Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 53 of 185
Found at i:16357418 original size:18 final size:20
Alignment explanation
Indices: 16357397--16357435 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
16357387 TATCATGGAT
16357397 AAATT-AATA-AATAATTAA
1 AAATTAAATATAATAATTAA
*
16357415 AAATTAAATATAATCATTAA
1 AAATTAAATATAATAATTAA
16357435 A
1 A
16357436 TTTTTGAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATTAAATATAATAATTAA
Found at i:16364182 original size:51 final size:52
Alignment explanation
Indices: 16364105--16364233 Score: 190
Period size: 52 Copynumber: 2.5 Consensus size: 52
16364095 CGGATACCCG
* *
16364105 GTGGCCTGCACATAGTACCACCCTTGT-AGCCAAAGCTA-CCTTCTTCAAAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCCTTCTTCAAAAA
* * *
16364156 GTGGCCTTCACAAAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCCTTCTTCAAAAA
16364208 GTGGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
16364234 AGTCACTAGT
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
51 33 0.47
52 37 0.53
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.26
Consensus pattern (52 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCCTTCTTCAAAAA
Found at i:16365936 original size:45 final size:44
Alignment explanation
Indices: 16365886--16366000 Score: 124
Period size: 45 Copynumber: 2.6 Consensus size: 44
16365876 GTCTTAACGA
* * *
16365886 CTTTCAACCATGATCTTACTCATTTCCATCATGATGCCATAGCAT
1 CTTTCAACTATGATCTTACTCATTT-AATCATGATGCCATAACAT
*
16365931 CTTTCAACTAT-AGTCTTACTTATCTTAATCATGATGCCATAACAT
1 CTTTCAACTATGA-TCTTACTCAT-TTAATCATGATGCCATAACAT
* * * *
16365976 TTTTCAGCTATGGTCTTAATCATTT
1 CTTTCAACTATGATCTTACTCATTT
16366001 TAGGTGTATA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
44 3 0.05
45 53 0.91
46 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (44 bp):
CTTTCAACTATGATCTTACTCATTTAATCATGATGCCATAACAT
Found at i:16370955 original size:9 final size:9
Alignment explanation
Indices: 16370941--16370965 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
16370931 TGCATGTGAG
16370941 AAATGGTCC
1 AAATGGTCC
16370950 AAATGGTCC
1 AAATGGTCC
16370959 AAATGGT
1 AAATGGT
16370966 AATGTTACTT
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:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (9 bp):
AAATGGTCC
Found at i:16372063 original size:31 final size:30
Alignment explanation
Indices: 16372027--16372097 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 30
16372017 TGGCATCCAT
* *
16372027 AGAGATAGTCTGTTGGGATAGTAAACATAGA
1 AGAGATAGTCTGTTGGGACAGTAAACACA-A
16372058 AGAGATAGTCTGTTGGGACAGTAAACACAA
1 AGAGATAGTCTGTTGGGACAGTAAACACAA
16372088 AGTAGATAGT
1 AG-AGATAGT
16372098 TCACTAGGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 3 0.08
31 34 0.92
ACGTcount: A:0.39, C:0.08, G:0.28, T:0.24
Consensus pattern (30 bp):
AGAGATAGTCTGTTGGGACAGTAAACACAA
Found at i:16374187 original size:39 final size:38
Alignment explanation
Indices: 16374144--16374271 Score: 139
Period size: 39 Copynumber: 3.3 Consensus size: 38
16374134 GCGTTTGGAC
*
16374144 AAAAAACGCCACTAAAAATCGAGCATTAGCGGCGCTTTT
1 AAAAAACGCCGCTAAAAAT-GAGCATTAGCGGCGCTTTT
** *
16374183 AAAAAACGCCGCTAAAGGTAGAGCATTAGCGGCGCTTATC
1 AAAAAACGCCGCTAAAAAT-GAGCATTAGCGGCGCTT-TT
* * * *
16374223 CAAAAATGCCGCTAAAAATAAGCATTAGCGGCGTTTTCT
1 AAAAAACGCCGCTAAAAATGAGCATTAGCGGCGCTTT-T
*
16374262 AAAAAGCGCC
1 AAAAAACGCC
16374272 TCAAAAAGCC
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
38 1 0.01
39 55 0.76
40 16 0.22
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (38 bp):
AAAAAACGCCGCTAAAAATGAGCATTAGCGGCGCTTTT
Found at i:16374373 original size:41 final size:41
Alignment explanation
Indices: 16374316--16374552 Score: 266
Period size: 41 Copynumber: 5.8 Consensus size: 41
16374306 AGTTTTTGAG
* *
16374316 GCCTTTAGCGGCGTTTTTGAATAAACGCCGCTAATGCTCTA
1 GCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTA
*
16374357 GCCTTTAGCGGCGTTTTTG-AGTAAGCGCCGCTAATGCTCTG
1 GCCTTTAGCGGCGTTTTTGAAG-AAGCGCCGCTAATGCTCTA
* *
16374398 GCCTTTAGCGGCATTTTTGAA-AAGCGCCGCTAATGTTCT-
1 GCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTA
* *
16374437 GTCTTTTAGCAGCGTTTTTGAAGAAGCGCCGCTAATGCTC-A
1 G-CCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTA
* * * * * * *
16374478 GATCTTTAGCGGCGCTTTTAAAGAAGCGCCGGTATTGCTGTG
1 G-CCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTA
* * *
16374520 GCCTTTAGCGGCGTTTTTAAAAAAGTGCCGCTA
1 GCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTA
16374553 GTAATAATAA
Statistics
Matches: 166, Mismatches: 24, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 1 0.01
40 35 0.21
41 128 0.77
42 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (41 bp):
GCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTA
Found at i:16374452 original size:81 final size:82
Alignment explanation
Indices: 16374314--16374552 Score: 268
Period size: 81 Copynumber: 2.9 Consensus size: 82
16374304 TGAGTTTTTG
* * *
16374314 AGGCCTTTAGCGGCGTTTTTGAATAAACGCCGCTAATGCTCTAGCCTTTAGCGGCGTTTTTG-AG
1 AGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTAGCCTTTAGCAGCGTTTTTGAAG
16374378 TAAGCGCCGCTAATGCTC
66 -AAGCGCCGCTAATGCTC
* * * *
16374396 TGGCCTTTAGCGGCATTTTTGAA-AAGCGCCGCTAATGTTCT-GTCTTTTAGCAGCGTTTTTGAA
1 AGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTAG-CCTTTAGCAGCGTTTTTGAA
16374459 GAAGCGCCGCTAATGCTC
65 GAAGCGCCGCTAATGCTC
** * * * * * * * * *
16374477 AGATCTTTAGCGGCGCTTTTAAAGAAGCGCCGGTATTGCTGTGGCCTTTAGCGGCGTTTTTAAAA
1 AGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTAGCCTTTAGCAGCGTTTTTGAAG
*
16374542 AAGTGCCGCTA
66 AAGCGCCGCTA
16374553 GTAATAATAA
Statistics
Matches: 132, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
80 1 0.01
81 66 0.50
82 64 0.48
83 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (82 bp):
AGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTAGCCTTTAGCAGCGTTTTTGAAG
AAGCGCCGCTAATGCTC
Found at i:16374470 original size:122 final size:123
Alignment explanation
Indices: 16374319--16374552 Score: 321
Period size: 122 Copynumber: 1.9 Consensus size: 123
16374309 TTTTGAGGCC
* * **
16374319 TTTAGCGGCGTTTTTGAATAAACGCCGCTAATGCTCTAG-CCTTTAGCGGCG-TTTTTGAGTAAG
1 TTTAGCAGCGTTTTTGAAGAAACGCCGCTAATGCTC-AGACCTTTAGCGGCGCTTTTAAAG-AAG
*
16374382 CGCCGCTAATGCTCTGGCCTTTAGCGGCATTTTT-GAAAAGCGCCGCTAATGTTCTGTCT
64 CGCCGCTAATGCTCTGGCCTTTAGCGGCATTTTTAAAAAAGCGCCGCTAATGTTCTGTCT
* *
16374441 TTTAGCAGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGCTTTTAAAGAAGCG
1 TTTAGCAGCGTTTTTGAAGAAACGCCGCTAATGCTCAGACCTTTAGCGGCGCTTTTAAAGAAGCG
* * * * *
16374506 CCGGTATTGCTGTGGCCTTTAGCGGCGTTTTTAAAAAAGTGCCGCTA
66 CCGCTAATGCTCTGGCCTTTAGCGGCATTTTTAAAAAAGCGCCGCTA
16374553 GTAATAATAA
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
121 2 0.02
122 77 0.79
123 18 0.19
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.32
Consensus pattern (123 bp):
TTTAGCAGCGTTTTTGAAGAAACGCCGCTAATGCTCAGACCTTTAGCGGCGCTTTTAAAGAAGCG
CCGCTAATGCTCTGGCCTTTAGCGGCATTTTTAAAAAAGCGCCGCTAATGTTCTGTCT
Found at i:16375924 original size:19 final size:19
Alignment explanation
Indices: 16375900--16375939 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
16375890 AATTATAAGA
16375900 AAAAATAAAATAAAAAAAT
1 AAAAATAAAATAAAAAAAT
*
16375919 AAAAATGAAATAAAAAAAT
1 AAAAATAAAATAAAAAAAT
16375938 AA
1 AA
16375940 TTATTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (19 bp):
AAAAATAAAATAAAAAAAT
Found at i:16375982 original size:31 final size:31
Alignment explanation
Indices: 16375934--16375993 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
16375924 TGAAATAAAA
* **
16375934 AAATAATTATTATAATTTTTCTAATTCTTTT
1 AAATAATTATTAAAATTTTAATAATTCTTTT
16375965 AAAT-ATTACTTAAAATTTTAATAATTCTT
1 AAATAATTA-TTAAAATTTTAATAATTCTT
16375994 CATGTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (31 bp):
AAATAATTATTAAAATTTTAATAATTCTTTT
Found at i:16376649 original size:7 final size:7
Alignment explanation
Indices: 16376637--16376722 Score: 82
Period size: 7 Copynumber: 11.9 Consensus size: 7
16376627 GATATAAGGT
16376637 TTAGGGG
1 TTAGGGG
16376644 TTAGGGG
1 TTAGGGG
*
16376651 TTAGGGAT
1 TTAGGG-G
16376659 TTAGGGG
1 TTAGGGG
*
16376666 TTAGGAG
1 TTAGGGG
*
16376673 CTAGGGG
1 TTAGGGG
*
16376680 TTAGGGAT
1 TTAGGG-G
16376688 TTAGGGG
1 TTAGGGG
*
16376695 CTAGGGG
1 TTAGGGG
*
16376702 TTAGGGAT
1 TTAGGG-G
*
16376710 TTAGGGT
1 TTAGGGG
16376717 TTAGGG
1 TTAGGG
16376723 TGTCAATTAA
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
7 47 0.72
8 18 0.28
ACGTcount: A:0.19, C:0.02, G:0.49, T:0.30
Consensus pattern (7 bp):
TTAGGGG
Found at i:16376657 original size:29 final size:29
Alignment explanation
Indices: 16376619--16376722 Score: 120
Period size: 29 Copynumber: 3.6 Consensus size: 29
16376609 GTGATTATTA
* * * *
16376619 GGGTTTGGGATATAAGGTTTAGGGGTTAG
1 GGGTTAGGGATTTAGGGGTTAGGGGTTAG
* *
16376648 GGGTTAGGGATTTAGGGGTTAGGAGCTAG
1 GGGTTAGGGATTTAGGGGTTAGGGGTTAG
*
16376677 GGGTTAGGGATTTAGGGGCTAGGGGTTAG
1 GGGTTAGGGATTTAGGGGTTAGGGGTTAG
*
16376706 GGATTTAGGG-TTTAGGG
1 GG-GTTAGGGATTTAGGG
16376723 TGTCAATTAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
29 58 0.91
30 6 0.09
ACGTcount: A:0.19, C:0.02, G:0.48, T:0.31
Consensus pattern (29 bp):
GGGTTAGGGATTTAGGGGTTAGGGGTTAG
Found at i:16376723 original size:7 final size:7
Alignment explanation
Indices: 16376616--16376723 Score: 67
Period size: 7 Copynumber: 15.0 Consensus size: 7
16376606 TATGTGATTA
16376616 TTAGGGT
1 TTAGGGT
16376623 TT-GGGAT
1 TTAGGG-T
* *
16376630 ATAAGGT
1 TTAGGGT
*
16376637 TTAGGGG
1 TTAGGGT
*
16376644 TTAGGGG
1 TTAGGGT
16376651 TTAGGGAT
1 TTAGGG-T
*
16376659 TTAGGGG
1 TTAGGGT
16376666 TTAGGAG-
1 TTAGG-GT
* *
16376673 CTAGGGG
1 TTAGGGT
16376680 TTAGGGAT
1 TTAGGG-T
*
16376688 TTAGGGG
1 TTAGGGT
* *
16376695 CTAGGGG
1 TTAGGGT
16376702 TTAGGGAT
1 TTAGGG-T
16376710 TTAGGGT
1 TTAGGGT
16376717 TTAGGGT
1 TTAGGGT
16376724 GTCAATTAAT
Statistics
Matches: 80, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
6 4 0.05
7 55 0.69
8 21 0.26
ACGTcount: A:0.19, C:0.02, G:0.46, T:0.32
Consensus pattern (7 bp):
TTAGGGT
Found at i:16380297 original size:11 final size:11
Alignment explanation
Indices: 16380277--16380309 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
16380267 ATTTATTGAC
*
16380277 TGTCAGTGAAT
1 TGTCAATGAAT
16380288 TGTCAATGAA-
1 TGTCAATGAAT
16380298 TGTCAATGAAT
1 TGTCAATGAAT
16380309 T
1 T
16380310 ATTAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.36
Consensus pattern (11 bp):
TGTCAATGAAT
Found at i:16380362 original size:13 final size:13
Alignment explanation
Indices: 16380341--16380374 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
16380331 ATTTATAACT
16380341 TACATTACTTAAA
1 TACATTACTTAAA
*
16380354 TATATTACTTAAA
1 TACATTACTTAAA
16380367 TACATTAC
1 TACATTAC
16380375 ATACTAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (13 bp):
TACATTACTTAAA
Found at i:16380395 original size:40 final size:40
Alignment explanation
Indices: 16380349--16380425 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
16380339 CTTACATTAC
* *
16380349 TTAAATATATTACTTAAATACATTACATACTAGAATTGGA
1 TTAAATATATTACTTAAATACATGACATACTAAAATTGGA
*
16380389 TTAAATATATTACTTAAATACATGACTTACTAAAATT
1 TTAAATATATTACTTAAATACATGACATACTAAAATT
16380426 AAAGTATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.39
Consensus pattern (40 bp):
TTAAATATATTACTTAAATACATGACATACTAAAATTGGA
Found at i:16380473 original size:22 final size:21
Alignment explanation
Indices: 16380445--16380533 Score: 68
Period size: 22 Copynumber: 4.5 Consensus size: 21
16380435 ATTACATTAC
16380445 TTACATTACTTACTAAAATATA
1 TTACATTACTTA-TAAAATATA
16380467 TTACATTAC-T-T-AAATATA
1 TTACATTACTTATAAAATATA
*
16380485 TTAC-TTAC--A-AAAATTTA
1 TTACATTACTTATAAAATATA
* *
16380502 TAAC-TTACATTACTTAAATATA
1 TTACATTAC-TTA-TAAAATATA
16380524 TTACATTACT
1 TTACATTACT
16380534 ACATTACATA
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
17 17 0.31
18 11 0.20
19 1 0.02
20 1 0.02
21 1 0.02
22 19 0.35
23 4 0.07
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (21 bp):
TTACATTACTTATAAAATATA
Found at i:16380498 original size:17 final size:17
Alignment explanation
Indices: 16380449--16380510 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
16380439 CATTACTTAC
*
16380449 ATTACTTACTAAAATAT
1 ATTACTTACAAAAATAT
**
16380466 ATTACATTACTTAAATAT
1 ATTAC-TTACAAAAATAT
*
16380484 ATTACTTACAAAAATTT
1 ATTACTTACAAAAATAT
*
16380501 ATAACTTACA
1 ATTACTTACA
16380511 TTACTTAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
17 23 0.59
18 16 0.41
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTACTTACAAAAATAT
Found at i:16380566 original size:40 final size:40
Alignment explanation
Indices: 16380515--16381127 Score: 248
Period size: 40 Copynumber: 14.9 Consensus size: 40
16380505 CTTACATTAC
* * **
16380515 TTAAATATATTACATTACTACATTACATACTAGAATTGGA
1 TTAAATATATTACATTACTACATTACTTACTAAAATTAAA
* *
16380555 TTAAATATATTAC-TTAAATACATGACTTACTAAAATTAAA
1 TTAAATATATTACATT-ACTACATTACTTACTAAAATTAAA
*
16380595 GT--ATATATTACATTACTTACATTACTTACTAAAATATATTACATTA
1 TTAAATATATTACATTAC-TACATTACTTACT--AA-A-ATTA-A--A
* * * * * *
16380641 CTTAAATATATTAC-TTACAAAAATTTA-TAACTTACATT-AC
1 -TTAAATATATTACATTAC-TACA-TTACTTACTAAAATTAAA
* * * **
16380681 TTAAATATATTAC-TTAAATACATTACATACTAGAATTGGA
1 TTAAATATATTACATT-ACTACATTACTTACTAAAATTAAA
* *
16380721 TTAAATATATTAC-TTAAATACATGACTTACTAAAATTAAA
1 TTAAATATATTACATT-ACTACATTACTTACTAAAATTAAA
*
16380761 GT--ATATATTACATTACTTACATTACTTACTAAAATATATTACATTA
1 TTAAATATATTACATTAC-TACATTACTTACT--AA-A-ATTA-A--A
* * * * * *
16380807 CTTAAATATATTAC-TTACAAAAATTTA-TAACTTACATT-AC
1 -TTAAATATATTACATTAC-TACA-TTACTTACTAAAATTAAA
* * * **
16380847 TTAAATATATTAC-TTAAATACATTACATACTAGAATTGGA
1 TTAAATATATTACATT-ACTACATTACTTACTAAAATTAAA
* *
16380887 TTAAATATATTAC-TTAAATACATGACTTACTAAAATTAAA
1 TTAAATATATTACATT-ACTACATTACTTACTAAAATTAAA
*
16380927 GT--ATATATTACATTACTTACATTACTTACTAAAATATATTACATTA
1 TTAAATATATTACATTAC-TACATTACTTACT--AA-A-ATTA-A--A
* * * * * *
16380973 CTTAAATATATTAC-TTACAAAAATTTA-TAACTTACATT-AC
1 -TTAAATATATTACATTAC-TACA-TTACTTACTAAAATTAAA
* * * **
16381013 TTAAATATATTAC-TTAAATACATTACATACTAGAATTGGA
1 TTAAATATATTACATT-ACTACATTACTTACTAAAATTAAA
* *
16381053 TTAAATATATTAC-TTAAATACATGACTTACTAAAATTAAA
1 TTAAATATATTACATT-ACTACATTACTTACTAAAATTAAA
*
16381093 GT--ATATATTACATTACTTACATTACTTACTAAAAT
1 TTAAATATATTACATTAC-TACATTACTTACTAAAAT
16381128 ATATTACATT
Statistics
Matches: 435, Mismatches: 87, Indels: 103
0.70 0.14 0.16
Matches are distributed among these distances:
38 49 0.11
39 132 0.30
40 143 0.33
41 6 0.01
42 6 0.01
43 12 0.03
44 12 0.03
46 6 0.01
47 3 0.01
48 30 0.07
49 36 0.08
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (40 bp):
TTAAATATATTACATTACTACATTACTTACTAAAATTAAA
Found at i:16380587 original size:166 final size:166
Alignment explanation
Indices: 16380328--16381191 Score: 1703
Period size: 166 Copynumber: 5.2 Consensus size: 166
16380318 ATATATTTTT
16380328 AAAATTTATAACTTACATTACTTAAATATATTACTTAAATACATTACATACTAGAATTGGATTAA
1 AAAATTTATAACTTACATTACTTAAATATATTACTTAAATACATTACATACTAGAATTGGATTAA
16380393 ATATATTACTTAAATACATGACTTACTAAAATTAAAGTATATATTACATTACTTACATTACTTAC
66 ATATATTACTTAAATACATGACTTACTAAAATTAAAGTATATATTACATTACTTACATTACTTAC
16380458 TAAAATATATTACATTACTTAAATATATTACTTACA
131 TAAAATATATTACATTACTTAAATATATTACTTACA
*
16380494 AAAATTTATAACTTACATTACTTAAATATATTACATT-ACTACATTACATACTAGAATTGGATTA
1 AAAATTTATAACTTACATTACTTAAATATATTAC-TTAAATACATTACATACTAGAATTGGATTA
16380558 AATATATTACTTAAATACATGACTTACTAAAATTAAAGTATATATTACATTACTTACATTACTTA
65 AATATATTACTTAAATACATGACTTACTAAAATTAAAGTATATATTACATTACTTACATTACTTA
16380623 CTAAAATATATTACATTACTTAAATATATTACTTACA
130 CTAAAATATATTACATTACTTAAATATATTACTTACA
16380660 AAAATTTATAACTTACATTACTTAAATATATTACTTAAATACATTACATACTAGAATTGGATTAA
1 AAAATTTATAACTTACATTACTTAAATATATTACTTAAATACATTACATACTAGAATTGGATTAA
16380725 ATATATTACTTAAATACATGACTTACTAAAATTAAAGTATATATTACATTACTTACATTACTTAC
66 ATATATTACTTAAATACATGACTTACTAAAATTAAAGTATATATTACATTACTTACATTACTTAC
16380790 TAAAATATATTACATTACTTAAATATATTACTTACA
131 TAAAATATATTACATTACTTAAATATATTACTTACA
16380826 AAAATTTATAACTTACATTACTTAAATATATTACTTAAATACATTACATACTAGAATTGGATTAA
1 AAAATTTATAACTTACATTACTTAAATATATTACTTAAATACATTACATACTAGAATTGGATTAA
16380891 ATATATTACTTAAATACATGACTTACTAAAATTAAAGTATATATTACATTACTTACATTACTTAC
66 ATATATTACTTAAATACATGACTTACTAAAATTAAAGTATATATTACATTACTTACATTACTTAC
16380956 TAAAATATATTACATTACTTAAATATATTACTTACA
131 TAAAATATATTACATTACTTAAATATATTACTTACA
16380992 AAAATTTATAACTTACATTACTTAAATATATTACTTAAATACATTACATACTAGAATTGGATTAA
1 AAAATTTATAACTTACATTACTTAAATATATTACTTAAATACATTACATACTAGAATTGGATTAA
16381057 ATATATTACTTAAATACATGACTTACTAAAATTAAAGTATATATTACATTACTTACATTACTTAC
66 ATATATTACTTAAATACATGACTTACTAAAATTAAAGTATATATTACATTACTTACATTACTTAC
16381122 TAAAATATATTACATTACTTAAATATATTACTTACA
131 TAAAATATATTACATTACTTAAATATATTACTTACA
16381158 AAAATTTATAACTTACATTACTTAAATATATTAC
1 AAAATTTATAACTTACATTACTTAAATATATTAC
16381192 ATTACTTAAA
Statistics
Matches: 694, Mismatches: 2, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
165 2 0.00
166 690 0.99
167 2 0.00
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (166 bp):
AAAATTTATAACTTACATTACTTAAATATATTACTTAAATACATTACATACTAGAATTGGATTAA
ATATATTACTTAAATACATGACTTACTAAAATTAAAGTATATATTACATTACTTACATTACTTAC
TAAAATATATTACATTACTTAAATATATTACTTACA
Found at i:16380593 original size:35 final size:35
Alignment explanation
Indices: 16380554--16380696 Score: 117
Period size: 39 Copynumber: 3.9 Consensus size: 35
16380544 CTAGAATTGG
*
16380554 ATTAAATATATTACTTAAATACATGACTTACTAAA
1 ATTAAATATATTACTTAAATACATTACTTACTAAA
**
16380589 ATTAAAGTATATATTACATTACTTACATTACTTACTAAA
1 ATT-AA--ATATATTAC-TTAAATACATTACTTACTAAA
* * * *
16380628 A-TATATTACATTACTTAAATATATTACTTACAAAA
1 ATTA-AATATATTACTTAAATACATTACTTACTAAA
* *
16380663 ATTTATAACTTACATTACTTAAATATATTACTTA
1 A-TTA-AA--TATATTACTTAAATACATTACTTA
16380697 AATACATTAC
Statistics
Matches: 89, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
35 21 0.24
36 9 0.10
37 5 0.06
38 11 0.12
39 43 0.48
ACGTcount: A:0.45, C:0.12, G:0.01, T:0.41
Consensus pattern (35 bp):
ATTAAATATATTACTTAAATACATTACTTACTAAA
Found at i:16380636 original size:13 final size:13
Alignment explanation
Indices: 16380637--16380706 Score: 56
Period size: 13 Copynumber: 5.4 Consensus size: 13
16380627 AATATATTAC
16380637 ATTACTTAAATAT
1 ATTACTTAAATAT
*
16380650 ATTACTTACAA-AA
1 ATTACTTA-AATAT
* *
16380663 ATT--TATAACTTAC
1 ATTACT-TAA-ATAT
16380676 ATTACTTAAATAT
1 ATTACTTAAATAT
*
16380689 ATTACTTAAATAC
1 ATTACTTAAATAT
16380702 ATTAC
1 ATTAC
16380707 ATACTAGAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
11 2 0.04
12 2 0.04
13 35 0.78
14 5 0.11
15 1 0.02
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTACTTAAATAT
Found at i:16380658 original size:22 final size:22
Alignment explanation
Indices: 16380606--16380696 Score: 88
Period size: 22 Copynumber: 4.4 Consensus size: 22
16380596 TATATATTAC
*
16380606 ATTACTTACATTACTTACTAAAAT
1 ATTACTTACATTACTTA--AATAT
16380630 A-TA-TTACATTACTTAAATAT
1 ATTACTTACATTACTTAAATAT
*
16380650 ATTACTTACA--A---AAATTT
1 ATTACTTACATTACTTAAATAT
*
16380667 ATAACTTACATTACTTAAATAT
1 ATTACTTACATTACTTAAATAT
16380689 ATTACTTA
1 ATTACTTA
16380697 AATACATTAC
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
17 14 0.25
19 1 0.02
20 6 0.11
21 2 0.04
22 29 0.53
23 2 0.04
24 1 0.02
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTACTTACATTACTTAAATAT
Found at i:16380664 original size:17 final size:17
Alignment explanation
Indices: 16380615--16380676 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
16380605 CATTACTTAC
*
16380615 ATTACTTACTAAAATAT
1 ATTACTTACAAAAATAT
**
16380632 ATTACATTACTTAAATAT
1 ATTAC-TTACAAAAATAT
*
16380650 ATTACTTACAAAAATTT
1 ATTACTTACAAAAATAT
*
16380667 ATAACTTACA
1 ATTACTTACA
16380677 TTACTTAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
17 23 0.59
18 16 0.41
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTACTTACAAAAATAT
Found at i:16380685 original size:39 final size:39
Alignment explanation
Indices: 16380633--16381196 Score: 141
Period size: 39 Copynumber: 13.7 Consensus size: 39
16380623 CTAAAATATA
16380633 TTACATTACTTAAATATATTACTTACAAAAATTTATAAC
1 TTACATTACTTAAATATATTACTTACAAAAATTTATAAC
* *
16380672 TTACATTACTTAAATATATTACTTA-AATACA-TTACATAC
1 TTACATTACTTAAATATATTACTTACAA-AAATTTATA-AC
* * *
16380711 -TAGAATTGGA-TTAAATATATTACTTA-AATACATGACTTACTAAAA
1 TTA-CATT--ACTTAAATATATTACTTACAA-A-A--ATTTA-T-AAC
* * * * ** *
16380756 TTAAAGTA--TATATTACATTACTTACATTACTTACTAAAATATA-
1 TTACATTACTTA-AATATATTACTTACAAAAATT--T---ATA-AC
16380799 TTACATTACTTAAATATATTACTTACAAAAATTTATAAC
1 TTACATTACTTAAATATATTACTTACAAAAATTTATAAC
* *
16380838 TTACATTACTTAAATATATTACTTA-AATACA-TTACATAC
1 TTACATTACTTAAATATATTACTTACAA-AAATTTATA-AC
* * *
16380877 -TAGAATTGGA-TTAAATATATTACTTA-AATACATGACTTACTAAAA
1 TTA-CATT--ACTTAAATATATTACTTACAA-A-A--ATTTA-T-AAC
* * * * ** *
16380922 TTAAAGTA--TATATTACATTACTTACATTACTTACTAAAATATA-
1 TTACATTACTTA-AATATATTACTTACAAAAATT--T---ATA-AC
16380965 TTACATTACTTAAATATATTACTTACAAAAATTTATAAC
1 TTACATTACTTAAATATATTACTTACAAAAATTTATAAC
* *
16381004 TTACATTACTTAAATATATTACTTA-AATACA-TTACATAC
1 TTACATTACTTAAATATATTACTTACAA-AAATTTATA-AC
* * *
16381043 -TAGAATTGGA-TTAAATATATTACTTA-AATACATGACTTACTAAAA
1 TTA-CATT--ACTTAAATATATTACTTACAA-A-A--ATTTA-T-AAC
* * * * ** *
16381088 TTAAAGTA--TATATTACATTACTTACATTACTTACTAAAATATA-
1 TTACATTACTTA-AATATATTACTTACAAAAATT--T---ATA-AC
16381131 TTACATTACTTAAATATATTACTTACAAAAATTTATAAC
1 TTACATTACTTAAATATATTACTTACAAAAATTTATAAC
16381170 TTACATTACTTAAATATATTACATTAC
1 TTACATTACTTAAATATATTAC-TTAC
16381197 TTAAATTTTA
Statistics
Matches: 395, Mismatches: 60, Indels: 139
0.66 0.10 0.23
Matches are distributed among these distances:
38 27 0.07
39 127 0.32
40 67 0.17
41 3 0.01
42 15 0.04
43 60 0.15
44 66 0.17
45 21 0.05
46 9 0.02
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (39 bp):
TTACATTACTTAAATATATTACTTACAAAAATTTATAAC
Found at i:16380802 original size:13 final size:13
Alignment explanation
Indices: 16380803--16380872 Score: 56
Period size: 13 Copynumber: 5.4 Consensus size: 13
16380793 AATATATTAC
16380803 ATTACTTAAATAT
1 ATTACTTAAATAT
*
16380816 ATTACTTACAA-AA
1 ATTACTTA-AATAT
* *
16380829 ATT--TATAACTTAC
1 ATTACT-TAA-ATAT
16380842 ATTACTTAAATAT
1 ATTACTTAAATAT
*
16380855 ATTACTTAAATAC
1 ATTACTTAAATAT
16380868 ATTAC
1 ATTAC
16380873 ATACTAGAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
11 2 0.04
12 2 0.04
13 35 0.78
14 5 0.11
15 1 0.02
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTACTTAAATAT
Found at i:16380824 original size:22 final size:22
Alignment explanation
Indices: 16380772--16380862 Score: 88
Period size: 22 Copynumber: 4.4 Consensus size: 22
16380762 TATATATTAC
*
16380772 ATTACTTACATTACTTACTAAAAT
1 ATTACTTACATTACTTA--AATAT
16380796 A-TA-TTACATTACTTAAATAT
1 ATTACTTACATTACTTAAATAT
*
16380816 ATTACTTACA--A---AAATTT
1 ATTACTTACATTACTTAAATAT
*
16380833 ATAACTTACATTACTTAAATAT
1 ATTACTTACATTACTTAAATAT
16380855 ATTACTTA
1 ATTACTTA
16380863 AATACATTAC
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
17 14 0.25
19 1 0.02
20 6 0.11
21 2 0.04
22 29 0.53
23 2 0.04
24 1 0.02
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTACTTACATTACTTAAATAT
Found at i:16380830 original size:17 final size:17
Alignment explanation
Indices: 16380781--16380842 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
16380771 CATTACTTAC
*
16380781 ATTACTTACTAAAATAT
1 ATTACTTACAAAAATAT
**
16380798 ATTACATTACTTAAATAT
1 ATTAC-TTACAAAAATAT
*
16380816 ATTACTTACAAAAATTT
1 ATTACTTACAAAAATAT
*
16380833 ATAACTTACA
1 ATTACTTACA
16380843 TTACTTAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
17 23 0.59
18 16 0.41
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTACTTACAAAAATAT
Found at i:16380968 original size:13 final size:13
Alignment explanation
Indices: 16380969--16381038 Score: 56
Period size: 13 Copynumber: 5.4 Consensus size: 13
16380959 AATATATTAC
16380969 ATTACTTAAATAT
1 ATTACTTAAATAT
*
16380982 ATTACTTACAA-AA
1 ATTACTTA-AATAT
* *
16380995 ATT--TATAACTTAC
1 ATTACT-TAA-ATAT
16381008 ATTACTTAAATAT
1 ATTACTTAAATAT
*
16381021 ATTACTTAAATAC
1 ATTACTTAAATAT
16381034 ATTAC
1 ATTAC
16381039 ATACTAGAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
11 2 0.04
12 2 0.04
13 35 0.78
14 5 0.11
15 1 0.02
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTACTTAAATAT
Found at i:16380990 original size:22 final size:22
Alignment explanation
Indices: 16380938--16381028 Score: 88
Period size: 22 Copynumber: 4.4 Consensus size: 22
16380928 TATATATTAC
*
16380938 ATTACTTACATTACTTACTAAAAT
1 ATTACTTACATTACTTA--AATAT
16380962 A-TA-TTACATTACTTAAATAT
1 ATTACTTACATTACTTAAATAT
*
16380982 ATTACTTACA--A---AAATTT
1 ATTACTTACATTACTTAAATAT
*
16380999 ATAACTTACATTACTTAAATAT
1 ATTACTTACATTACTTAAATAT
16381021 ATTACTTA
1 ATTACTTA
16381029 AATACATTAC
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
17 14 0.25
19 1 0.02
20 6 0.11
21 2 0.04
22 29 0.53
23 2 0.04
24 1 0.02
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTACTTACATTACTTAAATAT
Found at i:16380996 original size:17 final size:17
Alignment explanation
Indices: 16380947--16381008 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
16380937 CATTACTTAC
*
16380947 ATTACTTACTAAAATAT
1 ATTACTTACAAAAATAT
**
16380964 ATTACATTACTTAAATAT
1 ATTAC-TTACAAAAATAT
*
16380982 ATTACTTACAAAAATTT
1 ATTACTTACAAAAATAT
*
16380999 ATAACTTACA
1 ATTACTTACA
16381009 TTACTTAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
17 23 0.59
18 16 0.41
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTACTTACAAAAATAT
Found at i:16381137 original size:22 final size:21
Alignment explanation
Indices: 16381109--16381199 Score: 72
Period size: 22 Copynumber: 4.6 Consensus size: 21
16381099 ATTACATTAC
16381109 TTACATTACTTACTAAAATATA
1 TTACATTACTTA-TAAAATATA
16381131 TTACATTAC-T-T-AAATATA
1 TTACATTACTTATAAAATATA
*
16381149 TTAC-TTAC--A-AAAATTTA
1 TTACATTACTTATAAAATATA
* *
16381166 TAAC-TTACATTACTTAAATATA
1 TTACATTAC-TTA-TAAAATATA
16381188 TTACATTACTTA
1 TTACATTACTTA
16381200 AATTTTATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
17 17 0.30
18 11 0.20
19 1 0.02
20 1 0.02
21 1 0.02
22 21 0.38
23 4 0.07
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (21 bp):
TTACATTACTTATAAAATATA
Found at i:16381162 original size:17 final size:17
Alignment explanation
Indices: 16381113--16381174 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
16381103 CATTACTTAC
*
16381113 ATTACTTACTAAAATAT
1 ATTACTTACAAAAATAT
**
16381130 ATTACATTACTTAAATAT
1 ATTAC-TTACAAAAATAT
*
16381148 ATTACTTACAAAAATTT
1 ATTACTTACAAAAATAT
*
16381165 ATAACTTACA
1 ATTACTTACA
16381175 TTACTTAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
17 23 0.59
18 16 0.41
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTACTTACAAAAATAT
Found at i:16381368 original size:121 final size:120
Alignment explanation
Indices: 16381230--16381577 Score: 633
Period size: 121 Copynumber: 2.9 Consensus size: 120
16381220 AAAATTTAGC
* *
16381230 TATATGGTATGGATATATAACCTATATTTCAATTTTATTGTCAATAAATTTTATAATTTTAAAAA
1 TATATGGTATGGATATATAACCTATATTTCAATTTTATTG-AAATGAATTTTATAATTTTAAAAA
*
16381295 TAATTGTAAATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCACCCCA
65 TAATTGTAAATGTTATTTTTAAATATTAAAACCTATATGTTTAATATATCACCCCA
16381351 TATATGGTATGGATATATAACCTATATTTCAATTTTATTAGAAATGAATTTTATAATTTTAAAAA
1 TATATGGTATGGATATATAACCTATATTTCAATTTTATT-GAAATGAATTTTATAATTTTAAAAA
16381416 TAATTGTAAATGTTATTTTTAAATATTAAAACCTATATGTTTAATATATCACCCCA
65 TAATTGTAAATGTTATTTTTAAATATTAAAACCTATATGTTTAATATATCACCCCA
*
16381472 TATATGGTATGGATATATAACCTATATTTCAATTTTAATAGAAATGAATTTTATAATTTTAAAAA
1 TATATGGTATGGATATATAACCTATATTTCAATTTT-ATTGAAATGAATTTTATAATTTTAAAAA
16381537 TAATTGTAAATGTTATTTTTAAATATTAAAACCTATATGTT
65 TAATTGTAAATGTTATTTTTAAATATTAAAACCTATATGTT
16381578 ATTTTTAAAT
Statistics
Matches: 221, Mismatches: 4, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
121 218 0.99
122 3 0.01
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (120 bp):
TATATGGTATGGATATATAACCTATATTTCAATTTTATTGAAATGAATTTTATAATTTTAAAAAT
AATTGTAAATGTTATTTTTAAATATTAAAACCTATATGTTTAATATATCACCCCA
Found at i:16381576 original size:27 final size:27
Alignment explanation
Indices: 16381546--16381601 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
16381536 ATAATTGTAA
16381546 ATGTTATTTTTAAATATTAAAACCTAT
1 ATGTTATTTTTAAATATTAAAACCTAT
16381573 ATGTTATTTTTAAATATTAAAACCTAT
1 ATGTTATTTTTAAATATTAAAACCTAT
16381600 AT
1 AT
16381602 TTTTAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (27 bp):
ATGTTATTTTTAAATATTAAAACCTAT
Found at i:16381687 original size:25 final size:25
Alignment explanation
Indices: 16381658--16381789 Score: 83
Period size: 25 Copynumber: 5.2 Consensus size: 25
16381648 TCAATTTTTA
16381658 ATAACTTACATAATACACAACTTAC
1 ATAACTTACATAATACACAACTTAC
* * *
16381683 ATAACTTAAATAGAAACACATA-ATAC
1 ATAACTTACATA-ATACACA-ACTTAC
** *
16381709 ATAACTTTGATAACTA-AC-ATTATAC
1 ATAACTTACATAA-TACACAACT-TAC
* **
16381734 ACAACTTACATAATACATTACTTAC
1 ATAACTTACATAATACACAACTTAC
*
16381759 ATAACTTAAAGCATAATA-ATAACTTAC
1 ATAACTT--A-CATAATACACAACTTAC
16381786 ATAA
1 ATAA
16381790 TACACAACTT
Statistics
Matches: 83, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
23 1 0.01
24 2 0.02
25 37 0.45
26 22 0.27
27 14 0.17
28 7 0.08
ACGTcount: A:0.50, C:0.18, G:0.02, T:0.30
Consensus pattern (25 bp):
ATAACTTACATAATACACAACTTAC
Found at i:16381759 original size:9 final size:9
Alignment explanation
Indices: 16381731--16381826 Score: 57
Period size: 9 Copynumber: 11.3 Consensus size: 9
16381721 ACTAACATTA
*
16381731 TACACAACT
1 TACATAACT
16381740 TACATAA--
1 TACATAACT
*
16381747 TACATTACT
1 TACATAACT
16381756 TACATAACT
1 TACATAACT
16381765 TAAAGCATAA--
1 T--A-CATAACT
16381775 TA-ATAACT
1 TACATAACT
16381783 TACATAA--
1 TACATAACT
*
16381790 TACACAACT
1 TACATAACT
*
16381799 TACATAGCT
1 TACATAACT
*
16381808 TACACAA--
1 TACATAACT
16381815 TACATAACT
1 TACATAACT
16381824 TAC
1 TAC
16381827 CCGTGCAATT
Statistics
Matches: 66, Mismatches: 9, Indels: 24
0.67 0.09 0.24
Matches are distributed among these distances:
6 4 0.06
7 18 0.27
8 3 0.05
9 34 0.52
10 1 0.02
11 1 0.02
12 5 0.08
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.29
Consensus pattern (9 bp):
TACATAACT
Found at i:16381800 original size:16 final size:16
Alignment explanation
Indices: 16381720--16381804 Score: 56
Period size: 16 Copynumber: 5.6 Consensus size: 16
16381710 TAACTTTGAT
* *
16381720 AACTAACATTATACAC
1 AACTTACATAATACAC
*
16381736 AACTTACATAATACAT
1 AACTTACATAATACAC
* *
16381752 TACTTACATAACT-TA-
1 AACTTACATAA-TACAC
* *
16381767 AA---GCATAATA-AT
1 AACTTACATAATACAC
16381779 AACTTACATAATACAC
1 AACTTACATAATACAC
16381795 AACTTACATA
1 AACTTACATA
16381805 GCTTACACAA
Statistics
Matches: 53, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
11 2 0.04
12 7 0.13
15 8 0.15
16 35 0.66
17 1 0.02
ACGTcount: A:0.49, C:0.20, G:0.01, T:0.29
Consensus pattern (16 bp):
AACTTACATAATACAC
Found at i:16387296 original size:66 final size:66
Alignment explanation
Indices: 16387203--16387338 Score: 186
Period size: 66 Copynumber: 2.1 Consensus size: 66
16387193 ACACAACTTA
* *
16387203 AAGCGGAGGTTCAAAAAAGATATGAAGAACTCCAGCTA-CAACTGAAAGCAGATGCAGCAGCGAG
1 AAGCGGAGGTTCAAAAAAGATAAGAAGAACTCCAGC-AGCAACTGAAAGCAGATGCAGCAGCAAG
16387267 AG
65 AG
* * * *
16387269 AAGCTGAGGTTCAACAAAAG-TAAGAAGAACTCCAGCAGCAGCTTAAAGCAGATGCGGCAGCAAG
1 AAGCGGAGGTTCAA-AAAAGATAAGAAGAACTCCAGCAGCAACTGAAAGCAGATGCAGCAGCAAG
16387333 AG
65 AG
16387335 AAGC
1 AAGC
16387339 AAAGGCGGCA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
65 1 0.02
66 56 0.90
67 5 0.08
ACGTcount: A:0.42, C:0.19, G:0.27, T:0.12
Consensus pattern (66 bp):
AAGCGGAGGTTCAAAAAAGATAAGAAGAACTCCAGCAGCAACTGAAAGCAGATGCAGCAGCAAGA
G
Found at i:16387393 original size:21 final size:21
Alignment explanation
Indices: 16387369--16387426 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
16387359 TACAAACTAT
16387369 AGCGAGGGAAGCAGAGGCTAA
1 AGCGAGGGAAGCAGAGGCTAA
*
16387390 AGCGAGGGAAGCAGAGGCTAC
1 AGCGAGGGAAGCAGAGGCTAA
16387411 AGCGAGGGAAGCAGAG
1 AGCGAGGGAAGCAGAG
16387427 CAGCGTCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.36, C:0.16, G:0.45, T:0.03
Consensus pattern (21 bp):
AGCGAGGGAAGCAGAGGCTAA
Found at i:16387800 original size:43 final size:43
Alignment explanation
Indices: 16387734--16388107 Score: 243
Period size: 43 Copynumber: 8.7 Consensus size: 43
16387724 ATCTGCCAAA
* * ** * *
16387734 TTTAGTGGCGTTTTTGGTCAAAGCACCGCTAAAGATAAGGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGTC
* * * *
16387777 TTTAGCGACGTTTGTGGAAAAAGCGCCACTAAAGATCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGTC
* * *
16387820 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAGGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGTC
* *** * *
16387863 TTTAGTGGCGTTTGTGGTCGAAGCGTCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGTC
* * * *
16387906 TATT-GCGGCGTTTGAGGGGAAAA-CACCGCTAAAGATTAGGTTC
1 T-TTAGCGGCGTTTG-TGGGAAAAGCGCCGCTAAAGATCAGGGTC
* * ** *
16387949 TTTAGTGGCGTTTGTAGTCAAAGCGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGTC
* * * * * ** *
16387992 TATT-GCGGCGTTT-TAGAAAAAACGCTGCTAAAGACCCTGATC
1 T-TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGTC
* * *** * * ***
16388034 TTTAGCGGCGCTTCTCCCAAAAACGCCGCTAAAGGTCTTAGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGTC
* ** *
16388077 TTCAGCGGCGTTTGTGCTAGAAGCGCCGCTA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTA
16388108 TAGACCAACA
Statistics
Matches: 254, Mismatches: 70, Indels: 14
0.75 0.21 0.04
Matches are distributed among these distances:
41 2 0.01
42 35 0.14
43 209 0.82
44 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGTC
Found at i:16387879 original size:86 final size:86
Alignment explanation
Indices: 16387753--16388004 Score: 353
Period size: 86 Copynumber: 2.9 Consensus size: 86
16387743 GTTTTTGGTC
* * * * ** * * *
16387753 AAAGCACCGCTAAAGATAAGGGTCTTTAGCGACGTTTGTGGAAAAAGCGCCACTAAAGATCATGG
1 AAAGCACCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
16387818 TCT-TTAGCGGCGTTTGTGGGG
66 TCTATT-GCGGCGTTTGTGGGG
* * *
16387839 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCGAAGCGTCGCTATAGATCAGGG
1 AAAGCACCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
*
16387904 TCTATTGCGGCGTTTGAGGGG
66 TCTATTGCGGCGTTTGTGGGG
* *
16387925 AAAACACCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTAGTCAAAGCGCCGCTATAGATCAGGG
1 AAAGCACCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
16387990 TCTATTGCGGCGTTT
66 TCTATTGCGGCGTTT
16388005 TAGAAAAAAC
Statistics
Matches: 147, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
86 145 0.99
87 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (86 bp):
AAAGCACCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
TCTATTGCGGCGTTTGTGGGG
Found at i:16387972 original size:129 final size:129
Alignment explanation
Indices: 16387734--16387984 Score: 301
Period size: 129 Copynumber: 1.9 Consensus size: 129
16387724 ATCTGCCAAA
* *
16387734 TTTAGTGGCGTTTTTGGTCAAAGCACCGCTAAAGATAAGGGTCTTTAGCGACGTTTGTGGAAAAA
1 TTTAGTGGCGTTTGTGGTCAAAGCACCGCTAAAGATAAGGGTCTTTAGCGACGTTTGGGGAAAAA
* * *
16387799 GCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAGGTTC
66 GCACCACTAAAGATCATGGTCTTTAGCGGCGTTTGTAGGCAAAGCGCCGCTAAAGATTAGGTTC
* ** * * * *
16387863 TTTAGTGGCGTTTGTGGTCGAAGCGTCGCTATAGATCAGGGTCTATT-GCGGCGTTTGAGGGGAA
1 TTTAGTGGCGTTTGTGGTCAAAGCACCGCTAAAGATAAGGGTCT-TTAGCGACGTTTG-GGGAAA
* * * * *
16387927 AA-CACCGCTAAAGATTA-GGTTCTTTAGTGGCGTTTGTAGTCAAAGCGCCGCTATAGAT
64 AAGCACCACTAAAGATCATGG-TCTTTAGCGGCGTTTGTAGGCAAAGCGCCGCTAAAGAT
16387985 CAGGGTCTAT
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
128 2 0.02
129 92 0.90
130 8 0.08
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (129 bp):
TTTAGTGGCGTTTGTGGTCAAAGCACCGCTAAAGATAAGGGTCTTTAGCGACGTTTGGGGAAAAA
GCACCACTAAAGATCATGGTCTTTAGCGGCGTTTGTAGGCAAAGCGCCGCTAAAGATTAGGTTC
Found at i:16388220 original size:22 final size:22
Alignment explanation
Indices: 16388192--16388234 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16388182 CTGCGGCGCT
* *
16388192 AAAAAGTGCCGCTAAAGGCCTA
1 AAAAAGTACCGCTAAAAGCCTA
16388214 AAAAAGTACCGCTAAAAGCCT
1 AAAAAGTACCGCTAAAAGCCT
16388235 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.23, G:0.19, T:0.14
Consensus pattern (22 bp):
AAAAAGTACCGCTAAAAGCCTA
Found at i:16390136 original size:26 final size:26
Alignment explanation
Indices: 16390105--16390166 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
16390095 TACCATAAAG
16390105 GCTTTCTTTCATATTAAGCCACAAAA
1 GCTTTCTTTCATATTAAGCCACAAAA
* * * *
16390131 TCTTTCTTTCATATTACGCCACCAAG
1 GCTTTCTTTCATATTAAGCCACAAAA
16390157 GCTTTCTTTC
1 GCTTTCTTTC
16390167 CTGATGTGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.24, C:0.27, G:0.08, T:0.40
Consensus pattern (26 bp):
GCTTTCTTTCATATTAAGCCACAAAA
Found at i:16392364 original size:27 final size:27
Alignment explanation
Indices: 16392326--16392380 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
16392316 AGCACCAAAG
16392326 TAATATCTTAGAGCATGAAGAGCGGTA
1 TAATATCTTAGAGCATGAAGAGCGGTA
16392353 TAATATCTTAGAGCATGAAGAGCGGTA
1 TAATATCTTAGAGCATGAAGAGCGGTA
16392380 T
1 T
16392381 CAGGATAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.27
Consensus pattern (27 bp):
TAATATCTTAGAGCATGAAGAGCGGTA
Found at i:16411288 original size:12 final size:12
Alignment explanation
Indices: 16411271--16411317 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
16411261 TAAGAAACTC
16411271 AAATGCCAATCA
1 AAATGCCAATCA
16411283 AAATGCCAATCA
1 AAATGCCAATCA
*
16411295 AAATACCAATCCA
1 AAATGCCAAT-CA
*
16411308 AAATGACAAT
1 AAATGCCAAT
16411318 AATCGAGCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
12 21 0.68
13 10 0.32
ACGTcount: A:0.53, C:0.23, G:0.06, T:0.17
Consensus pattern (12 bp):
AAATGCCAATCA
Found at i:16411317 original size:25 final size:24
Alignment explanation
Indices: 16411271--16411317 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
16411261 TAAGAAACTC
* *
16411271 AAATGCCAATCAAAATGCCAATCA
1 AAATACCAATCAAAATGACAATCA
16411295 AAATACCAATCCAAAATGACAAT
1 AAATACCAAT-CAAAATGACAAT
16411318 AATCGAGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.53, C:0.23, G:0.06, T:0.17
Consensus pattern (24 bp):
AAATACCAATCAAAATGACAATCA
Found at i:16416207 original size:16 final size:18
Alignment explanation
Indices: 16416165--16416207 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
16416155 TTTAGGGACT
16416165 AAATTGAATAAAATGTAA
1 AAATTGAATAAAATGTAA
* *
16416183 AAGTGGAAT-AAAT-TAA
1 AAATTGAATAAAATGTAA
16416199 AAATTGAAT
1 AAATTGAAT
16416208 GTGAAATTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 10 0.48
17 4 0.19
18 7 0.33
ACGTcount: A:0.58, C:0.00, G:0.14, T:0.28
Consensus pattern (18 bp):
AAATTGAATAAAATGTAA
Found at i:16420918 original size:69 final size:68
Alignment explanation
Indices: 16420836--16420963 Score: 193
Period size: 69 Copynumber: 1.9 Consensus size: 68
16420826 ATGATAAACT
* * *
16420836 TAATCACTTTAATATTAAATTAATATAATATTTATCAAGATAAACATTAAATTTAATTTAATTTT
1 TAATCACTTTAATATTAAATTAATAAAATA-CTATCAAGATAAACATTAAATTAAATTTAATTTT
16420901 AAGA
65 AAGA
* **
16420905 TAATCACTTTAATATTAAATTAATAAAATACTATTAAGATAAGTATTAAATTAAATTTA
1 TAATCACTTTAATATTAAATTAATAAAATACTATCAAGATAAACATTAAATTAAATTTA
16420964 CTATTAAACT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
68 24 0.45
69 29 0.55
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (68 bp):
TAATCACTTTAATATTAAATTAATAAAATACTATCAAGATAAACATTAAATTAAATTTAATTTTA
AGA
Found at i:16422316 original size:25 final size:24
Alignment explanation
Indices: 16422278--16422329 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
16422268 TTATTAGGGC
* *
16422278 TACCGATGTTAGCTCTTATGAGCT
1 TACCGATGTCAGCTCGTATGAGCT
16422302 TACCGATGCTCAGCTCGTATGAGCT
1 TACCGATG-TCAGCTCGTATGAGCT
16422327 TAC
1 TAC
16422330 TATTATTCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (24 bp):
TACCGATGTCAGCTCGTATGAGCT
Found at i:16429303 original size:30 final size:30
Alignment explanation
Indices: 16429264--16429320 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
16429254 TTTTATAAAT
16429264 AATTAATATTT-AT-TACTTAAAAATATTTGA
1 AATTAATATTTCATATA-TT-AAAATATTTGA
*
16429294 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
16429321 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTGA
Found at i:16432974 original size:17 final size:17
Alignment explanation
Indices: 16432943--16432975 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
16432933 AGTCAGAGAC
16432943 GGATCTGAAACAGGTCG
1 GGATCTGAAACAGGTCG
16432960 GGATCATGAAA-AGGTC
1 GGATC-TGAAACAGGTC
16432976 CCTTGCGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.33, C:0.15, G:0.33, T:0.18
Consensus pattern (17 bp):
GGATCTGAAACAGGTCG
Found at i:16439875 original size:35 final size:34
Alignment explanation
Indices: 16439787--16440193 Score: 426
Period size: 35 Copynumber: 12.1 Consensus size: 34
16439777 GTCCAAAAAG
* * *
16439787 AAATAATACATGAACATGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
*
16439821 AAATGAT-GTGAACAGGAGAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
* *
16439854 AAATAATCCGTGAACAAGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
*
16439888 AAATGAT-GTGAACAGGAGAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
* *
16439921 AAATAATCCGTGAACAAGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
*
16439955 AAATGAT-GTGAACAGGAGAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
* *
16439988 AAATAATCCGTGAACAAGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
* * *
16440022 AAATGAT-GTGAACAGGAAAGATTTCCTGCAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
16440055 AAATAAT-GTGTAAACAGGAGAGATTCCCTGCAACA
1 AAATAATCGTG--AACAGGAGAGATTCCCTGCAACA
*
16440090 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAAA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
* * * *
16440125 AAAGACA-AGTGAACAGGAAATATTCCCT---ACA
1 AAATA-ATCGTGAACAGGAGAGATTCCCTGCAACA
* * * *
16440156 GAATAATGCGTGAACAGGAAATATTCCCTGCAAGA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
16440191 AAA
1 AAA
16440194 GGTAAGTGAA
Statistics
Matches: 315, Mismatches: 38, Indels: 39
0.80 0.10 0.10
Matches are distributed among these distances:
30 1 0.00
31 5 0.02
32 109 0.35
33 27 0.09
34 42 0.13
35 127 0.40
36 1 0.00
37 3 0.01
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.18
Consensus pattern (34 bp):
AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
Found at i:16439895 original size:67 final size:67
Alignment explanation
Indices: 16439787--16440127 Score: 547
Period size: 67 Copynumber: 5.0 Consensus size: 67
16439777 GTCCAAAAAG
* * *
16439787 AAATAATACATGAACATGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
1 AAATAATCCGTGAACAAGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
16439852 CA
66 CA
16439854 AAATAATCCGTGAACAAGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
1 AAATAATCCGTGAACAAGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
16439919 CA
66 CA
16439921 AAATAATCCGTGAACAAGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
1 AAATAATCCGTGAACAAGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
16439986 CA
66 CA
* *
16439988 AAATAATCCGTGAACAAGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTTCCTGCAA
1 AAATAATCCGTGAACAAGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
16440053 CA
66 CA
** * * * *
16440055 AAATAATGTGTAAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTG
1 AAATAATCCGTGAACAAGAGAGATTCCCTGCAA-GAAATGAT--GTGAACAGGAGAGATTCCCTG
*
16440120 CAAAA
63 CAACA
16440125 AAA
1 AAA
16440128 GACAAGTGAA
Statistics
Matches: 257, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
67 225 0.88
68 6 0.02
70 26 0.10
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.18
Consensus pattern (67 bp):
AAATAATCCGTGAACAAGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
CA
Found at i:16440182 original size:66 final size:66
Alignment explanation
Indices: 16439828--16440203 Score: 226
Period size: 67 Copynumber: 5.6 Consensus size: 66
16439818 AAGAAATGAT
* * * * * * * *
16439828 GTGAACAGGAGAGATTCCCTGCAACAAAATAATCCGTGAACAAGAGAGATTCCCT-GCAAGA-AA
1 GTGAACAGGAAAGATTCCCTGCAAAAAAAGAA--AGTGAACAGGAAAGATTCCCTAACAAAATAA
*
16439891 TGAT
64 TG-C
* * * * * * * *
16439895 GTGAACAGGAGAGATTCCCTGCAACAAAATAATCCGTGAACAAGAGAGATTCCCT-GCAAGA-AA
1 GTGAACAGGAAAGATTCCCTGCAAAAAAAGAA--AGTGAACAGGAAAGATTCCCTAACAAAATAA
*
16439958 TGAT
64 TG-C
* * * * * * * *
16439962 GTGAACAGGAGAGATTCCCTGCAACAAAATAATCCGTGAACAAGAGAGATTCCCT-GCAAGA-AA
1 GTGAACAGGAAAGATTCCCTGCAAAAAAAGAA--AGTGAACAGGAAAGATTCCCTAACAAAATAA
*
16440025 TGAT
64 TG-C
* * * * *
16440029 GTGAACAGGAAAGATTTCCTGCAACAAAATAATGTGTAAACAGGAGAGATTCCCTGCAACAAAAT
1 GTGAACAGGAAAGATTCCCTGCAAAAAAAGAAAGTG--AACAGGAAAGATTCCCT--AACAAAAT
16440094 AATGC
62 AATGC
* * *
16440099 GTGAACAGGAGAGATTCCCTGCAAAAAAAGACAAGTGAACAGGAAATATTCCCT-ACAGAATAAT
1 GTGAACAGGAAAGATTCCCTGCAAAAAAAGA-AAGTGAACAGGAAAGATTCCCTAACAAAATAAT
16440163 GC
65 GC
* * *
16440165 GTGAACAGGAAATATTCCCTGCAAGAAAAGGTAAGTGAA
1 GTGAACAGGAAAGATTCCCTGCAA-AAAAAGAAAGTGAA
16440204 TAGTTATGTA
Statistics
Matches: 282, Mismatches: 19, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
65 3 0.01
66 40 0.14
67 185 0.66
69 15 0.05
70 31 0.11
71 8 0.03
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (66 bp):
GTGAACAGGAAAGATTCCCTGCAAAAAAAGAAAGTGAACAGGAAAGATTCCCTAACAAAATAATG
C
Found at i:16450895 original size:27 final size:27
Alignment explanation
Indices: 16450865--16450923 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
16450855 GATCCCAGTC
* **
16450865 TTAATGATAATCTAAATGGTCCTGGTG
1 TTAATGATAATCCAAATGGTCAGGGTG
*
16450892 TTAATGATAATCCAAATGTTCAGGGTG
1 TTAATGATAATCCAAATGGTCAGGGTG
16450919 TTAAT
1 TTAAT
16450924 CCTCCTATTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.37
Consensus pattern (27 bp):
TTAATGATAATCCAAATGGTCAGGGTG
Found at i:16453307 original size:13 final size:12
Alignment explanation
Indices: 16453289--16453322 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
16453279 TATGTGATTT
16453289 AAAAAAATTCGAA
1 AAAAAAATTC-AA
*
16453302 AAAAAATTTCAA
1 AAAAAAATTCAA
16453314 AAAAAAATT
1 AAAAAAATT
16453323 TGTACGTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:16453323 original size:13 final size:13
Alignment explanation
Indices: 16453289--16453323 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
16453279 TATGTGATTT
*
16453289 AAAAAAA-TTCGA
1 AAAAAAATTTCAA
16453301 AAAAAAATTTCAA
1 AAAAAAATTTCAA
16453314 AAAAAAATTT
1 AAAAAAATTT
16453324 GTACGTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.23
Consensus pattern (13 bp):
AAAAAAATTTCAA
Found at i:16454225 original size:11 final size:12
Alignment explanation
Indices: 16454195--16454227 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
16454185 TTCATCTTGT
16454195 AAAGAAAAATCG
1 AAAGAAAAATCG
16454207 AGAAGAAAAAT-G
1 A-AAGAAAAATCG
16454219 AAAGAAAAA
1 AAAGAAAAA
16454228 GAACAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.40
12 3 0.15
13 9 0.45
ACGTcount: A:0.73, C:0.03, G:0.18, T:0.06
Consensus pattern (12 bp):
AAAGAAAAATCG
Found at i:16454313 original size:14 final size:15
Alignment explanation
Indices: 16454303--16454333 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16454293 TAAAAAAATT
16454303 AAGAGT-GAAAAAGA
1 AAGAGTGGAAAAAGA
16454317 AAGAGTGGAAAAAGA
1 AAGAGTGGAAAAAGA
16454332 AA
1 AA
16454334 AAGAAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.65, C:0.00, G:0.29, T:0.06
Consensus pattern (15 bp):
AAGAGTGGAAAAAGA
Found at i:16454327 original size:15 final size:14
Alignment explanation
Indices: 16454303--16454348 Score: 60
Period size: 12 Copynumber: 3.4 Consensus size: 14
16454293 TAAAAAAATT
16454303 AAGAGTGAAAAAGA
1 AAGAGTGAAAAAGA
16454317 AAGAGTGGAAAAAGA
1 AAGAGT-GAAAAAGA
*
16454332 AA-A-AGAAAAAGA
1 AAGAGTGAAAAAGA
16454344 AAGAG
1 AAGAG
16454349 AGTTTGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
14 7 0.25
15 10 0.36
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.04
Consensus pattern (14 bp):
AAGAGTGAAAAAGA
Found at i:16460532 original size:46 final size:45
Alignment explanation
Indices: 16460417--16460814 Score: 443
Period size: 45 Copynumber: 8.8 Consensus size: 45
16460407 ATGATTAAAG
* *
16460417 GATGCCATAATGTCTTTCAACCATGGTCTTATT--TGTTCTCGACT-T
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCAT-TTC-CGA-TAT
* * * *
16460462 GAAGCCATAATGTCTTTCAACCATGGTCTTATTCACTTTCCGACAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TTTCCGATAT
* *
16460508 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCAATAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TTTCCGATAT
*
16460554 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGATA-
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGATAT
** *
16460598 GAATGGTATAGTGTCTTTCAACTATGGTCTTATTCACTTTCTGATAT
1 G-ATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TTTCCGATAT
* * * *
16460645 GATGCCATTGTGTCTTTCAACTATGGTTTTATCCATCTT-CGATAG
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCAT-TTCCGATAT
* *
16460690 GATGCCATAGTGTCTTT-AACTATGGCCTTATTCACTTTCTGATAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TTTCCGATAT
* * *
16460735 GATGCCATAATGT-TTTCAAC-ACTGGTCTTATTCATTTTCGATAG
1 GATGCCATAGTGTCTTTCAACTA-TGGTCTTATTCATTTCCGATAT
* *
16460779 GATGCCATAGTGTCTTTCAACTATGGTTTTACTCAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCAT
16460815 CTGAGTCATG
Statistics
Matches: 304, Mismatches: 35, Indels: 28
0.83 0.10 0.08
Matches are distributed among these distances:
44 40 0.13
45 141 0.46
46 118 0.39
47 4 0.01
48 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (45 bp):
GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGATAT
Found at i:16460578 original size:24 final size:24
Alignment explanation
Indices: 16460506--16460578 Score: 57
Period size: 24 Copynumber: 3.1 Consensus size: 24
16460496 ACTTTCCGAC
*
16460506 ATGATGCCATAGTGTCTTTCAACC
1 ATGATGCCATAGTGTCTTTCAACT
* *
16460530 ATG--GTCTTA-T-TCATTTTCCAA-T
1 ATGATGCCATAGTGTC--TTT-CAACT
16460552 ATGATGCCATAGTGTCTTTCAACT
1 ATGATGCCATAGTGTCTTTCAACT
16460576 ATG
1 ATG
16460579 GTCTTATTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 16
0.63 0.09 0.28
Matches are distributed among these distances:
20 2 0.06
21 1 0.03
22 10 0.28
23 6 0.17
24 14 0.39
25 1 0.03
26 2 0.06
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (24 bp):
ATGATGCCATAGTGTCTTTCAACT
Found at i:16460611 original size:91 final size:91
Alignment explanation
Indices: 16460415--16460814 Score: 484
Period size: 91 Copynumber: 4.4 Consensus size: 91
16460405 TAATGATTAA
* * ** * * * *
16460415 AGGATGCCATAATGTCTTTCAACCATGGTCTTATTTGTTCTCGACT-TGAAGCCATAATGTCTTT
1 AGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCTAATATGATGCCATAATGTCTTT
* * *
16460479 CAACCATGGTCTTATTCACTTTCCGAC
66 CAACTATGGTCTTATTCA-TTTTCGAT
* * * *
16460506 ATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCAATATGATGCCATAGTGTCTTT
1 AGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCTAATATGATGCCATAATGTCTTT
16460571 CAACTATGGTCTTATTCATTTTCGAT
66 CAACTATGGTCTTATTCATTTTCGAT
* ** * * **
16460597 AGAATGGTATAGTGTCTTTCAACTATGGTCTTATTCACTTTCTGATATGATGCCATTGTGTCTTT
1 AGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCTAATATGATGCCATAATGTCTTT
* * *
16460662 CAACTATGGTTTTATCCATCTTCGAT
66 CAACTATGGTCTTATTCATTTTCGAT
* * *
16460688 AGGATGCCATAGTGTCTTT-AACTATGGCCTTATTCACTTTCTGATATGATGCCATAATGT-TTT
1 AGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCTAATATGATGCCATAATGTCTTT
16460751 CAAC-ACTGGTCTTATTCATTTTCGAT
66 CAACTA-TGGTCTTATTCATTTTCGAT
* *
16460777 AGGATGCCATAGTGTCTTTCAACTATGGTTTTACTCAT
1 AGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCAT
16460815 CTGAGTCATG
Statistics
Matches: 269, Mismatches: 37, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
88 1 0.00
89 43 0.16
90 52 0.19
91 140 0.52
92 33 0.12
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (91 bp):
AGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCTAATATGATGCCATAATGTCTTT
CAACTATGGTCTTATTCATTTTCGAT
Found at i:16460832 original size:45 final size:43
Alignment explanation
Indices: 16460417--16460917 Score: 321
Period size: 45 Copynumber: 11.1 Consensus size: 43
16460407 ATGATTAAAG
* * * **
16460417 GATGCCATAATGTCTTTCAACCATGGTCTTATTTGTTCTCGACT-T
1 GATGCCATAGTGTCTTTCAACTATGGTCTTA-CTCATCT-GA-TAT
* * * * * *
16460462 GAAGCCATAATGTCTTTCAACCATGGTCTTATTCACTTTCCGACAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTACTCA---TCTGATAT
* * **
16460508 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCAATAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTACTCA---TCTGATAT
* *
16460554 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGATA-
1 GATGCCATAGTGTCTTTCAACTATGGTCTTACTCA-TCT-GATAT
** *
16460598 GAATGGTATAGTGTCTTTCAACTATGGTCTTATTCACTTTCTGATAT
1 G-ATGCCATAGTGTCTTTCAACTATGGTCTTACTCA---TCTGATAT
* * *
16460645 GATGCCATTGTGTCTTTCAACTATGGTTTTA-TCCATCTTCGATAG
1 GATGCCATAGTGTCTTTCAACTATGGTCTTACT-CATC-T-GATAT
* *
16460690 GATGCCATAGTGTCTTT-AACTATGGCCTTATTCACTTTCTGATAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTACTCA---TCTGATAT
* * * *
16460735 GATGCCATAATGT-TTTCAAC-ACTGGTCTTATTCATTTTCGATAG
1 GATGCCATAGTGTCTTTCAACTA-TGGTCTTACTCA-TCT-GATAT
*
16460779 GATGCCATAGTGTCTTTCAACTATGGTTTTACTCATCTGAGTCAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTACTCATCTGA-T-AT
* ** * * * *
16460824 GATACCATAGCATCTTTCAGCTATGGTATTACTCGTTTGATTAAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTACTCATCTGA-T-AT
* ** *
16460869 GAGGCCATAACGTCTTTCAGCTATGGTCTTACTCATCTGAATAAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTACTCATCTG-AT-AT
16460914 GATG
1 GATG
16460918 AACCTGCTCT
Statistics
Matches: 380, Mismatches: 52, Indels: 48
0.79 0.11 0.10
Matches are distributed among these distances:
43 7 0.02
44 42 0.11
45 210 0.55
46 113 0.30
47 8 0.02
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (43 bp):
GATGCCATAGTGTCTTTCAACTATGGTCTTACTCATCTGATAT
Found at i:16466673 original size:39 final size:39
Alignment explanation
Indices: 16466619--16466705 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
16466609 CTTATCCAAA
*
16466619 TAAAACTTACAGCTACATGTAATGCATGGATACTACAAC
1 TAAAACTTACAGCTACATGTAACGCATGGATACTACAAC
16466658 TAAAACTTACAGCTACATGTAACGCATGGATACTACAAC
1 TAAAACTTACAGCTACATGTAACGCATGGATACTACAAC
*
16466697 TAAAGCTTA
1 TAAAACTTA
16466706 AAATAAACTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (39 bp):
TAAAACTTACAGCTACATGTAACGCATGGATACTACAAC
Found at i:16467119 original size:21 final size:22
Alignment explanation
Indices: 16467095--16467148 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
16467085 TCATTTTTAG
*
16467095 CAACTT-CTTCTTCTTCAGCAA
1 CAACTTCCTTCTTCTACAGCAA
* *
16467116 CAACTTCCTT-ATCTACAGCAG
1 CAACTTCCTTCTTCTACAGCAA
16467137 CAACTTCCTTCT
1 CAACTTCCTTCT
16467149 CAACAACAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.35
Consensus pattern (22 bp):
CAACTTCCTTCTTCTACAGCAA
Found at i:16470325 original size:56 final size:50
Alignment explanation
Indices: 16470259--16470449 Score: 175
Period size: 50 Copynumber: 3.7 Consensus size: 50
16470249 AGGAATGAGA
* *
16470259 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGC---ATCGA-G--ATGAGAGG
*
16470315 TCCCACGTAAGACCATGTCTAGGACATGGCATTGGCATCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGG
* * * * * * * * **
16470365 TCCCCCGTAAGACCATGTGTGGGATATGACATGGGCACCGATATGATAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGG
* * * *
16470415 TCCCATGTAAGACCATATCTGAGATATGGCATTGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGG
16470450 TAGTACAAGA
Statistics
Matches: 114, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
50 75 0.66
52 1 0.01
53 4 0.04
56 34 0.30
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGG
Found at i:16470728 original size:20 final size:20
Alignment explanation
Indices: 16470703--16470745 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
16470693 TGAGTTATTT
*
16470703 AAGTAAGAAAGTAAGTAAAG
1 AAGTAAGAAAGTAAATAAAG
*
16470723 AAGTAAGAGAGTAAATAAAG
1 AAGTAAGAAAGTAAATAAAG
16470743 AAG
1 AAG
16470746 AAATTAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.26, T:0.14
Consensus pattern (20 bp):
AAGTAAGAAAGTAAATAAAG
Found at i:16475612 original size:24 final size:25
Alignment explanation
Indices: 16475584--16475631 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
16475574 GTCATTATGG
* *
16475584 TTATCGAT-TTCAGCTCTTATGAGC
1 TTATCGATGCTCAGCTCGTATGAGC
16475608 TTATCGATGCTCAGCTCGTATGAG
1 TTATCGATGCTCAGCTCGTATGAG
16475632 GTTACCGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (25 bp):
TTATCGATGCTCAGCTCGTATGAGC
Found at i:16475646 original size:25 final size:24
Alignment explanation
Indices: 16475618--16475724 Score: 83
Period size: 25 Copynumber: 4.3 Consensus size: 24
16475608 TTATCGATGC
* *
16475618 TCAGCTCGTATGAGGTTACCGTTAT
1 TCAGCTCG-AGGAGCTTACCGTTAT
* * *
16475643 TCAGCTTAGACGAGCTTACCATTA-
1 TCAGC-TCGAGGAGCTTACCGTTAT
*
16475667 TCTAGCTCGGAGGAGCTTACCTTTAT
1 TC-AGCTC-GAGGAGCTTACCGTTAT
*
16475693 TTAGCTCAGAGGAGCTTACCGTT-T
1 TCAGCTC-GAGGAGCTTACCGTTAT
*
16475717 ACAGCTCG
1 TCAGCTCG
16475725 TATGAGCATA
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
23 1 0.02
24 9 0.14
25 53 0.80
26 3 0.05
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.32
Consensus pattern (24 bp):
TCAGCTCGAGGAGCTTACCGTTAT
Found at i:16475674 original size:50 final size:49
Alignment explanation
Indices: 16475619--16475731 Score: 129
Period size: 50 Copynumber: 2.3 Consensus size: 49
16475609 TATCGATGCT
* *
16475619 CAGCTCGTATGAGGTTACCGTTATTCAGCTTAGACGAGCTTACCA-TTA
1 CAGCTCGTATGAGCTTACCGTTATTCAGCTCAGACGAGCTTACCATTTA
* * * * * *
16475667 TCTAGCTCGGAGGAGCTTACCTTTATTTAGCTCAGAGGAGCTTACCGTTTA
1 -C-AGCTCGTATGAGCTTACCGTTATTCAGCTCAGACGAGCTTACCATTTA
16475718 CAGCTCGTATGAGC
1 CAGCTCGTATGAGC
16475732 ATACATGTAC
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
49 12 0.23
50 37 0.71
51 3 0.06
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (49 bp):
CAGCTCGTATGAGCTTACCGTTATTCAGCTCAGACGAGCTTACCATTTA
Found at i:16480767 original size:25 final size:25
Alignment explanation
Indices: 16480689--16480850 Score: 107
Period size: 25 Copynumber: 6.5 Consensus size: 25
16480679 TACCGATTTT
* **
16480689 AGCTCTTATGAGCTTACCGA-TGCTC
1 AGCTCGTATGAGCTTACC-ATTATTC
* **
16480714 AACTCGTATGAGCTTACCGATGCTT-
1 AGCTCGTATGAGCTTACC-ATTATTC
16480739 AGCTCGTATGAGCTTACCATTATTC
1 AGCTCGTATGAGCTTACCATTATTC
* * * * * *
16480764 AGCTTGGAGGAGTTTACCGTTATTT
1 AGCTCGTATGAGCTTACCATTATTC
* * *
16480789 AGCTCAG-AAGAGTTTACCGTTATTC
1 AGCTC-GTATGAGCTTACCATTATTC
* * *
16480814 AGCTCGGAGGAGCTTACCATT-TAC
1 AGCTCGTATGAGCTTACCATTATTC
16480838 AGCTCGTATGAGC
1 AGCTCGTATGAGC
16480851 ATACATGTAC
Statistics
Matches: 110, Mismatches: 23, Indels: 9
0.77 0.16 0.06
Matches are distributed among these distances:
24 18 0.16
25 90 0.82
26 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.32
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCATTATTC
Found at i:16480781 original size:50 final size:50
Alignment explanation
Indices: 16480723--16480831 Score: 130
Period size: 50 Copynumber: 2.2 Consensus size: 50
16480713 CAACTCGTAT
* * *
16480723 GAGCTTACCGATGCTTAGCTC-GTATGAGCTTACCATTATTCAGCTTGGAG
1 GAGCTTACCGATACTTAGCTCAG-AAGAGCTTACCATTATTCAGCTCGGAG
* * * * *
16480773 GAGTTTACCGTTATTTAGCTCAGAAGAGTTTACCGTTATTCAGCTCGGAG
1 GAGCTTACCGATACTTAGCTCAGAAGAGCTTACCATTATTCAGCTCGGAG
16480823 GAGCTTACC
1 GAGCTTACC
16480832 ATTTACAGCT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 48 0.98
51 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (50 bp):
GAGCTTACCGATACTTAGCTCAGAAGAGCTTACCATTATTCAGCTCGGAG
Found at i:16489098 original size:46 final size:45
Alignment explanation
Indices: 16488849--16489278 Score: 386
Period size: 45 Copynumber: 9.4 Consensus size: 45
16488839 ATGATTGAAG
* * * *
16488849 GATGCCATAGTGTCTTTCAACCATGATCTTATTTATTCTCGACT-T
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGA-TAT
* ** * *
16488894 GATGCCATAATGAATTTCAACCATGGTCTTATTCACTTTCCGATAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TTTTCGATAT
* * * *
16488940 GATGCCATAAGTTTCTTTTAACCATGGTCTTATTCAGTTTCTGATAT
1 GATGCCAT-AGTGTCTTTCAACTATGGTCTTATTCATTTTC-GATAT
* *
16488987 GATGCCATAGTGTGTCTTTCAACTATGGTCTTATCCATTTTCGATAG
1 GATGCCATA--GTGTCTTTCAACTATGGTCTTATTCATTTTCGATAT
* * *
16489034 GTTGCCATAGTGTCTTTCAATTATGGTCTTATTCACTTTTTGATAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TTTTCGATAT
* * * *
16489080 AATGCCATAGTGTCTTTCAACTATGGTCTTATCCATTTTTGATAG
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGATAT
* * * *
16489125 GATTCCATAATGTCTTT-AACTATGGTCTTATTCACTTTCCAATAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TTTTCGATAT
* * * * *
16489170 GATGACATACTGTCTTTCAACTACGGTCTTACTCA-TCT-GAATCAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCG-AT-AT
** *
16489215 GATGCCATAGCATCTTTCAACTATGGTCTTACTCA-TTT-GAATAAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCG-AT-AT
**
16489260 GATGCCATAGACTCTTTCA
1 GATGCCATAGTGTCTTTCA
16489279 GTTGTGGTCT
Statistics
Matches: 319, Mismatches: 55, Indels: 22
0.81 0.14 0.06
Matches are distributed among these distances:
44 19 0.06
45 155 0.49
46 72 0.23
47 47 0.15
48 26 0.08
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (45 bp):
GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGATAT
Found at i:16490107 original size:20 final size:22
Alignment explanation
Indices: 16490082--16490122 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
16490072 TTTAACAACC
16490082 AAACTT-AAAAATATA-CCATA
1 AAACTTCAAAAATATATCCATA
*
16490102 AAACTTCATAAATATATCCAT
1 AAACTTCAAAAATATATCCAT
16490123 TTCATCCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (22 bp):
AAACTTCAAAAATATATCCATA
Found at i:16507772 original size:27 final size:27
Alignment explanation
Indices: 16507742--16507830 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
16507732 ACAGAATTCT
* *
16507742 TTTCATAATTCACCACCAAGGCTTTTC
1 TTTCATAATTCACCACAAAGGCATTTC
* *
16507769 TTTCATGATTCGCCACAAAGGCATTTC
1 TTTCATAATTCACCACAAAGGCATTTC
* *
16507796 TTTCATGATTCACCACAAAGACATTTC
1 TTTCATAATTCACCACAAAGGCATTTC
16507823 TTTCATAA
1 TTTCATAA
16507831 CGTGTTTACA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (27 bp):
TTTCATAATTCACCACAAAGGCATTTC
Found at i:16512245 original size:29 final size:28
Alignment explanation
Indices: 16512209--16512286 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 28
16512199 TCATGAGATT
16512209 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
16512239 -GCACTAAGTGTGTGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
*
16512266 TGGCATTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
16512287 GATTATTAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 5 0.12
29 32 0.80
30 3 0.08
ACGTcount: A:0.26, C:0.12, G:0.31, T:0.32
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:16512506 original size:145 final size:145
Alignment explanation
Indices: 16512264--16512537 Score: 503
Period size: 145 Copynumber: 1.9 Consensus size: 145
16512254 GTTTAAAGTA
* *
16512264 CATGGCATTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
* *
16512329 ATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTG
66 ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
16512394 TGCGAACTTGAAATG
131 TGCGAACTTGAAATG
16512409 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
*
16512474 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
66 ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
16512538 ACCTCGAGTT
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
145 124 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (145 bp):
CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
TGCGAACTTGAAATG
Found at i:16514098 original size:21 final size:21
Alignment explanation
Indices: 16514065--16514118 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
16514055 AAATAGAAAC
* **
16514065 AAAAACTATATTATAATTTTTT
1 AAAATCTA-ATTATAATTTAAT
*
16514087 AAAATTTAATTATAATTTAAT
1 AAAATCTAATTATAATTTAAT
16514108 AAAATCTAATT
1 AAAATCTAATT
16514119 TAAAAATTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 21 0.78
22 6 0.22
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (21 bp):
AAAATCTAATTATAATTTAAT
Found at i:16519487 original size:21 final size:21
Alignment explanation
Indices: 16519457--16519520 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
16519447 CCTTTATAAT
16519457 GCATTCTGTATGGCCTTTGTG
1 GCATTCTGTATGGCCTTTGTG
* * *
16519478 GCATTTTGTATGGCTTTTATG
1 GCATTCTGTATGGCCTTTGTG
**
16519499 GCATTCTGT-TAACCTTTGTG
1 GCATTCTGTATGGCCTTTGTG
16519519 GC
1 GC
16519521 GTATCTGGTA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
20 9 0.26
21 26 0.74
ACGTcount: A:0.12, C:0.17, G:0.25, T:0.45
Consensus pattern (21 bp):
GCATTCTGTATGGCCTTTGTG
Found at i:16523506 original size:22 final size:22
Alignment explanation
Indices: 16523480--16523524 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
16523470 ATTATGTGCA
16523480 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
16523502 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
16523524 T
1 T
16523525 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:16530899 original size:22 final size:19
Alignment explanation
Indices: 16530874--16530915 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
16530864 TGATAATCAT
16530874 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
16530896 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
16530915 T
1 T
16530916 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:16539278 original size:27 final size:26
Alignment explanation
Indices: 16539255--16539647 Score: 284
Period size: 27 Copynumber: 14.5 Consensus size: 26
16539245 GAGACCCCAA
*
16539255 ATAGGTAAAATGACCAAAATACCCCT
1 ATAGGTAAAATGACCAAAATACCCCC
* * *** *
16539281 AAAGGGTAAAATGACTATTTTACCCCTA
1 ATA-GGTAAAATGACCAAAATACCCC-C
* ** * *
16539309 ATAGATGAAAATGACTGACATACCCCT
1 ATAGGT-AAAATGACCAAAATACCCCC
* **
16539336 ATAGGGTAAAGTGACTGAAATACCCCC
1 ATA-GGTAAAATGACCAAAATACCCCC
* * *
16539363 ATAAGGTAACATGACCGAAATACTCCC
1 AT-AGGTAAAATGACCAAAATACCCCC
* * *
16539390 ATAGGGTAAAATGAGCAAAATAGCTCC
1 ATA-GGTAAAATGACCAAAATACCCCC
* *
16539417 GTAGGGTAAAATGACTAAAATACCCCC
1 ATA-GGTAAAATGACCAAAATACCCCC
*
16539444 ATATGGTAAAATGAGCAAAATACCCCC
1 ATA-GGTAAAATGACCAAAATACCCCC
* * *
16539471 ATAGGATAAAATGATCGAAATTCCCCC
1 ATAGG-TAAAATGACCAAAATACCCCC
** *
16539498 ATAGGGTAAAATGAAAAAAATACCACC
1 ATA-GGTAAAATGACCAAAATACCCCC
*
16539525 ATAAGGTAAAATGACAAAAATACCTCCAC
1 AT-AGGTAAAATGACCAAAATACC-CC-C
**
16539554 A-AGGTAAAATGACTGAAATACCCCC
1 ATAGGTAAAATGACCAAAATACCCCC
* *
16539579 ATAGGGTAAAATGACTAAAATACCCCT
1 ATA-GGTAAAATGACCAAAATACCCCC
* * *
16539606 ATATGGTAAAATAACCGAAATACCCTC
1 ATA-GGTAAAATGACCAAAATACCCCC
*
16539633 AGAGGGTAAAATGAC
1 ATA-GGTAAAATGAC
16539648 TATTATACCC
Statistics
Matches: 295, Mismatches: 59, Indels: 25
0.78 0.16 0.07
Matches are distributed among these distances:
25 2 0.01
26 8 0.03
27 259 0.88
28 24 0.08
29 2 0.01
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (26 bp):
ATAGGTAAAATGACCAAAATACCCCC
Found at i:16539648 original size:81 final size:81
Alignment explanation
Indices: 16539258--16539648 Score: 371
Period size: 81 Copynumber: 4.8 Consensus size: 81
16539248 ACCCCAAATA
* * * *** * *
16539258 GGTAAAATGACCAAAATACCCCTA-AAGGGTAAAATGACTATTTTACCCCTAATA-GATGAAAAT
1 GGTAAAATGACTAAAATACCCCCATAA-GGTAAAATGACCAAAATA-CCCTCATAGGGT-AAAAT
* *
16539321 GACTGACATACCCCTATAG
63 GACTGAAATACCCCCATAG
* * * *
16539340 GGTAAAGTGACTGAAATACCCCCATAAGGTAACATGACCGAAATACTCC-CATAGGGTAAAATGA
1 GGTAAAATGACTAAAATACCCCCATAAGGTAAAATGACCAAAATAC-CCTCATAGGGTAAAATGA
* * * *
16539404 GC-AAAATAGCTCCGTAG
65 -CTGAAATACCCCCATAG
* * * *
16539421 GGTAAAATGACTAAAATACCCCCATATGGTAAAATGAGCAAAATACCCCCATAGGATAAAATGA-
1 GGTAAAATGACTAAAATACCCCCATAAGGTAAAATGACCAAAATACCCTCATAGGGTAAAATGAC
*
16539485 TCGAAATTCCCCCATAG
66 T-GAAATACCCCCATAG
** * * * *
16539502 GGTAAAATGAAAAAAATACCACCATAAGGTAAAATGACAAAAATA-CCTCCACAAGGTAAAATGA
1 GGTAAAATGACTAAAATACCCCCATAAGGTAAAATGACCAAAATACCCT-CATAGGGTAAAATGA
16539566 CTGAAATACCCCCATAG
65 CTGAAATACCCCCATAG
* * * * *
16539583 GGTAAAATGACTAAAATACCCCTATATGGTAAAATAACCGAAATACCCTCAGAGGGTAAAATGAC
1 GGTAAAATGACTAAAATACCCCCATAAGGTAAAATGACCAAAATACCCTCATAGGGTAAAATGAC
16539648 T
66 T
16539649 ATTATACCCC
Statistics
Matches: 248, Mismatches: 51, Indels: 21
0.77 0.16 0.07
Matches are distributed among these distances:
80 4 0.02
81 201 0.81
82 41 0.17
83 2 0.01
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (81 bp):
GGTAAAATGACTAAAATACCCCCATAAGGTAAAATGACCAAAATACCCTCATAGGGTAAAATGAC
TGAAATACCCCCATAG
Found at i:16539931 original size:26 final size:26
Alignment explanation
Indices: 16539881--16539931 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
16539871 TTTGGCACAT
* * *
16539881 ATACTGTTACTGGCAACTTTGCTGCA
1 ATACTGATACTGGCAACTCTACTGCA
*
16539907 ATACTGATACTGGCAGCTCTACTGC
1 ATACTGATACTGGCAACTCTACTGC
16539932 GGTGCTATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (26 bp):
ATACTGATACTGGCAACTCTACTGCA
Found at i:16540111 original size:28 final size:28
Alignment explanation
Indices: 16540063--16540269 Score: 251
Period size: 28 Copynumber: 7.4 Consensus size: 28
16540053 TACTGCACTG
*
16540063 CACTATTACTGTATTGGGCTAAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
* *
16540091 CACCGATT-CTGTATTTGGCTAAGGCCCA
1 CACTG-TTACTGTATTGGGCTAAGGCCCA
* * *
16540119 CACTGTTACTATATTGAGCTAAGGCCCC
1 CACTGTTACTGTATTGGGCTAAGGCCCA
*
16540147 CACTGATT-CTGTATTAGGCTAAGGCCCA
1 CACTG-TTACTGTATTGGGCTAAGGCCCA
* *
16540175 CACTGATT-CTGTATTAGACTAAGGCCCA
1 CACTG-TTACTGTATTGGGCTAAGGCCCA
*
16540203 CATTGTTACTGTATTGGGCTAAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
* *
16540231 CACTGTTACTATATTGGGCTAAGCCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
16540259 CACTG-TACTGT
1 CACTGTTACTGT
16540270 CACTAAATAG
Statistics
Matches: 155, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
27 9 0.06
28 142 0.92
29 4 0.03
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (28 bp):
CACTGTTACTGTATTGGGCTAAGGCCCA
Found at i:16540212 original size:84 final size:85
Alignment explanation
Indices: 16540063--16540263 Score: 291
Period size: 84 Copynumber: 2.4 Consensus size: 85
16540053 TACTGCACTG
* * *
16540063 CACT-ATTACTGTATTGGGCTAAGGCCCACACCGATTCTGTATTTGGCTAAGGCCCACACTGTTA
1 CACTGATTACTGTATTGGGCTAAGGCCCACACTGATTCTGTATTAGACTAAGGCCCACACTGTTA
*
16540127 CTATATTGAGCTAAGGCCCC
66 CTATATTGAGCTAAGGCCCA
* *
16540147 CACTGATT-CTGTATTAGGCTAAGGCCCACACTGATTCTGTATTAGACTAAGGCCCACATTGTTA
1 CACTGATTACTGTATTGGGCTAAGGCCCACACTGATTCTGTATTAGACTAAGGCCCACACTGTTA
* *
16540211 CTGTATTGGGCTAAGGCCCA
66 CTATATTGAGCTAAGGCCCA
* *
16540231 CACTG-TTACTATATTGGGCTAAGCCCCACACTG
1 CACTGATTACTGTATTGGGCTAAGGCCCACACTG
16540264 TACTGTCACT
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
83 2 0.02
84 99 0.95
85 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (85 bp):
CACTGATTACTGTATTGGGCTAAGGCCCACACTGATTCTGTATTAGACTAAGGCCCACACTGTTA
CTATATTGAGCTAAGGCCCA
Found at i:16540297 original size:33 final size:33
Alignment explanation
Indices: 16540232--16540297 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
16540222 TAAGGCCCAC
* * * *
16540232 ACTGTTACTATATTGGGCTAAGCCCCACACTGT
1 ACTGTCACTAAATAGGGCTAAGCCCCAAACTGT
16540265 ACTGTCACTAAATAGGGCTCAAG-CCCAAACTGT
1 ACTGTCACTAAATAGGGCT-AAGCCCCAAACTGT
16540298 TACATCATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 25 0.89
34 3 0.11
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (33 bp):
ACTGTCACTAAATAGGGCTAAGCCCCAAACTGT
Found at i:16542983 original size:27 final size:27
Alignment explanation
Indices: 16542927--16543499 Score: 742
Period size: 27 Copynumber: 21.2 Consensus size: 27
16542917 CTAATAGATG
*
16542927 AAAATGATCGAAATACCCCCCATAGTGT
1 AAAATGATCGAAATA-CCCCCATAGGGT
*
16542955 AAAATGATCGAAATACCCCAATAGGGT
1 AAAATGATCGAAATACCCCCATAGGGT
* *
16542982 AAAAT-AACTGAAATACCCCCATAGGTT
1 AAAATGATC-GAAATACCCCCATAGGGT
*
16543009 AAAATGATCGAAATACCCCTATAGGGT
1 AAAATGATCGAAATACCCCCATAGGGT
16543036 AAAATGA-CTGAAATACCCCCATAGGGT
1 AAAATGATC-GAAATACCCCCATAGGGT
* * * *
16543063 AAAATGACCAAAATACCCTCATAGGCT
1 AAAATGATCGAAATACCCCCATAGGGT
* *
16543090 AAAATGATCAAAATACCCCCATAGGGA
1 AAAATGATCGAAATACCCCCATAGGGT
*
16543117 AAAATGATCGAAATACCCCTATAGGGT
1 AAAATGATCGAAATACCCCCATAGGGT
16543144 AAAATGA-CTGAAATACCCCCATAGGGT
1 AAAATGATC-GAAATACCCCCATAGGGT
* * * *
16543171 AAAATGACCAAAATACCCTCATAGGCT
1 AAAATGATCGAAATACCCCCATAGGGT
* *
16543198 AAAATGATCAAAATACCCCCATAGGGA
1 AAAATGATCGAAATACCCCCATAGGGT
*
16543225 AAAATGATCGAAATACCCCTATAGGGT
1 AAAATGATCGAAATACCCCCATAGGGT
16543252 AAAATGA-CTGAAATACCCCCATAGGGT
1 AAAATGATC-GAAATACCCCCATAGGGT
* * * *
16543279 AAAATGACCAAAATACCCTCATAGGCT
1 AAAATGATCGAAATACCCCCATAGGGT
* *
16543306 AAAATGATCAAAATACCCCCATAGGGA
1 AAAATGATCGAAATACCCCCATAGGGT
*
16543333 AAAATGATCGAAATACCCCTATAGGGT
1 AAAATGATCGAAATACCCCCATAGGGT
16543360 AAAATGA-CTGAAATACCCCCATAGGGT
1 AAAATGATC-GAAATACCCCCATAGGGT
* * * *
16543387 AAAATGACCAAAATACCCTCATAGGCT
1 AAAATGATCGAAATACCCCCATAGGGT
* *
16543414 AAAATGATCAAAATACCCCCATAGGGA
1 AAAATGATCGAAATACCCCCATAGGGT
*
16543441 AAAATGATCGAAATACCCCTATAGGGT
1 AAAATGATCGAAATACCCCCATAGGGT
* *
16543468 AAAATGATCGAAATATCCCCATAAGGT
1 AAAATGATCGAAATACCCCCATAGGGT
16543495 AAAAT
1 AAAAT
16543500 AACTGTTATA
Statistics
Matches: 480, Mismatches: 55, Indels: 21
0.86 0.10 0.04
Matches are distributed among these distances:
26 6 0.01
27 453 0.94
28 21 0.04
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.19
Consensus pattern (27 bp):
AAAATGATCGAAATACCCCCATAGGGT
Found at i:16543529 original size:108 final size:108
Alignment explanation
Indices: 16542927--16543499 Score: 983
Period size: 108 Copynumber: 5.3 Consensus size: 108
16542917 CTAATAGATG
* * * * *
16542927 AAAATGA-TCGAAATACCCCCCATAGTGTAAAATGATCGAAATACCC-CAATAGGGTAAAAT-AA
1 AAAATGACT-GAAATA-CCCCCATAGGGTAAAATGACCAAAATACCCTC-ATAGGCTAAAATGAT
* **
16542989 CTGAAATACCCCCATAGGTTAAAATGATCGAAATACCCCTATAGGGT
63 C-AAAATACCCCCATAGGGAAAAATGATCGAAATACCCCTATAGGGT
16543036 AAAATGACTGAAATACCCCCATAGGGTAAAATGACCAAAATACCCTCATAGGCTAAAATGATCAA
1 AAAATGACTGAAATACCCCCATAGGGTAAAATGACCAAAATACCCTCATAGGCTAAAATGATCAA
16543101 AATACCCCCATAGGGAAAAATGATCGAAATACCCCTATAGGGT
66 AATACCCCCATAGGGAAAAATGATCGAAATACCCCTATAGGGT
16543144 AAAATGACTGAAATACCCCCATAGGGTAAAATGACCAAAATACCCTCATAGGCTAAAATGATCAA
1 AAAATGACTGAAATACCCCCATAGGGTAAAATGACCAAAATACCCTCATAGGCTAAAATGATCAA
16543209 AATACCCCCATAGGGAAAAATGATCGAAATACCCCTATAGGGT
66 AATACCCCCATAGGGAAAAATGATCGAAATACCCCTATAGGGT
16543252 AAAATGACTGAAATACCCCCATAGGGTAAAATGACCAAAATACCCTCATAGGCTAAAATGATCAA
1 AAAATGACTGAAATACCCCCATAGGGTAAAATGACCAAAATACCCTCATAGGCTAAAATGATCAA
16543317 AATACCCCCATAGGGAAAAATGATCGAAATACCCCTATAGGGT
66 AATACCCCCATAGGGAAAAATGATCGAAATACCCCTATAGGGT
16543360 AAAATGACTGAAATACCCCCATAGGGTAAAATGACCAAAATACCCTCATAGGCTAAAATGATCAA
1 AAAATGACTGAAATACCCCCATAGGGTAAAATGACCAAAATACCCTCATAGGCTAAAATGATCAA
16543425 AATACCCCCATAGGGAAAAATGATCGAAATACCCCTATAGGGT
66 AATACCCCCATAGGGAAAAATGATCGAAATACCCCTATAGGGT
* *
16543468 AAAATGA-TCGAAATATCCCCATAAGGTAAAAT
1 AAAATGACT-GAAATACCCCCATAGGGTAAAAT
16543500 AACTGTTATA
Statistics
Matches: 450, Mismatches: 10, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
107 1 0.00
108 432 0.96
109 16 0.04
110 1 0.00
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.19
Consensus pattern (108 bp):
AAAATGACTGAAATACCCCCATAGGGTAAAATGACCAAAATACCCTCATAGGCTAAAATGATCAA
AATACCCCCATAGGGAAAAATGATCGAAATACCCCTATAGGGT
Found at i:16543932 original size:33 final size:33
Alignment explanation
Indices: 16543895--16543963 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
16543885 TGCACTGCAT
16543895 TGTTACTGTATTGGGCTAAGGCCCACACTGTAC
1 TGTTACTGTATTGGGCTAAGGCCCACACTGTAC
*
16543928 TGTTACTGTATTGGGCTAAGGCCCACACTTTAC
1 TGTTACTGTATTGGGCTAAGGCCCACACTGTAC
16543961 TGT
1 TGT
16543964 CATTGAATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (33 bp):
TGTTACTGTATTGGGCTAAGGCCCACACTGTAC
Found at i:16543983 original size:33 final size:33
Alignment explanation
Indices: 16543908--16543995 Score: 95
Period size: 33 Copynumber: 2.6 Consensus size: 33
16543898 TACTGTATTG
* * * **
16543908 GGCTAAGGCCCACACTGTACTGTTACTGTATTG
1 GGCTAAGGCCCACACTTTACTGTCACTGAATAA
*
16543941 GGCTAAGGCCCACACTTTACTGTCATTGAATAA
1 GGCTAAGGCCCACACTTTACTGTCACTGAATAA
* *
16543974 GGCTGAGGCCCAGACTGTTACT
1 GGCTAAGGCCCACACT-TTACT
16543996 ACATGTTGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
33 41 0.89
34 5 0.11
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (33 bp):
GGCTAAGGCCCACACTTTACTGTCACTGAATAA
Found at i:16551352 original size:23 final size:23
Alignment explanation
Indices: 16551322--16551460 Score: 127
Period size: 23 Copynumber: 6.0 Consensus size: 23
16551312 GTTACACTTT
16551322 TGGCGTATTCTGCAATGCCTATG
1 TGGCGTATTCTGCAATGCCTATG
* *
16551345 TGGCGTATTATGTAATGCCT-TAG
1 TGGCGTATTCTGCAATGCCTAT-G
* * * *
16551368 TGACATATTCTACAATACCTATG
1 TGGCGTATTCTGCAATGCCTATG
*
16551391 TGGCGTATTCTGCAATGCCTTTG
1 TGGCGTATTCTGCAATGCCTATG
* * * * *
16551414 TAGCATATTTTGTAATGCCTTTG
1 TGGCGTATTCTGCAATGCCTATG
* * *
16551437 TGGTGAATTCTGCAATACCTATG
1 TGGCGTATTCTGCAATGCCTATG
16551460 T
1 T
16551461 AGTGTACTCA
Statistics
Matches: 89, Mismatches: 25, Indels: 4
0.75 0.21 0.03
Matches are distributed among these distances:
22 1 0.01
23 87 0.98
24 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (23 bp):
TGGCGTATTCTGCAATGCCTATG
Found at i:16551408 original size:69 final size:69
Alignment explanation
Indices: 16551322--16551460 Score: 190
Period size: 69 Copynumber: 2.0 Consensus size: 69
16551312 GTTACACTTT
* *
16551322 TGGCGTATTCTGCAATGCCTATGTGGCGTATTATGTAATGCCTTAGT-GACATATTCTACAATAC
1 TGGCGTATTCTGCAATGCCTATGTAGCATATTATGTAATGCCTTAGTGGACA-ATTCTACAATAC
16551386 CTATG
65 CTATG
* * * ** *
16551391 TGGCGTATTCTGCAATGCCTTTGTAGCATATTTTGTAATGCCTTTGTGGTGAATTCTGCAATACC
1 TGGCGTATTCTGCAATGCCTATGTAGCATATTATGTAATGCCTTAGTGGACAATTCTACAATACC
16551456 TATG
66 TATG
16551460 T
1 T
16551461 AGTGTACTCA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
69 59 0.97
70 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (69 bp):
TGGCGTATTCTGCAATGCCTATGTAGCATATTATGTAATGCCTTAGTGGACAATTCTACAATACC
TATG
Found at i:16552372 original size:12 final size:12
Alignment explanation
Indices: 16552355--16552396 Score: 84
Period size: 12 Copynumber: 3.5 Consensus size: 12
16552345 CTATAATGGT
16552355 GTTATAGGCTTA
1 GTTATAGGCTTA
16552367 GTTATAGGCTTA
1 GTTATAGGCTTA
16552379 GTTATAGGCTTA
1 GTTATAGGCTTA
16552391 GTTATA
1 GTTATA
16552397 AAACTGCTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.43
Consensus pattern (12 bp):
GTTATAGGCTTA
Found at i:16562302 original size:25 final size:25
Alignment explanation
Indices: 16562274--16562343 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
16562264 TCCTGTACAT
* * *
16562274 GTATGCTTACACGATCTGTGAATTG
1 GTATGCTTACACAAGCTGTGAATCG
*
16562299 GTATGCTCACACAAGCTGTGAATCG
1 GTATGCTTACACAAGCTGTGAATCG
16562324 GTATGCTTACACAAGCTGTG
1 GTATGCTTACACAAGCTGTG
16562344 GGTCAGAACG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (25 bp):
GTATGCTTACACAAGCTGTGAATCG
Found at i:16565234 original size:15 final size:15
Alignment explanation
Indices: 16565211--16565244 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
16565201 TTAATAGATT
*
16565211 TAAAGTGCAATAAAC
1 TAAAATGCAATAAAC
*
16565226 TAAAATGCATTAAAC
1 TAAAATGCAATAAAC
16565241 TAAA
1 TAAA
16565245 GCTTAAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.24
Consensus pattern (15 bp):
TAAAATGCAATAAAC
Found at i:16567961 original size:23 final size:23
Alignment explanation
Indices: 16567935--16568157 Score: 169
Period size: 23 Copynumber: 9.7 Consensus size: 23
16567925 TACTTTTGAA
*
16567935 GCCTTTGTGGCGTATTCTATAAT
1 GCCTTTGTGGCGTATTCTGTAAT
* * *
16567958 GCCTTTGTAGCATATTTTGTAAT
1 GCCTTTGTGGCGTATTCTGTAAT
* * **
16567981 GCCTTTATGGTGTATTCTACAAT
1 GCCTTTGTGGCGTATTCTGTAAT
* * *
16568004 GCCTATGTGGCATATTTTGTAAT
1 GCCTTTGTGGCGTATTCTGTAAT
* * *
16568027 GCATTTGTGGCATATTATGTAAT
1 GCCTTTGTGGCGTATTCTGTAAT
* * * *
16568050 GCCTATGTGGCTTATTATGTATT
1 GCCTTTGTGGCGTATTCTGTAAT
** * * *
16568073 TTCTTTGTGGTGTATTTTGCAAT
1 GCCTTTGTGGCGTATTCTGTAAT
* * **
16568096 GCCTATGTGGCTTATTCTACAAT
1 GCCTTTGTGGCGTATTCTGTAAT
*
16568119 G-CTTTGTGGTGTATTCTGTAAT
1 GCCTTTGTGGCGTATTCTGTAAT
* *
16568141 GCCTATGTAGCGTATTC
1 GCCTTTGTGGCGTATTC
16568158 AATATTTTTC
Statistics
Matches: 151, Mismatches: 48, Indels: 2
0.75 0.24 0.01
Matches are distributed among these distances:
22 17 0.11
23 134 0.89
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.45
Consensus pattern (23 bp):
GCCTTTGTGGCGTATTCTGTAAT
Found at i:16567985 original size:46 final size:46
Alignment explanation
Indices: 16567928--16568148 Score: 223
Period size: 46 Copynumber: 4.9 Consensus size: 46
16567918 GGTAAGTTAC
* * * *
16567928 TTTTG-AA-GCCTTTGTGGCGTATTCTATAATGCCTTTGTAGCATA
1 TTTTGTAATGCCTTTGTGGTGTATTCTGTAATGCCTATGTGGCATA
* **
16567972 TTTTGTAATGCCTTTATGGTGTATTCTACAATGCCTATGTGGCATA
1 TTTTGTAATGCCTTTGTGGTGTATTCTGTAATGCCTATGTGGCATA
* ** * *
16568018 TTTTGTAATGCATTTGTGGCATATTATGTAATGCCTATGTGGCTTA
1 TTTTGTAATGCCTTTGTGGTGTATTCTGTAATGCCTATGTGGCATA
* * ** * * *
16568064 TTATGTATTTTCTTTGTGGTGTATTTTGCAATGCCTATGTGGCTTA
1 TTTTGTAATGCCTTTGTGGTGTATTCTGTAATGCCTATGTGGCATA
* **
16568110 TTCTACAATG-CTTTGTGGTGTATTCTGTAATGCCTATGT
1 TTTTGTAATGCCTTTGTGGTGTATTCTGTAATGCCTATGT
16568149 AGCGTATTCA
Statistics
Matches: 146, Mismatches: 29, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
44 5 0.03
45 29 0.20
46 112 0.77
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.46
Consensus pattern (46 bp):
TTTTGTAATGCCTTTGTGGTGTATTCTGTAATGCCTATGTGGCATA
Found at i:16575987 original size:11 final size:11
Alignment explanation
Indices: 16575965--16576022 Score: 80
Period size: 11 Copynumber: 5.2 Consensus size: 11
16575955 AACTAATCAT
16575965 CTCTCAAATTTC
1 CTCTC-AATTTC
*
16575977 ATCTCAATTTC
1 CTCTCAATTTC
*
16575988 CTCTAAATTTC
1 CTCTCAATTTC
16575999 CTCTCAATTTC
1 CTCTCAATTTC
*
16576010 CTCTCAAATTC
1 CTCTCAATTTC
16576021 CT
1 CT
16576023 TCCAAATTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
11 37 0.90
12 4 0.10
ACGTcount: A:0.24, C:0.33, G:0.00, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:16575996 original size:22 final size:23
Alignment explanation
Indices: 16575965--16576040 Score: 95
Period size: 22 Copynumber: 3.4 Consensus size: 23
16575955 AACTAATCAT
16575965 CTCTCAAATTTCATCTCAATTTC
1 CTCTCAAATTTCATCTCAATTTC
*
16575988 CTCT-AAATTTCCTCTCAATTTC
1 CTCTCAAATTTCATCTCAATTTC
* *
16576010 CTCTCAAATTCCTTC-CAAATTT-
1 CTCTCAAATTTCATCTC-AATTTC
16576032 CTCTCAAAT
1 CTCTCAAAT
16576041 CCATATTTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
22 31 0.65
23 17 0.35
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (23 bp):
CTCTCAAATTTCATCTCAATTTC
Found at i:16576015 original size:33 final size:33
Alignment explanation
Indices: 16575964--16576038 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 33
16575954 AAACTAATCA
* *
16575964 TCTCTCAAATTTCATCTCAATTTCC-TCTAAATT
1 TCTCTC-AATTTCATCTCAAATTCCTTCCAAATT
*
16575997 TCCTCTCAATTTCCTCTCAAATTCCTTCCAAATT
1 T-CTCTCAATTTCATCTCAAATTCCTTCCAAATT
16576031 TCTCTCAA
1 TCTCTCAA
16576039 ATCCATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 24 0.65
34 13 0.35
ACGTcount: A:0.25, C:0.32, G:0.00, T:0.43
Consensus pattern (33 bp):
TCTCTCAATTTCATCTCAAATTCCTTCCAAATT
Found at i:16576039 original size:11 final size:11
Alignment explanation
Indices: 16575964--16576040 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
16575954 AAACTAATCA
16575964 TCTCTCAAATT
1 TCTCTCAAATT
16575975 TCATCTC-AATT
1 TC-TCTCAAATT
16575986 TC-CTCTAAATT
1 TCTCTC-AAATT
16575997 TCCTCTC-AATT
1 T-CTCTCAAATT
16576008 TCCTCTCAAATT
1 T-CTCTCAAATT
*
16576020 CCT-TCCAAATT
1 TCTCT-CAAATT
16576031 TCTCTCAAAT
1 TCTCTCAAAT
16576041 CCATATTTAA
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
9 3 0.05
10 1 0.02
11 39 0.70
12 10 0.18
13 3 0.05
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.43
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:16579975 original size:22 final size:22
Alignment explanation
Indices: 16579904--16580391 Score: 549
Period size: 23 Copynumber: 22.0 Consensus size: 22
16579894 GAGTTATTAC
16579904 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
*
16579927 TTAAAAATCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
16579950 TTAAAAACCCTAAACCCTTGAC
1 TTAAAAACCCTAAACCCTTAAA
*
16579972 TT-AAAACCCTAAACCCTTAAT
1 TTAAAAACCCTAAACCCTTAAA
16579993 TTAAAAACCCT-AACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
16580014 TTAAAAACCCTAAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
* *
16580036 GTTAAAAACCATAAACTCTTAAAA
1 -TTAAAAACCCTAAACCCTT-AAA
*
16580060 TTAAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
*
16580082 TTAAAAACTCT-AACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
*
16580103 TTAAGAACCCTAAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
* * *
16580125 ATAAAAACCCTAAGCCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
** *
16580147 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
16580170 TTAAAAACCCT-AACCCTTTAAC
1 TTAAAAACCCTAAACCC-TTAAA
** *
16580192 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
16580215 TTAAAAACCATAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
16580238 TTAAAAACCCTAAACCATTAAC
1 TTAAAAACCCTAAACCCTTAAA
* *
16580260 TTATAAGCCCT-AACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
16580281 TTATAAAA-CCTAAACCCTTAAAA
1 TTA-AAAACCCTAAACCCTT-AAA
* *
16580304 TTAAAAACCCTAAGCCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
** *
16580326 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
16580349 TTAAAAACCTTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
16580372 TT-AAAACCCTAAACCCTTAA
1 TTAAAAACCCTAAACCCTTAA
16580392 CTAGCATCCT
Statistics
Matches: 390, Mismatches: 59, Indels: 34
0.81 0.12 0.07
Matches are distributed among these distances:
21 73 0.19
22 150 0.38
23 164 0.42
24 3 0.01
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.25
Consensus pattern (22 bp):
TTAAAAACCCTAAACCCTTAAA
Found at i:16580086 original size:89 final size:87
Alignment explanation
Indices: 16579902--16580391 Score: 576
Period size: 89 Copynumber: 5.5 Consensus size: 87
16579892 TTGAGTTATT
*
16579902 ACTTAAAAACCCTAAACCCTTAAAATTAAAAATCCTAAACCCTTAAAATTAAAAACCCTAAACCC
1 ACTTAAAAACCCT-AACCCTT-AAATTAAAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCC
*
16579967 TTGACTT-AAAACCCTAAACCCTTA
63 TTAACTTAAAAACCCTAAACCCTTA
* * *
16579991 ATTTAAAAACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAAAGTTAAAAACCATAAACTCTT
1 ACTTAAAAACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAAA-TTAAAAACCCTAAACCCTT
*
16580056 AAAATTAAAAACCCTAAACCCTTA
65 -AACTTAAAAACCCTAAACCCTTA
* * * *
16580080 ACTTAAAAACTCTAACCCTTAAATTAAGAACCCTAAACCCTTAAAATAAAAACCCTAAGCCCTTA
1 ACTTAAAAACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
**
16580145 ACTTAAAAACCCTAAACTAATTTA
66 ACTTAAAAACCCTAAAC--CCTTA
* ** * *
16580169 A-TTAAAAACCCTAACCCTTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCATAAACCCT
1 ACTTAAAAACCCTAACCC-TTAAATTAAAAACCCTAAAC-CCTTAAATTAAAAACCCTAAACCCT
* *
16580233 TAAAATTAAAAACCCTAAACCATTA
64 T-AACTTAAAAACCCTAAACCCTTA
* * *
16580258 ACTTATAAGCCCTAACCCTTAAATTATAAAA-CCTAAACCCTTAAAATTAAAAACCCTAAGCCCT
1 ACTTAAAAACCCTAACCCTTAAATTA-AAAACCCTAAACCCTT-AAATTAAAAACCCTAAACCCT
**
16580322 TAACTTAAAAACCCTAAACTAATTTA
64 TAACTTAAAAACCCTAAAC--CCTTA
*
16580348 A-TTAAAAACCTTAAACCCTTAAAATT-AAAACCCTAAACCCTTAA
1 ACTTAAAAACCCT-AACCCTT-AAATTAAAAACCCTAAACCCTTAA
16580392 CTAGCATCCT
Statistics
Matches: 343, Mismatches: 42, Indels: 32
0.82 0.10 0.08
Matches are distributed among these distances:
86 3 0.01
87 55 0.16
88 59 0.17
89 144 0.42
90 60 0.17
91 22 0.06
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.25
Consensus pattern (87 bp):
ACTTAAAAACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTA
ACTTAAAAACCCTAAACCCTTA
Found at i:16580419 original size:134 final size:134
Alignment explanation
Indices: 16579904--16580393 Score: 448
Period size: 133 Copynumber: 3.7 Consensus size: 134
16579894 GAGTTATTAC
* * * ** * *
16579904 TTAAAAACCCTAAACCCTTAAAATTAAAAATCCTAAAC-CCTTAAAATTAAAAACCCTAAACCCT
1 TTAAAAACCCT-AACCCTTTAACTTAAAAACCCTAAACTAATT-TAATTAAAAACCATAAACCCT
* * * * * * * *
16579968 T-GACTT-AAAACCCTAAACCCTTAATTTAAAAACCCTAACCCTTAAATTA-AAAACCCTAAACC
64 TAAAATTAAAAACCCTAAACCATTAACTTAGAAGCCCTAAACCTGAAATTATAAAA-CCTAAACC
*
16580030 CTTAAAG
128 CTTAAAA
* * * * **
16580037 TTAAAAACCATAAACTCTTAAAATTAAAAACCCTAAAC--CCTTAACTTAAAAACTC-T-AACCC
1 TTAAAAACCCT-AACCCTTTAACTTAAAAACCCTAAACTAATTTAA-TTAAAAAC-CATAAACCC
* * ** * * * * *
16580098 TT-AAATTAAGAACCCTAAACCCTTAAAATAAAAACCCTAAGCCCTTAACTTA-AAAACCCTAAA
63 TTAAAATTAAAAACCCTAAACCATTAACTTAGAAGCCCTAA-ACCTGAAATTATAAAA-CCTAAA
** *
16580161 CTAATT-TAA
126 C-CCTTAAAA
16580170 TTAAAAACCCTAACCCTTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCATAAACCCTTA
1 TTAAAAACCCTAACCCTTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCATAAACCCTTA
* * *
16580235 AAATTAAAAACCCTAAACCATTAACTTATAAGCCCTAACCCTTAAATTATAAAACCTAAACCCTT
66 AAATTAAAAACCCTAAACCATTAACTTAGAAGCCCTAAACCTGAAATTATAAAACCTAAACCCTT
16580300 AAAA
131 AAAA
*
16580304 TTAAAAACCCTAAGCCC-TTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCTTAAACCCTT
1 TTAAAAACCCTAA-CCCTTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCATAAACCCTT
*
16580368 AAAATT-AAAACCCTAAACCCTTAACT
65 AAAATTAAAAACCCTAAACCATTAACT
16580394 AGCATCCTGC
Statistics
Matches: 311, Mismatches: 33, Indels: 26
0.84 0.09 0.07
Matches are distributed among these distances:
131 12 0.04
132 64 0.21
133 99 0.32
134 97 0.31
135 39 0.13
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.25
Consensus pattern (134 bp):
TTAAAAACCCTAACCCTTTAACTTAAAAACCCTAAACTAATTTAATTAAAAACCATAAACCCTTA
AAATTAAAAACCCTAAACCATTAACTTAGAAGCCCTAAACCTGAAATTATAAAACCTAAACCCTT
AAAA
Found at i:16580752 original size:7 final size:7
Alignment explanation
Indices: 16580740--16580786 Score: 85
Period size: 7 Copynumber: 6.7 Consensus size: 7
16580730 GTAAATCACG
16580740 CCCTAAA
1 CCCTAAA
16580747 CCCTAAA
1 CCCTAAA
16580754 CCCTAAA
1 CCCTAAA
*
16580761 CCTTAAA
1 CCCTAAA
16580768 CCCTAAA
1 CCCTAAA
16580775 CCCTAAA
1 CCCTAAA
16580782 CCCTA
1 CCCTA
16580787 GAGGGCGTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (7 bp):
CCCTAAA
Found at i:16589998 original size:30 final size:30
Alignment explanation
Indices: 16589962--16590024 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
16589952 AAACTTATTT
*
16589962 TTTGTTAATTTTGTTCTTATTTTAAAGACA
1 TTTGTTAATTTTGTTATTATTTTAAAGACA
* *
16589992 TTTGTTAATTTTGTTATTATTTTAGAGGCA
1 TTTGTTAATTTTGTTATTATTTTAAAGACA
16590022 TTT
1 TTT
16590025 TCTTGTTAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.59
Consensus pattern (30 bp):
TTTGTTAATTTTGTTATTATTTTAAAGACA
Found at i:16593870 original size:19 final size:19
Alignment explanation
Indices: 16593846--16593885 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
16593836 GTGGGATTGA
*
16593846 TTCTTAAGTTTTTATTTAG
1 TTCTTAAGTTTTTACTTAG
16593865 TTCTTAAGTTTTTACTTAG
1 TTCTTAAGTTTTTACTTAG
16593884 TT
1 TT
16593886 TATTTTATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.07, G:0.10, T:0.62
Consensus pattern (19 bp):
TTCTTAAGTTTTTACTTAG
Found at i:16595970 original size:22 final size:21
Alignment explanation
Indices: 16595902--16595978 Score: 77
Period size: 22 Copynumber: 3.6 Consensus size: 21
16595892 CATATAGAAC
16595902 ATGCCACAAAGGCTAG-TAGA
1 ATGCCACAAAGGCTAGATAGA
* * *
16595922 ATGCCATAAAGGCTA-ACAAA
1 ATGCCACAAAGGCTAGATAGA
16595942 ATGTGCCACAAAGGCTAGATTAGA
1 A--TGCCACAAAGGCTAGA-TAGA
*
16595966 ATGCCATAAAGGC
1 ATGCCACAAAGGC
16595979 CAAATCAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
20 17 0.38
22 24 0.53
23 1 0.02
24 3 0.07
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (21 bp):
ATGCCACAAAGGCTAGATAGA
Found at i:16596010 original size:44 final size:42
Alignment explanation
Indices: 16595905--16596015 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 42
16595895 ATAGAACATG
* * ***
16595905 CCACAAAGGCTAGTAGAATGCCATAAAGGCTAACAAAATGTG
1 CCACAAAGGCTAATAGAATGCCATAAAGGCAAACAAAATACA
16595947 CCACAAAGGCTAGATTAGAATGCCATAAAGGCCAAATCAAAATACA
1 CCACAAAGGCTA-A-TAGAATGCCATAAAGG-CAAA-CAAAATACA
* *
16595993 CCATAAAGGTTAATAGAATGCCA
1 CCACAAAGGCTAATAGAATGCCA
16596016 CCGAAGCACC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 12 0.21
44 26 0.45
45 4 0.07
46 16 0.28
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.17
Consensus pattern (42 bp):
CCACAAAGGCTAATAGAATGCCATAAAGGCAAACAAAATACA
Found at i:16598550 original size:36 final size:36
Alignment explanation
Indices: 16598498--16598599 Score: 114
Period size: 36 Copynumber: 2.8 Consensus size: 36
16598488 TTAATGTTAG
* * *
16598498 GGTTCGCACAATAACATGGGTTCGAAAAATAACATA
1 GGTTCGCATAACAACATGGGTTCGAAAAATAACAAA
** * * *
16598534 GGTTCGCATAACAACATAAGTTTGCATAATAACAAA
1 GGTTCGCATAACAACATGGGTTCGAAAAATAACAAA
*
16598570 GGTTCGCATAACAATATGGGTTTCGAAAAA
1 GGTTCGCATAACAACATGGG-TTCGAAAAA
16598600 AGAAAGATCA
Statistics
Matches: 51, Mismatches: 14, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
36 45 0.88
37 6 0.12
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.25
Consensus pattern (36 bp):
GGTTCGCATAACAACATGGGTTCGAAAAATAACAAA
Found at i:16598591 original size:18 final size:18
Alignment explanation
Indices: 16598498--16598580 Score: 94
Period size: 18 Copynumber: 4.6 Consensus size: 18
16598488 TTAATGTTAG
* *
16598498 GGTTCGCACAATAACATG
1 GGTTCGCATAATAACATA
* *
16598516 GGTTCGAAAAATAACATA
1 GGTTCGCATAATAACATA
*
16598534 GGTTCGCATAACAACATA
1 GGTTCGCATAATAACATA
* * *
16598552 AGTTTGCATAATAACAAA
1 GGTTCGCATAATAACATA
16598570 GGTTCGCATAA
1 GGTTCGCATAA
16598581 CAATATGGGT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (18 bp):
GGTTCGCATAATAACATA
Found at i:16599598 original size:35 final size:35
Alignment explanation
Indices: 16599552--16599622 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
16599542 GCATAGCTCG
16599552 ACATTCCCTTATCTCTCCACATGTCCTAGGGCCTC
1 ACATTCCCTTATCTCTCCACATGTCCTAGGGCCTC
16599587 ACATTCCCTTATCTCTCCACATGTCCTAGGGCCTC
1 ACATTCCCTTATCTCTCCACATGTCCTAGGGCCTC
16599622 A
1 A
16599623 ACACCCAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.18, C:0.39, G:0.11, T:0.31
Consensus pattern (35 bp):
ACATTCCCTTATCTCTCCACATGTCCTAGGGCCTC
Found at i:16603616 original size:132 final size:132
Alignment explanation
Indices: 16603337--16603597 Score: 373
Period size: 132 Copynumber: 2.0 Consensus size: 132
16603327 CAATCAAATC
* * * *
16603337 GAATCAAACACAAAAACTAGAAATAGCTTTCTTTTCTTTTGAGGTGAAAAATGAAAATTCTCTTC
1 GAATTAAACACAGAAACTAGAAATAGCTTTCTTTTCCTTTGAAGTGAAAAA-GAAAATTCTCTTC
* * *
16603402 TTAAATAAAGACAGATAGAATCGTTATTCCGAAAAATATATTTAATTCTTAGAGAATAATAGTCA
65 TCAAATAAAGACAGATAGAATCGTTATTCAGAAAAATATATTTAATTCTTAGAGAATAAAAGTCA
16603467 TTT
130 TTT
* *
16603470 GAATTAAACACAGAAACTAGAAATAGTTTTCTTTTCCTTTGAAGTGAAAACA-AAAATTCTTTTC
1 GAATTAAACACAGAAACTAGAAATAGCTTTCTTTTCCTTTGAAGTGAAAA-AGAAAATTCTCTTC
* * *
16603534 TCAAATAGAA-ACCGATAGAATCGTTATTCAGGAAAATATATTTAATTTTTAGAGAATAAAAGTC
65 TCAAATA-AAGACAGATAGAATCGTTATTCAGAAAAATATATTTAATTCTTAGAGAATAAAAGTC
16603598 TCTCTATTTT
Statistics
Matches: 114, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
132 66 0.58
133 47 0.41
134 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (132 bp):
GAATTAAACACAGAAACTAGAAATAGCTTTCTTTTCCTTTGAAGTGAAAAAGAAAATTCTCTTCT
CAAATAAAGACAGATAGAATCGTTATTCAGAAAAATATATTTAATTCTTAGAGAATAAAAGTCAT
TT
Found at i:16604413 original size:20 final size:22
Alignment explanation
Indices: 16604388--16604439 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 22
16604378 CTTTTATGTA
16604388 GGTATCGATATTGTC-TTAAG-
1 GGTATCGATATTGTCTTTAAGT
* *
16604408 GGTATCAATATTTTCTTTAAGT
1 GGTATCGATATTGTCTTTAAGT
16604430 GGTATCGATA
1 GGTATCGATA
16604440 CCACATGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 13 0.48
21 5 0.19
22 9 0.33
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (22 bp):
GGTATCGATATTGTCTTTAAGT
Found at i:16608301 original size:39 final size:40
Alignment explanation
Indices: 16608230--16608374 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
16608220 GCTCCTCGTT
* *
16608230 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
16608270 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
16608309 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
16608350 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16608375 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 44 0.49
41 12 0.13
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Done.