Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 58 of 228
Found at i:17288166 original size:21 final size:22
Alignment explanation
Indices: 17288135--17288189 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
17288125 TTTCCCCCCA
*
17288135 TTGCATGTGGCTATACAA-TTGT
1 TTGCA-GTGGCTATACAATTTAT
*
17288157 TTGCAGTGGCTATATAATTTAT
1 TTGCAGTGGCTATACAATTTAT
17288179 TTGCAGTGGCT
1 TTGCAGTGGCT
17288190 CCATCTGCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 11 0.37
22 19 0.63
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.42
Consensus pattern (22 bp):
TTGCAGTGGCTATACAATTTAT
Found at i:17288382 original size:14 final size:14
Alignment explanation
Indices: 17288359--17288388 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17288349 ATGCATAGTC
*
17288359 TTGGTGCTGTTAAT
1 TTGGTACTGTTAAT
17288373 TTGGTACTGTTAAT
1 TTGGTACTGTTAAT
17288387 TT
1 TT
17288389 TGAATGCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.07, G:0.23, T:0.53
Consensus pattern (14 bp):
TTGGTACTGTTAAT
Found at i:17288424 original size:52 final size:52
Alignment explanation
Indices: 17288368--17288506 Score: 200
Period size: 52 Copynumber: 2.8 Consensus size: 52
17288358 CTTGGTGCTG
*
17288368 TTAATTTGGTACTGTTAATTTTGAATGCTTTGAAATGTTTGAAATGGTGTTA
1 TTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAATGGTGTTA
* *
17288420 TTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAATGGTGCTG
1 TTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAATGGTGTTA
*
17288472 TT-A----CTACT-TTAACTTTGAATGCTTTGAAATGTTTG
1 TTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTG
17288507 CTCACTGATA
Statistics
Matches: 83, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
46 27 0.33
47 4 0.05
51 1 0.01
52 51 0.61
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.47
Consensus pattern (52 bp):
TTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAATGGTGTTA
Found at i:17288489 original size:37 final size:37
Alignment explanation
Indices: 17288447--17288609 Score: 123
Period size: 37 Copynumber: 4.5 Consensus size: 37
17288437 ACTTTGAATG
17288447 CTTTGAAATG-TTTGAAATGGTGCTGTTACTACTTTAA
1 CTTTG-AATGCTTTGAAATGGTGCTGTTACTACTTTAA
* * *
17288484 CTTTGAATGCTTTGAAAT-GT-TTGCT-C-AC--TGA
1 CTTTGAATGCTTTGAAATGGTGCTGTTACTACTTTAA
* *
17288515 ---TAAATG-TTTGAAATGGTGCTGTTAATTTGGTACTGTTAA
1 CTTTGAATGCTTTGAAATGGTGCTGTT-A----CTACT-TTAA
* *
17288554 CTTTGAATGCTTTGAAATGGTGCTATTACTACTTCAA
1 CTTTGAATGCTTTGAAATGGTGCTGTTACTACTTTAA
17288591 CTTTGAATGCTTTGAAATG
1 CTTTGAATGCTTTGAAATG
17288610 TTTGCTCACT
Statistics
Matches: 97, Mismatches: 12, Indels: 34
0.68 0.08 0.24
Matches are distributed among these distances:
27 8 0.08
28 7 0.07
29 3 0.03
31 2 0.02
33 2 0.02
34 1 0.01
35 3 0.03
36 8 0.08
37 35 0.36
38 4 0.04
39 2 0.02
42 6 0.06
43 16 0.16
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (37 bp):
CTTTGAATGCTTTGAAATGGTGCTGTTACTACTTTAA
Found at i:17288550 original size:116 final size:116
Alignment explanation
Indices: 17288400--17288688 Score: 479
Period size: 107 Copynumber: 2.6 Consensus size: 116
17288390 GAATGCTTTG
* *
17288400 AAATGTTTGAAATGGTGTTATTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
1 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
* *
17288465 GGTGCTGTTACTACTTTAACTTTGAATGCTTTGAAATGTTTGCTCACTGAT
66 GGTGCTATTACTACTTCAACTTTGAATGCTTTGAAATGTTTGCTCACTGAT
17288516 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGC---------TTTGAAAT
1 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
17288572 GGTGCTATTACTACTTCAACTTTGAATGCTTTGAAATGTTTGCTCACTGAT
66 GGTGCTATTACTACTTCAACTTTGAATGCTTTGAAATGTTTGCTCACTGAT
17288623 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
1 AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
17288688 G
66 G
17288689 AGTTAACACC
Statistics
Matches: 160, Mismatches: 4, Indels: 18
0.88 0.02 0.10
Matches are distributed among these distances:
107 105 0.66
116 55 0.34
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (116 bp):
AAATGTTTGAAATGGTGCTGTTAATTTGGTACTGTTAACTTTGAATGCTTTGAAATGTTTGAAAT
GGTGCTATTACTACTTCAACTTTGAATGCTTTGAAATGTTTGCTCACTGAT
Found at i:17293441 original size:89 final size:93
Alignment explanation
Indices: 17293317--17293508 Score: 268
Period size: 92 Copynumber: 2.1 Consensus size: 93
17293307 TTAATTTTAG
* * *
17293317 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATG-AATAT-ATA-TCACTATTAAATTA
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATATAATATTAACTATTAAATTA
* *
17293379 TATTTAAT-ATTAATTATTTTAAATTGTA
66 TATGTAATAATT-ATTATTTTAAATTATA
* *
17293407 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTTAATATTAATTATTAAATTA
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATATAATATTAACTATTAAATTA
17293471 TATGTAATAATTATTATTTTAAATTATA
66 TATGTAATAATTATTATTTTAAATTATA
*
17293499 CAAATTCATA
1 TAAATTCATA
17293509 AAATATAATT
Statistics
Matches: 90, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
89 21 0.23
90 20 0.22
91 3 0.03
92 43 0.48
93 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (93 bp):
TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATATAATATTAACTATTAAATTA
TATGTAATAATTATTATTTTAAATTATA
Found at i:17293486 original size:24 final size:25
Alignment explanation
Indices: 17293451--17293498 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
17293441 TTATGAAATT
17293451 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
17293475 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
17293499 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:17293694 original size:16 final size:16
Alignment explanation
Indices: 17293675--17293716 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
17293665 TTATTAAATT
*
17293675 ATATATTTTAATTAAA
1 ATATATTTTAATAAAA
17293691 ATATA-TTTAATAAAA
1 ATATATTTTAATAAAA
17293706 AT-TATGTTTAA
1 ATATAT-TTTAA
17293717 ATATGTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATATTTTAATAAAA
Found at i:17293940 original size:45 final size:44
Alignment explanation
Indices: 17293861--17293951 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
17293851 ACCTCTATTC
* * *
17293861 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCAATA
***
17293905 CATTCAACCAAACAGTTGATTTACTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTAATCCAATA
17293950 CA
1 CA
17293952 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.37, C:0.29, G:0.04, T:0.30
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCAATA
Found at i:17293953 original size:16 final size:16
Alignment explanation
Indices: 17293932--17293967 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
17293922 GATTTACTAT
17293932 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
17293948 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
17293964 TACA
1 TACA
17293968 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:17294525 original size:6 final size:6
Alignment explanation
Indices: 17294514--17294553 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
17294504 ATAGTCACGC
17294514 CCAATA CCAATA CCAATA CCAATA CCAATA CCAATA CCAA
1 CCAATA CCAATA CCAATA CCAATA CCAATA CCAATA CCAA
17294554 ATCCATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (6 bp):
CCAATA
Found at i:17299031 original size:4 final size:4
Alignment explanation
Indices: 17299016--17299047 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
17299006 TATTGAAAAT
17299016 TTAA TTAA -TAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
17299048 ATGCTGAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:17311578 original size:63 final size:62
Alignment explanation
Indices: 17311469--17311589 Score: 199
Period size: 63 Copynumber: 1.9 Consensus size: 62
17311459 GAACCCTGTG
* *
17311469 TACGAACCCCTATTGCTAACCCTATGCAAAATCATATAGGATTCATTATGTGAACCCTTTCA
1 TACGAACCCCTATTGCTAACCCTATGAAAAATCATATAGGATTCATTATGCGAACCCTTTCA
17311531 TACGAACCCCTATTG-TGAACCCATATGAAAAATCATATAGGATTCATTATGCGAACCCT
1 TACGAACCCCTATTGCT-AACCC-TATGAAAAATCATATAGGATTCATTATGCGAACCCT
17311590 ATCTGTTTAA
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
61 1 0.02
62 20 0.36
63 34 0.62
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (62 bp):
TACGAACCCCTATTGCTAACCCTATGAAAAATCATATAGGATTCATTATGCGAACCCTTTCA
Found at i:17311630 original size:23 final size:23
Alignment explanation
Indices: 17311604--17311713 Score: 111
Period size: 21 Copynumber: 5.0 Consensus size: 23
17311594 GTTTAATCAT
17311604 GTGAACCCCCTATGTTATTACAC
1 GTGAACCCCCTATGTTATTACAC
* * * *
17311627 GTGAA--CCTTAGGTTATGACAT
1 GTGAACCCCCTATGTTATTACAC
17311648 GTGAACCCCCTATGTTATTACAC
1 GTGAACCCCCTATGTTATTACAC
* * *
17311671 GTGAA--CCCTAGGTTATGACAT
1 GTGAACCCCCTATGTTATTACAC
* *
17311692 GTAAACCTCCTATGTTATTACA
1 GTGAACCCCCTATGTTATTACA
17311714 TGCAAAATCT
Statistics
Matches: 68, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
21 34 0.50
23 34 0.50
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (23 bp):
GTGAACCCCCTATGTTATTACAC
Found at i:17311651 original size:44 final size:44
Alignment explanation
Indices: 17311601--17311769 Score: 203
Period size: 44 Copynumber: 3.8 Consensus size: 44
17311591 TCTGTTTAAT
*
17311601 CATGTGAACCCCCTATGTTATTACACGTGAACCTTAGGTTATGA
1 CATGTGAACCCCCTATGTTATTACACGTGAACCCTAGGTTATGA
17311645 CATGTGAACCCCCTATGTTATTACACGTGAACCCTAGGTTATGA
1 CATGTGAACCCCCTATGTTATTACACGTGAACCCTAGGTTATGA
* * * ** ** * *
17311689 CATGTAAACCTCCTATGTTATTACATGCAAAATCTAAGTTATGG
1 CATGTGAACCCCCTATGTTATTACACGTGAACCCTAGGTTATGA
*** *
17311733 CATGTGAACCCTAAACTGTTATTACATGTGAACCCTA
1 CATGTGAACCCCCTA-TGTTATTACACGTGAACCCTA
17311770 TGTTGCGACA
Statistics
Matches: 105, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
44 88 0.84
45 17 0.16
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (44 bp):
CATGTGAACCCCCTATGTTATTACACGTGAACCCTAGGTTATGA
Found at i:17311698 original size:21 final size:21
Alignment explanation
Indices: 17311611--17311791 Score: 101
Period size: 21 Copynumber: 8.3 Consensus size: 21
17311601 CATGTGAACC
* * *
17311611 CCCTATGTTATTACACGTGAA
1 CCCTATGTTATGACATGTAAA
* * *
17311632 CCTTAGGTTATGACATGTGAACC
1 CCCTATGTTATGACATGT-AA-A
* * *
17311655 CCCTATGTTATTACACGTGAA
1 CCCTATGTTATGACATGTAAA
*
17311676 CCCTAGGTTATGACATGTAAA
1 CCCTATGTTATGACATGTAAA
* *
17311697 CCTCCTATGTTATTACATGCAAA
1 -C-CCTATGTTATGACATGTAAA
** * * *
17311720 ATCTAAGTTATGGCATGTGAA
1 CCCTATGTTATGACATGTAAA
* *
17311741 CCCTAAACTGTTATTACATGTGAA
1 CCCT--A-TGTTATGACATGTAAA
** *
17311765 CCCTATGTTGCGACATGCAAA
1 CCCTATGTTATGACATGTAAA
17311786 CCCTAT
1 CCCTAT
17311792 CTGTTACTAC
Statistics
Matches: 117, Mismatches: 36, Indels: 14
0.70 0.22 0.08
Matches are distributed among these distances:
21 64 0.55
22 4 0.03
23 32 0.27
24 17 0.15
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (21 bp):
CCCTATGTTATGACATGTAAA
Found at i:17311714 original size:23 final size:23
Alignment explanation
Indices: 17311601--17311715 Score: 121
Period size: 23 Copynumber: 5.2 Consensus size: 23
17311591 TCTGTTTAAT
17311601 CATGTGAACCCCCTATGTTATTA
1 CATGTGAACCCCCTATGTTATTA
* * * *
17311624 CACGTGAA--CCTTAGGTTATGA
1 CATGTGAACCCCCTATGTTATTA
17311645 CATGTGAACCCCCTATGTTATTA
1 CATGTGAACCCCCTATGTTATTA
* * *
17311668 CACGTGAA--CCCTAGGTTATGA
1 CATGTGAACCCCCTATGTTATTA
* *
17311689 CATGTAAACCTCCTATGTTATTA
1 CATGTGAACCCCCTATGTTATTA
17311712 CATG
1 CATG
17311716 CAAAATCTAA
Statistics
Matches: 72, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
21 34 0.47
23 38 0.53
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (23 bp):
CATGTGAACCCCCTATGTTATTA
Found at i:17311797 original size:89 final size:88
Alignment explanation
Indices: 17311638--17311805 Score: 205
Period size: 89 Copynumber: 1.9 Consensus size: 88
17311628 TGAACCTTAG
** * *
17311638 GTTATGACATGTGAACCCCCTATGTTATTACACGTGAACCCTAGGTTATGACATGTAAACCTCCT
1 GTTATGACATGTGAACCCCAAATGTTATTACACGTGAACCCTAGGTTACGACATGCAAACCTCCT
*
17311703 ATGTTATTACATGCAAAATCTAA
66 ATGTTACTACATGCAAAATCTAA
* * * * *
17311726 GTTATGGCATGTGAACCCTAAACTGTTATTACATGTGAACCCTATGTTGCGACATGCAAA-C-CC
1 GTTATGACATGTGAACCCCAAA-TGTTATTACACGTGAACCCTAGGTTACGACATGCAAACCTCC
17311789 TATCTGTTACTACATGC
65 TA--TGTTACTACATGC
17311806 GAACCCTATT
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
87 4 0.06
88 19 0.28
89 44 0.66
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (88 bp):
GTTATGACATGTGAACCCCAAATGTTATTACACGTGAACCCTAGGTTACGACATGCAAACCTCCT
ATGTTACTACATGCAAAATCTAA
Found at i:17311803 original size:23 final size:23
Alignment explanation
Indices: 17311777--17311836 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
17311767 CTATGTTGCG
*
17311777 ACATGCAAACCCTATCTGTTACT
1 ACATGCAAACCCTATCTGTTAAT
* *
17311800 ACATGCGAACCCTATTTGTTAAT
1 ACATGCAAACCCTATCTGTTAAT
*
17311823 ACAT-CAAACACTAT
1 ACATGCAAACCCTAT
17311837 ATGCTATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 8 0.25
23 24 0.75
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (23 bp):
ACATGCAAACCCTATCTGTTAAT
Found at i:17313998 original size:14 final size:13
Alignment explanation
Indices: 17313967--17314005 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
17313957 TTCTAAAAAA
*
17313967 GTTTTTAAAAAGT
1 GTTTTTAAAAATT
17313980 GTTTTTAAAAATT
1 GTTTTTAAAAATT
*
17313993 ATTTTTGAAAAAT
1 GTTTTT-AAAAAT
17314006 ACTTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (13 bp):
GTTTTTAAAAATT
Found at i:17316081 original size:30 final size:30
Alignment explanation
Indices: 17316035--17316091 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
17316025 GGGTAACCTC
*
17316035 AATATAATATCCGCTTGTGTGAACAACCCT
1 AATATAATATCAGCTTGTGTGAACAACCCT
* *
17316065 AATATACTATCAGCTTGTGTGAGCAAC
1 AATATAATATCAGCTTGTGTGAACAAC
17316092 TTATTACCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (30 bp):
AATATAATATCAGCTTGTGTGAACAACCCT
Found at i:17318041 original size:22 final size:21
Alignment explanation
Indices: 17318016--17318094 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 21
17318006 CAAATTAATT
*
17318016 TCTTTAAGATTACAAAATCATA
1 TCTTTAAGATTAC-ATATCATA
*
17318038 TCTTCTAAGATTGCATATCATA
1 TCTT-TAAGATTACATATCATA
17318060 TC--TAAGATTACATATCATA
1 TCTTTAAGATTACATATCATA
*
17318079 TC--TAAGATTGCATATC
1 TCTTTAAGATTACATATC
17318095 CTTGAAGATG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
19 31 0.60
22 13 0.25
23 8 0.15
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (21 bp):
TCTTTAAGATTACATATCATA
Found at i:17318065 original size:19 final size:19
Alignment explanation
Indices: 17318041--17318094 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
17318031 AATCATATCT
17318041 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
17318060 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
17318079 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
17318095 CTTGAAGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:17318722 original size:45 final size:45
Alignment explanation
Indices: 17318652--17319154 Score: 237
Period size: 45 Copynumber: 11.5 Consensus size: 45
17318642 TTAGTCTGCC
* * *
17318652 CCACTGCAATTTCAGGTG-GATAAGACTTGATTTCTTGAGTTTGCT
1 CCACTGCAACTTCAGG-GAGATAAGACTCGATTTCTTGAGTATGCT
* * * * *
17318697 CCACTGGAACTTTAGGGAGCTAAGACTCGCTTTCTTGGGTATGCT
1 CCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTATGCT
* *
17318742 CCACTGCAACTTCAGGGAGATAAGACTCGA-TGC--GA-TCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTATGCT
* * * * ***
17318783 -CTCTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TT-AATCCACT
1 CCACTGCAACTTCAGGGAGATAAGA-CT-CGATTTCTTGAGTATGCT
* * * * * * *
17318826 CCACTGCAACTTCAAGGAGAT-AGAAT-TATTGGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTCGATT-TCTTGAGTATGCT
* * * * * *
17318870 CCACTGCAACTTGAGGGAGATAAGATTCG-TCATCTTCACTCTGC-
1 CCACTGCAACTTCAGGGAGATAAGACTCGAT-TTCTTGAGTATGCT
* * * * * *
17318914 CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTT-AGTATGTT
1 C-CACTGCAACTTCAGGGA-GATAAGACTCGATTTCTTGAGTATGCT
* * *
17318959 CCACTGCAACTTCAGGGAGATAAGACTAGA-TGC--GA-TCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTATGCT
* * * * **
17319000 -CTCTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TT-AATCCGCT
1 CCACTGCAACTTCAGGGAGATAAGA-CT-CGATTTCTTGAGTATGCT
* * * * * * * *
17319043 CCACTGTAACTTTAGGGAGATAGGA-T-TATTGGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTCGATT-TCTTGAGTATGCT
* * *
17319087 CCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTATGCT
17319132 CCACTGCAACTTCAGGGAGATAA
1 CCACTGCAACTTCAGGGAGATAA
17319155 AACCCGATGC
Statistics
Matches: 350, Mismatches: 76, Indels: 64
0.71 0.16 0.13
Matches are distributed among these distances:
40 46 0.13
41 15 0.04
42 12 0.03
43 18 0.05
44 122 0.35
45 134 0.38
46 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTATGCT
Found at i:17318837 original size:44 final size:44
Alignment explanation
Indices: 17318738--17319502 Score: 392
Period size: 44 Copynumber: 17.7 Consensus size: 44
17318728 TTCTTGGGTA
* ***
17318738 TGCTCCACTGCAACTTCAGGGAGATAAGA-CT-CGA-TGCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATC
* *
17318779 TGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATC
** * * **
17318822 CACTCCACTGCAACTTCAAGGAGAT-AGAAT-TATTGGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAG-ATCT-GTGATTTTAATC
* * * *
17318866 TGCTCCACTGCAACTTGAGGGAGATAAGAT-TCGTCATCTTCACTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGAT-TTTAATC
* * * * *
17318911 TGC-CTCACTACAACTTCA-GGAGGATAAG-GCT-TGCTTACTTAGTA
1 TGCTC-CACTGCAACTTCAGGGA-GATAAGATCTGTGATT--TTAATC
* * ***
17318955 TGTTCCACTGCAACTTCAGGGAGATAAGA-CT-AGA-TGCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATC
* *
17318996 TGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATC
* * * * * **
17319039 CGCTCCACTGTAACTTTAGGGAGATAGGAT-TATTGGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGATTTTAATC
**
17319083 TGCTCCACTGCAACTTCAGGGAGATAAGA-CTCGCT--TTCTTGGGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCT-G-TGATT-TT-AATC
* ** ***
17319128 TGCTCCACTGCAACTTCAGGGAGATAA-AAC-CCGA-TGCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATC
* * *
17319169 TGCT-CTCTGCAACTTCAGAGAGATAAGATTTGTGATTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATC
** * * * **
17319212 CACTCCACTACAACTTCAGGGAGATAGGAT-TATTGGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGATTTTAATC
** ** * *
17319256 TGCTCCACTATAACTTCAGGGAGATAAGATTCT-CCATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TCTGTGAT-TTTAATC
* * * *
17319301 TGC-CTCACTACAACTTCA-GGAGGATAAG-GCT-TGCTTACTTAGTC
1 TGCTC-CACTGCAACTTCAGGGA-GATAAGATCTGTGATT--TTAATC
* * * ***
17319345 TGCTTCACTGTAACTTCAGGGAGATAAGA-CT-AGA-TGCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATC
* * *
17319386 TGCT-CTCTGCAACTTTAGAGAGATAAGATCTGTGATTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATC
* * * * * **
17319429 CGCTCCACTGCGACTTCAAGGAGATAGGAT-TATTGGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGATTTTAATC
17319473 TGCTCCACTGCAACTTCAGGGAGATAAGAT
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT
17319503 TCGCCATCTT
Statistics
Matches: 539, Mismatches: 137, Indels: 93
0.70 0.18 0.12
Matches are distributed among these distances:
40 84 0.16
41 28 0.05
42 10 0.02
43 41 0.08
44 282 0.52
45 93 0.17
46 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATC
Found at i:17319008 original size:173 final size:172
Alignment explanation
Indices: 17318829--17319284 Score: 535
Period size: 173 Copynumber: 2.6 Consensus size: 172
17318819 ATCCACTCCA
** * *
17318829 CTGCAACTTCA-AGGAGAT-AGAATTATTGGCTTTAATCTGCTCCACTGCAACTTGAGGGAGATA
1 CTGCAACTTCAGA-GAGATAAG-ATT-TTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
* * * * * *
17318892 AGATTCGTCATCTTCACTCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTT-AGT
63 GGATT-ATCAGCTTCAATCTGCTC-CACTACAACTTCAGGGA-GATAAGACTCGCTTACTTGAGT
* * *
17318954 ATGTTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
125 ATGCTCCACTGCAACTTCAGGGAGATAAAACCAGATGCGATCTGCTCT
* * *
17319002 CTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGTAACTTTAGGGAGATAGG
1 CTGCAACTTCAGAGAGATAAGAT-TTTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGG
** * * * * *
17319067 ATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTGCT
65 ATTATCAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTCGCTTACTTGAGTATGCT
*
17319132 CCACTGCAACTTCAGGGAGATAAAACCCGATGCGATCTGCTCT
130 CCACTGCAACTTCAGGGAGATAAAACCAGATGCGATCTGCTCT
* *
17319175 CTGCAACTTCAGAGAGATAAGATTTGTGATTTTAATCCACTCCACTACAACTTCAGGGAGATAGG
1 CTGCAACTTCAGAGAGATAAGATTT-TGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGG
** * *
17319240 ATTATTGGCTTTAATCTGCTCCACTATAACTTCAGGGAGATAAGA
65 ATTATCAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGA
17319285 TTCTCCATCT
Statistics
Matches: 246, Mismatches: 30, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
172 38 0.15
173 204 0.83
174 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (172 bp):
CTGCAACTTCAGAGAGATAAGATTTTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA
TTATCAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTCGCTTACTTGAGTATGCTC
CACTGCAACTTCAGGGAGATAAAACCAGATGCGATCTGCTCT
Found at i:17319054 original size:84 final size:84
Alignment explanation
Indices: 17318958--17319237 Score: 298
Period size: 84 Copynumber: 3.3 Consensus size: 84
17318948 CTTAGTATGT
17318958 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
17319023 ATCTGTGATTTTAATCCGC
66 ATCTGTGATTTTAATCCGC
* * * * * * * *
17319042 TCCACTGTAACTTTAGGGAGATAGGATTA-TTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAGATAAGACTAGAT-GC---GATCTGCT-CTCTGCAACTTCAGAGAG
** *
17319106 ATAAGA-CTCGCT--TTCTTGGGTCTGC
61 ATAAGATCT-G-TGATT-TT-AATCCGC
* **
17319131 TCCACTGCAACTTCAGGGAGATAAAACCCGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
* *
17319196 ATTTGTGATTTTAATCCAC
66 ATCTGTGATTTTAATCCGC
*
17319215 TCCACTACAACTTCAGGGAGATA
1 TCCACTGCAACTTCAGGGAGATA
17319238 GGATTATTGG
Statistics
Matches: 155, Mismatches: 28, Indels: 26
0.74 0.13 0.12
Matches are distributed among these distances:
83 1 0.01
84 53 0.34
85 25 0.16
86 10 0.06
87 11 0.07
88 25 0.16
89 29 0.19
90 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (84 bp):
TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
ATCTGTGATTTTAATCCGC
Found at i:17319144 original size:217 final size:217
Alignment explanation
Indices: 17318641--17319154 Score: 712
Period size: 217 Copynumber: 2.4 Consensus size: 217
17318631 CATTTGTTTA
* * * * * *
17318641 TTTAGTCTGCCCCACTGCAATTTCAGGTG-GATAAGACTTGATTTCTTGAGTTTGCTCCACTGGA
1 TTTAATCTGCTCCACTGCAACTTCAGG-GAGATAAGACTCG-TTTCTTGAGTCTGCTCCACTGCA
* * * * *
17318705 ACTTTAGGGAGCTAAGACTCGCTTTCTTGGGTATGCTCCACTGCAACTTCAGGGAGATAAGACTC
64 ACTTCAGGGAGATAAGACTCGCTTACTTGAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTA
17318770 GATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAA
129 GATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAA
17318835 CTTCAAGGAGATAGAATTATTGGC
194 CTTCAAGGAGATAGAATTATTGGC
* * * * * *
17318859 TTTAATCTGCTCCACTGCAACTTGAGGGAGATAAGATTCGTCATCTTCACTCTGC-CTCACTACA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGT-TTCTTGAGTCTGCTC-CACTGCA
* * *
17318923 ACTTCA-GGAGGATAAGGCTTGCTTACTT-AGTATGTTCCACTGCAACTTCAGGGAGATAAGACT
64 ACTTCAGGGA-GATAAGACTCGCTTACTTGAGTATGCTCCACTGCAACTTCAGGGAGATAAGACT
* *
17318986 AGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGTA
128 AGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCA
* * *
17319051 ACTTTAGGGAGATAGGATTATTGGC
193 ACTTCAAGGAGATAGAATTATTGGC
*
17319076 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTGCTCCACTGCAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCG-TTTCTTGAGTCTGCTCCACTGCAA
17319141 CTTCAGGGAGATAA
65 CTTCAGGGAGATAA
17319155 AACCCGATGC
Statistics
Matches: 257, Mismatches: 32, Indels: 15
0.85 0.11 0.05
Matches are distributed among these distances:
217 187 0.73
218 70 0.27
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (217 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGTTTCTTGAGTCTGCTCCACTGCAAC
TTCAGGGAGATAAGACTCGCTTACTTGAGTATGCTCCACTGCAACTTCAGGGAGATAAGACTAGA
TGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAACT
TCAAGGAGATAGAATTATTGGC
Found at i:17319151 original size:89 final size:88
Alignment explanation
Indices: 17318738--17319375 Score: 259
Period size: 89 Copynumber: 7.4 Consensus size: 88
17318728 TTCTTGGGTA
* * * * * *
17318738 TGCTCCACTGCAACTTCAGGGAGATAAGACTCG-ATGC-GA-TCTGCT-CTCTGCAACTTCAGAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTAGTCTGCTCCACTACAACTTCAGGG
* * **
17318799 AGATAAGATCT-GTGATTTTAATC
66 AGATAGGAT-TATTGGCTTTAATC
** * * ** * * * *
17318822 CACTCCACTGCAACTTCAAGGAGAT-AGAAT-TATTGGCTTTAATCTGCTCCACTGCAACTTGAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTT-TC-TTAGTCTGCTCCACTACAACTTCAG
* * *** * *
17318885 GGAGATAAGATTCGTCATCTTCACTC
64 GGAGATAGGATT-ATTGGCTTTAATC
* * * * * * *
17318911 TGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTTAGTATGTTCCACTGCAACTTCAG
1 TGCTC-CACTGCAACTTCAGGGA-GATAAGACTCGCTTTCTTAGTCTGCTCCACTACAACTTCAG
* * * *
17318974 GGAGATAAGACTAGAT-GC---GATC
64 GGAGATAGGATTA-TTGGCTTTAATC
* * * * ** *
17318996 TGCT-CTCTGCAACTTCAGAGAGATAAGA-TCTG-TGATT-TTAATCCGCTCCACTGTAACTTTA
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTC-GCT--TTCTTAGTCTGCTCCACTACAACTTCA
17319057 GGGAGATAGGATTATTGGCTTTAATC
63 GGGAGATAGGATTATTGGCTTTAATC
* *
17319083 TGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTGCTCCACTGCAACTTCAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTT-AGTCTGCTCCACTACAACTTCAGG
* *** * ***
17319148 GAGATA--A-AACCCGATGCGATC
65 GAGATAGGATTATTGGCTTTAATC
* * * * * **
17319169 TGCT-CTCTGCAACTTCAGAGAGATAAGATTTG-TGATT-TTAATCCACTCCACTACAACTTCAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTCGCT--TTCTTAGTCTGCTCCACTACAACTTCAG
17319231 GGAGATAGGATTATTGGCTTTAATC
64 GGAGATAGGATTATTGGCTTTAATC
** * * **
17319256 TGCTCCACTATAACTTCAGGGAGATAAGATTCTCCATCTTCAGTCTGC-CTCACTACAACTTCA-
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTT-AGTCTGCTC-CACTACAACTTCAG
* * * *
17319319 GGAGGATAAGGCTTGCTT-AC-TTAGTC
64 GGA-GAT-AGGATT-ATTGGCTTTAATC
* *
17319345 TGCTTCACTGTAACTTCAGGGAGATAAGACT
1 TGCTCCACTGCAACTTCAGGGAGATAAGACT
17319376 AGATGCGATC
Statistics
Matches: 412, Mismatches: 102, Indels: 75
0.70 0.17 0.13
Matches are distributed among these distances:
83 8 0.02
84 100 0.24
85 34 0.08
86 14 0.03
87 28 0.07
88 80 0.19
89 134 0.33
90 10 0.02
91 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (88 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTAGTCTGCTCCACTACAACTTCAGGG
AGATAGGATTATTGGCTTTAATC
Found at i:17319228 original size:217 final size:216
Alignment explanation
Indices: 17318785--17319503 Score: 672
Period size: 217 Copynumber: 3.3 Consensus size: 216
17318775 GATCTGCTCT
* * *
17318785 CTGCAACTTCAGAGAGATAAGATCT-GTGATTTTAATCCACTCCACTGCAACTTCAAGGAGAT-A
1 CTGCAACTTCAGAGAGATAAGAT-TAGTGACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAA
* * * *
17318848 GAATTATTGGCTTTAATCTGCTCCACTGCAACTTGAGGGAGATAAGATTCG-TCATCTTCACTCT
65 G-ATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCT-TTCTT-AGTCT
* * * * * * * * * *
17318912 GC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTTAGTATGTTCCACTGCAACTTCAGG
127 GCTC-CACTGCAACTTCAGGGA-GATAAGACTAG-ATGC-GA-TCTGCT-CTCTGCAACTTCAGA
* *** * *
17318975 GAGATAAGA-CT-AGA-TGCGATCTGCT-CT
186 GAGATAAGATCTGTGATTTTAATCCGCTCCA
* * * *
17319002 CTGCAACTTCAGAGAGATAAGATCT-GTGATTTTAATCCGCTCCACTGTAACTTTAGGGAGATAG
1 CTGCAACTTCAGAGAGATAAGAT-TAGTGACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAA
*
17319066 GATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTGC
65 GATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTT-AGTCTGC
* **
17319131 TCCACTGCAACTTCAGGGAGATAAAACCCGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
129 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
* *
17319196 ATTTGTGATTTTAATCCACTCCA
194 ATCTGTGATTTTAATCCGCTCCA
* * * * * * **
17319219 CTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTATAACTTCAGGGAGATAAG
1 CTGCAACTTCAGAGAGATAAGATTAGTGACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAG
* *** * * * * * *
17319284 ATTCTCCATCTTCAGTCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTTAGTCTG
66 ATTAT-TGGCTTTAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTCGCTTTCTTAGTCTG
* * *
17319347 CTTCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTTAGAGAGATAA
128 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
17319412 GATCTGTGATTTTAATCCGCTCCA
193 GATCTGTGATTTTAATCCGCTCCA
* * * * *
17319436 CTGCGACTTCA-AGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 CTGCAACTTCAGA-GAGATAAGATTAGTGACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAA
17319500 GATT
65 GATT
17319504 CGCCATCTTC
Statistics
Matches: 424, Mismatches: 65, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
213 22 0.05
214 5 0.01
215 3 0.01
216 9 0.02
217 343 0.81
218 42 0.10
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (216 bp):
CTGCAACTTCAGAGAGATAAGATTAGTGACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAG
ATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTAGTCTGCTC
CACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT
CTGTGATTTTAATCCGCTCCA
Found at i:17319317 original size:173 final size:173
Alignment explanation
Indices: 17318916--17319320 Score: 557
Period size: 173 Copynumber: 2.3 Consensus size: 173
17318906 CACTCTGCCT
* * * * *
17318916 CACTACAACTTCA-GGAGGATAAGGCTTG-CTTACTT-AGTATGTTCCACTGCAACTTCAGGGAG
1 CACTACAACTTCAGGGA-GATAAGACTCGCCAT-CTTCAGTCTGCTCCACTGCAACTTCAGGGAG
* * *
17318978 ATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCT
64 ATAAAACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACT
** *
17319043 CCACTGTAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTC
129 CCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTC
* ** **
17319088 CACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTGCTCCACTGCAACTTCAGGGAGAT
1 CACTACAACTTCAGGGAGATAAGACTCGCCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
* *
17319153 AAAACCCGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATTTGTGATTTTAATCCACTCC
66 AAAACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCC
17319218 ACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTC
131 ACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTC
* * * *
17319261 CACTATAACTTCAGGGAGATAAGATTCTCCATCTTCAGTCTGC-CTCACTACAACTTCAGG
1 CACTACAACTTCAGGGAGATAAGACTCGCCATCTTCAGTCTGCTC-CACTGCAACTTCAGG
17319321 AGGATAAGGC
Statistics
Matches: 205, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
172 25 0.12
173 180 0.88
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (173 bp):
CACTACAACTTCAGGGAGATAAGACTCGCCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
AAAACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCC
ACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTC
Found at i:17319412 original size:390 final size:390
Alignment explanation
Indices: 17318693--17319506 Score: 1398
Period size: 390 Copynumber: 2.1 Consensus size: 390
17318683 TTCTTGAGTT
* * *
17318693 TGCTCCACTGGAACTTTAGGGAGCTAAGACTCGCTTTCTTGGGTATGCTCCACTGCAACTTCAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTATGCTCCACTGCAACTTCAGG
* *
17318758 GAGATAAGACTCGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCC
66 GAGATAAAACCCGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCC
* * *
17318823 ACTCCACTGCAACTTCAAGGAGATAGAATTATTGGCTTTAATCTGCTCCACTGCAACTTGAGGGA
131 ACTCCACTACAACTTCAAGGAGATAGAATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGA
17318888 GATAAGATTCGTCATCTTCACTCTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTAG
196 GATAAGATTCGTCATCTTCACTCTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTAG
17318953 TATGTTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
261 TATGTTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
* * *
17319018 ATAAGATCTGTGATTTTAATCCGCTCCACTGTAACTTTAGGGAGATAGGATTATTGGCTTTAATC
326 ATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTTTAATC
*
17319083 TGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTGCTCCACTGCAACTTCAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTATGCTCCACTGCAACTTCAGG
*
17319148 GAGATAAAACCCGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATTTGTGATTTTAATCC
66 GAGATAAAACCCGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCC
* * *
17319213 ACTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTATAACTTCAGGGA
131 ACTCCACTACAACTTCAAGGAGATAGAATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGA
*
17319278 GATAAGATTC-TCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTA
196 GATAAGATTCGT-CATCTTCACTCTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTA
* * *
17319342 GTCTGCTT-CACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTTAGAG
260 GTATG-TTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
*
17319406 AGATAAGATCTGTGATTTTAATCCGCTCCACTGCGACTTCAAGGAGATAGGATTATTGGCTTTAA
324 AGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTTTAA
17319471 TC
389 TC
*
17319473 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTCGC
17319507 CATCTTCAGT
Statistics
Matches: 400, Mismatches: 22, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
389 1 0.00
390 397 0.99
391 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (390 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTATGCTCCACTGCAACTTCAGG
GAGATAAAACCCGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCC
ACTCCACTACAACTTCAAGGAGATAGAATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGA
GATAAGATTCGTCATCTTCACTCTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTAG
TATGTTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
ATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTTTAATC
Found at i:17322980 original size:87 final size:88
Alignment explanation
Indices: 17322709--17323036 Score: 294
Period size: 87 Copynumber: 3.8 Consensus size: 88
17322699 TTTCAAAGTG
*
17322709 AATAAAATTTGGTTT-GGGATTTATTACC-GCCGTTCAACGGATTTTATTCCAATTTTAATTTTA
1 AATAAAATTT-GTTTAGGGATTTATTACCAGACGTTCAACGGATTTTATT-CAATTTTAATTTTA
*
17322772 TTTCCAAAACGAG-TATTAAAATTAA
64 TTTCCAAAACGAGAAATTAAAATT-A
* * * * * * * ** * *
17322797 AATAAAATCTATTTTGAGATTTATTCCCA-TCGTTGAACGGATTTTATTCTTTTTTTATATTATT
1 AATAAAATTTGTTTAGGGATTTATTACCAGACGTTCAACGGATTTTATTCAATTTTAATTTTATT
* *
17322861 TCC-AAATGAGAAATTAAAGTTA
66 TCCAAAACGAGAAATTAAAATTA
* * *
17322883 AATAAAATTTGTTTAGGGATTTATT-CCAGACGTTCAACTGATTTTATT-ACATTTTGATTTTGT
1 AATAAAATTTGTTTAGGGATTTATTACCAGACGTTCAACGGATTTTATTCA-ATTTTAATTTTAT
* *
17322946 TGCCAAAACAAGAAATTAAAATTA
65 TTCCAAAACGAGAAATTAAAATTA
* * ** * * ** *
17322970 AATAAAATTTGTCTAAGGATTTATT-CTTGTCGTTTAAAAAGATTTTATTCAATTTTAATTTTGT
1 AATAAAATTTGTTTAGGGATTTATTACCAGACG-TTCAACGGATTTTATTCAATTTTAATTTTAT
17323034 TTC
65 TTC
17323037 TAAATTAGAA
Statistics
Matches: 193, Mismatches: 39, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
85 3 0.02
86 56 0.29
87 69 0.36
88 64 0.33
89 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (88 bp):
AATAAAATTTGTTTAGGGATTTATTACCAGACGTTCAACGGATTTTATTCAATTTTAATTTTATT
TCCAAAACGAGAAATTAAAATTA
Found at i:17323016 original size:174 final size:171
Alignment explanation
Indices: 17322709--17323080 Score: 378
Period size: 174 Copynumber: 2.2 Consensus size: 171
17322699 TTTCAAAGTG
* *
17322709 AATAAAATTTGGTTT-GGGATTTATTACCGCCGTTCAACGGATTTTATTCCAATTTTAATTTTAT
1 AATAAAATTT-GTTTAGGGATTTATT-CCGACGTTCAACGGATTTTATTACAATTTTAATTTTAT
* * * * * * **
17322773 TTCCAAAACGAGTATTAAAATTAAAATAAAATCTATTTTGAGATTTATTCCCATCGTTGAACGGA
64 TGCCAAAACAAGAATTAAAATTAAAATAAAATCTATTCTAAGATTTATTCCCATCGTTAAAAAGA
** *
17322838 TTTTATTCTTTTTTTATATTATTTCCAAATGAGAAATTAAAGTTA
129 TTTTATTCAATTTTAATATTATTTCCAAATGAG-AATTAAA-TTA
* * *
17322883 AATAAAATTTGTTTAGGGATTTATTCCAGACGTTCAACTGATTTTATTAC-ATTTTGATTTTGTT
1 AATAAAATTTGTTTAGGGATTTATTCC-GACGTTCAACGGATTTTATTACAATTTTAATTTTATT
***
17322947 GCCAAAACAAGAAATTAAAATT-AAATAAAAT-T-TGTCTAAGGATTTATTCTTGTCGTTTAAAA
65 GCCAAAACAAG-AATTAAAATTAAAATAAAATCTAT-TCTAA-GATTTATTCCCATCG-TTAAAA
* * * *
17323009 AGATTTTATTCAATTTTAATTTTGTTTCTAAATTAGAATTAAATTA
126 AGATTTTATTCAATTTTAATATTATTTCCAAATGAGAATTAAATTA
* * *
17323055 AATGAAATCTATTTCA-GGATTTATTC
1 AATAAAATTTGTTT-AGGGATTTATTC
17323081 TCGCTGTTTA
Statistics
Matches: 165, Mismatches: 26, Indels: 16
0.80 0.13 0.08
Matches are distributed among these distances:
171 1 0.01
172 28 0.17
173 56 0.34
174 80 0.48
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (171 bp):
AATAAAATTTGTTTAGGGATTTATTCCGACGTTCAACGGATTTTATTACAATTTTAATTTTATTG
CCAAAACAAGAATTAAAATTAAAATAAAATCTATTCTAAGATTTATTCCCATCGTTAAAAAGATT
TTATTCAATTTTAATATTATTTCCAAATGAGAATTAAATTA
Found at i:17324252 original size:14 final size:14
Alignment explanation
Indices: 17324233--17324260 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
17324223 TTCATTTCAA
17324233 ACTATTGAAAGAAG
1 ACTATTGAAAGAAG
17324247 ACTATTGAAAGAAG
1 ACTATTGAAAGAAG
17324261 CACAGAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
ACTATTGAAAGAAG
Found at i:17331422 original size:30 final size:30
Alignment explanation
Indices: 17331370--17331465 Score: 138
Period size: 30 Copynumber: 3.2 Consensus size: 30
17331360 ATAATAATTT
*
17331370 TTAAAGCCACTCATATCCCCACTAACTCCCA
1 TTAAA-CCACCCATATCCCCACTAACTCCCA
* *
17331401 TTACACCACCCATATCACCACTAACTCCCA
1 TTAAACCACCCATATCCCCACTAACTCCCA
*
17331431 TTAAACCACCTATATCCCCACTAACTCCCA
1 TTAAACCACCCATATCCCCACTAACTCCCA
*
17331461 CTAAA
1 TTAAA
17331466 TCTGATTAGT
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
30 54 0.93
31 4 0.07
ACGTcount: A:0.34, C:0.43, G:0.01, T:0.22
Consensus pattern (30 bp):
TTAAACCACCCATATCCCCACTAACTCCCA
Found at i:17331920 original size:13 final size:13
Alignment explanation
Indices: 17331902--17331960 Score: 68
Period size: 13 Copynumber: 4.5 Consensus size: 13
17331892 CAGACCTAAG
17331902 CTACAGGATGCTA
1 CTACAGGATGCTA
*
17331915 CTACAGTTAT--TGA
1 CTACAG-GATGCT-A
17331928 GCTACAGGATGCTA
1 -CTACAGGATGCTA
17331942 CTACAGGATGCTA
1 CTACAGGATGCTA
17331955 CTACAG
1 CTACAG
17331961 CTATTCGAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 1 0.03
13 28 0.72
14 9 0.23
15 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (13 bp):
CTACAGGATGCTA
Found at i:17333632 original size:71 final size:71
Alignment explanation
Indices: 17333512--17333682 Score: 191
Period size: 71 Copynumber: 2.4 Consensus size: 71
17333502 AAACTTTATT
** * **
17333512 TGATGTTGCTCACTCAAGCTATCAAGAATTCGCAACACGTACTGCATCTCAGCCATCGATAAAGT
1 TGATGTTGCTCACTCAAGCTATTGAGAATTCGCAACACATACTGCATCTCAAACATCGATAAA-T
17333577 -ATAATA
65 AATAATA
* * * ** * *
17333583 TGATGCTGCTCACTTAAGCTATTGAGAATTTGCAACACATGTTGGATCTCAAACATCGCTAAATA
1 TGATGTTGCTCACTCAAGCTATTGAGAATTCGCAACACATACTGCATCTCAAACATCGATAAATA
* *
17333648 ATGATT
66 ATAATA
*
17333654 TGATGTTGCTCACTCAAGCTGTTGAGAAT
1 TGATGTTGCTCACTCAAGCTATTGAGAAT
17333683 CCACAACTTG
Statistics
Matches: 82, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
70 1 0.01
71 81 0.99
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (71 bp):
TGATGTTGCTCACTCAAGCTATTGAGAATTCGCAACACATACTGCATCTCAAACATCGATAAATA
ATAATA
Found at i:17333784 original size:78 final size:78
Alignment explanation
Indices: 17333641--17333789 Score: 199
Period size: 78 Copynumber: 1.9 Consensus size: 78
17333631 TCAAACATCG
* * * *
17333641 CTAAATAATGATTTGATGTTGCTCACTCAAGCTGTTGAGAATCCACAACTTGTGTTAGATCTCAA
1 CTAAATAATAATTCGATGTTGCTCACTCAAGCTGTCGAGAATCCACAACTTATGTTAGATCTCAA
17333706 CCATCGCAGATCA
66 CCATCGCAGATCA
* * * ** * *
17333719 CTAACTAATAATTCGATGTTGTTCACTCAAGTTGTCGAGAATCTGCAATTTATGTTGGATCTCAA
1 CTAAATAATAATTCGATGTTGCTCACTCAAGCTGTCGAGAATCCACAACTTATGTTAGATCTCAA
17333784 CCATCG
66 CCATCG
17333790 AGTAAATCTC
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
78 60 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (78 bp):
CTAAATAATAATTCGATGTTGCTCACTCAAGCTGTCGAGAATCCACAACTTATGTTAGATCTCAA
CCATCGCAGATCA
Found at i:17345111 original size:28 final size:29
Alignment explanation
Indices: 17345053--17345113 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 29
17345043 ATAAATAAAT
17345053 AAATATAATATTAATAAAATTTTATTTTATA
1 AAATATAATATTAAT--AATTTTATTTTATA
* *
17345084 AAATATAATATTAATATTTTTCTTTATATA
1 AAATATAATATTAATAATTTTATTT-TATA
17345114 TTTTTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 8 0.30
30 4 0.15
31 15 0.56
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (29 bp):
AAATATAATATTAATAATTTTATTTTATA
Found at i:17349658 original size:16 final size:16
Alignment explanation
Indices: 17349639--17349669 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17349629 TGGTTTTGCC
17349639 AGTGAAAGGTTGTGAT
1 AGTGAAAGGTTGTGAT
17349655 AGTGAAAGGTTGTGA
1 AGTGAAAGGTTGTGA
17349670 CCTAGTGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.39, T:0.29
Consensus pattern (16 bp):
AGTGAAAGGTTGTGAT
Found at i:17356117 original size:20 final size:22
Alignment explanation
Indices: 17356086--17356126 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
17356076 TTTTGGTTTG
17356086 TAATGCGAATAA-CAAAATTTC
1 TAATGCGAATAATCAAAATTTC
17356107 TAATG-GAATAATCAAAATTT
1 TAATGCGAATAATCAAAATTT
17356127 TAAGAACGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.32
Consensus pattern (22 bp):
TAATGCGAATAATCAAAATTTC
Found at i:17356318 original size:20 final size:20
Alignment explanation
Indices: 17356281--17356318 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17356271 TTTGGTATAT
**
17356281 CAAAATTTCTAATGAAATAA
1 CAAAATTTCTAAACAAATAA
17356301 CAAAATTTCTAAACAAAT
1 CAAAATTTCTAAACAAAT
17356319 TTATTAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (20 bp):
CAAAATTTCTAAACAAATAA
Found at i:17357090 original size:19 final size:16
Alignment explanation
Indices: 17357053--17357085 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
17357043 AATTCAAGTC
17357053 TATTGCAATATCATTT
1 TATTGCAATATCATTT
17357069 TATTGCAATATCATTT
1 TATTGCAATATCATTT
17357085 T
1 T
17357086 TTTATATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (16 bp):
TATTGCAATATCATTT
Found at i:17359005 original size:23 final size:23
Alignment explanation
Indices: 17358975--17359028 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
17358965 ATAGACAGAA
17358975 GATTAACTCGCATATATGTTCAT
1 GATTAACTCGCATATATGTTCAT
17358998 GATTAACTCGCATATATGTTCAT
1 GATTAACTCGCATATATGTTCAT
17359021 GATTAACT
1 GATTAACT
17359029 TCAAATTCGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (23 bp):
GATTAACTCGCATATATGTTCAT
Found at i:17361973 original size:49 final size:49
Alignment explanation
Indices: 17361920--17362039 Score: 195
Period size: 49 Copynumber: 2.4 Consensus size: 49
17361910 CTTCAGGAAT
17361920 GGCACTTGGTGCCCAGGTGTGTTTCAGAGGGATGTTAGCCTACGGGGTA
1 GGCACTTGGTGCCCAGGTGTGTTTCAGAGGGATGTTAGCCTACGGGGTA
* *
17361969 GGCACTTGGTGCCCAGGTGTGTTTTAGAGGTATGTTAGCCTACGGGGTA
1 GGCACTTGGTGCCCAGGTGTGTTTCAGAGGGATGTTAGCCTACGGGGTA
* * *
17362018 AGCACTTAGTGCCTAGGTGTGT
1 GGCACTTGGTGCCCAGGTGTGT
17362040 GCTTGGTTGG
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 66 1.00
ACGTcount: A:0.17, C:0.17, G:0.37, T:0.29
Consensus pattern (49 bp):
GGCACTTGGTGCCCAGGTGTGTTTCAGAGGGATGTTAGCCTACGGGGTA
Found at i:17362901 original size:21 final size:21
Alignment explanation
Indices: 17362877--17362918 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
17362867 GTTTTTGGCA
*
17362877 TGTTTCAAGCTGGTTTAATTT
1 TGTTTCAAGCAGGTTTAATTT
*
17362898 TGTTTTAAGCAGGTTTAATTT
1 TGTTTCAAGCAGGTTTAATTT
17362919 CTGGTAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.07, G:0.19, T:0.52
Consensus pattern (21 bp):
TGTTTCAAGCAGGTTTAATTT
Found at i:17371131 original size:15 final size:15
Alignment explanation
Indices: 17371111--17371141 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
17371101 GTTATGTAAG
17371111 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
17371126 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
17371141 T
1 T
17371142 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:17381509 original size:29 final size:30
Alignment explanation
Indices: 17381435--17381516 Score: 128
Period size: 30 Copynumber: 2.6 Consensus size: 30
17381425 AAAAAATACA
*
17381435 AAAAGAAAATCAAAATGAGTAAAAAAGTATTTG
1 AAAAGAAAA--AAAAT-TGTAAAAAAGTATTTG
17381468 AAAAGAAAAAAAATTGTAAAAAAGTATTTG
1 AAAAGAAAAAAAATTGTAAAAAAGTATTTG
17381498 AAAAGAAAAAAAATTGTAA
1 AAAAGAAAAAAAATTGTAA
17381517 GTGAGATGTA
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
30 34 0.71
31 5 0.10
33 9 0.19
ACGTcount: A:0.65, C:0.01, G:0.13, T:0.21
Consensus pattern (30 bp):
AAAAGAAAAAAAATTGTAAAAAAGTATTTG
Found at i:17381729 original size:18 final size:18
Alignment explanation
Indices: 17381706--17381740 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17381696 ACGATGTGCC
17381706 AAACTATTTTCATGCTTG
1 AAACTATTTTCATGCTTG
*
17381724 AAACTATTTTGATGCTT
1 AAACTATTTTCATGCTT
17381741 CCTGTTCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (18 bp):
AAACTATTTTCATGCTTG
Found at i:17384819 original size:27 final size:27
Alignment explanation
Indices: 17384776--17384920 Score: 161
Period size: 27 Copynumber: 5.4 Consensus size: 27
17384766 TGCGATTCGT
17384776 GGGTAAAATGACCGAAATACCCCAGAA
1 GGGTAAAATGACCGAAATACCCCAGAA
** *
17384803 GGGTAAAATGATTGAAATACCCTTAG-A
1 GGGTAAAATGACCGAAATACCC-CAGAA
* **
17384830 GGGTAAAATGGCCGAAATACCCCCTAA
1 GGGTAAAATGACCGAAATACCCCAGAA
*
17384857 GGGTAAAATGACCGAAATACCTTCA-AA
1 GGGTAAAATGACCGAAATACC-CCAGAA
* **
17384884 GGGTAAAATGACTGAAATACCCC-TTA
1 GGGTAAAATGACCGAAATACCCCAGAA
17384910 GGGTAAAATGA
1 GGGTAAAATGA
17384921 TTGTTATACC
Statistics
Matches: 99, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
26 13 0.13
27 83 0.84
28 3 0.03
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (27 bp):
GGGTAAAATGACCGAAATACCCCAGAA
Found at i:17384845 original size:54 final size:53
Alignment explanation
Indices: 17384776--17384923 Score: 199
Period size: 54 Copynumber: 2.8 Consensus size: 53
17384766 TGCGATTCGT
* *
17384776 GGGTAAAATGACCGAAATACCCCAGAAGGGTAAAATGATTGAAATACCCTT-AGA
1 GGGTAAAATGACCGAAATACCCC-TAAGGGTAAAATGATTGAAATA-CCTTCAAA
* **
17384830 GGGTAAAATGGCCGAAATACCCCCTAAGGGTAAAATGACCGAAATACCTTCAAA
1 GGGTAAAATGACCGAAATA-CCCCTAAGGGTAAAATGATTGAAATACCTTCAAA
* *
17384884 GGGTAAAATGACTGAAATACCCCTTAGGGTAAAATGATTG
1 GGGTAAAATGACCGAAATACCCCTAAGGGTAAAATGATTG
17384924 TTATACCACT
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
53 22 0.27
54 56 0.68
55 4 0.05
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.20
Consensus pattern (53 bp):
GGGTAAAATGACCGAAATACCCCTAAGGGTAAAATGATTGAAATACCTTCAAA
Found at i:17387069 original size:18 final size:18
Alignment explanation
Indices: 17387043--17387096 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
17387033 ACCCTCTTCT
*
17387043 TGAACATAAAAATAAAAA
1 TGAAAATAAAAATAAAAA
** *
17387061 TGAAAATAAACTTAAAAT
1 TGAAAATAAAAATAAAAA
*
17387079 TGAAAACAAAAAATAAAA
1 TGAAAA-TAAAAATAAAA
17387097 CTCCTTTTAG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 20 0.71
19 8 0.29
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.19
Consensus pattern (18 bp):
TGAAAATAAAAATAAAAA
Found at i:17394574 original size:33 final size:33
Alignment explanation
Indices: 17394537--17394658 Score: 129
Period size: 28 Copynumber: 4.0 Consensus size: 33
17394527 GTATTAGTCA
* *
17394537 GGGCCTGAGCCCTATACAGTAACAGTACAGTGT
1 GGGCCTTAGCCCAATACAGTAACAGTACAGTGT
*
17394570 GGGCCTTAGCCCAAAACAGT---A--ACAGTGT
1 GGGCCTTAGCCCAATACAGTAACAGTACAGTGT
17394598 GGGCCTTAGCCCAATACAGT-A-A-T--AGTGT
1 GGGCCTTAGCCCAATACAGTAACAGTACAGTGT
*
17394626 GGGCCTTAGCCCAATACAGTAACTAGTATAGTG
1 GGGCCTTAGCCCAATACAGTAAC-AGTACAGTG
17394659 CAATAATACA
Statistics
Matches: 77, Mismatches: 4, Indels: 15
0.80 0.04 0.16
Matches are distributed among these distances:
28 51 0.66
29 2 0.03
30 1 0.01
31 1 0.01
32 1 0.01
33 17 0.22
34 4 0.05
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (33 bp):
GGGCCTTAGCCCAATACAGTAACAGTACAGTGT
Found at i:17394597 original size:28 final size:28
Alignment explanation
Indices: 17394557--17394648 Score: 150
Period size: 28 Copynumber: 3.3 Consensus size: 28
17394547 CCTATACAGT
17394557 AACAGT-ACAGTGTGGGCCTTAGCCCAA
1 AACAGTAACAGTGTGGGCCTTAGCCCAA
17394584 AACAGTAACAGTGTGGGCCTTAGCCCAA
1 AACAGTAACAGTGTGGGCCTTAGCCCAA
* *
17394612 TACAGTAATAGTGTGGGCCTTAGCCCAA
1 AACAGTAACAGTGTGGGCCTTAGCCCAA
*
17394640 TACAGTAAC
1 AACAGTAAC
17394649 TAGTATAGTG
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
27 6 0.10
28 55 0.90
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.21
Consensus pattern (28 bp):
AACAGTAACAGTGTGGGCCTTAGCCCAA
Found at i:17395156 original size:27 final size:27
Alignment explanation
Indices: 17394974--17395222 Score: 290
Period size: 27 Copynumber: 9.3 Consensus size: 27
17394964 GGGTATAACA
*
17394974 GTCATTTTACCCTAT--ACGGGTATTTCA
1 GTCATTTTACCCT-TCGA-GGGTATTTCG
* * *
17395001 GTTATTTTACCCTTTGGGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
17395028 GTCATTTTACCCTTCG-GGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * * *
17395054 ATCATTTTACCCTTTGGGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
17395081 GTCGTTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
17395108 ATCATTTTACCCTTTGAAGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
17395135 GTCATTTTATCGTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
17395162 ATCATTTTAACCTTC-AGGGGTATTTTG
1 GTCATTTTACCCTTCGA-GGGTATTTCG
17395189 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
17395216 GTCATTT
1 GTCATTT
17395223 GCCCATGAAT
Statistics
Matches: 188, Mismatches: 29, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
26 26 0.14
27 161 0.86
28 1 0.01
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:17414100 original size:14 final size:15
Alignment explanation
Indices: 17414080--17414122 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
17414070 AAGTGACTAA
17414080 AAAAGAAAGAAAAAG
1 AAAAGAAAGAAAAAG
*
17414095 -AAAGAACG-AAAAG
1 AAAAGAAAGAAAAAG
17414108 AAAAGAAATGAAAAA
1 AAAAGAAA-GAAAAA
17414123 TACTCATTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 5 0.22
14 13 0.57
15 1 0.04
16 4 0.17
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (15 bp):
AAAAGAAAGAAAAAG
Found at i:17415254 original size:12 final size:13
Alignment explanation
Indices: 17415231--17415259 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
17415221 ACAAAGTTAG
17415231 TTTTAGGTTTTTA
1 TTTTAGGTTTTTA
17415244 TTTTA-GTTTTTA
1 TTTTAGGTTTTTA
17415256 TTTT
1 TTTT
17415260 CTTTCAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.76
Consensus pattern (13 bp):
TTTTAGGTTTTTA
Found at i:17416019 original size:19 final size:19
Alignment explanation
Indices: 17415995--17416035 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
17415985 TGCATATAAA
17415995 CAAGCCATATTATGGCATC
1 CAAGCCATATTATGGCATC
17416014 CAAGCCATATTATGGCATC
1 CAAGCCATATTATGGCATC
17416033 CAA
1 CAA
17416036 AACAAGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (19 bp):
CAAGCCATATTATGGCATC
Found at i:17431877 original size:29 final size:29
Alignment explanation
Indices: 17431834--17431906 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 29
17431824 AAAGTAGATG
17431834 CCTTGGTGGCTGATTTTGTCATATGAGAAC
1 CCTT-GTGGCTGATTTTGTCATATGAGAAC
*
17431864 CCTTGTGGCTGATTTTGTCATATGAGAGC
1 CCTTGTGGCTGATTTTGTCATATGAGAAC
* *
17431893 CTTTGTGGTTGATT
1 CCTTGTGGCTGATT
17431907 CTGTTAAATG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 36 0.90
30 4 0.10
ACGTcount: A:0.16, C:0.15, G:0.27, T:0.41
Consensus pattern (29 bp):
CCTTGTGGCTGATTTTGTCATATGAGAAC
Found at i:17432690 original size:19 final size:19
Alignment explanation
Indices: 17432657--17432696 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
17432647 ATTTGCATAC
17432657 AGAGGAAGAATG-AAAGAA
1 AGAGGAAGAATGAAAAGAA
*
17432675 AGAGGAAAGCATGAAAAGAA
1 AGAGG-AAGAATGAAAAGAA
17432695 AG
1 AG
17432697 CTATATGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 6 0.32
20 8 0.42
ACGTcount: A:0.60, C:0.03, G:0.33, T:0.05
Consensus pattern (19 bp):
AGAGGAAGAATGAAAAGAA
Found at i:17434466 original size:16 final size:16
Alignment explanation
Indices: 17434436--17434473 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
17434426 AATTAATTGG
*
17434436 TTTATT-GTTATTATT
1 TTTATTAGTCATTATT
17434451 TTTATTAGTCATTATT
1 TTTATTAGTCATTATT
17434467 TTTATTA
1 TTTATTA
17434474 TTATTAGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (16 bp):
TTTATTAGTCATTATT
Found at i:17434477 original size:22 final size:22
Alignment explanation
Indices: 17434450--17434500 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
17434440 TTGTTATTAT
17434450 TTTTATTAGTCATTAT-TTTTA
1 TTTTATTAGTCATTATATTTTA
* *
17434471 TTATTATTAGTCTTTTTATTTTA
1 TT-TTATTAGTCATTATATTTTA
17434494 TTTTATT
1 TTTTATT
17434501 TTTCCTCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 2 0.08
22 17 0.65
23 7 0.27
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.71
Consensus pattern (22 bp):
TTTTATTAGTCATTATATTTTA
Found at i:17434854 original size:2 final size:2
Alignment explanation
Indices: 17434847--17434875 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17434837 TATTTTTACT
17434847 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17434876 TACTATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17439675 original size:6 final size:6
Alignment explanation
Indices: 17439666--17439691 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
17439656 AACAAAAAAG
17439666 AAGAAA AAGAAA AAGAAA AAGAAA AA
1 AAGAAA AAGAAA AAGAAA AAGAAA AA
17439692 TTAAAGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:17439721 original size:18 final size:18
Alignment explanation
Indices: 17439666--17439722 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
17439656 AACAAAAAAG
* *
17439666 AAGAAAAAGAAAAAGAAA
1 AAGAAAATGAAAATGAAA
* * *
17439684 AAGAAAAATTAAAGTTAAA
1 AAG-AAAATGAAAATGAAA
*
17439703 ATGAAAATGAAAATGAAA
1 AAGAAAATGAAAATGAAA
17439721 AA
1 AA
17439723 AGAGAGAAGG
Statistics
Matches: 28, Mismatches: 10, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
18 16 0.57
19 12 0.43
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (18 bp):
AAGAAAATGAAAATGAAA
Found at i:17440617 original size:14 final size:14
Alignment explanation
Indices: 17440600--17440644 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
17440590 AAAAAAAAGA
17440600 GGAAAAATGAAAAT
1 GGAAAAATGAAAAT
*
17440614 GG-AAAATGAAAAA
1 GGAAAAATGAAAAT
*
17440627 GGAAAAAGTAAAAAT
1 GGAAAAA-TGAAAAT
17440642 GGA
1 GGA
17440645 GAGGCTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 12 0.46
14 6 0.23
15 8 0.31
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.11
Consensus pattern (14 bp):
GGAAAAATGAAAAT
Found at i:17440751 original size:21 final size:21
Alignment explanation
Indices: 17440727--17440797 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
17440717 GCTCAAATAT
17440727 TGATCAGAATGGGGCATGAAA
1 TGATCAGAATGGGGCATGAAA
*** *
17440748 TGATCAG-A-GCAAC-TCGAATC
1 TGATCAGAATGGGGCAT-GAA-A
17440768 TTGATCAGAATGGGGCATGAAA
1 T-GATCAGAATGGGGCATGAAA
17440790 TGATCAGA
1 TGATCAGA
17440798 GCAACTTGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
18 1 0.03
19 5 0.14
20 2 0.06
21 20 0.56
22 2 0.06
23 5 0.14
24 1 0.03
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (21 bp):
TGATCAGAATGGGGCATGAAA
Found at i:17440773 original size:42 final size:42
Alignment explanation
Indices: 17440726--17440829 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
17440716 GGCTCAAATA
17440726 TTGATCAGAATGGGGCATGAAATGATCAGAGCAACTCGAATC
1 TTGATCAGAATGGGGCATGAAATGATCAGAGCAACTCGAATC
*
17440768 TTGATCAGAATGGGGCATGAAATGATCAGAGCAACTTGAATC
1 TTGATCAGAATGGGGCATGAAATGATCAGAGCAACTCGAATC
* *
17440810 TTGATAAAGATTGGGGCATG
1 TTGAT-CAGAATGGGGCATG
17440830 TGGTAATCTT
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
42 46 0.79
43 12 0.21
ACGTcount: A:0.35, C:0.13, G:0.28, T:0.24
Consensus pattern (42 bp):
TTGATCAGAATGGGGCATGAAATGATCAGAGCAACTCGAATC
Found at i:17442020 original size:45 final size:45
Alignment explanation
Indices: 17441971--17442106 Score: 109
Period size: 44 Copynumber: 3.1 Consensus size: 45
17441961 GGAGCAGGTT
17441971 GAAGATAGCAGATCTTGCCTTCCTGCGCTGAAAGCTAAGCAGATC
1 GAAGATAGCAGATCTTGCCTTCCTGCGCTGAAAGCTAAGCAGATC
* * * * * * * * *
17442016 GAAGATACCAG-CCTTACCTCCCT-CGGTTGCAA--TGGAGCAGGTT
1 GAAGATAGCAGATCTTGCCTTCCTGC-GCTGAAAGCT-AAGCAGATC
* * * *
17442059 AAAGATAGCAGATCTTGCCTTCCTGCACTGAGAGCGAAGCAGATC
1 GAAGATAGCAGATCTTGCCTTCCTGCGCTGAAAGCTAAGCAGATC
17442104 GAA
1 GAA
17442107 CACACAAGTT
Statistics
Matches: 62, Mismatches: 23, Indels: 12
0.64 0.24 0.12
Matches are distributed among these distances:
42 1 0.02
43 16 0.26
44 26 0.42
45 19 0.31
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGCCTTCCTGCGCTGAAAGCTAAGCAGATC
Found at i:17442076 original size:88 final size:88
Alignment explanation
Indices: 17441927--17442904 Score: 1225
Period size: 88 Copynumber: 11.1 Consensus size: 88
17441917 CAGTGAAGAC
* * * *
17441927 CGAAGATACCAGCCTTGCCTCCCTCAGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTT
1 CGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTT
* *
17441992 CCTGCGCTGAAAGCTAAGCAGAT
66 CCTGCACTGAAAGCGAAGCAGAT
* * * * * *
17442015 CGAAGATACCAGCCTTACCTCCCTCGGTTGCAATGGAGCAGGTTAAAGATAGCAGATCTTGCCTT
1 CGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTT
*
17442080 CCTGCACTGAGAGCGAAGCAGAT
66 CCTGCACTGAAAGCGAAGCAGAT
* ** * *
17442103 CGAACACACAAGTTTTGCCTCCCTCTGTTGTAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTT
1 CGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTT
* * *
17442168 CCTACA-TCGACAGCGAAGCAAAT
66 CCTGCACT-GAAAGCGAAGCAGAT
*
17442191 CGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCAT
1 CGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTT
* * *
17442256 CTTGTACTG-ACGACGAAGCAGAT
66 CCTGCACTGAAAG-CGAAGCAGAT
* * * * *
17442279 CGAAGACACAAGCCTTGCCTCCCTCGATTGCAGTGGAGAAGGTTGAATATAGTAGATCTTGCCTT
1 CGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTT
* * *
17442344 CCTGCGCTGACAGCAAAGCAGAT
66 CCTGCACTGAAAGCGAAGCAGAT
* * * *
17442367 CGAAGATACAAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTAAAGATAACAGATCTTGCCTT
1 CGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTT
* * * *
17442432 CCTGTACT-AACGGTGAAGTAGAT
66 CCTGCACTGAA-AGCGAAGCAGAT
* *
17442455 CGAAGACACAAGCCTTGCCTCCCTCAGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCAT
1 CGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTT
* * *
17442520 CTTGTACTG-ACGACGAAGCAGAT
66 CCTGCACTGAAAG-CGAAGCAGAT
* * *
17442543 CGAAGACACAAGCCTTGCCACCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTACCTT
1 CGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTT
* *
17442608 CCTGTACT-AACGGCGAAGCAGAT
66 CCTGCACTGAA-AGCGAAGCAGAT
* * *
17442631 CGAAGACACAAGCCTTG-CTCTCTCGGTTGTCGTGGAGCAGGTTGAAGATAGCAGATATTGCCTT
1 CGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTT
* * * *
17442695 CCTGCATTGACAGTGAAGCAAAT
66 CCTGCACTGAAAGCGAAGCAGAT
* *
17442718 TGAAAACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTT
1 CGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTT
*
17442783 CCTGCA-TCGACAGCGAAGCAGAT
66 CCTGCACT-GAAAGCGAAGCAGAT
* * * *
17442806 CAAAAACA-AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTAAAGATAACAGATCTTGCCTT
1 CGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTT
* * *
17442870 CCTACATTGACAGCGAAGCAGAT
66 CCTGCACTGAAAGCGAAGCAGAT
*
17442893 CGAAGATACAAG
1 CGAAGACACAAG
17442905 TCCTATCTCC
Statistics
Matches: 773, Mismatches: 103, Indels: 28
0.86 0.11 0.03
Matches are distributed among these distances:
87 155 0.20
88 615 0.80
89 3 0.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.23
Consensus pattern (88 bp):
CGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTT
CCTGCACTGAAAGCGAAGCAGAT
Found at i:17442899 original size:45 final size:44
Alignment explanation
Indices: 17442762--17442900 Score: 106
Period size: 45 Copynumber: 3.2 Consensus size: 44
17442752 GGAGCAGGTT
* *
17442762 GAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
1 GAAGATAACAGATCTTGCCTTCCT-CATTGACAGCGAAGCAGATC
* * * * * * * * *
17442807 -AA-A-AACAAAGCCTTGCCTCCCTCGGTTG-TAGTGGAGCAGGTT
1 GAAGATAACAGA-TCTTGCCTTCCTC-ATTGACAGCGAAGCAGATC
*
17442849 AAAGATAACAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATC
1 GAAGATAACAGATCTTGCCTTCCT-CATTGACAGCGAAGCAGATC
17442894 GAAGATA
1 GAAGATA
17442901 CAAGTCCTAT
Statistics
Matches: 66, Mismatches: 21, Indels: 14
0.65 0.21 0.14
Matches are distributed among these distances:
42 14 0.21
43 15 0.23
44 16 0.24
45 21 0.32
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.22
Consensus pattern (44 bp):
GAAGATAACAGATCTTGCCTTCCTCATTGACAGCGAAGCAGATC
Found at i:17443055 original size:128 final size:128
Alignment explanation
Indices: 17442900--17443171 Score: 436
Period size: 128 Copynumber: 2.1 Consensus size: 128
17442890 GATCGAAGAT
* * * * *
17442900 ACAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATTTTGTCTCCCTAAGC
1 ACAAGTCCTATCTCCCTGGTCAACAGTGGAATAGGTTAGAAATCACAGATCTTATCTCCCTAAGC
* *
17442965 AGTAGCGGAGCAGATCGAAGATGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCC
66 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTAGCTTCAAGAGTAAGGAAGCAGATTTAAGCC
*
17443028 ACAAGTCTTATCTCCCTGGTCAACAGTGGAATAGGTTAGAAATCACAGATCTTATCTCCCTAAGC
1 ACAAGTCCTATCTCCCTGGTCAACAGTGGAATAGGTTAGAAATCACAGATCTTATCTCCCTAAGC
* * *
17443093 AGTAGCGGAGCAGATCGGAGACGGCGAATCTTAGCTTCAAGAGTAGGGAAGCAGATTTAGGCC
66 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTAGCTTCAAGAGTAAGGAAGCAGATTTAAGCC
*
17443156 ACAAATCCTATCTCCC
1 ACAAGTCCTATCTCCC
17443172 ACACGTTGCG
Statistics
Matches: 131, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
128 131 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (128 bp):
ACAAGTCCTATCTCCCTGGTCAACAGTGGAATAGGTTAGAAATCACAGATCTTATCTCCCTAAGC
AGTAGCGGAGCAGATCGAAGACGGCGAATCTTAGCTTCAAGAGTAAGGAAGCAGATTTAAGCC
Found at i:17444571 original size:16 final size:16
Alignment explanation
Indices: 17444541--17444578 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
17444531 AATTAATTGG
*
17444541 TTTATT-GTTATTATT
1 TTTATTAGTCATTATT
17444556 TTTATTAGTCATTATT
1 TTTATTAGTCATTATT
*
17444572 ATTATTA
1 TTTATTA
17444579 TTATTAGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (16 bp):
TTTATTAGTCATTATT
Found at i:17444572 original size:3 final size:3
Alignment explanation
Indices: 17444542--17444584 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
17444532 ATTAATTGGT
* * *
17444542 TTA TTG TTA TTA TTT TTA TTA GTCA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
17444585 GTCCTTTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
3 31 0.94
4 2 0.06
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:17444576 original size:22 final size:21
Alignment explanation
Indices: 17444548--17444605 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
17444538 TGGTTTATTG
17444548 TTATTATTTTTATTAGTCATT
1 TTATTATTTTTATTAGTCATT
* *
17444569 ATTATTATTATTATTAGTCCTT
1 -TTATTATTTTTATTAGTCATT
*
17444591 TTATTTTATTTTATT
1 TTATTAT-TTTTATT
17444606 TTTCCTCTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 6 0.19
22 25 0.81
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.67
Consensus pattern (21 bp):
TTATTATTTTTATTAGTCATT
Found at i:17445154 original size:5 final size:5
Alignment explanation
Indices: 17445144--17445181 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
17445134 TCATATTATT
17445144 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
17445182 GTAATCAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:17455663 original size:9 final size:9
Alignment explanation
Indices: 17455649--17455685 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
17455639 TATAGTTTGA
17455649 TATTCGAAT
1 TATTCGAAT
17455658 TATTCGAAT
1 TATTCGAAT
*
17455667 TATTCGAGT
1 TATTCGAAT
17455676 TATTCGAAT
1 TATTCGAAT
17455685 T
1 T
17455686 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:17476644 original size:231 final size:232
Alignment explanation
Indices: 17476237--17476698 Score: 845
Period size: 231 Copynumber: 2.0 Consensus size: 232
17476227 CAGGGGGTAG
*
17476237 GGGTTGAGCCAATGTGATAGCATCGAAAATACACAGCATGACACTTCACCATATACCATATTTTT
1 GGGTTGAGCCAATGTGATAGCATCGAAAATACACAACATGACACTTCACCATATACCATATTTTT
17476302 GTTAAAAGGGGTTTATGCTTTTGGGGGCTATTTTCTTTATTTTATTTTGGATTACCATGACTATC
66 GTTAAAAGGGGTTTATGCTTTTGGGGGCTATTTTCTTTATTTTATTTTGGATTACCATGACTATC
*
17476367 TTTAACTTATGTGTTGTTTTATAATCTTAAAAATTAAATGCTGAAAACTAACTACTAAAGAGATA
131 TTTAACTTATGTGTTGTTTTATAATCTTAAAAATTAAATGCTGAAAACTAAATACTAAAGAGATA
** *
17476432 ATTACTGAATTTGAATTATCAACATTGTTTAGTATAA
196 AGCACTGAATTTAAATTATCAACATTGTTTAGTATAA
*
17476469 GGGTTGAGCCAATGTGATTGCATCGAAAATACACAACATGACACTTCACCATATACCATATTTTT
1 GGGTTGAGCCAATGTGATAGCATCGAAAATACACAACATGACACTTCACCATATACCATATTTTT
17476534 GTTAAAAGGGGTTTATGCTTTT-GGGGCTATTTTCTTTATTTTATTTTGGATTACCATGACTATC
66 GTTAAAAGGGGTTTATGCTTTTGGGGGCTATTTTCTTTATTTTATTTTGGATTACCATGACTATC
* *
17476598 TTTAACTTATGTGTTGTTTTATAATCTTAAAAATTAAATGCTGAAAACTAAATACTAAATATATA
131 TTTAACTTATGTGTTGTTTTATAATCTTAAAAATTAAATGCTGAAAACTAAATACTAAAGAGATA
17476663 AGCACTGAATTTAAATTATCAACATTGTTTAGTATA
196 AGCACTGAATTTAAATTATCAACATTGTTTAGTATA
17476699 TTACTAAAAC
Statistics
Matches: 222, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
231 137 0.62
232 85 0.38
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (232 bp):
GGGTTGAGCCAATGTGATAGCATCGAAAATACACAACATGACACTTCACCATATACCATATTTTT
GTTAAAAGGGGTTTATGCTTTTGGGGGCTATTTTCTTTATTTTATTTTGGATTACCATGACTATC
TTTAACTTATGTGTTGTTTTATAATCTTAAAAATTAAATGCTGAAAACTAAATACTAAAGAGATA
AGCACTGAATTTAAATTATCAACATTGTTTAGTATAA
Found at i:17484658 original size:16 final size:17
Alignment explanation
Indices: 17484637--17484669 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17484627 TTGGCCTCAG
17484637 GGCAAAA-AATTAATTT
1 GGCAAAATAATTAATTT
*
17484653 GGCAAAATCATTAATTT
1 GGCAAAATAATTAATTT
17484670 ATTTTGGCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.33
Consensus pattern (17 bp):
GGCAAAATAATTAATTT
Found at i:17487643 original size:17 final size:17
Alignment explanation
Indices: 17487608--17487655 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
17487598 AATTGTAATA
**
17487608 TAAATTTTTAAAATCTT
1 TAAATTTTTAATTTCTT
*
17487625 TAAATTTTTAATTTTTT
1 TAAATTTTTAATTTCTT
*
17487642 TAATTTTTTGAATT
1 TAAATTTTT-AATT
17487656 ATTTATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TAAATTTTTAATTTCTT
Found at i:17494855 original size:54 final size:54
Alignment explanation
Indices: 17494782--17494926 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
17494772 TCGTGACCTT
* *
17494782 TTATGAGATTTTCAAAATCTCGCGGTTTGTCGATTTTTGATCACAACCTCCTAC
1 TTATGAGATTTTTAAAATCTCGCGGTTTGTCGATTTATGATCACAACCTCCTAC
* *
17494836 TTATGAGATTTTTAGAATCTCGCGGTTTGTCGATTTATGATCACAACCTTCTAC
1 TTATGAGATTTTTAAAATCTCGCGGTTTGTCGATTTATGATCACAACCTCCTAC
** *
17494890 TTATGAGATTTTTAAAATCTTACGGTTTGCCGATTTA
1 TTATGAGATTTTTAAAATCTCGCGGTTTGTCGATTTA
17494927 CAATCGCAAC
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 83 1.00
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (54 bp):
TTATGAGATTTTTAAAATCTCGCGGTTTGTCGATTTATGATCACAACCTCCTAC
Found at i:17495348 original size:24 final size:24
Alignment explanation
Indices: 17495321--17495405 Score: 82
Period size: 24 Copynumber: 3.6 Consensus size: 24
17495311 GCACAACCAC
* *
17495321 CATAATTTTCTACTGTACAGTTCG
1 CATAATTTTCTACTGCAAAGTTCG
** * *
17495345 CATAATTTT-TGTTGCAAAGCTAG
1 CATAATTTTCTACTGCAAAGTTCG
* * *
17495368 TATAATTTTCTAATGCATAGTTCG
1 CATAATTTTCTACTGCAAAGTTCG
17495392 CATAATTTTCTACT
1 CATAATTTTCTACT
17495406 ACTAGCATAA
Statistics
Matches: 46, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
23 16 0.35
24 30 0.65
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (24 bp):
CATAATTTTCTACTGCAAAGTTCG
Found at i:17495373 original size:47 final size:47
Alignment explanation
Indices: 17495291--17495400 Score: 132
Period size: 47 Copynumber: 2.3 Consensus size: 47
17495281 TCTATTGATG
* * *
17495291 AGTTCACATAATTTTTTGTTGCACAACCACCATAATTTTCTACTGTAC
1 AGTTCGCATAA-TTTTTGTTGCACAACCACCATAATTTTCTAATGCAC
* ** *
17495339 AGTTCGCATAATTTTTGTTGCA-AAGCTAGTATAATTTTCTAATGCAT
1 AGTTCGCATAATTTTTGTTGCACAA-CCACCATAATTTTCTAATGCAC
17495386 AGTTCGCATAATTTT
1 AGTTCGCATAATTTT
17495401 CTACTACTAG
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
46 2 0.04
47 42 0.78
48 10 0.19
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (47 bp):
AGTTCGCATAATTTTTGTTGCACAACCACCATAATTTTCTAATGCAC
Found at i:17497489 original size:180 final size:171
Alignment explanation
Indices: 17497204--17497579 Score: 409
Period size: 171 Copynumber: 2.1 Consensus size: 171
17497194 TGGATGAGTC
*
17497204 TAAGAAGCAGTTGGATTCTGAAGGTGGACGGATAGACAACATTAGCGGTGAGAATTTACCCGAGG
1 TAAGAAGCAGTTGGATTCTGAAGGTGGAC-G--AGACAACAGTAGCGGTGAGAATTTACCCGAGG
** * * * *
17497269 ATGTGAGGAAAGAGGGCTCGAATGCGAGTCTGGCTAAAGATGACGTAACTGCCAGCTTAAATACA
63 ATGCCACGAAAGAGGGCTCGAATGCGAGTCCGGATAAAGAT---G--A-TGCCAACTTAAATACA
* * * **
17497334 CAAGAAAACAAAGAGAATAGTGAAGAGAGTAAGTTGGATGAGTCTAAGGAGGA
122 CAAGAAAAC-AAGA-AA-ACTGAAGAGAGCAAGTTGGATGAATCTAAAAAGGA
17497387 TAAGAAGCAGTTGGATTCTGAAGGTGGAC-AGACAAGCAGTAGTC-GTGAGAATTTACCCGAGCG
1 TAAGAAGCAGTTGGATTCTGAAGGTGGACGAGACAA-CAGTAG-CGGTGAGAATTTACCCGAG-G
* ** * * *
17497450 -TGCCTCGAAAG-GGGACTCGAATTTGAGTCCGGATAAAGATGATGGCAATTTAAATACGCAAGA
63 ATGCCACGAAAGAGGG-CTCGAATGCGAGTCCGGATAAAGATGATGCCAACTTAAATACACAAGA
17497513 AAACAAGAAAACTGAAGAGAGCAAGTTGGATGAATCTAAAAAGGA
127 AAACAAGAAAACTGAAGAGAGCAAGTTGGATGAATCTAAAAAGGA
*
17497558 TACGAAGCAGTTGGATTCTGAA
1 TAAGAAGCAGTTGGATTCTGAA
17497580 AGTAGAGAGA
Statistics
Matches: 170, Mismatches: 19, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
171 51 0.30
172 2 0.01
173 4 0.02
174 21 0.12
175 1 0.01
177 1 0.01
179 9 0.05
180 50 0.29
181 2 0.01
183 29 0.17
ACGTcount: A:0.38, C:0.13, G:0.30, T:0.20
Consensus pattern (171 bp):
TAAGAAGCAGTTGGATTCTGAAGGTGGACGAGACAACAGTAGCGGTGAGAATTTACCCGAGGATG
CCACGAAAGAGGGCTCGAATGCGAGTCCGGATAAAGATGATGCCAACTTAAATACACAAGAAAAC
AAGAAAACTGAAGAGAGCAAGTTGGATGAATCTAAAAAGGA
Found at i:17517377 original size:28 final size:28
Alignment explanation
Indices: 17517296--17517401 Score: 106
Period size: 28 Copynumber: 3.8 Consensus size: 28
17517286 TCACAACCAT
* * * *
17517296 CGGTACTTAGTACTTGGAATTGTAACCAC
1 CGGTACATAGTACCTGGAACTG-AAACAC
* *
17517325 CGGCACAGT-GTGCCTGGAACTGAAACAC
1 CGGTACA-TAGTACCTGGAACTGAAACAC
* * *
17517353 TGGTACGTAGTACCTGAAACTGAAACAC
1 CGGTACATAGTACCTGGAACTGAAACAC
17517381 CGGTACATAGTACCTGGAACT
1 CGGTACATAGTACCTGGAACT
17517402 TTAATTATTG
Statistics
Matches: 61, Mismatches: 14, Indels: 5
0.76 0.17 0.06
Matches are distributed among these distances:
27 1 0.02
28 44 0.72
29 15 0.25
30 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.23
Consensus pattern (28 bp):
CGGTACATAGTACCTGGAACTGAAACAC
Found at i:17529467 original size:22 final size:21
Alignment explanation
Indices: 17529427--17529467 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
17529417 GGTCAAGCAC
17529427 TATTTTGTTGTTTTATGTTCT
1 TATTTTGTTGTTTTATGTTCT
17529448 TATTGTTGTGTGTTTT-TGTT
1 TATT-TTGT-TGTTTTATGTT
17529468 TTGTTGCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 8 0.44
23 6 0.33
ACGTcount: A:0.07, C:0.02, G:0.20, T:0.71
Consensus pattern (21 bp):
TATTTTGTTGTTTTATGTTCT
Found at i:17531901 original size:16 final size:18
Alignment explanation
Indices: 17531874--17531906 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
17531864 TGGAATTGGG
17531874 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
17531891 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
17531907 TATAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:17535334 original size:21 final size:20
Alignment explanation
Indices: 17535301--17535339 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
17535291 AATATACGTC
17535301 TGTTTGTCAGAACATTTTGTT
1 TGTTTGTCAGAAC-TTTTGTT
**
17535322 TGTTTGTGTGAACTTTTG
1 TGTTTGTCAGAACTTTTG
17535340 GTTATTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.15, C:0.08, G:0.23, T:0.54
Consensus pattern (20 bp):
TGTTTGTCAGAACTTTTGTT
Found at i:17545884 original size:24 final size:25
Alignment explanation
Indices: 17545857--17545904 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 25
17545847 TGAGTTATAG
17545857 ACCTTTTCATTT-ATATCCTTTTCA
1 ACCTTTTCATTTGATATCCTTTTCA
17545881 ACCTTTTCATTTGATATCCTTTTC
1 ACCTTTTCATTTGATATCCTTTTC
17545905 GGATAACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.19, C:0.25, G:0.02, T:0.54
Consensus pattern (25 bp):
ACCTTTTCATTTGATATCCTTTTCA
Found at i:17553860 original size:3 final size:3
Alignment explanation
Indices: 17553852--17553886 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
17553842 ATCTCCCCTC
17553852 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
17553887 TATATCCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:17560203 original size:12 final size:12
Alignment explanation
Indices: 17560171--17560203 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
17560161 TTGCGGTTGA
17560171 AAAATGCTTTTC
1 AAAATGCTTTTC
17560183 AAAAGTGCTTTTC
1 AAAA-TGCTTTTC
17560196 AAAATGCT
1 AAAATGCT
17560204 GTGAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (12 bp):
AAAATGCTTTTC
Found at i:17562802 original size:49 final size:49
Alignment explanation
Indices: 17562697--17562795 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
17562687 GCTACTTATA
* * *
17562697 ATGATTAAAATATTCGAATTTGAATATGCAGTTTTCACATCAAATCCCT
1 ATGATTAAAATATTCGAATTTGAATATGCAATATTCACACCAAATCCCT
17562746 ATGATTAAAATATTCGAATTTGAATATGCAATATTCACACCAAATCCCT
1 ATGATTAAAATATTCGAATTTGAATATGCAATATTCACACCAAATCCCT
17562795 A
1 A
17562796 GCATTAATGG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.34
Consensus pattern (49 bp):
ATGATTAAAATATTCGAATTTGAATATGCAATATTCACACCAAATCCCT
Found at i:17579490 original size:49 final size:49
Alignment explanation
Indices: 17579425--17579523 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
17579415 CCATTAATGC
* * *
17579425 TAGGGATTTGGTGTGAATATTGCATATTCAAATTCGAATATTTTAATCA
1 TAGGGATTTGATGTGAAAACTGCATATTCAAATTCGAATATTTTAATCA
17579474 TAGGGATTTGATGTGAAAACTGCATATTCAAATTCGAATATTTTAATCA
1 TAGGGATTTGATGTGAAAACTGCATATTCAAATTCGAATATTTTAATCA
17579523 T
1 T
17579524 TATAAGTAGC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.39
Consensus pattern (49 bp):
TAGGGATTTGATGTGAAAACTGCATATTCAAATTCGAATATTTTAATCA
Found at i:17583901 original size:49 final size:49
Alignment explanation
Indices: 17583796--17583894 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
17583786 GCTACTTATA
* * *
17583796 ATGATTAAAATATTCGAATTTGAATATGCAGTTTTCACATCAAATCCCT
1 ATGATTAAAATATTCGAATTTGAATATGCAATATTCACACCAAATCCCT
17583845 ATGATTAAAATATTCGAATTTGAATATGCAATATTCACACCAAATCCCT
1 ATGATTAAAATATTCGAATTTGAATATGCAATATTCACACCAAATCCCT
17583894 A
1 A
17583895 GCATTAATGG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.34
Consensus pattern (49 bp):
ATGATTAAAATATTCGAATTTGAATATGCAATATTCACACCAAATCCCT
Found at i:17585755 original size:18 final size:19
Alignment explanation
Indices: 17585728--17585766 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
17585718 TCATGTCAAC
*
17585728 AAATAATTTAA-AATTAAA
1 AAATAATTTAAGAAATAAA
*
17585746 AAATATTTTAAGAAATAAA
1 AAATAATTTAAGAAATAAA
17585765 AA
1 AA
17585767 TAAAAATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
AAATAATTTAAGAAATAAA
Found at i:17585788 original size:24 final size:25
Alignment explanation
Indices: 17585735--17585795 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
17585725 AACAAATAAT
* **
17585735 TTAAAATTAAAAAATATTTTAAGAAA
1 TTAAAAAT-AAAAATATCATAAGAAA
17585761 -TAAAAATAAAAATATCATAA-AAA
1 TTAAAAATAAAAATATCATAAGAAA
17585784 TTAAAAATAAAA
1 TTAAAAATAAAA
17585796 CAAGCACATG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 3 0.10
24 22 0.71
25 6 0.19
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (25 bp):
TTAAAAATAAAAATATCATAAGAAA
Found at i:17587901 original size:28 final size:28
Alignment explanation
Indices: 17587869--17587932 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
17587859 TTATTTTAAT
*
17587869 TTTTTTAATTTTTA-ACTTTTTATAT-A
1 TTTTTTAATTTTTATACTTTTTAAATAA
*
17587895 TTCTTTTGAATTTTTATATTTTTTAAATAA
1 TT-TTTT-AATTTTTATACTTTTTAAATAA
17587925 TTTTTTAA
1 TTTTTTAA
17587933 AGCTTTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 2 0.06
27 4 0.12
28 10 0.31
29 13 0.41
30 3 0.09
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (28 bp):
TTTTTTAATTTTTATACTTTTTAAATAA
Found at i:17588090 original size:18 final size:18
Alignment explanation
Indices: 17588055--17588090 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17588045 ACACCAATTT
*
17588055 ATTATTTGAGTTAATCGA
1 ATTATTTGAATTAATCGA
*
17588073 ATTATTTGAATTATTCGA
1 ATTATTTGAATTAATCGA
17588091 GTTGTCAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (18 bp):
ATTATTTGAATTAATCGA
Found at i:17589423 original size:29 final size:28
Alignment explanation
Indices: 17589381--17589436 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
17589371 CAATAATTTT
*
17589381 TATAATTTCTTTCT-ATTTTTATAATATG
1 TATAATTTCTTTCTGAATTTT-TAATATG
*
17589409 TATACATTTTTTTCTGAATTTTTAATAT
1 TATA-ATTTCTTTCTGAATTTTTAATAT
17589437 ATTTATTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.17
29 15 0.62
30 5 0.21
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.61
Consensus pattern (28 bp):
TATAATTTCTTTCTGAATTTTTAATATG
Found at i:17595437 original size:9 final size:9
Alignment explanation
Indices: 17595423--17595453 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
17595413 GTTAAACGAA
17595423 TCGAGTTAT
1 TCGAGTTAT
*
17595432 TCGAGTTAA
1 TCGAGTTAT
17595441 TCGAGTTAT
1 TCGAGTTAT
17595450 TCGA
1 TCGA
17595454 ATCAATTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:17595525 original size:9 final size:9
Alignment explanation
Indices: 17595508--17595544 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
17595498 TGAGTTTTCG
17595508 AATTCGAAT
1 AATTCGAAT
*
17595517 AACTCGAAT
1 AATTCGAAT
17595526 AATTCGAAT
1 AATTCGAAT
17595535 AATTCGAAT
1 AATTCGAAT
17595544 A
1 A
17595545 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:17597473 original size:44 final size:46
Alignment explanation
Indices: 17597420--17597512 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 46
17597410 TATAACATCT
* * *
17597420 ATTCTATTCAACCAAACAAAAGAA-TGCT-ATTACAGTTCTATTTC
1 ATTCCATTCAACCAAACAAAAGAATTACTGATTACAGTTCTATTCC
**
17597464 ATTCCATTCAACCAAACAATTGAATTACTGATTACAGTTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACTGATTACAGTTCTATTCC
17597510 ATT
1 ATT
17597513 ACAGCTCTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 21 0.50
45 3 0.07
46 18 0.43
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACTGATTACAGTTCTATTCC
Found at i:17597515 original size:16 final size:16
Alignment explanation
Indices: 17597494--17597548 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
17597484 TGAATTACTG
*
17597494 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
17597510 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
17597526 ATTAGAGCTCTATTCC
1 ATTACAGCTCTATTCC
17597542 ATTACAG
1 ATTACAG
17597549 TGAATCAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:17601224 original size:26 final size:26
Alignment explanation
Indices: 17601162--17601226 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
17601152 GTTTAGCAAC
17601162 ACTTTTGAAAAA-TGCTTTTAAAAAGT
1 ACTTTT-AAAAAGTGCTTTTAAAAAGT
** *
17601188 -CTTGTGCAAAAGTGCTTTTAAGAAGT
1 ACTT-TTAAAAAGTGCTTTTAAAAAGT
17601214 ACTTTTAAAAAGT
1 ACTTTTAAAAAGT
17601227 TTGGTTTAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
25 7 0.23
26 21 0.68
27 3 0.10
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.37
Consensus pattern (26 bp):
ACTTTTAAAAAGTGCTTTTAAAAAGT
Found at i:17625788 original size:12 final size:13
Alignment explanation
Indices: 17625769--17625799 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
17625759 ATATTATTTA
17625769 ATTTTTTTAAATT
1 ATTTTTTTAAATT
*
17625782 ATTTTTTTAATTT
1 ATTTTTTTAAATT
17625795 ATTTT
1 ATTTT
17625800 ATAATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTTTTTAAATT
Found at i:17633247 original size:9 final size:9
Alignment explanation
Indices: 17633233--17633263 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
17633223 GTTAAACGAA
17633233 TCGAGTTAT
1 TCGAGTTAT
*
17633242 TCGAGTTAA
1 TCGAGTTAT
17633251 TCGAGTTAT
1 TCGAGTTAT
17633260 TCGA
1 TCGA
17633264 ATCAATTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:17633335 original size:9 final size:9
Alignment explanation
Indices: 17633318--17633354 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
17633308 TGAGTTTTCG
17633318 AATTCGAAT
1 AATTCGAAT
*
17633327 AACTCGAAT
1 AATTCGAAT
17633336 AATTCGAAT
1 AATTCGAAT
17633345 AATTCGAAT
1 AATTCGAAT
17633354 A
1 A
17633355 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:17633602 original size:30 final size:31
Alignment explanation
Indices: 17633568--17633627 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
17633558 AAACCTTTTA
*
17633568 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
17633598 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
17633628 TCTCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:17635319 original size:44 final size:46
Alignment explanation
Indices: 17635266--17635358 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 46
17635256 TATAACATCT
* * *
17635266 ATTCTATTCAACCAAACAAAAGAA-TGCT-ATTACAGTTCTATTTC
1 ATTCCATTCAACCAAACAAAAGAATTACTGATTACAGTTCTATTCC
**
17635310 ATTCCATTCAACCAAACAATTGAATTACTGATTACAGTTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACTGATTACAGTTCTATTCC
17635356 ATT
1 ATT
17635359 ACAGCTCTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 21 0.50
45 3 0.07
46 18 0.43
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACTGATTACAGTTCTATTCC
Found at i:17635361 original size:16 final size:16
Alignment explanation
Indices: 17635340--17635394 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
17635330 TGAATTACTG
*
17635340 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
17635356 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
17635372 ATTAGAGCTCTATTCC
1 ATTACAGCTCTATTCC
17635388 ATTACAG
1 ATTACAG
17635395 TGAATCAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:17639085 original size:13 final size:13
Alignment explanation
Indices: 17639067--17639158 Score: 130
Period size: 13 Copynumber: 7.1 Consensus size: 13
17639057 AGTTTAGCAA
*
17639067 TGCTTTTGAAAAG
1 TGCTTTTAAAAAG
17639080 TGCTTTTAAAAAG
1 TGCTTTTAAAAAG
17639093 TGCTTTTAAAAAG
1 TGCTTTTAAAAAG
17639106 TGCTTTTAAAAAG
1 TGCTTTTAAAAAG
* **
17639119 TGCTGTGCAAAAG
1 TGCTTTTAAAAAG
*
17639132 TGCTTTTAAGAAG
1 TGCTTTTAAAAAG
*
17639145 TACTTTTAAAAAG
1 TGCTTTTAAAAAG
17639158 T
1 T
17639159 TTAGTTTAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 69 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (13 bp):
TGCTTTTAAAAAG
Found at i:17641416 original size:27 final size:26
Alignment explanation
Indices: 17641385--17641454 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
17641375 ACAAGAAACC
* * *
17641385 ATCAAAATTTTACAATTAAAATTTAAA
1 ATCAAAATTTTAAAACT-AAACTTAAA
17641412 ATCAAAATTTATAAAACTAAACTTAAA
1 ATCAAAATTT-TAAAACTAAACTTAAA
* *
17641439 ACCAAAATTTTTAAAC
1 ATCAAAATTTTAAAAC
17641455 ATGTATCACG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 5 0.14
27 27 0.73
28 5 0.14
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (26 bp):
ATCAAAATTTTAAAACTAAACTTAAA
Found at i:17641418 original size:13 final size:13
Alignment explanation
Indices: 17641385--17641448 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
17641375 ACAAGAAACC
*
17641385 ATCAAAATTTTACA
1 ATCAAAA-TTTAAA
*
17641399 ATTAAAATTTAAA
1 ATCAAAATTTAAA
17641412 ATCAAAATTTATAA
1 ATCAAAATTTA-AA
* * *
17641426 AACTAAACTTAAA
1 ATCAAAATTTAAA
*
17641439 ACCAAAATTT
1 ATCAAAATTT
17641449 TTAAACATGT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
13 24 0.60
14 16 0.40
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (13 bp):
ATCAAAATTTAAA
Found at i:17645969 original size:63 final size:62
Alignment explanation
Indices: 17645832--17645969 Score: 138
Period size: 63 Copynumber: 2.2 Consensus size: 62
17645822 TATCCTTGAA
* * * **
17645832 GAAGGTGTTGATGCAAGGAATGATTGGCATGCTGTGGTGCTTGTGTAAAATAAACTGGTGCT
1 GAAGGTGATGATGCAAAGAATGATTGGCATGCTGTGGTGCTTGTGTAAAATAAACCGGAACT
* * * *
17645894 GAATGT-ATTGATGCAAAGAATGATT-GTATG-TGTTGTGATGGTTGTGTAAAATGAACCGGAAC
1 GAAGGTGA-TGATGCAAAGAATGATTGGCATGCTG-TG-G-TGCTTGTGTAAAATAAACCGGAAC
17645956 T
62 T
17645957 GAAGGTGATGATG
1 GAAGGTGATGATG
17645970 TAGGGACTGA
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
60 2 0.03
61 6 0.10
62 22 0.36
63 30 0.49
64 1 0.02
ACGTcount: A:0.29, C:0.07, G:0.33, T:0.31
Consensus pattern (62 bp):
GAAGGTGATGATGCAAAGAATGATTGGCATGCTGTGGTGCTTGTGTAAAATAAACCGGAACT
Found at i:17655261 original size:17 final size:17
Alignment explanation
Indices: 17655239--17655271 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
17655229 ATGGAATGTC
17655239 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
17655256 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
17655272 AAATTTGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.27, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:17662446 original size:17 final size:16
Alignment explanation
Indices: 17662422--17662453 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
17662412 TATATAAACA
17662422 TAAAAAAATAATAATC
1 TAAAAAAATAATAATC
17662438 TAAACAAAATAATAAT
1 TAAA-AAAATAATAAT
17662454 TAACTATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (16 bp):
TAAAAAAATAATAATC
Found at i:17662589 original size:15 final size:15
Alignment explanation
Indices: 17662566--17662600 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
17662556 ATAATTATAA
17662566 TGAAAAGAATAAAAT
1 TGAAAAGAATAAAAT
*
17662581 TGAAGAGAATAAAAT
1 TGAAAAGAATAAAAT
17662596 T-AAAA
1 TGAAAA
17662601 AAAAAAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.20
Consensus pattern (15 bp):
TGAAAAGAATAAAAT
Found at i:17662703 original size:14 final size:15
Alignment explanation
Indices: 17662686--17662717 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
17662676 AAAATCTAAA
17662686 ATTGGAA-ATTGAGG
1 ATTGGAAGATTGAGG
17662700 ATT-GAAGATTGAGG
1 ATTGGAAGATTGAGG
17662714 ATTG
1 ATTG
17662718 AGAATTTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.19
14 13 0.81
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (15 bp):
ATTGGAAGATTGAGG
Found at i:17662728 original size:14 final size:13
Alignment explanation
Indices: 17662690--17662728 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
17662680 TCTAAAATTG
17662690 GAAATTGAGGATT
1 GAAATTGAGGATT
17662703 GAAGATTGAGGATT
1 GAA-ATTGAGGATT
*
17662717 GAGAATTTAGGA
1 GA-AATTGAGGA
17662729 AGGAAGAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 19 0.83
15 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.33, T:0.28
Consensus pattern (13 bp):
GAAATTGAGGATT
Done.