Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 76 of 120
Found at i:22853940 original size:86 final size:85
Alignment explanation
Indices: 22853603--22853932 Score: 394
Period size: 86 Copynumber: 3.9 Consensus size: 85
22853593 TTTTAGAAAT
* * * *
22853603 AAACGCTGCTATAGATCATGACTTTTAGCGGCGCTTTTTCACAAACGCCGCTATAGATCAGGACC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTAACAAACGCCGCTATAGATCAGGACC
* * *
22853668 TTTAGCGGCAATTTT-ACAC
66 TTTAGCGGCACTTTTCCCGC
22853687 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACACAAACGCCGCTATAGATCAGGAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTA-ACAAACGCCGCTATAGATCAGGAC
* *
22853752 CTTTACCTGCACTTTTCCCGC
65 CTTTAGCGGCACTTTTCCCGC
* ***
22853773 AAACGCTGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCGCAAACGCCGCTATAGATCAGGAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTT-TAACAAACGCCGCTATAGATCAGGAC
* *
22853838 CTTTAGTGGCGCTTTTCCCGC
65 CTTTAGCGGCACTTTTCCCGC
* * * * * ** * * *
22853859 AAACGCCGCTGTAGATCATGACTTTTAGCAGCGCTTTTTTAATAAATACCGCTAAAGAACACGA-
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTTTAACAAACGCCGCTATAGATCAGGAC
22853923 CTTTAGCGGC
65 CTTTAGCGGC
22853933 GTTTTTTCAA
Statistics
Matches: 210, Mismatches: 32, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
84 36 0.17
85 46 0.22
86 124 0.59
87 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (85 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTAACAAACGCCGCTATAGATCAGGACC
TTTAGCGGCACTTTTCCCGC
Found at i:22854383 original size:16 final size:16
Alignment explanation
Indices: 22854333--22854395 Score: 69
Period size: 16 Copynumber: 4.1 Consensus size: 16
22854323 AATATATATT
22854333 ATGTAAGTTGTGTATA
1 ATGTAAGTTGTGTATA
* ***
22854349 ATATAA-TCAAGT-T-
1 ATGTAAGTTGTGTATA
22854362 ATGTAAGTTGTGTATA
1 ATGTAAGTTGTGTATA
22854378 ATGTAAGTTGTGTATA
1 ATGTAAGTTGTGTATA
22854394 AT
1 AT
22854396 ATTAATTAAG
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
13 5 0.14
14 4 0.11
15 4 0.11
16 23 0.64
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.43
Consensus pattern (16 bp):
ATGTAAGTTGTGTATA
Found at i:22854537 original size:15 final size:16
Alignment explanation
Indices: 22854506--22854542 Score: 58
Period size: 15 Copynumber: 2.3 Consensus size: 16
22854496 TTTACATTTA
22854506 CCCAAATACAACCCTAG
1 CCCAAATAC-ACCCTAG
22854523 CCCAAATAC-CCCTAG
1 CCCAAATACACCCTAG
22854538 CCCAA
1 CCCAA
22854543 GACCACAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.55
17 9 0.45
ACGTcount: A:0.38, C:0.46, G:0.05, T:0.11
Consensus pattern (16 bp):
CCCAAATACACCCTAG
Found at i:22854872 original size:21 final size:21
Alignment explanation
Indices: 22854848--22854888 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
22854838 TTATAGTTTG
22854848 TTTTCT-TGGTTTTTTTCTTTT
1 TTTTCTCT-GTTTTTTTCTTTT
22854869 TTTTCTCTGTTTTTTTCTTT
1 TTTTCTCTGTTTTTTTCTTT
22854889 CTATTTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.80
Consensus pattern (21 bp):
TTTTCTCTGTTTTTTTCTTTT
Found at i:22855504 original size:15 final size:15
Alignment explanation
Indices: 22855481--22855515 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
22855471 GTTATCATCG
*
22855481 TTATCATTAGTATTA
1 TTATTATTAGTATTA
22855496 TTATTATTAGTATTA
1 TTATTATTAGTATTA
22855511 TTATT
1 TTATT
22855516 TATATTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (15 bp):
TTATTATTAGTATTA
Found at i:22855534 original size:18 final size:18
Alignment explanation
Indices: 22855481--22855536 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
22855471 GTTATCATCG
22855481 TTATCATTAGTATTATTA-
1 TTAT-ATTAGTATTATTAT
22855499 -T-TATTAGTATTATTAT
1 TTATATTAGTATTATTAT
22855515 TTATATTAGT-TTATATAT
1 TTATATTAGTATTAT-TAT
22855533 TTAT
1 TTAT
22855537 TTACATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
15 13 0.38
16 1 0.03
17 6 0.18
18 14 0.41
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (18 bp):
TTATATTAGTATTATTAT
Found at i:22856995 original size:9 final size:9
Alignment explanation
Indices: 22856977--22857033 Score: 73
Period size: 9 Copynumber: 6.6 Consensus size: 9
22856967 ATTGTGTATA
22856977 ATGTAAGTT
1 ATGTAAGTT
*
22856986 ATGAAAGTT
1 ATGTAAGTT
22856995 ATGT-A-TT
1 ATGTAAGTT
22857002 ATGTAAGTT
1 ATGTAAGTT
*
22857011 ATTTAAGTT
1 ATGTAAGTT
22857020 ATGTAAGTT
1 ATGTAAGTT
*
22857029 GTGTA
1 ATGTA
22857034 TTAAAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
7 6 0.15
8 2 0.05
9 33 0.80
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:22857005 original size:25 final size:25
Alignment explanation
Indices: 22856971--22857024 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
22856961 TTCGACATTG
22856971 TGTATAATGTAAGTTATGAAAGTTA
1 TGTATAATGTAAGTTATGAAAGTTA
* **
22856996 TGTATTATGTAAGTTATTTAAGTTA
1 TGTATAATGTAAGTTATGAAAGTTA
22857021 TGTA
1 TGTA
22857025 AGTTGTGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (25 bp):
TGTATAATGTAAGTTATGAAAGTTA
Found at i:22857118 original size:14 final size:14
Alignment explanation
Indices: 22857095--22857129 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
22857085 CCCTAAATCT
*
22857095 CTAACTCTTAACCC
1 CTAACCCTTAACCC
*
22857109 CTAACCCTTAACTC
1 CTAACCCTTAACCC
22857123 CTAACCC
1 CTAACCC
22857130 CTAAACCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.46, G:0.00, T:0.26
Consensus pattern (14 bp):
CTAACCCTTAACCC
Found at i:22857120 original size:21 final size:21
Alignment explanation
Indices: 22857085--22857157 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
22857075 ACCCTTGAAA
* *
22857085 CCCTAAATCTCTAACTCTTAAC
1 CCCTAAACCT-TAACTCCTAAC
*
22857107 CCCTAACCCTTAACTCCTAAC
1 CCCTAAACCTTAACTCCTAAC
* *
22857128 CCCTAAACCTTAAATCCCAAC
1 CCCTAAACCTTAACTCCTAAC
*
22857149 CCTTAAACC
1 CCCTAAACC
22857158 ATAATCCCTA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
21 36 0.82
22 8 0.18
ACGTcount: A:0.33, C:0.42, G:0.00, T:0.25
Consensus pattern (21 bp):
CCCTAAACCTTAACTCCTAAC
Found at i:22857167 original size:35 final size:33
Alignment explanation
Indices: 22857053--22857169 Score: 112
Period size: 35 Copynumber: 3.4 Consensus size: 33
22857043 ACTAATTAAT
*
22857053 CTAAACCCTAAACCTTAACCCAACCCTTGAAACC
1 CTAATCCCTAAACCTTAACCCAACCCTT-AAACC
*
22857087 CTAAATCTCT-AACTCTTAACCCCTAACCCTT-AACTC
1 CT-AATCCCTAAAC-CTTAA-CCC-AACCCTTAAAC-C
*
22857123 CTAACCCCTAAACCTTAAATCCCAACCCTTAAACC
1 CTAATCCCTAAACCTT-AA-CCCAACCCTTAAACC
*
22857158 ATAATCCCTAAA
1 CTAATCCCTAAA
22857170 TCCATATATA
Statistics
Matches: 68, Mismatches: 7, Indels: 15
0.76 0.08 0.17
Matches are distributed among these distances:
34 5 0.07
35 39 0.57
36 17 0.25
37 7 0.10
ACGTcount: A:0.37, C:0.39, G:0.01, T:0.23
Consensus pattern (33 bp):
CTAATCCCTAAACCTTAACCCAACCCTTAAACC
Found at i:22857358 original size:24 final size:24
Alignment explanation
Indices: 22857331--22857386 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
22857321 TATATGAAAT
22857331 TATTTAATATATAAATTAAAAACA
1 TATTTAATATATAAATTAAAAACA
*
22857355 TATTTGAA-ATATAAATTAAAAATA
1 TATTT-AATATATAAATTAAAAACA
*
22857379 TAATTAAT
1 TATTTAAT
22857387 CTAAATCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 24 0.86
25 2 0.07
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
TATTTAATATATAAATTAAAAACA
Found at i:22857482 original size:21 final size:20
Alignment explanation
Indices: 22857424--22857510 Score: 59
Period size: 22 Copynumber: 4.1 Consensus size: 20
22857414 TGAATCCTTA
*
22857424 AACCCTAAACCCTTAA-CTCTT
1 AACCCTAAA-CCTTAATC-CCT
*
22857445 AGCCCTTAAACCCTTAATCCCT
1 AACCC-TAAA-CCTTAATCCCT
* *
22857467 AACCACTAAACCTTAAATCTCA
1 AACC-CTAAACCTT-AATCCCT
* *
22857489 AACCTTAAACCATAATCCCT
1 AACCCTAAACCTTAATCCCT
22857509 AA
1 AA
22857511 TCCATAATCC
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
20 7 0.13
21 15 0.28
22 29 0.55
23 2 0.04
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.25
Consensus pattern (20 bp):
AACCCTAAACCTTAATCCCT
Found at i:22857515 original size:14 final size:14
Alignment explanation
Indices: 22857498--22857524 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22857488 AAACCTTAAA
22857498 CCATAATCCCTAAT
1 CCATAATCCCTAAT
22857512 CCATAATCCCTAA
1 CCATAATCCCTAA
22857525 ACCTTAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:22857761 original size:23 final size:25
Alignment explanation
Indices: 22857735--22857789 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
22857725 TAAATAATAG
* *
22857735 TATTTTAATTTTTTC-ATGTGTT-T
1 TATTTTAATTATTTCTACGTGTTAT
*
22857758 TATTTCAAATTATTTCTACGTGTTAT
1 TATTT-TAATTATTTCTACGTGTTAT
22857784 TATTTT
1 TATTTT
22857790 TTCTGAAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 5 0.20
24 8 0.32
25 6 0.24
26 6 0.24
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.64
Consensus pattern (25 bp):
TATTTTAATTATTTCTACGTGTTAT
Found at i:22857943 original size:41 final size:41
Alignment explanation
Indices: 22857895--22858130 Score: 285
Period size: 41 Copynumber: 5.8 Consensus size: 41
22857885 TGAAAAAGCA
*
22857895 CCGCTAAAGCCCCCAGCATTAGCGGCACTTTTCCAGAAACG
1 CCGCTAAAGCCCCCAGCATTAGCGGCGCTTTTCCAGAAACG
* * *
22857936 CCTCTAAAGCCTCAAGCATTAGCGGCGCTTTTCCAGAAACG
1 CCGCTAAAGCCCCCAGCATTAGCGGCGCTTTTCCAGAAACG
* * * *
22857977 CCGCTAAAGCCTCAAGCATTAGCGGCACTTTTCTAGAAACG
1 CCGCTAAAGCCCCCAGCATTAGCGGCGCTTTTCCAGAAACG
* *
22858018 CCGCTAAAGCCCCC-GCATTAGCGGCGCTTTTTCAAAAACG
1 CCGCTAAAGCCCCCAGCATTAGCGGCGCTTTTCCAGAAACG
* * * ** *
22858058 CCACGAAATCCCCCAGCATTAGCGGCGCTTTTTAAAAAACG
1 CCGCTAAAGCCCCCAGCATTAGCGGCGCTTTTCCAGAAACG
* * **
22858099 CAGCTAAATCCCTGAGCATTAGCGGCGCTTTT
1 CCGCTAAAGCCCCCAGCATTAGCGGCGCTTTT
22858131 TTGAAAACAC
Statistics
Matches: 172, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 33 0.19
41 139 0.81
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.21
Consensus pattern (41 bp):
CCGCTAAAGCCCCCAGCATTAGCGGCGCTTTTCCAGAAACG
Found at i:22858098 original size:122 final size:123
Alignment explanation
Indices: 22857888--22858147 Score: 319
Period size: 122 Copynumber: 2.1 Consensus size: 123
22857878 ACGCTTTTGA
* * * *
22857888 AAAAGCACCGCTAAAGCCCCCAGCATTAGCGGCACTTTTCCAGAAACGCCTCTAAAGCCTCAAGC
1 AAAA-CACCGCTAAAGCCCCCAGCATTAGCGGCACTTTTCCAAAAACGCCACGAAAGCCCCAAGC
* * *
22857953 ATTAGCGGCGCTTTTCCAGAAACGCCGCTAAAG-CCTCAAGCATTAGCGGCACTTTTCTAG
65 ATTAGCGGCGCTTTTCAAAAAACGCAGCTAAAGCCCT-AAGCATTAGCGGCACTTTT-TAG
* * * * *
22858013 -AAACGCCGCTAAAGCCCCC-GCATTAGCGGCGCTTTTTCAAAAACGCCACGAAATCCCCCAGCA
1 AAAACACCGCTAAAGCCCCCAGCATTAGCGGCACTTTTCCAAAAACGCCACGAAAGCCCCAAGCA
* * * * *
22858076 TTAGCGGCGCTTTTTAAAAAACGCAGCTAAATCCCTGAGCATTAGCGGCGCTTTTTTG
66 TTAGCGGCGCTTTTCAAAAAACGCAGCTAAAGCCCTAAGCATTAGCGGCACTTTTTAG
22858134 AAAACACCGCTAAA
1 AAAACACCGCTAAA
22858148 ACCCTGAAAG
Statistics
Matches: 115, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
121 2 0.02
122 92 0.80
123 18 0.16
124 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (123 bp):
AAAACACCGCTAAAGCCCCCAGCATTAGCGGCACTTTTCCAAAAACGCCACGAAAGCCCCAAGCA
TTAGCGGCGCTTTTCAAAAAACGCAGCTAAAGCCCTAAGCATTAGCGGCACTTTTTAG
Found at i:22858131 original size:41 final size:41
Alignment explanation
Indices: 22857872--22858152 Score: 248
Period size: 41 Copynumber: 6.9 Consensus size: 41
22857862 TAAATTTTTT
* * * * *
22857872 TTAGCGACGC-TTTTGAAAAAGCACCGCTAAAGCCCCCAGCA
1 TTAGCGGCGCTTTTTCAAAAA-CGCCGCTAAATCCCTCAGCA
* * * * *
22857913 TTAGCGGCACTTTTCCAGAAACGCCTCTAAA-GCCTCAAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCTC-AGCA
* * *
22857954 TTAGCGGCGCTTTTCCAGAAACGCCGCTAAA-GCCTCAAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCTC-AGCA
* * * *
22857995 TTAGCGGCAC-TTTTCTAGAAACGCCGCTAAAGCCC-CCGCA
1 TTAGCGGCGCTTTTTC-AAAAACGCCGCTAAATCCCTCAGCA
* * *
22858035 TTAGCGGCGCTTTTTCAAAAACGCCACGAAATCCCCCAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCTCAGCA
* * *
22858076 TTAGCGGCGCTTTTTAAAAAACGCAGCTAAATCCCTGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCTCAGCA
** * *
22858117 TTAGCGGCGCTTTTTTGAAAACACCGCTAAAACCCT
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCT
22858153 GAAAGGTAAG
Statistics
Matches: 202, Mismatches: 32, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
40 34 0.17
41 159 0.79
42 9 0.04
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCTCAGCA
Found at i:22862964 original size:54 final size:56
Alignment explanation
Indices: 22862852--22862965 Score: 135
Period size: 57 Copynumber: 2.1 Consensus size: 56
22862842 AAAAAAAAAG
* * *
22862852 AAAAAAAATTTGTTTGGGTGCTAGCCTGTCAATGGCCAGCACCACCTTTACGAGAAA
1 AAAAAAAATTTGTTCGGGTGCTAGCCTGTCAATGGCCAGCACCACATATAC-AGAAA
* * *
22862909 AAAAACAAATTT-TTCGGGTGCTGGCCTGTTAATGGCCGGCACCA-ATATAC-GAAA
1 AAAAA-AAATTTGTTCGGGTGCTAGCCTGTCAATGGCCAGCACCACATATACAGAAA
22862963 AAA
1 AAA
22862966 TTAAAAAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 7 0.14
56 4 0.08
57 33 0.66
58 6 0.12
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (56 bp):
AAAAAAAATTTGTTCGGGTGCTAGCCTGTCAATGGCCAGCACCACATATACAGAAA
Found at i:22863291 original size:53 final size:53
Alignment explanation
Indices: 22863184--22863626 Score: 181
Period size: 53 Copynumber: 8.2 Consensus size: 53
22863174 NNNNNNNNNN
* *
22863184 AAAAAATTTTCCCGTAAAGGTGGTGCTGGCCATTGATAGGCCAACACCCGAAA
1 AAAAAATTTTCCCGTAAAGGTGGTGCCGGCCATTGACAGGCCAACACCCGAAA
* * * * *
22863237 AAAAAATTTTCCCTTAAAGGTGGTGCCGGCTATTGACAGTCCACCTA-CCTAAA
1 AAAAAATTTTCCCGTAAAGGTGGTGCCGGCCATTGACAGGCCAAC-ACCCGAAA
* *** * * * * * * *
22863290 AAATTTTTTTTAATTTTTTTGTATA-CTGGTGCTGGCCATTGACACGTCAGCACCTGAAA
1 AAA-------AAATTTTCCCGTAAAGGTGGTGCCGGCCATTGACAGGCCAACACCCGAAA
* * *
22863349 AAAAAA-TTTCCCGTAAAGGTGGTGCCGGCCATTGACAAGCCATCACCAAGCAAA
1 AAAAAATTTTCCCGTAAAGGTGGTGCCGGCCATTGACAGGCCAACACC-CG-AAA
***** ** * * * *
22863403 TTTTTTTTATTTTTTCGTATA-CTGGTGCCGGCTATTGATAGGCCAACACCC-AAA
1 ---AAAAAATTTTCCCGTAAAGGTGGTGCCGGCCATTGACAGGCCAACACCCGAAA
* * * * * *
22863457 AAAAATAATTTCTCGTAAAGGTGGTGCCGGTCATTGATAGGTCACCA-CC-AAA
1 AAAAA-ATTTTCCCGTAAAGGTGGTGCCGGCCATTGACAGGCCAACACCCGAAA
** * * * *
22863509 AAAATTTTTTAATTTTTTTCGTATA-CTGGTGACGGCCATTGACAGGCCAGCACCCG-AA
1 AAAA------AA-TTTTCCCGTAAAGGTGGTGCCGGCCATTGACAGGCCAACACCCGAAA
* * **
22863567 AAAAAA-TTTCTCGTAAAGGTGGTGACGGCCATTGACAGGCCAGTA-CC-AAA
1 AAAAAATTTTCCCGTAAAGGTGGTGCCGGCCATTGACAGGCCAACACCCGAAA
22863617 AAAAAATTTT
1 AAAAAATTTT
22863627 TTTTGGGTTT
Statistics
Matches: 287, Mismatches: 73, Indels: 62
0.68 0.17 0.15
Matches are distributed among these distances:
50 19 0.07
51 35 0.12
52 47 0.16
53 70 0.24
54 7 0.02
57 47 0.16
58 27 0.09
59 26 0.09
60 9 0.03
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (53 bp):
AAAAAATTTTCCCGTAAAGGTGGTGCCGGCCATTGACAGGCCAACACCCGAAA
Found at i:22863384 original size:111 final size:109
Alignment explanation
Indices: 22863204--22863619 Score: 493
Period size: 110 Copynumber: 3.8 Consensus size: 109
22863194 CCCGTAAAGG
* * *
22863204 TGGTGCTGGCCATTGATAGGCCAACACCCGAAAAAAAAATTTTCCCTTAAAGGTGGTGCCGGCTA
1 TGGTGCTGGCCATTGACAGGCCAACACCCGAAAAAAAAA-TTTCCCGTAAAGGTGGTGCCGGCCA
22863269 TTGACAGTCCACCTACCTAAAAAATTTTTTTTAATTTTTTTGTATAC
65 TTGACAGTCCACC-ACC-AAAAAATTTTTTTTAATTTTTTTGTATAC
* * * *
22863316 TGGTGCTGGCCATTGACACGTCAGCACCTGAAAAAAAAATTTCCCGTAAAGGTGGTGCCGGCCAT
1 TGGTGCTGGCCATTGACAGGCCAACACCCGAAAAAAAAATTTCCCGTAAAGGTGGTGCCGGCCAT
* * *
22863381 TGACAAG-CCATCACCAAGCAAATTTTTTTT-ATTTTTTCGTATAC
66 TGAC-AGTCCACCACCAA-AAAATTTTTTTTAATTTTTTTGTATAC
* * * * * *
22863425 TGGTGCCGGCTATTGATAGGCCAACACCCAAAAAAAATAATTTCTCGTAAAGGTGGTGCCGGTCA
1 TGGTGCTGGCCATTGACAGGCCAACACCCGAAAAAAA-AATTTCCCGTAAAGGTGGTGCCGGCCA
* *
22863490 TTGATAGGT-CACCACCAAAAAA-ATTTTTTAATTTTTTTCGTATAC
65 TTGACA-GTCCACCACCAAAAAATTTTTTTTAATTTTTTT-GTATAC
* * *
22863535 TGGTGAC-GGCCATTGACAGGCCAGCACCCG-AAAAAAAATTTCTCGTAAAGGTGGTGACGGCCA
1 TGGTG-CTGGCCATTGACAGGCCAACACCCGAAAAAAAAATTTCCCGTAAAGGTGGTGCCGGCCA
* **
22863598 TTGACAGGCCAGTACCAAAAAA
65 TTGACAGTCCACCACCAAAAAA
22863620 AAATTTTTTT
Statistics
Matches: 260, Mismatches: 35, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
107 1 0.00
108 47 0.18
109 61 0.23
110 82 0.32
111 33 0.13
112 36 0.14
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (109 bp):
TGGTGCTGGCCATTGACAGGCCAACACCCGAAAAAAAAATTTCCCGTAAAGGTGGTGCCGGCCAT
TGACAGTCCACCACCAAAAAATTTTTTTTAATTTTTTTGTATAC
Found at i:22863549 original size:57 final size:57
Alignment explanation
Indices: 22863368--22863571 Score: 161
Period size: 57 Copynumber: 3.6 Consensus size: 57
22863358 CCCGTAAAGG
* * * ** *
22863368 TGGTGCCGGCCATTGACAAGCCATCACCAAGCAAATTTTTT-TTATTTTTTCGTATAC
1 TGGTGCCGGCCATTGATAGGCCAACACCAAAAAAATTTTTTAAT-TTTTTTCGTATAC
* * * * *
22863425 TGGTGCCGGCTATTGATAGGCCAACACCCAAAAAAA----ATAA--TTTCTCGTAAAGG
1 TGGTGCCGGCCATTGATAGGCCAACA-CCAAAAAAATTTTTTAATTTTTTTCGTATA-C
* * *
22863478 TGGTGCCGGTCATTGATAGGTCACCACCAAAAAAATTTTTTAATTTTTTTCGTATAC
1 TGGTGCCGGCCATTGATAGGCCAACACCAAAAAAATTTTTTAATTTTTTTCGTATAC
* * *
22863535 TGGTGACGGCCATTGACAGGCCAGCACCCGAAAAAAA
1 TGGTGCCGGCCATTGATAGGCCAACA-CC-AAAAAAA
22863572 ATTTCTCGTA
Statistics
Matches: 112, Mismatches: 24, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
52 18 0.16
53 22 0.20
54 1 0.01
56 3 0.03
57 43 0.38
58 18 0.16
59 7 0.06
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (57 bp):
TGGTGCCGGCCATTGATAGGCCAACACCAAAAAAATTTTTTAATTTTTTTCGTATAC
Found at i:22865702 original size:15 final size:15
Alignment explanation
Indices: 22865679--22865708 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22865669 AAATGGCCAC
*
22865679 TCGAGCGTATTTGAT
1 TCGAACGTATTTGAT
22865694 TCGAACGTATTTGAT
1 TCGAACGTATTTGAT
22865709 AACCATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.40
Consensus pattern (15 bp):
TCGAACGTATTTGAT
Found at i:22869210 original size:77 final size:77
Alignment explanation
Indices: 22869073--22869218 Score: 220
Period size: 77 Copynumber: 1.9 Consensus size: 77
22869063 TAATAGTACG
* * * * *
22869073 CAGCAAAGCTGACGTATATTCAGTACAATGCATTGCGATAAACCATTGTATAGATATGTTGTAGT
1 CAGCAAAGCTGACGTAGATACAGTACAATGCATTGCGATAAACCACTGTACAGATATGTTGAAGT
22869138 TAAAGATAAACA
66 TAAAGATAAACA
* * *
22869150 CAGCAAAGCTGACGTAGATACAGTACAGTGCATTGCGGTAAACCACTGTACAGATTTGTTGAAGT
1 CAGCAAAGCTGACGTAGATACAGTACAATGCATTGCGATAAACCACTGTACAGATATGTTGAAGT
22869215 TAAA
66 TAAA
22869219 TTGCCAGATC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
77 61 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.27
Consensus pattern (77 bp):
CAGCAAAGCTGACGTAGATACAGTACAATGCATTGCGATAAACCACTGTACAGATATGTTGAAGT
TAAAGATAAACA
Found at i:22870673 original size:12 final size:11
Alignment explanation
Indices: 22870656--22870699 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
22870646 TTTTTTCCAT
22870656 AATAAAAAAATA
1 AATAAAAAAA-A
22870668 AATAAAATAAAA
1 AATAAAA-AAAA
*
22870680 AATAAGAAAACA
1 AATAA-AAAAAA
22870692 AATAAAAA
1 AATAAAAA
22870700 TAACATCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 3 0.10
12 21 0.72
13 5 0.17
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (11 bp):
AATAAAAAAAA
Found at i:22884544 original size:8 final size:8
Alignment explanation
Indices: 22884531--22884555 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
22884521 ATATATACTA
22884531 AATAAAAT
1 AATAAAAT
22884539 AATAAAAT
1 AATAAAAT
22884547 AATAAAAT
1 AATAAAAT
22884555 A
1 A
22884556 TTATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:22885033 original size:23 final size:23
Alignment explanation
Indices: 22884986--22885036 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
22884976 ACCTACTTTC
* * * *
22884986 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGAGATA
22885009 TTACAGTAGTAATTTTCGAGATA
1 TTACAGTAGTAATTTTCGAGATA
22885032 TTACA
1 TTACA
22885037 ATGAGATACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGAGATA
Found at i:22885952 original size:11 final size:11
Alignment explanation
Indices: 22885879--22885954 Score: 54
Period size: 11 Copynumber: 6.8 Consensus size: 11
22885869 ATTCTAAAAA
*
22885879 TAATATTATTT
1 TAATATTAATT
22885890 TAATAGTTTAATAT
1 TAATA--TTAAT-T
22885904 TAA-ATTAAATT
1 TAATATT-AATT
22885915 TAATACTT-ATCT
1 TAATA-TTAAT-T
22885927 TAATATT-ATT
1 TAATATTAATT
22885937 T--TATTAATT
1 TAATATTAATT
22885946 TAATATTAA
1 TAATATTAA
22885955 AGTGATTATC
Statistics
Matches: 54, Mismatches: 1, Indels: 20
0.72 0.01 0.27
Matches are distributed among these distances:
8 4 0.07
9 4 0.07
10 2 0.04
11 23 0.43
12 10 0.19
13 7 0.13
14 4 0.07
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (11 bp):
TAATATTAATT
Found at i:22885968 original size:20 final size:20
Alignment explanation
Indices: 22885945--22885982 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
22885935 TTTTATTAAT
22885945 TTAATATTAAAGTGATTATC
1 TTAATATTAAAGTGATTATC
22885965 TTAATATTAAAGTGATTA
1 TTAATATTAAAGTGATTA
22885983 AGTTTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (20 bp):
TTAATATTAAAGTGATTATC
Found at i:22886979 original size:16 final size:16
Alignment explanation
Indices: 22886958--22886989 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
22886948 ATTACCTAGC
22886958 ATAGCTTGAACAGGTA
1 ATAGCTTGAACAGGTA
22886974 ATAGCTTGAACAGGTA
1 ATAGCTTGAACAGGTA
22886990 TCTCAATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (16 bp):
ATAGCTTGAACAGGTA
Found at i:22887772 original size:17 final size:17
Alignment explanation
Indices: 22887750--22887788 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
22887740 TCAGGAAAAT
*
22887750 TTTCCTTTCCCTTTCCC
1 TTTCCTTTCCCCTTCCC
22887767 TTTCCTTTCCCCTTCCC
1 TTTCCTTTCCCCTTCCC
*
22887784 CTTCC
1 TTTCC
22887789 CCTATCCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTCCTTTCCCCTTCCC
Found at i:22887790 original size:12 final size:12
Alignment explanation
Indices: 22887753--22887791 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
22887743 GGAAAATTTT
*
22887753 CCTTTCCCTTTC
1 CCTTTCCCTTCC
*
22887765 CCTTTCCTTTCC
1 CCTTTCCCTTCC
*
22887777 CCTTCCCCTTCC
1 CCTTTCCCTTCC
22887789 CCT
1 CCT
22887792 ATCCTTGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (12 bp):
CCTTTCCCTTCC
Found at i:22889953 original size:22 final size:24
Alignment explanation
Indices: 22889903--22889953 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
22889893 TTGCAATGCT
22889903 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
22889928 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
22889949 TTTAT
1 TTTAT
22889954 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:22890854 original size:18 final size:19
Alignment explanation
Indices: 22890831--22890866 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
22890821 TCGAAACCGG
22890831 TCGG-TTAACCAAATTTTT
1 TCGGTTTAACCAAATTTTT
*
22890849 TCGGTTTAACCGAATTTT
1 TCGGTTTAACCAAATTTT
22890867 GCAGGGTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (19 bp):
TCGGTTTAACCAAATTTTT
Found at i:22892096 original size:27 final size:27
Alignment explanation
Indices: 22892058--22892109 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
22892048 AACTATGTCG
22892058 TTGTATACTATTGTCTTAATTTTTTCC
1 TTGTATACTATTGTCTTAATTTTTTCC
22892085 TTGTATACTATTGTCTTAATTTTTT
1 TTGTATACTATTGTCTTAATTTTTT
22892110 TCTTTCATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.12, G:0.08, T:0.62
Consensus pattern (27 bp):
TTGTATACTATTGTCTTAATTTTTTCC
Found at i:22894101 original size:17 final size:17
Alignment explanation
Indices: 22894079--22894114 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
22894069 AATTCAGTCG
22894079 TATAAGATTATTTTTCA
1 TATAAGATTATTTTTCA
22894096 TATAAGATTATTTTTCA
1 TATAAGATTATTTTTCA
22894113 TA
1 TA
22894115 CCTTAGTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
TATAAGATTATTTTTCA
Found at i:22896863 original size:17 final size:17
Alignment explanation
Indices: 22896841--22896938 Score: 61
Period size: 17 Copynumber: 5.4 Consensus size: 17
22896831 AATTCAAGAC
22896841 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
22896858 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
22896877 CTTATGTAATATTTTTAA
1 -TTATGTAATGTTTTTAA
* **
22896895 TTATGTAGTGATTTAAAGA
1 TTATGTAATG-TTTTTA-A
*
22896914 TTTATGTAATGCTTTTAA
1 -TTATGTAATGTTTTTAA
22896932 TTATGTA
1 TTATGTA
22896939 GTGATTTAAT
Statistics
Matches: 58, Mismatches: 17, Indels: 12
0.67 0.20 0.14
Matches are distributed among these distances:
17 24 0.41
18 9 0.16
19 8 0.14
20 17 0.29
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.50
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:22896920 original size:20 final size:18
Alignment explanation
Indices: 22896856--22896947 Score: 71
Period size: 17 Copynumber: 5.0 Consensus size: 18
22896846 TAATGTTTTT
*
22896856 AATTATGTAGTGATTCAA
1 AATTATGTAGTGATTTAA
* **
22896874 AGACTTATGTAAT-ATTTTT
1 A-A-TTATGTAGTGATTTAA
22896893 AATTATGTAGTGATTTAA
1 AATTATGTAGTGATTTAA
* * *
22896911 AGATTTATGTAATGCTTT-T
1 A-A-TTATGTAGTGATTTAA
22896930 AATTATGTAGTGATTTAA
1 AATTATGTAGTGATTTAA
22896948 TTCGGGTAAT
Statistics
Matches: 55, Mismatches: 13, Indels: 12
0.69 0.16 0.15
Matches are distributed among these distances:
17 20 0.36
18 8 0.15
19 7 0.13
20 20 0.36
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (18 bp):
AATTATGTAGTGATTTAA
Found at i:22896945 original size:37 final size:37
Alignment explanation
Indices: 22896836--22896947 Score: 188
Period size: 37 Copynumber: 3.0 Consensus size: 37
22896826 GTGTTAATTC
*
22896836 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
*
22896873 AAGACTTATGTAATATTTTTAATTATGTAGTGATTTA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
* *
22896910 AAGATTTATGTAATGCTTTTAATTATGTAGTGATTTA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
22896947 A
1 A
22896948 TTCGGGTAAT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
Found at i:22896959 original size:9 final size:9
Alignment explanation
Indices: 22896945--22897065 Score: 143
Period size: 9 Copynumber: 12.6 Consensus size: 9
22896935 TGTAGTGATT
22896945 TAATTCGGG
1 TAATTCGGG
22896954 TAATTCGGG
1 TAATTCGGG
*
22896963 TAATTTGGG
1 TAATTCGGG
22896972 TAATTTTCGGG
1 TAA--TTCGGG
22896983 TAATTCGGG
1 TAATTCGGG
22896992 TAATTTTCGGG
1 TAA--TTCGGG
22897003 TAATTCGGG
1 TAATTCGGG
22897012 TAATTTTCGGG
1 TAA--TTCGGG
*
22897023 TAATTCGAG
1 TAATTCGGG
22897032 TAATTTTCGGG
1 TAA--TTCGGG
*
22897043 TAATTCTGG
1 TAATTCGGG
22897052 TAATTCGGG
1 TAATTCGGG
22897061 TAATT
1 TAATT
22897066 TTTAACCAAA
Statistics
Matches: 98, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
9 64 0.65
11 34 0.35
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.40
Consensus pattern (9 bp):
TAATTCGGG
Found at i:22896982 original size:20 final size:20
Alignment explanation
Indices: 22896945--22897065 Score: 187
Period size: 20 Copynumber: 6.2 Consensus size: 20
22896935 TGTAGTGATT
22896945 TAATTCGGGTAA--TTCGGG
1 TAATTCGGGTAATTTTCGGG
*
22896963 TAATTTGGGTAATTTTCGGG
1 TAATTCGGGTAATTTTCGGG
22896983 TAATTCGGGTAATTTTCGGG
1 TAATTCGGGTAATTTTCGGG
22897003 TAATTCGGGTAATTTTCGGG
1 TAATTCGGGTAATTTTCGGG
*
22897023 TAATTCGAGTAATTTTCGGG
1 TAATTCGGGTAATTTTCGGG
*
22897043 TAATTCTGGTAA--TTCGGG
1 TAATTCGGGTAATTTTCGGG
22897061 TAATT
1 TAATT
22897066 TTTAACCAAA
Statistics
Matches: 96, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
18 22 0.23
20 74 0.77
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.40
Consensus pattern (20 bp):
TAATTCGGGTAATTTTCGGG
Found at i:22900447 original size:50 final size:50
Alignment explanation
Indices: 22900333--22900574 Score: 394
Period size: 50 Copynumber: 4.8 Consensus size: 50
22900323 ATAATAACAC
* ** *
22900333 GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGT
* **
22900384 GCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* *
22900434 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCCCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
22900484 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
22900534 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
22900575 TTACCCAAAT
Statistics
Matches: 177, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 145 0.82
51 32 0.18
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.25
Consensus pattern (50 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
Found at i:22902805 original size:23 final size:22
Alignment explanation
Indices: 22902778--22902851 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 22
22902768 GGGCCATTAC
*
22902778 ATTACATCATTTAAACACCTCA
1 ATTACAACATTTAAACACCTCA
22902800 ACTTACAACACTTT-AACATCC-CA
1 A-TTACAACA-TTTAAACA-CCTCA
*
22902823 ATTAACAACATTTATACACCTCA
1 ATT-ACAACATTTAAACACCTCA
22902846 ATTACA
1 ATTACA
22902852 GNNNNNNNNN
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
22 11 0.25
23 28 0.64
24 5 0.11
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (22 bp):
ATTACAACATTTAAACACCTCA
Found at i:22914459 original size:50 final size:50
Alignment explanation
Indices: 22914345--22914586 Score: 367
Period size: 50 Copynumber: 4.8 Consensus size: 50
22914335 ATAATAACAC
* ** *
22914345 GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGT
* * **
22914396 GCCCATGCCATGTCCCAGACATGATCTTACGGGGGACCTCTCATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
** *
22914446 GCCAGCGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCCCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
*
22914496 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATTTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
22914546 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
22914587 TTACCCAAAT
Statistics
Matches: 172, Mismatches: 19, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
50 141 0.82
51 31 0.18
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.25
Consensus pattern (50 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
Found at i:22914702 original size:13 final size:13
Alignment explanation
Indices: 22914681--22914711 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
22914671 TCTTAGATCA
*
22914681 TCATCAAATAAAT
1 TCATAAAATAAAT
22914694 TCATAAAATAAAT
1 TCATAAAATAAAT
22914707 TCATA
1 TCATA
22914712 GTTGCTGGAA
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:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:22918040 original size:120 final size:120
Alignment explanation
Indices: 22917913--22918205 Score: 473
Period size: 120 Copynumber: 2.4 Consensus size: 120
22917903 AATTATTTTA
* * * *
22917913 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
* * *
22917976 TTATAGTATCATATATTCTGATTTGAGTAAATTCATATAAGAATATTAATTAATAAG
64 TTACAGTATCATATATTATGATTTAAGTAAATTCATATAAGAATATTAATTAATAAG
*
22918033 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATATTTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
22918098 ACAGTATCATATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTAAGTAAATTCATATAAGAATATTAATTAATAAG
22918153 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
22918206 TAAATATGAT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 5 0.03
120 154 0.96
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTAAGTAAATTCATATAAGAATATTAATTAATAAG
Found at i:22918188 original size:16 final size:16
Alignment explanation
Indices: 22918167--22918208 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
22918157 TTATTAAATT
*
22918167 ATATATTTTAATTATA
1 ATATATTTTAATAATA
22918183 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
22918198 AT-TATGTTTAA
1 ATATAT-TTTAA
22918209 ATATGATTAA
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:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:22918193 original size:15 final size:15
Alignment explanation
Indices: 22918158--22918199 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22918148 TTAAGAATTT
*
22918158 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22918172 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22918186 TATTTAATAATAAT
1 TATTTAATTATAAT
22918200 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22918306 original size:157 final size:157
Alignment explanation
Indices: 22918142--22918458 Score: 562
Period size: 157 Copynumber: 2.0 Consensus size: 157
22918132 ATAAGAATAT
*
22918142 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
22918207 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATAATTAAATTATTTATTATTGATAATAATAATATTATTAAAATTTAAATAACAATAACAA
* * *
22918272 TAATAATTTATCAAAACAAATTTCTGC
131 AAATAATTTACCAAAACAAATTTATGC
22918299 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
22918364 AAATATAATTAAATTATTTATTATTGATAATAATAATATTATTAAAATTTAAATAACAATAACAA
66 AAATATAATTAAATTATTTATTATTGATAATAATAATATTATTAAAATTTAAATAACAATAACAA
*
22918429 AAATCATTTACCAAAACAAATTTATGC
131 AAATAATTTACCAAAACAAATTTATGC
22918456 TAA
1 TAA
22918459 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 152 1.00
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATAATTAAATTATTTATTATTGATAATAATAATATTATTAAAATTTAAATAACAATAACAA
AAATAATTTACCAAAACAAATTTATGC
Found at i:22918339 original size:18 final size:17
Alignment explanation
Indices: 22918311--22918345 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22918301 ATTATTAAGA
*
22918311 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
22918328 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
22918346 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:22918627 original size:16 final size:16
Alignment explanation
Indices: 22918616--22918646 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
22918606 ATTCCATTAT
22918616 ACCTCTAATCCAATAA
1 ACCTCTAATCCAATAA
22918632 ACCTCTAATCCAATA
1 ACCTCTAATCCAATA
22918647 CAACAAACTA
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:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (16 bp):
ACCTCTAATCCAATAA
Found at i:22921606 original size:11 final size:11
Alignment explanation
Indices: 22921587--22921663 Score: 65
Period size: 10 Copynumber: 7.2 Consensus size: 11
22921577 ATGGATGCTT
22921587 AATAATTTTTA
1 AATAATTTTTA
*
22921598 AAT-ATTTTTT
1 AATAATTTTTA
*
22921608 AATAAATTTTA
1 AATAATTTTTA
22921619 AA-AATTTTTAA
1 AATAATTTTT-A
22921630 AATAAATTGTTTA
1 AAT-AATT-TTTA
*
22921643 CA-AATTTTT-
1 AATAATTTTTA
22921652 -ATAATTTTTA
1 AATAATTTTTA
22921662 AA
1 AA
22921664 AGTTTTTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
8 1 0.02
9 7 0.13
10 18 0.34
11 18 0.34
13 6 0.11
14 3 0.06
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (11 bp):
AATAATTTTTA
Found at i:22921609 original size:21 final size:20
Alignment explanation
Indices: 22921585--22921671 Score: 79
Period size: 22 Copynumber: 4.1 Consensus size: 20
22921575 AAATGGATGC
22921585 TTAATAATTTTTAAATATTTT
1 TTAATAATTTTTAAA-ATTTT
*
22921606 TTAATAAATTTTAAAAATTTT
1 TTAAT-AATTTTTAAAATTTT
*
22921627 TAAAATAAATTGTTTACAAA-TTT
1 T-TAAT-AATT-TTTA-AAATTTT
22921650 TT-ATAATTTTTAAAAGTTTT
1 TTAATAATTTTTAAAA-TTTT
22921670 TT
1 TT
22921672 TTATTACATT
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
18 3 0.05
19 4 0.07
20 9 0.16
21 13 0.23
22 17 0.30
23 7 0.12
24 3 0.05
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.55
Consensus pattern (20 bp):
TTAATAATTTTTAAAATTTT
Found at i:22921631 original size:10 final size:10
Alignment explanation
Indices: 22921585--22921670 Score: 59
Period size: 10 Copynumber: 8.2 Consensus size: 10
22921575 AAATGGATGC
*
22921585 TTAATAATTT
1 TTAAAAATTT
*
22921595 TTAAATATTTT
1 TTAAA-AATTT
22921606 TTAATAAA-TT
1 TTAA-AAATTT
22921616 TTAAAAATTT
1 TTAAAAATTT
22921626 TTAAAATAAATTGT
1 TT--AA-AAATT-T
*
22921640 TTACAAATTT
1 TTAAAAATTT
*
22921650 TT-ATAATTT
1 TTAAAAATTT
*
22921659 TTAAAAGTTT
1 TTAAAAATTT
22921669 TT
1 TT
22921671 TTTATTACAT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
9 10 0.17
10 24 0.40
11 14 0.23
12 4 0.07
13 5 0.08
14 3 0.05
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (10 bp):
TTAAAAATTT
Found at i:22921647 original size:24 final size:22
Alignment explanation
Indices: 22921587--22921652 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
22921577 ATGGATGCTT
* * *
22921587 AATAATTTTTAAATATTTTT-T
1 AATAAATTTTAAAAATTTTTAA
22921608 AATAAATTTTAAAAATTTTTAA
1 AATAAATTTTAAAAATTTTTAA
*
22921630 AATAAATTGTTTACAAATTTTTA
1 AATAAA-T-TTTAAAAATTTTTA
22921653 TAATTTTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 18 0.47
22 6 0.16
23 1 0.03
24 13 0.34
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
AATAAATTTTAAAAATTTTTAA
Found at i:22929380 original size:22 final size:24
Alignment explanation
Indices: 22929340--22929394 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 24
22929330 ATGAATGCAT
22929340 GAAAAACACATGTAAAAATGAAAA
1 GAAAAACACATGTAAAAATGAAAA
**
22929364 -AAAAACAC-TGTGCAAATGAAAA
1 GAAAAACACATGTAAAAATGAAAA
22929386 GTAAAAACA
1 G-AAAAACA
22929395 AAAGCTTGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 12 0.44
23 8 0.30
24 7 0.26
ACGTcount: A:0.64, C:0.11, G:0.13, T:0.13
Consensus pattern (24 bp):
GAAAAACACATGTAAAAATGAAAA
Found at i:22929502 original size:3 final size:3
Alignment explanation
Indices: 22929494--22929527 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
22929484 TATTGGCACC
22929494 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
22929528 TTGATTTCGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:22934599 original size:16 final size:16
Alignment explanation
Indices: 22934578--22934609 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22934568 GTTTTGTTGC
*
22934578 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
22934594 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
22934610 CTTTTAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:22934895 original size:51 final size:51
Alignment explanation
Indices: 22934827--22935027 Score: 239
Period size: 51 Copynumber: 4.0 Consensus size: 51
22934817 ATTAATGATA
* * * *
22934827 CCGGTTCACATAGTAGCCTGCACATAGTACTAAACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
* *
22934878 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTAT
*** * *
22934929 CCGGTACGTATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-T
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTAT
*
22934979 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
22935028 TTCACTTTCA
Statistics
Matches: 125, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
49 4 0.03
50 41 0.33
51 77 0.62
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:22935015 original size:101 final size:102
Alignment explanation
Indices: 22934836--22935019 Score: 309
Period size: 101 Copynumber: 1.8 Consensus size: 102
22934826 ACCGGTTCAC
*
22934836 ATAGTAGCCTGCACATAGTACTAAACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCAC
1 ATAGTAGCCTGCACATAGTACTAAACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCAC
22934901 ATAGTACTACACACGTGATCGAAGCTATCCGGTACGT
66 ATAGTACTACACACGTGATCGAAGCTATCCGGTACGT
* * *
22934938 ATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGCA
1 ATAGTAGCCTGCACATAGTACTAAACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTGCA
22935001 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
22935020 CCATCACTTT
Statistics
Matches: 77, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
101 40 0.52
102 33 0.43
103 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (102 bp):
ATAGTAGCCTGCACATAGTACTAAACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCCGGTACGT
Found at i:22953932 original size:11 final size:11
Alignment explanation
Indices: 22953916--22953954 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
22953906 GTAGGAAACT
22953916 TTTTTTTGCGG
1 TTTTTTTGCGG
22953927 TTTTTTTGCGG
1 TTTTTTTGCGG
*
22953938 TTTTTTTTGCAG
1 -TTTTTTTGCGG
22953950 TTTTT
1 TTTTT
22953955 GCTTTTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.03, C:0.08, G:0.21, T:0.69
Consensus pattern (11 bp):
TTTTTTTGCGG
Found at i:22953932 original size:12 final size:12
Alignment explanation
Indices: 22953915--22953954 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
22953905 GGTAGGAAAC
22953915 TTTTTTTTGCGG
1 TTTTTTTTGCGG
22953927 -TTTTTTTGCGG
1 TTTTTTTTGCGG
*
22953938 TTTTTTTTGCAG
1 TTTTTTTTGCGG
22953950 TTTTT
1 TTTTT
22953955 GCTTTTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 11 0.42
12 15 0.58
ACGTcount: A:0.03, C:0.07, G:0.20, T:0.70
Consensus pattern (12 bp):
TTTTTTTTGCGG
Found at i:22954316 original size:18 final size:18
Alignment explanation
Indices: 22954293--22954327 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
22954283 GTATTGGTTT
22954293 TGGTGTTGGTTTTGATTC
1 TGGTGTTGGTTTTGATTC
22954311 TGGTGTTGGTTTTGATT
1 TGGTGTTGGTTTTGATT
22954328 GCTAATATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.06, C:0.03, G:0.34, T:0.57
Consensus pattern (18 bp):
TGGTGTTGGTTTTGATTC
Found at i:22960353 original size:76 final size:76
Alignment explanation
Indices: 22960273--22960477 Score: 215
Period size: 76 Copynumber: 2.7 Consensus size: 76
22960263 TTGCTTCTCA
* * **
22960273 TTTTTTGGTAAATTGTAAATAAATATATATTATTGA-A-AAGGCATATGATAGAATACAATACAA
1 TTTTTTCGTAAATTGTAAATAAATATATATTATTGATATAA--AATACAATAGAATACAATACAA
22960336 ACAATTTTTGATT
64 ACAATTTTTGATT
* * * * *
22960349 TTTTTTCTTAGATTGTAAATAAGTGTATATTATTGATATAAAATACAATAGAGTACAATACAAAC
1 TTTTTTCGTAAATTGTAAATAAATATATATTATTGATATAAAATACAATAGAATACAATACAAAC
22960414 AATTTTT--TT
66 AATTTTTGATT
* *
22960423 TAATTTCTTCTGTAGATTGTAAAT-AA-GTATATTATTGATATAAAATACAATAGAA
1 T--TTT-TTC-GTAAATTGTAAATAAATATATATTATTGATATAAAATACAATAGAA
22960478 AAACTTTTTT
Statistics
Matches: 111, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
74 3 0.03
76 89 0.80
77 5 0.05
78 14 0.13
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (76 bp):
TTTTTTCGTAAATTGTAAATAAATATATATTATTGATATAAAATACAATAGAATACAATACAAAC
AATTTTTGATT
Found at i:22967844 original size:50 final size:50
Alignment explanation
Indices: 22967720--22967961 Score: 202
Period size: 50 Copynumber: 4.7 Consensus size: 50
22967710 GATAATAACA
* ** * **
22967720 TGCCAAAT-CCATGTCCCAGACATGGTCTTACATGAGATTTTTC-T-TGCAC
1 TGCC-AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * **
22967769 TACCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** * *
22967819 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTATCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
22967869 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* *
22967925 TGCCAATGCCATGTTCCAAACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
22967962 TCTCATCACC
Statistics
Matches: 154, Mismatches: 30, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
48 3 0.02
49 32 0.21
50 81 0.53
51 1 0.01
53 2 0.01
56 35 0.23
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:22988997 original size:37 final size:37
Alignment explanation
Indices: 22988894--22989075 Score: 307
Period size: 37 Copynumber: 5.0 Consensus size: 37
22988884 TACGTATGAT
* *
22988894 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
22988929 CACCTATCACTTTGTTTC-TGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
22988965 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
22989002 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
22989039 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
22989076 TAAAGCTATT
Statistics
Matches: 140, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
35 9 0.06
36 38 0.27
37 93 0.66
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:22989093 original size:46 final size:46
Alignment explanation
Indices: 22989039--22989412 Score: 304
Period size: 46 Copynumber: 7.6 Consensus size: 46
22989029 TAAGTGTAGC
* * **
22989039 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
22989085 TACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
22989131 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * * * *
22989183 CACTTATCACTTTCCACTTTCCACTTG-TCACTTGATCAG-ATAAG-TGTAGCTGAAG
1 CACTTATCAC-TT----TGT-CACTTGATCA---GATAAGTAT-AGCCGAAGCT--AT
**
22989238 CTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 C-A-CTT--ATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
22989288 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * ** *
22989334 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
22989386 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
22989413 AGTACTCAAA
Statistics
Matches: 270, Mismatches: 28, Indels: 60
0.75 0.08 0.17
Matches are distributed among these distances:
46 117 0.43
47 1 0.00
48 2 0.01
49 2 0.01
50 5 0.02
51 12 0.04
52 96 0.36
53 12 0.04
54 12 0.04
55 2 0.01
56 1 0.00
57 1 0.00
58 2 0.01
59 5 0.02
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:22989152 original size:52 final size:52
Alignment explanation
Indices: 22989086--22989406 Score: 378
Period size: 46 Copynumber: 6.2 Consensus size: 52
22989076 TAAAGCTATT
* *
22989086 ACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
1 ACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
*
22989139 ACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATC
1 ACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
* *
22989191 ACTTTCCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATC
1 AC--T----TTT-CACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
22989250 AC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
1 ACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
*
22989296 AC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATC
1 ACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
* * ** *
22989342 ACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
1 ACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
22989394 ACTTTGTCACTTG
1 ACTTT-TCACTTG
22989407 ATCAGAAGTA
Statistics
Matches: 240, Mismatches: 14, Indels: 28
0.85 0.05 0.10
Matches are distributed among these distances:
46 88 0.37
50 1 0.00
52 86 0.36
53 14 0.06
54 1 0.00
58 3 0.01
59 47 0.20
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
ACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
Found at i:22989201 original size:59 final size:58
Alignment explanation
Indices: 22989128--22989254 Score: 218
Period size: 59 Copynumber: 2.2 Consensus size: 58
22989118 TAGCCGAAGC
*
22989128 TATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTT-TCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
*
22989187 TATCACTTTCCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTT-CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
22989246 TATCACTTT
1 TATCACTTT
22989255 GTCACTTGAT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
58 1 0.02
59 64 0.98
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (58 bp):
TATCACTTTCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:22992593 original size:49 final size:49
Alignment explanation
Indices: 22992538--22992732 Score: 300
Period size: 49 Copynumber: 4.0 Consensus size: 49
22992528 TTCGTTTTCT
* * *
22992538 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
* * *
22992587 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
* *
22992636 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
*
22992685 CGATGCCATAGCCCAGCTTTGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACA-AATCACAT
22992733 GTTCACATGT
Statistics
Matches: 136, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 130 0.96
50 6 0.04
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.25
Consensus pattern (49 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
Found at i:22994086 original size:37 final size:37
Alignment explanation
Indices: 22993983--22994164 Score: 307
Period size: 37 Copynumber: 5.0 Consensus size: 37
22993973 TACGTATGAT
* *
22993983 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
22994018 CACCTATCACTTTGTTTC-TGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
22994054 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
22994091 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
22994128 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
22994165 TAAAGCTATT
Statistics
Matches: 140, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
35 9 0.06
36 38 0.27
37 93 0.66
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:22994182 original size:46 final size:46
Alignment explanation
Indices: 22994128--22994497 Score: 296
Period size: 46 Copynumber: 7.5 Consensus size: 46
22994118 TAAGTGTAGC
* * **
22994128 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
22994174 TACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
22994220 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * * * *
22994272 CACTTATCACTTTCCACTTTCCACTTG-TCACTTGATCAG-ATAAG-TGTAGCTGAAG
1 CACTTATCAC-TT----TGT-CACTTGATCA---GATAAGTAT-AGCCGAAGCT--AT
**
22994327 CTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 C-A-CTT--ATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
22994377 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * ** *
22994423 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
22994475 CACTTATCACTTTGTCACTTGAT
1 CACTTATCACTTTGTCACTTGAT
22994498 NNNNNNNNNN
Statistics
Matches: 266, Mismatches: 28, Indels: 60
0.75 0.08 0.17
Matches are distributed among these distances:
46 113 0.42
47 1 0.00
48 2 0.01
49 2 0.01
50 5 0.02
51 12 0.05
52 96 0.36
53 12 0.05
54 12 0.05
55 2 0.01
56 1 0.00
57 1 0.00
58 2 0.01
59 5 0.02
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:22994241 original size:52 final size:52
Alignment explanation
Indices: 22994175--22994495 Score: 378
Period size: 46 Copynumber: 6.2 Consensus size: 52
22994165 TAAAGCTATT
* *
22994175 ACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
1 ACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
*
22994228 ACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATC
1 ACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
* *
22994280 ACTTTCCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATC
1 AC--T----TTT-CACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
22994339 AC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
1 ACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
*
22994385 AC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATC
1 ACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
* * ** *
22994431 ACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
1 ACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
22994483 ACTTTGTCACTTG
1 ACTTT-TCACTTG
22994496 ATNNNNNNNN
Statistics
Matches: 240, Mismatches: 14, Indels: 28
0.85 0.05 0.10
Matches are distributed among these distances:
46 88 0.37
50 1 0.00
52 86 0.36
53 14 0.06
54 1 0.00
58 3 0.01
59 47 0.20
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
ACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATC
Found at i:22994290 original size:59 final size:58
Alignment explanation
Indices: 22994217--22994343 Score: 218
Period size: 59 Copynumber: 2.2 Consensus size: 58
22994207 TAGCCGAAGC
*
22994217 TATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTT-TCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
*
22994276 TATCACTTTCCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTT-CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
22994335 TATCACTTT
1 TATCACTTT
22994344 GTCACTTGAT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
58 1 0.02
59 64 0.98
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (58 bp):
TATCACTTTCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:22996406 original size:17 final size:18
Alignment explanation
Indices: 22996373--22996406 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22996363 TAACATATAA
22996373 GACATAATTATAATGCAT
1 GACATAATTATAATGCAT
22996391 GACATAATTA-AATGCA
1 GACATAATTATAATGCA
22996407 AATTGAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (18 bp):
GACATAATTATAATGCAT
Found at i:23000909 original size:10 final size:9
Alignment explanation
Indices: 23000886--23000937 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 9
23000876 CGTAAAGGAG
23000886 AAAAGAAAA
1 AAAAGAAAA
23000895 AAAAGAAAA
1 AAAAGAAAA
23000904 ACAAAGAAAA
1 A-AAAGAAAA
23000914 ATGAGAAGCAAAA
1 A--A-AAG-AAAA
23000927 AAAA-AAAA
1 AAAAGAAAA
23000935 AAA
1 AAA
23000938 CCCAAGTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
8 7 0.18
9 10 0.26
10 11 0.29
11 2 0.05
12 3 0.08
13 5 0.13
ACGTcount: A:0.83, C:0.04, G:0.12, T:0.02
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:23003994 original size:24 final size:24
Alignment explanation
Indices: 23003966--23004029 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
23003956 TTTCTACAAG
* *
23003966 ATTTAATATTGATTAGTATAATAT
1 ATTTAACATTGATTAGCATAATAT
*
23003990 ATTTAACATTTATTAGCATAATAT
1 ATTTAACATTGATTAGCATAATAT
* *
23004014 ATTTGACATTAATTAG
1 ATTTAACATTGATTAG
23004030 AATTAGGTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.47
Consensus pattern (24 bp):
ATTTAACATTGATTAGCATAATAT
Found at i:23005969 original size:3 final size:3
Alignment explanation
Indices: 23005957--23006047 Score: 175
Period size: 3 Copynumber: 30.7 Consensus size: 3
23005947 AAGGAATATG
23005957 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23006004 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
23006048 GTCAAGTGAT
Statistics
Matches: 87, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 85 0.98
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:23008791 original size:9 final size:9
Alignment explanation
Indices: 23008777--23008807 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
23008767 GTTAAACGAA
23008777 TCGAGTTAT
1 TCGAGTTAT
*
23008786 TCGAGTTAA
1 TCGAGTTAT
23008795 TCGAGTTAT
1 TCGAGTTAT
23008804 TCGA
1 TCGA
23008808 ATCAACTCGA
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:23008878 original size:9 final size:9
Alignment explanation
Indices: 23008861--23008897 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
23008851 TGAGTTGTCG
23008861 AATTCGAAT
1 AATTCGAAT
*
23008870 AACTCGAAT
1 AATTCGAAT
23008879 AATTCGAAT
1 AATTCGAAT
23008888 AATTCGAAT
1 AATTCGAAT
23008897 A
1 A
23008898 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:23013736 original size:19 final size:18
Alignment explanation
Indices: 23013712--23013773 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
23013702 ACATAATTAT
*
23013712 ATAATTTATAATTTTAAAA
1 ATAA-TTATAATTATAAAA
*
23013731 ATAATTATTATTATAAAAA
1 ATAATTATAATTAT-AAAA
* *
23013750 ATTATTAGT-ATGATAAAA
1 ATAATTA-TAATTATAAAA
23013768 ATAATT
1 ATAATT
23013774 TTTAGTCAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 17 0.47
19 18 0.50
20 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
ATAATTATAATTATAAAA
Found at i:23016425 original size:25 final size:25
Alignment explanation
Indices: 23016397--23016476 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
23016387 ATTACAACGA
* *
23016397 CTTTCTAGATGATTCGCTACAAAAG
1 CTTTCTAGATGATTCGCCATAAAAG
* * * * *
23016422 CTTTCCAAATGATACACCATAAAGG
1 CTTTCTAGATGATTCGCCATAAAAG
23016447 CTTTCTAGA-GAATTCGCCATAAAAG
1 CTTTCTAGATG-ATTCGCCATAAAAG
23016472 CTTTC
1 CTTTC
23016477 CAGAGAATTT
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (25 bp):
CTTTCTAGATGATTCGCCATAAAAG
Found at i:23016501 original size:25 final size:25
Alignment explanation
Indices: 23016442--23016511 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
23016432 GATACACCAT
*
23016442 AAAGGCTTTCTAGAGAATTCGCCAT
1 AAAGGCTTTCTAGAGAATTCGCCAC
* * *
23016467 AAAAGCTTTCCAGAGAATTTGCCAC
1 AAAGGCTTTCTAGAGAATTCGCCAC
* *
23016492 AAAGGTTTTCTAAAGAATTC
1 AAAGGCTTTCTAGAGAATTC
23016512 TCGAGTTTAC
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAGGCTTTCTAGAGAATTCGCCAC
Found at i:23017516 original size:22 final size:21
Alignment explanation
Indices: 23017486--23017526 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
23017476 CCCCAAACAC
*
23017486 AAATACAGAATACATATGCAA
1 AAATACAGAATACACATGCAA
23017507 AAATAACAGAATACACATGC
1 AAAT-ACAGAATACACATGC
23017527 TTAACATGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.56, C:0.17, G:0.10, T:0.17
Consensus pattern (21 bp):
AAATACAGAATACACATGCAA
Found at i:23022405 original size:131 final size:131
Alignment explanation
Indices: 23022168--23022424 Score: 372
Period size: 131 Copynumber: 2.0 Consensus size: 131
23022158 TGAAACATCG
* * *
23022168 AAAATAAAGAACATACTCATGATCACATCAGGGGCATCTCTTTCCTCTCAACGTCGAGCAGCATA
1 AAAATAAAGAACATACCCATGATCACATCAGGGGCATCTCTGTCCTCTCAACGTCAAGCAGCATA
* *
23022233 AACCAGTGCAAGCTACCTCGCCTCAGTTTGATTAGTACCTCTGCCCAGTACTCTCTGTCATCGGT
66 AACCAGTGCAAGCTACCTCGCCTCAGTCTAATTAGTACCTCTGCCCAGTACTCTCTGTCATCGGT
23022298 A
131 A
* * * *
23022299 AAAATAAAGAACGTACCCGTGATCACATCAGGGGCATCTCTGTCCTCTCGACGTCAAGCAGTATA
1 AAAATAAAGAACATACCCATGATCACATCAGGGGCATCTCTGTCCTCTCAACGTCAAGCAGCATA
* * * **
23022364 AACCAGTGCAGGCTACCTCGCCTTAGTCTAATTAGCT-CCTCTGCCCGGTGTTCTCTGTCAT
66 AACCAGTGCAAGCTACCTCGCCTCAGTCTAATTAG-TACCTCTGCCCAGTACTCTCTGTCAT
23022425 TAACCCATAC
Statistics
Matches: 111, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
131 110 0.99
132 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (131 bp):
AAAATAAAGAACATACCCATGATCACATCAGGGGCATCTCTGTCCTCTCAACGTCAAGCAGCATA
AACCAGTGCAAGCTACCTCGCCTCAGTCTAATTAGTACCTCTGCCCAGTACTCTCTGTCATCGGT
A
Found at i:23023701 original size:25 final size:25
Alignment explanation
Indices: 23023655--23023705 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
23023645 TTAGTCTCTA
23023655 ACTAACTCAGTATAGTTTCAGAAAGT
1 ACTAACTCAGTATA-TTTCAGAAAGT
23023681 ACTAACTACAGTAT-TTTCAGAAAGT
1 ACTAACT-CAGTATATTTCAGAAAGT
23023706 TCTATCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 11 0.46
26 7 0.29
27 6 0.25
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (25 bp):
ACTAACTCAGTATATTTCAGAAAGT
Found at i:23025084 original size:67 final size:67
Alignment explanation
Indices: 23024976--23025106 Score: 228
Period size: 67 Copynumber: 2.0 Consensus size: 67
23024966 TTTTCAATTC
*
23024976 AGAGAGCACACTTCCGCGAACCTCATTTCTTACAGCGGGATTACCAATCCAGGCTAAATCCCCTA
1 AGAGAGCACACTTCCGCGAACCTCATTTCTTACAGCAGGATTACCAATCCAGGCTAAATCCCCTA
23025041 CA
66 CA
*
23025043 AGAGAGCACAC-TCTCGCGAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCT
1 AGAGAGCACACTTC-CGCGAACCTCATTTCTTACAGCAGGATTACCAATCCAGGCTAAATCCCCT
23025107 GTAATATAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
66 2 0.03
67 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (67 bp):
AGAGAGCACACTTCCGCGAACCTCATTTCTTACAGCAGGATTACCAATCCAGGCTAAATCCCCTA
CA
Found at i:23025326 original size:57 final size:60
Alignment explanation
Indices: 23025249--23025378 Score: 149
Period size: 57 Copynumber: 2.2 Consensus size: 60
23025239 TCTGGACTAA
* * * *
23025249 ATCCATTTTCCACATATTCTTTGAGAGAGCTATATC-A-A-GATCACCCGTCCAGGCTAG
1 ATCCTTTTTACACATATTCTTCGAGAGAGATATATCGATAGGATCACCCGTCCAGGCTAG
* * * *
23025306 ATCTTTTTTACACATATTCTTCGGGAGGGATATATCAGGATAGGATCACCCGTCCGGGCTAG
1 ATCCTTTTTACACATATTCTTCGAGAGAGATATATC--GATAGGATCACCCGTCCAGGCTAG
23025368 ATCCTTTTTAC
1 ATCCTTTTTAC
23025379 TGTCAATTCC
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
57 29 0.49
60 1 0.02
61 1 0.02
62 28 0.47
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (60 bp):
ATCCTTTTTACACATATTCTTCGAGAGAGATATATCGATAGGATCACCCGTCCAGGCTAG
Found at i:23028334 original size:13 final size:13
Alignment explanation
Indices: 23028316--23028340 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23028306 AGCCTAGCCT
23028316 GTGTGGCATGTCC
1 GTGTGGCATGTCC
23028329 GTGTGGCATGTC
1 GTGTGGCATGTC
23028341 AATGTGGGTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.20, G:0.40, T:0.32
Consensus pattern (13 bp):
GTGTGGCATGTCC
Found at i:23038227 original size:14 final size:14
Alignment explanation
Indices: 23038208--23038241 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
23038198 GCTTGTAGGA
23038208 AACTTTGACTATCG
1 AACTTTGACTATCG
23038222 AACTTTGACTATCG
1 AACTTTGACTATCG
23038236 AACTTT
1 AACTTT
23038242 TTGTTACAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (14 bp):
AACTTTGACTATCG
Found at i:23042204 original size:8 final size:7
Alignment explanation
Indices: 23042178--23042203 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
23042168 GGGTAATGCC
23042178 TTTTTCT
1 TTTTTCT
23042185 TTTTTCT
1 TTTTTCT
23042192 TTTTTCT
1 TTTTTCT
23042199 TTTTT
1 TTTTT
23042204 TACTTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:23042474 original size:58 final size:58
Alignment explanation
Indices: 23042405--23042521 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
23042395 AATGAACAAA
23042405 TTATTTCCTATATGTTTAAAAAGCTTACATTTTAGTCCCTGCACGTTAATTTTGTTGT
1 TTATTTCCTATATGTTTAAAAAGCTTACATTTTAGTCCCTGCACGTTAATTTTGTTGT
23042463 TTATTTCCTATATGTTTAAAAAGCTTACATTTTAGTCCCTGCACGTTAATTTTGTTGT
1 TTATTTCCTATATGTTTAAAAAGCTTACATTTTAGTCCCTGCACGTTAATTTTGTTGT
23042521 T
1 T
23042522 GGTGAATGAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (58 bp):
TTATTTCCTATATGTTTAAAAAGCTTACATTTTAGTCCCTGCACGTTAATTTTGTTGT
Found at i:23048297 original size:27 final size:24
Alignment explanation
Indices: 23048241--23048289 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
23048231 CAAAGGGAAA
*
23048241 AAAAGAAAGAAAAAATATTGCAGT
1 AAAAGAAAGAAAAAAAATTGCAGT
23048265 AAAAGAAAGGAAAAAAAATT-CAGT
1 AAAAGAAA-GAAAAAAAATTGCAGT
23048289 A
1 A
23048290 GCCAAAGAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.65, C:0.04, G:0.16, T:0.14
Consensus pattern (24 bp):
AAAAGAAAGAAAAAAAATTGCAGT
Found at i:23051012 original size:100 final size:100
Alignment explanation
Indices: 23050825--23051196 Score: 462
Period size: 100 Copynumber: 3.7 Consensus size: 100
23050815 AGAATTTAAG
* * * * * * * *
23050825 ATCTTATCTCCTTGGCGATGCAGTGGAGCAGATTAAAGCCACGACGGCGTATCTTGCTTCCCCGA
1 ATCTTACCTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
* * * *
23050890 CATTGCAGTTAAAAAGACTAAAGCCACAGCGGCGA
66 CATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
* * * * *
23050925 GTGTTACTTCCCTGGCGATGCAGTCGAATAGATTAAAGCCACAACGGTGAATCTTG-CTCCCCTG
1 ATCTTACCTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCT-CCCTG
**
23050989 ACATTGCGGTTAAAAAGATTAAAGCTACAATAGCGA
65 ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
** * *
23051025 ATCTTACCTCCAAGGAGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
1 ATCTTACCTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
23051090 CATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
66 CATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
* * * *
23051125 ATCCTACCT-CCTAGGCGGTGCAGTGGAACAGATTAAAGCCA-TACAGTGAATCTTGCCTCCCTG
1 ATCTTACCTCCCT-GGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
23051188 ACATTGCGG
65 ACATTGCGG
23051197 CTACAACAGG
Statistics
Matches: 233, Mismatches: 36, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
99 31 0.13
100 200 0.86
101 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (100 bp):
ATCTTACCTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
CATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
Found at i:23051127 original size:50 final size:50
Alignment explanation
Indices: 23050854--23051194 Score: 215
Period size: 50 Copynumber: 6.8 Consensus size: 50
23050844 GCAGTGGAGC
* * * * *
23050854 AGATTAAAGCCACGACGGCGTATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACATTGCAGTTAAAA
* * * * * * * * ** *
23050904 AGACTAAAGCCACAGCGGCGAGTGTTACTTCCCTGGCGA-TGCAGTCGAAT
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGAC-ATTGCAGTTAAAA
* * *
23050954 AGATTAAAGCCACAACGGTGAATCTTG-CTCCCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTGCCT-CCCTGACATTGCAGTTAAAA
* * * ** ** ** *
23051004 AGATTAAAGCTACAATAGCGAATCTTACCTCCAAGGA-GGTGCAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCC-CTGACATTGCAGTTAAAA
* * *
23051054 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACATTGCAGTTAAAA
* * * * * ** ** *
23051104 AGATTAAAGCTACAGCAGCGAATCCTACCT-CCTAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCCCT-GACATTGCAGTTAAAA
* *
23051154 AGATTAAAGCCA-TACAGTGAATCTTGCCTCCCTGACATTGC
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACATTGC
23051195 GGCTACAACA
Statistics
Matches: 211, Mismatches: 72, Indels: 17
0.70 0.24 0.06
Matches are distributed among these distances:
49 24 0.11
50 182 0.86
51 5 0.02
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (50 bp):
AGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACATTGCAGTTAAAA
Found at i:23055698 original size:3 final size:3
Alignment explanation
Indices: 23055690--23055738 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
23055680 TATTCAGTAA
* *
23055690 TAT TAT TAT TAAT CTAT TAG TAT TAT TAA T-T TAT TAT TAT TAT TAT
1 TAT TAT TAT T-AT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23055736 TAT
1 TAT
23055739 CACCGTTGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 1 0.03
3 33 0.85
4 4 0.10
5 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:23055715 original size:17 final size:17
Alignment explanation
Indices: 23055693--23055734 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
23055683 TCAGTAATAT
23055693 TATTATTAATCTATTAG
1 TATTATTAATCTATTAG
* *
23055710 TATTATTAATTTATTAT
1 TATTATTAATCTATTAG
23055727 TATTATTA
1 TATTATTA
23055735 TTATCACCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (17 bp):
TATTATTAATCTATTAG
Found at i:23055778 original size:12 final size:12
Alignment explanation
Indices: 23055747--23055784 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
23055737 ATCACCGTTG
23055747 TTACTATTGATA
1 TTACTATTGATA
*
23055759 TTATTATTGATA
1 TTACTATTGATA
*
23055771 TTGCTATT-ATA
1 TTACTATTGATA
23055782 TTA
1 TTA
23055785 GTTTGTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (12 bp):
TTACTATTGATA
Found at i:23055794 original size:23 final size:24
Alignment explanation
Indices: 23055750--23055795 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
23055740 ACCGTTGTTA
*
23055750 CTATTGATATTATTATTGATATTG
1 CTATTGATATTAGTATTGATATTG
23055774 CTATT-ATATTAGT-TTGTATATT
1 CTATTGATATTAGTATTG-ATATT
23055796 TAATTGCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 12 0.60
24 5 0.25
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.57
Consensus pattern (24 bp):
CTATTGATATTAGTATTGATATTG
Found at i:23060568 original size:18 final size:17
Alignment explanation
Indices: 23060541--23060574 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
23060531 AAAAGAAGAA
23060541 AAAGAAAAATCAAAATC
1 AAAGAAAAATCAAAATC
*
23060558 AAAGTAAAAATGAAAAT
1 AAAG-AAAAATCAAAAT
23060575 GAAAAAAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.71, C:0.06, G:0.09, T:0.15
Consensus pattern (17 bp):
AAAGAAAAATCAAAATC
Found at i:23060591 original size:18 final size:17
Alignment explanation
Indices: 23060570--23060606 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
23060560 AGTAAAAATG
*
23060570 AAAATGAAAAAAGAGAAA
1 AAAAAGAAAAAAG-GAAA
23060588 AAAAAGAAAAAAGGAAA
1 AAAAAGAAAAAAGGAAA
23060605 AA
1 AA
23060607 GAAATGGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAAAGGAAA
Found at i:23062011 original size:44 final size:43
Alignment explanation
Indices: 23061918--23062288 Score: 204
Period size: 44 Copynumber: 8.5 Consensus size: 43
23061908 GCCAGAAATA
* * * *
23061918 TTATCTCCCTGAGATTACAGCGGAGTAGATT-GAAGCTAGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATC-AG-GATC
* * *
23061962 CTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATC
1 TTATCTCCCTGAGATTACAGTGGAGTAGATTAAAAT-CAGGATC
* * * *
23062006 TTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCACATCAGG-TC
1 TTATCTCCCTGAGA-TTACAGTGGAGTAGATTAAAATCAGGATC
* * **
23062047 TTGTCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCA-GATC
1 TTATCTCCCTGAGATTACAGTGGAGTAGA-TTAA-AA--TCAGGATC
**** * * * *
23062093 TTATCTCCCTGAGATTACAACAAAGCAGATT-GAAGCTGGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATCAGG--ATC
* * *
23062137 CTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATC
1 TTATCTCCCTGAGATTACAGTGGAGTAGATTAAAAT-CAGGATC
* * ***
23062181 TTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCATCAGG-TC
1 TTATCTCCCTGAGA-TTACAGTGGAGTAGATTAAAATCAGGATC
* * **
23062222 TTATCTCTCTGAGATTACAGTGGAATAGACCGAAGAATTTACA-GATC
1 TTATCTCCCTGAGATTACAGTGGAGTAGA-TTAA-AA--T-CAGGATC
23062269 TTATCTCCCTGAGATTACAG
1 TTATCTCCCTGAGATTACAG
23062289 CGGACAGATT
Statistics
Matches: 244, Mismatches: 59, Indels: 45
0.70 0.17 0.13
Matches are distributed among these distances:
41 53 0.22
42 9 0.04
43 12 0.05
44 109 0.45
45 7 0.03
46 31 0.13
47 23 0.09
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (43 bp):
TTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATCAGGATC
Found at i:23062012 original size:88 final size:88
Alignment explanation
Indices: 23061918--23062304 Score: 303
Period size: 88 Copynumber: 4.4 Consensus size: 88
23061908 GCCAGAAATA
*
23061918 TTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGT
1 TTATCTCCCTGAGATTACAGCAGAGTAGATTGAAGCTAG--ATCCTATCTCCCTGAGATTACAGT
* * **
23061983 GGAGTGGA-TTAA-AA-TAAAGGATC
64 GGAATAGACCGAAGAATTAAA-GATC
* * * * * * *
23062006 TTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCACATC-AGGTCTTGTCTCCCTGAGATTACAGT
1 TTATCTCCCTGAGA-TTACAGCAGAGTAGATTGA-AGCTAGATCCTATCTCCCTGAGATTACAGT
**
23062068 GGAATAGACCGAAGAATTTCAGATC
64 GGAATAGACCGAAGAATTAAAGATC
* * * *
23062093 TTATCTCCCTGAGATTACAACAAAGCAGATTGAAGCTGGTAATCCTATCTCCCTGAGATTACAGT
1 TTATCTCCCTGAGATTACAGCAGAGTAGATTGAAGCTAG--ATCCTATCTCCCTGAGATTACAGT
* * **
23062158 GGAGTGGA-TTAA-AA-TAAAGGATC
64 GGAATAGACCGAAGAATTAAA-GATC
* * * * * * * *
23062181 TTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATC-AGGTCTTATCTCTCTGAGATTACAGTG
1 TTATCTCCCTGAGA-TTACAGCAGAGTAGATTGAAGCTAGATCCTATCTCCCTGAGATTACAGTG
*
23062244 GAATAGACCGAAGAATTTACAGATC
65 GAATAGACCGAAGAA-TTAAAGATC
* *
23062269 TTATCTCCCTGAGATTACAGCGGA-CAGATTGAAGCT
1 TTATCTCCCTGAGATTACAGCAGAGTAGATTGAAGCT
23062305 NNNNNNNNNN
Statistics
Matches: 226, Mismatches: 55, Indels: 36
0.71 0.17 0.11
Matches are distributed among these distances:
85 54 0.24
86 4 0.02
87 48 0.21
88 87 0.38
89 6 0.03
90 27 0.12
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (88 bp):
TTATCTCCCTGAGATTACAGCAGAGTAGATTGAAGCTAGATCCTATCTCCCTGAGATTACAGTGG
AATAGACCGAAGAATTAAAGATC
Found at i:23062070 original size:85 final size:85
Alignment explanation
Indices: 23061963--23062245 Score: 311
Period size: 85 Copynumber: 3.3 Consensus size: 85
23061953 CTAGTAATCC
23061963 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
23062028 GAGTAGATCACATCAGGTCT
66 GAGTAGATCACATCAGGTCT
* * * ** ** *
23062048 TGTCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCA-GATCTTATCTCCCTG-AGATTAC
1 TATCTCCCTGAGATTACAGTGGAGTGGA-TTAA-AA-TAAAGGATCTTATCTCTCTGAAG-TTAC
** * * * * * *
23062111 AACAAAGCAGATTGA-AGCTGGTAATCC
62 AGTAGAGTAGA-TCACATCAGG---TCT
23062138 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
*
23062203 GAGTAGATCGCATCAGGTCT
66 GAGTAGATCACATCAGGTCT
*
23062223 TATCTCTCTGAGATTACAGTGGA
1 TATCTCCCTGAGATTACAGTGGA
23062246 ATAGACCGAA
Statistics
Matches: 153, Mismatches: 34, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
85 49 0.32
86 4 0.03
87 34 0.22
88 35 0.23
89 4 0.03
90 27 0.18
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (85 bp):
TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
GAGTAGATCACATCAGGTCT
Found at i:23062209 original size:175 final size:176
Alignment explanation
Indices: 23061918--23062304 Score: 688
Period size: 175 Copynumber: 2.2 Consensus size: 176
23061908 GCCAGAAATA
*
23061918 TTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGT
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGT
23061983 GGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTCT
66 GGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTCT
*
23062048 TGTCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTT-CAGATC
131 TATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTACAGATC
* ** *
23062093 TTATCTCCCTGAGATTACAACAAAGCAGATTGAAGCTGGTAATCCTATCTCCCTGAGATTACAGT
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGT
*
23062158 GGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
66 GGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTCT
*
23062223 TATCTCTCTGAGATTACAGTGGAATAGACCGAAGAATTTACAGATC
131 TATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTACAGATC
23062269 TTATCTCCCTGAGATTACAGCGGA-CAGATTGAAGCT
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT
23062305 NNNNNNNNNN
Statistics
Matches: 200, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
175 173 0.87
176 27 0.14
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (176 bp):
TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGT
GGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTCT
TATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTACAGATC
Found at i:23063534 original size:50 final size:50
Alignment explanation
Indices: 23063408--23063621 Score: 137
Period size: 50 Copynumber: 4.3 Consensus size: 50
23063398 NNNNNNNNNC
* * * * *
23063408 CCCTGACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGAATCTTACCT
1 CCCTGACATTGCAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTGCCT
* * * * * * *
23063458 -CC-AACGTGGTGCAGTGGAACACATTAAAGCCACAACGGTGAATCTTGCCT
1 CCCTGACAT--TGCAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTGCCT
* * ** * *
23063508 CCCTGACATTGCGGTTAAAAAGATTAAAGTGATAGCAGCGAATC-TGACCT
1 CCCTGACATTGCAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTG-CCT
* * ** * * * * *
23063558 CCCAGGCGGTGCAGTGGAACAGATTAAAGCCATAACGGTGAATCTTGCCT
1 CCCTGACATTGCAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTGCCT
23063608 CCCTGACATTGCAG
1 CCCTGACATTGCAG
23063622 CTACAGCAGC
Statistics
Matches: 116, Mismatches: 42, Indels: 12
0.68 0.25 0.07
Matches are distributed among these distances:
48 3 0.03
49 4 0.03
50 102 0.88
51 4 0.03
52 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (50 bp):
CCCTGACATTGCAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTGCCT
Found at i:23063584 original size:100 final size:100
Alignment explanation
Indices: 23063408--23063619 Score: 345
Period size: 100 Copynumber: 2.1 Consensus size: 100
23063398 NNNNNNNNNC
* *
23063408 CCCTGACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGAATCTTACCTCCAACGTGGTGCAGT
1 CCCTGACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGAATCTGACCTCCAACGCGGTGCAGT
23063473 GGAACACATTAAAGCCACAACGGTGAATCTTGCCT
66 GGAACACATTAAAGCCACAACGGTGAATCTTGCCT
* * *
23063508 CCCTGACATTGCGGTTAAAAAGATTAAAG-TGATAGCAGCGAATCTGACCTCCCAGGCGGTGCAG
1 CCCTGACATTGCGGTTAAAAAGATTAAAGCT-ACAGCAGCGAATCTGACCTCCAACGCGGTGCAG
* *
23063572 TGGAACAGATTAAAGCCATAACGGTGAATCTTGCCT
65 TGGAACACATTAAAGCCACAACGGTGAATCTTGCCT
23063608 CCCTGACATTGC
1 CCCTGACATTGC
23063620 AGCTACAGCA
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
99 1 0.01
100 103 0.99
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.22
Consensus pattern (100 bp):
CCCTGACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGAATCTGACCTCCAACGCGGTGCAGT
GGAACACATTAAAGCCACAACGGTGAATCTTGCCT
Found at i:23063685 original size:86 final size:85
Alignment explanation
Indices: 23063541--23063707 Score: 255
Period size: 86 Copynumber: 2.0 Consensus size: 85
23063531 TTAAAGTGAT
* * *
23063541 AGCAGCGAATCTGACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCATAACGGTGAATCTTGC
1 AGCAGCAAATCTGACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
*
23063606 CTCCCTGACATTGCAGCTAC
66 CTCCCCGACATTGCAGCTAC
*
23063626 AGCAGCAAATCTTACACTCCCAGGCAGTGCAGT-GAAGCAGATTAAAGCCACAACGGTGAATCTT
1 AGCAGCAAATCTGAC-CTCCCAGGCAGTGCAGTGGAA-CAGATTAAAGCCACAACGGTGAATCTT
*
23063690 GCTTCCCCGACATTGCAG
64 GCCTCCCCGACATTGCAG
23063708 TTAAAAAGAT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
85 16 0.22
86 58 0.78
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (85 bp):
AGCAGCAAATCTGACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
CTCCCCGACATTGCAGCTAC
Found at i:23065123 original size:3 final size:3
Alignment explanation
Indices: 23065117--23065165 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
23065107 TATTCAGTAA
* *
23065117 TAT TAT TAT TAAT CTAT TAG TAT TAT TAA T-T TAT TAT TAT TAT TAT
1 TAT TAT TAT T-AT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23065163 TAT
1 TAT
23065166 CACCGTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 1 0.03
3 33 0.85
4 4 0.10
5 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:23065142 original size:17 final size:17
Alignment explanation
Indices: 23065120--23065161 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
23065110 TCAGTAATAT
23065120 TATTATTAATCTATTAG
1 TATTATTAATCTATTAG
* *
23065137 TATTATTAATTTATTAT
1 TATTATTAATCTATTAG
23065154 TATTATTA
1 TATTATTA
23065162 TTATCACCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (17 bp):
TATTATTAATCTATTAG
Found at i:23067449 original size:53 final size:53
Alignment explanation
Indices: 23067374--23067481 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 53
23067364 GGAAACACAT
* * *
23067374 ATCACACCGATGCCATATCCTAGATATGGTCTTATACGAAATTCACAT-ATCAC
1 ATCACACCGATACCATAACCTAGATATGGTCTTATACGAAA-GCACATAATCAC
* *
23067427 ATCACACCGATACCATAACCTAGCTATGGTTTTATACGAAAGCACATAATCAC
1 ATCACACCGATACCATAACCTAGATATGGTCTTATACGAAAGCACATAATCAC
23067480 AT
1 AT
23067482 TTTCACATGT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
52 5 0.10
53 44 0.90
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.27
Consensus pattern (53 bp):
ATCACACCGATACCATAACCTAGATATGGTCTTATACGAAAGCACATAATCAC
Found at i:23067796 original size:21 final size:22
Alignment explanation
Indices: 23067756--23067796 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
23067746 TTTGAAATAA
* *
23067756 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
23067778 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
23067797 CGGGTATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:23072700 original size:79 final size:78
Alignment explanation
Indices: 23072551--23072714 Score: 213
Period size: 79 Copynumber: 2.1 Consensus size: 78
23072541 TGTAATTGTA
** * * * *
23072551 TTCTGTTTGTAAACAGAAATCAATTAAACAATTCTGTTTCAGGATTTTATTCCTGCTGTTCAACG
1 TTCTGTTTCCAAACAGAAATCAATTAAACAATTCTGTTTCAGGATTCTATTCCTCCTATTCAAAG
*
23072616 TAATTTTTTCAAT
66 TAATTTATTCAAT
* *
23072629 TCTCTGTTTCCAAACAGAAATCAATTGAACAATTCTGTTTTAGGATTCTATTCCTCCTATTCAAT
1 T-TCTGTTTCCAAACAGAAATCAATTAAACAATTCTGTTTCAGGATTCTATTCCTCCTATTCAA-
*
23072694 AG-AATTTATTCGAT
64 AGTAATTTATTCAAT
23072708 TTCTGTT
1 TTCTGTT
23072715 GTTAATAGTA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
78 7 0.09
79 66 0.89
80 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (78 bp):
TTCTGTTTCCAAACAGAAATCAATTAAACAATTCTGTTTCAGGATTCTATTCCTCCTATTCAAAG
TAATTTATTCAAT
Found at i:23084629 original size:26 final size:26
Alignment explanation
Indices: 23084600--23084654 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
23084590 ATTGGATTTT
23084600 AATAGTTTCTAGACAATTTCTTCTCC
1 AATAGTTTCTAGACAATTTCTTCTCC
23084626 AATAGTTTCTAGACAATTTCTTCTCC
1 AATAGTTTCTAGACAATTTCTTCTCC
23084652 AAT
1 AAT
23084655 TTTCTGTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (26 bp):
AATAGTTTCTAGACAATTTCTTCTCC
Found at i:23086912 original size:13 final size:13
Alignment explanation
Indices: 23086894--23086923 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
23086884 AGTTTAGTGG
23086894 TACAAATTATAAT
1 TACAAATTATAAT
23086907 TACAAATTATAAT
1 TACAAATTATAAT
23086920 TACA
1 TACA
23086924 TATTTTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (13 bp):
TACAAATTATAAT
Found at i:23092487 original size:24 final size:24
Alignment explanation
Indices: 23092437--23092488 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
23092427 AATCAAAGTC
* **
23092437 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
23092461 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
23092485 AAAT
1 AAAT
23092489 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:23096280 original size:50 final size:50
Alignment explanation
Indices: 23096161--23096332 Score: 148
Period size: 50 Copynumber: 3.5 Consensus size: 50
23096151 TGCCAAAGAT
* ** * * * * * *
23096161 ATGTCCCAGACATAGTCTTACATGGGATGTTTCCTGT-ACTGCCAATGTC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCC
* ** * * *
23096210 ATATCCCAGACATGGTCTTACATGGGAGTTCTCATATCAGTGCCCATGCT
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCC
* * ** * *
23096260 ATGTCCCATACAAGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCC
23096310 ATGTCCCAGACATGGTCTTACAT
1 ATGTCCCAGACATGGTCTTACAT
23096333 TTTACCTCTC
Statistics
Matches: 95, Mismatches: 27, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
49 30 0.32
50 65 0.68
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCC
Found at i:23104110 original size:30 final size:30
Alignment explanation
Indices: 23104068--23104126 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
23104058 ATAATTAATA
*
23104068 TATTATGAAAATT-TTGAAAATTTATAAAAC
1 TATTATGAAAATTATAGAAAA-TTATAAAAC
23104098 TATTATTG-AAATTATAGAAAATTATAAAA
1 TATTA-TGAAAATTATAGAAAATTATAAAA
23104127 AAATAGAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.39
Consensus pattern (30 bp):
TATTATGAAAATTATAGAAAATTATAAAAC
Found at i:23104234 original size:20 final size:21
Alignment explanation
Indices: 23104209--23104257 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
23104199 TTTAGAAATG
23104209 ATAGAAAA-ATATAAAAATTT
1 ATAGAAAACATATAAAAATTT
23104229 ATAGAAAACTATATAAAAA-TT
1 ATAGAAAAC-ATATAAAAATTT
23104250 ATA-AAAAC
1 ATAGAAAAC
23104258 TTGTAAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 13 0.48
21 5 0.19
22 9 0.33
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (21 bp):
ATAGAAAACATATAAAAATTT
Found at i:23104245 original size:22 final size:21
Alignment explanation
Indices: 23104204--23104275 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 21
23104194 GGAATTTTAG
*
23104204 AAATGATAGAAAA--ATATAA
1 AAATTATAGAAAACTATATAA
23104223 AAATTTATAGAAAACTATATAA
1 AAA-TTATAGAAAACTATATAA
*
23104245 AAATTATA-AAAACT-TGTAA
1 AAATTATAGAAAACTATATAA
*
23104264 AACTTATA-AAAA
1 AAATTATAGAAAA
23104276 TTTTGTTAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
19 18 0.38
20 15 0.32
21 5 0.11
22 9 0.19
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (21 bp):
AAATTATAGAAAACTATATAA
Done.