Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 152 of 206
Found at i:46044377 original size:16 final size:16
Alignment explanation
Indices: 46044356--46044408 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
46044346 AGAATTACCT
*
46044356 ATTACGCATTTATTCC
1 ATTACGCATCTATTCC
46044372 ATTACGCATCTATTCC
1 ATTACGCATCTATTCC
* *
46044388 ATTACACCTCTATTCC
1 ATTACGCATCTATTCC
46044404 ATTAC
1 ATTAC
46044409 AACGAACTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.26, C:0.30, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACGCATCTATTCC
Found at i:46055898 original size:30 final size:28
Alignment explanation
Indices: 46055842--46055902 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
46055832 TAGTGTTAAT
* *
46055842 TAATTAAAGGTTAATTAAGTTAATAAGAC
1 TAATTAAAAGTTAACTAAGTTAATAAG-C
46055871 TAATTAAAAGTTAAACTAAG-TATATAAGC
1 TAATTAAAAGTT-AACTAAGTTA-ATAAGC
46055900 TAA
1 TAA
46055903 AATTAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.33
Consensus pattern (28 bp):
TAATTAAAAGTTAACTAAGTTAATAAGC
Found at i:46056856 original size:29 final size:29
Alignment explanation
Indices: 46056782--46056857 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
46056772 AGTTCATAAA
* * *
46056782 TGTCAACTTGTGTGAGAAACCTTGATCAG
1 TGTCAACTTGTGTGAGCAACCCTGATCAC
46056811 TGTCAACTTGTGTGAGCAACCCTGATCAC
1 TGTCAACTTGTGTGAGCAACCCTGATCAC
46056840 TGTCAACTTGTGTGAGCA
1 TGTCAACTTGTGTGAGCA
46056858 TTATAGTCTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (29 bp):
TGTCAACTTGTGTGAGCAACCCTGATCAC
Found at i:46058644 original size:20 final size:20
Alignment explanation
Indices: 46058619--46058690 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
46058609 CACGTCAGTC
46058619 CCTCTGTTTGCACTTCGGTG
1 CCTCTGTTTGCACTTCGGTG
* * *
46058639 CCTCTGATTACACATT-TGTG
1 CCTCTGTTTGCAC-TTCGGTG
* *
46058659 CCTCTG-CTGCACTTCGATG
1 CCTCTGTTTGCACTTCGGTG
46058678 CCTCTGTTATGCA
1 CCTCTGTT-TGCA
46058691 TCTTTGATGC
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
18 2 0.05
19 12 0.30
20 20 0.50
21 6 0.15
ACGTcount: A:0.12, C:0.31, G:0.19, T:0.38
Consensus pattern (20 bp):
CCTCTGTTTGCACTTCGGTG
Found at i:46065722 original size:16 final size:16
Alignment explanation
Indices: 46065689--46065722 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46065679 CGTTTATAGT
*
46065689 AAAATATAACATTAAA
1 AAAATATAAAATTAAA
46065705 AAAATATAAGAATTAAA
1 AAAATATAA-AATTAAA
46065722 A
1 A
46065723 CGGCAATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
AAAATATAAAATTAAA
Found at i:46069554 original size:46 final size:46
Alignment explanation
Indices: 46069498--46069587 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
46069488 ATTGATACTA
*
46069498 TAATGGGCCAAGGCCCAAATGCATGACTGCTTCTTTATTGTAATTG
1 TAATGGGCCAAGGCCCAAATGCATGACTGCTTCTGTATTGTAATTG
46069544 TAATGGGCCAAGGCCCAAATGCATGACTGCTTCTGTATTGTAAT
1 TAATGGGCCAAGGCCCAAATGCATGACTGCTTCTGTATTGTAAT
46069588 AGGCTAAGGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (46 bp):
TAATGGGCCAAGGCCCAAATGCATGACTGCTTCTGTATTGTAATTG
Found at i:46076081 original size:64 final size:64
Alignment explanation
Indices: 46075974--46076095 Score: 208
Period size: 64 Copynumber: 1.9 Consensus size: 64
46075964 CGAGGTAAGG
* * *
46075974 TTGTCGATAGTTTTGGGAATTGACTGTTGTAAGTATTTTAGATTAAGTGACTGAGATTAAGTGT
1 TTGTCGATAGTTTTAGGAATTGACTGTTGTAAGTAATTCAGATTAAGTGACTGAGATTAAGTGT
*
46076038 TTGTCGATAGTTTTAGGAATTGACTGTTGTAAGTAATTCAGATTAAGTGACTGGGATT
1 TTGTCGATAGTTTTAGGAATTGACTGTTGTAAGTAATTCAGATTAAGTGACTGAGATT
46076096 GAGTTTCCAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.27, C:0.06, G:0.26, T:0.41
Consensus pattern (64 bp):
TTGTCGATAGTTTTAGGAATTGACTGTTGTAAGTAATTCAGATTAAGTGACTGAGATTAAGTGT
Found at i:46076440 original size:17 final size:18
Alignment explanation
Indices: 46076418--46076451 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46076408 TTTGGCCGTG
46076418 TGGG-CCACACGGGCATA
1 TGGGCCCACACGGGCATA
*
46076435 TGGGCCCACATGGGCAT
1 TGGGCCCACACGGGCAT
46076452 GCAACATGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.21, C:0.29, G:0.35, T:0.15
Consensus pattern (18 bp):
TGGGCCCACACGGGCATA
Found at i:46080535 original size:302 final size:302
Alignment explanation
Indices: 46079989--46080592 Score: 969
Period size: 302 Copynumber: 2.0 Consensus size: 302
46079979 GCCAGAAATG
**
46079989 ACTTTCCCAATAGAATGGGGATTTCCTGATCTTCCTCACAGTCAAGAACTACAAAATTGATTGGG
1 ACTTTCCCAATAGAATGGGGATTTCCTGATCTTCCTCACAGTCAAGAACTACAAAATTGACAGGG
* * *
46080054 ATTATGAATCCCTGTAGCTTGACCAATGTATCCTCGAGCACACCTTTCAGGTGCACCAAAGATCA
66 ATTATGAATCCCTGTAGCTTGACAAATGTATCCTCGAGCACACCTTTCAAGTACACCAAAGATCA
*
46080119 ACCAACTAATTGTAACGTGAGTGAGGTGTTTTTCAACTCTTCAAATCCAAGTTTTCTATAAATCG
131 ACCAACTAATTATAACGTGAGTGAGGTGTTTTTCAACTCTTCAAATCCAAGTTTTCTATAAATCG
*
46080184 ATAAGGGTATTAAATTTATACTAGTCCTTAAATTCTAAAGGGCTTTACTACAAAATTTATCCCCA
196 ATAAGGGTATTAAATTTATACTAGTCCCTAAATTCTAAAGGGCTTTACTACAAAATTTAT-CCCA
*
46080249 -ATTTCTATTAAGATTGTAAAGCTAACCGAATATTTTAATTCT
260 TATTTCGATTAAGATTGTAAAGCTAACCGAATATTTTAATTCT
* * * * *
46080291 ACTTTCCCAATAGAATGGGGATTTCTTGATCTTTCTCATAGTCGAGAACTATAAAATTGACAGGG
1 ACTTTCCCAATAGAATGGGGATTTCCTGATCTTCCTCACAGTCAAGAACTACAAAATTGACAGGG
* *
46080356 ATTATGAATCCCTGTAGCTTGACAAATGTATCCTCGAGCACAGCTTTCAAGTACACCAAAGATCC
66 ATTATGAATCCCTGTAGCTTGACAAATGTATCCTCGAGCACACCTTTCAAGTACACCAAAGATCA
* * * * *
46080421 ATCAACTAATTATAGCGTGATTGAGGTGTCTTTT-AACTCTTCGAATCCAATTTTTCTATAAATC
131 ACCAACTAATTATAACGTGAGTGAGGTGT-TTTTCAACTCTTCAAATCCAAGTTTTCTATAAATC
* * *
46080485 GATAAGGGTATTAAATTTGTGCTAGTCCCTAAATTCTAAAGGGTTTTACTACAAAATTTATCCCA
195 GATAAGGGTATTAAATTTATACTAGTCCCTAAATTCTAAAGGGCTTTACTACAAAATTTATCCCA
46080550 TATTTCGATTAAGATTGTAAAGCTAACCGAATATTTTAATTCT
260 TATTTCGATTAAGATTGTAAAGCTAACCGAATATTTTAATTCT
46080593 GGGGGTATCT
Statistics
Matches: 277, Mismatches: 23, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
301 4 0.01
302 269 0.97
303 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (302 bp):
ACTTTCCCAATAGAATGGGGATTTCCTGATCTTCCTCACAGTCAAGAACTACAAAATTGACAGGG
ATTATGAATCCCTGTAGCTTGACAAATGTATCCTCGAGCACACCTTTCAAGTACACCAAAGATCA
ACCAACTAATTATAACGTGAGTGAGGTGTTTTTCAACTCTTCAAATCCAAGTTTTCTATAAATCG
ATAAGGGTATTAAATTTATACTAGTCCCTAAATTCTAAAGGGCTTTACTACAAAATTTATCCCAT
ATTTCGATTAAGATTGTAAAGCTAACCGAATATTTTAATTCT
Found at i:46085740 original size:20 final size:20
Alignment explanation
Indices: 46085705--46085753 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
46085695 ATCATGGTCT
*
46085705 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
46085724 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
46085744 TTGCTTACTT
1 TTGCTTACTT
46085754 AAATAACTCA
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:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:46093441 original size:14 final size:14
Alignment explanation
Indices: 46093420--46093457 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
46093410 TTCATTTCCT
46093420 CTCTCTCCTCCTTTC
1 CTCTCTCCTCC-TTC
*
46093435 C-CTCTCCTTCTTC
1 CTCTCTCCTCCTTC
46093448 CTCTCTCCTC
1 CTCTCTCCTC
46093458 TCCTCTTCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 4 0.20
14 15 0.75
15 1 0.05
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (14 bp):
CTCTCTCCTCCTTC
Found at i:46093449 original size:18 final size:17
Alignment explanation
Indices: 46093417--46093476 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 17
46093407 CATTTCATTT
*
46093417 CCTCTCTCTCCTCCTTTC
1 CCTCTC-CTCTTCCTTTC
*
46093435 CCTCTCCTTCTTCCTCTC
1 CCTCTCC-TCTTCCTTTC
46093453 TCCTCTCCTCTTCCGTTTC
1 -CCTCTCCTCTTCC-TTTC
*
46093472 TCTCT
1 CCTCT
46093477 ATGACGTCGC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 1 0.03
18 24 0.69
19 10 0.29
ACGTcount: A:0.00, C:0.52, G:0.02, T:0.47
Consensus pattern (17 bp):
CCTCTCCTCTTCCTTTC
Found at i:46096632 original size:192 final size:194
Alignment explanation
Indices: 46096303--46096686 Score: 664
Period size: 192 Copynumber: 2.0 Consensus size: 194
46096293 ATCTTTTCAT
46096303 TTCAAGACTTGCTCTTTATAGGCTTTGTTTATTGTAAAATTAGAATGAAAGAAGATTTTTCAGAA
1 TTCAAGACTTGCTCTTTATAGGCTTTGTTTATTGTAAAATTAGAATGAAAGAAGATTTTTCAGAA
* *
46096368 AGGTCTTAAAGTGAAAAGAGATTTGAAATAACATATTTTATAATTTAAACAATTTTCTTAGATGC
66 AGGTCTTAAAGTGAAAAGAGATTTGAAATAAAATATTTTATAATCTAAACAATTTTCTTAGATGC
46096433 CAAAGAATTGTTAAAATGCTA-TTCAAAATTTCCATGAACCAAACATAGTTTCAA-ATTTTCTG
131 CAAAGAATTGTTAAAATGCTATTTCAAAATTTCCATGAACCAAACATAGTTTCAATATTTTCTG
* *
46096495 TTCAAGACTTGCTCTTTATAGGCTTTGTTTATTGTAAAATTAGAATGCAAGAAGATTTTTCAGGA
1 TTCAAGACTTGCTCTTTATAGGCTTTGTTTATTGTAAAATTAGAATGAAAGAAGATTTTTCAGAA
46096560 AGGTCTTAAAGTGAAAAGAGATTTGAAATAAAATATTTTATAATCTAAACAATTTTCTTAGATGC
66 AGGTCTTAAAGTGAAAAGAGATTTGAAATAAAATATTTTATAATCTAAACAATTTTCTTAGATGC
* * * *
46096625 TAAAGAATTGTTAAAATGCTATTCTTCAAATTTTCCTTGAACCAAATATAGTTTCAATATTT
131 CAAAGAATTGTTAAAATGCTA-T-TTCAAAATTTCCATGAACCAAACATAGTTTCAATATTT
46096687 CTGGGTTCAT
Statistics
Matches: 180, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
192 146 0.81
195 30 0.17
196 4 0.02
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (194 bp):
TTCAAGACTTGCTCTTTATAGGCTTTGTTTATTGTAAAATTAGAATGAAAGAAGATTTTTCAGAA
AGGTCTTAAAGTGAAAAGAGATTTGAAATAAAATATTTTATAATCTAAACAATTTTCTTAGATGC
CAAAGAATTGTTAAAATGCTATTTCAAAATTTCCATGAACCAAACATAGTTTCAATATTTTCTG
Found at i:46098105 original size:52 final size:52
Alignment explanation
Indices: 46098048--46098150 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
46098038 GCATCAAAAT
*
46098048 GAAAACTAGAACATTTCAAACTCCTTTGCAATCAAGCTTATAGGATGTGTAA
1 GAAAACTAGAAAATTTCAAACTCCTTTGCAATCAAGCTTATAGGATGTGTAA
* *
46098100 GAAAACTAGAAAATTTCAAACTCCTTTGCTATCAAGTTTATAGGATGTGTA
1 GAAAACTAGAAAATTTCAAACTCCTTTGCAATCAAGCTTATAGGATGTGTA
46098151 CCTCGAAAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (52 bp):
GAAAACTAGAAAATTTCAAACTCCTTTGCAATCAAGCTTATAGGATGTGTAA
Found at i:46106319 original size:89 final size:87
Alignment explanation
Indices: 46106208--46106434 Score: 291
Period size: 89 Copynumber: 2.6 Consensus size: 87
46106198 TCGACCAATT
*
46106208 AAAGGGATAGCTTCGACTATCGATTATCAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGG
1 AAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAA-GGG
* *
46106273 ATGGTGACGGCCATCGAATTATGAA
65 ATGGTGACGACCATC-AACTAT-AA
*
46106298 AAA-GGATAGCTTCGGA-TATCGATTAAGAAAAGGGATGGTGATC-ACCATCAACTATGAAAAGG
1 AAAGGGATAGCTTC-GACTATCGATTATGAAAAGGGATGGTGA-CGACCATCAACTATGAAAAGG
*
46106360 GATGGTGATGACCATCAACTATAA
64 GATGGTGACGACCATCAACTATAA
* * *
46106384 AAAGGGAT-GGTGACGACCATCGAATTATGAAAAGGGATGGTGACGACCATC
1 AAAGGGATAGCT-TCGACTATCG-ATTATGAAAAGGGATGGTGACGACCATC
46106435 GTGATTACAC
Statistics
Matches: 121, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
86 9 0.07
87 15 0.12
88 41 0.34
89 50 0.41
90 6 0.05
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (87 bp):
AAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGA
TGGTGACGACCATCAACTATAA
Found at i:46106435 original size:30 final size:30
Alignment explanation
Indices: 46106221--46106435 Score: 221
Period size: 29 Copynumber: 7.3 Consensus size: 30
46106211 GGGATAGCTT
* *
46106221 CGACTATCG-ATTATCAAAAGGGATGGTGA
1 CGACCATCGAATTATGAAAAGGGATGGTGA
*
46106250 CGACCATC-AACTATGAAAAGGGGATGGTGA
1 CGACCATCGAATTATGAAAA-GGGATGGTGA
* * * *
46106280 CGGCCATCGAATTATGAAAAAGGATAGCT-T
1 CGACCATCGAATTATGAAAAGGGAT-GGTGA
* *
46106310 CGGA-TATCG-ATTAAGAAAAGGGATGGTGA
1 C-GACCATCGAATTATGAAAAGGGATGGTGA
*
46106339 TC-ACCATC-AACTATGAAAAGGGATGGTGA
1 -CGACCATCGAATTATGAAAAGGGATGGTGA
* * *
46106368 TGACCATC-AACTATAAAAAGGGATGGTGA
1 CGACCATCGAATTATGAAAAGGGATGGTGA
46106397 CGACCATCGAATTATGAAAAGGGATGGTGA
1 CGACCATCGAATTATGAAAAGGGATGGTGA
46106427 CGACCATCG
1 CGACCATCG
46106436 TGATTACACT
Statistics
Matches: 153, Mismatches: 22, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
28 3 0.02
29 82 0.54
30 55 0.36
31 13 0.08
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.20
Consensus pattern (30 bp):
CGACCATCGAATTATGAAAAGGGATGGTGA
Found at i:46109243 original size:45 final size:45
Alignment explanation
Indices: 46109158--46109370 Score: 200
Period size: 45 Copynumber: 4.8 Consensus size: 45
46109148 ACGGTGGATA
* * *
46109158 AGCACATAGC-ACCACCCTTATAATCCAT--TACATTCGGTGGAATC
1 AGCACATAGCAACCACCTTTATAATCAATGATACCTT--GTGGAATC
* * ** ** *
46109202 GGCATATAGCAACCACCTTTATTTTCAATGAT-TTTTAGTGGAGTC
1 AGCACATAGCAACCACCTTTATAATCAATGATACCTT-GTGGAATC
*
46109247 AGCACATAGCAACCACCTTTATAATCAATGGTACCTTGTGGAATC
1 AGCACATAGCAACCACCTTTATAATCAATGATACCTTGTGGAATC
* * * **
46109292 AGCACATAGTAACCACCTTTATAATCAATGGTTCCCGGTGGAATC
1 AGCACATAGCAACCACCTTTATAATCAATGATACCTTGTGGAATC
* * *
46109337 AACACATAGCAATCACCTTTATAATTAATGATAC
1 AGCACATAGCAACCACCTTTATAATCAATGATAC
46109371 TCAGTACACG
Statistics
Matches: 137, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
44 8 0.06
45 124 0.91
46 4 0.03
47 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (45 bp):
AGCACATAGCAACCACCTTTATAATCAATGATACCTTGTGGAATC
Found at i:46109310 original size:90 final size:90
Alignment explanation
Indices: 46109158--46109366 Score: 226
Period size: 90 Copynumber: 2.3 Consensus size: 90
46109148 ACGGTGGATA
* * * *
46109158 AGCACATAGC-ACCACCCTTATAATCCAT-TACATTCGGTGGAATCGGCATATAGCAACCACCTT
1 AGCACATAGCAACCACCTTTATAATCAATGTACATTC-GTGGAATCAGCACATAGCAACCACCTT
** *** *
46109221 TATTTTCAATGATTTTTAGTGGAGTC
65 TATAATCAATGATTCCCAGTGGAATC
* *
46109247 AGCACATAGCAACCACCTTTATAATCAATGGTACCTT-GTGGAATCAGCACATAGTAACCACCTT
1 AGCACATAGCAACCACCTTTATAATCAAT-GTACATTCGTGGAATCAGCACATAGCAACCACCTT
* *
46109311 TATAATCAATGGTTCCCGGTGGAATC
65 TATAATCAATGATTCCCAGTGGAATC
* * *
46109337 AACACATAGCAATCACCTTTATAATTAATG
1 AGCACATAGCAACCACCTTTATAATCAATG
46109367 ATACTCAGTA
Statistics
Matches: 100, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
89 11 0.11
90 84 0.84
92 5 0.05
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (90 bp):
AGCACATAGCAACCACCTTTATAATCAATGTACATTCGTGGAATCAGCACATAGCAACCACCTTT
ATAATCAATGATTCCCAGTGGAATC
Found at i:46110482 original size:22 final size:22
Alignment explanation
Indices: 46110454--46110525 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
46110444 AAATTTTTCC
46110454 CTCATGGCTAACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
46110476 CTCATGGCTAACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
** *
46110498 CTCATGTTTCACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
46110520 CTCATG
1 CTCATG
46110526 TTTGAACAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (22 bp):
CTCATGGCTAACGTACTAAGCT
Found at i:46112335 original size:20 final size:19
Alignment explanation
Indices: 46112273--46112363 Score: 56
Period size: 20 Copynumber: 4.5 Consensus size: 19
46112263 AATTATTGAA
46112273 TGATTGCACATACGTGCCCC
1 TGATTGCAC-TACGTGCCCC
* * * *
46112293 TGTTTTGTACTTCGGTTCCCC
1 TG-ATTGCACTAC-GTGCCCC
46112314 TGATTGCACGTACGTGCCCC
1 TGATTGCAC-TACGTGCCCC
* * * *
46112334 TGTTTGTACTTCGGTACCCC
1 TGATTGCACTAC-GTGCCCC
*
46112354 TAATTGCACT
1 TGATTGCACT
46112364 TTCGTGCCCT
Statistics
Matches: 52, Mismatches: 15, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
19 2 0.04
20 35 0.67
21 15 0.29
ACGTcount: A:0.14, C:0.31, G:0.20, T:0.35
Consensus pattern (19 bp):
TGATTGCACTACGTGCCCC
Found at i:46112354 original size:40 final size:40
Alignment explanation
Indices: 46112273--46112388 Score: 153
Period size: 40 Copynumber: 2.9 Consensus size: 40
46112263 AATTATTGAA
*
46112273 TGATTGCACATACGTGCCCCTGTTTTGTACTTCGGTTCCCC
1 TGATTGCACATACGTGCCCCTG-TTTGTACTTCGGTACCCC
*
46112314 TGATTGCACGTACGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
46112354 TAATTGCACTTTCGTG-CCCTGGTTATACTTCGGTA
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTA
46112389 AACCTATATC
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 17 0.25
40 30 0.44
41 21 0.31
ACGTcount: A:0.14, C:0.29, G:0.21, T:0.36
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:46112364 original size:20 final size:20
Alignment explanation
Indices: 46112301--46112364 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
46112291 CCTGTTTTGT
*
46112301 ACTTCGGTTCCCCTGATTGC
1 ACTTCGGTACCCCTGATTGC
* * * *
46112321 ACGTAC-GTGCCCCTGTTTGT
1 AC-TTCGGTACCCCTGATTGC
*
46112341 ACTTCGGTACCCCTAATTGC
1 ACTTCGGTACCCCTGATTGC
46112361 ACTT
1 ACTT
46112365 TCGTGCCCTG
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.14, C:0.33, G:0.19, T:0.34
Consensus pattern (20 bp):
ACTTCGGTACCCCTGATTGC
Found at i:46113123 original size:19 final size:19
Alignment explanation
Indices: 46113089--46113125 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46113079 CTCAGCCGTA
*
46113089 TGAGGCACATGACCATGTC
1 TGAGGCACACGACCATGTC
*
46113108 TGAGGCACACGGCCATGT
1 TGAGGCACACGACCATGT
46113126 GTCATATGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.30, T:0.19
Consensus pattern (19 bp):
TGAGGCACACGACCATGTC
Found at i:46113810 original size:42 final size:42
Alignment explanation
Indices: 46113751--46113855 Score: 165
Period size: 42 Copynumber: 2.5 Consensus size: 42
46113741 GTTTCACAGT
*
46113751 TTGTGTATCAGCGAAGCTCCCTACGTGAGCTTAAGTGATAAG
1 TTGTGTATCAGCGAAGCTCCCTACGTGAGCTTAAGTGACAAG
*
46113793 TTGTGTATCAGCGAAGCTCCTTACGTGAGCTTAAGTGACAAG
1 TTGTGTATCAGCGAAGCTCCCTACGTGAGCTTAAGTGACAAG
* * *
46113835 CTATGTATCAACGAAGCTCCC
1 TTGTGTATCAGCGAAGCTCCC
46113856 CATGCAAGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (42 bp):
TTGTGTATCAGCGAAGCTCCCTACGTGAGCTTAAGTGACAAG
Found at i:46120280 original size:39 final size:39
Alignment explanation
Indices: 46120237--46120406 Score: 250
Period size: 39 Copynumber: 4.3 Consensus size: 39
46120227 AGAAAATCTT
* *
46120237 ATTCAGTATAATCAATGGATAATTCTCGTTTGAGCAAGC
1 ATTCAGTATAATCAGTGGATAATGCTCGTTTGAGCAAGC
*
46120276 ATTCAGTATAACCAGTGGATAATGCTCGTTTGAGCAAGC
1 ATTCAGTATAATCAGTGGATAATGCTCGTTTGAGCAAGC
* *
46120315 ATTCGGTATAATCAGTGGATAATGCTTGTTTGAGCAAGC
1 ATTCAGTATAATCAGTGGATAATGCTCGTTTGAGCAAGC
* * *
46120354 ATTTAGTATAATCAGTGGATATTGCTCGTTTGAGCAAATC
1 ATTCAGTATAATCAGTGGATAATGCTCGTTTGAGC-AAGC
*
46120394 ATTTAGTATAATC
1 ATTCAGTATAATC
46120407 GATATTCCAT
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 103 0.87
40 16 0.13
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (39 bp):
ATTCAGTATAATCAGTGGATAATGCTCGTTTGAGCAAGC
Found at i:46123049 original size:129 final size:128
Alignment explanation
Indices: 46122831--46123097 Score: 335
Period size: 129 Copynumber: 2.1 Consensus size: 128
46122821 TTATTTCTAT
* * * *
46122831 AAACGCCGCTAATGGTCATGTTCTTTAGTGGCACTTTCATAAAAATGCTGCTAAAGGTCATGTTC
1 AAACGCCGCTAATGGTCATGTTCTTTAGCGGCACTTTCACAAAAACGCTGCTAAAGGACATGTTC
* * *
46122896 TTTGGCGGCGCTTTTTCCACAAACGCTGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCAAC
66 TTTGGCGGCGCTTTTCCCACAAACGCCGCTAAAGGTCATGTTCTTTACCGGCGCTTATCCAAC
* * *
46122959 AAACGTCGCTAAAT-GTCATGTTCTTTAGCGGCGCTTTTCCCAAAAACG-TCGCTAAAGGACATG
1 AAACGCCGCT-AATGGTCATGTTCTTTAGCGGCAC-TTTCACAAAAACGCT-GCTAAAGGACATG
* * *
46123022 TTCTTTTGCGGTGCTTTTCCCGA-AAACGCCGCTAAAGGTCATGTTCTTTACCGGCACTT-TCTC
63 TTCTTTGGCGGCGCTTTTCCC-ACAAACGCCGCTAAAGGTCATGTTCTTTACCGGCGCTTATC-C
*
46123085 CAC
126 AAC
46123088 AAACGCCGCT
1 AAACGCCGCT
46123098 GTTGTTTGGT
Statistics
Matches: 119, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
128 30 0.25
129 88 0.74
130 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (128 bp):
AAACGCCGCTAATGGTCATGTTCTTTAGCGGCACTTTCACAAAAACGCTGCTAAAGGACATGTTC
TTTGGCGGCGCTTTTCCCACAAACGCCGCTAAAGGTCATGTTCTTTACCGGCGCTTATCCAAC
Found at i:46123094 original size:43 final size:43
Alignment explanation
Indices: 46122831--46123097 Score: 276
Period size: 43 Copynumber: 6.2 Consensus size: 43
46122821 TTATTTCTAT
* * * *
46122831 AAACGCCGCTAATGGTCATGTTCTTTAGTGGCACTTTCAT--AA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTC-TCCAC
* * * *
46122873 AAATGCTGCTAAAGGTCATGTTCTTTGGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCTCCAC
* *
46122916 AAACGCTGCTAAAGGTCATGTTCTTTAGCGGCGCTTATC-CAAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTT-TCTCCAC
* * *
46122959 AAACGTCGCTAAATGTCATGTTCTTTAGCGGCGCTTT-TCCCAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCT-CCAC
* * * *
46123002 AAACGTCGCTAAAGGACATGTTCTTTTGCGGTGCTTT-TCC-C
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCTCCAC
* *
46123043 GAAAACGCCGCTAAAGGTCATGTTCTTTACCGGCACTTTCTCCAC
1 --AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCTCCAC
46123088 AAACGCCGCT
1 AAACGCCGCT
46123098 GTTGTTTGGT
Statistics
Matches: 188, Mismatches: 28, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 34 0.18
43 148 0.79
44 4 0.02
45 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCTCCAC
Found at i:46127563 original size:33 final size:31
Alignment explanation
Indices: 46127520--46127596 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 31
46127510 CAACTATAAG
46127520 TGCCGAATGCACATA-ATCACTTATACCCACCTA
1 TGCCGAATGCACATATAT-A--TATACCCACCTA
* *
46127553 TGCCAAATGCATACATATATATATATCCACCTA
1 TGCCGAATGC--ACATATATATATACCCACCTA
46127586 TGCCGAATGCA
1 TGCCGAATGCA
46127597 TACATATACA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
31 1 0.03
33 29 0.76
35 6 0.16
36 2 0.05
ACGTcount: A:0.35, C:0.29, G:0.10, T:0.26
Consensus pattern (31 bp):
TGCCGAATGCACATATATATATACCCACCTA
Found at i:46127597 original size:33 final size:33
Alignment explanation
Indices: 46127541--46127604 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
46127531 CATAATCACT
46127541 TATACCCACCTATGCCAAATGCATACATATATA
1 TATACCCACCTATGCCAAATGCATACATATATA
* *
46127574 TATATCCACCTATGCCGAATGCATACATATA
1 TATACCCACCTATGCCAAATGCATACATATA
46127605 CACACTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.08, T:0.28
Consensus pattern (33 bp):
TATACCCACCTATGCCAAATGCATACATATATA
Found at i:46127857 original size:41 final size:41
Alignment explanation
Indices: 46127791--46127991 Score: 228
Period size: 41 Copynumber: 4.9 Consensus size: 41
46127781 ATTTAAACAG
* * * * *
46127791 ATTCACTGGCACTTCA-CCTGATAGGCTTATAGTCTAATTCC
1 ATTCACCGGCACTT-AGCCTGCTAGGCGTATAGTCTGATTCA
* *
46127832 GTTCACCGGCACTTAGCCTGCTAGGCCTATA-TCCTGATTCA
1 ATTCACCGGCACTTAGCCTGCTAGGCGTATAGT-CTGATTCA
* * * *
46127873 GTTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCA
1 ATTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGATTCA
*
46127914 ATTCACCGGCACTTAGCCTGCT-GGACGTATAGTCCGATTCA
1 ATTCACCGGCACTTAGCCTGCTAGG-CGTATAGTCTGATTCA
* *
46127955 ATTCACTGGCACTTAGCCTGCTAGACGTATAGTCTGA
1 ATTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGA
46127992 ACAATTTCAC
Statistics
Matches: 138, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
40 4 0.03
41 133 0.96
42 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.30
Consensus pattern (41 bp):
ATTCACCGGCACTTAGCCTGCTAGGCGTATAGTCTGATTCA
Found at i:46134570 original size:23 final size:23
Alignment explanation
Indices: 46134535--46134720 Score: 169
Period size: 23 Copynumber: 8.1 Consensus size: 23
46134525 CGTAATGTTT
* * *
46134535 TATAAAGCTTTTGCGGCTTA-TC
1 TATAAAGCCTTTGTGGCATATTC
*
46134557 TCATAAAGCCTTTGTGGCGTATTC
1 T-ATAAAGCCTTTGTGGCATATTC
* *
46134581 TATAAAGCCTTTGTGGCGTCTTC
1 TATAAAGCCTTTGTGGCATATTC
*
46134604 TGTAAAGCCTTTGTGGCATATTC
1 TATAAAGCCTTTGTGGCATATTC
*
46134627 TACAAAG-CTTTGTGGCATATTC
1 TATAAAGCCTTTGTGGCATATTC
* *
46134649 TATAAAGCCTTTGTGGCGTATTA
1 TATAAAGCCTTTGTGGCATATTC
* * * * * *
46134672 TGTAAAGCATGTCTGACATATTT
1 TATAAAGCCTTTGTGGCATATTC
* * **
46134695 TGTAAAGCCTTTATGGTGTATTC
1 TATAAAGCCTTTGTGGCATATTC
46134718 TAT
1 TAT
46134721 GATGCCTCTG
Statistics
Matches: 134, Mismatches: 27, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
22 22 0.16
23 109 0.81
24 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.40
Consensus pattern (23 bp):
TATAAAGCCTTTGTGGCATATTC
Found at i:46134610 original size:46 final size:46
Alignment explanation
Indices: 46134560--46134720 Score: 189
Period size: 46 Copynumber: 3.5 Consensus size: 46
46134550 GCTTATCTCA
* *
46134560 TAAAGCCTTTGTGGCGTATTCTATAAAGCCTTTGTGGCGTCTTCTG
1 TAAAGCCTTTGTGGCGTATTCTATAAAGCCTTTGTGGCATATTCTG
* * *
46134606 TAAAGCCTTTGTGGCATATTCTACAAAG-CTTTGTGGCATATTCTA
1 TAAAGCCTTTGTGGCGTATTCTATAAAGCCTTTGTGGCATATTCTG
* * * * * * *
46134651 TAAAGCCTTTGTGGCGTATTATGTAAAGCATGTCTGACATATTTTG
1 TAAAGCCTTTGTGGCGTATTCTATAAAGCCTTTGTGGCATATTCTG
* *
46134697 TAAAGCCTTTATGGTGTATTCTAT
1 TAAAGCCTTTGTGGCGTATTCTAT
46134721 GATGCCTCTG
Statistics
Matches: 95, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
45 38 0.40
46 57 0.60
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (46 bp):
TAAAGCCTTTGTGGCGTATTCTATAAAGCCTTTGTGGCATATTCTG
Found at i:46134655 original size:45 final size:46
Alignment explanation
Indices: 46134559--46134670 Score: 172
Period size: 45 Copynumber: 2.5 Consensus size: 46
46134549 GGCTTATCTC
* * *
46134559 ATAAAGCCTTTGTGGCGTATTCTATAAAGCCTTTGTGGCGTCTTCT
1 ATAAAGCCTTTGTGGCGTATTCTACAAAGCCTTTGTGGCATATTCT
* *
46134605 GTAAAGCCTTTGTGGCATATTCTACAAAG-CTTTGTGGCATATTCT
1 ATAAAGCCTTTGTGGCGTATTCTACAAAGCCTTTGTGGCATATTCT
46134650 ATAAAGCCTTTGTGGCGTATT
1 ATAAAGCCTTTGTGGCGTATT
46134671 ATGTAAAGCA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
45 33 0.56
46 26 0.44
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (46 bp):
ATAAAGCCTTTGTGGCGTATTCTACAAAGCCTTTGTGGCATATTCT
Found at i:46134692 original size:68 final size:69
Alignment explanation
Indices: 46134561--46134720 Score: 196
Period size: 68 Copynumber: 2.3 Consensus size: 69
46134551 CTTATCTCAT
* * * * * * *
46134561 AAAGCCTTTGTGGCGTATTCTATAAAGCCTTTGTGGCGTCTTCTGTAAAGCCTTTGTGGCATATT
1 AAAGCCTTTGTGGCATATTCTATAAAGCCTTTGTGGCGTATTATGTAAAGCATGTCTGACATATT
46134626 CTAC
66 CTAC
46134630 AAAG-CTTTGTGGCATATTCTATAAAGCCTTTGTGGCGTATTATGTAAAGCATGTCTGACATATT
1 AAAGCCTTTGTGGCATATTCTATAAAGCCTTTGTGGCGTATTATGTAAAGCATGTCTGACATATT
* **
46134694 TTGT
66 CTAC
* **
46134698 AAAGCCTTTATGGTGTATTCTAT
1 AAAGCCTTTGTGGCATATTCTAT
46134721 GATGCCTCTG
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
68 58 0.75
69 19 0.25
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (69 bp):
AAAGCCTTTGTGGCATATTCTATAAAGCCTTTGTGGCGTATTATGTAAAGCATGTCTGACATATT
CTAC
Found at i:46135654 original size:38 final size:38
Alignment explanation
Indices: 46135612--46135689 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
46135602 TCCAAAATCT
46135612 TCAAGATGAGGAATTAAACAACAAATGCTTCAAGGTAA
1 TCAAGATGAGGAATTAAACAACAAATGCTTCAAGGTAA
46135650 TCAAGATGAGGAATTAAACAACAAATGCTTCAAGGTAA
1 TCAAGATGAGGAATTAAACAACAAATGCTTCAAGGTAA
46135688 TC
1 TC
46135690 TAGGTTAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (38 bp):
TCAAGATGAGGAATTAAACAACAAATGCTTCAAGGTAA
Found at i:46141370 original size:80 final size:81
Alignment explanation
Indices: 46141254--46141412 Score: 257
Period size: 80 Copynumber: 2.0 Consensus size: 81
46141244 TTTTTAGAAG
* * *
46141254 ATAGGTTAAAAACAATTTTGTATTTGTCGAAAGGAAAAAGA-CTAGAGGAGATTGAAATAGCCGT
1 ATAGGTTAAAAACAACTTTGTATTTGTAGAAAGGAAAAAGATCTAGAGGAGATTGAAATAGCAGT
46141318 ATACAAAAGAAATAAT
66 ATACAAAAGAAATAAT
* * *
46141334 ATAGGTTTAAAACAACTTTGTATTTGTAGAAGGGAAAAAGATTTAGAGGAGATTGAAATAGCAGT
1 ATAGGTTAAAAACAACTTTGTATTTGTAGAAAGGAAAAAGATCTAGAGGAGATTGAAATAGCAGT
46141399 ATACAAAAGAAATA
66 ATACAAAAGAAATA
46141413 TATGTTCATC
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
80 37 0.51
81 35 0.49
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (81 bp):
ATAGGTTAAAAACAACTTTGTATTTGTAGAAAGGAAAAAGATCTAGAGGAGATTGAAATAGCAGT
ATACAAAAGAAATAAT
Found at i:46141563 original size:20 final size:20
Alignment explanation
Indices: 46141525--46141562 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46141515 ACACACATAT
* *
46141525 ATATATATATATAGCTTTTG
1 ATATATATAAAAAGCTTTTG
46141545 ATATATATAAAAAG-TTTT
1 ATATATATAAAAAGCTTTT
46141563 TTTTATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (20 bp):
ATATATATAAAAAGCTTTTG
Found at i:46146726 original size:56 final size:56
Alignment explanation
Indices: 46146658--46146770 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 56
46146648 GAGCTAAAAA
* * *
46146658 TTAGTGGTTTAATCGATTCGACTATCAATCCGATTTTAAAAATATTGTTTATTATC
1 TTAGTGATTTAATCGATTCGACCATCAATCCGATTTCAAAAATATTGTTTATTATC
*
46146714 TTAGTGATTTAATCGGTTCGACCATCAATCCGATTTCAAAAATATTGTTTATTATC
1 TTAGTGATTTAATCGATTCGACCATCAATCCGATTTCAAAAATATTGTTTATTATC
46146770 T
1 T
46146771 CCCCATAGAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (56 bp):
TTAGTGATTTAATCGATTCGACCATCAATCCGATTTCAAAAATATTGTTTATTATC
Found at i:46155841 original size:27 final size:25
Alignment explanation
Indices: 46155786--46155842 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 25
46155776 CGCACGAATG
*
46155786 AAATTTAATTTAAATAAAATATTTTT
1 AAATTTAATTTAAATAAAATA-TTAT
46155812 AAATTTAAATTTAATTATAAAATA-TAT
1 AAATTT-AATTTAA--ATAAAATATTAT
46155839 AAAT
1 AAAT
46155843 AATAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 6 0.22
27 13 0.48
29 8 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
AAATTTAATTTAAATAAAATATTAT
Found at i:46156687 original size:28 final size:28
Alignment explanation
Indices: 46156656--46156709 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
46156646 CAATAAAGTC
*
46156656 GTTGGAATAC-GACTGTTATAATATGATT
1 GTTGGAAT-CTGACCGTTATAATATGATT
*
46156684 GTTGGAATCTGACCGTTGTAATATGA
1 GTTGGAATCTGACCGTTATAATATGA
46156710 CCATTAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 22 0.96
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.37
Consensus pattern (28 bp):
GTTGGAATCTGACCGTTATAATATGATT
Found at i:46157704 original size:20 final size:18
Alignment explanation
Indices: 46157681--46157747 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 18
46157671 AGGAAACATT
46157681 GATACTTGCTATGAGGTATC
1 GATACTTG-TA-GAGGTATC
*
46157701 GATACCTTGGAGAGGGTATC
1 GATA-CTTGTAGA-GGTATC
46157721 GATACTTTGTTA-AGGGTATC
1 GATAC-TTG-TAGA-GGTATC
46157741 GATACTT
1 GATACTT
46157748 TTGATTTTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
19 5 0.12
20 31 0.76
21 5 0.12
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.34
Consensus pattern (18 bp):
GATACTTGTAGAGGTATC
Found at i:46157748 original size:20 final size:20
Alignment explanation
Indices: 46157695--46157748 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
46157685 CTTGCTATGA
*
46157695 GGTATCGATACCTTGGAGAG
1 GGTATCGATACTTTGGAGAG
*
46157715 GGTATCGATACTTTGTTA-AG
1 GGTATCGATACTTTG-GAGAG
46157735 GGTATCGATACTTT
1 GGTATCGATACTTT
46157749 TGATTTTTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.35
Consensus pattern (20 bp):
GGTATCGATACTTTGGAGAG
Found at i:46162102 original size:17 final size:17
Alignment explanation
Indices: 46162080--46162118 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
46162070 CAAAGGTAAT
46162080 GTTTCAAATTCCTATGA
1 GTTTCAAATTCCTATGA
46162097 GTTTCAAATTCCTATGA
1 GTTTCAAATTCCTATGA
46162114 GTTTC
1 GTTTC
46162119 TCATGACATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.44
Consensus pattern (17 bp):
GTTTCAAATTCCTATGA
Found at i:46169111 original size:7 final size:7
Alignment explanation
Indices: 46169101--46169133 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
46169091 AAAATTAATA
*
46169101 TTTAGGG
1 TTTAAGG
46169108 TTTAAGG
1 TTTAAGG
46169115 TTTAAGG
1 TTTAAGG
46169122 TTTAAGG
1 TTTAAGG
46169129 TTTAA
1 TTTAA
46169134 TATAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (7 bp):
TTTAAGG
Found at i:46169417 original size:20 final size:19
Alignment explanation
Indices: 46169385--46169423 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
46169375 TTGATTAAGG
46169385 TTAAGTTAAGTTAATTAAA
1 TTAAGTTAAGTTAATTAAA
*
46169404 TTAAGTTTATGTTAATTAAA
1 TTAAG-TTAAGTTAATTAAA
46169424 CCAACTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (19 bp):
TTAAGTTAAGTTAATTAAA
Found at i:46173242 original size:40 final size:40
Alignment explanation
Indices: 46173198--46173292 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
46173188 ATTACCTCGA
* * *
46173198 TTTACACTTTTGTGTCTCTATTTGCACTTCAATGCATTTG
1 TTTACACTTTGGTGTCTCTACTTGCACTTCAATGCATCTG
* * * *
46173238 TTTACACTTTGGTGTCTCTGCTTGCACTTTACTGCCTCTG
1 TTTACACTTTGGTGTCTCTACTTGCACTTCAATGCATCTG
*
46173278 TTTACACTTCGGTGT
1 TTTACACTTTGGTGT
46173293 TTTTGTTCGT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.47
Consensus pattern (40 bp):
TTTACACTTTGGTGTCTCTACTTGCACTTCAATGCATCTG
Found at i:46173285 original size:20 final size:20
Alignment explanation
Indices: 46173236--46173286 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
46173226 TCAATGCATT
** *
46173236 TGTTTACACTTTGGTGTCTC
1 TGTTTACACTTTACTGCCTC
* *
46173256 TGCTTGCACTTTACTGCCTC
1 TGTTTACACTTTACTGCCTC
46173276 TGTTTACACTT
1 TGTTTACACTT
46173287 CGGTGTTTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.12, C:0.25, G:0.16, T:0.47
Consensus pattern (20 bp):
TGTTTACACTTTACTGCCTC
Found at i:46173365 original size:20 final size:20
Alignment explanation
Indices: 46173309--46173372 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
46173299 TCGTACTCTA
* *
46173309 GTGCCTCTGATTGCACAATC
1 GTGCCTCTGATTGCACTATG
* *
46173329 GTGCCTTTGTTTGCACTATG
1 GTGCCTCTGATTGCACTATG
*
46173349 GTGCCTCTAATTGCACTATG
1 GTGCCTCTGATTGCACTATG
46173369 GTGC
1 GTGC
46173373 TCCCTGGTGT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (20 bp):
GTGCCTCTGATTGCACTATG
Found at i:46187892 original size:31 final size:31
Alignment explanation
Indices: 46187854--46187913 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
46187844 ATCCAGTAAG
* *
46187854 TAAGTTGTGTTTTGTGAACTATGTTCGCATA
1 TAAGTTGTGTTTGGCGAACTATGTTCGCATA
*
46187885 TAAGTTGTGTTTGGCGAACTGTGTTCGCA
1 TAAGTTGTGTTTGGCGAACTATGTTCGCA
46187914 AGTCTATTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.20, C:0.12, G:0.27, T:0.42
Consensus pattern (31 bp):
TAAGTTGTGTTTGGCGAACTATGTTCGCATA
Found at i:46190542 original size:53 final size:53
Alignment explanation
Indices: 46190452--46190661 Score: 197
Period size: 53 Copynumber: 3.9 Consensus size: 53
46190442 CCATGGTGCT
* * * *
46190452 GAAGCACCATATCGTGTATGGCCGTAATTGGTGGGTTATGGCATCATATGGAAA
1 GAAG-ACCATATCTTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGAAA
* * * * ** * *
46190506 GAAGACCATATCTTGTGAGACTGTAACTAGTAGGTTATGAAATTATATGAAAA
1 GAAGACCATATCTTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGAAA
** * * * *
46190559 TCAGACCATATCGTGTAAGACCGTAATTGGTGGGTTATGGCACCGTATGGAAA
1 GAAGACCATATCTTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGAAA
* * * *
46190612 GAAAATCATAT-TGTGTAAGACCATAACTGGTGGGTTATGGCATCTTATGG
1 GAAGACCATATCT-TGTAAGACCGTAACTGGTGGGTTATGGCATCATATGG
46190662 GAAGGACTAA
Statistics
Matches: 120, Mismatches: 35, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
53 116 0.97
54 4 0.03
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (53 bp):
GAAGACCATATCTTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGAAA
Found at i:46190648 original size:106 final size:106
Alignment explanation
Indices: 46190457--46190650 Score: 273
Period size: 106 Copynumber: 1.8 Consensus size: 106
46190447 GTGCTGAAGC
* * * *
46190457 ACCATATCGTGTATGGCCGTAATTGGTGGGTTATGGCATCATATGGAAAGAAGACCATATCTTGT
1 ACCATATCGTGTAAGACCGTAATTGGTGGGTTATGGCACCATATGGAAAGAAAACCATATCTTGT
* **
46190522 GAGACTGTAACTAGTAGGTTATGAAATTATATGAAAATCAG
66 AAGACCATAACTAGTAGGTTATGAAATTATATGAAAATCAG
* *
46190563 ACCATATCGTGTAAGACCGTAATTGGTGGGTTATGGCACCGTATGGAAAGAAAATCATAT-TGTG
1 ACCATATCGTGTAAGACCGTAATTGGTGGGTTATGGCACCATATGGAAAGAAAACCATATCT-TG
* *
46190627 TAAGACCATAACTGGTGGGTTATG
65 TAAGACCATAACTAGTAGGTTATG
46190651 GCATCTTATG
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
105 1 0.01
106 75 0.99
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (106 bp):
ACCATATCGTGTAAGACCGTAATTGGTGGGTTATGGCACCATATGGAAAGAAAACCATATCTTGT
AAGACCATAACTAGTAGGTTATGAAATTATATGAAAATCAG
Found at i:46193647 original size:28 final size:28
Alignment explanation
Indices: 46193572--46193640 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
46193562 GGTGTTACAC
*
46193572 AGCCTTTGTGGCAATCTCTGGATAAGGA
1 AGCCTTTGTGGCAATCTCTAGATAAGGA
* *
46193600 AGCCATTGTGGCTATCTCTAGA-AAGGA
1 AGCCTTTGTGGCAATCTCTAGATAAGGA
46193627 ATGCCTTTGTGGCA
1 A-GCCTTTGTGGCA
46193641 CCATCTAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 6 0.17
28 29 0.83
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCCTTTGTGGCAATCTCTAGATAAGGA
Found at i:46194987 original size:14 final size:13
Alignment explanation
Indices: 46194966--46195002 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
46194956 TAATCAAAGT
46194966 TTTAATTAATTAA
1 TTTAATTAATTAA
46194979 TTATAATTATATTAA
1 TT-TAATTA-ATTAA
46194994 TTTAATTAA
1 TTTAATTAA
46195003 AGTATAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 12 0.55
15 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTAATTAATTAA
Found at i:46195008 original size:19 final size:19
Alignment explanation
Indices: 46194970--46195008 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
46194960 CAAAGTTTTA
*
46194970 ATTAATTAATTATAATTAT
1 ATTAATTAATTATAAGTAT
46194989 ATTAATTTAATTA-AAGTAT
1 ATTAA-TTAATTATAAGTAT
46195008 A
1 A
46195009 AATGTAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
ATTAATTAATTATAAGTAT
Found at i:46204382 original size:27 final size:27
Alignment explanation
Indices: 46204347--46204402 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
46204337 TTTTCTTCTT
46204347 TTGTTTACCGAATCACTTTGTGTATTC
1 TTGTTTACCGAATCACTTTGTGTATTC
46204374 TTGTTTACCGAATCACTTTGTGTATTC
1 TTGTTTACCGAATCACTTTGTGTATTC
46204401 TT
1 TT
46204403 CTTACAGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (27 bp):
TTGTTTACCGAATCACTTTGTGTATTC
Found at i:46206023 original size:21 final size:20
Alignment explanation
Indices: 46205999--46206040 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
46205989 ATCTTCAGGA
* *
46205999 CTGTGTCGTGACATCCTAAGG
1 CTGTGTCGCGACA-CCGAAGG
46206020 CTGTGTCGCGACACCGAAGG
1 CTGTGTCGCGACACCGAAGG
46206040 C
1 C
46206041 AGTCTTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.19, C:0.29, G:0.31, T:0.21
Consensus pattern (20 bp):
CTGTGTCGCGACACCGAAGG
Found at i:46219138 original size:14 final size:14
Alignment explanation
Indices: 46219119--46219149 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
46219109 AAAAGAAAGG
46219119 TTATGGTTATATAT
1 TTATGGTTATATAT
46219133 TTATGGTTATATAT
1 TTATGGTTATATAT
46219147 TTA
1 TTA
46219150 GCATACTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (14 bp):
TTATGGTTATATAT
Found at i:46224041 original size:16 final size:17
Alignment explanation
Indices: 46224020--46224052 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
46224010 TCAATCATAT
46224020 AATATTT-AAACAAAAA
1 AATATTTCAAACAAAAA
*
46224036 AATATTTCCAACAAAAA
1 AATATTTCAAACAAAAA
46224053 TTTCATATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (17 bp):
AATATTTCAAACAAAAA
Found at i:46227841 original size:59 final size:60
Alignment explanation
Indices: 46227729--46227849 Score: 226
Period size: 59 Copynumber: 2.0 Consensus size: 60
46227719 ACTTGTAATG
*
46227729 GTAAGGAGAATGATGAGTAATATACTTTTTGGTTGACCCATAACATAAATATGTTAGAGT
1 GTAAGGAGAATAATGAGTAATATACTTTTTGGTTGACCCATAACATAAATATGTTAGAGT
46227789 GTAAGGAGAATAATGAGTAATATAC-TTTTGGTTGACCCATAACATAAATATGTTAGAGT
1 GTAAGGAGAATAATGAGTAATATACTTTTTGGTTGACCCATAACATAAATATGTTAGAGT
46227848 GT
1 GT
46227850 TATAATTACG
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 36 0.60
60 24 0.40
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.33
Consensus pattern (60 bp):
GTAAGGAGAATAATGAGTAATATACTTTTTGGTTGACCCATAACATAAATATGTTAGAGT
Found at i:46229088 original size:19 final size:20
Alignment explanation
Indices: 46229051--46229088 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
46229041 TATGAGAATA
46229051 TTTTCTATTTCTATGTTTTC
1 TTTTCTATTTCTATGTTTTC
46229071 TTTT-TATTT-TATGATTTT
1 TTTTCTATTTCTATG-TTTT
46229089 TAAATTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 9 0.53
20 4 0.24
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTTCTATTTCTATGTTTTC
Found at i:46232525 original size:22 final size:22
Alignment explanation
Indices: 46232490--46232546 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
46232480 TTATTTTTTA
*
46232490 TTAGG-ATAAA-AAAGTCAT-T
1 TTAGGAATAAAGAAAGACATGT
*
46232509 TTTGGAATAGAAGAAAGACATGT
1 TTAGGAATA-AAGAAAGACATGT
46232532 TTAGGAATAAAGAAA
1 TTAGGAATAAAGAAA
46232547 AGTTTAAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 4 0.13
20 3 0.10
21 2 0.06
22 13 0.42
23 9 0.29
ACGTcount: A:0.49, C:0.04, G:0.21, T:0.26
Consensus pattern (22 bp):
TTAGGAATAAAGAAAGACATGT
Found at i:46232548 original size:23 final size:23
Alignment explanation
Indices: 46232499--46232548 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
46232489 ATTAGGATAA
* *
46232499 AAAAGTCATTTTTGGAATAGAAG
1 AAAAGACATTTTAGGAATAGAAG
46232522 -AAAGACATGTTTAGGAATA-AAG
1 AAAAGACAT-TTTAGGAATAGAAG
46232544 AAAAG
1 AAAAG
46232549 TTTAAGTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.50, C:0.04, G:0.22, T:0.24
Consensus pattern (23 bp):
AAAAGACATTTTAGGAATAGAAG
Found at i:46238236 original size:13 final size:13
Alignment explanation
Indices: 46238218--46238242 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46238208 TTGTTTCAAA
46238218 TTTTTTAGAGATC
1 TTTTTTAGAGATC
46238231 TTTTTTAGAGAT
1 TTTTTTAGAGAT
46238243 TACGTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.16, T:0.56
Consensus pattern (13 bp):
TTTTTTAGAGATC
Found at i:46243755 original size:24 final size:24
Alignment explanation
Indices: 46243727--46243778 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
46243717 TTAGTAGGTC
* *
46243727 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* * *
46243751 AAATATATTATATTAATAAATACT
1 AAATAAACTATACTAATAAATACT
46243775 AAAT
1 AAAT
46243779 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:46246445 original size:44 final size:44
Alignment explanation
Indices: 46246396--46246484 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
46246386 TGAAGTAAAG
* * *
46246396 TAGAAGTAGTGATAACTATACATTTAAAAGTAATTATAATTTAA
1 TAGAAGTAGTGATAACTACACATCTAAAAATAATTATAATTTAA
* *
46246440 TAGAAGTTGTGATAATTACACATCTAAAAATAATTATAATTTAA
1 TAGAAGTAGTGATAACTACACATCTAAAAATAATTATAATTTAA
46246484 T
1 T
46246485 TTAACGCTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (44 bp):
TAGAAGTAGTGATAACTACACATCTAAAAATAATTATAATTTAA
Found at i:46250402 original size:24 final size:25
Alignment explanation
Indices: 46250375--46250423 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
46250365 TTAATTCCTT
*
46250375 TAAATACATTATTG-AAA-AAATAAA
1 TAAAAACATT-TTGCAAACAAATAAA
46250399 TAAAAACATTTTGCAAACAAATAAA
1 TAAAAACATTTTGCAAACAAATAAA
46250424 CTACAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 12 0.55
25 7 0.32
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (25 bp):
TAAAAACATTTTGCAAACAAATAAA
Found at i:46251151 original size:25 final size:24
Alignment explanation
Indices: 46251123--46251179 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
46251113 TTTCTTCCCT
*
46251123 CTTTCCCTCTC-TTCTTCTCTCTTTC
1 CTTTCCCTCCCTTTC-TCTC-CTTTC
*
46251148 CTTTCCTTCCCTTTCTCTCCTTTC
1 CTTTCCCTCCCTTTCTCTCCTTTC
*
46251172 TTTTCCCT
1 CTTTCCCT
46251180 TTTCTTTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 11 0.41
25 13 0.48
26 3 0.11
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (24 bp):
CTTTCCCTCCCTTTCTCTCCTTTC
Found at i:46251186 original size:25 final size:24
Alignment explanation
Indices: 46251123--46251186 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 24
46251113 TTTCTTCCCT
46251123 CTTTCCCTCTCTTC-TTCTCTCTTTC
1 CTTTCCCT-T-TTCTTTCTCTCTTTC
**
46251148 CTTT-CCTTCCCTTTCTCTCCTTTC
1 CTTTCCCTTTTCTTTCTCT-CTTTC
*
46251172 TTTTCCCTTTTCTTT
1 CTTTCCCTTTTCTTT
46251187 TCTTTCTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
22 1 0.03
23 7 0.23
24 11 0.35
25 12 0.39
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (24 bp):
CTTTCCCTTTTCTTTCTCTCTTTC
Found at i:46256922 original size:25 final size:24
Alignment explanation
Indices: 46256832--46256924 Score: 80
Period size: 25 Copynumber: 3.8 Consensus size: 24
46256822 GGCTTTTTTT
*
46256832 GAGCTTCCTAATTAATGGCTCTCCG
1 GAGCTTCCCAA-TAATGGCTCTCCG
* **
46256857 GAGCTTCCCAAT-ATGGCTCGCTT
1 GAGCTTCCCAATAATGGCTCTCCG
* * *
46256880 GAACTTCCCGATATATGGCTATCCG
1 GAGCTTCCCAATA-ATGGCTCTCCG
*
46256905 GAGCTTCCTAATTAATGGCT
1 GAGCTTCCCAA-TAATGGCT
46256925 TTTCAGAGCT
Statistics
Matches: 52, Mismatches: 13, Indels: 6
0.73 0.18 0.08
Matches are distributed among these distances:
23 18 0.35
24 1 0.02
25 31 0.60
26 2 0.04
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (24 bp):
GAGCTTCCCAATAATGGCTCTCCG
Found at i:46256969 original size:73 final size:73
Alignment explanation
Indices: 46256832--46256972 Score: 185
Period size: 73 Copynumber: 1.9 Consensus size: 73
46256822 GGCTTTTTTT
* * *
46256832 GAGCTTCCTAATTAATGGCTCTCCGGAGCTTCCCAATATGGCTCGCTTGAACTTCCCGATATATG
1 GAGCTTCCTAATTAATGGCTCTCCAGAGCTACCCAATATGGCTCGCATGAACTTCCCGATATATG
46256897 GCTATCCG
66 GCTATCCG
* * ** * *
46256905 GAGCTTCCTAATTAATGGCTTTTCAGAGCTACCCGTTATTGGCTCGCATGAGCTTCCTGA-ATAT
1 GAGCTTCCTAATTAATGGCTCTCCAGAGCTACCCAATA-TGGCTCGCATGAACTTCCCGATATAT
46256969 GGCT
65 GGCT
46256973 CTTATGAGCT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
73 40 0.69
74 18 0.31
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (73 bp):
GAGCTTCCTAATTAATGGCTCTCCAGAGCTACCCAATATGGCTCGCATGAACTTCCCGATATATG
GCTATCCG
Found at i:46257032 original size:25 final size:25
Alignment explanation
Indices: 46256976--46257042 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
46256966 TATGGCTCTT
* *
46256976 ATGAGCTTCCCGTTATACAATCCAG
1 ATGAGCTTCCTGTTATACAATCCAC
* *
46257001 ATAAGCTTCCTGTTATAC-AGCTCAC
1 ATGAGCTTCCTGTTATACAATC-CAC
*
46257026 ATGAGCTTCTTGTTATA
1 ATGAGCTTCCTGTTATA
46257043 TGGCTCGAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 2 0.06
25 33 0.94
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (25 bp):
ATGAGCTTCCTGTTATACAATCCAC
Found at i:46261955 original size:10 final size:10
Alignment explanation
Indices: 46261940--46261964 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
46261930 CACTTTTTTC
46261940 TCTTCATTGT
1 TCTTCATTGT
46261950 TCTTCATTGT
1 TCTTCATTGT
46261960 TCTTC
1 TCTTC
46261965 CCCATTCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.24, G:0.08, T:0.60
Consensus pattern (10 bp):
TCTTCATTGT
Found at i:46268356 original size:23 final size:21
Alignment explanation
Indices: 46268317--46268358 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
46268307 AAAAGTGATT
*
46268317 ATTTTTTTTTTAAAATTTTAC
1 ATTTTTTTTTAAAAATTTTAC
46268338 ATTTTTTTATTAAATAATTTT
1 ATTTTTTT-TTAAA-AATTTT
46268359 GTGTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 4 0.22
23 6 0.33
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTTTTTTAAAAATTTTAC
Found at i:46286973 original size:14 final size:14
Alignment explanation
Indices: 46286954--46286989 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
46286944 TGTTGGTTTA
*
46286954 GATCCTTATTCATT
1 GATCCTCATTCATT
46286968 GATCCTCATTCATT
1 GATCCTCATTCATT
*
46286982 TATCCTCA
1 GATCCTCA
46286990 AAATTGAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.22, C:0.28, G:0.06, T:0.44
Consensus pattern (14 bp):
GATCCTCATTCATT
Found at i:46288521 original size:30 final size:30
Alignment explanation
Indices: 46288487--46288543 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
46288477 AATTAATGGC
46288487 TGTTTTAGGTTAATGGCTGATGAAATTGGT
1 TGTTTTAGGTTAATGGCTGATGAAATTGGT
46288517 TGTTTTAGGTTAATGGCTGATGAAATT
1 TGTTTTAGGTTAATGGCTGATGAAATT
46288544 TCATTACCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.04, G:0.28, T:0.44
Consensus pattern (30 bp):
TGTTTTAGGTTAATGGCTGATGAAATTGGT
Found at i:46293325 original size:320 final size:320
Alignment explanation
Indices: 46292743--46293359 Score: 1171
Period size: 320 Copynumber: 1.9 Consensus size: 320
46292733 GACAGTAGTC
46292743 AATTAGATTAATTTGAGCCTCTCCCTGACTGGTCAACAGAAAGTGAAACCTTCACCAGATTTTCT
1 AATTAGATTAATTTGAGCCTCTCCCTGACTGGTCAACAGAAAGTGAAACCTTCACCAGATTTTCT
*
46292808 TTTACCTACCCTGGATTTGGTAGGGAAATCGGGGGGTCTGAGAGTATATTTATGGGAAGGTAACA
66 TTTACCTACCCTGGATTTGGTAAGGAAATCGGGGGGTCTGAGAGTATATTTATGGGAAGGTAACA
* *
46292873 TTTCAGATGGTTTTTCTTTCTACTTAATGTTTAGGTTCTTCTTTCTAACCTCAATACTTGCTTTT
131 TTTCAGATGGTTTTTCTTTCTACTTAATGTTTAGGTTCTTATTTCTAACCTCAACACTTGCTTTT
46292938 TATTCTTCATTAATATCAGACTAAGATCTCGTCTAATGCATAGATGATTCTGTCTTCTAGTAAGT
196 TATTCTTCATTAATATCAGACTAAGATCTCGTCTAATGCATAGATGATTCTGTCTTCTAGTAAGT
*
46293003 CTTTAAGCTTTGCACATTACAGTTACAGAAGGGAAGGGTCTCCCTTCTAGTAAGTCTTCA
261 CTTCAAGCTTTGCACATTACAGTTACAGAAGGGAAGGGTCTCCCTTCTAGTAAGTCTTCA
46293063 AATTAGATTAATTTGAGCCTCTCCCTGACTGGTCAACAGAAAGTGAAACCTTCACCAGATTTTCT
1 AATTAGATTAATTTGAGCCTCTCCCTGACTGGTCAACAGAAAGTGAAACCTTCACCAGATTTTCT
*
46293128 TTTACCTACCCTGGATTTGGTAAGGAAATCGGGGGGTCTGAGAGTATATTTATGGGAAGGTACCA
66 TTTACCTACCCTGGATTTGGTAAGGAAATCGGGGGGTCTGAGAGTATATTTATGGGAAGGTAACA
*
46293193 TTTCAGATGGTTTTTCTTTCTACTTAATGTTTAGGTTCTTATTTCTAACCTCAACATTTGCTTTT
131 TTTCAGATGGTTTTTCTTTCTACTTAATGTTTAGGTTCTTATTTCTAACCTCAACACTTGCTTTT
*
46293258 TATTCTTCATTAATATTAGACTAAGATCTCGTCTAATGCATAGATGATTCTGTCTTCTAGTAAGT
196 TATTCTTCATTAATATCAGACTAAGATCTCGTCTAATGCATAGATGATTCTGTCTTCTAGTAAGT
46293323 CTTCAAGCTTTGCACATTACAGTTACAGAAGGGAAGG
261 CTTCAAGCTTTGCACATTACAGTTACAGAAGGGAAGG
46293360 ATGTCACAAG
Statistics
Matches: 290, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
320 290 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (320 bp):
AATTAGATTAATTTGAGCCTCTCCCTGACTGGTCAACAGAAAGTGAAACCTTCACCAGATTTTCT
TTTACCTACCCTGGATTTGGTAAGGAAATCGGGGGGTCTGAGAGTATATTTATGGGAAGGTAACA
TTTCAGATGGTTTTTCTTTCTACTTAATGTTTAGGTTCTTATTTCTAACCTCAACACTTGCTTTT
TATTCTTCATTAATATCAGACTAAGATCTCGTCTAATGCATAGATGATTCTGTCTTCTAGTAAGT
CTTCAAGCTTTGCACATTACAGTTACAGAAGGGAAGGGTCTCCCTTCTAGTAAGTCTTCA
Found at i:46293930 original size:25 final size:25
Alignment explanation
Indices: 46293900--46294072 Score: 100
Period size: 25 Copynumber: 7.0 Consensus size: 25
46293890 GTAAACACAT
*
46293900 AATTCTCTAGAAAGCCATTGTGGTG
1 AATTCTCTAGAAAGCCATTGTGGCG
* *
46293925 AGTTCTCTAGAAAGCCCTTGTGGCG
1 AATTCTCTAGAAAGCCATTGTGGCG
* * * * *
46293950 AATCCTCTCGAAAGCCTTTTTGGAG
1 AATTCTCTAGAAAGCCATTGTGGCG
* * * * *
46293975 AATCCTCT-GAAAATCCTTTATGGAG
1 AATTCTCTAG-AAAGCCATTGTGGCG
* * *
46294000 AATCCTCTAGAAAG-CATTTTTGGCA
1 AATTCTCTAGAAAGCCA-TTGTGGCG
* * * *
46294025 AATCCTCTGGAAAGCC-TTATGGTG
1 AATTCTCTAGAAAGCCATTGTGGCG
* * *
46294049 AATCCTCTGGAAAGCCTTTGTGGC
1 AATTCTCTAGAAAGCCATTGTGGC
46294073 ATGTTATCTG
Statistics
Matches: 121, Mismatches: 22, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
24 23 0.19
25 96 0.79
26 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (25 bp):
AATTCTCTAGAAAGCCATTGTGGCG
Found at i:46294073 original size:49 final size:50
Alignment explanation
Indices: 46293929--46294073 Score: 168
Period size: 50 Copynumber: 2.9 Consensus size: 50
46293919 GTGGTGAGTT
* * * *
46293929 CTCTAGAAAGCCCTTGTGGCGAATCCTCTCGAAAGCCTTTTTGG-AGAATC
1 CTCTGGAAAG-CCTTATGGAGAATCCTCTAGAAAGCCTTTTTGGCAGAATC
* * *
46293979 CTCTGAAAATCCTTTATGGAGAATCCTCTAGAAAGCATTTTTGGCA-AATC
1 CTCTGGAAAGCC-TTATGGAGAATCCTCTAGAAAGCCTTTTTGGCAGAATC
* * *
46294029 CTCTGGAAAGCCTTATGGTGAATCCTCTGGAAAGCCTTTGTGGCA
1 CTCTGGAAAGCCTTATGGAGAATCCTCTAGAAAGCCTTTTTGGCA
46294074 TGTTATCTGG
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
49 31 0.39
50 48 0.60
51 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (50 bp):
CTCTGGAAAGCCTTATGGAGAATCCTCTAGAAAGCCTTTTTGGCAGAATC
Found at i:46295145 original size:12 final size:12
Alignment explanation
Indices: 46295130--46295158 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
46295120 TGGAAAGGAA
46295130 ATTAATGATTTC
1 ATTAATGATTTC
46295142 ATTAATGATTTC
1 ATTAATGATTTC
46295154 ATTAA
1 ATTAA
46295159 AGAGTAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (12 bp):
ATTAATGATTTC
Found at i:46295174 original size:22 final size:22
Alignment explanation
Indices: 46295148--46295196 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
46295138 TTTCATTAAT
*
46295148 GATTTCATTAAAGAGTAAATGA
1 GATTTCATGAAAGAGTAAATGA
*
46295170 GATTTCGTGAAAGAGTAAATGA
1 GATTTCATGAAAGAGTAAATGA
46295192 GATTT
1 GATTT
46295197 AAATACAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.33
Consensus pattern (22 bp):
GATTTCATGAAAGAGTAAATGA
Found at i:46295298 original size:55 final size:55
Alignment explanation
Indices: 46295214--46295319 Score: 167
Period size: 55 Copynumber: 1.9 Consensus size: 55
46295204 AGAAAAGAAG
* *
46295214 AAAAATCCTTAGTTTCCTCCCTTAGCTAGCTAGTCAGTTGGTTTGGTGGGGACTT
1 AAAAATCCTTAGTTTCCTCCCTCAGCTAGCTAGTCAGTTAGTTTGGTGGGGACTT
* * *
46295269 AAAAATCTTTAGTTTCCTCCCTCCGCTAGCTGGTCAGTTAGTTTGGTGGGG
1 AAAAATCCTTAGTTTCCTCCCTCAGCTAGCTAGTCAGTTAGTTTGGTGGGG
46295320 GCTTCTTCTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.36
Consensus pattern (55 bp):
AAAAATCCTTAGTTTCCTCCCTCAGCTAGCTAGTCAGTTAGTTTGGTGGGGACTT
Found at i:46297708 original size:51 final size:50
Alignment explanation
Indices: 46297632--46297775 Score: 240
Period size: 47 Copynumber: 2.9 Consensus size: 50
46297622 TTATGAGATT
46297632 GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGGAGGTTA
1 GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGGA-GTTA
*
46297683 GAAATCTTTAAATGTGATCATCAACTAAGTGAGGAAAGTAG-A--AGTTA
1 GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGGAGTTA
*
46297730 GAAATCTTTAAATGTGGTCATCAAGTAAGTGAGGAAAGTAGAAGGA
1 GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGGA
46297776 ATTTAGGGGA
Statistics
Matches: 87, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
47 43 0.49
48 2 0.02
50 2 0.02
51 40 0.46
ACGTcount: A:0.41, C:0.08, G:0.26, T:0.26
Consensus pattern (50 bp):
GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGGAGTTA
Found at i:46306676 original size:20 final size:21
Alignment explanation
Indices: 46306641--46306679 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
46306631 AGACTAAATC
*
46306641 GAAAACATTTGGAAATTTTAG
1 GAAAACATTTGAAAATTTTAG
46306662 GAAAA-ATTTGAAAATTTT
1 GAAAACATTTGAAAATTTT
46306680 GGACTCTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.46, C:0.03, G:0.15, T:0.36
Consensus pattern (21 bp):
GAAAACATTTGAAAATTTTAG
Found at i:46306827 original size:12 final size:12
Alignment explanation
Indices: 46306810--46306835 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46306800 AGCCACAGGC
46306810 CCATGTGCTAGG
1 CCATGTGCTAGG
46306822 CCATGTGCTAGG
1 CCATGTGCTAGG
46306834 CC
1 CC
46306836 GTGTAACTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (12 bp):
CCATGTGCTAGG
Found at i:46307838 original size:42 final size:42
Alignment explanation
Indices: 46307758--46307840 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
46307748 GAACACGCCA
* * ***
46307758 ACAAAAGCTCATGAGAGCTGAGCAAAAGCTCGTGAGAGCTAG
1 ACAAAAGCTCATCAGAGCTGAACAAAAGCTCAAAAGAGCTAG
*
46307800 ACAAAAGCTCGTCAGAGCTGAACAAAAGCTCAAAAGAGCTA
1 ACAAAAGCTCATCAGAGCTGAACAAAAGCTCAAAAGAGCTA
46307841 ATTTACCCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.13
Consensus pattern (42 bp):
ACAAAAGCTCATCAGAGCTGAACAAAAGCTCAAAAGAGCTAG
Found at i:46307839 original size:21 final size:21
Alignment explanation
Indices: 46307757--46307831 Score: 98
Period size: 21 Copynumber: 3.6 Consensus size: 21
46307747 CGAACACGCC
46307757 AACAAAAGCTCATGAGAGCTG
1 AACAAAAGCTCATGAGAGCTG
* *
46307778 AGCAAAAGCTCGTGAGAGCT-
1 AACAAAAGCTCATGAGAGCTG
* *
46307798 AGACAAAAGCTCGTCAGAGCTG
1 A-ACAAAAGCTCATGAGAGCTG
46307820 AACAAAAGCTCA
1 AACAAAAGCTCA
46307832 AAAGAGCTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 1 0.02
21 45 0.96
22 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.13
Consensus pattern (21 bp):
AACAAAAGCTCATGAGAGCTG
Found at i:46309746 original size:39 final size:39
Alignment explanation
Indices: 46309646--46309801 Score: 195
Period size: 39 Copynumber: 3.9 Consensus size: 39
46309636 TAGATCAAAC
* *
46309646 ACACCAGATAGAAGCTCATAAGAGCTGATCCAACCGAAAT
1 ACACCA-ATAGAAGCTCATAAGAGCTGATCCACCCGAAGT
** *
46309686 ATGCCAAATAGAAGCTCATAAGAGCTGGTCCACCCGAAGT
1 ACACC-AATAGAAGCTCATAAGAGCTGATCCACCCGAAGT
* *
46309726 ACACCAATAGAAGCTCATAAGAGCTGGTCCACCCGAAGC
1 ACACCAATAGAAGCTCATAAGAGCTGATCCACCCGAAGT
* * * *
46309765 ACCCCAACAAAAGCTCATAAGAGCCGATCCACCCGAA
1 ACACCAATAGAAGCTCATAAGAGCTGATCCACCCGAA
46309802 TCATGCCAAA
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 65 0.64
40 36 0.35
41 1 0.01
ACGTcount: A:0.38, C:0.29, G:0.19, T:0.13
Consensus pattern (39 bp):
ACACCAATAGAAGCTCATAAGAGCTGATCCACCCGAAGT
Found at i:46310285 original size:21 final size:19
Alignment explanation
Indices: 46310261--46310308 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
46310251 CCATTATGTT
46310261 TTCTTATATTTTAACCTTTTA
1 TTCTTATATTTTAA--TTTTA
*
46310282 TTCTTTTATTTTAATTTTA
1 TTCTTATATTTTAATTTTA
46310301 TTACTTAT
1 TT-CTTAT
46310309 TTTAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.29
20 4 0.17
21 13 0.54
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (19 bp):
TTCTTATATTTTAATTTTA
Found at i:46315501 original size:60 final size:60
Alignment explanation
Indices: 46315428--46315547 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
46315418 CTCTTTTACA
* *
46315428 TAAAAATATATTCTCTTATTGTTGAAATTATTTTTGCATCCCGAAACTGATTTCTGTTTG
1 TAAAAATATATTCTCTTATTGTTGAAATTATTTTTGCATCCCAAAACTGATTTCTATTTG
46315488 TAAAAATATATTCTCTTATTGTTGAAATTATTTTTGCATCCCAAAACTGATTTCTATTTG
1 TAAAAATATATTCTCTTATTGTTGAAATTATTTTTGCATCCCAAAACTGATTTCTATTTG
46315548 ACTCGTTTCT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (60 bp):
TAAAAATATATTCTCTTATTGTTGAAATTATTTTTGCATCCCAAAACTGATTTCTATTTG
Found at i:46317134 original size:41 final size:41
Alignment explanation
Indices: 46317088--46317167 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
46317078 TTTTGAACTG
46317088 TGGCATTAGACTTAGAATTTGAGTTTTGTTTTTATATTGCA
1 TGGCATTAGACTTAGAATTTGAGTTTTGTTTTTATATTGCA
*
46317129 TGGCATTAGACTTAGAATTTGGGTTTTGTTTTTATATTG
1 TGGCATTAGACTTAGAATTTGAGTTTTGTTTTTATATTG
46317168 AACCTCAGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.23, C:0.06, G:0.21, T:0.50
Consensus pattern (41 bp):
TGGCATTAGACTTAGAATTTGAGTTTTGTTTTTATATTGCA
Found at i:46322792 original size:17 final size:18
Alignment explanation
Indices: 46322758--46322799 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
46322748 AAAGTGTACC
* *
46322758 AAATATTTTTCTATAATA
1 AAATATTTTTCAAAAATA
46322776 AAATATTTTT-AAAAATA
1 AAATATTTTTCAAAAATA
46322793 AATATAT
1 AA-ATAT
46322800 AACAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATATTTTTCAAAAATA
Found at i:46322806 original size:17 final size:17
Alignment explanation
Indices: 46322786--46322821 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46322776 AAATATTTTT
*
46322786 AAAAATAAATATATAAC
1 AAAAATAAACATATAAC
*
46322803 AAAAATAGACATATAAC
1 AAAAATAAACATATAAC
46322820 AA
1 AA
46322822 TTTTTAGCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.19
Consensus pattern (17 bp):
AAAAATAAACATATAAC
Found at i:46330728 original size:40 final size:40
Alignment explanation
Indices: 46330673--46330754 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
46330663 GCTCATTTGA
*
46330673 GATAGTGCATGTTTATCCTCATGAAGTTATAAAAGTTAAT
1 GATAGTGCATGTTTATCCTCATGAAGCTATAAAAGTTAAT
* * * *
46330713 GATAGTTCATGTTTATCCTCATGGAGCTGTAGAAGTTAAT
1 GATAGTGCATGTTTATCCTCATGAAGCTATAAAAGTTAAT
46330753 GA
1 GA
46330755 CAACAAGACT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (40 bp):
GATAGTGCATGTTTATCCTCATGAAGCTATAAAAGTTAAT
Found at i:46347375 original size:27 final size:26
Alignment explanation
Indices: 46347319--46347376 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
46347309 GTTAACACTT
* *
46347319 AAAAACTAAAGAATTTAAAGTTCATC
1 AAAAACTAAAGAAATTAAAGTGCATC
* * *
46347345 AAAACACTAAATAAATTAATGTGCATG
1 AAAA-ACTAAAGAAATTAAAGTGCATC
46347372 AAAAA
1 AAAAA
46347377 TGTATGAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.57, C:0.10, G:0.09, T:0.24
Consensus pattern (26 bp):
AAAAACTAAAGAAATTAAAGTGCATC
Found at i:46350211 original size:17 final size:16
Alignment explanation
Indices: 46350167--46350213 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
46350157 CGAAAGCATC
*
46350167 TAAATTTAAAAT-AAT
1 TAAATCTAAAATGAAT
46350182 TAAA-CTCAAAATGAAT
1 TAAATCT-AAAATGAAT
46350198 TCAAATCTAAAATGAA
1 T-AAATCTAAAATGAA
46350214 AAAGGCATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 1 0.04
15 9 0.33
16 4 0.15
17 11 0.41
18 2 0.07
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (16 bp):
TAAATCTAAAATGAAT
Found at i:46350823 original size:13 final size:13
Alignment explanation
Indices: 46350787--46350824 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
46350777 TTATATTTTT
46350787 TAAAAACATT-ATA
1 TAAAAA-ATTAATA
46350800 TAAAAAA-TAATA
1 TAAAAAATTAATA
46350812 TAAAAAATTAATA
1 TAAAAAATTAATA
46350825 CGGCCCGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.04
12 11 0.48
13 11 0.48
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (13 bp):
TAAAAAATTAATA
Found at i:46353632 original size:26 final size:26
Alignment explanation
Indices: 46353603--46353770 Score: 117
Period size: 26 Copynumber: 6.5 Consensus size: 26
46353593 ATACATAGTA
* *
46353603 CCTGATAAATATACATC-GGCTCAAAG
1 CCTGCTAAATAAACA-CAGGCTCAAAG
* ** *
46353629 CCTGCTAAATAACCACAAACTCAAGG
1 CCTGCTAAATAAACACAGGCTCAAAG
* * *
46353655 TCTACTAAATAAACACTGGCTCAAAG
1 CCTGCTAAATAAACACAGGCTCAAAG
* *
46353681 CCTGCTAAATAAACATC-GTCTCAATG
1 CCTGCTAAATAAACA-CAGGCTCAAAG
* * * *
46353707 CCTGCTAAATAACCATTA-GCTCGAGG
1 CCTGCTAAATAAACA-CAGGCTCAAAG
* * * *
46353733 CCTGCTAAATAATCACTGACTTAAAG
1 CCTGCTAAATAAACACAGGCTCAAAG
46353759 CCTGCTAAATAA
1 CCTGCTAAATAA
46353771 CCACGGTTCA
Statistics
Matches: 109, Mismatches: 29, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
25 1 0.01
26 107 0.98
27 1 0.01
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (26 bp):
CCTGCTAAATAAACACAGGCTCAAAG
Found at i:46353741 original size:78 final size:78
Alignment explanation
Indices: 46353603--46353770 Score: 219
Period size: 78 Copynumber: 2.2 Consensus size: 78
46353593 ATACATAGTA
* * *
46353603 CCTGATAAATATACATCGGCTCAAAGCCTGCTAAATAACCACAAACTCAAGGTCTACTAAATAAA
1 CCTGCTAAATAAACATCGGCTCAAAGCCTGCTAAATAACCACAAACTCAAGGCCTACTAAATAAA
*
46353668 CACTGGCTCAAAG
66 CACTGACTCAAAG
* * ** * * * *
46353681 CCTGCTAAATAAACATCGTCTCAATGCCTGCTAAATAACCATTAGCTCGAGGCCTGCTAAATAAT
1 CCTGCTAAATAAACATCGGCTCAAAGCCTGCTAAATAACCACAAACTCAAGGCCTACTAAATAAA
*
46353746 CACTGACTTAAAG
66 CACTGACTCAAAG
46353759 CCTGCTAAATAA
1 CCTGCTAAATAA
46353771 CCACGGTTCA
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (78 bp):
CCTGCTAAATAAACATCGGCTCAAAGCCTGCTAAATAACCACAAACTCAAGGCCTACTAAATAAA
CACTGACTCAAAG
Found at i:46353789 original size:26 final size:26
Alignment explanation
Indices: 46353620--46353790 Score: 139
Period size: 26 Copynumber: 6.6 Consensus size: 26
46353610 AATATACATC
* *
46353620 GGCTCAAAGCCTGCTAAATAACCACA
1 GGCTCAAGGCCTGCTAAATAACCACT
** * * *
46353646 AACTCAAGGTCTACTAAATAAACACT
1 GGCTCAAGGCCTGCTAAATAACCACT
* *
46353672 GGCTCAAAGCCTGCTAAATAAACA-T
1 GGCTCAAGGCCTGCTAAATAACCACT
* * *
46353697 CGTCTCAATGCCTGCTAAATAACCATT
1 -GGCTCAAGGCCTGCTAAATAACCACT
* * *
46353724 AGCTCGAGGCCTGCTAAATAATCACT
1 GGCTCAAGGCCTGCTAAATAACCACT
* * *
46353750 GACTTAAAGCCTGCTAAATAACCAC-
1 GGCTCAAGGCCTGCTAAATAACCACT
*
46353775 GGTTCAAGGCTCTGCT
1 GGCTCAAGGC-CTGCT
46353791 TTTCTAGTAT
Statistics
Matches: 111, Mismatches: 31, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
25 7 0.06
26 103 0.93
27 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (26 bp):
GGCTCAAGGCCTGCTAAATAACCACT
Found at i:46356254 original size:18 final size:18
Alignment explanation
Indices: 46356217--46356275 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
46356207 TTAATTATTC
*
46356217 TTTTTAAATTTTAAAAATA
1 TTTTTAAATTTT-TAAATA
*
46356236 TTTTTAAATTTTTATATA
1 TTTTTAAATTTTTAAATA
*
46356254 TTGTTAATATTTTTAAAT-
1 TTTTTAA-ATTTTTAAATA
46356272 TTTT
1 TTTT
46356276 CAAAATAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 13 0.38
19 21 0.62
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTTAAATTTTTAAATA
Found at i:46356460 original size:17 final size:17
Alignment explanation
Indices: 46356435--46356471 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
46356425 AAACATAAAT
46356435 TAAAAAATTAAAAAAAA
1 TAAAAAATTAAAAAAAA
* *
46356452 TAAATAATTAAAATAAA
1 TAAAAAATTAAAAAAAA
46356469 TAA
1 TAA
46356472 TTAAAATAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAAAAATTAAAAAAAA
Found at i:46356464 original size:13 final size:13
Alignment explanation
Indices: 46356448--46356480 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
46356438 AAAATTAAAA
46356448 AAAATAAATAATT
1 AAAATAAATAATT
46356461 AAAATAAATAATT
1 AAAATAAATAATT
46356474 AAAATAA
1 AAAATAA
46356481 CAATTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AAAATAAATAATT
Found at i:46357460 original size:22 final size:22
Alignment explanation
Indices: 46357386--46357462 Score: 88
Period size: 22 Copynumber: 3.5 Consensus size: 22
46357376 AAACTAATCC
46357386 TCTCTCAAATTTCCTCTCAATT
1 TCTCTCAAATTTCCTCTCAATT
46357408 TCATCT-AAATTTCCTCTCAATT
1 TC-TCTCAAATTTCCTCTCAATT
*
46357430 TGCTTTCAAA-TTCCT-TCCAAATT
1 T-CTCTCAAATTTCCTCT-C-AATT
46357453 TCTCTCAAAT
1 TCTCTCAAAT
46357463 CCATATTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
21 1 0.02
22 34 0.72
23 12 0.26
ACGTcount: A:0.26, C:0.29, G:0.01, T:0.44
Consensus pattern (22 bp):
TCTCTCAAATTTCCTCTCAATT
Found at i:46357461 original size:11 final size:11
Alignment explanation
Indices: 46357386--46357462 Score: 63
Period size: 11 Copynumber: 6.9 Consensus size: 11
46357376 AAACTAATCC
46357386 TCTCTCAAATT
1 TCTCTCAAATT
46357397 TCCTCTC-AATT
1 T-CTCTCAAATT
46357408 TCATCT-AAATT
1 TC-TCTCAAATT
46357419 TCCTCTC-AATT
1 T-CTCTCAAATT
*
46357430 TGCTTTCAAATT
1 T-CTCTCAAATT
*
46357442 CCT-TCCAAATT
1 TCTCT-CAAATT
46357453 TCTCTCAAAT
1 TCTCTCAAAT
46357463 CCATATTTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
10 2 0.04
11 41 0.76
12 11 0.20
ACGTcount: A:0.26, C:0.29, G:0.01, T:0.44
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:46357480 original size:51 final size:51
Alignment explanation
Indices: 46357422--46357521 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
46357412 CTAAATTTCC
*
46357422 TCTCAATTTGCTTTCAAATTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * * *
46357473 TCTCAATTTGCTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTT
46357522 TTAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.45
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:46358664 original size:7 final size:7
Alignment explanation
Indices: 46358652--46358677 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
46358642 TAGTCGATTG
46358652 GTATTTA
1 GTATTTA
46358659 GTATTTA
1 GTATTTA
46358666 GTATTTA
1 GTATTTA
46358673 GTATT
1 GTATT
46358678 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:46359354 original size:18 final size:18
Alignment explanation
Indices: 46359327--46359366 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
46359317 CAGGTGCGTT
* *
46359327 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
46359345 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
46359363 TCCT
1 TCCT
46359367 TTTCCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:46359646 original size:21 final size:21
Alignment explanation
Indices: 46359622--46359670 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
46359612 AGATGCCCTA
* *
46359622 CCGGAAGAATCAGAATCC-CCG
1 CCGGAAGAACCACAA-CCTCCG
46359643 CCGGAAGAACCACAACCTCCG
1 CCGGAAGAACCACAACCTCCG
46359664 CCGGAAG
1 CCGGAAG
46359671 CTGGACAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.33, C:0.37, G:0.24, T:0.06
Consensus pattern (21 bp):
CCGGAAGAACCACAACCTCCG
Found at i:46359948 original size:27 final size:27
Alignment explanation
Indices: 46359916--46359969 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
46359906 ACAAACCTTA
*
46359916 AACCCTTAACCTAAAAATCCTAACCCT
1 AACCCTTAACCTAAAAACCCTAACCCT
*
46359943 AACCCTTAACTTAAAAACCCTAACCCT
1 AACCCTTAACCTAAAAACCCTAACCCT
46359970 TAAATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (27 bp):
AACCCTTAACCTAAAAACCCTAACCCT
Found at i:46359989 original size:22 final size:21
Alignment explanation
Indices: 46359937--46360342 Score: 488
Period size: 21 Copynumber: 19.0 Consensus size: 21
46359927 TAAAAATCCT
46359937 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
46359958 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
*
46359979 AACCCTAAACCATTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
46360001 AACCATAAACCCTTAACCTAAA
1 AACCCT-AACCCTTAACTTAAA
*
46360023 AACCCTGACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
46360044 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
46360066 ACCCCTAACCCCTTAACTTAAA
1 AACCCTAA-CCCTTAACTTAAA
*
46360088 ACCCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
46360110 AACCCTAACCCTTAATTTTAA
1 AACCCTAACCCTTAACTTAAA
46360131 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* * *
46360153 AATCGTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
* * * *
46360174 AATCGTAACCCTTAAATAAAA
1 AACCCTAACCCTTAACTTAAA
*
46360195 AACCCTAACACTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
46360216 AACCCTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
*
46360237 AACCTTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
** *
46360259 AACTGTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
* * * *
46360280 AATCGTAACCCTTAAATAAAA
1 AACCCTAACCCTTAACTTAAA
* *
46360301 AACTCTAACACTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
46360322 AACCCTAATCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
46360343 TATAATTTGA
Statistics
Matches: 331, Mismatches: 48, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
21 201 0.61
22 128 0.39
23 2 0.01
ACGTcount: A:0.44, C:0.29, G:0.01, T:0.26
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:46360038 original size:43 final size:42
Alignment explanation
Indices: 46359937--46360342 Score: 488
Period size: 43 Copynumber: 9.5 Consensus size: 42
46359927 TAAAAATCCT
*
46359937 AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * *
46359979 AACCCTAAACCATTAACTTAAAAACCATAAACCCTTAACCTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
*
46360023 AACCCTGACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* *
46360066 ACCCCTAACCCCTTAACTTAAAACCCCTAAACCCTTAACTTAAA
1 AACCCTAA-CCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* *
46360110 AACCCTAACCCTTAATTTTAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* * * * * * *
46360153 AATCGTAACCCTTAACTTTAAAATCGTAACCCTTAAATAAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* *
46360195 AACCCTAACACTTAACTTAAAAACCCTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* ** *
46360237 AACCTTAAACCCTTAACTTAAAAACTGTAACCCTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * * * * *
46360280 AATCGTAACCCTTAAATAAAAAACTCTAACACTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
*
46360322 AACCCTAATCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
46360343 TATAATTTGA
Statistics
Matches: 313, Mismatches: 47, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
42 104 0.33
43 149 0.48
44 60 0.19
ACGTcount: A:0.44, C:0.29, G:0.01, T:0.26
Consensus pattern (42 bp):
AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
Found at i:46362739 original size:2 final size:2
Alignment explanation
Indices: 46362732--46362764 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
46362722 AAAGTACATC
46362732 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46362765 AAGAAGGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46362805 original size:8 final size:8
Alignment explanation
Indices: 46362792--46362826 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
46362782 TATAGATTAT
*
46362792 AAAATATG
1 AAAATATA
46362800 AAAATATA
1 AAAATATA
46362808 AAAATTATA
1 AAAA-TATA
46362817 AAAATATA
1 AAAATATA
46362825 AA
1 AA
46362827 TGTATATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (8 bp):
AAAATATA
Found at i:46362809 original size:15 final size:16
Alignment explanation
Indices: 46362789--46362826 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
46362779 ATATATAGAT
*
46362789 TATAAAA-TATGAAAA
1 TATAAAATTATAAAAA
46362804 TATAAAAATTATAAAAA
1 TAT-AAAATTATAAAAA
46362821 TATAAA
1 TATAAA
46362827 TGTATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 3 0.15
16 7 0.35
17 10 0.50
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
TATAAAATTATAAAAA
Found at i:46363196 original size:28 final size:26
Alignment explanation
Indices: 46363157--46363209 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 26
46363147 TGCATACGCA
46363157 TATATAAATAAATACA-ATAATAATAC
1 TATATAAATAAATA-ATATAATAATAC
46363183 TATATAATACTAAATAATATAATAATA
1 TATATAA-A-TAAATAATATAATAATA
46363210 AACTAACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 7 0.29
27 2 0.08
28 15 0.62
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (26 bp):
TATATAAATAAATAATATAATAATAC
Found at i:46363214 original size:20 final size:21
Alignment explanation
Indices: 46363163--46363215 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
46363153 CGCATATATA
*
46363163 AATAAA-TACAATAATAATACT
1 AATAAACTA-AATAATAATAAT
46363184 ATATAATACTAAATAAT-ATAAT
1 A-ATAA-ACTAAATAATAATAAT
46363206 AATAAACTAA
1 AATAAACTAA
46363216 CAATGATGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 5 0.18
21 5 0.18
22 9 0.32
23 7 0.25
24 2 0.07
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (21 bp):
AATAAACTAAATAATAATAAT
Found at i:46364835 original size:100 final size:100
Alignment explanation
Indices: 46364725--46365221 Score: 746
Period size: 100 Copynumber: 5.0 Consensus size: 100
46364715 CTAATTACAA
* * * * * * * * *
46364725 TGTCGAGGAAACAAGATCCGCCGTCGT-AGCTTCAATCTGTTCAACTGCACCGCTAAGGAGGTAA
1 TGTCGGGGAAACCAGATCTGCCGTTGTGA-CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAA
* * *
46364789 GATCCGTCGTTGTGGCTTCAATCCTTTTAATTGGGC
65 GATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* * *
46364825 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCTAGGGAAGTAAT
1 TGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
*
46364890 ATCCGCCGTTGTGGCTTCAATTTTTTTAATTGCGC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* * * *
46364925 TGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATTTGCTCCATTGCACCTCCCGGGAAGTAAG
1 TGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
46364990 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* * *
46365025 TATCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCGCCACTGCACTGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
46365090 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
46365125 TGTCGGGG-AACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
* *
46365189 ATCTGCCGTTGTGGCTTCAATCTTTTAAATTGC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGC
46365222 AATGTCAAAG
Statistics
Matches: 364, Mismatches: 32, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
99 85 0.23
100 278 0.76
101 1 0.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.29
Consensus pattern (100 bp):
TGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
Found at i:46364842 original size:50 final size:50
Alignment explanation
Indices: 46364788--46365160 Score: 247
Period size: 50 Copynumber: 7.5 Consensus size: 50
46364778 TAAGGAGGTA
* * *
46364788 AGATCCGTCGTTGTGGCTTCAATCCTTTTAATTGGGCTGTCGGGGAAACC
1 AGATCCGCCGTTGTGACTTCAATCCTTTTAATTGCGCTGTCGGGGAAACC
* ** * * * * ***
46364838 AGATCCGCCGTTGTGACTTCAAT-CTGCTCCACTGCACCG-CTAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCCT-TTTAATTGCGCTGTC-GGGGAAACC
* * **
46364888 ATATCCGCCGTTGTGGCTTCAATTTTTTTAATTGCGCTGTCGGGGAAACC
1 AGATCCGCCGTTGTGACTTCAATCCTTTTAATTGCGCTGTCGGGGAAACC
* ** * * * ***
46364938 AGATCTGCCGTTGTGACTTCAAT--TTGCTCCATTGCACCT-CCCGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCCTT--TTAATTGC-GCTGTCGGGGAAACC
* * *
46364988 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTATCGGGGAAACC
1 AGATCCGCCGTTGTGACTTCAATCCTTTTAATTGCGCTGTCGGGGAAACC
* **** * * * * ***
46365038 AGATCTGCCGTTGTGACTTCAAT-CTGCGCCACTGCACTGCCAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCCT-TTTAATTGCGCTGTCGGGGAAACC
* *
46365088 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGG-AACC
1 AGATCCGCCGTTGTGACTTCAATCCTTTTAATTGCGCTGTCGGGGAAACC
*
46365137 AGATCTGCCGTTGTGACTTCAATC
1 AGATCCGCCGTTGTGACTTCAATC
46365161 TGCTCCACTG
Statistics
Matches: 233, Mismatches: 78, Indels: 25
0.69 0.23 0.07
Matches are distributed among these distances:
48 2 0.01
49 29 0.12
50 195 0.84
51 5 0.02
52 2 0.01
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (50 bp):
AGATCCGCCGTTGTGACTTCAATCCTTTTAATTGCGCTGTCGGGGAAACC
Found at i:46365200 original size:50 final size:50
Alignment explanation
Indices: 46364838--46365211 Score: 284
Period size: 50 Copynumber: 7.5 Consensus size: 50
46364828 CGGGGAAACC
* * *
46364838 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCTAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCATTGCACTGCCAGGGAAGTA
* * * ** ** * * * ***
46364888 ATATCCGCCGTTGTGGCTTCAATTTTTTTAATTGCGCTGTCGGGGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCATTGCACTGCCAGGGAAGTA
* * *
46364938 AGATCTGCCGTTGTGACTTCAATTTGCTCCATTGCACCT-CCCGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCATTGCA-CTGCCAGGGAAGTA
* ** ** * ** * ***
46364988 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTATCGGGGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCATTGCACTGCCAGGGAAGTA
* * *
46365038 AGATCTGCCGTTGTGACTTCAATCTGCGCCACTGCACTGCCAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCATTGCACTGCCAGGGAAGTA
* ** ** * * * **
46365088 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAA-CC
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCATTGCACTGCCAGGGAAGTA
* * *
46365137 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCATTGCACTGCCAGGGAAGTA
* *
46365187 AGATCTGCCGTTGTGGCTTCAATCT
1 AGATCCGCCGTTGTGACTTCAATCT
46365212 TTTAAATTGC
Statistics
Matches: 237, Mismatches: 84, Indels: 6
0.72 0.26 0.02
Matches are distributed among these distances:
49 38 0.16
50 197 0.83
51 2 0.01
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.29
Consensus pattern (50 bp):
AGATCCGCCGTTGTGACTTCAATCTGCTCCATTGCACTGCCAGGGAAGTA
Found at i:46366669 original size:6 final size:7
Alignment explanation
Indices: 46366642--46366690 Score: 66
Period size: 7 Copynumber: 7.0 Consensus size: 7
46366632 TTAGCCTCTC
46366642 CATTTTT
1 CATTTTT
46366649 -ACTTTTT
1 CA-TTTTT
46366656 CCATTTTT
1 -CATTTTT
46366664 CATTTTT
1 CATTTTT
46366671 CATTTTT
1 CATTTTT
46366678 CA-TTTT
1 CATTTTT
46366684 CATTTTT
1 CATTTTT
46366691 TCACATCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.18
7 25 0.66
8 5 0.13
9 1 0.03
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Done.