Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 78 of 295
Found at i:24218769 original size:22 final size:22
Alignment explanation
Indices: 24218742--24218863 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
24218732 CATGTGTATG
24218742 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
24218764 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
24218789 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
24218811 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
24218836 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
24218858 TGTGAT
1 TGTGAT
24218864 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:24222505 original size:16 final size:16
Alignment explanation
Indices: 24222486--24222526 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
24222476 TGAAACCGGC
24222486 AAAAGCTGAAAAGCCG
1 AAAAGCTGAAAAGCCG
* *
24222502 AAAAGCCGAAAAGTCG
1 AAAAGCTGAAAAGCCG
24222518 AAAAG-TGAA
1 AAAAGCTGAA
24222527 CAGTTGACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.54, C:0.15, G:0.24, T:0.07
Consensus pattern (16 bp):
AAAAGCTGAAAAGCCG
Found at i:24224310 original size:38 final size:38
Alignment explanation
Indices: 24224268--24224345 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
24224258 AATCGGCATG
24224268 AGCTGTAGCAAATTTAATTAAAAACAAAGTTAAAACTT
1 AGCTGTAGCAAATTTAATTAAAAACAAAGTTAAAACTT
24224306 AGCTGTAGCAAATTTAATTAAAAACAAAGTTAAAACTT
1 AGCTGTAGCAAATTTAATTAAAAACAAAGTTAAAACTT
24224344 AG
1 AG
24224346 TTTATTGTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (38 bp):
AGCTGTAGCAAATTTAATTAAAAACAAAGTTAAAACTT
Found at i:24224392 original size:21 final size:20
Alignment explanation
Indices: 24224364--24224413 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 20
24224354 AAAGGAAAAG
24224364 AAATGAGCTAAAACGAGCTA
1 AAATGAGCTAAAACGAGCTA
* *
24224384 AAATCGAGCTCAAACGAGCTG
1 AAAT-GAGCTAAAACGAGCTA
24224405 AAATGAGCT
1 AAATGAGCT
24224414 GAAGTGAGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (20 bp):
AAATGAGCTAAAACGAGCTA
Found at i:24224414 original size:10 final size:10
Alignment explanation
Indices: 24224363--24224425 Score: 63
Period size: 10 Copynumber: 6.2 Consensus size: 10
24224353 TAAAGGAAAA
24224363 GAAATGAGCT
1 GAAATGAGCT
* *
24224373 AAAACGAGCT
1 GAAATGAGCT
*
24224383 AAAATCGAGCT
1 GAAAT-GAGCT
* *
24224394 CAAACGAGCT
1 GAAATGAGCT
24224404 GAAATGAGCT
1 GAAATGAGCT
*
24224414 GAAGTGAGCT
1 GAAATGAGCT
24224424 GA
1 GA
24224426 TTGGAGCTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
10 36 0.82
11 8 0.18
ACGTcount: A:0.41, C:0.16, G:0.27, T:0.16
Consensus pattern (10 bp):
GAAATGAGCT
Found at i:24226481 original size:12 final size:12
Alignment explanation
Indices: 24226464--24226490 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24226454 CATTTTCTTC
24226464 TCACATTCTTTT
1 TCACATTCTTTT
24226476 TCACATTCTTTT
1 TCACATTCTTTT
24226488 TCA
1 TCA
24226491 ATTTCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.56
Consensus pattern (12 bp):
TCACATTCTTTT
Found at i:24230944 original size:21 final size:21
Alignment explanation
Indices: 24230918--24230973 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
24230908 AGATCTTCAC
24230918 TTTTTTTTTTAATTTCGTATT
1 TTTTTTTTTTAATTTCGTATT
**
24230939 TTTTTTTTGAAATTTCGTATT
1 TTTTTTTTTTAATTTCGTATT
*
24230960 TCTCTTTTTTTAAT
1 T-TTTTTTTTTAAT
24230974 ACCTCACAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTTTTTTTTAATTTCGTATT
Found at i:24232410 original size:10 final size:10
Alignment explanation
Indices: 24232397--24232449 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
24232387 TAAATGAAAA
24232397 GAAATGAGCT
1 GAAATGAGCT
*
24232407 GAAACGAGCT
1 GAAATGAGCT
*
24232417 AAAATCGAGCT
1 GAAAT-GAGCT
*
24232428 GAAACGAGCT
1 GAAATGAGCT
* *
24232438 CAAGTGAGCT
1 GAAATGAGCT
24232448 GA
1 GA
24232450 TTGGAGCTGA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
10 25 0.76
11 8 0.24
ACGTcount: A:0.40, C:0.17, G:0.28, T:0.15
Consensus pattern (10 bp):
GAAATGAGCT
Found at i:24232426 original size:21 final size:20
Alignment explanation
Indices: 24232398--24232449 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
24232388 AAATGAAAAG
24232398 AAATGAGCTGAAACGAGCTA
1 AAATGAGCTGAAACGAGCTA
*
24232418 AAATCGAGCTGAAACGAGCTC
1 AAAT-GAGCTGAAACGAGCTA
*
24232439 AAGTGAGCTGA
1 AAATGAGCTGA
24232450 TTGGAGCTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 11 0.38
21 18 0.62
ACGTcount: A:0.40, C:0.17, G:0.27, T:0.15
Consensus pattern (20 bp):
AAATGAGCTGAAACGAGCTA
Found at i:24232427 original size:11 final size:10
Alignment explanation
Indices: 24232397--24232437 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
24232387 TAAATGAAAA
*
24232397 GAAATGAGCT
1 GAAACGAGCT
24232407 GAAACGAGCT
1 GAAACGAGCT
*
24232417 AAAATCGAGCT
1 GAAA-CGAGCT
24232428 GAAACGAGCT
1 GAAACGAGCT
24232438 CAAGTGAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.41, C:0.17, G:0.27, T:0.15
Consensus pattern (10 bp):
GAAACGAGCT
Found at i:24232965 original size:34 final size:34
Alignment explanation
Indices: 24232886--24232951 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
24232876 TTGTTTGCAT
*
24232886 ACTG-TACTGAAATGGGCTAAGGCCCAGACTACC
1 ACTGTTACTGAAACGGGCTAAGGCCCAGACTACC
*
24232919 ACTGTTACTGAAACGGGCTCAGGCCCAGACTAC
1 ACTGTTACTGAAACGGGCTAAGGCCCAGACTAC
24232952 TTCTGCTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 4 0.13
34 26 0.87
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (34 bp):
ACTGTTACTGAAACGGGCTAAGGCCCAGACTACC
Found at i:24237818 original size:50 final size:52
Alignment explanation
Indices: 24237730--24237828 Score: 157
Period size: 50 Copynumber: 1.9 Consensus size: 52
24237720 TTGCATGACT
* *
24237730 TAATTTAATGATGCAAACTTTAACTATCATGGGAGTTACATAATACATGCCA
1 TAATTTAATGATGCAAACTTTAACTAACATGAGAGTTACATAATACATGCCA
*
24237782 TAATTT-ATGATGCAAAC-TTAACTAACATGAGAGTTACATAATGCATG
1 TAATTTAATGATGCAAACTTTAACTAACATGAGAGTTACATAATACATG
24237829 ACTTTATTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 27 0.61
51 11 0.25
52 6 0.14
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (52 bp):
TAATTTAATGATGCAAACTTTAACTAACATGAGAGTTACATAATACATGCCA
Found at i:24237934 original size:39 final size:39
Alignment explanation
Indices: 24237854--24237934 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
24237844 TTACAAATAT
* **
24237854 TAATGATGTCCAAACTATGACATAATTAAAGACTCGTAC
1 TAATGATGTCCAAACTATGACATAATTAAAGACACAAAC
*
24237893 TAATGATGTTCAAACTATGACATAATTAAAGACACAAAC
1 TAATGATGTCCAAACTATGACATAATTAAAGACACAAAC
24237932 TAA
1 TAA
24237935 ATAACTAAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (39 bp):
TAATGATGTCCAAACTATGACATAATTAAAGACACAAAC
Found at i:24258859 original size:44 final size:44
Alignment explanation
Indices: 24258717--24258920 Score: 159
Period size: 44 Copynumber: 4.7 Consensus size: 44
24258707 TTCACCAAGC
* * * * *
24258717 CTTAACCCCCTAAGCAGTAGGGTAATAGGTTGAA-TTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAAGATGAAGTTCATAGAT
* * *
24258760 CTTAACCCCCTAAGCAGTAGGGAAAC-AGATCGAAG-GCGACTAGCT
1 CTTAACCCCCTAAGCAGTAGGGTAACAAGAT-GAAGTTC-A-TAGAT
* *
24258805 -TTAGCCCCCTAAGCAGTAGGGTAACAAGCTGAAGTTCATAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAAGATGAAGTTCATAGAT
* * * * * * *
24258848 CTTATCACCCTAAGCAGTAAGGAAAC-AGATCGAAGATAAT-GAA
1 CTTAACCCCCTAAGCAGTAGGGTAACAAGAT-GAAGTTCATAGAT
*
24258891 CTTTAACCCCCTAACCAGTAGGGTAACAAG
1 C-TTAACCCCCTAAGCAGTAGGGTAACAAG
24258921 CCAAATTTAC
Statistics
Matches: 125, Mismatches: 26, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
42 2 0.02
43 37 0.30
44 77 0.62
45 9 0.07
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (44 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAAGATGAAGTTCATAGAT
Found at i:24258872 original size:88 final size:87
Alignment explanation
Indices: 24258718--24258921 Score: 257
Period size: 88 Copynumber: 2.3 Consensus size: 87
24258708 TCACCAAGCC
* * * * * *
24258718 TTAACCCCCTAAGCAGTAGGGTAATAGGTTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATTCACAGATCTTAACACCCTAAGCAGTAAGGA
* * *
24258783 AACAGATCGAAGGCGACT-AGCT
66 AACAGATCGAA-GAGAATGAACT
* * *
24258805 TTAGCCCCCTAAGCAGTAGGGTAACAAGCTGAAGTTCATAGATCTTATCACCCTAAGCAGTAAGG
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAA-TTCACAGATCTTAACACCCTAAGCAGTAAGG
*
24258870 AAACAGATCGAAGATAATGAACT
65 AAACAGATCGAAGAGAATGAACT
*
24258893 TTAACCCCCTAACCAGTAGGGTAACAAGC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGC
24258922 CAAATTTACA
Statistics
Matches: 100, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
87 32 0.32
88 68 0.68
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (87 bp):
TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATTCACAGATCTTAACACCCTAAGCAGTAAGGA
AACAGATCGAAGAGAATGAACT
Found at i:24261391 original size:22 final size:20
Alignment explanation
Indices: 24261365--24261407 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
24261355 ACTTTATGTG
*
24261365 TTATTCATTTTAAATCATTTTA
1 TTATTCACTTTAAA--ATTTTA
*
24261387 TTATTTACTTTAAAATTTTA
1 TTATTCACTTTAAAATTTTA
24261407 T
1 T
24261408 ATCTATTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (20 bp):
TTATTCACTTTAAAATTTTA
Found at i:24284796 original size:33 final size:33
Alignment explanation
Indices: 24284744--24284831 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 33
24284734 TACAGTGTTG
*
24284744 AACAGTCTGGG-CTTGAGCCCATACTAACAGCAAT
1 AACAGTGTGGGCCTT-AGCCCATAC-AACAGCAAT
* ** *
24284778 ATCAGTG-GGGCCTTAGCCCAATACAGTAGCAGT
1 AACAGTGTGGGCCTTAGCCC-ATACAACAGCAAT
24284811 AACAGTGTGGGCCTTAGCCCA
1 AACAGTGTGGGCCTTAGCCCA
24284832 ATTTAGTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
33 21 0.47
34 24 0.53
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.20
Consensus pattern (33 bp):
AACAGTGTGGGCCTTAGCCCATACAACAGCAAT
Found at i:24289332 original size:18 final size:17
Alignment explanation
Indices: 24289311--24289345 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
24289301 AAATTTAAAG
24289311 AGAGTGAACAAAAAGAGA
1 AGAGTGAA-AAAAAGAGA
*
24289329 AGAGTGAAAAAGAGAGA
1 AGAGTGAAAAAAAGAGA
24289346 GAAAAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.03, G:0.31, T:0.06
Consensus pattern (17 bp):
AGAGTGAAAAAAAGAGA
Found at i:24296544 original size:54 final size:54
Alignment explanation
Indices: 24296443--24296584 Score: 223
Period size: 54 Copynumber: 2.6 Consensus size: 54
24296433 ATGGAGGAAG
*
24296443 TGTCCTGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATC
1 TGTCCTGGTGGCTATGCCACAA-TTATCTGATCTGGTGGCTCTGCCACATATATC
24296498 TGTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATC
1 TGTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATC
* * *
24296552 TGTTCTAGTGGCTCTGCCACAA-TATCTGTATCT
1 TGTCCTGGTGGCTATGCCACAATTATCTG-ATCT
24296585 AGTGACTTCG
Statistics
Matches: 82, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
53 6 0.07
54 54 0.66
55 22 0.27
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.35
Consensus pattern (54 bp):
TGTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATC
Found at i:24296585 original size:27 final size:27
Alignment explanation
Indices: 24296447--24296606 Score: 159
Period size: 27 Copynumber: 5.9 Consensus size: 27
24296437 AGGAAGTGTC
* *
24296447 CTGGTGGCTATGCCACAATTTATCT-AAT
1 CTGGTGGCTCTGCCACAA--TATCTGTAT
*
24296475 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
24296502 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
24296529 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
24296556 CTAGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* * *
24296583 CTAGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
24296607 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 9, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
26 10 0.09
27 87 0.76
28 17 0.15
29 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:24296600 original size:81 final size:81
Alignment explanation
Indices: 24296447--24296606 Score: 191
Period size: 81 Copynumber: 2.0 Consensus size: 81
24296437 AGGAAGTGTC
* * * *
24296447 CTGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTA
1 CTGGTGGCTATGCCACAATATATCTAATCTAGTGGCTCTGCCACATATATCTGTCCTAGTGACTA
24296512 TGCCACAATTATCTGAT
66 TGCCACAA-TATCTGAT
* ** *
24296529 CTGGTGGCTCTGCCAC-ATATATCTGTTCTAGTGGCTCTGCCACA-ATATCTGTATCTAGTGACT
1 CTGGTGGCTATGCCACAATATATCTAATCTAGTGGCTCTGCCACATATATCTGT-CCTAGTGACT
*
24296592 -TCGTCACAATATCTG
65 AT-GCCACAATATCTG
24296607 GCAGCCTCGC
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
80 15 0.22
81 37 0.55
82 15 0.22
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAATATATCTAATCTAGTGGCTCTGCCACATATATCTGTCCTAGTGACTA
TGCCACAATATCTGAT
Found at i:24304488 original size:27 final size:25
Alignment explanation
Indices: 24304447--24304549 Score: 116
Period size: 27 Copynumber: 3.9 Consensus size: 25
24304437 ATTTATCTAA
24304447 TCTGGTGGCTCTGCCACATATATTTG
1 TCTGGTGGCTCTGCCACA-ATATTTG
* * *
24304473 TCCTGGTAGCTATGCCACAATTATCTG
1 T-CTGGTGGCTCTGCCACAA-TATTTG
24304500 ATCTGGTGGCTCTGCCACATATATTTG
1 -TCTGGTGGCTCTGCCACA-ATATTTG
*
24304527 TTCTAGTGGCTCTGCCACAATAT
1 -TCTGGTGGCTCTGCCACAATAT
24304550 CTGTATCTGG
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
26 6 0.09
27 57 0.88
28 2 0.03
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (25 bp):
TCTGGTGGCTCTGCCACAATATTTG
Found at i:24304512 original size:54 final size:54
Alignment explanation
Indices: 24304417--24304561 Score: 220
Period size: 54 Copynumber: 2.7 Consensus size: 54
24304407 TGGAGGAAGC
*
24304417 GTCCTAGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATTT
1 GTCCTAGTGGCTATGCCACAA-TTATCTGATCTGGTGGCTCTGCCACATATATTT
* *
24304472 GTCCTGGTAGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATTT
1 GTCCTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATTT
* *
24304526 GTTCTAGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTAGTGGCTATGCCACAATTATCTG-ATCTGGTG
24304562 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 6 0.07
54 57 0.70
55 19 0.23
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (54 bp):
GTCCTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATTT
Found at i:24305887 original size:52 final size:50
Alignment explanation
Indices: 24305830--24305952 Score: 156
Period size: 50 Copynumber: 2.4 Consensus size: 50
24305820 ATGAACAAAT
* * * *
24305830 GAGTTACTTATTGCATGACTTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACTTAAATT-ATGATGCAAAC-TTAACTAACATGA
* * * *
24305882 GAGTTACAAAATGCATGCCATAAATTATGATGTAAACTTAACTAACATGA
1 GAGTTACATAATGCATGACTTAAATTATGATGCAAACTTAACTAACATGA
24305932 GAGTTACATAATGCATGACTT
1 GAGTTACATAATGCATGACTT
24305953 TGTTAAATGC
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 30 0.50
51 10 0.17
52 20 0.33
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (50 bp):
GAGTTACATAATGCATGACTTAAATTATGATGCAAACTTAACTAACATGA
Found at i:24310497 original size:53 final size:53
Alignment explanation
Indices: 24310318--24310524 Score: 189
Period size: 53 Copynumber: 3.8 Consensus size: 53
24310308 ATTAGGGTTT
* * * * *
24310318 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * * * * *
24310372 AAGGAAATCGTGTAAGACCATGTCAAGATATGCCATTGATAAACTACAATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * *
24310427 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGCC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
24310480 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
24310525 TAAAAAGAAA
Statistics
Matches: 117, Mismatches: 34, Indels: 5
0.75 0.22 0.03
Matches are distributed among these distances:
53 45 0.38
54 35 0.30
55 37 0.32
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:24313782 original size:33 final size:33
Alignment explanation
Indices: 24313740--24313810 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
24313730 TTCCTTTTCC
*
24313740 ACATATCGATACATTGGTGGATAACACAGCCAA
1 ACATTTCGATACATTGGTGGATAACACAGCCAA
24313773 ACATTTCGATACATTGGTGGATAACACAGCCAA
1 ACATTTCGATACATTGGTGGATAACACAGCCAA
24313806 ACATT
1 ACATT
24313811 CATTGTTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (33 bp):
ACATTTCGATACATTGGTGGATAACACAGCCAA
Found at i:24316450 original size:40 final size:39
Alignment explanation
Indices: 24316333--24316451 Score: 157
Period size: 39 Copynumber: 3.0 Consensus size: 39
24316323 GCATGATACT
*
24316333 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
* *
24316372 TGGAAACATATTCGGACCTGAGGTCCGCAGGCTATGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
* * * * *
24316411 TGGAAATATATCCGGGCTTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAACATATCCGGACTTGAGGT-CCGCAGGCTATGTGC
24316451 T
1 T
24316452 ATAAATTTGA
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
39 54 0.78
40 15 0.22
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
TGGAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
Found at i:24324557 original size:76 final size:74
Alignment explanation
Indices: 24324468--24324929 Score: 472
Period size: 76 Copynumber: 6.0 Consensus size: 74
24324458 TTTCTATTTC
24324468 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTC
24324533 TGTCTTTCAAA
66 TGT-TTTC-AA
*
24324544 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA-TGAGGTAATTTT-AATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC-ACTGAGGT-ATTTTCAATT
*
24324607 TCTGTTCATCAA
64 TCTGTT-TTCAA
* * * *
24324619 AAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTTTTAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACACA--CTGAGGTATTTTCAAT
*
24324683 TTCTGTTCGTC--
63 TTCTGTT-TTCAA
* *
24324694 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTAAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAA-TTT
*
24324758 CAT-TTTGCAATTTA
65 C-TGTTTTC-A---A
**
24324772 TGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAA-ACACGTTGAGGTATTTT
1 ------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AAGACACACTGAGGTATTTT
24324836 CAATTTCTGTTTTTCAA
59 CAATTTCTG-TTTTCAA
* * * * ** *
24324853 AAAATTCAAGCTCATATTGCGAGAGGTGAGTTGAACCTTAGGACACGTTGAGGTATTTTCAGTTT
1 AAAAATCAA-CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTT
24324918 CTGTTTTTCAA
65 CTG-TTTTCAA
24324929 A
1 A
24324930 TTCTATTTTT
Statistics
Matches: 336, Mismatches: 21, Indels: 58
0.81 0.05 0.14
Matches are distributed among these distances:
72 14 0.04
73 6 0.02
74 43 0.13
75 53 0.16
76 127 0.38
77 25 0.07
81 1 0.00
83 1 0.00
84 5 0.01
85 59 0.18
86 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTC
TGTTTTCAA
Found at i:24325150 original size:21 final size:21
Alignment explanation
Indices: 24325101--24325150 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
24325091 AGCAGAGCCC
* * **
24325101 TGAAGTTACAGTGGAGCTGAT
1 TGAAGTTGCAGTCGAGCACAT
24325122 TGAAGTTGCAGTCGAGCACAT
1 TGAAGTTGCAGTCGAGCACAT
24325143 TGAAGTTG
1 TGAAGTTG
24325151 TAGATCTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.28
Consensus pattern (21 bp):
TGAAGTTGCAGTCGAGCACAT
Found at i:24325559 original size:22 final size:21
Alignment explanation
Indices: 24325510--24325559 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
24325500 CAATTTTAGC
*
24325510 CTAAACCCCAAAACCCAATCAA
1 CTAAA-CCCAAAACCCAATAAA
* *
24325532 CAAAACCCAATACCCAAATAAA
1 CTAAACCCAAAACCC-AATAAA
24325554 CTAAAC
1 CTAAAC
24325560 AAATGAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.54, C:0.36, G:0.00, T:0.10
Consensus pattern (21 bp):
CTAAACCCAAAACCCAATAAA
Found at i:24326633 original size:14 final size:14
Alignment explanation
Indices: 24326576--24326636 Score: 54
Period size: 14 Copynumber: 4.2 Consensus size: 14
24326566 TAGCTTTAAA
24326576 TATTATTCATGTATAT
1 TATTATT-AT-TATAT
* *
24326592 ATATTATTGTTATCAC
1 -TATTATTATTAT-AT
24326608 TATT-TT-TTATAT
1 TATTATTATTATAT
24326620 TATTATTATTATAT
1 TATTATTATTATAT
24326634 TAT
1 TAT
24326637 ATGTAGTTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
12 5 0.13
13 6 0.16
14 11 0.29
15 7 0.18
16 2 0.05
17 7 0.18
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (14 bp):
TATTATTATTATAT
Found at i:24326705 original size:15 final size:15
Alignment explanation
Indices: 24326687--24326727 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
24326677 TATATGCATG
24326687 TATATTTATTATTAT
1 TATATTTATTATTAT
*
24326702 TATATTTATTTTTAT
1 TATATTTATTATTAT
24326717 TA-ATATTATTA
1 TATAT-TTATTA
24326728 GTACTAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 2 0.09
15 21 0.91
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TATATTTATTATTAT
Found at i:24326854 original size:26 final size:26
Alignment explanation
Indices: 24326820--24326998 Score: 112
Period size: 25 Copynumber: 7.0 Consensus size: 26
24326810 TATTATTATC
*
24326820 ATTTCTAATATATATATTATGTATAT
1 ATTTTTAATATATATATTATGTATAT
24326846 ATTTTT-A-ATAT-TATTA-GTTATAT
1 ATTTTTAATATATATATTATG-TATAT
* *
24326869 ATATTTT-ATAT-TATCTTATGTTTAT
1 AT-TTTTAATATATATATTATGTATAT
*
24326894 ATTTTTTAA-ATAACTATATTATGTATGT
1 A-TTTTTAATAT-A-TATATTATGTATAT
*** * *
24326922 A-TTTTAA-CGCTATATTAGGTACAT
1 ATTTTTAATATATATATTATGTATAT
*
24326946 ATTTTCAATACTAT-TATTATGT-TCAT
1 ATTTTTAATA-TATATATTATGTAT-AT
24326972 A-TTTTAATATATATATGTATGTATAT
1 ATTTTTAATATATATAT-TATGTATAT
24326998 A
1 A
24326999 GGTAATATTA
Statistics
Matches: 117, Mismatches: 19, Indels: 34
0.69 0.11 0.20
Matches are distributed among these distances:
22 1 0.01
23 12 0.10
24 25 0.21
25 33 0.28
26 32 0.27
27 2 0.02
28 12 0.10
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.54
Consensus pattern (26 bp):
ATTTTTAATATATATATTATGTATAT
Found at i:24326867 original size:23 final size:24
Alignment explanation
Indices: 24326828--24326899 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 24
24326818 TCATTTCTAA
24326828 TATATATA-TTATG-TATATATTTT
1 TATAT-TACTTATGTTATATATTTT
24326851 TAATATTA-TTA-GTTATATATATTT
1 T-ATATTACTTATGTTATATAT-TTT
24326875 TATATTATCTTATGTT-TATATTTT
1 TATATTA-CTTATGTTATATATTTT
24326899 T
1 T
24326900 TAAATAACTA
Statistics
Matches: 43, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
22 1 0.02
23 19 0.44
24 12 0.28
25 8 0.19
26 3 0.07
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (24 bp):
TATATTACTTATGTTATATATTTT
Found at i:24335136 original size:28 final size:28
Alignment explanation
Indices: 24335096--24335249 Score: 247
Period size: 28 Copynumber: 5.5 Consensus size: 28
24335086 TAAATTGTAC
24335096 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
24335124 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
24335152 AGCACTAACTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
24335180 AGCACTAAGTGTGCGAGATTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
24335208 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
24335235 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24335250 GACTTAATAT
Statistics
Matches: 120, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
27 24 0.20
28 96 0.80
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:24350950 original size:20 final size:21
Alignment explanation
Indices: 24350927--24350967 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24350917 ATATATGAGT
*
24350927 ATTTTG-ATGTTTGATGATAG
1 ATTTTGAATGGTTGATGATAG
*
24350947 ATTTTGAATGGTTGTTGATAG
1 ATTTTGAATGGTTGATGATAG
24350968 TTAAACAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (21 bp):
ATTTTGAATGGTTGATGATAG
Found at i:24351174 original size:9 final size:9
Alignment explanation
Indices: 24351160--24351184 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
24351150 AGGACTAAAT
24351160 TGTGAAAAA
1 TGTGAAAAA
24351169 TGTGAAAAA
1 TGTGAAAAA
24351178 TGTGAAA
1 TGTGAAA
24351185 TATTAGGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (9 bp):
TGTGAAAAA
Found at i:24353137 original size:13 final size:13
Alignment explanation
Indices: 24353119--24353143 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24353109 GAGATTGAAT
24353119 AATGATTAAATGA
1 AATGATTAAATGA
24353132 AATGATTAAATG
1 AATGATTAAATG
24353144 TATGTGAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (13 bp):
AATGATTAAATGA
Found at i:24355053 original size:18 final size:19
Alignment explanation
Indices: 24355030--24355069 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
24355020 CTAAGCCCAT
* *
24355030 TATAGTATCAA-TATTCAG
1 TATAGTAACAATTATGCAG
24355048 TATAGTAACAATTATGCAG
1 TATAGTAACAATTATGCAG
24355067 TAT
1 TAT
24355070 CAAATCCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (19 bp):
TATAGTAACAATTATGCAG
Found at i:24359768 original size:46 final size:45
Alignment explanation
Indices: 24359600--24359769 Score: 209
Period size: 46 Copynumber: 3.7 Consensus size: 45
24359590 GGTTGAGCAT
* *
24359600 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
* * * * * *
24359645 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTA-ACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATGGATGCAACGC
24359689 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
*
24359737 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
24359770 GGGCGGGTTA
Statistics
Matches: 105, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
44 4 0.04
45 32 0.30
46 64 0.61
47 2 0.02
48 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
Found at i:24365097 original size:44 final size:44
Alignment explanation
Indices: 24365034--24365119 Score: 172
Period size: 44 Copynumber: 2.0 Consensus size: 44
24365024 TTAAGTTCAT
24365034 GGACAAATTTAGGACATGGATTAAAATGAATTAAAATGAATTTA
1 GGACAAATTTAGGACATGGATTAAAATGAATTAAAATGAATTTA
24365078 GGACAAATTTAGGACATGGATTAAAATGAATTAAAATGAATT
1 GGACAAATTTAGGACATGGATTAAAATGAATTAAAATGAATT
24365120 AAAATGAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.29
Consensus pattern (44 bp):
GGACAAATTTAGGACATGGATTAAAATGAATTAAAATGAATTTA
Found at i:24365112 original size:10 final size:10
Alignment explanation
Indices: 24365097--24365129 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
24365087 TAGGACATGG
24365097 ATTAAAATGA
1 ATTAAAATGA
24365107 ATTAAAATGA
1 ATTAAAATGA
24365117 ATTAAAATGA
1 ATTAAAATGA
24365127 ATT
1 ATT
24365130 TAGGACAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (10 bp):
ATTAAAATGA
Found at i:24366166 original size:46 final size:45
Alignment explanation
Indices: 24366116--24366288 Score: 153
Period size: 46 Copynumber: 3.8 Consensus size: 45
24366106 TGGTTGAGCA
24366116 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
24366162 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
24366207 CATCCGAA---GTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
24366252 -CCTGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24366289 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 12, Indels: 26
0.73 0.09 0.19
Matches are distributed among these distances:
42 4 0.04
43 7 0.07
44 19 0.19
45 6 0.06
46 54 0.53
47 10 0.10
48 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:24369941 original size:46 final size:46
Alignment explanation
Indices: 24369886--24370013 Score: 211
Period size: 46 Copynumber: 2.8 Consensus size: 46
24369876 CGTTGAGCAT
* * *
24369886 CCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
24369932 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
24369978 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24370014 GCGGGTTACA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:24378809 original size:42 final size:44
Alignment explanation
Indices: 24378709--24378864 Score: 175
Period size: 43 Copynumber: 3.7 Consensus size: 44
24378699 AGCTCGTACA
* *
24378709 ATGCCAACGTCCCAGA-CGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGATAGTGGTCTTACATGAAATCAAATATCG
*
24378752 ATGCC-ACTGTCCCAGATAG-GGTCTTACATGAAATCATATA-CG
1 ATGCCAAC-GTCCCAGATAGTGGTCTTACATGAAATCAAATATCG
* * *
24378794 ATGCCAATGTCCCAGACA-TGGTCTTACA-GTAAATCACAA-ATTG
1 ATGCCAACGTCCCAGATAGTGGTCTTACATG-AAATCA-AATATCG
24378837 ATGCCAACGTCCCAGAT-GTGGTCTTACA
1 ATGCCAACGTCCCAGATAGTGGTCTTACA
24378865 GGATAACACA
Statistics
Matches: 96, Mismatches: 9, Indels: 16
0.79 0.07 0.13
Matches are distributed among these distances:
41 1 0.01
42 34 0.35
43 60 0.62
44 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (44 bp):
ATGCCAACGTCCCAGATAGTGGTCTTACATGAAATCAAATATCG
Found at i:24378852 original size:85 final size:85
Alignment explanation
Indices: 24378709--24378864 Score: 221
Period size: 85 Copynumber: 1.8 Consensus size: 85
24378699 AGCTCGTACA
*
24378709 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGATAG-GG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGAT-GTGG
24378773 TCTTACATGAAATCATATACG
65 TCTTACATGAAATCATATACG
* *
24378794 ATGCCAATGTCCCAGACATGGTCTTACA-GTAAATCACAA-ATTGATGCCAAC-GTCCCAGATGT
1 ATGCCAACGTCCCAGACATGGTCTTACATGT-AATCA-AATATCGATGCC-ACTGTCCCAGATGT
24378856 GGTCTTACA
63 GGTCTTACA
24378865 GGATAACACA
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
84 3 0.05
85 57 0.89
86 4 0.06
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGATGTGGT
CTTACATGAAATCATATACG
Found at i:24382488 original size:18 final size:19
Alignment explanation
Indices: 24382465--24382505 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
24382455 TGGGTAGGCC
24382465 GTGTGG-TCACACACGCCT
1 GTGTGGCTCACACACGCCT
* *
24382483 GTGTGGCTCAGACTCGCCT
1 GTGTGGCTCACACACGCCT
24382502 GTGT
1 GTGT
24382506 CTTCAACCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.12, C:0.29, G:0.32, T:0.27
Consensus pattern (19 bp):
GTGTGGCTCACACACGCCT
Found at i:24386780 original size:43 final size:43
Alignment explanation
Indices: 24386728--24386856 Score: 179
Period size: 43 Copynumber: 3.0 Consensus size: 43
24386718 GCTGGTGAAT
*
24386728 AATATTATCGGGCTTCAGGCCTAGCAGGCTATAATACCGGTGA
1 AATAATATCGGGCTTCAGGCCTAGCAGGCTATAATACCGGTGA
* *
24386771 GATAATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGA
1 AATAATATCGGGCTTCAGGCCTAGCAGGCTATAATACCGGTGA
* * * * *
24386814 AATGATATCGGGCTTCAAGCCTAGCAAGCGA-AATGCCGGTGA
1 AATAATATCGGGCTTCAGGCCTAGCAGGCTATAATACCGGTGA
24386856 A
1 A
24386857 TGAGTTCAGA
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 12 0.15
43 66 0.85
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (43 bp):
AATAATATCGGGCTTCAGGCCTAGCAGGCTATAATACCGGTGA
Found at i:24386919 original size:40 final size:41
Alignment explanation
Indices: 24386847--24386924 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
24386837 GCAAGCGAAA
* **
24386847 TGCCGGTGAATGAGTTCAGACTTAAAGTCTAGCAGGCTTCG
1 TGCCGGTGAATGAATTCAGACTTAAAACCTAGCAGGCTTCG
**
24386888 TGCCGGTG-ATGAATTCAGGTTTAAAACCTAGCAGGCT
1 TGCCGGTGAATGAATTCAGACTTAAAACCTAGCAGGCT
24386925 AAATGCCGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
40 24 0.75
41 8 0.25
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (41 bp):
TGCCGGTGAATGAATTCAGACTTAAAACCTAGCAGGCTTCG
Found at i:24386937 original size:40 final size:41
Alignment explanation
Indices: 24386746--24386936 Score: 163
Period size: 43 Copynumber: 4.6 Consensus size: 41
24386736 CGGGCTTCAG
* * * *
24386746 GCCTAGCAGGCTATAATACCGGTGAGAT-AATATCGGGCTTCAG
1 GCCTAGCAGGCTA-AATGCCGGTGA-ATGAAT-TCAGGCTTAAA
* *
24386789 GCCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCAGGCTTAAA
* * * *
24386832 GCCTAGCAAGCGAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCAGGCTTAAA
* *** *
24386873 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCAGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCAGGCTTAAA
*
24386913 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
24386937 TTTGATAAAA
Statistics
Matches: 122, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
40 32 0.26
41 29 0.24
42 11 0.09
43 49 0.40
44 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCAGGCTTAAA
Found at i:24404574 original size:27 final size:27
Alignment explanation
Indices: 24404543--24404720 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
24404533 TAAATTGTAC
24404543 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
24404570 TGCACTAAGTGTGCGAAATGA--ATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24404595 GATGCACTAAGTGTGCGAATTGACCATGC
1 -A-GCACTAAGTGTGCGATTTGACTATGT
*
24404624 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
24404652 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24404679 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
24404706 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24404721 GACTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
25 4 0.03
27 99 0.77
28 23 0.18
29 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:24404684 original size:82 final size:81
Alignment explanation
Indices: 24404544--24404699 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
24404534 AAATTGTACA
* *
24404544 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATGTGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAGTGT
24404609 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
**
24404625 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCACTAAG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACGTGATGCACTAAG
*
24404688 TGTGCGAGTTGA
63 TGTGCGAATTGA
24404700 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 15 0.22
82 48 0.72
83 1 0.01
84 3 0.04
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:24404711 original size:82 final size:81
Alignment explanation
Indices: 24404540--24404720 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
24404530 GATTAAATTG
* *
24404540 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATGTGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAA
24404605 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * **
24404621 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACGTGATGCAC
* **
24404684 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
24404703 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
24404721 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 17 0.20
82 63 0.75
83 1 0.01
84 3 0.04
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAA
GTGTGCGAATTGACCA
Found at i:24416004 original size:16 final size:16
Alignment explanation
Indices: 24415972--24416005 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
24415962 TATATAAATC
*
24415972 AAAGAATTATTAGAAA
1 AAAGAATTAATAGAAA
24415988 AAAG-ATTAATAGAAA
1 AAAGAATTAATAGAAA
24416003 AAA
1 AAA
24416006 CTAATAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.21
Consensus pattern (16 bp):
AAAGAATTAATAGAAA
Found at i:24420988 original size:8 final size:8
Alignment explanation
Indices: 24420975--24421031 Score: 55
Period size: 8 Copynumber: 7.1 Consensus size: 8
24420965 TCACTCGAAT
24420975 TCACATAG
1 TCACATAG
24420983 TCACATA-
1 TCACATAG
*
24420990 TACACATAA
1 T-CACATAG
*
24420999 TCTCATGAG
1 TCACAT-AG
*
24421008 -CTCATAG
1 TCACATAG
24421015 TCACATAG
1 TCACATAG
24421023 TCACATAG
1 TCACATAG
24421031 T
1 T
24421032 TCCTAGTGGC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
7 3 0.07
8 37 0.88
9 2 0.05
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.28
Consensus pattern (8 bp):
TCACATAG
Found at i:24421664 original size:20 final size:20
Alignment explanation
Indices: 24421629--24421666 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24421619 TGTTTCTCCA
24421629 ACCATAAACATGCAAAATCT
1 ACCATAAACATGCAAAATCT
24421649 ACCATTAAACAT-CAAAAT
1 ACCA-TAAACATGCAAAAT
24421667 GCACAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.53, C:0.24, G:0.03, T:0.21
Consensus pattern (20 bp):
ACCATAAACATGCAAAATCT
Found at i:24425561 original size:43 final size:44
Alignment explanation
Indices: 24425495--24425665 Score: 160
Period size: 43 Copynumber: 4.0 Consensus size: 44
24425485 AGCTCGTATA
* *
24425495 ATGCCAA-TGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACTATCCCAGACGTGGTCTTACACGTAATCAAATATCG
*
24425538 ATGCC-ACTATCCCAGACAG-GGTCTTATACG-AAGTCAAATAT-G
1 ATGCCAACTATCCCAGAC-GTGGTCTTACACGTAA-TCAAATATCG
* * * *
24425580 ATGCCGA-TGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCAACTATCCCAGACGTGGTCTTACACGT-AATC-AAATATCG
* * *
24425624 ATGCCAAC-ATCCCAAACGTGGTCTTACACGAAATCACATATC
1 ATGCCAACTATCCCAGACGTGGTCTTACACGTAATCAAATATC
24425666 AGAATCCTAT
Statistics
Matches: 103, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
42 29 0.28
43 43 0.42
44 31 0.30
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (44 bp):
ATGCCAACTATCCCAGACGTGGTCTTACACGTAATCAAATATCG
Found at i:24425655 original size:86 final size:85
Alignment explanation
Indices: 24425495--24425664 Score: 211
Period size: 86 Copynumber: 2.0 Consensus size: 85
24425485 AGCTCGTATA
* * *
24425495 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACAGGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAAACAGGGT
* *
24425560 CTTATACGAAGTCAAATATG
66 CTTACACGAAATCAAATATG
* *
24425580 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-ATCCCAAAC-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGT-AATC-AAATATCGATGCC-ACTATCCCAAACAG
*
24425642 TGGTCTTACACGAAATCACATAT
63 -GGTCTTACACGAAATCAAATAT
24425665 CAGAATCCTA
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
85 29 0.40
86 40 0.55
87 4 0.05
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (85 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAAACAGGGT
CTTACACGAAATCAAATATG
Found at i:24433099 original size:43 final size:43
Alignment explanation
Indices: 24433052--24433177 Score: 118
Period size: 42 Copynumber: 2.9 Consensus size: 43
24433042 TCCCAGACGT
24433052 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAAACAG
1 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAAACAG
* * * * *
24433095 GGTCTTATATG-AAGTCAAATA-CGATACTGA-TATCCCAAACAT
1 GGTCTTACATGTAA-TCAAATATCGATGC-CACTGTCCCAAACAG
*
24433137 GGTCTTACATGTAAATCTCAA-ATCGATGCCAAC-GTCCCAAA
1 GGTCTTACATGT-AATC-AAATATCGATGCC-ACTGTCCCAAA
24433178 TGTGGTTTTA
Statistics
Matches: 65, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
42 27 0.42
43 21 0.32
44 17 0.26
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (43 bp):
GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAAACAG
Found at i:24434822 original size:13 final size:13
Alignment explanation
Indices: 24434804--24434829 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24434794 AACACTACTT
24434804 ACTGACTCTGGAC
1 ACTGACTCTGGAC
24434817 ACTGACTCTGGAC
1 ACTGACTCTGGAC
24434830 TTCCATCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (13 bp):
ACTGACTCTGGAC
Found at i:24446290 original size:33 final size:33
Alignment explanation
Indices: 24446236--24446346 Score: 152
Period size: 33 Copynumber: 3.4 Consensus size: 33
24446226 TACTCTCTAT
* * *
24446236 TTGGTGTGCTGGTTGGATTAGCTTTTATGAACA
1 TTGGTGTGATGGTTGGTTTAGCTCTTATGAACA
* *
24446269 TTGTTGTGATGGTTGGTTTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGTTTAGCTCTTATGAACA
24446302 TTGGTGTGATGGTTGGTTTAGCTCTTAT-AAGCA
1 TTGGTGTGATGGTTGGTTTAGCTCTTATGAA-CA
*
24446335 TTGGTATGATGG
1 TTGGTGTGATGG
24446347 ATGGATTGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
32 1 0.01
33 68 0.99
ACGTcount: A:0.17, C:0.08, G:0.32, T:0.43
Consensus pattern (33 bp):
TTGGTGTGATGGTTGGTTTAGCTCTTATGAACA
Found at i:24446315 original size:66 final size:67
Alignment explanation
Indices: 24446234--24446386 Score: 168
Period size: 66 Copynumber: 2.3 Consensus size: 67
24446224 TATACTCTCT
* * * * * * *
24446234 ATTTGGTGTGCTGGTTGGATTAGCTTTTATGAA-CATTGTTGTGATGGTTGGTTTAGCTCTTA-T
1 ATTTGGTGTGATGGTTGGATTAGCTCTTAT-AAGCATTGGTATGATGGATGGATTAGCTC-GAGT
24446297 GAGC
64 GAGC
* *
24446301 A-TTGGTGTGATGGTTGGTTTAGCTCTTATAAGCATTGGTATGATGGATGGATTGGCTCGAGTGA
1 ATTTGGTGTGATGGTTGGATTAGCTCTTATAAGCATTGGTATGATGGATGGATTAGCTCGAGTGA
24446365 GC
66 GC
*
24446367 ATTTGGTGTGTTTGGTTGGA
1 ATTTGGTGTG-ATGGTTGGA
24446387 CTGATGATGT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
65 3 0.04
66 52 0.73
67 9 0.13
68 7 0.10
ACGTcount: A:0.17, C:0.08, G:0.33, T:0.42
Consensus pattern (67 bp):
ATTTGGTGTGATGGTTGGATTAGCTCTTATAAGCATTGGTATGATGGATGGATTAGCTCGAGTGA
GC
Found at i:24446368 original size:33 final size:33
Alignment explanation
Indices: 24446249--24446369 Score: 100
Period size: 33 Copynumber: 3.7 Consensus size: 33
24446239 GTGTGCTGGT
* * * * * *
24446249 TGGATTAGCTTTTATGAACATTGTTGTGATGGT
1 TGGATTAGCTCTGATGAGCATTGGTATGATGGA
* * * *
24446282 TGGTTTAGCTCTTATGAGCATTGGTGTGATGGT
1 TGGATTAGCTCTGATGAGCATTGGTATGATGGA
* * *
24446315 TGGTTTAGCTCTTATAAGCATTGGTATGATGGA
1 TGGATTAGCTCTGATGAGCATTGGTATGATGGA
*
24446348 TGGATTGGCTC-GAGTGAGCATT
1 TGGATTAGCTCTGA-TGAGCATT
24446370 TGGTGTGTTT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
32 1 0.01
33 75 0.99
ACGTcount: A:0.20, C:0.09, G:0.31, T:0.40
Consensus pattern (33 bp):
TGGATTAGCTCTGATGAGCATTGGTATGATGGA
Found at i:24446558 original size:20 final size:20
Alignment explanation
Indices: 24446533--24446573 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
24446523 ATGATAGGAA
**
24446533 ACTTTTAGGGTTGTTATATT
1 ACTTTTAGAATTGTTATATT
*
24446553 ACTTTTTGAATTGTTATATT
1 ACTTTTAGAATTGTTATATT
24446573 A
1 A
24446574 ATTTCAGTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.05, G:0.15, T:0.56
Consensus pattern (20 bp):
ACTTTTAGAATTGTTATATT
Found at i:24447538 original size:20 final size:21
Alignment explanation
Indices: 24447499--24447539 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
24447489 CCCCTGCAGT
* *
24447499 TAAAATTTTTCAACTTTTTCC
1 TAAAATTTTTCAAATGTTTCC
24447520 TAAAA-TTTTCAAATGTTTCC
1 TAAAATTTTTCAAATGTTTCC
24447540 AATTTAGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.49
Consensus pattern (21 bp):
TAAAATTTTTCAAATGTTTCC
Found at i:24453312 original size:46 final size:46
Alignment explanation
Indices: 24453259--24453353 Score: 127
Period size: 46 Copynumber: 2.1 Consensus size: 46
24453249 CCTTTCTACA
* * * *
24453259 ATACTTATGGCTTATAATCGTTCTGTTAATTGGCAGCATTGTTGCG
1 ATACTTATGGCTTATAATCATTCTGTTAACTAGCAGCATTGCTGCG
* * *
24453305 ATACTTATGGGTTATAGTCATTCTGTTAACTAGCAGCGTTGCTGCG
1 ATACTTATGGCTTATAATCATTCTGTTAACTAGCAGCATTGCTGCG
24453351 ATA
1 ATA
24453354 TTTACGGCAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (46 bp):
ATACTTATGGCTTATAATCATTCTGTTAACTAGCAGCATTGCTGCG
Found at i:24453550 original size:27 final size:27
Alignment explanation
Indices: 24453503--24453554 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
24453493 CATCTAATAC
* *
24453503 TGATTTTGTACTGGGCTTAGGCCCACT
1 TGATTTTGTAATGGGCGTAGGCCCACT
24453530 TGATTTTGTTAATGGG-GTAGGCCCA
1 TGATTTTG-TAATGGGCGTAGGCCCA
24453555 ACTGTTACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.17, C:0.17, G:0.29, T:0.37
Consensus pattern (27 bp):
TGATTTTGTAATGGGCGTAGGCCCACT
Found at i:24455763 original size:13 final size:13
Alignment explanation
Indices: 24455745--24455775 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
24455735 AATAATTCAG
24455745 CACGGGTGGGACA
1 CACGGGTGGGACA
24455758 CACGGGTGGGACA
1 CACGGGTGGGACA
24455771 CACGG
1 CACGG
24455776 ATGTGTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.26, G:0.45, T:0.06
Consensus pattern (13 bp):
CACGGGTGGGACA
Found at i:24456355 original size:43 final size:44
Alignment explanation
Indices: 24456243--24456355 Score: 135
Period size: 43 Copynumber: 2.6 Consensus size: 44
24456233 CAACGCCAAC
* *
24456243 ATCCCAGACGTGGTCTTACATGT-AATCAAATATTGATGCCACT
1 ATCCCAGACATGGTCTTACATGTAAATCAAATATAGATGCCACT
* *
24456286 ATCCCAGACAAGGTCTTACATG-AAATCAAATA-AGATGTCGA-T
1 ATCCCAGACATGGTCTTACATGTAAATCAAATATAGATG-CCACT
* *
24456328 GTCCCAGACATGGTCTTACACGTAAATC
1 ATCCCAGACATGGTCTTACATGTAAATC
24456356 TCAAATCGAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 24 0.40
43 36 0.60
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.27
Consensus pattern (44 bp):
ATCCCAGACATGGTCTTACATGTAAATCAAATATAGATGCCACT
Found at i:24459004 original size:34 final size:34
Alignment explanation
Indices: 24458959--24459029 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
24458949 ATTTAAAATG
*
24458959 CAAAATGCAACAAGTAAGCTATGTTTATGTGTTT
1 CAAAATACAACAAGTAAGCTATGTTTATGTGTTT
24458993 CAAAATACAACAAGTAAGCTATGTTTATGTGTTT
1 CAAAATACAACAAGTAAGCTATGTTTATGTGTTT
24459027 CAA
1 CAA
24459030 TTCAATAGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (34 bp):
CAAAATACAACAAGTAAGCTATGTTTATGTGTTT
Found at i:24461695 original size:32 final size:33
Alignment explanation
Indices: 24461635--24461707 Score: 98
Period size: 32 Copynumber: 2.2 Consensus size: 33
24461625 AGGGGTGTTA
24461635 CATTTCACATCTCAATACATCATTTCATATC-T
1 CATTTCACATCTCAATACATCATTTCATATCTT
24461667 CATTTCACATCTC-ATA-ATCATTTCTCATATCTTT
1 CATTTCACATCTCAATACATCA-TT-TCATATC-TT
24461701 CATTTCA
1 CATTTCA
24461708 ATATTTTCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
30 4 0.11
31 5 0.14
32 20 0.54
34 8 0.22
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (33 bp):
CATTTCACATCTCAATACATCATTTCATATCTT
Found at i:24462034 original size:13 final size:13
Alignment explanation
Indices: 24462016--24462041 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24462006 TATGAGACAC
24462016 GCCCATGTGATCA
1 GCCCATGTGATCA
24462029 GCCCATGTGATCA
1 GCCCATGTGATCA
24462042 TACACACTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (13 bp):
GCCCATGTGATCA
Found at i:24465714 original size:25 final size:26
Alignment explanation
Indices: 24465684--24465742 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
24465674 AATTCGATCA
*
24465684 TTTACCCTCAA-GGCAAAATAGTCAT
1 TTTACCCTCAAGGGCAAAACAGTCAT
24465709 TTTACCCTCAAGGGCAAAACAGTCAT
1 TTTACCCTCAAGGGCAAAACAGTCAT
24465735 TTTACCCT
1 TTTACCCT
24465743 ACAGGGGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 11 0.34
26 21 0.66
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (26 bp):
TTTACCCTCAAGGGCAAAACAGTCAT
Found at i:24465771 original size:27 final size:27
Alignment explanation
Indices: 24465730--24465806 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
24465720 GGGCAAAACA
* *
24465730 GTCATTTTACCCTACAGGGGTATGTCG
1 GTCATTTTACACTACAAGGGTATGTCG
* * * *
24465757 GTCATTTTACACTACAACGATATTTTG
1 GTCATTTTACACTACAAGGGTATGTCG
*
24465784 GTAATTTTACACTACAAGGGTAT
1 GTCATTTTACACTACAAGGGTAT
24465807 TTTGATAATT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (27 bp):
GTCATTTTACACTACAAGGGTATGTCG
Found at i:24465807 original size:27 final size:27
Alignment explanation
Indices: 24465777--24466094 Score: 300
Period size: 27 Copynumber: 11.5 Consensus size: 27
24465767 ACTACAACGA
* *
24465777 TATTTTGGTAATTTTAC-ACTACAAGGG
1 TATTTCGGTAATTTTACAAAT-CAAGGG
* * * *
24465804 TATTTTGATAATTTAACAAATCAGGGG
1 TATTTCGGTAATTTTACAAATCAAGGG
*
24465831 TATTTCAGTAATTTTACAAATCAAGGG
1 TATTTCGGTAATTTTACAAATCAAGGG
*
24465858 TATTTCAGTAATTTTACAAATCGAA-GG
1 TATTTCGGTAATTTTACAAATC-AAGGG
*
24465885 TATTTCGGTAATTTTACAAATTGTAAAATTAAGGG
1 TATTTCGGTAATTTTAC--------AAATCAAGGG
* **
24465920 TATTTCGATAATTTTACAAATTGAGGG
1 TATTTCGGTAATTTTACAAATCAAGGG
* * ***
24465947 TGTTTCGGTAATTTTAGAAATTTGGGG
1 TATTTCGGTAATTTTACAAATCAAGGG
*
24465974 TATTTCGGTAATTTTACAAATCGAGGG
1 TATTTCGGTAATTTTACAAATCAAGGG
*** *
24466001 TATTTTAATAATTTTAC-AATCAAGGA
1 TATTTCGGTAATTTTACAAATCAAGGG
24466027 TATTTCGGTAATTTTACAAATCAAGGG
1 TATTTCGGTAATTTTACAAATCAAGGG
* *
24466054 TATTTCGGCAATTTTACAAATCAAGAG
1 TATTTCGGTAATTTTACAAATCAAGGG
*
24466081 TATTTCAGTAATTT
1 TATTTCGGTAATTT
24466095 CTCTTTATTA
Statistics
Matches: 243, Mismatches: 36, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
26 21 0.09
27 194 0.80
28 4 0.02
34 2 0.01
35 22 0.09
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (27 bp):
TATTTCGGTAATTTTACAAATCAAGGG
Found at i:24465932 original size:62 final size:62
Alignment explanation
Indices: 24465848--24466074 Score: 186
Period size: 62 Copynumber: 3.9 Consensus size: 62
24465838 GTAATTTTAC
24465848 AAATCAAGGGTATTTCAGTAATTTTACAAATCGAAGGTATTTCGGTAATTTTACAAATTGTA
1 AAATCAAGGGTATTTCAGTAATTTTACAAATCGAAGGTATTTCGGTAATTTTACAAATTGTA
* * * * *
24465910 AAATTAAGGGTATTTC-GATAATTTTACAAATTGAGGGTGTTTCGGTAATTTTAGAAA-T-T-
1 AAATCAAGGGTATTTCAG-TAATTTTACAAATCGAAGGTATTTCGGTAATTTTACAAATTGTA
* * * *
24465969 ---T--GGGGTATTTCGGTAATTTTACAAATCGAGGGTATTT---TAA---T---AATTTTA
1 AAATCAAGGGTATTTCAGTAATTTTACAAATCGAAGGTATTTCGGTAATTTTACAAATTGTA
* * * *
24466017 CAATCAAGGATATTTCGGTAATTTTACAAATC-AAGGGTATTTCGGCAATTTTACAAAT
1 AAATCAAGGGTATTTCAGTAATTTTACAAATCGAA-GGTATTTCGGTAATTTTACAAAT
24466075 CAAGAGTATT
Statistics
Matches: 133, Mismatches: 12, Indels: 40
0.72 0.06 0.22
Matches are distributed among these distances:
45 2 0.02
46 1 0.01
47 1 0.01
48 1 0.01
51 4 0.03
52 1 0.01
53 31 0.23
54 31 0.23
55 1 0.01
56 3 0.02
59 1 0.01
60 1 0.01
61 2 0.02
62 53 0.40
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (62 bp):
AAATCAAGGGTATTTCAGTAATTTTACAAATCGAAGGTATTTCGGTAATTTTACAAATTGTA
Found at i:24466003 original size:116 final size:116
Alignment explanation
Indices: 24465799--24466094 Score: 315
Period size: 116 Copynumber: 2.6 Consensus size: 116
24465789 TTTACACTAC
*
24465799 AAGGGTATTTTGATAATTTAACAAATCAGGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTC
1 AAGGGTATTTCGATAATTTAACAAATCAGGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTC
**
24465864 AGTAATTTTACAAATCGAAGGTATTTCGGTAATTTTACAAATTGTAAAATT
66 AGTAATTTTACAAATCGAAGGTATTTCAATAATTTTACAAATTGTAAAATT
* * * * * ***
24465915 AAGGGTATTTCGATAATTTTACAAAT-TGAGGGTGTTTCGGTAATTTTAGAAATTTGGGGTATTT
1 AAGGGTATTTCGATAATTTAACAAATCAG-GGGTATTTCAGTAATTTTACAAATCAAGGGTATTT
* * * *
24465979 CGGTAATTTTACAAATCGAGGGTATTTTAATAATTTTAC---------AATC
65 CAGTAATTTTACAAATCGAAGGTATTTCAATAATTTTACAAATTGTAAAATT
* * * * * * *
24466022 AAGGATATTTCGGTAATTTTACAAATCAAGGGTATTTCGGCAATTTTACAAATCAAGAGTATTTC
1 AAGGGTATTTCGATAATTTAACAAATCAGGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTC
24466087 AGTAATTT
66 AGTAATTT
24466095 CTCTTTATTA
Statistics
Matches: 151, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
107 63 0.42
115 1 0.01
116 87 0.58
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (116 bp):
AAGGGTATTTCGATAATTTAACAAATCAGGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTC
AGTAATTTTACAAATCGAAGGTATTTCAATAATTTTACAAATTGTAAAATT
Found at i:24466057 original size:80 final size:81
Alignment explanation
Indices: 24465910--24466094 Score: 228
Period size: 80 Copynumber: 2.3 Consensus size: 81
24465900 ACAAATTGTA
* * ** * * * ***
24465910 AAATTAAGGGTATTTCGATAATTTTACAAATTGAGGGTGTTTCGGTAATTTTAGAAATTTGGGGT
1 AAATCAAGGGTATTTCAATAATTTTACAAATCAAGGATATTTCGGTAATTTTACAAATCAAGGGT
*
24465975 ATTTCGGTAATTTTAC
66 ATTTCGGCAATTTTAC
* *
24465991 AAATCGAGGGTATTTTAATAATTTTAC-AATCAAGGATATTTCGGTAATTTTACAAATCAAGGGT
1 AAATCAAGGGTATTTCAATAATTTTACAAATCAAGGATATTTCGGTAATTTTACAAATCAAGGGT
24466055 ATTTCGGCAATTTTAC
66 ATTTCGGCAATTTTAC
* *
24466071 AAATCAAGAGTATTTCAGTAATTT
1 AAATCAAGGGTATTTCAATAATTT
24466095 CTCTTTATTA
Statistics
Matches: 87, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
80 64 0.74
81 23 0.26
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (81 bp):
AAATCAAGGGTATTTCAATAATTTTACAAATCAAGGATATTTCGGTAATTTTACAAATCAAGGGT
ATTTCGGCAATTTTAC
Found at i:24466446 original size:28 final size:28
Alignment explanation
Indices: 24466405--24466476 Score: 135
Period size: 28 Copynumber: 2.6 Consensus size: 28
24466395 TTCATTTGGC
*
24466405 CCCATCAGGACCAATCTCGTTCACATGG
1 CCCATCAGGCCCAATCTCGTTCACATGG
24466433 CCCATCAGGCCCAATCTCGTTCACATGG
1 CCCATCAGGCCCAATCTCGTTCACATGG
24466461 CCCATCAGGCCCAATC
1 CCCATCAGGCCCAATC
24466477 ACTTCCCACC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.24, C:0.40, G:0.17, T:0.19
Consensus pattern (28 bp):
CCCATCAGGCCCAATCTCGTTCACATGG
Found at i:24472029 original size:56 final size:56
Alignment explanation
Indices: 24471937--24472049 Score: 174
Period size: 56 Copynumber: 2.0 Consensus size: 56
24471927 TATGAGAGCT
24471937 AGTGTAAGACCACGTCTAGGACATGGCATCGACCTCGATATGTAAGCCAATGTAAG
1 AGTGTAAGACCACGTCTAGGACATGGCATCGACCTCGATATGTAAGCCAATGTAAG
* * * *
24471993 AGTGTAGGACCATGTCTGGGACATGGCATC-AGCCTCGATATGTGAGCCAATGTAAG
1 AGTGTAAGACCACGTCTAGGACATGGCATCGA-CCTCGATATGTAAGCCAATGTAAG
24472049 A
1 A
24472050 CCATGCTTGG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 1 0.02
56 51 0.98
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (56 bp):
AGTGTAAGACCACGTCTAGGACATGGCATCGACCTCGATATGTAAGCCAATGTAAG
Found at i:24472082 original size:48 final size:48
Alignment explanation
Indices: 24471993--24472218 Score: 185
Period size: 48 Copynumber: 4.7 Consensus size: 48
24471983 CCAATGTAAG
* * * * *
24471993 AGTGTAGGACCATGTCTGGGACATGGCATCAGCCT-C-GATATGTGAGCC
1 AGTGTAAGACCATGTCTGGAACATGGCATC-G-GTACATATATGAGAGCC
* * * *
24472041 AATGTAAGACCATG-CTTGGAACATGGCATTGGTACATATATGAAAGCT
1 AGTGTAAGACCATGTC-TGGAACATGGCATCGGTACATATATGAGAGCC
* * * *
24472089 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGACATGTG-G-GCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGG--TAC-ATATATGAGAGCC
* * *
24472137 AGTGTAAGACCATGTTTGGAACATGGCATCGGCACCGATATATGAGTGCC
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGTA-C-ATATATGAGAGCC
*
24472187 AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGAACATGGCATCGG
24472219 CATCTTACCC
Statistics
Matches: 144, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
46 1 0.01
47 3 0.02
48 99 0.69
49 3 0.02
50 38 0.26
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGAACATGGCATCGGTACATATATGAGAGCC
Found at i:24472157 original size:96 final size:98
Alignment explanation
Indices: 24471993--24472219 Score: 332
Period size: 96 Copynumber: 2.3 Consensus size: 98
24471983 CCAATGTAAG
* * *
24471993 AGTGTAGGACCATGTCTGGGACATGGCATCAGCCTCGATATGTGAGCCAATGTAAGACCATGCTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAATGTAAGACCATGCTT
* * *
24472058 GGAACATGGCATTGGTA-C-ATATATGAAAGCT
66 GGAACATGGCATCGGCACCGATATATGAAAGCC
* * * *
24472089 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGGGCTAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAATGTAAGACCATGCTT
**
24472154 GGAACATGGCATCGGCACCGATATATGAGTGCC
66 GGAACATGGCATCGGCACCGATATATGAAAGCC
24472187 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
24472220 ATCTTACCCT
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 73 0.62
97 1 0.01
98 43 0.37
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (98 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAATGTAAGACCATGCTT
GGAACATGGCATCGGCACCGATATATGAAAGCC
Found at i:24482612 original size:30 final size:30
Alignment explanation
Indices: 24482578--24482638 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
24482568 TCCTTAACTC
24482578 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
24482608 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
24482638 A
1 A
24482639 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:24486531 original size:13 final size:13
Alignment explanation
Indices: 24486513--24486538 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24486503 TAGCTTGCTC
24486513 TCTCCATTTCTAA
1 TCTCCATTTCTAA
24486526 TCTCCATTTCTAA
1 TCTCCATTTCTAA
24486539 CCATACTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (13 bp):
TCTCCATTTCTAA
Found at i:24490428 original size:352 final size:352
Alignment explanation
Indices: 24489776--24490479 Score: 1264
Period size: 352 Copynumber: 2.0 Consensus size: 352
24489766 ATCTCCAACA
*
24489776 ATCTCCGATCCGAGTTAGCTTGGCAACACTATAAAACATGGAAAATAAACGGAGTAAGCTATATA
1 ATCTCCGATCCGAGTTAGCTTGGCAACACTATAAAACATGGAAAATAAACGGAGTAAGATATATA
24489841 GCTTAGTAAGCTCGTATGCAAGAAATAAGCAAACCTTACCATACATATAACATTCAAATAAATGT
66 GCTTAGTAAGCTCGTATGCAAGAAATAAGCAAACCTTACCATACATATAACATTCAAATAAATGT
24489906 AAATTTACCATAGTCTCATGATCATAACTCATTCCACCACAAAACTTACCTCATATTCATCCTTT
131 AAATTTACCATAGTCTCATGATCATAACTCATTCCACCACAAAACTTACCTCATATTCATCCTTT
24489971 CAAGAATTTAACAAACATGGGCTTTATGTACATACCTGAACCATCTCAAAATGACTTTACACATA
196 CAAGAATTTAACAAACATGGGCTTTATGTACATACCTGAACCATCTCAAAATGACTTTACACATA
* * *
24490036 TTCTCATCTTTGACATACCCGTGAACCACTCAGAATAATAATGTCGGATACTCGAGATTTTTTCA
261 TTCTCATCTTTGACATACCCGTGAACCACTCAGAATAATAATGTCGAATACTCAAGATTTTTGCA
*
24490101 CACTAAGTTCCACATACGTAGCCAATG
326 CACTAAGTGCCACATACGTAGCCAATG
* * *
24490128 ATCTCCGATCTGAGTTAGCTTGGCGACACTATAAAACATGGAAAATAAATGGAGTAAGATATATA
1 ATCTCCGATCCGAGTTAGCTTGGCAACACTATAAAACATGGAAAATAAACGGAGTAAGATATATA
* *
24490193 GCTTAGTAAGCTCGTATGCAAGAAATAAGTAAATCTTACCATACATATAACATTCAAATAAATGT
66 GCTTAGTAAGCTCGTATGCAAGAAATAAGCAAACCTTACCATACATATAACATTCAAATAAATGT
* *
24490258 AAATTTACCATAGTCTCATGATCATAACTCATTCTACCACAAAACTTACCTCATATTCATCGTTT
131 AAATTTACCATAGTCTCATGATCATAACTCATTCCACCACAAAACTTACCTCATATTCATCCTTT
* *
24490323 CAAGCATTTAACAAACATGGGCTTTATGTACATACCTGAACCATCTCGAAATGACTTTACACATA
196 CAAGAATTTAACAAACATGGGCTTTATGTACATACCTGAACCATCTCAAAATGACTTTACACATA
**
24490388 TTCTCATCTTTGACATACCCGTGAACCACTCATTATAATAATGTCGAATACTCAAGATTTTTGCA
261 TTCTCATCTTTGACATACCCGTGAACCACTCAGAATAATAATGTCGAATACTCAAGATTTTTGCA
24490453 CACTAAGTGCCACATACGTAGCCAATG
326 CACTAAGTGCCACATACGTAGCCAATG
24490480 TTACCTCAAT
Statistics
Matches: 336, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
352 336 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (352 bp):
ATCTCCGATCCGAGTTAGCTTGGCAACACTATAAAACATGGAAAATAAACGGAGTAAGATATATA
GCTTAGTAAGCTCGTATGCAAGAAATAAGCAAACCTTACCATACATATAACATTCAAATAAATGT
AAATTTACCATAGTCTCATGATCATAACTCATTCCACCACAAAACTTACCTCATATTCATCCTTT
CAAGAATTTAACAAACATGGGCTTTATGTACATACCTGAACCATCTCAAAATGACTTTACACATA
TTCTCATCTTTGACATACCCGTGAACCACTCAGAATAATAATGTCGAATACTCAAGATTTTTGCA
CACTAAGTGCCACATACGTAGCCAATG
Found at i:24492519 original size:19 final size:18
Alignment explanation
Indices: 24492477--24492519 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
24492467 TTAATATTAC
*
24492477 ATATTTCAACTTCACATT
1 ATATTTCAACTTCACACT
* *
24492495 AAATTTCAATTTTCACACT
1 ATATTTCAA-CTTCACACT
24492514 ATATTT
1 ATATTT
24492520 TGTTTATTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTTCAACTTCACACT
Found at i:24493612 original size:3 final size:3
Alignment explanation
Indices: 24493606--24493635 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
24493596 CATCATGAGA
*
24493606 TAT TAT TAT TAT TTT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
24493636 AATAGTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:24495401 original size:42 final size:42
Alignment explanation
Indices: 24495355--24495476 Score: 154
Period size: 42 Copynumber: 2.9 Consensus size: 42
24495345 TGAGTTATCA
* * *
24495355 TGTAAGACCATATCTGGGATATGGCATTGATATGAGATTTTG
1 TGTAAGACCATATTTGGGATATGGCATCGATATGAGATTTCG
** * * *
24495397 TGTAAGACCACGTTTGGGACATGGCATCGAAATGAGAATTCG
1 TGTAAGACCATATTTGGGATATGGCATCGATATGAGATTTCG
* *
24495439 TATAAGACCATATTTGGGATATGGCATCAATATGAGAT
1 TGTAAGACCATATTTGGGATATGGCATCGATATGAGAT
24495477 CCCAAGTAAG
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATTTGGGATATGGCATCGATATGAGATTTCG
Found at i:24495487 original size:42 final size:42
Alignment explanation
Indices: 24495356--24495490 Score: 121
Period size: 42 Copynumber: 3.2 Consensus size: 42
24495346 GAGTTATCAT
* ** ****
24495356 GTAAGACCATATCTGGGATATGGCATTGATATGAGATTTTGT
1 GTAAGACCATATTTGGGATATGGCATCAATATGAGATTCCAA
** * **
24495398 GTAAGACCACGTTTGGGACATGGCATCGAA-ATGAGAATTCGTA
1 GTAAGACCATATTTGGGATATGGCATC-AATATGAG-ATTCCAA
*
24495441 -TAAGACCATATTTGGGATATGGCATCAATATGAGATCCCAA
1 GTAAGACCATATTTGGGATATGGCATCAATATGAGATTCCAA
24495482 GTAAGACCA
1 GTAAGACCA
24495491 CGTCTGGAAC
Statistics
Matches: 73, Mismatches: 16, Indels: 8
0.75 0.16 0.08
Matches are distributed among these distances:
41 6 0.08
42 63 0.86
43 4 0.05
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (42 bp):
GTAAGACCATATTTGGGATATGGCATCAATATGAGATTCCAA
Found at i:24495505 original size:42 final size:43
Alignment explanation
Indices: 24495398--24495505 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 43
24495388 GAGATTTTGT
* **
24495398 GTAAGACCACGTTTGGGACATGGCATCGAAATGAGAATTCGTA
1 GTAAGACCACGTTTGGGACATGGCATCGAAATGAGAATCCCAA
** *
24495441 -TAAGACCATATTTGGGATATGGCATC-AATATGAG-ATCCCAA
1 GTAAGACCACGTTTGGGACATGGCATCGAA-ATGAGAATCCCAA
* *
24495482 GTAAGACCACGTCTGGAACATGGC
1 GTAAGACCACGTTTGGGACATGGC
24495506 TTTGGCATCT
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
41 6 0.12
42 46 0.88
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (43 bp):
GTAAGACCACGTTTGGGACATGGCATCGAAATGAGAATCCCAA
Found at i:24496808 original size:42 final size:42
Alignment explanation
Indices: 24496761--24496845 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
24496751 CCCAAGTCAC
*
24496761 ATGGGTGTGTTTGACCACACGGCCTGCCAACACAGGAATGTG
1 ATGGGTGTGTTTGACCACACGGCCTACCAACACAGGAATGTG
*
24496803 ATGGGTGTGTTTGACCACACGGCCTACCCACACAGGAATGTG
1 ATGGGTGTGTTTGACCACACGGCCTACCAACACAGGAATGTG
24496845 A
1 A
24496846 CTCTCCAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.21
Consensus pattern (42 bp):
ATGGGTGTGTTTGACCACACGGCCTACCAACACAGGAATGTG
Found at i:24507135 original size:35 final size:35
Alignment explanation
Indices: 24507089--24507158 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
24507079 ATAGTATTCA
24507089 ATTGTTTATTTAATTTGATTAAATTATTTTACTTT
1 ATTGTTTATTTAATTTGATTAAATTATTTTACTTT
24507124 ATTGTTTATTTAATTTGATTAAATTATTTTACTTT
1 ATTGTTTATTTAATTTGATTAAATTATTTTACTTT
24507159 CTTAAGCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (35 bp):
ATTGTTTATTTAATTTGATTAAATTATTTTACTTT
Found at i:24518205 original size:20 final size:20
Alignment explanation
Indices: 24518180--24518219 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
24518170 TAAGCCACTG
*
24518180 TTTTTATTAAAAATTAGAAT
1 TTTTTATAAAAAATTAGAAT
24518200 TTTTTATAAAAAATTAGAAT
1 TTTTTATAAAAAATTAGAAT
24518220 CAATAAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTTTATAAAAAATTAGAAT
Found at i:24518622 original size:20 final size:19
Alignment explanation
Indices: 24518597--24518645 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 19
24518587 CTACTTTTAT
24518597 ATTTTTATTAAAATTTAATA
1 ATTTTTATTAAAA-TTAATA
*
24518617 ATTTTTA-TAAAATTAATT
1 ATTTTTATTAAAATTAATA
24518635 ATTTATTATTA
1 ATTT-TTATTA
24518646 TTTATAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 9 0.35
19 8 0.31
20 9 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTTTATTAAAATTAATA
Found at i:24518655 original size:43 final size:43
Alignment explanation
Indices: 24518564--24518662 Score: 106
Period size: 43 Copynumber: 2.5 Consensus size: 43
24518554 TTTTATAAAC
* *
24518564 AAATTTATAATTTTTAATAAATACTACTTTTATATTTTTATTA
1 AAATTTATAATTTTTAATAAATACTAATTTTATATTATTATTA
*
24518607 AAATTTAATAATTTTT-ATAAA-ATTAA--TTAT-TTATTATT-
1 AAATTT-ATAATTTTTAATAAATACTAATTTTATATTATTATTA
24518645 --ATTTATAATTTTTAATAA
1 AAATTTATAATTTTTAATAA
24518663 GAGCAAAAAC
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
35 9 0.18
36 8 0.16
39 7 0.14
40 4 0.08
42 3 0.06
43 11 0.22
44 9 0.18
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (43 bp):
AAATTTATAATTTTTAATAAATACTAATTTTATATTATTATTA
Found at i:24519886 original size:12 final size:12
Alignment explanation
Indices: 24519867--24519903 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
24519857 AAAATAACTC
24519867 AAAA-TATAAAA
1 AAAATTATAAAA
24519878 AAAATTAT-AAA
1 AAAATTATAAAA
*
24519889 AAAATCATAAAA
1 AAAATTATAAAA
24519901 AAA
1 AAA
24519904 TTAGTATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (12 bp):
AAAATTATAAAA
Found at i:24519889 original size:11 final size:11
Alignment explanation
Indices: 24519875--24519906 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
24519865 TCAAAATATA
24519875 AAAAAAATTAT
1 AAAAAAATTAT
*
24519886 AAAAAAATCAT
1 AAAAAAATTAT
24519897 AAAAAAATTA
1 AAAAAAATTA
24519907 GTATGAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAAAAATTAT
Found at i:24521557 original size:16 final size:16
Alignment explanation
Indices: 24521532--24521562 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24521522 ATTAATTTAT
*
24521532 ATTAATTAATTTTCTA
1 ATTAAATAATTTTCTA
24521548 ATTAAATAATTTTCT
1 ATTAAATAATTTTCT
24521563 CAACCCAATC
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:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTAAATAATTTTCTA
Found at i:24522849 original size:38 final size:38
Alignment explanation
Indices: 24522807--24522884 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
24522797 TAATCGAGAT
24522807 TATTCATATTGTCCCCTAAATGGACCCTCAAGGCCCAA
1 TATTCATATTGTCCCCTAAATGGACCCTCAAGGCCCAA
24522845 TATTCATATTGTCCCCTAAATGGACCCTCAAGGCCCAA
1 TATTCATATTGTCCCCTAAATGGACCCTCAAGGCCCAA
24522883 TA
1 TA
24522885 CAAGCATTAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (38 bp):
TATTCATATTGTCCCCTAAATGGACCCTCAAGGCCCAA
Found at i:24534561 original size:35 final size:35
Alignment explanation
Indices: 24534463--24534561 Score: 117
Period size: 35 Copynumber: 2.8 Consensus size: 35
24534453 ATTTATTGAT
* * * *
24534463 ATTCTAATTTGCATGTTGAGCATGCTATCATTTTG
1 ATTCTAATTCGCATGTTAAGCATGCCATTATTTTG
** * *
24534498 GCTATGATTCGCATGTTAAGCATGCCATTATTTTG
1 ATTCTAATTCGCATGTTAAGCATGCCATTATTTTG
*
24534533 ATTCTAATTCGCATGTTAAACATGCCATT
1 ATTCTAATTCGCATGTTAAGCATGCCATT
24534562 GAGATAAACT
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.41
Consensus pattern (35 bp):
ATTCTAATTCGCATGTTAAGCATGCCATTATTTTG
Found at i:24537719 original size:27 final size:26
Alignment explanation
Indices: 24537681--24537825 Score: 173
Period size: 27 Copynumber: 5.4 Consensus size: 26
24537671 GGATAAGTTA
24537681 TAGAATTACCGAAATACTCCTGTAGGG
1 TAGAATTACCGAAATAC-CCTGTAGGG
*
24537708 TAGAATTACCGAAATACCCCTGTAGGA
1 TAGAATTACCGAAATA-CCCTGTAGGG
*
24537735 TAGAATTATCGAAATACCCTTGTAGGG
1 TAGAATTACCGAAATACCC-TGTAGGG
* * *
24537762 TATAAATACCGAAATACCCCTTTAGGG
1 TAGAATTACCGAAATA-CCCTGTAGGG
* *
24537789 TAGAATTACCGAGATACCCTTGTGGGG
1 TAGAATTACCGAAATACCC-TGTAGGG
*
24537816 TAAAATTACC
1 TAGAATTACC
24537826 ATTTTGCCCC
Statistics
Matches: 101, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
26 6 0.06
27 91 0.90
28 4 0.04
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (26 bp):
TAGAATTACCGAAATACCCTGTAGGG
Found at i:24537836 original size:54 final size:54
Alignment explanation
Indices: 24537680--24537825 Score: 206
Period size: 54 Copynumber: 2.7 Consensus size: 54
24537670 TGGATAAGTT
*
24537680 ATAGAATTACCGAAATACTCC-TGTAGGGTAGAATTACCGAAATACCCCTGTAGG
1 ATAGAATTACCGAAATAC-CCTTGTAGGGTAAAATTACCGAAATACCCCTGTAGG
* *
24537734 ATAGAATTATCGAAATACCCTTGTAGGGTATAAA-TACCGAAATACCCCTTTAGG
1 ATAGAATTACCGAAATACCCTTGTAGGGTA-AAATTACCGAAATACCCCTGTAGG
* * *
24537788 GTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 ATAGAATTACCGAAATACCCTTGTAGGGTAAAATTACC
24537826 ATTTTGCCCC
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
53 5 0.06
54 75 0.91
55 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (54 bp):
ATAGAATTACCGAAATACCCTTGTAGGGTAAAATTACCGAAATACCCCTGTAGG
Found at i:24538653 original size:27 final size:26
Alignment explanation
Indices: 24538609--24538660 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
24538599 CTCGCTGCAA
*
24538609 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
24538636 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
24538661 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:24542212 original size:40 final size:40
Alignment explanation
Indices: 24542168--24542392 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
24542158 GCTCCTCGTT
*
24542168 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
24542208 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
24542248 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
24542288 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
24542327 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
24542368 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24542393 CATCATTCAA
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 115 0.70
41 15 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:24542376 original size:119 final size:120
Alignment explanation
Indices: 24542170--24542392 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
24542160 TCCTCGTTCA
*
24542170 AATGCCTTCGGGACATAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAT
1 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAT
* *
24542235 TTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * ** *
24542290 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAG
* * *
24542352 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
24542393 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 63 0.71
120 23 0.26
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:24550375 original size:119 final size:120
Alignment explanation
Indices: 24550193--24550408 Score: 296
Period size: 119 Copynumber: 1.8 Consensus size: 120
24550183 TCCTCGTTCA
*
24550193 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
24550258 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACTCGGATTTAGTAACTCGCACC
* * **
24550313 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
24550375 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTA
24550409 GCCCGGACAT
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.05
119 60 0.71
120 20 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCACC
Found at i:24550415 original size:40 final size:40
Alignment explanation
Indices: 24550191--24550415 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
24550181 GCTCCTCGTT
* *
24550191 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
24550231 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
24550271 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
24550311 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
24550350 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
24550391 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24550416 CATCATTCAA
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 118 0.73
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:24553547 original size:22 final size:22
Alignment explanation
Indices: 24553522--24553581 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
24553512 GCACCCTATC
24553522 ACCACCGAACCACCACAATACA
1 ACCACCGAACCACCACAATACA
* * *
24553544 ACCACC-ACTCCACCACCATTCA
1 ACCACCGA-ACCACCACAATACA
24553566 ACCACCGTAA-CACCAC
1 ACCACCG-AACCACCAC
24553582 CACATTAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
24 1 0.03
ACGTcount: A:0.38, C:0.50, G:0.03, T:0.08
Consensus pattern (22 bp):
ACCACCGAACCACCACAATACA
Found at i:24553638 original size:30 final size:30
Alignment explanation
Indices: 24553602--24553663 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
24553592 CGAACCAATA
*
24553602 TTCAAATTTCACTATACAAAAACACATTTC
1 TTCAAATTTCACTATACAAAAAAACATTTC
24553632 TTCAAATTTCACTATACAAAAAAACATTTC
1 TTCAAATTTCACTATACAAAAAAACATTTC
24553662 TT
1 TT
24553664 TACTTGTTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (30 bp):
TTCAAATTTCACTATACAAAAAAACATTTC
Found at i:24555587 original size:15 final size:15
Alignment explanation
Indices: 24555567--24555632 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
24555557 ATTTAAATTA
*
24555567 TGAAACTGTAGATTG
1 TGAAACTATAGATTG
24555582 TGAAACTATAGA-T-
1 TGAAACTATAGATTG
*
24555595 T---ACTATAGACTG
1 TGAAACTATAGATTG
* *
24555607 TGAAACTCTAGATTC
1 TGAAACTATAGATTG
24555622 TGAAACTATAG
1 TGAAACTATAG
24555633 TGACAAACCT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
10 8 0.20
11 1 0.02
12 1 0.02
13 1 0.02
14 1 0.02
15 29 0.71
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (15 bp):
TGAAACTATAGATTG
Found at i:24559116 original size:22 final size:22
Alignment explanation
Indices: 24559071--24559116 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
24559061 ATAATTCATA
**
24559071 ATTATAATAAAGCATTTATCAC
1 ATTATAATAAAGCATTTAAAAC
*
24559093 ATTATATTAAAGCATTTAAAAC
1 ATTATAATAAAGCATTTAAAAC
24559115 AT
1 AT
24559117 ACTACCATGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (22 bp):
ATTATAATAAAGCATTTAAAAC
Found at i:24560578 original size:20 final size:21
Alignment explanation
Indices: 24560553--24560597 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
24560543 TGTTTAATGG
*
24560553 CGTTGCTAGGAAAAACCC-AC
1 CGTTGCAAGGAAAAACCCTAC
* *
24560573 CGTTGCAAGGACAACCCCTAC
1 CGTTGCAAGGAAAAACCCTAC
24560594 CGTT
1 CGTT
24560598 ACAGAATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.29, C:0.33, G:0.20, T:0.18
Consensus pattern (21 bp):
CGTTGCAAGGAAAAACCCTAC
Found at i:24564672 original size:40 final size:40
Alignment explanation
Indices: 24564590--24564810 Score: 283
Period size: 40 Copynumber: 5.6 Consensus size: 40
24564580 TATTCGGATG
* *
24564590 ATATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
24564629 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
24564669 ATATCCGGGCTAAGTCCCGAAGGC-GTTTGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAG-TTGTGCT-A-TTGACT
** *
24564709 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
* * *
24564749 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTA-TTGACT
*
24564789 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
24564811 TACTTGGGTT
Statistics
Matches: 164, Mismatches: 10, Indels: 16
0.86 0.05 0.08
Matches are distributed among these distances:
39 43 0.26
40 115 0.70
41 6 0.04
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
Found at i:24564730 original size:80 final size:79
Alignment explanation
Indices: 24564590--24564810 Score: 313
Period size: 80 Copynumber: 2.8 Consensus size: 79
24564580 TATTCGGATG
* *
24564590 ATATCCGGGCTAAGTCCCGAAGGCATGGTGCT-AG-TGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCTTTGTG-TGAGTTG-CTATATCCGGGCTAAGTCCCGAAGGC
*
24564653 AGTTGTGCTATTGACT
64 AGTTGTGCTAGTGACT
*
24564669 ATATCCGGGCTAAGTCCCGAAGGCGTTTGTGTGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCT
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGTGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
*
24564734 TTTGTGCTAGTGACT
65 GTTGTGCTAGTGACT
* * *
24564749 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGTGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
24564811 TACTTGGGTT
Statistics
Matches: 130, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
79 40 0.31
80 88 0.68
81 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTGTGTGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCAG
TTGTGCTAGTGACT
Found at i:24567040 original size:42 final size:42
Alignment explanation
Indices: 24566978--24567131 Score: 184
Period size: 42 Copynumber: 3.6 Consensus size: 42
24566968 CGAGACTATG
* ***
24566978 TGTAAGACCATATCTAGGATATGGCATC-ATTATGAGATTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGA-TATGAGATTCCA
*
24567020 TGTAAGACCATATCTGGGATAGGGCATCGATATGAGATTCCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTCCA
* * * * *
24567062 TGTAAGACCATAGCTGGGTTGTTGGCATCGAAACGAGATTCCA
1 TGTAAGACCATATCTGGGAT-ATGGCATCGATATGAGATTCCA
*
24567105 TATAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
24567132 TGGTGTGGTA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 59 0.62
43 36 0.38
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTCCA
Found at i:24570416 original size:37 final size:39
Alignment explanation
Indices: 24570325--24570419 Score: 104
Period size: 41 Copynumber: 2.4 Consensus size: 39
24570315 AACTTCGAGT
* **
24570325 CGATGAGACACTGGGTGTCAATTTACTATTTCAGATTAATT
1 CGATGAGACACTGGGTGCCAATTTAC--TTTCAGATTAAGC
* * *
24570366 CGATGAGGCACTGGGTGCCAATTTAC-TTC-GGTTTAGC
1 CGATGAGACACTGGGTGCCAATTTACTTTCAGATTAAGC
24570403 CGATGAGACACTGGGTG
1 CGATGAGACACTGGGTG
24570420 TCAAATTATT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 20 0.43
38 3 0.06
41 24 0.51
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (39 bp):
CGATGAGACACTGGGTGCCAATTTACTTTCAGATTAAGC
Found at i:24571416 original size:14 final size:14
Alignment explanation
Indices: 24571397--24571423 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24571387 TAAACGCTCT
24571397 GGTAACCTTTATGC
1 GGTAACCTTTATGC
24571411 GGTAACCTTTATG
1 GGTAACCTTTATG
24571424 GACCTAATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (14 bp):
GGTAACCTTTATGC
Found at i:24572757 original size:55 final size:53
Alignment explanation
Indices: 24572707--24572868 Score: 174
Period size: 53 Copynumber: 3.1 Consensus size: 53
24572697 TCATGTAAGA
* *
24572707 CCATGTCAAGACATGGCATTGATAAGTTCCTATAA-GTCAAAGG-TCCCATGTAAGA
1 CCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGT--AAGGATACCATGTAAGA
* *
24572762 TCATGTCAAGACATGGCATTGGTGAGTTCATAAGGTAAGGATACCATGTAAGA
1 CCATGTCAAGACATGGCATTGGTAAGTTCATAAGGTAAGGATACCATGTAAGA
* * * *
24572815 CCATGTCGAGACATGGCAATGGTAAGTT--TAA--AAAGGATACCACGTAAGA
1 CCATGTCAAGACATGGCATTGGTAAGTTCATAAGGTAAGGATACCATGTAAGA
24572864 CCATG
1 CCATG
24572869 ACAGGTAATG
Statistics
Matches: 95, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
49 21 0.22
51 3 0.03
52 4 0.04
53 39 0.41
54 3 0.03
55 25 0.26
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.24
Consensus pattern (53 bp):
CCATGTCAAGACATGGCATTGGTAAGTTCATAAGGTAAGGATACCATGTAAGA
Found at i:24572867 original size:49 final size:51
Alignment explanation
Indices: 24572635--24572868 Score: 186
Period size: 55 Copynumber: 4.4 Consensus size: 51
24572625 ATTAGGGTTT
* * * * * *
24572635 AAGGATACCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCACGTAAGACCATGTCAAGACATGGCAA-TGGTAA-G-TTATAA-GA
* * * *
24572690 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCCTATAAGTCA
1 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAG-T--TATAAG--A
* * * * * *
24572746 AAGG-TCCCATGTAAGATCATGTCAAGACATGGCATTGGTGAGTTCATAAGGT
1 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-ATAA-GA
* *
24572798 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT-TAA-A
1 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTATAAGA
24572847 AAGGATACCACGTAAGACCATG
1 AAGGATACCACGTAAGACCATG
24572869 ACAGGTAATG
Statistics
Matches: 151, Mismatches: 21, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
49 21 0.14
51 3 0.02
52 5 0.03
53 42 0.28
54 8 0.05
55 68 0.45
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (51 bp):
AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTATAAGA
Found at i:24580399 original size:55 final size:53
Alignment explanation
Indices: 24580319--24580452 Score: 144
Period size: 55 Copynumber: 2.5 Consensus size: 53
24580309 TTTAAGGATA
* *
24580319 CCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAAAAGGTC
1 CCATATAAGACCATGTCAAGACATGGAATTGATAAGTT-C-ATAAGGAAAAGGTC
* * * * * *
24580374 CCATATAAGATCATGTTAAGTCATGGAATTGGTGAGTTCATAAGG-AAAGGATA
1 CCATATAAGACCATGTCAAGACATGGAATTGATAAGTTCATAAGGAAAAGG-TC
* *
24580427 CCATGTAAGACCATGTCGAGACATGG
1 CCATATAAGACCATGTCAAGACATGG
24580453 CAATGGTAAG
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
52 5 0.08
53 28 0.43
54 1 0.02
55 31 0.48
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (53 bp):
CCATATAAGACCATGTCAAGACATGGAATTGATAAGTTCATAAGGAAAAGGTC
Done.