:21411833 original size:16 final size:16
Alignment explanation
Indices: 21411800--21411829 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21411790 GATTTTCTGA
21411800 TTGTTTTTTCTTTTCT
1 TTGTTTTTTCTTTTCT
21411816 TTGTTTTTT-TTTTC
1 TTGTTTTTTCTTTTC
21411830 CTTTTTTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (16 bp):
TTGTTTTTTCTTTTCT
Found at i:21419964 original size:31 final size:31
Alignment explanation
Indices: 21419929--21419992 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
21419919 TTTTAATCTC
21419929 AAAGTTAAAAACAATGGGAGCTAAAGCAAAT
1 AAAGTTAAAAACAATGGGAGCTAAAGCAAAT
*
21419960 AAAGTTAAAAACAGTGGGAGCTAAAGCAAAT
1 AAAGTTAAAAACAATGGGAGCTAAAGCAAAT
21419991 AA
1 AA
21419993 TTCCTTTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.55, C:0.09, G:0.20, T:0.16
Consensus pattern (31 bp):
AAAGTTAAAAACAATGGGAGCTAAAGCAAAT
Found at i:21422196 original size:23 final size:23
Alignment explanation
Indices: 21422151--21422197 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
21422141 TCAGAGTAAT
**
21422151 TTAATCTCTATCAATTTTGAGAG
1 TTAATCTCTATCAATTTCAAGAG
21422174 TTAATCTCTATCAATTTCAAGAG
1 TTAATCTCTATCAATTTCAAGAG
21422197 T
1 T
21422198 GAGAAACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.43
Consensus pattern (23 bp):
TTAATCTCTATCAATTTCAAGAG
Found at i:21422390 original size:51 final size:51
Alignment explanation
Indices: 21422288--21422406 Score: 141
Period size: 51 Copynumber: 2.3 Consensus size: 51
21422278 GCCCTCAAAG
* ** * *
21422288 TTTACATATTCTGCCAAATTGGTCTTGATTTAACAAATTTAGCCAATAACA
1 TTTACACATTCTATCAATTTGGTCCTGATTTAACAAATTTAGCCAATAACA
* * **
21422339 TTTACACATTTTATCAATTTGGTCCTGATTTAACATATTTAGCTTGA-AACA
1 TTTACACATTCTATCAATTTGGTCCTGATTTAACAAATTTAGC-CAATAACA
21422390 TTTACACATTCTATCAA
1 TTTACACATTCTATCAA
21422407 CATTTACACA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 56 0.98
52 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.40
Consensus pattern (51 bp):
TTTACACATTCTATCAATTTGGTCCTGATTTAACAAATTTAGCCAATAACA
Found at i:21436411 original size:26 final size:27
Alignment explanation
Indices: 21436350--21436476 Score: 141
Period size: 27 Copynumber: 4.7 Consensus size: 27
21436340 ACACGTTAGA
* *
21436350 AAAAGAAAGCCTTTGTGCTGATCTATC
1 AAAAGAAAGCCTTTGTGGTGATCTATG
*
21436377 AAAAGAAAGCTTTTGTGGTGATCTATG
1 AAAAGAAAGCCTTTGTGGTGATCTATG
* *
21436404 AAAA-AAAGCATTTATGGCT-ATCTATG
1 AAAAGAAAGCCTTTGTGG-TGATCTATG
* **
21436430 AAAAGAAAGCCTTCGTGGCAATCTATG
1 AAAAGAAAGCCTTTGTGGTGATCTATG
* *
21436457 AAAAGAATGCCTTTATGGTG
1 AAAAGAAAGCCTTTGTGGTG
21436477 CACTCTAAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
26 22 0.27
27 61 0.73
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.29
Consensus pattern (27 bp):
AAAAGAAAGCCTTTGTGGTGATCTATG
Found at i:21436434 original size:53 final size:54
Alignment explanation
Indices: 21436350--21436474 Score: 146
Period size: 53 Copynumber: 2.3 Consensus size: 54
21436340 ACACGTTAGA
* * * * **
21436350 AAAAGAAAGCCTTTGT-GCTGATCTATCAAAAGAAAGCTTTTGTGGTGATCTATG
1 AAAAGAAAGCATTTATGGCT-ATCTATCAAAAGAAAGCCTTCGTGGCAATCTATG
*
21436404 AAAA-AAAGCATTTATGGCTATCTATGAAAAGAAAGCCTTCGTGGCAATCTATG
1 AAAAGAAAGCATTTATGGCTATCTATCAAAAGAAAGCCTTCGTGGCAATCTATG
* *
21436457 AAAAGAATGCCTTTATGG
1 AAAAGAAAGCATTTATGG
21436475 TGCACTCTAA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
53 42 0.70
54 18 0.30
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (54 bp):
AAAAGAAAGCATTTATGGCTATCTATCAAAAGAAAGCCTTCGTGGCAATCTATG
Found at i:21440348 original size:40 final size:40
Alignment explanation
Indices: 21440290--21440414 Score: 153
Period size: 40 Copynumber: 3.1 Consensus size: 40
21440280 AGCTCGCATG
*
21440290 GGGAGCTTTCACTAATACACAGCTTATCCGTAAGCTTA-AA
1 GGGAGC-TTCACTAATACACAGCTTATCCATAAGCTTACAA
* * *
21440330 GGAGAGCTTCGCTAATACACAGCTTATCCATAAGCTCACAT
1 GG-GAGCTTCACTAATACACAGCTTATCCATAAGCTTACAA
* * * *
21440371 GGGAGTTTCACTGATACACAACTTATCCATAAGCTTACAG
1 GGGAGCTTCACTAATACACAGCTTATCCATAAGCTTACAA
21440411 GGGA
1 GGGA
21440415 AATTTTCCAA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
40 66 0.90
41 7 0.10
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (40 bp):
GGGAGCTTCACTAATACACAGCTTATCCATAAGCTTACAA
Found at i:21440427 original size:80 final size:82
Alignment explanation
Indices: 21440280--21440430 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 82
21440270 CTATCACTTC
* * * ** *
21440280 AGCTCGCATGGGGAGCTTTCACTAATACACAGCTTATCCGTAAGCTTAAAGGAGAGCTTCGCTAA
1 AGCTCACATGGGGAGCTTTCACTAATACACAACTTATCCATAAGCTTAAAGGAGAAATTCGCCAA
21440345 TACACAGCTTATCCATA
66 TACACAGCTTATCCATA
* * * **
21440362 AGCTCACAT-GGGAG-TTTCACTGATACACAACTTATCCATAAGCTTACAGGGGAAATTTTCCAA
1 AGCTCACATGGGGAGCTTTCACTAATACACAACTTATCCATAAGCTTAAAGGAGAAATTCGCCAA
21440425 TACACA
66 TACACA
21440431 ACGTATAAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
80 45 0.78
81 5 0.09
82 8 0.14
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (82 bp):
AGCTCACATGGGGAGCTTTCACTAATACACAACTTATCCATAAGCTTAAAGGAGAAATTCGCCAA
TACACAGCTTATCCATA
Found at i:21446112 original size:56 final size:54
Alignment explanation
Indices: 21446043--21446151 Score: 137
Period size: 56 Copynumber: 2.0 Consensus size: 54
21446033 CTCATCTCGG
*
21446043 TGCCAACGTCATGTCCCAAAAATGGTCCTACATGGGACCTCTCATAACCTTAATGA
1 TGCCAACGCCATGTCCCAAAAATGGTCCTACATGGGA--TCTCATAACCTTAATGA
* * * * **
21446099 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATTCCCTTAATG
1 TGCCAACGCCATGTCCCAAAAATGGTCCTACATGGGATCTCATAACCTTAATG
21446152 CCATGACATT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
54 14 0.30
56 32 0.70
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (54 bp):
TGCCAACGCCATGTCCCAAAAATGGTCCTACATGGGATCTCATAACCTTAATGA
Found at i:21452389 original size:79 final size:82
Alignment explanation
Indices: 21452278--21452462 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
21452268 GCTACTCGTT
* *
21452278 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
21452341 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
21452358 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
21452421 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
21452438 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21452463 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:21452462 original size:40 final size:40
Alignment explanation
Indices: 21452259--21452462 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
21452249 CGGAATTTAA
** *
21452259 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21452299 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
21452339 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21452378 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
21452418 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21452458 CCGGA
1 CCGGA
21452463 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21460433 original size:79 final size:82
Alignment explanation
Indices: 21460322--21460506 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
21460312 GCTACTCGTT
* *
21460322 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
21460385 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
21460402 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
21460465 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
21460482 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21460507 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:21460506 original size:40 final size:40
Alignment explanation
Indices: 21460303--21460506 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
21460293 CGGAATTTAA
** *
21460303 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21460343 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
21460383 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21460422 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
21460462 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21460502 CCGGA
1 CCGGA
21460507 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21466283 original size:40 final size:40
Alignment explanation
Indices: 21466229--21466359 Score: 165
Period size: 40 Copynumber: 3.3 Consensus size: 40
21466219 TAACTCATTC
* *
21466229 AATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAGAAACTCGCACA
* *
21466269 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAGAAACTCGCACA
* * * *
21466309 AAGGCCTTCGGGACTTAACCTGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAGAAACTCGCACA
*
21466349 AAGGCCTTCGG
1 AATGCCTTCGG
21466360 ATCTTAGTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 3 0.04
40 81 0.96
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAGAAACTCGCACA
Found at i:21468520 original size:45 final size:45
Alignment explanation
Indices: 21468469--21468556 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 45
21468459 TGTGAACCGA
* * * *
21468469 ACATCATAAATTAGTAAGGTGGTTGCTATGTTCTGATTCCACCAG
1 ACATCATAAATTAATAAGGTGGTTACTATGTGCTGAATCCACCAG
** *
21468514 ACATCATTGATTAATAAGGTGGTTACTGTGTGCTGAATCCACC
1 ACATCATAAATTAATAAGGTGGTTACTATGTGCTGAATCCACC
21468557 GAGTATCTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (45 bp):
ACATCATAAATTAATAAGGTGGTTACTATGTGCTGAATCCACCAG
Found at i:21478022 original size:51 final size:50
Alignment explanation
Indices: 21477948--21478145 Score: 202
Period size: 51 Copynumber: 3.9 Consensus size: 50
21477938 ATCAATGATG
* * * *
21477948 TTCGGTTCACATAGTAGCCTGCACATAGTAATACACATGTGACCATTACCA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCA
* * * * * *
21477999 TTCGATACACGCAGTGGCCTGCACATAGTACTACACACGTGATCGAAACTA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCA
* * * * * *
21478050 -TCAGGTACACATAGTACCCTGCACATAGTACTACAGATGCGACC-TATCA
1 TTC-GGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCA
21478099 TTCCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TT-CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
21478146 CATTTTTAAT
Statistics
Matches: 115, Mismatches: 27, Indels: 10
0.76 0.18 0.07
Matches are distributed among these distances:
49 2 0.02
50 40 0.35
51 71 0.62
52 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCA
Found at i:21478131 original size:101 final size:101
Alignment explanation
Indices: 21477955--21478141 Score: 277
Period size: 101 Copynumber: 1.8 Consensus size: 101
21477945 ATGTTCGGTT
* * *
21477955 CACATAGTAGCCTGCACATAGTAATACACATGTGACCATTACCATTCGATACACGCAGTGGCCTG
1 CACATAGTACCCTGCACATAGTAATACACATGCGACCA-TACCATTCGATACACGCAGTAGCCTG
21478020 CACATAGTACTACACACGTGATCGAAACTATCAGGTA
65 CACATAGTACTACACACGTGATCGAAACTATCAGGTA
* * * * *
21478057 CACATAGTACCCTGCACATAGTACTACAGATGCGACC-TATCATTCCGGTACACGTAGTAGCCTG
1 CACATAGTACCCTGCACATAGTAATACACATGCGACCATACCATT-CGATACACGCAGTAGCCTG
21478121 CACATAGTACTACACACGTGA
65 CACATAGTACTACACACGTGA
21478142 CCATCATTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
100 6 0.08
101 37 0.49
102 33 0.43
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (101 bp):
CACATAGTACCCTGCACATAGTAATACACATGCGACCATACCATTCGATACACGCAGTAGCCTGC
ACATAGTACTACACACGTGATCGAAACTATCAGGTA
Found at i:21492581 original size:17 final size:17
Alignment explanation
Indices: 21492555--21492588 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21492545 TGACCTAAGG
*
21492555 GGTTCGATACATTAACT
1 GGTTCAATACATTAACT
*
21492572 GGTTCAATACTTTAACT
1 GGTTCAATACATTAACT
21492589 ACAAATTCAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (17 bp):
GGTTCAATACATTAACT
Found at i:21498481 original size:32 final size:33
Alignment explanation
Indices: 21498436--21498499 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
21498426 ACTAAAGAAT
* * *
21498436 CTAAACATATAATT-AAAACTTGAGATTTAAAC
1 CTAAAAATATAATTAAAAACTTAAAATTTAAAC
*
21498468 CTAAAAATCTAATTAAAAACTTAAAATTTAAA
1 CTAAAAATATAATTAAAAACTTAAAATTTAAA
21498500 ATAAAACCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (33 bp):
CTAAAAATATAATTAAAAACTTAAAATTTAAAC
Found at i:21499680 original size:14 final size:15
Alignment explanation
Indices: 21499661--21499691 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
21499651 ATATTAAGCT
21499661 TATATAAAAATA-TA
1 TATATAAAAATAGTA
21499675 TATATAAAAATAGTA
1 TATATAAAAATAGTA
21499690 TA
1 TA
21499692 CGATAGATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
TATATAAAAATAGTA
Found at i:21499739 original size:24 final size:23
Alignment explanation
Indices: 21499712--21499840 Score: 117
Period size: 24 Copynumber: 5.7 Consensus size: 23
21499702 AAATAATGAT
* *
21499712 ATGATAAGTTTAAAATTATAGTA
1 ATGATAAATTTAAAATAATAGTA
* *
21499735 CATGATAAATTTCAAATTATGATGT-
1 -ATGATAAATTTAAAATAAT-A-GTA
*
21499760 ATGATAAATTT-AAATAATATTA
1 ATGATAAATTTAAAATAATAGTA
21499782 ATGAT-AATTT-AAATAATAGT-
1 ATGATAAATTTAAAATAATAGTA
*
21499802 AT-ATTAAATATTAAAATAATACTA
1 ATGA-TAAAT-TTAAAATAATAGTA
21499826 ATGATAAATTTAAAA
1 ATGATAAATTTAAAA
21499841 CAATGTTAAG
Statistics
Matches: 90, Mismatches: 6, Indels: 19
0.78 0.05 0.17
Matches are distributed among these distances:
19 1 0.01
20 3 0.03
21 18 0.20
22 8 0.09
23 21 0.23
24 35 0.39
25 2 0.02
26 2 0.02
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (23 bp):
ATGATAAATTTAAAATAATAGTA
Found at i:21512790 original size:150 final size:150
Alignment explanation
Indices: 21512519--21512806 Score: 549
Period size: 150 Copynumber: 1.9 Consensus size: 150
21512509 TTGTAAGTTG
*
21512519 TTGTTTTTGCATTTTGAAATGTTTCATTGTGCATGCATTGAAGACAATGCATCCCTTAGGGTTGG
1 TTGTTTTTGCATTTTGAAATGTTTCATTGTGCATGCATCGAAGACAATGCATCCCTTAGGGTTGG
*
21512584 GGGTGTGTTGTGTTGTAAATATAGTATGCAATAGTTATATGTTTTAATATTCATGCATTTTGTCA
66 GGGTGTGTTGTGCTGTAAATATAGTATGCAATAGTTATATGTTTTAATATTCATGCATTTTGTCA
21512649 TTCATTTTGCCATTAGATAC
131 TTCATTTTGCCATTAGATAC
*
21512669 TTGTTTTTGCATTTTGAAATGTTTCATTGTTCATGCATCGAAGACAATGCATCCCTTAGGGTTGG
1 TTGTTTTTGCATTTTGAAATGTTTCATTGTGCATGCATCGAAGACAATGCATCCCTTAGGGTTGG
21512734 GGGTGTGTTGTGCTGTAAATATAGTATGCAATAGTTATATGTTTTAATATTCATGCATTTTGTCA
66 GGGTGTGTTGTGCTGTAAATATAGTATGCAATAGTTATATGTTTTAATATTCATGCATTTTGTCA
21512799 TTCATTTT
131 TTCATTTT
21512807 TTCATTACAT
Statistics
Matches: 135, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
150 135 1.00
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.44
Consensus pattern (150 bp):
TTGTTTTTGCATTTTGAAATGTTTCATTGTGCATGCATCGAAGACAATGCATCCCTTAGGGTTGG
GGGTGTGTTGTGCTGTAAATATAGTATGCAATAGTTATATGTTTTAATATTCATGCATTTTGTCA
TTCATTTTGCCATTAGATAC
Found at i:21516423 original size:41 final size:41
Alignment explanation
Indices: 21516369--21516520 Score: 259
Period size: 41 Copynumber: 3.7 Consensus size: 41
21516359 CATTGAATGT
*
21516369 AAGGGCTTGCTAAGTGCAGATTCCCCGAATCATTGATCGAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCGAA
* *
21516410 AAGGGGTTACTAAGTGTAGATTCCCCGAATCATTGATCGAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCGAA
* *
21516451 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCGAA
21516492 AAGGGGTTGCTAAGTGCAGATTCCCCGAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAA
21516521 GGGTTGCTAA
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 104 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCGAA
Found at i:21516568 original size:26 final size:27
Alignment explanation
Indices: 21516492--21516559 Score: 122
Period size: 26 Copynumber: 2.6 Consensus size: 27
21516482 ACTGATCAAA
21516492 AAGGGGTTGCTAAGTGCAGATTCCCCG
1 AAGGGGTTGCTAAGTGCAGATTCCCCG
21516519 AA-GGGTTGCTAAGTGCAGATTCCCC-
1 AAGGGGTTGCTAAGTGCAGATTCCCCG
21516544 AAGGGGTTGCTAAGTG
1 AAGGGGTTGCTAAGTG
21516560 TTAATTCCCA
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
25 2 0.05
26 36 0.90
27 2 0.05
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.24
Consensus pattern (27 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCG
Found at i:21522092 original size:30 final size:30
Alignment explanation
Indices: 21522056--21522117 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
21522046 ATATCTTGAG
21522056 GTTCGTCCAAACAAAAATGGATGCATTTAA
1 GTTCGTCCAAACAAAAATGGATGCATTTAA
21522086 GTTCGTCCAAACAAAAATGGATGCATTTAA
1 GTTCGTCCAAACAAAAATGGATGCATTTAA
21522116 GT
1 GT
21522118 GATTTATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (30 bp):
GTTCGTCCAAACAAAAATGGATGCATTTAA
Found at i:21523168 original size:11 final size:11
Alignment explanation
Indices: 21523152--21523177 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21523142 TATTCAATAA
21523152 CATAAACGAAT
1 CATAAACGAAT
21523163 CATAAACGAAT
1 CATAAACGAAT
21523174 CATA
1 CATA
21523178 TACATACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.08, T:0.19
Consensus pattern (11 bp):
CATAAACGAAT
Found at i:21526202 original size:26 final size:26
Alignment explanation
Indices: 21526172--21526223 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
21526162 CACCACTGAA
*
21526172 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
21526198 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
21526224 CTTTTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:21526407 original size:26 final size:26
Alignment explanation
Indices: 21526378--21526429 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
21526368 ACCAATGAAA
*
21526378 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
21526404 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
21526430 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:21526452 original size:104 final size:102
Alignment explanation
Indices: 21526140--21526507 Score: 603
Period size: 103 Copynumber: 3.6 Consensus size: 102
21526130 TAGCCGTTAT
** *
21526140 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
*
21526205 ATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
21526242 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
21526307 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
21526345 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
21526410 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * **
21526449 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
21526508 TTTATATACA
Statistics
Matches: 252, Mismatches: 10, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
102 57 0.23
103 126 0.50
104 68 0.27
105 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (102 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:21526869 original size:29 final size:29
Alignment explanation
Indices: 21526836--21526899 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
21526826 TAATCCACCA
21526836 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
21526865 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
21526895 CCCAA
1 CCCAA
21526900 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:21526873 original size:30 final size:30
Alignment explanation
Indices: 21526843--21526899 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
21526833 CCACCCAACT
21526843 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
21526872 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
21526900 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:21540817 original size:29 final size:29
Alignment explanation
Indices: 21540728--21540927 Score: 126
Period size: 29 Copynumber: 6.9 Consensus size: 29
21540718 GTGTGCTAAA
* * *
21540728 CGATAGTCGTAA-CCGTCTCTTTTCATGTT
1 CGATAGTCG-AAGCCATCCCTTTTCATATT
* * * *
21540757 CGAT-GATCGAAACCACCCCTTTTCCTAAT
1 CGATAG-TCGAAGCCATCCCTTTTCATATT
* *
21540786 CGACAGTCGAAGCTATCCCTTTTCATATT
1 CGATAGTCGAAGCCATCCCTTTTCATATT
* *
21540815 CGATGGTCGTCA-CCATCCCTTTTCATAGTT
1 CGATAGTCG-AAGCCATCCCTTTTCATA-TT
* * * *
21540845 -GATGGTCGTCA-CCATACCTTTTCATAAT
1 CGATAGTCG-AAGCCATCCCTTTTCATATT
* * *
21540873 CGATAGTCAAAGCTATCACTTTTCATATT
1 CGATAGTCGAAGCCATCCCTTTTCATATT
*
21540902 CAATAG-CTGAAG-CATCCCTTTTCATA
1 CGATAGTC-GAAGCCATCCCTTTTCATA
21540928 ATTGATGCTG
Statistics
Matches: 134, Mismatches: 29, Indels: 17
0.74 0.16 0.09
Matches are distributed among these distances:
28 18 0.13
29 112 0.84
30 4 0.03
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (29 bp):
CGATAGTCGAAGCCATCCCTTTTCATATT
Found at i:21540949 original size:28 final size:29
Alignment explanation
Indices: 21540858--21540954 Score: 96
Period size: 28 Copynumber: 3.4 Consensus size: 29
21540848 GGTCGTCACC
* *
21540858 ATACCTTTTCATAATCGATAG-TCAAAGCT
1 ATACCTTTTCATAATTGATAGCT-GAAGCT
*
21540887 AT-CACTTTTCAT-ATTCAATAGCTGAAGC-
1 ATAC-CTTTTCATAATT-GATAGCTGAAGCT
*
21540915 ATCCCTTTTCATAATTGAT-GCTGAAGCT
1 ATACCTTTTCATAATTGATAGCTGAAGCT
21540943 ATACCTTTTCAT
1 ATACCTTTTCAT
21540955 TGGTCGATGA
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
27 8 0.14
28 26 0.46
29 22 0.39
30 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (29 bp):
ATACCTTTTCATAATTGATAGCTGAAGCT
Found at i:21546212 original size:43 final size:43
Alignment explanation
Indices: 21546129--21546253 Score: 171
Period size: 43 Copynumber: 2.9 Consensus size: 43
21546119 TAAATCCAAC
* * *
21546129 AACCCAAGATTATCTTATCCTC-TTTTAAATTTTTTTTTCAAT
1 AACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTTCAAA
* *
21546171 AACCCAATATTATCTTCTCCTCTTTTTAGATTCTTTTTTCAAA
1 AACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTTCAAA
** *
21546214 AACCCAAGATTATCTTCTTTTCTTTTTAAATTCCTTTTTC
1 AACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTTC
21546254 TAGGATAAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 20 0.28
43 52 0.72
ACGTcount: A:0.26, C:0.22, G:0.02, T:0.50
Consensus pattern (43 bp):
AACCCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTTCAAA
Found at i:21546865 original size:18 final size:19
Alignment explanation
Indices: 21546842--21546880 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
21546832 AATTTGAAAT
*
21546842 AAAACA-GAAAATTTTGGA
1 AAAACATGAAAATTTGGGA
21546860 AAAACATGAAAATTTGGGA
1 AAAACATGAAAATTTGGGA
21546879 AA
1 AA
21546881 CAAGGGTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.56, C:0.05, G:0.18, T:0.21
Consensus pattern (19 bp):
AAAACATGAAAATTTGGGA
Found at i:21550734 original size:39 final size:39
Alignment explanation
Indices: 21550680--21550972 Score: 284
Period size: 39 Copynumber: 7.5 Consensus size: 39
21550670 TATAATTGTA
** * *
21550680 CCCTGATCGTGCATACGTGCCCCTTTTGTACTTCAATAC
1 CCCTGATCGCACATACGTGCCCCTATTGTACTTCAGTAC
* * * *
21550719 CCTTGATCACACATACGTGCCCCTGTTGTACTTC-GGAC
1 CCCTGATCGCACATACGTGCCCCTATTGTACTTCAGTAC
* * * * *
21550757 CCCTAATCGTACATACATTCCCCTATTGTACTTCAATAC
1 CCCTGATCGCACATACGTGCCCCTATTGTACTTCAGTAC
* * * * *
21550796 TCTTGATCAG-ACTTACATGCCCCTATTGTACTTCGGTAC
1 CCCTGATC-GCACATACGTGCCCCTATTGTACTTCAGTAC
* * *
21550835 CCCTGATCGTACTTACGTGCCCCTATTGTACTTCGGTAC
1 CCCTGATCGCACATACGTGCCCCTATTGTACTTCAGTAC
* *
21550874 CCCTGATCGCACTTACGTGCCCCTATTGTACTTCGGTAC
1 CCCTGATCGCACATACGTGCCCCTATTGTACTTCAGTAC
* * * * *
21550913 CCCTGATTGCACTTATGTGCCCCTATTGTGCTTCGGTAC
1 CCCTGATCGCACATACGTGCCCCTATTGTACTTCAGTAC
* * *
21550952 CCCTGATAGCACTTTCGTGCC
1 CCCTGATCGCACATACGTGCC
21550973 ATGATTACGT
Statistics
Matches: 218, Mismatches: 33, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
38 30 0.14
39 187 0.86
40 1 0.00
ACGTcount: A:0.18, C:0.33, G:0.16, T:0.33
Consensus pattern (39 bp):
CCCTGATCGCACATACGTGCCCCTATTGTACTTCAGTAC
Found at i:21550848 original size:20 final size:20
Alignment explanation
Indices: 21550815--21550958 Score: 138
Period size: 19 Copynumber: 7.4 Consensus size: 20
21550805 GACTTACATG
21550815 CCCCT-ATTGTACTTCGGTA
1 CCCCTGATTGTACTTCGGTA
* *
21550834 CCCCTGATCGTACTTAC-GTG
1 CCCCTGATTGTACTT-CGGTA
21550854 CCCCT-ATTGTACTTCGGTA
1 CCCCTGATTGTACTTCGGTA
* * *
21550873 CCCCTGATCGCACTTAC-GTG
1 CCCCTGATTGTACTT-CGGTA
21550893 CCCCT-ATTGTACTTCGGTA
1 CCCCTGATTGTACTTCGGTA
* ** *
21550912 CCCCTGATTGCACTTATGTG
1 CCCCTGATTGTACTTCGGTA
*
21550932 CCCCT-ATTGTGCTTCGGTA
1 CCCCTGATTGTACTTCGGTA
21550951 CCCCTGAT
1 CCCCTGAT
21550959 AGCACTTTCG
Statistics
Matches: 98, Mismatches: 19, Indels: 15
0.74 0.14 0.11
Matches are distributed among these distances:
18 2 0.02
19 48 0.49
20 46 0.47
21 2 0.02
ACGTcount: A:0.15, C:0.34, G:0.18, T:0.33
Consensus pattern (20 bp):
CCCCTGATTGTACTTCGGTA
Found at i:21550881 original size:78 final size:78
Alignment explanation
Indices: 21550680--21550972 Score: 340
Period size: 78 Copynumber: 3.8 Consensus size: 78
21550670 TATAATTGTA
* * * * * *
21550680 CCCTGATCGTGCATACGTGCCCCTTTTGTACTTCAATACCCTTGATCACACATACGTGCCCCTGT
1 CCCTGATCGTACATACGTGCCCCTATTGTACTTCAATACCCCTGATCAGACTTACGTGCCCCTAT
21550745 TGTACTTCGG-AC
66 TGTACTTCGGTAC
* * * * * *
21550757 CCCTAATCGTACATACATTCCCCTATTGTACTTCAATACTCTTGATCAGACTTACATGCCCCTAT
1 CCCTGATCGTACATACGTGCCCCTATTGTACTTCAATACCCCTGATCAGACTTACGTGCCCCTAT
21550822 TGTACTTCGGTAC
66 TGTACTTCGGTAC
* **
21550835 CCCTGATCGTACTTACGTGCCCCTATTGTACTTCGGTACCCCTGATC-GCACTTACGTGCCCCTA
1 CCCTGATCGTACATACGTGCCCCTATTGTACTTCAATACCCCTGATCAG-ACTTACGTGCCCCTA
21550899 TTGTACTTCGGTAC
65 TTGTACTTCGGTAC
* * * * * ** *
21550913 CCCTGATTGCACTTATGTGCCCCTATTGTGCTTCGGTACCCCTGAT-AGCACTTTCGTGCC
1 CCCTGATCGTACATACGTGCCCCTATTGTACTTCAATACCCCTGATCAG-ACTTACGTGCC
21550973 ATGATTACGT
Statistics
Matches: 189, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
77 66 0.35
78 123 0.65
ACGTcount: A:0.18, C:0.33, G:0.16, T:0.33
Consensus pattern (78 bp):
CCCTGATCGTACATACGTGCCCCTATTGTACTTCAATACCCCTGATCAGACTTACGTGCCCCTAT
TGTACTTCGGTAC
Found at i:21550947 original size:117 final size:116
Alignment explanation
Indices: 21550693--21550972 Score: 328
Period size: 117 Copynumber: 2.4 Consensus size: 116
21550683 TGATCGTGCA
* ** * * * *
21550693 TACGTGCCCCTTTTGTACTTCAATACCCTTGATCACACATACGTGCCCCTGTTGTACTTCGGACC
1 TACGTGCCCCTATTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCCTATTGTACTTCGGACC
* * * *
21550758 CCTAATCGTACATACATTCCCCTATTGTACTTCAATACTCTTGATCAGACT
66 CCTAATCGCACATACATGCCCCTATTGTACTTCAATACCCCTGATCAGACT
* *
21550809 TACATGCCCCTATTGTACTTCGGTACCCCTGATCGTACTTACGTGCCCCTATTGTACTTCGGTAC
1 TACGTGCCCCTATTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCCTATTGTACTTCGG-AC
* * * ** *
21550874 CCCTGATCGCACTTACGTGCCCCTATTGTACTTCGGTACCCCTGAT-TGCACT
65 CCCTAATCGCACATACATGCCCCTATTGTACTTCAATACCCCTGATCAG-ACT
* * * *
21550926 TATGTGCCCCTATTGTGCTTCGGTACCCCTGATAGCACTTTCGTGCC
1 TACGTGCCCCTATTGTACTTCGGTACCCCTGATCGCACTTACGTGCC
21550973 ATGATTACGT
Statistics
Matches: 137, Mismatches: 25, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
116 54 0.39
117 83 0.61
ACGTcount: A:0.18, C:0.33, G:0.16, T:0.33
Consensus pattern (116 bp):
TACGTGCCCCTATTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCCTATTGTACTTCGGACC
CCTAATCGCACATACATGCCCCTATTGTACTTCAATACCCCTGATCAGACT
Found at i:21554928 original size:23 final size:23
Alignment explanation
Indices: 21554896--21554965 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
21554886 TATAATATAT
*
21554896 GCTTTGATATGCTATATGACATG
1 GCTTTGATATGATATATGACATG
21554919 G-TCTTGATATGATATATGACATG
1 GCT-TTGATATGATATATGACATG
* * *
21554942 GCTTTGATAAGTTATATGATATG
1 GCTTTGATATGATATATGACATG
21554965 G
1 G
21554966 AAAGTTTCGA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.02
23 39 0.95
24 1 0.02
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.40
Consensus pattern (23 bp):
GCTTTGATATGATATATGACATG
Found at i:21575800 original size:23 final size:23
Alignment explanation
Indices: 21575756--21575800 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
21575746 TATGCTATTT
*
21575756 GACATGGTTCTGATATGATATAC
1 GACATGGTTCTGATAAGATATAC
*
21575779 GACATGGCTT-TGATAAGTTATA
1 GACATGG-TTCTGATAAGATATA
21575801 GGATATGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (23 bp):
GACATGGTTCTGATAAGATATAC
Found at i:21583696 original size:50 final size:50
Alignment explanation
Indices: 21583632--21583816 Score: 198
Period size: 50 Copynumber: 3.7 Consensus size: 50
21583622 GGATGAGACT
* **
21583632 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCAAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAAGATGAGAAATC
** * * * * *
21583682 CCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAAGATGAGAAATC
* *
21583732 CCATGTAAGACCATATCTGGGATATGGCATTGGCAGT-ACAG--GA-AACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA-TCA-AGATGAGAA-ATC
*
21583781 CCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
21583817 GTTATTATCA
Statistics
Matches: 111, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
48 3 0.03
49 36 0.32
50 71 0.64
51 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAAGATGAGAAATC
Found at i:21583759 original size:100 final size:97
Alignment explanation
Indices: 21583624--21583808 Score: 239
Period size: 99 Copynumber: 1.9 Consensus size: 97
21583614 CATTAGGGGG
* * * ** *
21583624 ATGAGACTCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-T-CAAGATGAGAGGTCCCCCG
1 ATGAGACTCCATGTAAGACCATATCTGGGACATGGCATTGGCAGTAC-AG--GAAACATCCCACG
21583687 TAAGACCATGTCTGGGACATGGCATGGGCACCGAT
63 TAAGACCATGTCTGGGACATGGCATGGGCACCGAT
* *
21583722 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACATCCCATGT
1 ATGAG-ACT-CCATGTAAGACCATATCTGGGACATGGCATTGGCAGTACAGGAAACATCCCACGT
21583787 AAGACCATGTCTGGGACATGGC
64 AAGACCATGTCTGGGACATGGC
21583809 TTTGGCATGT
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
98 5 0.07
99 34 0.45
100 32 0.43
101 3 0.04
102 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (97 bp):
ATGAGACTCCATGTAAGACCATATCTGGGACATGGCATTGGCAGTACAGGAAACATCCCACGTAA
GACCATGTCTGGGACATGGCATGGGCACCGAT
Found at i:21584043 original size:20 final size:20
Alignment explanation
Indices: 21584018--21584066 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
21584008 TGAGTTATTT
21584018 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
21584038 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
21584058 AAG-AAGCAA
1 AAGTAAGCAA
21584067 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:21590740 original size:14 final size:14
Alignment explanation
Indices: 21590702--21590744 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
21590692 CAAAATGTAC
21590702 AATATAATTAAA-T
1 AATATAATTAAATT
21590715 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
21590730 AA-ATAATTTAATT
1 AATATAATTAAATT
21590743 AA
1 AA
21590745 CTATTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:21591890 original size:49 final size:49
Alignment explanation
Indices: 21591716--21592290 Score: 958
Period size: 49 Copynumber: 11.9 Consensus size: 49
21591706 CCCTTCGGGA
* * * * *
21591716 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21591763 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21591810 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21591857 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21591906 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21591955 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21592002 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21592051 CTTATCACATTTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21592100 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21592147 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21592196 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21592247 CTTATCAC--ATATATACACTTTCACATTCATCACATCAGCCATTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
21592291 CGCCATACTA
Statistics
Matches: 504, Mismatches: 14, Indels: 20
0.94 0.03 0.04
Matches are distributed among these distances:
46 1 0.00
47 217 0.43
49 238 0.47
51 48 0.10
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21591913 original size:96 final size:95
Alignment explanation
Indices: 21591716--21592290 Score: 940
Period size: 96 Copynumber: 6.0 Consensus size: 95
21591706 CCCTTCGGGA
* * * * * * * *
21591716 CTTATCAC-ATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
21591780 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
21591810 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATA
21591874 CACTTTCACATTCATCACATCGGCCATTAGGC
64 CACTTTCACATTCATCACATCGGCCATTAGGC
21591906 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
21591971 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
21592002 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATTTATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA--TATAT
21592067 ACACTTTCACATTCATCACATCGGCCATTAGGC
63 ACACTTTCACATTCATCACATCGGCCATTAGGC
21592100 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATA
21592164 CACTTTCACATTCATCACATCGGCCATTAGGC
64 CACTTTCACATTCATCACATCGGCCATTAGGC
*
21592196 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATAT
1 CTTATCAC--A-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
*
21592261 ACACTTTCACATTCATCACATCAGCCATTA
63 ACACTTTCACATTCATCACATCGGCCATTA
21592291 CGCCATACTA
Statistics
Matches: 459, Mismatches: 10, Indels: 20
0.94 0.02 0.04
Matches are distributed among these distances:
94 47 0.10
96 237 0.52
98 129 0.28
100 46 0.10
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (95 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21591988 original size:145 final size:145
Alignment explanation
Indices: 21591716--21592290 Score: 1014
Period size: 145 Copynumber: 4.0 Consensus size: 145
21591706 CCCTTCGGGA
* * * * * * *
21591716 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
21591777 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
21591842 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
21591857 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
21591922 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
21591987 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
*
21592002 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATTTATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
21592067 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
21592132 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
21592147 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
21592212 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCAT
64 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
*
21592277 CACATCAGCCATTA
129 CACATCGGCCATTA
21592291 CGCCATACTA
Statistics
Matches: 417, Mismatches: 11, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
141 10 0.02
142 1 0.00
143 37 0.09
145 287 0.69
147 82 0.20
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (145 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
CATCGGCCATTAGGC
Found at i:21597777 original size:21 final size:22
Alignment explanation
Indices: 21597751--21597798 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
21597741 AATAATAAAA
21597751 ATAATTTA-ATCATATTTTAAT
1 ATAATTTATATCATATTTTAAT
*
21597772 ATAA-TTATTTCATATTTTAAT
1 ATAATTTATATCATATTTTAAT
21597793 ATAATT
1 ATAATT
21597799 ATTTTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 3 0.12
21 20 0.83
22 1 0.04
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (22 bp):
ATAATTTATATCATATTTTAAT
Found at i:21597799 original size:21 final size:21
Alignment explanation
Indices: 21597760--21597802 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
21597750 AATAATTTAA
21597760 TCATATTTTAATATAATTATT
1 TCATATTTTAATATAATTATT
21597781 TCATATTTTAATATAATTATT
1 TCATATTTTAATATAATTATT
21597802 T
1 T
21597803 TAATATCAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (21 bp):
TCATATTTTAATATAATTATT
Found at i:21602553 original size:16 final size:16
Alignment explanation
Indices: 21602534--21602587 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
21602524 TCTTCAAGTA
21602534 TCTTCACATTTCTAAC
1 TCTTCACATTTCTAAC
21602550 TCTT--CATCTTC-AAGTC
1 TCTTCACAT-TTCTAA--C
*
21602566 TCTTAACATTTCTAAC
1 TCTTCACATTTCTAAC
21602582 TCTTCA
1 TCTTCA
21602588 TAATTTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
14 5 0.16
15 3 0.10
16 15 0.48
17 3 0.10
18 5 0.16
ACGTcount: A:0.24, C:0.30, G:0.02, T:0.44
Consensus pattern (16 bp):
TCTTCACATTTCTAAC
Found at i:21602555 original size:32 final size:32
Alignment explanation
Indices: 21602514--21602588 Score: 132
Period size: 32 Copynumber: 2.3 Consensus size: 32
21602504 TGCATGTGTG
*
21602514 TAACTCTTCATCTTCAAGTATCTTCACATTTC
1 TAACTCTTCATCTTCAAGTATCTTAACATTTC
*
21602546 TAACTCTTCATCTTCAAGTCTCTTAACATTTC
1 TAACTCTTCATCTTCAAGTATCTTAACATTTC
21602578 TAACTCTTCAT
1 TAACTCTTCAT
21602589 AATTTATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.25, C:0.28, G:0.03, T:0.44
Consensus pattern (32 bp):
TAACTCTTCATCTTCAAGTATCTTAACATTTC
Found at i:21606989 original size:16 final size:16
Alignment explanation
Indices: 21606968--21607020 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
21606958 ATGTGTGTAA
21606968 CTCTTCATCTTCAAGT
1 CTCTTCATCTTCAAGT
21606984 CTCTTCA-CATTTCTAA--
1 CTCTTCATC--TTC-AAGT
21607000 CTCTTCATCTTCAAGT
1 CTCTTCATCTTCAAGT
21607016 CTCTT
1 CTCTT
21607021 AACATTTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
14 2 0.06
15 4 0.13
16 19 0.61
17 4 0.13
18 2 0.06
ACGTcount: A:0.19, C:0.32, G:0.04, T:0.45
Consensus pattern (16 bp):
CTCTTCATCTTCAAGT
Found at i:21607006 original size:32 final size:32
Alignment explanation
Indices: 21606965--21607039 Score: 141
Period size: 32 Copynumber: 2.3 Consensus size: 32
21606955 TGCATGTGTG
*
21606965 TAACTCTTCATCTTCAAGTCTCTTCACATTTC
1 TAACTCTTCATCTTCAAGTCTCTTAACATTTC
21606997 TAACTCTTCATCTTCAAGTCTCTTAACATTTC
1 TAACTCTTCATCTTCAAGTCTCTTAACATTTC
21607029 TAACTCTTCAT
1 TAACTCTTCAT
21607040 AATTTATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.24, C:0.29, G:0.03, T:0.44
Consensus pattern (32 bp):
TAACTCTTCATCTTCAAGTCTCTTAACATTTC
Found at i:21609354 original size:24 final size:24
Alignment explanation
Indices: 21609301--21609364 Score: 58
Period size: 24 Copynumber: 2.6 Consensus size: 24
21609291 CATAAAAATA
* *
21609301 AAAATATATAATTTAGTAAATTTC
1 AAAATATATATTTTAATAAATTTC
**
21609325 TTAATATATATTTTAATATAATTT-
1 AAAATATATATTTTAATA-AATTTC
*
21609349 AAAATAAAATATTTTA
1 AAAAT-ATATATTTTA
21609365 TTTTAAATTA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
24 17 0.55
25 14 0.45
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
AAAATATATATTTTAATAAATTTC
Found at i:21609359 original size:29 final size:29
Alignment explanation
Indices: 21609327--21609383 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
21609317 TAAATTTCTT
21609327 AATA-TATATTTTAATATAATTTAAAATAA
1 AATATTATATTTTAA-ATAATTTAAAATAA
* * *
21609356 AATATTTTATTTTAAATTATTTCAAATA
1 AATATTATATTTTAAATAATTTAAAATA
21609384 TATTATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (29 bp):
AATATTATATTTTAAATAATTTAAAATAA
Found at i:21609395 original size:30 final size:30
Alignment explanation
Indices: 21609333--21609392 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
21609323 TCTTAATATA
21609333 TATTTTAATATAATTTAAAATAAAATATTT
1 TATTTTAATATAATTTAAAATAAAATATTT
* * * *
21609363 TATTTTAA-ATTATTTCAAATATATTATTT
1 TATTTTAATATAATTTAAAATAAAATATTT
21609392 T
1 T
21609393 TATATTTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (30 bp):
TATTTTAATATAATTTAAAATAAAATATTT
Found at i:21612904 original size:50 final size:50
Alignment explanation
Indices: 21612850--21613120 Score: 227
Period size: 50 Copynumber: 5.1 Consensus size: 50
21612840 ACATGAAAGT
* * * * * *
21612850 TCTCATATAGGTGCCCATGCTATGTCCTAGACATGGTCTTACGGGGGACC
1 TCTCATCTAGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
* *
21612900 TCTCATCTTGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACC
1 TCTCATCTAGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
* *
21612950 TCTCATCTCGGTGCCAACGTCGGTGCCAACGCCATGTCCGAGACATGGTCTTACATGGGACC
1 TCTCA--TC--T----A----GGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
* *
21613012 TCTCATCTGGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACC
1 TCTCATCTAGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
* * * * *
21613062 TCTCATAATCTCAATGATGCCAATGCCATGCCCCAGACATGGTCTTACATGGGATC
1 TCTC---ATCT--A-GGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
21613118 TCT
1 TCT
21613121 TTACCCAAAT
Statistics
Matches: 186, Mismatches: 17, Indels: 30
0.80 0.07 0.13
Matches are distributed among these distances:
50 91 0.49
52 2 0.01
53 4 0.02
54 1 0.01
56 40 0.22
58 1 0.01
60 2 0.01
62 45 0.24
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TCTCATCTAGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
Found at i:21613089 original size:112 final size:108
Alignment explanation
Indices: 21612871--21613120 Score: 303
Period size: 112 Copynumber: 2.3 Consensus size: 108
21612861 TGCCCATGCT
** *
21612871 ATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAACGCCATGTCCCAGACATGG
1 ATGTCC-AGACATGGTCTTACATGGGACCTCTCATCTGGGTGCCAACGCCATGTCCCAGACATGG
* **
21612936 TCTTACATGGGACCTCTCATCTCGGTGCCAACGTCGGTGCCAACGCC
65 TCTTACATGGGACCTCTCATATC-GT-CCAACGTCAATGCC-ACGCC
21612983 ATGTCCGAGACATGGTCTTACATGGGACCTCTCATCTGGGTGCCAACGCCATGTCCCAGACATGG
1 ATGTCC-AGACATGGTCTTACATGGGACCTCTCATCTGGGTGCCAACGCCATGTCCCAGACATGG
* *
21613048 TCTTACATGGGACCTCTCATAATC-T-CAA--T-GATGCCAATGCC
65 TCTTACATGGGACCTCTCAT-ATCGTCCAACGTCAATGCC-ACGCC
* *
21613089 ATGCCCCAGACATGGTCTTACATGGGATCTCT
1 ATG-TCCAGACATGGTCTTACATGGGACCTCT
21613121 TTACCCAAAT
Statistics
Matches: 127, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
106 37 0.29
107 3 0.02
109 3 0.02
111 1 0.01
112 81 0.64
113 2 0.02
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.25
Consensus pattern (108 bp):
ATGTCCAGACATGGTCTTACATGGGACCTCTCATCTGGGTGCCAACGCCATGTCCCAGACATGGT
CTTACATGGGACCTCTCATATCGTCCAACGTCAATGCCACGCC
Found at i:21615263 original size:24 final size:26
Alignment explanation
Indices: 21615213--21615261 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
21615203 TTGTTAAGAC
*
21615213 TCTTATAAAAGAAACCTAAGAGAAAT
1 TCTTATAAAAGAAACCAAAGAGAAAT
21615239 TCTTA-AAAA-AAACTCAAAGAGAA
1 TCTTATAAAAGAAAC-CAAAGAGAA
21615262 TTTATAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 12 0.57
26 5 0.24
ACGTcount: A:0.57, C:0.12, G:0.10, T:0.20
Consensus pattern (26 bp):
TCTTATAAAAGAAACCAAAGAGAAAT
Found at i:21615269 original size:24 final size:24
Alignment explanation
Indices: 21615215--21615269 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
21615205 GTTAAGACTC
* *
21615215 TTATAAAAGAAACCTAAGAGAAAT
1 TTATAAAAAAAACCAAAGAGAAAT
21615239 TCT-TAAAAAAAACTCAAAGAG-AAT
1 T-TATAAAAAAAAC-CAAAGAGAAAT
21615263 TTATAAA
1 TTATAAA
21615270 CTCAAAAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 1 0.04
24 18 0.69
25 7 0.27
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.24
Consensus pattern (24 bp):
TTATAAAAAAAACCAAAGAGAAAT
Found at i:21619361 original size:20 final size:20
Alignment explanation
Indices: 21619326--21619379 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
21619316 AAAAAAAAGA
21619326 AAACTC-AAAGAGAATTTAT
1 AAACTCAAAAGAGAATTTAT
*
21619345 AAACTCAAAAAAGAATTTAT
1 AAACTCAAAAGAGAATTTAT
21619365 AAACTCAAAAGAGAA
1 AAACTCAAAAGAGAA
21619380 GTTGAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 6 0.19
20 26 0.81
ACGTcount: A:0.59, C:0.11, G:0.09, T:0.20
Consensus pattern (20 bp):
AAACTCAAAAGAGAATTTAT
Found at i:21631540 original size:2 final size:2
Alignment explanation
Indices: 21631535--21631566 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
21631525 TTTTTTTTCT
21631535 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21631567 AAAGCAGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21646544 original size:8 final size:8
Alignment explanation
Indices: 21646531--21646560 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
21646521 CATAACTGAA
*
21646531 AATAAAAG
1 AATAAAAC
21646539 AATAAAAC
1 AATAAAAC
21646547 AATAAAAC
1 AATAAAAC
21646555 AATAAA
1 AATAAA
21646561 TTCCACATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.77, C:0.07, G:0.03, T:0.13
Consensus pattern (8 bp):
AATAAAAC
Found at i:21647084 original size:23 final size:24
Alignment explanation
Indices: 21647048--21647096 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
21647038 CCCGACCCGA
*
21647048 TTTATATATTAAATATA-TATTTT
1 TTTATATATTAAATATACTACTTT
21647071 TTTAT-TATTAAAATATACTACTTT
1 TTTATATATT-AAATATACTACTTT
21647095 TT
1 TT
21647097 GTTTAATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 12 0.52
24 7 0.30
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTATATATTAAATATACTACTTT
Found at i:21647095 original size:22 final size:23
Alignment explanation
Indices: 21647048--21647095 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
21647038 CCCGACCCGA
**
21647048 TTTATATATTAAATATATATTTT
1 TTTATATATTAAATATATATACT
21647071 TTTAT-TATTAAA-ATATACTACT
1 TTTATATATTAAATATATA-TACT
21647093 TTT
1 TTT
21647096 TGTTTAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 5 0.23
22 12 0.55
23 5 0.23
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTATATATTAAATATATATACT
Found at i:21651623 original size:19 final size:20
Alignment explanation
Indices: 21651587--21651625 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
21651577 CACCATTTGA
*
21651587 TGTTACTCGAAATTAATGAT
1 TGTTACTCGAAATGAATGAT
21651607 TGTTACTCG-AATGAATGAT
1 TGTTACTCGAAATGAATGAT
21651626 AATGGCTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (20 bp):
TGTTACTCGAAATGAATGAT
Found at i:21655871 original size:50 final size:50
Alignment explanation
Indices: 21655817--21655957 Score: 178
Period size: 50 Copynumber: 2.8 Consensus size: 50
21655807 TATTGAAGTT
21655817 ATGAGAGGCCTCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
1 ATGAGAGGCCTCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
* * * *
21655867 ATGAGAGGTCC-CCCGTTAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGG-CCTCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
* * * *
21655917 ATGAGA-ACTCTCATGTAAGACCATATCTGGGATATGGCATT
1 ATGAGAGGC-CTCACGTAAGACCATGTCTGGGACATGGCATT
21655958 TGTAGTACAT
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 73 0.95
51 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (50 bp):
ATGAGAGGCCTCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
Found at i:21657069 original size:369 final size:370
Alignment explanation
Indices: 21656038--21657149 Score: 2181
Period size: 370 Copynumber: 3.0 Consensus size: 370
21656028 ATACCCGAGT
*
21656038 ATCCTTAGTATTCCATGTGGTTCAACGGACTAGTAAGTAGACTATGTTACATGAAAGTTCAAGTA
1 ATCCTTAGTATTCCATGTGGTTCAACGGACTAGTAAATAGACTATGTTACATGAAAGTTCAAGTA
21656103 AAAACATACTAAATAGATTCAGGTGAGTTATAAGGGTTAAGAATATTTCAGTTATCAGTTGAGAA
66 AAAACATACTAAATAGATTCAGGTGAGTTATAAGGGTTAAGAATATTTCAGTTATCAGTTGAGAA
*
21656168 AGAAATTTTAGCAAGGGAGGAGAAGTTATAACCATCAGTTATTTAAGTAAACAAGTAAAAGATTA
131 AGAAATTTTAGCAAGGGAGGAGAAGTTATAACAATCAGTTATTTAAGTAAACAAGTAAAAGATTA
21656233 AGTAAAGAAGAAGCTAAGACCATGATACTTGATGATGATTTATGAGTATAATTATTTATGATAAA
196 AGTAAAGAAGAAGCTAAGACCATGATACTTGATGATGATTTATGAGTATAATTATTTATGATAAA
*
21656298 TTTTGTTATTTATTTGCTTGTAAACTTACTAAACTTTACACTTACTCTCTTTATTTTCCTTCTTT
261 TTTTGTTATTTATTTGCTTGTAAACTTACTAAGCTTTACACTTACTCTCTTTATTTTCCTTCTTT
21656363 TTATAGTATCACCAAGCCAATTATGGGATCGTAAGGGCGTTGGAG
326 TTATAGTATCACCAAGCCAATTATGGGATCGTAAGGGCGTTGGAG
21656408 ATCCTTAGTATTCCATGTGGTTCAACGGACTAGTAAATAGACTATGTTACATGAAAGTTCAAGTA
1 ATCCTTAGTATTCCATGTGGTTCAACGGACTAGTAAATAGACTATGTTACATGAAAGTTCAAGTA
21656473 AAAACATACTAAATAGATTCAGGTGAGTTATAAGGGTTAAGAATATTTCAGTTATCAGTTGAGAA
66 AAAACATACTAAATAGATTCAGGTGAGTTATAAGGGTTAAGAATATTTCAGTTATCAGTTGAGAA
21656538 AGAAATTTTAGCAAGGGAGGAGAAGTTATAACAATCAGTTATTTAAGTAAACAAGTAAAAGATTA
131 AGAAATTTTAGCAAGGGAGGAGAAGTTATAACAATCAGTTATTTAAGTAAACAAGTAAAAGATTA
21656603 AGTAAAGAAGAAGCTAAGACCATGATACTTGATGATGATTTATGAGTATAATTATTTATGATAAA
196 AGTAAAGAAGAAGCTAAGACCATGATACTTGATGATGATTTATGAGTATAATTATTTATGATAAA
21656668 TTTTGTTATTTATTTGCTTGTAAACTTACTAAGCTTTACACTTACTCTCTTTATTTTCCTTCTTT
261 TTTTGTTATTTATTTGCTTGTAAACTTACTAAGCTTTACACTTACTCTCTTTATTTTCCTTCTTT
21656733 TTATAGTATCACCAAGCCAATTATGGGATCGTAAGGGCGTTGGAG
326 TTATAGTATCACCAAGCCAATTATGGGATCGTAAGGGCGTTGGAG
21656778 ATCCTTAGTATTCCATGTGGTTCAACGGACTAGTAAATAGACTATGTTACATGAAAGTTCAAGT-
1 ATCCTTAGTATTCCATGTGGTTCAACGGACTAGTAAATAGACTATGTTACATGAAAGTTCAAGTA
21656842 AAAACATACTAAATAGATTCAGGTGAGTTATAAGGGTTAAGAATATTTCAGTTATCAGTTGAGAA
66 AAAACATACTAAATAGATTCAGGTGAGTTATAAGGGTTAAGAATATTTCAGTTATCAGTTGAGAA
21656907 AGAAATTTTAGCAAGGGAGGAGAAGTTATAACAATCAGTTATTTAAGTAAACAAGTAAAAGATTA
131 AGAAATTTTAGCAAGGGAGGAGAAGTTATAACAATCAGTTATTTAAGTAAACAAGTAAAAGATTA
21656972 AGTAAAGAAGAAGCTAAGACCATGATACTTGATGATGATTTATGAGTATAATTATTTATGATAAA
196 AGTAAAGAAGAAGCTAAGACCATGATACTTGATGATGATTTATGAGTATAATTATTTATGATAAA
21657037 TTTTGTTATTTATTTGCTTGTAAACTTACTAAGCTTTACACTTACTCTCTTTATTTTCCTTCTTT
261 TTTTGTTATTTATTTGCTTGTAAACTTACTAAGCTTTACACTTACTCTCTTTATTTTCCTTCTTT
*
21657102 TTATAGTATCACCAAGCCAATTATGGGATCGTAAGGGCGTTTGAG
326 TTATAGTATCACCAAGCCAATTATGGGATCGTAAGGGCGTTGGAG
21657147 ATC
1 ATC
21657150 GTTTCACACT
Statistics
Matches: 738, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
369 307 0.42
370 431 0.58
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.35
Consensus pattern (370 bp):
ATCCTTAGTATTCCATGTGGTTCAACGGACTAGTAAATAGACTATGTTACATGAAAGTTCAAGTA
AAAACATACTAAATAGATTCAGGTGAGTTATAAGGGTTAAGAATATTTCAGTTATCAGTTGAGAA
AGAAATTTTAGCAAGGGAGGAGAAGTTATAACAATCAGTTATTTAAGTAAACAAGTAAAAGATTA
AGTAAAGAAGAAGCTAAGACCATGATACTTGATGATGATTTATGAGTATAATTATTTATGATAAA
TTTTGTTATTTATTTGCTTGTAAACTTACTAAGCTTTACACTTACTCTCTTTATTTTCCTTCTTT
TTATAGTATCACCAAGCCAATTATGGGATCGTAAGGGCGTTGGAG
Found at i:21658382 original size:24 final size:24
Alignment explanation
Indices: 21658350--21658400 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
21658340 ATATGTAGAA
*
21658350 AGTAATGAAAGGCTCGTTACAGTT
1 AGTAATGAAAGGCTCGTTACAATT
*
21658374 AGTAGTGAAAGGCTCGTTACAATT
1 AGTAATGAAAGGCTCGTTACAATT
21658398 AGT
1 AGT
21658401 CAGGGAGGAG
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:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (24 bp):
AGTAATGAAAGGCTCGTTACAATT
Found at i:21664246 original size:29 final size:29
Alignment explanation
Indices: 21664203--21664261 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
21664193 GACCATGTCT
*
21664203 GGGACACGGCATTTGCCCCGAGATGAGAG
1 GGGACACGGCATTTGCACCGAGATGAGAG
* *
21664232 GGGACATGGCGTTTGCACCGAGATGAGAG
1 GGGACACGGCATTTGCACCGAGATGAGAG
21664261 G
1 G
21664262 TCCCCCTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.24, C:0.20, G:0.41, T:0.15
Consensus pattern (29 bp):
GGGACACGGCATTTGCACCGAGATGAGAG
Found at i:21668803 original size:41 final size:40
Alignment explanation
Indices: 21668666--21668891 Score: 219
Period size: 40 Copynumber: 5.7 Consensus size: 40
21668656 TTGAATGCTG
* * * *
21668666 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
** *
21668706 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAA-A
* *
21668746 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
21668786 TTCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
21668827 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
21668866 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
21668892 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
39 34 0.22
40 75 0.48
41 47 0.30
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:21668804 original size:81 final size:79
Alignment explanation
Indices: 21668719--21668891 Score: 213
Period size: 81 Copynumber: 2.2 Consensus size: 79
21668709 GGACTAAGAT
* *
21668719 CCGAAGGCATTTGTGCGAGATA-CAAGTTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAA-ATCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
21668783 AAATTCCGGGTTAAGTC
64 AAA-ACCGGGCTAAGTC
* * * * * *
21668800 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
21668865 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
21668879 CCGAAGGCATTTG
1 CCGAAGGCATTTG
21668892 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
79 22 0.28
80 16 0.20
81 39 0.49
82 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:21676433 original size:39 final size:39
Alignment explanation
Indices: 21676229--21676451 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
21676219 TTGAATGCTG
* * * * * *
21676229 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
21676269 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
21676309 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
21676349 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
21676389 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
21676428 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
21676452 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 38 0.25
40 106 0.69
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:21676471 original size:79 final size:80
Alignment explanation
Indices: 21676309--21676486 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
21676299 AGATACAAGT
* * * *
21676309 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
21676374 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
21676389 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
21676453 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
21676468 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
21676487 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Done.