Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 159 of 444
Found at i:43593201 original size:94 final size:92
Alignment explanation
Indices: 43593055--43593228 Score: 242
Period size: 94 Copynumber: 1.9 Consensus size: 92
43593045 ACATTACGTA
* ** *
43593055 GCCGATGCATGTCCCAGACATGTATTACACTAGCTTACGTCTTGAGGCTGATGCCTGTCCCAGAC
1 GCCGATGCATGTCCCAGACATGTATTACACTAGCTTACATAATGAGGCTGATGCATGTCCCAGAC
43593120 ATGTCTTACACTAGCACTCGTCTCAAT
66 ATGTCTTACACTAGCACTCGTCTCAAT
* * * *
43593147 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCTGATGCATGTCTCA
1 GCCGATG-CATGTCCCAGACAT-GTATTACACTAGCT-TACATAATGAGGCTGATGCATGTCCCA
43593211 GACATGTCTTACACTAGC
63 GACATGTCTTACACTAGC
43593229 TCACACAAGT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
92 7 0.10
93 14 0.20
94 49 0.69
95 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTATTACACTAGCTTACATAATGAGGCTGATGCATGTCCCAGAC
ATGTCTTACACTAGCACTCGTCTCAAT
Found at i:43597328 original size:29 final size:29
Alignment explanation
Indices: 43597304--43597397 Score: 152
Period size: 29 Copynumber: 3.2 Consensus size: 29
43597294 TCGCACACCC
* *
43597304 AGTGCCGTATTTTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
43597333 AGTGCCATATATTTCTAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
43597362 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
43597391 AGTGCCA
1 AGTGCCA
43597398 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.31
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:43597329 original size:58 final size:58
Alignment explanation
Indices: 43597266--43597397 Score: 158
Period size: 58 Copynumber: 2.3 Consensus size: 58
43597256 GATTTAAGCC
* * * *
43597266 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCGAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * * **
43597324 TGCACACTTAGTGCCATATATTTCTAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCGAGCATGCACACCCAGTGCCATATATTTCCAGCA
43597382 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
43597398 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
58 61 0.98
59 1 0.02
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.27
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCGAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:43610004 original size:40 final size:39
Alignment explanation
Indices: 43609836--43610006 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
43609826 AGAAATTGAA
* *
43609836 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
43609876 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
43609916 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
43609956 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
43609996 TGATATCCGGG
1 TGATATCCGGG
43610007 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:43614993 original size:34 final size:34
Alignment explanation
Indices: 43614950--43615020 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
43614940 GAGTACGAAG
43614950 ATGTACAATGATTTGAAACGTCGGTTTTGGTGGC
1 ATGTACAATGATTTGAAACGTCGGTTTTGGTGGC
43614984 ATGTACAATGATTTGAAACGTCGGTTTTGGTGGC
1 ATGTACAATGATTTGAAACGTCGGTTTTGGTGGC
43615018 ATG
1 ATG
43615021 GTATGAAGCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.24, C:0.11, G:0.30, T:0.35
Consensus pattern (34 bp):
ATGTACAATGATTTGAAACGTCGGTTTTGGTGGC
Found at i:43618605 original size:30 final size:30
Alignment explanation
Indices: 43618571--43618668 Score: 74
Period size: 30 Copynumber: 3.2 Consensus size: 30
43618561 AAGAGAGCTA
43618571 CGTGAAAGATAAATGTAGCTAGGTCGCATG
1 CGTGAAAGATAAATGTAGCTAGGTCGCATG
** * * * * *
43618601 CGTGATCCGGACACCATGTAGACAAGAG-AGC-TA
1 CGTGA--AAGATA-AATGTAG-CTAG-GTCGCATG
43618634 CGTGAAAGATAAATGTAGCTAGGTCGCATG
1 CGTGAAAGATAAATGTAGCTAGGTCGCATG
43618664 CGTGA
1 CGTGA
43618669 TTCCAAGTGA
Statistics
Matches: 47, Mismatches: 14, Indels: 14
0.63 0.19 0.19
Matches are distributed among these distances:
28 1 0.02
29 5 0.11
30 17 0.36
31 3 0.06
32 3 0.06
33 12 0.26
34 5 0.11
35 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (30 bp):
CGTGAAAGATAAATGTAGCTAGGTCGCATG
Found at i:43618636 original size:63 final size:65
Alignment explanation
Indices: 43618551--43618706 Score: 244
Period size: 63 Copynumber: 2.3 Consensus size: 65
43618541 GAGATGTATC
43618551 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGA-TCC-GGACA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAGGACA
43618614 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCC------
43618679 AGGACA
60 AGGACA
43618685 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
43618707 AGACAAATCG
Statistics
Matches: 85, Mismatches: 0, Indels: 8
0.91 0.00 0.09
Matches are distributed among these distances:
63 55 0.65
64 3 0.04
71 27 0.32
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.19
Consensus pattern (65 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAGGACA
Found at i:43629510 original size:41 final size:39
Alignment explanation
Indices: 43629476--43629629 Score: 125
Period size: 38 Copynumber: 3.9 Consensus size: 39
43629466 GAATCCAGTC
*
43629476 ACCAGCACAAAACCTGCGGGACTTTAAGCTCGAATATAAT
1 ACCAGCACAAAACCTGCGGGA-TTTAAGCTCGAATACAAT
* * * *
43629516 ACCAGCACTAAGCCTGCGGGATTTAA-C-CCAGATATAAT
1 ACCAGCACAAAACCTGCGGGATTTAAGCTCGA-ATACAAT
* * * * *
43629554 ACCAGCACGAAGCCTGCGGGATTTAACCT-GGATATAAT
1 ACCAGCACAAAACCTGCGGGATTTAAGCTCGAATACAAT
* * * * *
43629592 ACCAGCACATAGCCTGCGGGTCTTTAAGCCCGGATACA
1 ACCAGCACAAAACCTGCGGG-ATTTAAGCTCGAATACA
43629630 CATCAAATAT
Statistics
Matches: 97, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
37 2 0.02
38 58 0.60
39 12 0.12
40 25 0.26
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (39 bp):
ACCAGCACAAAACCTGCGGGATTTAAGCTCGAATACAAT
Found at i:43629560 original size:38 final size:36
Alignment explanation
Indices: 43629476--43629611 Score: 164
Period size: 38 Copynumber: 3.5 Consensus size: 36
43629466 GAATCCAGTC
* *
43629476 ACCAGCACAAAACCTGCGGGACTTTAAGCTCGAATATAAT
1 ACCAGCAC-AAGCCTGCGGGA-TTTAA-CCCG-ATATAAT
43629516 ACCAGCACTAAGCCTGCGGGATTTAACCCAGATATAAT
1 ACCAGCAC-AAGCCTGCGGGATTTAACCC-GATATAAT
*
43629554 ACCAGCACGAAGCCTGCGGGATTTAACCTGGATATAAT
1 ACCAGCAC-AAGCCTGCGGGATTTAACC-CGATATAAT
43629592 ACCAGCACATAGCCTGCGGG
1 ACCAGCACA-AGCCTGCGGG
43629612 TCTTTAAGCC
Statistics
Matches: 88, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
37 1 0.01
38 62 0.70
39 6 0.07
40 19 0.22
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.19
Consensus pattern (36 bp):
ACCAGCACAAGCCTGCGGGATTTAACCCGATATAAT
Found at i:43641081 original size:28 final size:27
Alignment explanation
Indices: 43641018--43641087 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
43641008 ATAGTGAGTC
43641018 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
43641045 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
43641073 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43641088 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:43643572 original size:14 final size:15
Alignment explanation
Indices: 43643553--43643582 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
43643543 CCCGACTAGG
43643553 GTCACACTAGG-GCT
1 GTCACACTAGGAGCT
43643567 GTCACACTAGGAGCT
1 GTCACACTAGGAGCT
43643582 G
1 G
43643583 ATTGGGGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.23, C:0.27, G:0.30, T:0.20
Consensus pattern (15 bp):
GTCACACTAGGAGCT
Found at i:43644886 original size:28 final size:28
Alignment explanation
Indices: 43644826--43644891 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
43644816 GATTTACTAG
*
43644826 AATACCCCTATGTATGCAAAATTACCAT
1 AATACCCCTATGTATGCAAAATGACCAT
*
43644854 TATACCCCTATGTATGCAAAATGACC-T
1 AATACCCCTATGTATGCAAAATGACCAT
43644881 CAATACCCCTA
1 -AATACCCCTA
43644892 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.36, C:0.29, G:0.08, T:0.27
Consensus pattern (28 bp):
AATACCCCTATGTATGCAAAATGACCAT
Found at i:43645056 original size:27 final size:27
Alignment explanation
Indices: 43644997--43645086 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 27
43644987 AGGAAGCGTC
43644997 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
43645025 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
* *
43645052 TTGGTGGCACTGCTACAACATATCTGTAT
1 CTGGTGGCACTGCCACAA-ATATCTGT-T
43645081 CTGGTG
1 CTGGTG
43645087 ACTCTATCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 22 0.42
28 24 0.46
29 6 0.12
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:43645579 original size:18 final size:18
Alignment explanation
Indices: 43645540--43645580 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
43645530 TAATAAGGCC
* *
43645540 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
43645558 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
43645576 TTTTA
1 TTTTA
43645581 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:43646199 original size:11 final size:10
Alignment explanation
Indices: 43646171--43646204 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
43646161 AGCCTGTAAG
43646171 TATTCTGAAT
1 TATTCTGAAT
*
43646181 TTTTCTGAAT
1 TATTCTGAAT
43646191 ATATTCTGAAT
1 -TATTCTGAAT
43646202 TAT
1 TAT
43646205 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:43649378 original size:40 final size:39
Alignment explanation
Indices: 43649334--43649564 Score: 313
Period size: 40 Copynumber: 5.8 Consensus size: 39
43649324 GGATATAGCT
* *
43649334 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTA--GTA
*
43649374 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-TTAGTA
43649414 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-TTAGTA
43649454 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-TTAGTA
* * *
43649494 ACTCGTACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATTAGTA
* * *
43649533 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
43649565 TTATCATCCA
Statistics
Matches: 176, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 31 0.18
40 142 0.81
42 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGTA
Found at i:43656073 original size:28 final size:28
Alignment explanation
Indices: 43656041--43656105 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
43656031 ATTTACTAGA
*
43656041 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
43656069 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
43656097 ATACCCCTA
1 ATACCCCTA
43656106 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:43656255 original size:28 final size:27
Alignment explanation
Indices: 43656221--43656297 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 27
43656211 CTGGTGGCTA
43656221 TGCCACAAATTATCTGTTCTGATGGC-C
1 TGCCACAAA-TATCTGTTCTGATGGCAC
* * *
43656248 TTGCCACATATATCTATTCTGGTGGCAC
1 -TGCCACAAATATCTGTTCTGATGGCAC
43656276 TGCCACAACATATCTGTATCTG
1 TGCCACAA-ATATCTGT-TCTG
43656298 GTGACTCTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 21 0.51
28 16 0.39
29 4 0.10
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (27 bp):
TGCCACAAATATCTGTTCTGATGGCAC
Found at i:43656273 original size:27 final size:27
Alignment explanation
Indices: 43656211--43656300 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 27
43656201 AGGAAGCGTC
43656211 CTGGTGG-CTATGCCACAAATTATCTGTT
1 CTGGTGGCCT-TGCCACAAA-TATCTGTT
* * *
43656239 CTGATGGCCTTGCCACATATATCTATT
1 CTGGTGGCCTTGCCACAAATATCTGTT
43656266 CTGGTGGCAC-TGCCACAACATATCTGTAT
1 CTGGTGGC-CTTGCCACAA-ATATCTGT-T
43656295 CTGGTG
1 CTGGTG
43656301 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 21 0.40
28 22 0.42
29 9 0.17
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.33
Consensus pattern (27 bp):
CTGGTGGCCTTGCCACAAATATCTGTT
Found at i:43656311 original size:29 final size:28
Alignment explanation
Indices: 43656249--43656311 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
43656239 CTGATGGCCT
* *
43656249 TGCCAC-ATATATCTATTCTGGTGGCAC
1 TGCCACAACATATCTATTCTGGTGACAC
* *
43656276 TGCCACAACATATCTGTATCTGGTGACTC
1 TGCCACAACATATCTAT-TCTGGTGACAC
*
43656305 TGTCACA
1 TGCCACA
43656312 TTTTCTGTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 6 0.21
28 8 0.28
29 15 0.52
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (28 bp):
TGCCACAACATATCTATTCTGGTGACAC
Found at i:43656791 original size:18 final size:18
Alignment explanation
Indices: 43656752--43656792 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
43656742 TAATAAGGCC
* *
43656752 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
43656770 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
43656788 TTTTA
1 TTTTA
43656793 TTTTACGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:43657412 original size:11 final size:10
Alignment explanation
Indices: 43657384--43657417 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
43657374 AGCCTGTAAG
43657384 TATTCTGAAT
1 TATTCTGAAT
*
43657394 TTTTCTGAAT
1 TATTCTGAAT
43657404 ATATTCTGAAT
1 -TATTCTGAAT
43657415 TAT
1 TAT
43657418 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:43662421 original size:40 final size:40
Alignment explanation
Indices: 43662336--43662486 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
43662326 AATTGAATGA
* * *
43662336 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
43662376 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
43662417 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
43662456 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
43662487 ACATTATATC
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:43670393 original size:40 final size:40
Alignment explanation
Indices: 43670327--43670477 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
43670317 AAATTGAATG
* * *
43670327 ATATCCGGGCTAA-TCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
43670366 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
43670406 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
43670446 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
43670478 ACATTTATAT
Statistics
Matches: 89, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
39 15 0.17
40 72 0.81
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:43676301 original size:93 final size:93
Alignment explanation
Indices: 43676142--43676313 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
43676132 GCCCATAAGT
* * *
43676142 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43676207 CGAGTTCAGATGCTTAGTTACATCTGAC
66 CGAGTTCAGATGCTTAGTTACATCTGAC
* *
43676235 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
43676300 CGAGTTCGGATGCT
66 CGAGTTCAGATGCT
43676314 CAACCATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCTTAGTTACATCTGAC
Found at i:43676309 original size:46 final size:46
Alignment explanation
Indices: 43676134--43676309 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
43676124 TGTAACCCGC
* * * *
43676134 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
43676180 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--C--ATTTGCAT
* *
43676230 -C-TGA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
43676273 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43676310 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 3 0.03
46 62 0.57
47 28 0.26
48 4 0.04
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:43678701 original size:15 final size:15
Alignment explanation
Indices: 43678672--43678721 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
43678662 CAAAGATAAC
*
43678672 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
43678686 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
43678701 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
43678716 AAGAAA
1 AAGAAA
43678722 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:43678730 original size:15 final size:15
Alignment explanation
Indices: 43678683--43678730 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
43678673 AGAAAACCGA
43678683 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
43678697 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
43678713 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
43678728 ATA
1 ATA
43678731 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:43681736 original size:46 final size:46
Alignment explanation
Indices: 43681644--43681772 Score: 179
Period size: 46 Copynumber: 2.8 Consensus size: 46
43681634 TGTAACCCGC
* * * *
43681644 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
* * *
43681690 CCATGAGTGAACTCGGACTCAACTCAATGAGTTC-GAACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAG-ACATTCGCAT
43681736 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGA
43681773 TGCTCAACCA
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
45 1 0.01
46 70 0.97
47 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
Found at i:43681791 original size:46 final size:45
Alignment explanation
Indices: 43681652--43681791 Score: 117
Period size: 46 Copynumber: 3.0 Consensus size: 45
43681642 GCCCATAAGC
* ** *
43681652 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTC-GCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGATGTTCACCATCC-T-AGT
* * *
43681698 GAACTCGGACTCAACTCAATGAGTTCGAACAT-TTGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTC--AGATGTT-CA-CCATCCTAGT
*
43681744 GAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGATGTTC-ACCATCCTAGT
43681790 GA
1 GA
43681792 CATGTCACTT
Statistics
Matches: 74, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 57 0.77
47 2 0.03
48 2 0.03
50 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCAGATGTTCACCATCCTAGT
Found at i:43686051 original size:43 final size:43
Alignment explanation
Indices: 43685985--43686070 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
43685975 AAATCGTACA
*
43685985 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAACCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTAC-TCGTAAACACATATCG
43686028 ATGCC-ACTGTCCCAGACAG-GGTCTTACTCGTAAACACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACTCGTAAACACATATCG
43686071 GAATCACATA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
42 3 0.08
43 35 0.90
44 1 0.03
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACTCGTAAACACATATCG
Found at i:43692249 original size:38 final size:38
Alignment explanation
Indices: 43692171--43692340 Score: 232
Period size: 38 Copynumber: 4.4 Consensus size: 38
43692161 GAATCCAGTC
* * * *
43692171 ACCAGCACAAAACCTGCGGGAATTTAAGCTCGAATATAAT
1 ACCAGCACAAAGCCTGTGGG-ATTTAA-CCCGGATATAAT
*
43692211 ACCAGCACTAAGCCTGTGGGATTTAACCCGGATATAAT
1 ACCAGCACAAAGCCTGTGGGATTTAACCCGGATATAAT
* * *
43692249 ACCAGCACGAAGCCTGTGGGATTTAACTCGGATATATT
1 ACCAGCACAAAGCCTGTGGGATTTAACCCGGATATAAT
*
43692287 ACCAGCACAAAGCCTGTGGGATTTAACCCAGATATAAT
1 ACCAGCACAAAGCCTGTGGGATTTAACCCGGATATAAT
*
43692325 ACCAGCACATAGCCTG
1 ACCAGCACAAAGCCTG
43692341 CGGGTCTTTA
Statistics
Matches: 117, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
38 94 0.80
39 6 0.05
40 17 0.15
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (38 bp):
ACCAGCACAAAGCCTGTGGGATTTAACCCGGATATAAT
Found at i:43692290 original size:76 final size:77
Alignment explanation
Indices: 43692171--43692360 Score: 258
Period size: 76 Copynumber: 2.5 Consensus size: 77
43692161 GAATCCAGTC
* *
43692171 ACCAGCACAAAACCTGCGGGAATTTAAGCTCGAATATAATACCAGCACTAAGCCTGTGGGATTTA
1 ACCAGCAC-AAGCCTGCGGGAATTTAAGCTCGAATATAATACCAGCACAAAGCCTGTGGGATTTA
*
43692236 ACCCGGATATAAT
65 ACCCAGATATAAT
* * *
43692249 ACCAGCACGAAGCCTGTGGG-ATTTAA-CTCGGATATATTACCAGCACAAAGCCTGTGGGATTTA
1 ACCAGCAC-AAGCCTGCGGGAATTTAAGCTCGAATATAATACCAGCACAAAGCCTGTGGGATTTA
43692312 ACCCAGATATAAT
65 ACCCAGATATAAT
** *
43692325 ACCAGCACATAGCCTGCGGGTCTTTAAGCCCGAATA
1 ACCAGCACA-AGCCTGCGGGAATTTAAGCTCGAATA
43692361 CACATCAAAT
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
75 1 0.01
76 63 0.64
77 11 0.11
78 23 0.23
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (77 bp):
ACCAGCACAAGCCTGCGGGAATTTAAGCTCGAATATAATACCAGCACAAAGCCTGTGGGATTTAA
CCCAGATATAAT
Found at i:43712248 original size:32 final size:32
Alignment explanation
Indices: 43712184--43712246 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
43712174 ATTAGAAAAA
*
43712184 CATTTTATATTTATAATTAATGTTTTGAAAATT
1 CATTTTATATTTATAATTAATATTTT-AAAATT
43712217 CATTTT-TATTTATAATTTAATATTTATAAA
1 CATTTTATATTTATAA-TTAATATTT-TAAA
43712247 TTTTTAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 9 0.33
33 17 0.63
34 1 0.04
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (32 bp):
CATTTTATATTTATAATTAATATTTTAAAATT
Found at i:43712252 original size:17 final size:19
Alignment explanation
Indices: 43712232--43712278 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
43712222 TTATTTATAA
43712232 TTTAATAT-TTATA-AATT
1 TTTAATATATTATATAATT
43712249 TTTAATATAATTATATAATT
1 TTTAATAT-ATTATATAATT
*
43712269 TTTAAAATAT
1 TTTAATATAT
43712279 ATTTTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 8 0.31
19 7 0.27
20 11 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAATATATTATATAATT
Found at i:43715159 original size:28 final size:28
Alignment explanation
Indices: 43715113--43715190 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 28
43715103 CACAAAACAC
* *
43715113 AATATTTTATTCAACATAATATTGACA-T
1 AATATTTTATTTAAAATAATATTGA-ATT
43715141 AATATTTTATTTAAAATAATATTGAATT
1 AATATTTTATTTAAAATAATATTGAATT
* * *
43715169 AA-ATTATGTTTAATATAATATT
1 AATATTTTATTTAAAATAATATT
43715191 TAACCAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
27 18 0.41
28 26 0.59
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (28 bp):
AATATTTTATTTAAAATAATATTGAATT
Found at i:43716877 original size:40 final size:40
Alignment explanation
Indices: 43716831--43717013 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
43716821 CTCGCACAAG
* *
43716831 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
43716871 GCCTTCGGGACTTAGTCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
43716911 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
43716951 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
43716991 GCCTTCGGGACTTAG-CCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
43717014 CATTCGAATA
Statistics
Matches: 125, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 9 0.07
40 115 0.92
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:43724977 original size:40 final size:40
Alignment explanation
Indices: 43724894--43725112 Score: 259
Period size: 40 Copynumber: 5.5 Consensus size: 40
43724884 ACCCAAGTAT
** * *
43724894 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
43724932 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
43724972 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
43725012 CTTCGGGTCTTAGCCC-GATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
43725051 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
43725091 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
43725113 CATTCGAATA
Statistics
Matches: 154, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
37 1 0.01
38 12 0.08
39 48 0.31
40 92 0.60
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:43725032 original size:79 final size:79
Alignment explanation
Indices: 43724894--43725112 Score: 266
Period size: 79 Copynumber: 2.8 Consensus size: 79
43724884 ACCCAAGTAT
* ** * * *
43724894 CTTCGGGATTTAGCCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 CTTCGGGACTTAGCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-C
*
43724958 -ACTAGCATAAATGC
65 AACTAGCACAAATGC
* *
43724972 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTCTTAGCCC-GATATAGC
1 CTTCGGGACTTAG-CCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGC
*
43725036 AACTCGCACAAATGC
65 AACTAGCACAAATGC
* *
43725051 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
43725113 CATTCGAATA
Statistics
Matches: 122, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
78 16 0.13
79 81 0.66
80 25 0.20
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTAGCACAAATGC
Found at i:43725104 original size:119 final size:118
Alignment explanation
Indices: 43724894--43725112 Score: 341
Period size: 119 Copynumber: 1.8 Consensus size: 118
43724884 ACCCAAGTAT
* * * *
43724894 CTTCGGGATTTAGCCGGATATAACCACTCGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGTCA
1 CTTCGGGATTTAGCCCGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTCA
*
43724959 CTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
66 CTAGCATAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
* * *
43725012 CTTCGGG-TCTTAGCCCGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGT
1 CTTCGGGAT-TTAGCCCGATATAACAACTCGCAC-AAGGCCTTCGGATCTTAGCCCGGATATAGT
43725076 CACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
64 CACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
43725113 CATTCGAATA
Statistics
Matches: 91, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
117 1 0.01
118 28 0.31
119 62 0.68
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (118 bp):
CTTCGGGATTTAGCCCGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTCA
CTAGCATAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
Found at i:43729714 original size:95 final size:95
Alignment explanation
Indices: 43729546--43729748 Score: 271
Period size: 95 Copynumber: 2.1 Consensus size: 95
43729536 GGAGGAAGTG
* *
43729546 TACGGCCTGTAGTAATCCTGTATAAGGCTTTCAGCCTTTCTGCGATACTTATGGCTTATAGCCAT
1 TACGGCCTGTAGCAATCCTGTATAAGGCTTTCAGCCTTTCTGCAATACTTATGGCTTATAGCCAT
* *
43729611 GCTGTTAACTAGCAGCGTTGCTGCGATATT
66 GCTATTAACTAGCAGCGTTGCTACGATATT
** * * * *
43729641 TACGGCCTGTAGCCGTCCTGTATAAGGCTTTTAGCCTTTTTGTAATACTTATGGCTTATAGCCGT
1 TACGGCCTGTAGCAATCCTGTATAAGGCTTTCAGCCTTTCTGCAATACTTATGGCTTATAGCCAT
* * *
43729706 TCTATTAACTGGTAGCGTTGCTACGATATT
66 GCTATTAACTAGCAGCGTTGCTACGATATT
* *
43729736 TATGGCCTTTAGC
1 TACGGCCTGTAGC
43729749 TTTCCTATCT
Statistics
Matches: 93, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (95 bp):
TACGGCCTGTAGCAATCCTGTATAAGGCTTTCAGCCTTTCTGCAATACTTATGGCTTATAGCCAT
GCTATTAACTAGCAGCGTTGCTACGATATT
Found at i:43729950 original size:27 final size:27
Alignment explanation
Indices: 43729919--43729971 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
43729909 GCATCTGATA
*
43729919 CTGATTCTG-TACTGGGCTTAGGCCCAC
1 CTGATTCTGTTAATGGGC-TAGGCCCAC
43729946 CTGATTCTGTTAATGGGCTAGGCCCA
1 CTGATTCTGTTAATGGGCTAGGCCCA
43729972 ACTATTACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.30
Consensus pattern (27 bp):
CTGATTCTGTTAATGGGCTAGGCCCAC
Found at i:43732266 original size:10 final size:9
Alignment explanation
Indices: 43732251--43732286 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
43732241 GGGACTGTTC
43732251 TGGGCCTCGA
1 TGGGCC-CGA
43732261 TGGGCCCGA
1 TGGGCCCGA
*
43732270 TAGGCCCGA
1 TGGGCCCGA
43732279 TGGGCCCG
1 TGGGCCCG
43732287 TAGGCCCGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 18 0.75
10 6 0.25
ACGTcount: A:0.11, C:0.33, G:0.42, T:0.14
Consensus pattern (9 bp):
TGGGCCCGA
Found at i:43732292 original size:17 final size:18
Alignment explanation
Indices: 43732253--43732294 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
43732243 GACTGTTCTG
43732253 GGCCTCGATGGGCCCGATA
1 GGCC-CGATGGGCCCGATA
43732272 GGCCCGATGGGCCCG-TA
1 GGCCCGATGGGCCCGATA
43732289 GGCCCG
1 GGCCCG
43732295 CTTGTGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.35
18 11 0.48
19 4 0.17
ACGTcount: A:0.12, C:0.36, G:0.40, T:0.12
Consensus pattern (18 bp):
GGCCCGATGGGCCCGATA
Found at i:43732294 original size:8 final size:9
Alignment explanation
Indices: 43732253--43732294 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
43732243 GACTGTTCTG
*
43732253 GGCCTCGATG
1 GGCC-CGATA
43732263 GGCCCGATA
1 GGCCCGATA
*
43732272 GGCCCGATG
1 GGCCCGATA
43732281 GGCCCG-TA
1 GGCCCGATA
43732289 GGCCCG
1 GGCCCG
43732295 CTTGTGTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 7 0.24
9 18 0.62
10 4 0.14
ACGTcount: A:0.12, C:0.36, G:0.40, T:0.12
Consensus pattern (9 bp):
GGCCCGATA
Found at i:43739558 original size:18 final size:18
Alignment explanation
Indices: 43739535--43739571 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
43739525 ACAGGGTACG
*
43739535 AGGCATTGCCGGACTTAA
1 AGGCATTACCGGACTTAA
43739553 AGGCATTACCGGACTTAA
1 AGGCATTACCGGACTTAA
43739571 A
1 A
43739572 CACAAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (18 bp):
AGGCATTACCGGACTTAA
Found at i:43741569 original size:43 final size:43
Alignment explanation
Indices: 43741507--43741597 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
43741497 TACTGTACCA
* * * *
43741507 ATGCC-ATATCCCAGATATGGTCTTACATGTAATCTCGTATTG
1 ATGCCAATAGCCCAGATATGGTCTTACACGAAATCTCATATTG
*
43741549 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATTG
1 ATGCCAATAGCCCAGATATGGTCTTACACGAAATCTCATATTG
43741592 ATGCCA
1 ATGCCA
43741598 TGTGACACCC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (43 bp):
ATGCCAATAGCCCAGATATGGTCTTACACGAAATCTCATATTG
Found at i:43742854 original size:47 final size:47
Alignment explanation
Indices: 43742767--43743131 Score: 509
Period size: 47 Copynumber: 7.8 Consensus size: 47
43742757 CCCTTCGGAA
* * * * *
43742767 CTTATCACATTTATACACTTTCACATCCATCACGTCGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
43742814 CCTACCGCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
43742861 CTTATCACTTATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
43742908 CTTATCACATATATACGCTTCCACATTCATCACATGGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
43742955 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
43743002 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
43743049 CTTATCACACATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
43743096 CTTATCACATATATGCA-TGTTCACATTCATCACATT
1 CTTATCACATATATACACT-TTCACATTCATCACATT
43743132 AAATCCTAAA
Statistics
Matches: 286, Mismatches: 31, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
46 1 0.00
47 285 1.00
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:43745658 original size:22 final size:20
Alignment explanation
Indices: 43745618--43745658 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
43745608 AGTCCTATTA
*
43745618 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
43745638 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
43745659 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:43747797 original size:22 final size:22
Alignment explanation
Indices: 43747772--43747894 Score: 70
Period size: 22 Copynumber: 5.3 Consensus size: 22
43747762 ATATGTATAT
43747772 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
43747794 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
43747818 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
* * ***
43747841 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
43747865 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
43747888 ATGTGAT
1 ATGTGAT
43747895 GAATGTAAAA
Statistics
Matches: 71, Mismatches: 20, Indels: 20
0.64 0.18 0.18
Matches are distributed among these distances:
22 23 0.32
23 16 0.23
24 16 0.23
25 16 0.23
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:43747819 original size:47 final size:47
Alignment explanation
Indices: 43747765--43748016 Score: 450
Period size: 47 Copynumber: 5.4 Consensus size: 47
43747755 GTACAAGATA
43747765 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
43747812 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
*
43747859 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTAAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
* * *
43747906 TGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
*
43747953 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
*
43748000 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
43748017 TCCCGAAGGG
Statistics
Matches: 195, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 195 1.00
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.28
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
Found at i:43750980 original size:13 final size:13
Alignment explanation
Indices: 43750962--43751007 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
43750952 CCAAACGTCA
43750962 AAATTTTTGAACG
1 AAATTTTTGAACG
*
43750975 AAATTTTCATG--CA
1 AAATTTT--TGAACG
43750988 AAATTTTTGAACG
1 AAATTTTTGAACG
43751001 AAATTTT
1 AAATTTT
43751008 CATGAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
11 2 0.07
13 23 0.85
15 2 0.07
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (13 bp):
AAATTTTTGAACG
Found at i:43750989 original size:26 final size:26
Alignment explanation
Indices: 43750960--43751011 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
43750950 GCCCAAACGT
43750960 CAAAATTTTTGAACGAAATTTTCATG
1 CAAAATTTTTGAACGAAATTTTCATG
43750986 CAAAATTTTTGAACGAAATTTTCATG
1 CAAAATTTTTGAACGAAATTTTCATG
43751012 AAATCATTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (26 bp):
CAAAATTTTTGAACGAAATTTTCATG
Found at i:43757362 original size:71 final size:67
Alignment explanation
Indices: 43757243--43757460 Score: 245
Period size: 67 Copynumber: 3.3 Consensus size: 67
43757233 CACTTAGTAC
* * *
43757243 CACTCATGCGACCTAGC--CGATTTA--TCT--CGTAGCTCTCTTGTCTACATGGTGTCCTTCAC
1 CACTCATGCGACCTAGCTAC-ATTTATCTCTCACGTAGCTCTCTTGTCTACATGG-ATACATC-C
*
43757302 TTGGAAT
63 --CGAAT
*
43757309 CACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGATACATCCCGT
1 CACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGATACATCCCGA
43757374 AT
66 AT
* * *
43757376 CACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACA--GATACATCCCGT
1 CACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGATACATCCCGA
43757439 AT
66 AT
* *
43757441 CACACATGTGACCTAGCTAC
1 CACTCATGCGACCTAGCTAC
43757461 TATATAGTAT
Statistics
Matches: 139, Mismatches: 7, Indels: 13
0.87 0.04 0.08
Matches are distributed among these distances:
65 34 0.24
66 17 0.12
67 57 0.41
68 1 0.01
69 4 0.03
70 4 0.03
71 22 0.16
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.32
Consensus pattern (67 bp):
CACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGATACATCCCGA
AT
Found at i:43757392 original size:67 final size:65
Alignment explanation
Indices: 43757307--43757460 Score: 272
Period size: 67 Copynumber: 2.3 Consensus size: 65
43757297 TTCACTTGGA
* *
43757307 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGATACATCCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACA--GATACATCCC
43757372 GT
64 GT
43757374 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACAGATACATCCCGT
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACAGATACATCCCGT
43757439 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
43757461 TATATAGTAT
Statistics
Matches: 85, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
65 34 0.40
67 51 0.60
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (65 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACAGATACATCCCGT
Found at i:43765078 original size:39 final size:40
Alignment explanation
Indices: 43765031--43765236 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 40
43765021 TCTTCGGAAT
* * *
43765031 TTAG-CCGGATATAACCACAAGCACAATTGCCTTC-GGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
43765069 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
43765109 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTC-GGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* * *
43765148 TTAGCCCGAATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
43765188 TTAGCCCGGATATAATCACTAGCATAAATGCCTTTGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
43765228 TTAGCCCGG
1 TTAGCCCGG
43765237 GTATCATTCA
Statistics
Matches: 140, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
38 3 0.02
39 55 0.39
40 82 0.59
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:43765124 original size:79 final size:78
Alignment explanation
Indices: 43765022--43765221 Score: 222
Period size: 79 Copynumber: 2.5 Consensus size: 78
43765012 AACCGAGCTT
* * * * * **
43765022 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGTCTTAACCCGGATTTGGTA
1 CTTCGGGACTTAGCCCGGATATAACCACTAGCACAA-TGCCTTCGGTCTTAACCCGAATATAATA
*
43765086 ACTTGCACAAATGC
65 ACTAGCACAAATGC
* * * * *
43765100 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGTCTTAGCCCGAATATAATC
1 CTTCGGGACTTAGCCCGGATATAACCACTAGCAC-AATGCCTTCGGTCTTAACCCGAATATAATA
*
43765165 ACTAGCATAAATGC
65 ACTAGCACAAATGC
* *
43765179 CTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGCCTT
1 CTTCGGGACTTAGCCCGGATATAACCACTAGCA-CAATGCCTT
43765222 TGGGACTTAG
Statistics
Matches: 100, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
78 10 0.10
79 88 0.88
80 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (78 bp):
CTTCGGGACTTAGCCCGGATATAACCACTAGCACAATGCCTTCGGTCTTAACCCGAATATAATAA
CTAGCACAAATGC
Found at i:43767412 original size:28 final size:29
Alignment explanation
Indices: 43767352--43767509 Score: 212
Period size: 29 Copynumber: 5.5 Consensus size: 29
43767342 CCTCCGAGCT
** * * *
43767352 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * *
43767381 TGCACACATAGTGTCATAT-TTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
43767409 TGCACACTTAGTGCCTTATATTT-CAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
43767437 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
43767466 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
43767495 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
43767510 GATCTCGTCA
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
28 50 0.43
29 66 0.57
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:43767461 original size:57 final size:57
Alignment explanation
Indices: 43767294--43767509 Score: 213
Period size: 57 Copynumber: 3.8 Consensus size: 57
43767284 TACTCGATTT
* * ** *** *
43767294 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATACCCTCCGAGCT
1 CGCACACTTAGTGCCA--TATATTTCCAGCACGCACACTTAGTGCCATATTTTCC-AGCA
** * * ** * *
43767352 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATTTTCCAGCA
* *
43767409 TGCACACTTAGTGCCTTATATTT-CAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATAT-TTTCCAGCA
43767466 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
43767510 GATCTCGTCA
Statistics
Matches: 130, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
56 22 0.17
57 54 0.42
58 54 0.42
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (57 bp):
CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATTTTCCAGCA
Found at i:43775263 original size:29 final size:29
Alignment explanation
Indices: 43775229--43775389 Score: 216
Period size: 29 Copynumber: 5.6 Consensus size: 29
43775219 CCCTCGAGCT
** * * *
43775229 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * * *
43775258 TGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
43775287 TGCACACTTAGTGCCTTATATTT-CAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
43775315 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
43775344 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
43775373 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
43775390 CTCGTCACCG
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
28 26 0.22
29 93 0.78
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:43775292 original size:86 final size:84
Alignment explanation
Indices: 43775201--43775389 Score: 207
Period size: 86 Copynumber: 2.2 Consensus size: 84
43775191 AATTTAAGCC
** * * * **
43775201 CGCACACACAGTGCCATACCCTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACA
1 CGCACACTTAGTGCCATA-CCTC-AGCACGCACACCCAGTGCCATATATTTCCAGCACGCACACA
* *
43775266 TAGTGTCATATTTTTCCAGCA
64 TAGTGCCATATATTTCCAGCA
* ** ** *
43775287 TGCACACTTAGTGCCTTATATTTCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACACT
1 CGCACACTTAGTGCC--ATACCTCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACACA
43775352 TAGTGCCATATATTTCCAGCA
64 TAGTGCCATATATTTCCAGCA
43775373 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
43775390 CTCGTCACCG
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
84 2 0.02
86 78 0.92
87 2 0.02
88 3 0.04
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (84 bp):
CGCACACTTAGTGCCATACCTCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACACATA
GTGCCATATATTTCCAGCA
Found at i:43775320 original size:57 final size:58
Alignment explanation
Indices: 43775229--43775389 Score: 216
Period size: 57 Copynumber: 2.8 Consensus size: 58
43775219 CCCTCGAGCT
** * * ** * * *
43775229 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
* *
43775287 TGCACACTTAGTGCCTTATATTT-CAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
43775344 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCAT
43775390 CTCGTCACCG
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
57 50 0.56
58 40 0.44
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (58 bp):
CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
Found at i:43782371 original size:40 final size:40
Alignment explanation
Indices: 43782327--43782511 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
43782317 GCTACTCGTT
*
43782327 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
43782367 CAAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
43782406 CAAATGCCTTCGGGACTTCA-CCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTT-AGCCCGGATTTAGTAACTCGCA
** * * * *
43782446 CAAATGCCTTC-GGATCTTATTCTGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
43782487 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43782512 CATCATTCGA
Statistics
Matches: 128, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
39 41 0.32
40 74 0.58
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:43782438 original size:79 final size:79
Alignment explanation
Indices: 43782304--43782511 Score: 255
Period size: 79 Copynumber: 2.6 Consensus size: 79
43782294 CCTACGGAGT
** *
43782304 TTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCAC
1 TTAACCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCAC
43782368 AAATGCCTTCGGGA-C
65 AAATGCCTTC-GGATC
*
43782383 TTAACCCGGATTTAGTACTCGCACAAATGCCTTCGGGACTTCA-CCCGGATT-TAGTAACTCGCA
1 TTAA-CCGGATATAGTACTCGCACAAATGCCTTCGGGACTT-AGCCCGGATTATAGTAACTCGCA
43782446 CAAATGCCTTCGGATC
64 CAAATGCCTTCGGATC
* * *
43782462 TTATTCTGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TTA-ACCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
43782512 CATCATTCGA
Statistics
Matches: 113, Mismatches: 8, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
78 3 0.03
79 69 0.61
80 33 0.29
81 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
TTAACCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACA
AATGCCTTCGGATC
Found at i:43784392 original size:29 final size:29
Alignment explanation
Indices: 43784359--43784461 Score: 197
Period size: 29 Copynumber: 3.6 Consensus size: 29
43784349 GTGACGAGAT
43784359 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
43784388 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
43784417 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
43784446 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
43784462 AGCTCGAAGG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:43784489 original size:58 final size:58
Alignment explanation
Indices: 43784359--43784481 Score: 183
Period size: 58 Copynumber: 2.1 Consensus size: 58
43784349 GTGACGAGAT
* * * * *
43784359 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGAGCTCGAAAGACA
* *
43784417 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGAGCTCGAAAGACA
43784475 TGGCACT
1 TGGCACT
43784482 GTGTGTGCGG
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGAGCTCGAAAGACA
Found at i:43790575 original size:40 final size:40
Alignment explanation
Indices: 43790531--43790716 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
43790521 GCTACTCGTT
*
43790531 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCACA
* * *
43790571 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
*
43790611 CAAATGCCTTCGGGACTTCA-CCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTT-AGCCCGGATTTAGTAACTCACA
* * * *
43790651 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CA
*
43790692 CAAA-GCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43790717 CATCATTCGA
Statistics
Matches: 128, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 4 0.03
40 113 0.88
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
Found at i:43796511 original size:31 final size:31
Alignment explanation
Indices: 43796473--43796533 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
43796463 AAACTGTCAC
43796473 ACGCCCGTGTAGATGGGTCGTGTGGATTCAA
1 ACGCCCGTGTAGATGGGTCGTGTGGATTCAA
43796504 ACGCCCGTGTAGATGGGTCGTGTGGATTCA
1 ACGCCCGTGTAGATGGGTCGTGTGGATTCA
43796534 CACACCTGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.20, G:0.36, T:0.26
Consensus pattern (31 bp):
ACGCCCGTGTAGATGGGTCGTGTGGATTCAA
Found at i:43806822 original size:25 final size:26
Alignment explanation
Indices: 43806751--43806847 Score: 135
Period size: 26 Copynumber: 3.8 Consensus size: 26
43806741 GAGGAAGTGC
*
43806751 AAAAGGGCTTATGTCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
43806777 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* ***
43806803 AAAAGGCCTT-TGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTG
43806828 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
43806848 ATTAAAGAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 31 0.48
26 34 0.52
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:43812054 original size:17 final size:18
Alignment explanation
Indices: 43812012--43812060 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
43812002 AGTTGAAAAG
43812012 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
43812031 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
43812048 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
43812061 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:43812949 original size:40 final size:40
Alignment explanation
Indices: 43812883--43813033 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
43812873 AAATTGAATG
* * *
43812883 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
43812922 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
43812962 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
43813002 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
43813034 ACTTGATTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:43813047 original size:40 final size:40
Alignment explanation
Indices: 43812919--43813049 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
43812909 TATGCTGGAA
* * * *
43812919 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
** * *
43812959 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
43812999 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
43813039 ATTATATCCGG
1 ATTATATCCGG
43813050 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:43820070 original size:17 final size:18
Alignment explanation
Indices: 43820028--43820076 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
43820018 AGTTGAAAAG
43820028 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
43820047 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
43820064 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
43820077 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:43820957 original size:40 final size:40
Alignment explanation
Indices: 43820892--43821041 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
43820882 AAATTGAATG
* * *
43820892 ATATCCGGGCTAAG--CCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
43820930 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
43820970 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
43821010 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
43821042 ACTTGATTAT
Statistics
Matches: 90, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
38 13 0.14
39 3 0.03
40 72 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:43821055 original size:40 final size:40
Alignment explanation
Indices: 43820927--43821057 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
43820917 TATGCTGGAA
* * * *
43820927 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
** * *
43820967 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
43821007 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
43821047 ATTATATCCGG
1 ATTATATCCGG
43821058 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:43822286 original size:28 final size:28
Alignment explanation
Indices: 43822221--43822321 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
43822211 ATAGTGAATC
*
43822221 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
43822250 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
43822278 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
43822308 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43822322 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:43830124 original size:28 final size:28
Alignment explanation
Indices: 43830059--43830159 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
43830049 ATAGTGAATC
*
43830059 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
43830088 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
43830116 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
43830146 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43830160 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:43847881 original size:2 final size:2
Alignment explanation
Indices: 43847874--43847905 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
43847864 ACATTCGGAC
43847874 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43847906 GCATGTGTGA
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):
AT
Found at i:43848373 original size:29 final size:29
Alignment explanation
Indices: 43848338--43848408 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
43848328 GTTGTGAGAT
* *
43848338 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
43848367 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
43848396 TGGCACTAAGTGT
1 TGGCACTAAGTGT
43848409 TCGTGGTTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 5 0.13
29 33 0.87
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:43850253 original size:31 final size:31
Alignment explanation
Indices: 43850210--43850281 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
43850200 AAAGTGTCAC
*
43850210 ACGCCCGCGTAGATGGATCGTGTGGATTCAA
1 ACGCCCGTGTAGATGGATCGTGTGGATTCAA
* *
43850241 ACGCCCGTGTAGATGGGTCGTGTGGATTCAC
1 ACGCCCGTGTAGATGGATCGTGTGGATTCAA
43850272 ACGCCCGTGT
1 ACGCCCGTGT
43850282 GGCTTGGGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.18, C:0.25, G:0.33, T:0.24
Consensus pattern (31 bp):
ACGCCCGTGTAGATGGATCGTGTGGATTCAA
Found at i:43853521 original size:28 final size:28
Alignment explanation
Indices: 43853489--43853546 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 28
43853479 AATTTTGATG
43853489 AAATAGAGCTTATTG-A-GCTAAATTGTGA
1 AAATA-AGCTT-TTGAAGGCTAAATTGTGA
*
43853517 AAATAAGGTTTTGAAGGGCTAAATTGTGA
1 AAATAAGCTTTTGAA-GGCTAAATTGTGA
43853546 A
1 A
43853547 TTAAATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 3 0.12
27 5 0.19
28 5 0.19
29 13 0.50
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (28 bp):
AAATAAGCTTTTGAAGGCTAAATTGTGA
Found at i:43854064 original size:43 final size:44
Alignment explanation
Indices: 43854008--43854093 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 44
43853998 TTGATTTGTT
* * *
43854008 ATTTTGTGCAAGACCATGTTTGGGACATAGGCCTCGAT-TTGAG
1 ATTTTGTGCAAGACCATATTTGGAACAGAGGCCTCGATATTGAG
** * *
43854051 ATTTTGTTTAAGACCCTATTTGGAACAGAGGCTTCGATATTGA
1 ATTTTGTGCAAGACCATATTTGGAACAGAGGCCTCGATATTGA
43854094 ATTACATGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
43 31 0.89
44 4 0.11
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (44 bp):
ATTTTGTGCAAGACCATATTTGGAACAGAGGCCTCGATATTGAG
Found at i:43859439 original size:8 final size:9
Alignment explanation
Indices: 43859419--43859448 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
43859409 TAGGGTGGCA
*
43859419 TTTTTCTCT
1 TTTTTTTCT
43859428 TTTTTTTCT
1 TTTTTTTCT
43859437 TTTTTTTCT
1 TTTTTTTCT
43859446 TTT
1 TTT
43859449 CACTTGTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:43860351 original size:20 final size:21
Alignment explanation
Indices: 43860313--43860352 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
43860303 GCATTACGGT
*
43860313 AAGTTGGGCCTCGATGGGCTG
1 AAGTTGGGCCTCAATGGGCTG
43860334 AAGTTGGGCC-CAATGGGCT
1 AAGTTGGGCCTCAATGGGCT
43860353 TTCAGGCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.17, C:0.20, G:0.40, T:0.23
Consensus pattern (21 bp):
AAGTTGGGCCTCAATGGGCTG
Found at i:43860731 original size:20 final size:20
Alignment explanation
Indices: 43860716--43860772 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
43860706 ACATGATTAA
*
43860716 TATGATTTGCACATGATATG
1 TATGATATGCACATGATATG
*
43860736 TATGATATGCGCATGATATG
1 TATGATATGCACATGATATG
43860756 TATGATATGCACATGAT
1 TATGATATGCACATGAT
43860773 GTATTTATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:43860862 original size:26 final size:25
Alignment explanation
Indices: 43860822--43860918 Score: 133
Period size: 26 Copynumber: 3.8 Consensus size: 25
43860812 GAGGAAGTGC
43860822 AAAAGGGCTTGTGCCCCAGTTTATTG
1 AAAAGGGCTT-TGCCCCAGTTTATTG
*
43860848 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTT-TGCCCCAGTTTATTG
**
43860874 AAATA-GGCTTTGCCCCAGTTTACCG
1 AAA-AGGGCTTTGCCCCAGTTTATTG
43860899 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
43860919 ATTAAAGAGG
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.02
25 30 0.47
26 32 0.50
27 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATTG
Found at i:43860904 original size:51 final size:49
Alignment explanation
Indices: 43860823--43860930 Score: 139
Period size: 51 Copynumber: 2.2 Consensus size: 49
43860813 AGGAAGTGCA
** *
43860823 AAAG-GGCTTGTGCCCCAGTTTATTGAAAAGGGCTTATGCCCTAGTTTATT
1 AAAGAGGCTTGTGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAG-TTATT
*
43860873 GAAATAGGCTT-TGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTATT
1 -AAAGAGGCTTGTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTATT
43860922 AAAGAGGCT
1 AAAGAGGCT
43860931 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
48 8 0.16
49 5 0.10
50 7 0.14
51 26 0.51
52 5 0.10
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (49 bp):
AAAGAGGCTTGTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTATT
Found at i:43868831 original size:20 final size:20
Alignment explanation
Indices: 43868806--43868872 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
43868796 ATTTTGATAT
*
43868806 ACATGAT-TGATATGATTTGC
1 ACATGATATG-TATGATATGC
43868826 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
43868846 GCATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
43868866 ACATGAT
1 ACATGAT
43868873 GTATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:43868950 original size:25 final size:27
Alignment explanation
Indices: 43868922--43869042 Score: 189
Period size: 27 Copynumber: 4.7 Consensus size: 27
43868912 GAGGAAGTGC
43868922 AAAAGGGCTTATG-CCCAGTTTATTGA
1 AAAAGGGCTTATGCCCCAGTTTATTGA
43868948 AAAAGGGCTTATGCCCCAGTTTATTGA
1 AAAAGGGCTTATGCCCCAGTTTATTGA
43868975 AAAAGGGCTTATGCCCCAGTTTATTG-
1 AAAAGGGCTTATGCCCCAGTTTATTGA
**
43869001 AAAAGGGCTT-TGCCCCAGTTTACCG-
1 AAAAGGGCTTATGCCCCAGTTTATTGA
43869026 AAAAGGGCTT-TGCCCCA
1 AAAAGGGCTTATGCCCCA
43869043 ATTATTAAAG
Statistics
Matches: 92, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
25 30 0.33
26 23 0.25
27 39 0.42
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (27 bp):
AAAAGGGCTTATGCCCCAGTTTATTGA
Found at i:43875368 original size:49 final size:49
Alignment explanation
Indices: 43875308--43875806 Score: 862
Period size: 49 Copynumber: 10.3 Consensus size: 49
43875298 TACTTGATAG
*
43875308 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTA
*
43875357 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTA
*
43875406 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTA
* *
43875455 TATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTA
43875504 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTA
43875553 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTA
43875602 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTA
*
43875649 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTA
* **
43875698 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTA
* *
43875747 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAA--GTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTA
*
43875794 TAAATGTGATAAG
1 TATATGTGATAAG
43875807 TCCCGAAGGG
Statistics
Matches: 431, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
47 61 0.14
49 370 0.86
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTA
Found at i:43880684 original size:20 final size:20
Alignment explanation
Indices: 43880659--43880705 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
43880649 ATTTTGATAT
*
43880659 ACATGAT-TGACATGATTTGC
1 ACATGATATG-CATGATATGC
*
43880679 ACATGATATGTATGATATGC
1 ACATGATATGCATGATATGC
43880699 ACATGAT
1 ACATGAT
43880706 GTATTCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:43880856 original size:52 final size:52
Alignment explanation
Indices: 43880757--43880900 Score: 206
Period size: 51 Copynumber: 2.8 Consensus size: 52
43880747 GGAAGTCCAG
*
43880757 AAGGGCTTA-GCCCCAGTTTATTGAAAAAGGGCTTATGCCCCAGTTTATTGAAA
1 AAGGGCTTATGCCCCAGTTTATTG-AAAAGGGCTTATGCCCCAATTTATTG-AA
* *
43880810 AAGGG-TTATGCCTCAGTTTATTGAAAAGGGCTTATGCCCTAATTTATTGAA
1 AAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAATTTATTGAA
*
43880861 AAGGGCTT-TGCCCCAGTTTATCGAAAAGGGCTT-TGCCCCA
1 AAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCA
43880901 GTTATTAAAG
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
50 6 0.07
51 30 0.36
52 29 0.35
53 18 0.22
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (52 bp):
AAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAATTTATTGAA
Found at i:43880880 original size:25 final size:26
Alignment explanation
Indices: 43880757--43880903 Score: 212
Period size: 26 Copynumber: 5.7 Consensus size: 26
43880747 GGAAGTCCAG
43880757 AAGGGCTTA-GCCCCAGTTTATTGAAA
1 AAGGGCTTATGCCCCAGTTTATTG-AA
43880783 AAGGGCTTATGCCCCAGTTTATTGAAA
1 AAGGGCTTATGCCCCAGTTTATTG-AA
*
43880810 AAGGG-TTATGCCTCAGTTTATTGAA
1 AAGGGCTTATGCCCCAGTTTATTGAA
* *
43880835 AAGGGCTTATGCCCTAATTTATTGAA
1 AAGGGCTTATGCCCCAGTTTATTGAA
*
43880861 AAGGGCTT-TGCCCCAGTTTATCGAA
1 AAGGGCTTATGCCCCAGTTTATTGAA
43880886 AAGGGCTT-TGCCCCAGTT
1 AAGGGCTTATGCCCCAGTT
43880904 ATTAAAGAGG
Statistics
Matches: 112, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
25 39 0.35
26 51 0.46
27 22 0.20
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (26 bp):
AAGGGCTTATGCCCCAGTTTATTGAA
Found at i:43886908 original size:93 final size:93
Alignment explanation
Indices: 43886749--43886920 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
43886739 CGCCCATAAG
* * * * *
43886749 CGAACTCGGACTCAAATCAACAAGCTCGGGCGTTCACATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAAATCAACAAGCTCAGACATTCACATCCATAAGTGAACTCAGACTCAACTCA
*
43886814 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
* * * *
43886842 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAAATCAACAAGCTCAGACATTCACATCCATAAGTGAACTCAGACTCAACTCA
43886907 ACGAGCTCGGATGC
66 ACGAGCTCGGATGC
43886921 TCAACATCCT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAAATCAACAAGCTCAGACATTCACATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:43888486 original size:27 final size:26
Alignment explanation
Indices: 43888456--43888638 Score: 181
Period size: 27 Copynumber: 6.9 Consensus size: 26
43888446 AAGACCCGGT
*
43888456 TTGTAAAATTACCGAAATACCCCCAGA
1 TTGTAAAATTATCGAAATA-CCCCAGA
43888483 TTGTAAAATTATCGAAATACCCCA-A
1 TTGTAAAATTATCGAAATACCCCAGA
43888508 TTTGTAAAATTATCGAAATACCCCAGA
1 -TTGTAAAATTATCGAAATACCCCAGA
** * *
43888535 TTACAAAATTA-CTGAAATAACCCTAGT
1 TTGTAAAATTATC-GAAAT-ACCCCAGA
* * **
43888562 TTGTAAAATTACCAAAATACCCTTGTA
1 TTGTAAAATTATCGAAATACCCCAG-A
* **
43888589 TTGTAAAATTATCGGAATACCCTTGCA
1 TTGTAAAATTATCGAAATACCCCAG-A
*
43888616 GTGTAAAATTATCGAAATACCCC
1 TTGTAAAATTATCGAAATACCCC
43888639 TATAGGATAA
Statistics
Matches: 133, Mismatches: 17, Indels: 12
0.82 0.10 0.07
Matches are distributed among these distances:
25 2 0.02
26 49 0.37
27 81 0.61
28 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.29
Consensus pattern (26 bp):
TTGTAAAATTATCGAAATACCCCAGA
Found at i:43888565 original size:53 final size:52
Alignment explanation
Indices: 43888454--43888638 Score: 178
Period size: 53 Copynumber: 3.5 Consensus size: 52
43888444 TTAAGACCCG
**
43888454 GTTTGTAAAATTACCGAAATACCCCCAGATTGTAAAATTATCGAAATACCCCA
1 GTTTGTAAAATTACCGAAATA-CCCCAGATTACAAAATTATCGAAATACCCCA
* * *
43888507 ATTTGTAAAATTATCGAAATACCCCAGATTACAAAATTA-CTGAAATAACCCTA
1 GTTTGTAAAATTACCGAAATACCCCAGATTACAAAATTATC-GAAAT-ACCCCA
* ** ** *
43888560 GTTTGTAAAATTACCAAAATACCCTTGTATTGTAAAATTATCGGAATACCCTTGCA
1 GTTTGTAAAATTACCGAAATACCCCAG-ATTACAAAATTATCGAAATACCC---CA
*
43888616 G--TGTAAAATTATCGAAATACCCC
1 GTTTGTAAAATTACCGAAATACCCC
43888639 TATAGGATAA
Statistics
Matches: 108, Mismatches: 17, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
51 1 0.01
52 21 0.19
53 50 0.46
54 33 0.31
55 1 0.01
56 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (52 bp):
GTTTGTAAAATTACCGAAATACCCCAGATTACAAAATTATCGAAATACCCCA
Found at i:43892829 original size:27 final size:27
Alignment explanation
Indices: 43892798--43892924 Score: 188
Period size: 27 Copynumber: 4.7 Consensus size: 27
43892788 CCCTAGTTTT
*
43892798 TAAAATTACTAAAATACCCTCAGA-TTG
1 TAAAATTACCAAAATACCCTC-GATTTG
43892825 TAAAATTACCAAAATACCCTCGATTTG
1 TAAAATTACCAAAATACCCTCGATTTG
*
43892852 TAAAATTACCAAAATACCC-C-ATATTA
1 TAAAATTACCAAAATACCCTCGAT-TTG
43892878 TAAAATTACCAAAATACCCTCGATTTG
1 TAAAATTACCAAAATACCCTCGATTTG
*
43892905 TAAAATTATCAAAATACCCT
1 TAAAATTACCAAAATACCCT
43892925 TGTAGTGTAA
Statistics
Matches: 92, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.02
26 24 0.26
27 64 0.70
28 2 0.02
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCGATTTG
Found at i:43892888 original size:53 final size:54
Alignment explanation
Indices: 43892798--43892924 Score: 211
Period size: 53 Copynumber: 2.4 Consensus size: 54
43892788 CCCTAGTTTT
* *
43892798 TAAAATTACTAAAATACCCTCAGATTGTAAAATTACCAAAATACCCTCGATTTG
1 TAAAATTACCAAAATACCCTCAGATTATAAAATTACCAAAATACCCTCGATTTG
*
43892852 TAAAATTACCAAAATACCC-CATATTATAAAATTACCAAAATACCCTCGATTTG
1 TAAAATTACCAAAATACCCTCAGATTATAAAATTACCAAAATACCCTCGATTTG
*
43892905 TAAAATTATCAAAATACCCT
1 TAAAATTACCAAAATACCCT
43892925 TGTAGTGTAA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
53 50 0.74
54 18 0.26
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (54 bp):
TAAAATTACCAAAATACCCTCAGATTATAAAATTACCAAAATACCCTCGATTTG
Found at i:43892933 original size:27 final size:26
Alignment explanation
Indices: 43892798--43892977 Score: 182
Period size: 27 Copynumber: 6.7 Consensus size: 26
43892788 CCCTAGTTTT
*
43892798 TAAAATTACTAAAATACCCTCAGATTG
1 TAAAATTACCAAAATACCCTC-GATTG
43892825 TAAAATTACCAAAATACCCTCGATTTG
1 TAAAATTACCAAAATACCCTCGA-TTG
* *
43892852 TAAAATTACCAAAATACCC-CATATTA
1 TAAAATTACCAAAATACCCTC-GATTG
43892878 TAAAATTACCAAAATACCCTCGATTTG
1 TAAAATTACCAAAATACCCTCGA-TTG
* * *
43892905 TAAAATTATCAAAATACCCTTGTAGTG
1 TAAAATTACCAAAATACCCTCG-ATTG
*** * * *
43892932 TAAAATTATTGAAGTACCCTTGTAGTG
1 TAAAATTACCAAAATACCCTCG-ATTG
*
43892959 TAAAATTACCGAAATACCC
1 TAAAATTACCAAAATACCC
43892978 CAGTTGGGTA
Statistics
Matches: 134, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
26 25 0.19
27 108 0.81
28 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.30
Consensus pattern (26 bp):
TAAAATTACCAAAATACCCTCGATTG
Found at i:43892950 original size:80 final size:81
Alignment explanation
Indices: 43892798--43892977 Score: 204
Period size: 80 Copynumber: 2.2 Consensus size: 81
43892788 CCCTAGTTTT
* *
43892798 TAAAATTACTAAAATACCCTCAGATTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCA
1 TAAAATTACCAAAATACCCTCAGATTGTAAAATTACCAAAATACCCTCGATGTGTAAAATTACCA
*
43892863 AAATACCC-CATATTA
66 AAATACCCTCATAGTA
* * *
43892878 TAAAATTACCAAAATACCCTC-GATTTGTAAAATTATCAAAATACCCTTG-TAGTGTAAAATTAT
1 TAAAATTACCAAAATACCCTCAGA-TTGTAAAATTACCAAAATACCCTCGAT-GTGTAAAATTAC
** * ** *
43892941 TGAAGTACCCTTGTAGTG
64 CAAAATACCCTCATAGTA
*
43892959 TAAAATTACCGAAATACCC
1 TAAAATTACCAAAATACCC
43892978 CAGTTGGGTA
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 3 0.04
80 60 0.71
81 21 0.25
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.30
Consensus pattern (81 bp):
TAAAATTACCAAAATACCCTCAGATTGTAAAATTACCAAAATACCCTCGATGTGTAAAATTACCA
AAATACCCTCATAGTA
Found at i:43892988 original size:27 final size:26
Alignment explanation
Indices: 43892787--43892991 Score: 146
Period size: 27 Copynumber: 7.7 Consensus size: 26
43892777 GGTCGTTAAG
* * *
43892787 ACCCTAGTTTTTAAAATTACTAAAAT
1 ACCCCAGTTTGTAAAATTACCAAAAT
*
43892813 ACCCTCAGATTGTAAAATTACCAAAAT
1 ACCC-CAGTTTGTAAAATTACCAAAAT
43892840 ACCCTC-GATTTGTAAAATTACCAAAAT
1 ACCC-CAG-TTTGTAAAATTACCAAAAT
*
43892867 ACCCCA-TATTATAAAATTACCAAAAT
1 ACCCCAGT-TTGTAAAATTACCAAAAT
*
43892893 ACCCTC-GATTTGTAAAATTATCAAAAT
1 ACCC-CAG-TTTGTAAAATTACCAAAAT
** * *** *
43892920 ACCCTTGTAGTGTAAAATTATTGAAGT
1 ACCCCAGT-TTGTAAAATTACCAAAAT
** * *
43892947 ACCCTTGTAGTGTAAAATTACCGAAAT
1 ACCCCAGT-TTGTAAAATTACCAAAAT
*
43892974 ACCCCAGTTGGGTAAAAT
1 ACCCCAGTT-TGTAAAAT
43892992 GACTGTTTTA
Statistics
Matches: 149, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
25 1 0.01
26 28 0.19
27 119 0.80
28 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (26 bp):
ACCCCAGTTTGTAAAATTACCAAAAT
Found at i:43898163 original size:42 final size:42
Alignment explanation
Indices: 43898013--43898164 Score: 157
Period size: 42 Copynumber: 3.6 Consensus size: 42
43898003 TGAGTTTACC
* * * * *
43898013 TGTAAGACCATATCTGGGATATGACATCGTTGTGATATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTCCA
* * * * *
43898055 TGTAAGACCAT-GCTGGGACATGGAATCGATATGAGA-ACCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTCCA
*
43898095 TGTAAGACCATCA-CTGGGCTATTGGCATCGATATGAGATTCCA
1 TGTAAGACCAT-ATCTGGGATA-TGGCATCGATATGAGATTCCA
*
43898138 CGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
43898165 TGGTACAATT
Statistics
Matches: 88, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
40 12 0.14
41 24 0.27
42 33 0.38
43 19 0.22
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTCCA
Found at i:43901886 original size:40 final size:39
Alignment explanation
Indices: 43901820--43901970 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
43901810 AAATTGAATG
* * *
43901820 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
43901859 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
43901899 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
43901939 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
43901971 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:43901984 original size:40 final size:39
Alignment explanation
Indices: 43901857--43901986 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
43901847 ATGCTGGAAA
* *
43901857 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
43901897 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
43901937 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
43901977 TTATATCCGG
1 TTATATCCGG
43901987 TTATATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:43910335 original size:49 final size:49
Alignment explanation
Indices: 43910279--43910493 Score: 367
Period size: 49 Copynumber: 4.4 Consensus size: 49
43910269 TACATATATG
* * *
43910279 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
43910328 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
43910377 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
43910426 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
43910475 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
43910494 TAATGTAAAA
Statistics
Matches: 160, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 160 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:43910652 original size:37 final size:37
Alignment explanation
Indices: 43910595--43910715 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
43910585 GGAATATGTT
*
43910595 CCGGGTGAGA-CCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
43910631 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
43910668 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
43910705 CCGGGTAAGAC
1 CCGGGTAAGAC
43910716 TTCTTTTATA
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
36 9 0.11
37 73 0.89
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:43912810 original size:29 final size:29
Alignment explanation
Indices: 43912768--43912931 Score: 310
Period size: 29 Copynumber: 5.7 Consensus size: 29
43912758 GCGAATGATT
43912768 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
43912797 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
43912826 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
43912855 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
43912884 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
43912913 GAGGCACTGTGTGTGCGAG
1 GAGGCACTATGTGTGCGAG
43912932 TTTTTCAACA
Statistics
Matches: 133, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 133 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:43913511 original size:40 final size:41
Alignment explanation
Indices: 43913413--43913511 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
43913403 TTCGAATGGT
* ** * *
43913413 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTTACTAA
1 ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTAACTAA
43913454 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAA-TAACTATA
1 ATCCGGGCT-ATGTCCCGAAGGCAATTGTGCGAAGTAACTA-A
43913495 A-CCGGGCTATGTCCCGA
1 ATCCGGGCTATGTCCCGA
43913512 GGACAATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 18 0.36
41 29 0.58
42 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTAACTAA
Found at i:43916287 original size:49 final size:49
Alignment explanation
Indices: 43916231--43916445 Score: 376
Period size: 49 Copynumber: 4.4 Consensus size: 49
43916221 TACATATATG
* * *
43916231 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
43916280 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
43916329 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
43916378 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
43916427 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
43916446 TAATGTAAAA
Statistics
Matches: 160, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 160 1.00
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:43916597 original size:37 final size:37
Alignment explanation
Indices: 43916547--43916668 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
43916537 GGAATATGTT
*
43916547 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
43916584 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
43916621 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
43916658 CCGGGTAAGAC
1 CCGGGTAAGAC
43916669 TTCTTTATAA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:43918060 original size:40 final size:40
Alignment explanation
Indices: 43917933--43918062 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
43917923 ATGCTGGAAA
* *
43917933 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
43917973 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
43918013 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
43918053 TTATATCCGG
1 TTATATCCGG
43918063 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:43925271 original size:40 final size:40
Alignment explanation
Indices: 43925144--43925273 Score: 167
Period size: 40 Copynumber: 3.2 Consensus size: 40
43925134 ATGCTGGAAA
*
43925144 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGC-TAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAT-GTGG
* * *
43925184 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-ATGTGG
*
43925224 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGG
43925264 TTATATCCGG
1 TTATATCCGG
43925274 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGG
Found at i:43928062 original size:27 final size:27
Alignment explanation
Indices: 43928032--43928085 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
43928022 GCTGCCAGAG
*
43928032 ACAGT-AATTGTGGCAAAGCCACCAGTA
1 ACAGTGAA-TGTGACAAAGCCACCAGTA
* *
43928059 ACAGTGAATGTGACATAGTCACCAGTA
1 ACAGTGAATGTGACAAAGCCACCAGTA
43928086 CAGAACTTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (27 bp):
ACAGTGAATGTGACAAAGCCACCAGTA
Found at i:43928290 original size:27 final size:27
Alignment explanation
Indices: 43928226--43928278 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
43928216 GGGCATAATC
*
43928226 GTCATTTTACCATACAGGGGTATTACA
1 GTCATTTTACCATACAGGGGCATTACA
* *
43928253 GTCACTTTACCCTACAGGGGCATTAC
1 GTCATTTTACCATACAGGGGCATTAC
43928279 GCTCTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCATTACA
Found at i:43928476 original size:54 final size:54
Alignment explanation
Indices: 43928323--43928617 Score: 245
Period size: 54 Copynumber: 5.4 Consensus size: 54
43928313 TCGCCTACAA
* * * ** * *
43928323 GGGTGTTTTGGTAAATCTACAAACCAAAGGTATTTCAGTAATTTTGA-AAACCAA
1 GGGTATTTTGGTAATTTTACAAATTAAAGGTATTTCAGTAATTTT-ACAAATCAG
* * * * * * * * *
43928377 TGGTACTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCCGTAATTTTATAAATTAG
1 GGGTA-TTTTGGTAA-TTTTACAAA-TTAAAGGTATTTCAGTAATTTTACAAATCAG
* * *
43928433 GGGTATTTTTGTAATTTTCCAAATTAAAGGTATTTCAGTAATTTTCCAAATCAG
1 GGGTATTTTGGTAATTTTACAAATTAAAGGTATTTCAGTAATTTTACAAATCAG
* * *
43928487 GGGTATTTTGGTAATTTTACAAATTAAGGGTTTTTCAGTAATTTTACAAGTC-G
1 GGGTATTTTGGTAATTTTACAAATTAAAGGTATTTCAGTAATTTTACAAATCAG
* * * ** * * * *
43928540 AGGGTATTTCGATAATTTTATAGGTTGAGGGTATTTCAGTAATTTCACAAAACAG
1 -GGGTATTTTGGTAATTTTACAAATTAAAGGTATTTCAGTAATTTTACAAATCAG
43928595 GGGTATTTTGGTAATTTTACAAA
1 GGGTATTTTGGTAATTTTACAAA
43928618 CCAGGGGTAT
Statistics
Matches: 189, Mismatches: 45, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
53 1 0.01
54 137 0.72
55 21 0.11
56 30 0.16
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTAAAGGTATTTCAGTAATTTTACAAATCAG
Found at i:43928532 original size:27 final size:27
Alignment explanation
Indices: 43928351--43928617 Score: 180
Period size: 27 Copynumber: 9.8 Consensus size: 27
43928341 ACAAACCAAA
** *
43928351 GGTATTTCAGTAATTTTGA-AAACCAAT
1 GGTATTTCAGTAATTTT-ACAAATTAAG
* * *
43928378 GGTACTTCTA-TAATTTTTAGAAAGTCAAG
1 GGTATTTC-AGTAA-TTTTACAAA-TTAAG
* * *
43928407 GGTATTTCCGTAATTTTATAAATTAGG
1 GGTATTTCAGTAATTTTACAAATTAAG
** * *
43928434 GGTATTTTTGTAATTTTCCAAATTAAA
1 GGTATTTCAGTAATTTTACAAATTAAG
* * *
43928461 GGTATTTCAGTAATTTTCCAAATCAGG
1 GGTATTTCAGTAATTTTACAAATTAAG
**
43928488 GGTATTTTGGTAATTTTACAAATTAAG
1 GGTATTTCAGTAATTTTACAAATTAAG
* * **
43928515 GGTTTTTCAGTAATTTTACAAGTCGAG
1 GGTATTTCAGTAATTTTACAAATTAAG
* ** *
43928542 GGTATTTC-GATAATTTTATAGGTTGAG
1 GGTATTTCAG-TAATTTTACAAATTAAG
* ** *
43928569 GGTATTTCAGTAATTTCACAAAACAGG
1 GGTATTTCAGTAATTTTACAAATTAAG
**
43928596 GGTATTTTGGTAATTTTACAAA
1 GGTATTTCAGTAATTTTACAAA
43928618 CCAGGGGTAT
Statistics
Matches: 188, Mismatches: 45, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
26 1 0.01
27 157 0.84
28 17 0.09
29 13 0.07
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATTAAG
Found at i:43928655 original size:27 final size:27
Alignment explanation
Indices: 43928578--43928639 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
43928568 GGGTATTTCA
* * **
43928578 GTAATTTCACAAAACAGGGGTATTTTG
1 GTAATTTTACAAACCAGAAGTATTTTG
**
43928605 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAGAAGTATTTTG
43928632 GTAATTTT
1 GTAATTTT
43928640 GTAAATCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACCAGAAGTATTTTG
Found at i:43928726 original size:27 final size:26
Alignment explanation
Indices: 43928653--43928728 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 26
43928643 AATCATAAGT
*
43928653 ATTCAGTAATTCTACCGTACAAGGGCA
1 ATTCAGTAATTCTACC-TACAGGGGCA
*
43928680 TTTCAGTAATTCTACACTACAGGGGCA
1 ATTCAGTAATTCTAC-CTACAGGGGCA
*
43928707 ATTCAGTAATACTAGCCTACAG
1 ATTCAGTAATTCTA-CCTACAG
43928729 ATATAAGATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 41 0.95
28 2 0.05
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (26 bp):
ATTCAGTAATTCTACCTACAGGGGCA
Found at i:43930794 original size:33 final size:33
Alignment explanation
Indices: 43930742--43930851 Score: 166
Period size: 33 Copynumber: 3.3 Consensus size: 33
43930732 AGTGAATAAC
*
43930742 ACAGTATCAGTACAGTCTGGGCCAAAGCCCTAT
1 ACAGTATCAGTACAGTCTGGGCCTAAGCCCTAT
* * *
43930775 TCAGTATCAATACAATCTGGGCCTAAGCCCTAT
1 ACAGTATCAGTACAGTCTGGGCCTAAGCCCTAT
*
43930808 ACAGTATCAGTACAGTCTGGACCTAAGCCCTAT
1 ACAGTATCAGTACAGTCTGGGCCTAAGCCCTAT
*
43930841 ACAGTAGCAGT
1 ACAGTATCAGT
43930852 GTAGGCCTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (33 bp):
ACAGTATCAGTACAGTCTGGGCCTAAGCCCTAT
Found at i:43931276 original size:27 final size:26
Alignment explanation
Indices: 43931246--43931307 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
43931236 CATTTTTCCA
43931246 TACAAGGGTATTACAGTCACTTTACCC
1 TACAAGGGTATTACAGTCACTTTA-CC
* * * * *
43931273 TACAGGGGCATTATAGTGATTTTACC
1 TACAAGGGTATTACAGTCACTTTACC
*
43931299 TATAAGGGT
1 TACAAGGGT
43931308 GTTTTGGTAA
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (26 bp):
TACAAGGGTATTACAGTCACTTTACC
Done.