Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 557 of 770
Found at i:173385652 original size:37 final size:37
Alignment explanation
Indices: 173385599--173385689 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
173385589 TATAAAAGAA
173385599 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
173385636 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
173385673 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
173385690 TTCCAAGTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:173385823 original size:40 final size:41
Alignment explanation
Indices: 173385779--173385914 Score: 111
Period size: 40 Copynumber: 3.2 Consensus size: 41
173385769 CATATATTTT
173385779 ACATT-AGCCATTAGGCCTTATCACATATACATACACTTTC
1 ACATTCAGCCATTAGGCCTTATCACATATACATACACTTTC
* * *
173385819 ACATTCA-CCACATCGGCCATTAGGC-C-T-TACATACACTTTC
1 ACATTCAGCCA-TTAGGCC-TTA-TCACATATACATACACTTTC
173385859 ACATTCACCGCATCGGCCATTAGGCCTTATCACATATACATACACTTTC
1 ACATT-----CA---GCCATTAGGCCTTATCACATATACATACACTTTC
173385908 ACATTCA
1 ACATTCA
173385915 TCGCATTGGC
Statistics
Matches: 74, Mismatches: 6, Indels: 28
0.69 0.06 0.26
Matches are distributed among these distances:
40 26 0.35
41 7 0.09
42 4 0.05
43 1 0.01
44 2 0.03
45 2 0.03
46 1 0.01
47 4 0.05
48 6 0.08
49 21 0.28
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (41 bp):
ACATTCAGCCATTAGGCCTTATCACATATACATACACTTTC
Found at i:173385840 original size:49 final size:49
Alignment explanation
Indices: 173385785--173385941 Score: 215
Period size: 49 Copynumber: 3.4 Consensus size: 49
173385775 TTTTACATTA
*
173385785 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCGCATCG
173385834 GCCATTAGG------C-C-T-TACATACACTTTCACATTCACCGCATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCGCATCG
* *
173385874 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCGCATCG
*
173385923 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
173385942 CACATATGTA
Statistics
Matches: 95, Mismatches: 4, Indels: 18
0.81 0.03 0.15
Matches are distributed among these distances:
40 36 0.38
41 1 0.01
42 1 0.01
43 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 53 0.56
ACGTcount: A:0.27, C:0.32, G:0.11, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCGCATCG
Found at i:173390008 original size:20 final size:20
Alignment explanation
Indices: 173389979--173390023 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
173389969 AGCACATGTA
* *
173389979 TTCATAAAATTTTATAATTT
1 TTCATAAAATTTTACAACTT
*
173389999 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
173390019 TTCAT
1 TTCAT
173390024 TTTAGCCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:173394342 original size:41 final size:41
Alignment explanation
Indices: 173394277--173394356 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
173394267 AGGAAGATCG
* *
173394277 ACATGACTTATCAAGGATCGAACCATGTCTAACAGTGTTCA
1 ACATGACTCATCAAGGATCAAACCATGTCTAACAGTGTTCA
**
173394318 ACATGACTCATCATTGATCAAACCATGTCTAACAGTGTT
1 ACATGACTCATCAAGGATCAAACCATGTCTAACAGTGTT
173394357 TGATTTCTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (41 bp):
ACATGACTCATCAAGGATCAAACCATGTCTAACAGTGTTCA
Found at i:173399160 original size:46 final size:46
Alignment explanation
Indices: 173399093--173399184 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
173399083 CATAGTCAAC
*
173399093 ACCATGAATTTGACGAAAACCTTTAGCGACTAATCGCCCCTTGTAT
1 ACCATGAATTTAACGAAAACCTTTAGCGACTAATCGCCCCTTGTAT
* * *
173399139 ACCATGAATTTAATGAAAACCTTTTGTGACTAATCGCCCCTTGTAT
1 ACCATGAATTTAACGAAAACCTTTAGCGACTAATCGCCCCTTGTAT
173399185 GTTTGTACAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (46 bp):
ACCATGAATTTAACGAAAACCTTTAGCGACTAATCGCCCCTTGTAT
Found at i:173404416 original size:40 final size:40
Alignment explanation
Indices: 173404371--173404537 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
173404361 CGGAATATAA
173404371 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
173404411 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
173404451 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
173404491 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
173404530 CCGGATAT
1 CCGGATAT
173404538 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:173404521 original size:80 final size:79
Alignment explanation
Indices: 173404371--173404537 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
173404361 CGGAATATAA
* *
173404371 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
173404436 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
173404451 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
173404513 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
173404530 CCGGATAT
1 CCGGATAT
173404538 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:173405385 original size:17 final size:19
Alignment explanation
Indices: 173405362--173405407 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
173405352 AAGAAGCATG
173405362 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
173405380 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
173405398 AATCATGCTC
1 AATCATGCTC
173405408 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:173414438 original size:9 final size:9
Alignment explanation
Indices: 173414426--173414482 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
173414416 TTTGATAAAC
173414426 ATGATATGT
1 ATGATATGT
*
173414435 ATGATATGCAC
1 ATGATATG--T
*
173414446 ATGACATGT
1 ATGATATGT
*
173414455 ATGATATGCAC
1 ATGATATG--T
173414466 ATGATATGT
1 ATGATATGT
173414475 ATGATATG
1 ATGATATG
173414483 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:173414449 original size:20 final size:20
Alignment explanation
Indices: 173414424--173414494 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
173414414 ATTTTGATAA
173414424 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
173414444 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
173414464 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
173414484 ACATGAGATGT
1 ACATGATATGT
173414495 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:173414471 original size:11 final size:11
Alignment explanation
Indices: 173414435--173414489 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
173414425 CATGATATGT
173414435 ATGATATGCAC
1 ATGATATGCAC
* *
173414446 ATGACATG--T
1 ATGATATGCAC
173414455 ATGATATGCAC
1 ATGATATGCAC
*
173414466 ATGATATG--T
1 ATGATATGCAC
173414475 ATGATATGCAC
1 ATGATATGCAC
173414486 ATGA
1 ATGA
173414490 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:173414571 original size:23 final size:23
Alignment explanation
Indices: 173414541--173414660 Score: 204
Period size: 23 Copynumber: 5.1 Consensus size: 23
173414531 AGGAAGTGCA
173414541 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
173414564 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
173414588 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
173414611 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
173414634 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
173414658 AAA
1 AAA
173414661 AGAGGCTAGG
Statistics
Matches: 92, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
23 48 0.52
24 44 0.48
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:173414596 original size:24 final size:23
Alignment explanation
Indices: 173414540--173414667 Score: 193
Period size: 24 Copynumber: 5.4 Consensus size: 23
173414530 GAGGAAGTGC
173414540 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
173414563 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
173414586 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
173414610 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
173414634 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
173414658 AAAAGAGGCT
1 AAAAG-GGCT
173414668 AGGCCTCCAG
Statistics
Matches: 97, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
23 43 0.44
24 50 0.52
25 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:173414608 original size:47 final size:47
Alignment explanation
Indices: 173414539--173414660 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
173414529 GGAGGAAGTG
173414539 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
173414586 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
173414633 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
173414661 AGAGGCTAGG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:173414907 original size:31 final size:31
Alignment explanation
Indices: 173414872--173414935 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
173414862 CGTTTACAGT
173414872 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
173414903 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
173414934 AA
1 AA
173414936 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:173422454 original size:25 final size:24
Alignment explanation
Indices: 173422422--173422468 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
173422412 TTATAATATG
* * *
173422422 AAAAGACCGTTTTGCCCCTAGGTA
1 AAAAGACCATTATACCCCTAGGTA
173422446 AAAATGACCATTATACCCCTAGG
1 AAAA-GACCATTATACCCCTAGG
173422469 GTTTATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 4 0.21
25 15 0.79
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (24 bp):
AAAAGACCATTATACCCCTAGGTA
Found at i:173422519 original size:9 final size:9
Alignment explanation
Indices: 173422507--173422563 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
173422497 TTTGATAAAC
173422507 ATGATATGT
1 ATGATATGT
*
173422516 ATGATATGCAC
1 ATGATATG--T
*
173422527 ATGACATGT
1 ATGATATGT
*
173422536 ATGATATGCAC
1 ATGATATG--T
173422547 ATGATATGT
1 ATGATATGT
173422556 ATGATATG
1 ATGATATG
173422564 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:173422530 original size:20 final size:20
Alignment explanation
Indices: 173422505--173422575 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
173422495 ATTTTGATAA
173422505 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
173422525 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
173422545 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
173422565 ACATGAGATGT
1 ACATGATATGT
173422576 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:173422552 original size:11 final size:11
Alignment explanation
Indices: 173422516--173422570 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
173422506 CATGATATGT
173422516 ATGATATGCAC
1 ATGATATGCAC
* *
173422527 ATGACATG--T
1 ATGATATGCAC
173422536 ATGATATGCAC
1 ATGATATGCAC
*
173422547 ATGATATG--T
1 ATGATATGCAC
173422556 ATGATATGCAC
1 ATGATATGCAC
173422567 ATGA
1 ATGA
173422571 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:173422677 original size:24 final size:24
Alignment explanation
Indices: 173422620--173422772 Score: 220
Period size: 24 Copynumber: 6.4 Consensus size: 24
173422610 GGAGGAAGTG
*
173422620 CAAAAGGGCTTATGCCCCAATTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
173422644 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
173422667 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
173422691 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
173422715 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* * *
173422738 TAAAAGGGTTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
173422762 TAAAAGAGGCT
1 CAAAAG-GGCT
173422773 AGGCCTCCAG
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 43 0.36
24 72 0.61
25 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:173422720 original size:47 final size:46
Alignment explanation
Indices: 173422622--173422765 Score: 216
Period size: 47 Copynumber: 3.1 Consensus size: 46
173422612 AGGAAGTGCA
* * *
173422622 AAAGGGCTTATGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT-T
173422669 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
* *
173422716 AAAGGGCTTATGCCCCAGTTATTAAAAGGGTTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTA-TAAAAGGGCTTATGCCCCAGTTATT
173422763 AAA
1 AAA
173422766 AGAGGCTAGG
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
47 67 0.74
48 23 0.26
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:173422736 original size:71 final size:71
Alignment explanation
Indices: 173422620--173422772 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 71
173422610 GGAGGAAGTG
173422620 CAAAAGGGCTTATGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
173422685 AGTTAT
66 AGTTAT
* * * *
173422691 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGTTTTTGCCCC
1 CAAAAGGGCTTATGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
173422756 AGTTAT
66 AGTTAT
*
173422762 TAAAAGAGGCT
1 CAAAAG-GGCT
173422773 AGGCCTCCAG
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 72 0.95
72 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:173430420 original size:68 final size:70
Alignment explanation
Indices: 173430348--173430545 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
173430338 ACACCCTGTA
* * * *
173430348 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
173430410 ATAAAT
65 ATAAAT
*
173430416 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
173430481 ATAAAT
65 ATAAAT
*
173430487 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
173430546 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:173430459 original size:41 final size:41
Alignment explanation
Indices: 173430414--173430531 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
173430404 TGAAAGATAA
173430414 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
173430455 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
173430485 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
173430526 ATGTAG
1 ATGTAG
173430532 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:173430471 original size:71 final size:71
Alignment explanation
Indices: 173430382--173430545 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
173430372 GAGATGTATC
173430382 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
173430447 AGGACA
66 AGGACA
173430453 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
173430518 AGGACA
66 AGGACA
173430524 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
173430546 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:173438587 original size:40 final size:40
Alignment explanation
Indices: 173438532--173438695 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
173438522 TGAATGAAAC
* * *
173438532 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
173438572 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
173438612 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
173438652 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
173438692 CCGG
1 CCGG
173438696 TTAAATCCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
39 3 0.03
40 95 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:173440868 original size:28 final size:28
Alignment explanation
Indices: 173440825--173440944 Score: 186
Period size: 28 Copynumber: 4.3 Consensus size: 28
173440815 TGGGAAGTAG
*
173440825 TTGGGCCTGATAGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
173440853 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
173440881 TCGGGCCTAATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
173440909 TTGGGCCAGATGGGCCATATGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
173440937 TTGGGCCT
1 TTGGGCCT
173440945 AAAGGGGCCA
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 83 1.00
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:173440913 original size:56 final size:56
Alignment explanation
Indices: 173440827--173440961 Score: 189
Period size: 56 Copynumber: 2.4 Consensus size: 56
173440817 GGAAGTAGTT
* * * * *
173440827 GGGCCTGATAGGCCATATGAATGTGATTGGGCCTGATGGGCCATATGAATGTGATC
1 GGGCCTAATGGGCCATATGAATGTGATTGGGCCAGATGGGCCATATGAACGAGATC
*
173440883 GGGCCTAATGGGCCATATGAATGTGATTGGGCCAGATGGGCCATATGAACGAGATT
1 GGGCCTAATGGGCCATATGAATGTGATTGGGCCAGATGGGCCATATGAACGAGATC
* *
173440939 GGGCCTAAAGGGGCCAAATGAAT
1 GGGCCT-AATGGGCCATATGAAT
173440962 AAGTGTGGAT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
56 56 0.80
57 14 0.20
ACGTcount: A:0.27, C:0.16, G:0.34, T:0.23
Consensus pattern (56 bp):
GGGCCTAATGGGCCATATGAATGTGATTGGGCCAGATGGGCCATATGAACGAGATC
Found at i:173441299 original size:27 final size:27
Alignment explanation
Indices: 173441269--173441625 Score: 390
Period size: 27 Copynumber: 13.4 Consensus size: 27
173441259 AGAAACTACT
173441269 GAAATACCCTCGATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTATC
*
173441296 GAAATATCCC-CGATTTGTAAAATTACC
1 GAAATA-CCCTCGATTTGTAAAATTATC
*
173441323 GAAATACCCTCGA-TTGTGAAATTA-C
1 GAAATACCCTCGATTTGTAAAATTATC
* *
173441348 TAAAATACCCTCGATTTTTAAAATTAT-
1 -GAAATACCCTCGATTTGTAAAATTATC
* * * *
173441375 GAAATACCCCCAATTTGTGAAATTACC
1 GAAATACCCTCGATTTGTAAAATTATC
*
173441402 GAAATACTCCT-GTTTTGTAAAATTA-C
1 GAAATAC-CCTCGATTTGTAAAATTATC
* * * *
173441428 TAAAAACCCACGA-TTGTGAAATTA-C
1 GAAATACCCTCGATTTGTAAAATTATC
* *
173441453 TAAAGTACCCTCGATTTGTAAAACTA-C
1 GAAA-TACCCTCGATTTGTAAAATTATC
* * *
173441480 AGAAATACCCTCTATTTGTGAAATTACC
1 -GAAATACCCTCGATTTGTAAAATTATC
*
173441508 GAAACACCCTCGATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTATC
*
173441535 AAAATACCCTCGATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTATC
*
173441562 GAAATACCCTCGATTTGTAAAATTATT
1 GAAATACCCTCGATTTGTAAAATTATC
* *
173441589 GAAACACCCCCGATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTATC
*
173441616 GAAACACCCT
1 GAAATACCCT
173441626 TGTAGTATAA
Statistics
Matches: 278, Mismatches: 40, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
25 18 0.06
26 59 0.21
27 192 0.69
28 9 0.03
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.31
Consensus pattern (27 bp):
GAAATACCCTCGATTTGTAAAATTATC
Found at i:173441485 original size:106 final size:105
Alignment explanation
Indices: 173441261--173441619 Score: 411
Period size: 106 Copynumber: 3.4 Consensus size: 105
173441251 TAAAAAAGAG
* * * *
173441261 AAACTACTGAAATACCCTCGATTTGTAAAATTATCGAAATA-TCCCCGATTTGTAAAATTACCGA
1 AAACTACTGAAATACCCCCGATTTGTAAAATTACCGAAATACT-CCTGATTTGTAAAATTA-CTA
* *
173441325 AATACCCTCGATTGTGAAATTACTAAAATACCCTCGATTTTTA
64 AAAACCCTCGATTGTGAAATTACT-AAATACCCTCGATTTGTA
* * * *
173441368 AAATTA-TGAAATACCCCCAATTTGTGAAATTACCGAAATACTCCTGTTTTGTAAAATTACTAAA
1 AAACTACTGAAATACCCCCGATTTGTAAAATTACCGAAATACTCCTGATTTGTAAAATTACTAAA
*
173441432 AACCCACGATTGTGAAATTACTAAAGTACCCTCGATTTGTA
66 AACCCTCGATTGTGAAATTACTAAA-TACCCTCGATTTGTA
* * * * *
173441473 AAACTACAGAAATACCCTCTATTTGTGAAATTACCGAAACAC-CCTCGATTTGTAAAATTA-TCA
1 AAACTACTGAAATACCCCCGATTTGTAAAATTACCGAAATACTCCT-GATTTGTAAAATTACT-A
* *
173441536 AAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
64 AAA-ACCCTCGA-TTGTGAAATTA-CTAAATACCCTCGATTTGTA
* * * *
173441581 AAATTATTGAAACACCCCCGATTTGTAAAATTATCGAAA
1 AAACTACTGAAATACCCCCGATTTGTAAAATTACCGAAA
173441620 CACCCTTGTA
Statistics
Matches: 216, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
104 3 0.01
105 47 0.22
106 93 0.43
107 13 0.06
108 56 0.26
109 4 0.02
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (105 bp):
AAACTACTGAAATACCCCCGATTTGTAAAATTACCGAAATACTCCTGATTTGTAAAATTACTAAA
AACCCTCGATTGTGAAATTACTAAATACCCTCGATTTGTA
Found at i:173441551 original size:81 final size:81
Alignment explanation
Indices: 173441260--173441652 Score: 442
Period size: 81 Copynumber: 4.9 Consensus size: 81
173441250 ATAAAAAAGA
* *
173441260 GAAACTACTGAAATACCCTCGATTTGTAAAATTATCGAAATATCCC-CGATTTGTAAAATTACCG
1 GAAATTACTGAAACACCCTCGATTTGTAAAATTATCGAAATA-CCCTCGATTTGTAAAATTACCG
173441324 AAATACCCTCGA-TTGT
65 AAATACCCTCGATTTGT
* * * * * *
173441340 GAAATTACTAAAATACCCTCGATTTTTAAAATTAT-GAAATACCCCCAATTTGTGAAATTACCGA
1 GAAATTACTGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCGA
*
173441404 AATACTCCT-GTTTTGT
66 AATAC-CCTCGATTTGT
* * * * * * *
173441420 AAAATTACT-AAAAACCCACGA-TTGTGAAATTA-CTAAAGTACCCTCGATTTGTAAAACTACAG
1 GAAATTACTGAAACACCCTCGATTTGTAAAATTATCGAAA-TACCCTCGATTTGTAAAATTACCG
*
173441482 AAATACCCTCTATTTGT
65 AAATACCCTCGATTTGT
* * *
173441499 GAAATTACCGAAACACCCTCGATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTATCGA
1 GAAATTACTGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCGA
173441564 AATACCCTCGATTTGT
66 AATACCCTCGATTTGT
* * * * * * * *
173441580 AAAATTATTGAAACACCCCCGATTTGTAAAATTATCGAAACACCCTTG-TAGTATAAAATTACTG
1 GAAATTACTGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTCGAT-TTGTAAAATTACCG
173441644 AAATACCCT
65 AAATACCCT
173441653 TGTAGTGTAA
Statistics
Matches: 263, Mismatches: 40, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
78 18 0.07
79 76 0.29
80 58 0.22
81 107 0.41
82 4 0.02
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (81 bp):
GAAATTACTGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCGA
AATACCCTCGATTTGT
Found at i:173441676 original size:27 final size:27
Alignment explanation
Indices: 173441604--173441695 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
173441594 ACCCCCGATT
* * *
173441604 TGTAAAATTATCGAAACACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* * *
173441631 TATAAAATTACTGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* *
173441658 TGTAAAATGACCGATATACCCCTGTA-
1 TGTAAAATGACCGAAATACCCTTGTAG
173441684 TGGTAAAATGAC
1 T-GTAAAATGAC
173441696 TATTTTGCCA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.02
27 54 0.98
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTGTAG
Found at i:173443642 original size:27 final size:27
Alignment explanation
Indices: 173443598--173443817 Score: 296
Period size: 27 Copynumber: 8.1 Consensus size: 27
173443588 AGGTTGTTAT
* *
173443598 ATGACCGTAATGGCCCTATAGGGTAAA
1 ATGACCGTAATGCCCCTGTAGGGTAAA
* * *
173443625 ATGTCTGTAATGCCCCTATAGGGTAAA
1 ATGACCGTAATGCCCCTGTAGGGTAAA
*
173443652 ATGACCGTAATGCCCCTGTAAGGTAAA
1 ATGACCGTAATGCCCCTGTAGGGTAAA
* *
173443679 ATGACCTTAATGCCCTTGTAGGGTAAA
1 ATGACCGTAATGCCCCTGTAGGGTAAA
***
173443706 ATGACAACAATGCCCCTGTAGGGTAAA
1 ATGACCGTAATGCCCCTGTAGGGTAAA
*
173443733 ATGACCGTAATGCCCCTATAGGGTAAA
1 ATGACCGTAATGCCCCTGTAGGGTAAA
*
173443760 ATGACCGTAATGCCCTTTGTAGGGTAAA
1 ATGACCGTAATGCCC-CTGTAGGGTAAA
* *
173443788 ATGACCGTAATACCCCTGTATGGTAAA
1 ATGACCGTAATGCCCCTGTAGGGTAAA
173443815 ATG
1 ATG
173443818 TCGATTATGC
Statistics
Matches: 169, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
27 145 0.86
28 24 0.14
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (27 bp):
ATGACCGTAATGCCCCTGTAGGGTAAA
Found at i:173443990 original size:27 final size:27
Alignment explanation
Indices: 173443960--173444012 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
173443950 GGAAGTTCTG
173443960 TACTGGTGGCTATGCCACAATTACTGA
1 TACTGGTGGCTATGCCACAATTACTGA
* * *
173443987 TACTTGTGGCTTTGCCACACTTACTG
1 TACTGGTGGCTATGCCACAATTACTG
173444013 TTCTGGTAAC
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:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (27 bp):
TACTGGTGGCTATGCCACAATTACTGA
Found at i:173444219 original size:28 final size:27
Alignment explanation
Indices: 173444179--173444238 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
173444169 ACTGTATTGT
*
173444179 TACTGCATTGGGCCTA-GGCCCACACTG
1 TACTGCATAGGG-CTAGGGCCCACACTG
* *
173444206 CTACTGTATAGGGCTAGGGCCCAGACTG
1 -TACTGCATAGGGCTAGGGCCCACACTG
173444234 TACTG
1 TACTG
173444239 ATACTAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.20, C:0.28, G:0.28, T:0.23
Consensus pattern (27 bp):
TACTGCATAGGGCTAGGGCCCACACTG
Found at i:173447627 original size:80 final size:80
Alignment explanation
Indices: 173447543--173447691 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
173447533 TATGGTAACC
* * * *
173447543 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
173447607 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
173447623 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
173447688 CCGG
66 CCGG
173447692 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:173447633 original size:40 final size:38
Alignment explanation
Indices: 173447584--173447691 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
173447574 ATCACGATTT
*
173447584 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
173447624 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
173447664 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
173447692 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:173457101 original size:28 final size:27
Alignment explanation
Indices: 173457069--173457136 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 27
173457059 GCGTAGATCA
173457069 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAG-AAAATTAC
173457097 CGAAATTACCCCTAAAGAGAAAATTAC
1 CGAAATTACCCCTAAAGAGAAAATTAC
*
173457124 CGATA-TACCCCTA
1 CGAAATTACCCCTA
173457137 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 8 0.21
27 12 0.31
28 19 0.49
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.19
Consensus pattern (27 bp):
CGAAATTACCCCTAAAGAGAAAATTAC
Found at i:173461353 original size:28 final size:28
Alignment explanation
Indices: 173461321--173461389 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
173461311 GCGTAGATCA
173461321 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
173461349 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
173461377 CGATA-TACCCCTA
1 CGAAATTACCCCTA
173461390 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:173465610 original size:28 final size:28
Alignment explanation
Indices: 173465578--173465645 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
173465568 GCGTAGATCA
173465578 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
173465606 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
173465634 CG-AA-TACCCCTA
1 CGAAATTACCCCTA
173465646 GGTTTTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 8 0.21
27 2 0.05
28 29 0.74
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:173467913 original size:55 final size:53
Alignment explanation
Indices: 173467783--173467915 Score: 131
Period size: 55 Copynumber: 2.4 Consensus size: 53
173467773 TGGATACCAA
* * * ** *
173467783 GTAAGACCATGACAAGGCATGGAATTGGTAAGTTTTACAAGGCAAGGAAATCAT
1 GTAAGACCATG-CAAGGCATGGCATTGATAACTGCTACAAGGCAAAGAAATCAT
* * * **
173467837 GTAAGACCATGTAAGAACATGGCATTGATAAACTGCTATAAGGCAAAGATCTCAT
1 GTAAGACCATGCAAG-GCATGGCATTGAT-AACTGCTACAAGGCAAAGAAATCAT
173467892 GTAAGACCATGCCAAGGCATGGCA
1 GTAAGACCATG-CAAGGCATGGCA
173467916 ATGGTGAGTT
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
53 3 0.05
54 21 0.33
55 36 0.57
56 3 0.05
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
GTAAGACCATGCAAGGCATGGCATTGATAACTGCTACAAGGCAAAGAAATCAT
Found at i:173472662 original size:28 final size:28
Alignment explanation
Indices: 173472612--173472718 Score: 123
Period size: 27 Copynumber: 3.9 Consensus size: 28
173472602 GGCTGCCAAA
* *
173472612 ACAGATAA-TGTGACAGAGTCACCAGAT
1 ACAGATAATTGTGGCAGAGCCACCAGAT
*
173472639 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAATTGTGGCAGAGCCACCAGAT
* *
173472666 ACAGA-AATATGTGGCAGAGCCGCCAAAT
1 ACAGATAAT-TGTGGCAGAGCCACCAGAT
*
173472694 -CAGATAATTGTGGCATAGCCACCAG
1 ACAGATAATTGTGGCAGAGCCACCAG
173472719 GACGCTTCCT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
26 3 0.04
27 46 0.69
28 18 0.27
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.16
Consensus pattern (28 bp):
ACAGATAATTGTGGCAGAGCCACCAGAT
Found at i:173474985 original size:23 final size:23
Alignment explanation
Indices: 173474942--173474985 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
173474932 TGACAATTTG
*
173474942 TAATGATATTATGGTGCGTGTGT
1 TAATGATATTATGGTACGTGTGT
* *
173474965 TAATGATATTTTGGTATGTGT
1 TAATGATATTATGGTACGTGT
173474986 AAGCTTTGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.23, C:0.02, G:0.27, T:0.48
Consensus pattern (23 bp):
TAATGATATTATGGTACGTGTGT
Found at i:173479404 original size:11 final size:11
Alignment explanation
Indices: 173479385--173479413 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
173479375 AGTTTTGTGA
173479385 AAAAT-AAAAT
1 AAAATAAAAAT
173479395 AAAATAAAAAT
1 AAAATAAAAAT
173479406 AAAATAAA
1 AAAATAAA
173479414 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:173483053 original size:14 final size:16
Alignment explanation
Indices: 173483018--173483054 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
173483008 AATTTTAATT
173483018 ATTATTATGAGATAAA
1 ATTATTATGAGATAAA
*
173483034 ATTATTATTAGA-AAA
1 ATTATTATGAGATAAA
173483049 A-TATTA
1 ATTATTA
173483055 CTGTATGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 5 0.25
15 4 0.20
16 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (16 bp):
ATTATTATGAGATAAA
Found at i:173483145 original size:3 final size:3
Alignment explanation
Indices: 173483139--173483207 Score: 129
Period size: 3 Copynumber: 23.0 Consensus size: 3
173483129 TTAGATATGT
*
173483139 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
173483187 TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
173483208 GTAATTAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:173487008 original size:2 final size:2
Alignment explanation
Indices: 173487001--173487030 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
173486991 ATGTGTTATG
173487001 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
173487031 GTGCATGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:173487092 original size:39 final size:39
Alignment explanation
Indices: 173487049--173487217 Score: 275
Period size: 39 Copynumber: 4.3 Consensus size: 39
173487039 TAATGGAGAA
* *
173487049 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
*
173487088 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
173487127 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
* * * *
173487166 TTATATCCGGGCTAAGCCCCGAAGGCATTCTTGTTGTTA
1 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
173487205 TTATATCCGGGCT
1 TTATATCCGGGCT
173487218 TAAAGTCCCG
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 124 1.00
ACGTcount: A:0.18, C:0.23, G:0.28, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
Found at i:173493309 original size:37 final size:39
Alignment explanation
Indices: 173493105--173493427 Score: 467
Period size: 38 Copynumber: 8.5 Consensus size: 39
173493095 TAATGGAGAA
173493105 TTATATCCGGGCTAAGTCCCGAAGGCATTTCGTGGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCA-TTCGT-GCTGGTG
173493146 TTATATCCGGGCTAAG-CCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
173493184 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
173493223 TTATATCC-GGCTAAGTCTCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
173493261 TTATAT-C-GGCTAAG-CCCTAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
173493297 -TATATCCGGGCTAAG--CCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
173493333 TTATATCCGGGCTAAGCCCCGAA-GC-TTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
173493370 TTATATCC-GG-TAAG-CCCGAAGGC-TTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
173493405 TTATATTCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
173493428 CATGCTTTGT
Statistics
Matches: 264, Mismatches: 6, Indels: 25
0.89 0.02 0.08
Matches are distributed among these distances:
34 6 0.02
35 29 0.11
36 45 0.17
37 50 0.19
38 61 0.23
39 43 0.16
40 14 0.05
41 16 0.06
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:173493416 original size:72 final size:77
Alignment explanation
Indices: 173493105--173493427 Score: 479
Period size: 72 Copynumber: 4.3 Consensus size: 77
173493095 TAATGGAGAA
173493105 TTATATCCGGGCTAAGTCCCGAAGGCATTTCGTGGCTGGTGTTATATCCGGGCTAAGCCCGAAGG
1 TTATATCCGGGCTAAGTCCCGAAGGCA-TTCGT-GCTGGTGTTATATCCGGGCTAAGCCCGAAGG
173493170 CATTCGTGCTGGTG
64 CATTCGTGCTGGTG
*
173493184 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCC-GGCTAAGTCTCGAAGGC
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAG-CCCGAAGGC
173493248 ATTCGTGCTGGTG
65 ATTCGTGCTGGTG
*
173493261 TTATAT-C-GGCTAAG-CCCTAAGGCATTCGTGCTGGTG-TATATCCGGGCTAAG-CCGAAGGCA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCGAAGGCA
173493321 TTCGTGCTGGTG
66 TTCGTGCTGGTG
*
173493333 TTATATCCGGGCTAAGCCCCGAA-GC-TTCGTGCTGGTGTTATATCC-GG-TAAGCCCGAAGGC-
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCGAAGGCA
*
173493393 TTCGTGCTGGTA
66 TTCGTGCTGGTG
*
173493405 TTATATTCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
173493428 CATGCTTTGT
Statistics
Matches: 228, Mismatches: 7, Indels: 23
0.88 0.03 0.09
Matches are distributed among these distances:
72 52 0.23
73 31 0.14
74 51 0.22
75 12 0.05
76 8 0.04
77 42 0.18
78 5 0.02
79 27 0.12
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.29
Consensus pattern (77 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCGAAGGCA
TTCGTGCTGGTG
Found at i:173502474 original size:40 final size:40
Alignment explanation
Indices: 173502430--173502572 Score: 139
Period size: 40 Copynumber: 3.6 Consensus size: 40
173502420 GTTCAAAACA
* * ***
173502430 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * *
173502470 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * * * * *
173502510 CCTTCGGG-CTTAGCCCGGGTATCATAGCTCGTACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
173502549 CCTTC-GG-CTTAGCCCGGATATCAC
1 CCTTCGGGACTTAGCCCGGATATCAC
173502573 TCGAACATTC
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 17 0.19
39 31 0.35
40 40 0.45
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
Found at i:173502571 original size:38 final size:39
Alignment explanation
Indices: 173502460--173502572 Score: 156
Period size: 39 Copynumber: 2.9 Consensus size: 39
173502450 TATGGTAACC
* *
173502460 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
173502500 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
173502539 CGTACAATTGCCTTC-GGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
173502573 TCGAACATTC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
38 17 0.26
39 31 0.48
40 17 0.26
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:173503457 original size:48 final size:48
Alignment explanation
Indices: 173503402--173503578 Score: 327
Period size: 48 Copynumber: 3.7 Consensus size: 48
173503392 GGCTGTCACA
173503402 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATGT
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATGT
* *
173503450 GTATATGTGGTAAAGCCGAAGGGCTAATGTGAAATATATGTGTGATAT
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATGT
173503498 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATGT
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATGT
*
173503546 GTATGTGTGGTAAAGCCGAATGGCTAATGTGAA
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAA
173503579 TGTTGTAACA
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 124 1.00
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.32
Consensus pattern (48 bp):
GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATGT
Found at i:173503672 original size:37 final size:37
Alignment explanation
Indices: 173503618--173503708 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
173503608 AACTTGGAAA
*
173503618 TATGTTCCGGGTGAGACCCGAGGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGAGGACTACGTGTGGAGAT
*
173503656 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGAGGACTACGTGTGGAGAT
173503693 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
173503709 TTCGTAATAA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 47 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.24
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGAGGACTACGTGTGGAGAT
Found at i:173505658 original size:40 final size:39
Alignment explanation
Indices: 173505612--173505828 Score: 204
Period size: 40 Copynumber: 5.5 Consensus size: 39
173505602 TGAATGATAC
*
173505612 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTG-ATATAT
* * *
173505652 CCGGGCTAAGACCCGAAGGCATTTGTG-TGAGTTGTTATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TGATATAT
* * * * *
173505692 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GATATAT
* * * *
173505732 CC-GGCTAAGTTCCGAAAAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCG-AAGGCATTTGTGCTAGTGATATAT
* * * *
173505771 CCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGTGATATAT
*
173505811 CCGGGCTAGGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
173505829 AGCAATCATG
Statistics
Matches: 148, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
39 20 0.14
40 125 0.84
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATATAT
Found at i:173509475 original size:22 final size:22
Alignment explanation
Indices: 173509450--173509525 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
173509440 AGATGTATTT
173509450 ATGTGATAAGGCCTAATGGCCA
1 ATGTGATAAGGCCTAATGGCCA
* * *
173509472 ATGTGATGAATG--TGAAAGTGCATA
1 ATGTGAT-AAGGCCT-AATG-GC-CA
173509496 TATGTGATAAGGCCTAATGGCCA
1 -ATGTGATAAGGCCTAATGGCCA
173509519 ATGTGAT
1 ATGTGAT
173509526 GAATGTGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
21 1 0.02
22 17 0.41
23 6 0.15
24 6 0.15
25 10 0.24
26 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCA
Found at i:173509611 original size:49 final size:47
Alignment explanation
Indices: 173509443--173509631 Score: 306
Period size: 47 Copynumber: 4.0 Consensus size: 47
173509433 ATGTAGGAGA
*
173509443 TGTATTTATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
*
173509490 TGCATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
* * *
173509537 AGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGG
1 TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
*
173509584 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
173509632 CATATGTGTG
Statistics
Matches: 132, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 89 0.67
49 43 0.33
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
Found at i:173509679 original size:48 final size:48
Alignment explanation
Indices: 173509623--173509870 Score: 451
Period size: 48 Copynumber: 5.2 Consensus size: 48
173509613 CGATGTGATG
* *
173509623 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAATGGCT
173509671 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAATGGCT
*
173509719 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAATGGCT
*
173509767 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAATGGCT
*
173509815 AATGTGAAATATATGTGTGATGTGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAATGGCT
173509863 AATGTGAA
1 AATGTGAA
173509871 TGTTGTAACA
Statistics
Matches: 193, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 193 1.00
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAATGGCT
Found at i:173509964 original size:36 final size:37
Alignment explanation
Indices: 173509910--173509999 Score: 155
Period size: 36 Copynumber: 2.4 Consensus size: 37
173509900 AACTTGGAAA
*
173509910 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
173509948 TATGTCCGGG-AAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
173509984 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
173510000 TTCGTAATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
36 35 0.70
37 11 0.22
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.24
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:173518463 original size:39 final size:39
Alignment explanation
Indices: 173518332--173518522 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
173518322 GGATATAACG
* ** **
173518332 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
173518372 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
173518412 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
173518450 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
173518490 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
173518523 CATCATTCGA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:173518467 original size:78 final size:80
Alignment explanation
Indices: 173518372--173518522 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
173518362 GGTTATAGCG
* * * *
173518372 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
173518434 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
173518450 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
173518515 AGCCCGGA
66 AGCCCGGA
173518523 CATCATTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.54
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:173525081 original size:40 final size:40
Alignment explanation
Indices: 173524954--173525083 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
173524944 ATGCTGGAAA
* * *
173524954 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
173524994 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
173525034 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
173525074 TTATATCCGG
1 TTATATCCGG
173525084 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:173525307 original size:23 final size:23
Alignment explanation
Indices: 173525281--173525326 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
173525271 TATATAATGA
173525281 TGAAGTGTGAAGTAA-GAATGATG
1 TGAA-TGTGAAGTAATGAATGATG
* *
173525304 TGAATGTGTATTAATGAATGATG
1 TGAATGTGAAGTAATGAATGATG
173525327 CATTTGGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (23 bp):
TGAATGTGAAGTAATGAATGATG
Found at i:173532934 original size:40 final size:40
Alignment explanation
Indices: 173532807--173532936 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
173532797 ATGCTGGAAA
* * *
173532807 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
173532847 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
173532887 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
173532927 TTATATCCGG
1 TTATATCCGG
173532937 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:173535271 original size:77 final size:80
Alignment explanation
Indices: 173535123--173535372 Score: 345
Period size: 77 Copynumber: 3.2 Consensus size: 80
173535113 AAACCAAGTA
* * *
173535123 CCTTCGGGATTTAAC-CGGATATAGCT-ACTCGCTCAAATG-CTTCGGGACTTAGCCCGG-ATAT
1 CCTTCGGGACTTAGCTCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-T
**
173535184 AGTAGTTCGCACAAATG
64 AGTAACTCGCACAAATG
*
173535201 CCTTCGAGACTTAG-T-GGATATAGTAACTCGCAC-AATGCCTTCGGGACTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
173535263 TAACTCGCACAAATG
66 TAACTCGCACAAATG
173535278 CCTTCGGGACTTAGCTCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
1 CCTTCGGGACTTAGCTCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
* *
173535342 GTCACTAGCACAAATG
65 GTAACTCGCACAAATG
173535358 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
173535373 CCCGTTATCA
Statistics
Matches: 155, Mismatches: 9, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
76 5 0.03
77 62 0.40
78 15 0.10
79 16 0.10
80 57 0.37
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
TAACTCGCACAAATG
Found at i:173535288 original size:40 final size:40
Alignment explanation
Indices: 173535149--173535374 Score: 320
Period size: 40 Copynumber: 5.8 Consensus size: 40
173535139 GGATATAGCT
*
173535149 ACTCGCTCAAATG-CTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
** * *
173535188 GTTCGCACAAATGCCTTCGAGACTTAG--TGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
173535226 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
173535265 ACTCGCACAAATGCCTTCGGGACTTAGCTCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
173535305 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
173535345 ACTAGCACAAATGCCTTCGGGACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
173535375 CGTTATCATC
Statistics
Matches: 169, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
37 17 0.10
38 16 0.09
39 25 0.15
40 111 0.66
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:173537549 original size:15 final size:15
Alignment explanation
Indices: 173537526--173537565 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
173537516 CAACTTCTCG
* *
173537526 TAATTATAATGAAAA
1 TAATAATAATCAAAA
*
173537541 TAATAATAATCCAAA
1 TAATAATAATCAAAA
173537556 TAATAATAAT
1 TAATAATAAT
173537566 AAGGAAGCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (15 bp):
TAATAATAATCAAAA
Found at i:173539534 original size:29 final size:28
Alignment explanation
Indices: 173539500--173539602 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
173539490 TACTCAATCA
*
173539500 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
173539529 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
173539558 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
173539587 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
173539603 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:173546910 original size:80 final size:80
Alignment explanation
Indices: 173546826--173546974 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
173546816 TATGGTAACC
* * * *
173546826 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
173546890 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
173546906 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
173546971 CCGG
66 CCGG
173546975 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:173546916 original size:40 final size:38
Alignment explanation
Indices: 173546867--173546974 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
173546857 ATCACGATTT
*
173546867 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
173546907 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
173546947 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
173546975 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:173555028 original size:80 final size:80
Alignment explanation
Indices: 173554944--173555092 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
173554934 TATGGTAACC
* * * *
173554944 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
173555008 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
173555024 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
173555089 CCGG
66 CCGG
173555093 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:173555034 original size:40 final size:38
Alignment explanation
Indices: 173554985--173555092 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
173554975 ATCACGATTT
*
173554985 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
173555025 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
173555065 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
173555093 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:173558978 original size:29 final size:28
Alignment explanation
Indices: 173558944--173559046 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 28
173558934 TACTCAATCA
*
173558944 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * **
173558973 CGCACACATAGTGCCATATAGTCCAAATT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
173559002 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
173559031 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
173559047 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
28 2 0.03
29 57 0.97
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:173561151 original size:29 final size:29
Alignment explanation
Indices: 173561108--173561207 Score: 114
Period size: 29 Copynumber: 3.5 Consensus size: 29
173561098 CATTAAAGCC
* *
173561108 AATCATATTCATATGGCCCATTAGGCCCA
1 AATCACATTTATATGGCCCATTAGGCCCA
*
173561137 AATCGC-TTGTATATGGCCCATTAGGCCCA
1 AATCACATT-TATATGGCCCATTAGGCCCA
* *
173561166 AATCACATTTATATGGCTCGTTAGGCCC-
1 AATCACATTTATATGGCCCATTAGGCCCA
* *
173561194 AGTCACATTCATAT
1 AATCACATTTATAT
173561208 TCATGCTCAC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 14 0.23
29 45 0.74
30 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (29 bp):
AATCACATTTATATGGCCCATTAGGCCCA
Found at i:173561899 original size:19 final size:21
Alignment explanation
Indices: 173561858--173561905 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 21
173561848 TAAGTGAAAC
173561858 AAAGAAAATTGTGTAGAGAAGA
1 AAAG-AAATTGTGTAGAGAAGA
*
173561880 ATAGAAATTG-GTAG-GAAGA
1 AAAGAAATTGTGTAGAGAAGA
173561899 AAAGAAA
1 AAAGAAA
173561906 GAAAAACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.46
20 4 0.17
21 6 0.25
22 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.27, T:0.17
Consensus pattern (21 bp):
AAAGAAATTGTGTAGAGAAGA
Found at i:173562553 original size:16 final size:16
Alignment explanation
Indices: 173562528--173562558 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
173562518 AAGTTTAGGA
*
173562528 TTTCGGGATTTTTGGG
1 TTTCGAGATTTTTGGG
173562544 TTTCGAGATTTTTGG
1 TTTCGAGATTTTTGG
173562559 AGCGTTACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.32, T:0.52
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:173563075 original size:14 final size:14
Alignment explanation
Indices: 173563056--173563085 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
173563046 TCTATCTAGT
173563056 CCATTAACTCTGGC
1 CCATTAACTCTGGC
173563070 CCATTAACTCTGGC
1 CCATTAACTCTGGC
173563084 CC
1 CC
173563086 TAGCCCTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.40, G:0.13, T:0.27
Consensus pattern (14 bp):
CCATTAACTCTGGC
Found at i:173565535 original size:29 final size:29
Alignment explanation
Indices: 173565472--173565568 Score: 117
Period size: 29 Copynumber: 3.4 Consensus size: 29
173565462 TTCACATACT
* * *
173565472 TGTATCTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
173565500 T-TCATATGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
*
173565529 TGTATATGGACCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
173565558 TTTATATGGCC
1 TGTATATGGCC
173565569 GGTTATGTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
27 1 0.02
28 17 0.29
29 39 0.67
30 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:173569385 original size:93 final size:93
Alignment explanation
Indices: 173569226--173569397 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
173569216 CGCCCATAAG
* *
173569226 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
173569291 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
173569319 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
173569384 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
173569398 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:173569394 original size:46 final size:46
Alignment explanation
Indices: 173569219--173569394 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
173569209 TGTAACCCGC
* * *
173569219 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
173569265 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
173569315 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
173569358 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
173569395 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:173583934 original size:28 final size:28
Alignment explanation
Indices: 173583865--173583965 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 28
173583855 GACAAGATTG
* * * *
173583865 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
173583895 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
173583923 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
*
173583952 GCCCTAAGTGTGCG
1 GCACTAAGTGTGCG
173583966 GATTCACTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 19 0.30
30 18 0.29
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:173587377 original size:24 final size:24
Alignment explanation
Indices: 173587338--173587394 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
173587328 GCAAACACAA
*
173587338 ACATAGCTCTTCATGAGCATCCTG
1 ACATGGCTCTTCATGAGCATCCTG
* *
173587362 ATATAGGCTCTT-ATGAGCTTCCTG
1 ACAT-GGCTCTTCATGAGCATCCTG
173587386 ACATGGCTC
1 ACATGGCTC
173587395 GCTTGAACTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 5 0.18
24 17 0.61
25 6 0.21
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (24 bp):
ACATGGCTCTTCATGAGCATCCTG
Found at i:173589921 original size:28 final size:27
Alignment explanation
Indices: 173589858--173589927 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
173589848 ATAGTGAGTC
*
173589858 CGCACACTTAGTGCCATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
173589885 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
173589913 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
173589928 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:173596948 original size:28 final size:28
Alignment explanation
Indices: 173596908--173596977 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
173596898 GCAATCAAAT
* *
173596908 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
173596936 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
*
173596964 ATGACACTTAGTGT
1 ATGGCACTTAGTGT
173596978 GCATTCAAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:173596978 original size:28 final size:28
Alignment explanation
Indices: 173596917--173596979 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
173596907 TATGGTACTC
* *
173596917 AGTGTACGAAATATTGAGAATGGCACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
173596945 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
173596973 AGTGTGC
1 AGTGTGC
173596980 ATTCAAAGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.29
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:173612584 original size:40 final size:40
Alignment explanation
Indices: 173612499--173612649 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
173612489 AATTGAATGA
* * *
173612499 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
173612539 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
173612580 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
173612619 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
173612650 ACGTGATTAT
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:173612663 original size:40 final size:40
Alignment explanation
Indices: 173612535--173612665 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
173612525 TATGCTGGAA
* * *
173612535 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
173612575 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
173612615 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
173612655 ATTATATCCGG
1 ATTATATCCGG
173612666 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:173622253 original size:71 final size:71
Alignment explanation
Indices: 173622169--173622332 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
173622159 CGATTTGTCT
173622169 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
173622234 CTTTCA
66 CTTTCA
173622240 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
173622305 CTTTCA
66 CTTTCA
173622311 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
173622333 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:173622370 original size:71 final size:70
Alignment explanation
Indices: 173622169--173622366 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
173622159 CGATTTGTCT
* * * *
173622169 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
173622234 CTTTCA
65 CTTTCA
* * * *
173622240 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
173622305 CTTTCA
65 CTTTCA
* *
173622311 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
173622367 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:173629791 original size:71 final size:71
Alignment explanation
Indices: 173629707--173629870 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
173629697 CGATTTGTCT
173629707 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
173629772 CTTTCA
66 CTTTCA
173629778 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
173629843 CTTTCA
66 CTTTCA
173629849 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
173629871 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:173629908 original size:71 final size:70
Alignment explanation
Indices: 173629707--173629904 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
173629697 CGATTTGTCT
* * * *
173629707 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
173629772 CTTTCA
65 CTTTCA
* * * *
173629778 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
173629843 CTTTCA
65 CTTTCA
* *
173629849 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
173629905 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:173641631 original size:38 final size:40
Alignment explanation
Indices: 173641539--173641634 Score: 115
Period size: 40 Copynumber: 2.5 Consensus size: 40
173641529 ACGGTACTTT
* * * *
173641539 ATGGTGTGTAGGGTTGGATGGGTCGTTTTTATCCCCATAT
1 ATGGTGTGTAGGGATGGGTGGGTCGATTTTATCCCCATAC
* *
173641579 GTGGTGTGTAGGGATGGGTGGGTTGATTTTAT-CCC-TAC
1 ATGGTGTGTAGGGATGGGTGGGTCGATTTTATCCCCATAC
*
173641617 ATGGTGTGTTGGGATGGG
1 ATGGTGTGTAGGGATGGG
173641635 CAGAGTTGGT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 18 0.38
39 3 0.06
40 27 0.56
ACGTcount: A:0.14, C:0.09, G:0.40, T:0.38
Consensus pattern (40 bp):
ATGGTGTGTAGGGATGGGTGGGTCGATTTTATCCCCATAC
Found at i:173643262 original size:15 final size:15
Alignment explanation
Indices: 173643239--173643278 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
173643229 CAACTTCTCG
* *
173643239 TAATTATAATGAAAA
1 TAATAATAATCAAAA
*
173643254 TAATAATAATCCAAA
1 TAATAATAATCAAAA
173643269 TAATAATAAT
1 TAATAATAAT
173643279 AAGGAAGCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (15 bp):
TAATAATAATCAAAA
Found at i:173645249 original size:29 final size:28
Alignment explanation
Indices: 173645215--173645317 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
173645205 TACTCAATCA
*
173645215 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
173645244 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
173645273 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
173645302 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
173645318 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:173652623 original size:80 final size:80
Alignment explanation
Indices: 173652539--173652687 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
173652529 TATGGTAACC
* * * *
173652539 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
173652603 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
173652619 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
173652684 CCGG
66 CCGG
173652688 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:173652629 original size:40 final size:38
Alignment explanation
Indices: 173652580--173652687 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
173652570 ATCACGATTT
*
173652580 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
173652620 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
173652660 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
173652688 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:173660730 original size:80 final size:80
Alignment explanation
Indices: 173660646--173660794 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
173660636 TATGGTAACC
* * * *
173660646 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
173660710 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
173660726 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
173660791 CCGG
66 CCGG
173660795 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:173660736 original size:40 final size:38
Alignment explanation
Indices: 173660687--173660794 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
173660677 ATCACGATTT
*
173660687 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
173660727 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
173660767 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
173660795 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:173664373 original size:40 final size:40
Alignment explanation
Indices: 173664247--173664375 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
173664237 ATGCTGGAAA
* *
173664247 TTATA-CCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
173664286 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
173664326 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
173664366 TTATATCCGG
1 TTATATCCGG
173664376 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 7 0.09
40 68 0.91
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:173672328 original size:40 final size:41
Alignment explanation
Indices: 173672283--173672392 Score: 133
Period size: 39 Copynumber: 2.8 Consensus size: 41
173672273 CTGGAAATTA
* *
173672283 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGT--CATAC
*
173672324 -ATCCGGGCTAAGA-CCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATAC
173672362 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGC
173672393 ACGTGGTTAT
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
37 1 0.02
38 5 0.08
39 28 0.45
40 28 0.45
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (41 bp):
TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATAC
Found at i:173672406 original size:40 final size:40
Alignment explanation
Indices: 173672280--173672408 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
173672270 ATGCTGGAAA
* *
173672280 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
173672320 CTACATCCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
173672359 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
173672399 TTATATCCGG
1 TTATATCCGG
173672409 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
38 3 0.04
39 30 0.41
40 41 0.55
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:173680332 original size:40 final size:39
Alignment explanation
Indices: 173680287--173680494 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
173680277 CGGAATACAA
*
173680287 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
173680327 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
173680367 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
173680407 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
173680447 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
173680487 CCGGATAT
1 CCGGATAT
173680495 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:173680427 original size:80 final size:80
Alignment explanation
Indices: 173680287--173680493 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
173680277 CGGAATACAA
* * *
173680287 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
173680351 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
173680367 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
173680431 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
173680447 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
173680494 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:173688382 original size:40 final size:39
Alignment explanation
Indices: 173688337--173688544 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
173688327 CGGAATACAA
*
173688337 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
173688377 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
173688417 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
173688457 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
173688497 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
173688537 CCGGATAT
1 CCGGATAT
173688545 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:173688477 original size:80 final size:80
Alignment explanation
Indices: 173688337--173688543 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
173688327 CGGAATACAA
* * *
173688337 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
173688401 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
173688417 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
173688481 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
173688497 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
173688544 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:173693529 original size:27 final size:28
Alignment explanation
Indices: 173693472--173693541 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
173693462 AAATTTGTAC
**
173693472 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
173693500 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
173693527 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
173693542 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:173693550 original size:27 final size:27
Alignment explanation
Indices: 173693472--173693553 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
173693462 AAATTTGTAC
* *
173693472 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
173693500 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
173693527 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
173693554 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:173701456 original size:27 final size:28
Alignment explanation
Indices: 173701399--173701468 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
173701389 AAATTTGTAC
**
173701399 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
173701427 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
173701454 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
173701469 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:173701477 original size:27 final size:27
Alignment explanation
Indices: 173701399--173701480 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
173701389 AAATTTGTAC
* *
173701399 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
173701427 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
173701454 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
173701481 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:173712852 original size:41 final size:40
Alignment explanation
Indices: 173712717--173712851 Score: 141
Period size: 40 Copynumber: 3.4 Consensus size: 40
173712707 ACTATGTCTG
** * * *
173712717 GCACTTAGTGTGCGTTTTGAGATAGCTTTGTCTATATAAA
1 GCACTTAGTGTGCGGATTGAGATAGCTTTGGCTATATGAT
* * *
173712757 ACACTTATTGTGC-GATTCG-GAGTAGCTTCGGCTATATG-T
1 GCACTTAGTGTGCGGATT-GAGA-TAGCTTTGGCTATATGAT
173712796 GGCACTTAGTGTGCGAGATTGAGATAGCTTTGGCTATATGAT
1 -GCACTTAGTGTGCG-GATTGAGATAGCTTTGGCTATATGAT
173712838 GCACTTAGTGTGCG
1 GCACTTAGTGTGCG
173712852 AAATTATAAT
Statistics
Matches: 77, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
39 4 0.05
40 36 0.47
41 30 0.39
42 7 0.09
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (40 bp):
GCACTTAGTGTGCGGATTGAGATAGCTTTGGCTATATGAT
Found at i:173713968 original size:22 final size:22
Alignment explanation
Indices: 173713940--173713983 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
173713930 GTAACCCCTA
173713940 AATGTAAGAAAATTTTCTATAT
1 AATGTAAGAAAATTTTCTATAT
173713962 AATGTAAGAAAATTTTCTATAT
1 AATGTAAGAAAATTTTCTATAT
173713984 TTTAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (22 bp):
AATGTAAGAAAATTTTCTATAT
Found at i:173714952 original size:15 final size:17
Alignment explanation
Indices: 173714922--173714953 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
173714912 TTGATACTTG
173714922 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
173714939 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
173714954 AATTATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:173717456 original size:93 final size:93
Alignment explanation
Indices: 173717344--173717515 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
173717334 CGCCCATAAG
* *
173717344 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
173717409 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
173717437 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
173717502 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
173717516 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:173717512 original size:46 final size:46
Alignment explanation
Indices: 173717337--173717512 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
173717327 TGTAACCCGC
* * *
173717337 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
173717383 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
173717433 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
173717476 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
173717513 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:173725027 original size:93 final size:93
Alignment explanation
Indices: 173724915--173725086 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
173724905 CGCCCATAAG
* *
173724915 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
173724980 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
173725008 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
173725073 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
173725087 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:173725083 original size:46 final size:46
Alignment explanation
Indices: 173724908--173725083 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
173724898 TGTAACCCGC
* * *
173724908 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
173724954 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
173725004 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
173725047 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
173725084 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:173727305 original size:10 final size:10
Alignment explanation
Indices: 173727290--173727323 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
173727280 AATGAGCTAA
173727290 AAAATTCCAG
1 AAAATTCCAG
*
173727300 AAAATTTCAAG
1 AAAA-TTCCAG
173727311 AAAATTCCAG
1 AAAATTCCAG
173727321 AAA
1 AAA
173727324 GCTCCTTTTT
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:0.56, C:0.15, G:0.09, T:0.21
Consensus pattern (10 bp):
AAAATTCCAG
Found at i:173727957 original size:56 final size:59
Alignment explanation
Indices: 173727883--173727997 Score: 155
Period size: 56 Copynumber: 2.0 Consensus size: 59
173727873 ACATATTTGT
* * * *
173727883 AACATGTATTTAAGCTAAAACACCAATTAAATTCGGCTGTAGCTA-GACATATTAAAAA
1 AACATGTATATAAGCTAAAACACAAATTAAATTCGGCTGTACCTAGGACACATTAAAAA
* *
173727941 AACATGTA-ATAA-CTAAAACACAAATTAAATTTGGTTGTACCTAGGACACATTAAAAA
1 AACATGTATATAAGCTAAAACACAAATTAAATTCGGCTGTACCTAGGACACATTAAAAA
173727998 TATGTATTAG
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
56 27 0.54
57 15 0.30
58 8 0.16
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (59 bp):
AACATGTATATAAGCTAAAACACAAATTAAATTCGGCTGTACCTAGGACACATTAAAAA
Found at i:173729361 original size:48 final size:48
Alignment explanation
Indices: 173729303--173729413 Score: 195
Period size: 48 Copynumber: 2.3 Consensus size: 48
173729293 ATATACACAC
* *
173729303 ATCTCCTACATATTTCACACTGGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
173729351 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
173729399 ATCTCATATATATTT
1 ATCTCATACATATTT
173729414 ATCTTGTACA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Done.