Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 59 of 318
Found at i:16970314 original size:100 final size:100
Alignment explanation
Indices: 16970186--16970370 Score: 300
Period size: 100 Copynumber: 1.9 Consensus size: 100
16970176 GAAGCTATCT
* * *
16970186 GGTACGCATAGTATCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACAAGTAGTA-CC
16970251 -TGAACTTAGTACTACACATGTGATCATAGTTTTCG
65 TTGAACTTAGTACTACACATGTGATCATAGTTTTCG
* *
16970286 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACAAGTAGTACCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACAAGTAGTACCT
*
16970351 TGCACTTAGTACTACACATG
66 TGAACTTAGTACTACACATG
16970371 ACCTCACAAT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
99 2 0.03
100 76 0.97
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACAAGTAGTACCT
TGAACTTAGTACTACACATGTGATCATAGTTTTCG
Found at i:16972409 original size:30 final size:30
Alignment explanation
Indices: 16972374--16972433 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
16972364 AAGAAAACCG
16972374 AATAAAGAAATCCA-AGATAGAA-AAACCCAA
1 AATAAAGAAATCCAGA-ATA-AAGAAACCCAA
16972404 AATAAAGAAATCCAGAATAAAGAAACCCAA
1 AATAAAGAAATCCAGAATAAAGAAACCCAA
16972434 GATACGATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 2 0.07
30 25 0.89
31 1 0.04
ACGTcount: A:0.63, C:0.17, G:0.10, T:0.10
Consensus pattern (30 bp):
AATAAAGAAATCCAGAATAAAGAAACCCAA
Found at i:16972422 original size:15 final size:15
Alignment explanation
Indices: 16972364--16972428 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
16972354 TAAAGATAAC
*
16972364 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
16972378 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
16972393 GAA-AAACCCAAAATA
1 -AAGAAATCCAGAATA
16972408 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
16972423 AAGAAA
1 AAGAAA
16972429 CCCAAGATAC
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
14 11 0.26
15 28 0.67
16 3 0.07
ACGTcount: A:0.65, C:0.14, G:0.12, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:16973583 original size:30 final size:30
Alignment explanation
Indices: 16973568--16973754 Score: 244
Period size: 30 Copynumber: 6.4 Consensus size: 30
16973558 AACCAAAATG
*
16973568 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
16973598 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
16973628 AGAATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
16973653 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
16973683 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
* *
16973713 AGAATCAGAATCAGAATTACGTGACAGAATT
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
16973744 AGAACCAGAAT
1 AGAATCAGAAT
16973755 GTGAATGCAA
Statistics
Matches: 139, Mismatches: 8, Indels: 19
0.84 0.05 0.11
Matches are distributed among these distances:
24 2 0.01
25 19 0.14
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.01
30 91 0.65
31 22 0.16
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:16973668 original size:85 final size:85
Alignment explanation
Indices: 16973568--16973754 Score: 338
Period size: 85 Copynumber: 2.2 Consensus size: 85
16973558 AACCAAAATG
16973568 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
*
16973633 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTACGTGAC
*
16973653 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
16973718 CAGAATCAGAATTACGTGAC
66 CAGAATCAGAATTACGTGAC
* *
16973738 AGAATTAGAACCAGAAT
1 AGAATCAGAATCAGAAT
16973755 GTGAATGCAA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 98 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTACGTGAC
Found at i:16973747 original size:6 final size:6
Alignment explanation
Indices: 16973568--16973729 Score: 174
Period size: 6 Copynumber: 26.8 Consensus size: 6
16973558 AACCAAAATG
*
16973568 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
16973616 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
16973665 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
16973713 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
16973730 TACGTGACAG
Statistics
Matches: 133, Mismatches: 10, Indels: 26
0.79 0.06 0.15
Matches are distributed among these distances:
5 10 0.08
6 113 0.85
7 8 0.06
8 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:16973927 original size:27 final size:26
Alignment explanation
Indices: 16973885--16973964 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 26
16973875 GCTCAGTTAT
* *
16973885 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
16973912 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
16973938 CAGATATTTGTGGCATAGCCACCAGAA
1 CAGATA-TTGTGGCAGAGCCACCAGAA
16973965 GCATATAATG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
26 7 0.14
27 42 0.86
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:16973976 original size:27 final size:27
Alignment explanation
Indices: 16973885--16973986 Score: 93
Period size: 27 Copynumber: 3.8 Consensus size: 27
16973875 GCTCAGTTAT
* * *
16973885 CAGATAT-TGTGACAGAGTCACCAGATA
1 CAGATATATGTGGCAAAGCCACCAGA-A
*
16973912 CAGATAT-TGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGAA
* *
16973938 CAGATATTTGTGGCATAGCCACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGAA
* *
16973965 GCATATA-ATGTGGTAAAGCCAC
1 -CAGATATATGTGGCAAAGCCAC
16973987 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.12
27 53 0.80
28 5 0.08
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
CAGATATATGTGGCAAAGCCACCAGAA
Found at i:16973977 original size:54 final size:53
Alignment explanation
Indices: 16973885--16973986 Score: 116
Period size: 54 Copynumber: 1.9 Consensus size: 53
16973875 GCTCAGTTAT
* * *
16973885 CAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGATACAGATAATGTGGCAAAGCCACCAGAA
* * * *
16973938 CAGATATTTGTGGCATAGCCACCAGA-AGCATATAATGTGGTAAAGCCAC
1 CAGATA-TTGTGACAGAGCCACCAGATA-CAGATAATGTGGCAAAGCCAC
16973987 TTAACAGAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
53 7 0.17
54 33 0.82
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (53 bp):
CAGATATTGTGACAGAGCCACCAGATACAGATAATGTGGCAAAGCCACCAGAA
Found at i:16974172 original size:22 final size:23
Alignment explanation
Indices: 16974144--16974206 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
16974134 GCAAATACTT
*
16974144 TTGGCACACAGCCATAAT-CAGG
1 TTGGCACAAAGCCATAATGCAGG
* *
16974166 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAATGCAGG
*
16974188 TTGACACAAAGCCATAATG
1 TTGGCACAAAGCCATAATG
16974207 AGAAGGCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.06
22 30 0.86
23 3 0.09
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (23 bp):
TTGGCACAAAGCCATAATGCAGG
Found at i:16974691 original size:27 final size:27
Alignment explanation
Indices: 16974633--16974936 Score: 342
Period size: 27 Copynumber: 11.3 Consensus size: 27
16974623 AAGGGCAAAA
* * * *
16974633 TGGTAATTTTACCCCACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
16974659 TGGTAATTCCACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
16974686 TAGTAATTCTACCTTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
16974713 TAGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
16974740 CGGTAATTCTACCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
16974767 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
16974794 CT-GTATTTTTACCCTACGGGGGTATTT
1 -TGGTAATTCTACCCTACAGGGGTATTT
* * *
16974821 CGGTAATTCTACCCTATAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
16974848 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
16974875 CGGTAATTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
16974902 CGGTAATTCTACCCTGCAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
16974929 TGGTAATT
1 TGGTAATT
16974937 TTATTGATCG
Statistics
Matches: 240, Mismatches: 35, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
26 15 0.06
27 225 0.94
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:16974936 original size:81 final size:81
Alignment explanation
Indices: 16974634--16974927 Score: 378
Period size: 81 Copynumber: 3.6 Consensus size: 81
16974624 AGGGCAAAAT
* * * **
16974634 GGTAATTTTACCCCACAA-GGTATCTT-GGTAATTCCACCCTACAAGGGTATT-TTAGTAATTCT
1 GGTAATTCTACCCTACAAGGGTAT-TTCGGTAATTCTACCCTACAAGGGTATTGCGA-TAATTCT
* * *
16974696 ACCTTATAGGGGTATTTT
64 ACCCTACAGGGGTATTTC
* * *
16974714 AGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTGCGATAATTCTAC
16974779 CCTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
* * * ** * *
16974795 TGTATTTTTACCCTACGGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTGCGATAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTGCGATAATTCTAC
16974860 CCTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
*
16974876 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTGCAAGGGTATT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATT
16974928 TTGGTAATTT
Statistics
Matches: 187, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
80 16 0.09
81 170 0.91
82 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTGCGATAATTCTAC
CCTACAGGGGTATTTC
Found at i:16974950 original size:27 final size:27
Alignment explanation
Indices: 16974920--16975270 Score: 168
Period size: 27 Copynumber: 13.1 Consensus size: 27
16974910 CTACCCTGCA
* **
16974920 AGGGTATTTTGGTAATTTTATTGATCG
1 AGGGTATTTCGGTAATTTTATAAATCG
* **
16974947 AGGGTATTTCAGTAATTTTGCAAA-CTG
1 AGGGTATTTCGGTAATTTTATAAATC-G
*
16974974 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTATAAATCG
* * *
16975001 AGGATATTTGGGTAATTTTATAAACCG
1 AGGGTATTTCGGTAATTTTATAAATCG
* * *
16975028 -GGGTACTTT-GGTAATTTTACAACTGG
1 AGGGTA-TTTCGGTAATTTTATAAATCG
** *
16975054 A-GGTATTTTAGTAATTTCAT-AATCG
1 AGGGTATTTCGGTAATTTTATAAATCG
** *
16975079 AGGGTAAAAT-GGTAATTTTGTAAA-CTG
1 AGGGT-ATTTCGGTAATTTTATAAATC-G
** *
16975106 AGGGTAAAAT-GGTAATTTTGTAAATCG
1 AGGGT-ATTTCGGTAATTTTATAAATCG
*** * * *
16975133 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTATTTCGGTAATTTTATAAATCG
** * *
16975160 AGGGTAAAAT-GGTAATTCTATAAATCA
1 AGGGT-ATTTCGGTAATTTTATAAATCG
** *
16975187 AGGGTAAAAT-GGTAATTTTGTAAATCG
1 AGGGT-ATTTCGGTAATTTTATAAATCG
** * *
16975214 AGGGTGA-AACGGTAATTCTGTAAATCG
1 AGGGT-ATTTCGGTAATTTTATAAATCG
* *
16975241 AGGGTACTTT-GGTAATTTTACAAATTG
1 AGGGTA-TTTCGGTAATTTTATAAATCG
16975268 AGG
1 AGG
16975271 ACATTTTAGT
Statistics
Matches: 263, Mismatches: 46, Indels: 30
0.78 0.14 0.09
Matches are distributed among these distances:
25 7 0.03
26 47 0.18
27 204 0.78
28 5 0.02
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTATAAATCG
Found at i:16975257 original size:81 final size:81
Alignment explanation
Indices: 16975074--16975246 Score: 285
Period size: 81 Copynumber: 2.1 Consensus size: 81
16975064 GTAATTTCAT
* * *
16975074 AATCGAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-AAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
16975138 AAAACAGTAATTCTGTA
65 AAAACAGTAATTCTGTA
*
16975155 AATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAATGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
*
16975220 AAACGGTAATTCTGTA
66 AAACAGTAATTCTGTA
16975236 AATCGAGGGTA
1 AATCGAGGGTA
16975247 CTTTGGTAAT
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
81 85 0.99
82 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
AAACAGTAATTCTGTA
Found at i:16975259 original size:54 final size:54
Alignment explanation
Indices: 16975074--16975246 Score: 258
Period size: 54 Copynumber: 3.2 Consensus size: 54
16975064 GTAATTTCAT
*
16975074 AATCGAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATC-GAGGGTAAAATGGTAATTCTGTA
** * *
16975128 AATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTA
* * *
16975182 AATCAAGGGTAAAATGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTA
16975236 AATCGAGGGTA
1 AATCGAGGGTA
16975247 CTTTGGTAAT
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
54 104 0.99
55 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTA
Found at i:16978834 original size:49 final size:48
Alignment explanation
Indices: 16978757--16978946 Score: 211
Period size: 49 Copynumber: 3.9 Consensus size: 48
16978747 TAGCCGAAGC
* * *
16978757 TATCTGGTACGCATAATAGCCTGGACTTAGTACTACACATGCGACCAA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
* * * * *
16978805 TAATCTGGTACACGTAGTAGCCTACACTTAGTACTACACAAGTGATCACAG
1 T-ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAA
* * *
16978856 TTTTTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
*
16978905 TTATCCT-GTACACGTAGTAGCCTGCACTTAGTACTACACATG
1 -TAT-CTGGTACACATAGTAGCCTGCACTTAGTACTACACATG
16978947 ACCTTACAAT
Statistics
Matches: 116, Mismatches: 20, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
49 71 0.61
50 6 0.05
51 38 0.33
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (48 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
Found at i:16978935 original size:100 final size:100
Alignment explanation
Indices: 16978762--16978944 Score: 314
Period size: 100 Copynumber: 1.8 Consensus size: 100
16978752 GAAGCTATCT
*
16978762 GGTACGCATAATAGCCTGGACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
16978827 TACACTTAGTACTACACAAGTGATCACAGTTTTTG
66 TACACTTAGTACTACACAAGTGATCACAGTTTTTG
* *
16978862 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCT-GTACACGTAGTAGC
1 GGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCAATAAT-CTGGTACACGTAGTAGC
*
16978926 CTGCACTTAGTACTACACA
65 CTACACTTAGTACTACACA
16978945 TGACCTTACA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
100 76 0.97
101 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (100 bp):
GGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
TACACTTAGTACTACACAAGTGATCACAGTTTTTG
Found at i:16980240 original size:135 final size:135
Alignment explanation
Indices: 16980033--16980285 Score: 337
Period size: 135 Copynumber: 1.9 Consensus size: 135
16980023 AGATGTTACG
* * * *
16980033 GCATCAAGATTCTATCTAGTAATACCATGACTGAAAAACATTATGGCTTCATGATTCTATCGAGT
1 GCATCAAGATTCTATCGAGTAAGACCATGACTGAAAAACATTATGGCATCACGATTCTATCGAGT
* * * * *
16980098 AATACCAT-GACTAAAAGACGTTATGGCATCACGATTCTAACGAGTAAGACCATGATTGAAAGAC
66 AAGACCATAG-CTAAAAGACGCTATGGCATCACGAATCAAACGAATAAGACCATGATTGAAAGAC
16980162 GTTTTA
130 GTTTTA
* * * * * *
16980168 GCATCACGATTCTCTCGAGTAAGAGCATGATTGAAAGACATTATGGCATCACGATTCTATTGAGT
1 GCATCAAGATTCTATCGAGTAAGACCATGACTGAAAAACATTATGGCATCACGATTCTATCGAGT
* *
16980233 AAGACCATAGCTAAAAGACGCTATGGTATCACGAATCAAATGAATAAGACCAT
66 AAGACCATAGCTAAAAGACGCTATGGCATCACGAATCAAACGAATAAGACCAT
16980286 AGCTAAAATA
Statistics
Matches: 100, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
135 99 0.99
136 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (135 bp):
GCATCAAGATTCTATCGAGTAAGACCATGACTGAAAAACATTATGGCATCACGATTCTATCGAGT
AAGACCATAGCTAAAAGACGCTATGGCATCACGAATCAAACGAATAAGACCATGATTGAAAGACG
TTTTA
Found at i:16980250 original size:45 final size:45
Alignment explanation
Indices: 16980004--16980266 Score: 269
Period size: 45 Copynumber: 5.8 Consensus size: 45
16979994 TACATCTAAT
* * * * * *
16980004 GAGTAAGACAACGAATAAAAGATGTTACGGCATCAAGATTCTATC
1 GAGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATC
* * * * *
16980049 TAGTAATACCATGACTGAAAA-ACATTATGGCTTCATGATTCTATC
1 GAGTAAGACCATGACT-AAAAGACGTTATGGCATCACGATTCTATC
* *
16980094 GAGTAATACCATGACTAAAAGACGTTATGGCATCACGATTCTAAC
1 GAGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATC
* * * * *
16980139 GAGTAAGACCATGATTGAAAGACGTTTTAGCATCACGATTCTCTC
1 GAGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATC
* * * * *
16980184 GAGTAAGAGCATGATTGAAAGACATTATGGCATCACGATTCTATT
1 GAGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATC
* *
16980229 GAGTAAGACCAT-AGCTAAAAGACGCTATGGTATCACGA
1 GAGTAAGACCATGA-CTAAAAGACGTTATGGCATCACGA
16980267 ATCAAATGAA
Statistics
Matches: 181, Mismatches: 34, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
44 5 0.03
45 172 0.95
46 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.26
Consensus pattern (45 bp):
GAGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATC
Found at i:16980376 original size:45 final size:45
Alignment explanation
Indices: 16980246--16980393 Score: 197
Period size: 45 Copynumber: 3.3 Consensus size: 45
16980236 ACCATAGCTA
* * * * * * *
16980246 AAAGACGCTATGGTATCACGAATCAAATGAATAAGACCATAGCTA
1 AAAGACGCTATGGTATTACAAATCAAACGAATAAGGCCATGGTTG
* *
16980291 AAATACGCTATGATATTACAAATCAAACGAATAAGGCCATGGTTG
1 AAAGACGCTATGGTATTACAAATCAAACGAATAAGGCCATGGTTG
*
16980336 AAAGACGCTATGGTATTACAAATCAAACGAATAAGGCCATGGTCG
1 AAAGACGCTATGGTATTACAAATCAAACGAATAAGGCCATGGTTG
*
16980381 AAAGACACTATGG
1 AAAGACGCTATGG
16980394 AAACACGATG
Statistics
Matches: 90, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 90 1.00
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.21
Consensus pattern (45 bp):
AAAGACGCTATGGTATTACAAATCAAACGAATAAGGCCATGGTTG
Found at i:16985992 original size:45 final size:45
Alignment explanation
Indices: 16985937--16986169 Score: 288
Period size: 45 Copynumber: 5.2 Consensus size: 45
16985927 AAGGTTGTGA
* * * *
16985937 CATCATGATTCTAACGAGTAAGACCATGAATGAAAGATGTTATGG
1 CATCACGATTCTATCGAGTAAGACCATGACTGAAAGACGTTATGG
* *
16985982 CACCACGATTCTATCGAGTAAGACCATGACTGAAAGACATTATGG
1 CATCACGATTCTATCGAGTAAGACCATGACTGAAAGACGTTATGG
* * * * *
16986027 CATCATGATTCTAACGAGTAAGACCATGACTAAAATATGTTATGG
1 CATCACGATTCTATCGAGTAAGACCATGACTGAAAGACGTTATGG
* *
16986072 CATCACAATTCTATCGAGTAAGACCATGATTGAAAGACGTTATGG
1 CATCACGATTCTATCGAGTAAGACCATGACTGAAAGACGTTATGG
* * * * *
16986117 CATCATGATTCTATCGAGTAAGACCAT-AGCTAAAAGATGCTATGA
1 CATCACGATTCTATCGAGTAAGACCATGA-CTGAAAGACGTTATGG
16986162 CATCACGA
1 CATCACGA
16986170 ATCAAATGAA
Statistics
Matches: 159, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
44 1 0.01
45 158 0.99
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (45 bp):
CATCACGATTCTATCGAGTAAGACCATGACTGAAAGACGTTATGG
Found at i:16986184 original size:135 final size:135
Alignment explanation
Indices: 16985944--16986189 Score: 341
Period size: 135 Copynumber: 1.8 Consensus size: 135
16985934 TGACATCATG
*
16985944 ATTCTAACGAGTAAGACCATGAATGAAAGATGTTATGGCACCACGATTCTATCGAGTAAGACCAT
1 ATTCTAACGAGTAAGACCATGAATGAAAGACGTTATGGCACCACGATTCTATCGAGTAAGACCAT
* * * * * * *
16986009 GACTGAAAGACATTATGGCATCATGATTCTAACGAGTAAGACCATGACTAAAATATGTTATGGCA
66 GACTAAAAGACACTATGACATCACGAATCAAACGAATAAGACCATGACTAAAATATGTTATGGCA
16986074 TCACA
131 TCACA
* * * *
16986079 ATTCTATCGAGTAAGACCATGATTGAAAGACGTTATGGCATCATGATTCTATCGAGTAAGACCAT
1 ATTCTAACGAGTAAGACCATGAATGAAAGACGTTATGGCACCACGATTCTATCGAGTAAGACCAT
** *
16986144 -AGCTAAAAGATGCTATGACATCACGAATCAAATGAATAAGACCATG
66 GA-CTAAAAGACACTATGACATCACGAATCAAACGAATAAGACCATG
16986190 GTTGAAAGAC
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
134 1 0.01
135 94 0.99
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (135 bp):
ATTCTAACGAGTAAGACCATGAATGAAAGACGTTATGGCACCACGATTCTATCGAGTAAGACCAT
GACTAAAAGACACTATGACATCACGAATCAAACGAATAAGACCATGACTAAAATATGTTATGGCA
TCACA
Found at i:16986198 original size:45 final size:45
Alignment explanation
Indices: 16985955--16986199 Score: 109
Period size: 45 Copynumber: 5.4 Consensus size: 45
16985945 TTCTAACGAG
** * * * * * * *
16985955 TAAGACCATGAATGAAAGATGTTATGGCACCACGATTCTATCGAG
1 TAAGACCATGGTTGAAAGACGCTATGACATCACGAATCAATCGAA
** ** * * * *
16986000 TAAGACCATGACTGAAAGACATTATGGCATCATGATTCTAA-CGAG
1 TAAGACCATGGTTGAAAGACGCTATGACATCACGAATC-AATCGAA
** * * * * * * *
16986045 TAAGACCATGACTAAAATATGTTATGGCATCAC-AATTCTATCGAG
1 TAAGACCATGGTTGAAAGACGCTATGACATCACGAA-TCAATCGAA
* * * * * * *
16986090 TAAGACCATGATTGAAAGACGTTATGGCATCATGATTCTATCGAG
1 TAAGACCATGGTTGAAAGACGCTATGACATCACGAATCAATCGAA
* * * *
16986135 TAAGACCATAGCTAAAAGATGCTATGACATCACGAATCAAAT-GAA
1 TAAGACCATGGTTGAAAGACGCTATGACATCACGAATC-AATCGAA
16986180 TAAGACCATGGTTGAAAGAC
1 TAAGACCATGGTTGAAAGAC
16986200 ACCATGGCAC
Statistics
Matches: 161, Mismatches: 34, Indels: 10
0.79 0.17 0.05
Matches are distributed among these distances:
44 2 0.01
45 155 0.96
46 4 0.02
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (45 bp):
TAAGACCATGGTTGAAAGACGCTATGACATCACGAATCAATCGAA
Found at i:16986208 original size:90 final size:90
Alignment explanation
Indices: 16985937--16986200 Score: 363
Period size: 90 Copynumber: 2.9 Consensus size: 90
16985927 AAGGTTGTGA
* * * *
16985937 CATCATGATTCTAACGAGTAAGACCATGAATGAAAGATGTTATGGCACCACGATTCTATCGAGTA
1 CATCATGATTCTAACGAGTAAGACCATGACTAAAAGATGTTATGGCATCACGAATCTATCGAGTA
*
16986002 AGACCATGACTGAAAGACATTATGG
66 AGACCATGATTGAAAGACATTATGG
*
16986027 CATCATGATTCTAACGAGTAAGACCATGACTAAAATATGTTATGGCATCAC-AATTCTATCGAGT
1 CATCATGATTCTAACGAGTAAGACCATGACTAAAAGATGTTATGGCATCACGAA-TCTATCGAGT
*
16986091 AAGACCATGATTGAAAGACGTTATGG
65 AAGACCATGATTGAAAGACATTATGG
* * * * *
16986117 CATCATGATTCTATCGAGTAAGACCAT-AGCTAAAAGATGCTATGACATCACGAATCAAAT-GAA
1 CATCATGATTCTAACGAGTAAGACCATGA-CTAAAAGATGTTATGGCATCACGAATC-TATCGAG
*
16986180 TAAGACCATGGTTGAAAGACA
64 TAAGACCATGATTGAAAGACA
16986201 CCATGGCACA
Statistics
Matches: 155, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
89 2 0.01
90 149 0.96
91 4 0.03
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (90 bp):
CATCATGATTCTAACGAGTAAGACCATGACTAAAAGATGTTATGGCATCACGAATCTATCGAGTA
AGACCATGATTGAAAGACATTATGG
Found at i:16987082 original size:26 final size:26
Alignment explanation
Indices: 16987052--16987105 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
16987042 TACGCTAAGT
16987052 AAATGGAATGGTAAGTAAGTAGATGA
1 AAATGGAATGGTAAGTAAGTAGATGA
*
16987078 AAATGGAATGGTACGTAAGTAGATGA
1 AAATGGAATGGTAAGTAAGTAGATGA
16987104 AA
1 AA
16987106 TGTTCATCGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.22
Consensus pattern (26 bp):
AAATGGAATGGTAAGTAAGTAGATGA
Found at i:16989540 original size:24 final size:24
Alignment explanation
Indices: 16989491--16989540 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
16989481 CACTGCTTAA
* * *
16989491 GCCAAATACTTTTTTTCTCTTGTT
1 GCCAAATACTCTTTCTCTCTTCTT
16989515 GCCAAAT-CTCTTTCTCTCTTCCTT
1 GCCAAATACTCTTTCTCTCTT-CTT
16989539 GC
1 GC
16989541 TTGTTGAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.14, C:0.30, G:0.08, T:0.48
Consensus pattern (24 bp):
GCCAAATACTCTTTCTCTCTTCTT
Found at i:16993302 original size:53 final size:54
Alignment explanation
Indices: 16993217--16993423 Score: 211
Period size: 53 Copynumber: 3.8 Consensus size: 54
16993207 TTCCTTTTTA
* * * *
16993217 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTCGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
16993270 AACTCACCATTGCCATGCCTT-AGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGA-CATGGTCTTACATGGTATCCTTGCCTTATAG
** * ** * * * *
16993324 TAGTTTATCAATGCCATGTATTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
16993379 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
16993424 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 28, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
52 1 0.01
53 44 0.36
54 37 0.30
55 39 0.32
56 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:17006269 original size:22 final size:22
Alignment explanation
Indices: 17006243--17006286 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
17006233 GAAAATAATC
17006243 AAAATTAATAAAAATTAATTAT
1 AAAATTAATAAAAATTAATTAT
* *
17006265 AAAATTAATTAAAATTCATTAT
1 AAAATTAATAAAAATTAATTAT
17006287 GTTAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATTAATAAAAATTAATTAT
Found at i:17006270 original size:12 final size:11
Alignment explanation
Indices: 17006243--17006278 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
17006233 GAAAATAATC
17006243 AAAATTAA-TA
1 AAAATTAATTA
17006253 AAAATTAATTA
1 AAAATTAATTA
17006264 TAAAATTAATTA
1 -AAAATTAATTA
17006276 AAA
1 AAA
17006279 TTCATTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 8 0.33
11 5 0.21
12 11 0.46
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATTAATTA
Found at i:17006285 original size:10 final size:10
Alignment explanation
Indices: 17006234--17006285 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
17006224 AAATCTATTG
*
17006234 AAAA-TAATC
1 AAAATTAATT
*
17006243 AAAATTAATA
1 AAAATTAATT
17006253 AAAATTAATTAT
1 AAAATTAA-T-T
17006265 AAAATTAATT
1 AAAATTAATT
*
17006275 AAAATTCATT
1 AAAATTAATT
17006285 A
1 A
17006286 TGTTAATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 4 0.11
10 23 0.62
11 2 0.05
12 8 0.22
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTAATT
Found at i:17007863 original size:26 final size:26
Alignment explanation
Indices: 17007834--17007884 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
17007824 AATGGTAATT
17007834 AAATGCTA-AATTTATATACTGTTATA
1 AAATGCTAGAATTTATATA-TGTTATA
* *
17007860 AAATGTTAGTATTTATATATGTTAT
1 AAATGCTAGAATTTATATATGTTAT
17007885 GGCCGAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (26 bp):
AAATGCTAGAATTTATATATGTTATA
Found at i:17014432 original size:40 final size:40
Alignment explanation
Indices: 17014358--17014579 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
17014348 AACCCAAGTA
* * *
17014358 CCTTCGGGAATTAG-CCAGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
17014397 CCTTCGGGTCTTAGCCCGGATATAGTGAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
17014437 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
17014477 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* * *
17014517 CCTTCGAGACTTAGGCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
17014557 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
17014580 CATTCGAATA
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 12 0.07
40 153 0.92
41 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:17019281 original size:47 final size:47
Alignment explanation
Indices: 17019162--17019334 Score: 246
Period size: 47 Copynumber: 3.7 Consensus size: 47
17019152 GGGATATTTG
* * *
17019162 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
*
17019209 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
*
17019255 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
17019302 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
17019335 ACTTATGGGC
Statistics
Matches: 115, Mismatches: 7, Indels: 8
0.88 0.05 0.06
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 33 0.29
47 76 0.66
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:17023012 original size:66 final size:68
Alignment explanation
Indices: 17022936--17023122 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
17022926 TAGTACCACT
*
17022936 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
17022998 CACG
65 CACG
17023002 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
17023067 ATCACG
63 ATCACG
17023073 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
17023123 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:17023047 original size:71 final size:71
Alignment explanation
Indices: 17022959--17023122 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
17022949 CGATTTGTCT
17022959 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
17023024 CTTTCA
66 CTTTCA
17023030 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
17023095 CTTTCA
66 CTTTCA
17023101 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
17023123 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:17023160 original size:71 final size:70
Alignment explanation
Indices: 17022959--17023156 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
17022949 CGATTTGTCT
* * *
17022959 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
17023024 CTTTCA
65 CTTTCA
* * *
17023030 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
17023095 CTTTCA
65 CTTTCA
* *
17023101 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
17023157 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:17030581 original size:66 final size:68
Alignment explanation
Indices: 17030505--17030691 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
17030495 TAGTACCACT
*
17030505 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
17030567 CACG
65 CACG
17030571 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
17030636 ATCACG
63 ATCACG
17030642 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
17030692 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:17030616 original size:71 final size:71
Alignment explanation
Indices: 17030528--17030691 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
17030518 CGATTTGTCT
17030528 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
17030593 CTTTCA
66 CTTTCA
17030599 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
17030664 CTTTCA
66 CTTTCA
17030670 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
17030692 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:17030729 original size:71 final size:70
Alignment explanation
Indices: 17030528--17030725 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
17030518 CGATTTGTCT
* * *
17030528 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
17030593 CTTTCA
65 CTTTCA
* * *
17030599 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
17030664 CTTTCA
65 CTTTCA
* *
17030670 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
17030726 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:17034962 original size:30 final size:29
Alignment explanation
Indices: 17034868--17034969 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
17034858 TATAGTGAAT
* * *
17034868 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
17034897 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
17034925 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
17034955 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
17034970 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:17042739 original size:31 final size:31
Alignment explanation
Indices: 17042696--17042759 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
17042686 CCTTTTCATA
17042696 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
17042727 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
17042758 TT
1 TT
17042760 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:17042997 original size:25 final size:24
Alignment explanation
Indices: 17042949--17043069 Score: 183
Period size: 24 Copynumber: 5.0 Consensus size: 24
17042939 GCTTTATCAT
*
17042949 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
17042974 ATAACTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
17042999 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
17043023 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
17043047 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
17043070 GCACTTCCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
23 1 0.01
24 59 0.65
25 25 0.27
26 6 0.07
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:17043133 original size:11 final size:11
Alignment explanation
Indices: 17043118--17043173 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
17043108 TCATAAATAC
17043118 ATCATGTGCAT
1 ATCATGTGCAT
*
17043129 GTCAT-T-CAT
1 ATCATGTGCAT
17043138 ATCATGTGCAT
1 ATCATGTGCAT
*
17043149 ATCA--TACAT
1 ATCATGTGCAT
*
17043158 GTCATGTGCAT
1 ATCATGTGCAT
17043169 ATCAT
1 ATCAT
17043174 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 14 0.40
10 2 0.06
11 19 0.54
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:17043143 original size:20 final size:20
Alignment explanation
Indices: 17043118--17043184 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
17043108 TCATAAATAC
* *
17043118 ATCATGTGCATGTCATTCAT
1 ATCATGTGCATATCATACAT
17043138 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
17043158 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
17043178 ACCATGT
1 ATCATGT
17043185 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:17043249 original size:25 final size:25
Alignment explanation
Indices: 17043221--17043268 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17043211 ATGTATAAAC
* * *
17043221 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
17043246 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
17043269 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:17044414 original size:18 final size:17
Alignment explanation
Indices: 17044387--17044420 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
17044377 TAGGGAAGAA
17044387 AATAAGAAGAGAAAACT
1 AATAAGAAGAGAAAACT
17044404 AATACAGAAGAGAAAAC
1 AATA-AGAAGAGAAAAC
17044421 GGCACAGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.65, C:0.09, G:0.18, T:0.09
Consensus pattern (17 bp):
AATAAGAAGAGAAAACT
Found at i:17050829 original size:31 final size:31
Alignment explanation
Indices: 17050786--17050845 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
17050776 CCTTTTCATA
17050786 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
17050817 TTTCATATTTCATATTACTGGGCCGAAGC
1 TTTCATAATTCATAACACTGGGCCGAAGC
17050846 TTTACTGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:17051089 original size:25 final size:26
Alignment explanation
Indices: 17051061--17051142 Score: 121
Period size: 28 Copynumber: 3.1 Consensus size: 26
17051051 GCCTAGCCTC
*
17051061 TTTTAATAACTAGGGCA-AAGCCCTT
1 TTTTAATAACTGGGGCATAAGCCCTT
17051086 TTTTAATAACTGGGGCATAAGCCCTT
1 TTTTAATAACTGGGGCATAAGCCCTT
*
17051112 TAATATAATAACTGGGGCATAAGCCCTT
1 T--TTTAATAACTGGGGCATAAGCCCTT
17051140 TTT
1 TTT
17051143 CACTTCCTCC
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
25 16 0.31
26 10 0.20
28 25 0.49
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (26 bp):
TTTTAATAACTGGGGCATAAGCCCTT
Found at i:17051205 original size:11 final size:11
Alignment explanation
Indices: 17051190--17051245 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
17051180 TCATAAATAC
17051190 ATCATGTGCAT
1 ATCATGTGCAT
*
17051201 GTCAT-T-CAT
1 ATCATGTGCAT
17051210 ATCATGTGCAT
1 ATCATGTGCAT
*
17051221 ATCA--TACAT
1 ATCATGTGCAT
*
17051230 GTCATGTGCAT
1 ATCATGTGCAT
17051241 ATCAT
1 ATCAT
17051246 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 14 0.40
10 2 0.06
11 19 0.54
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:17051215 original size:20 final size:20
Alignment explanation
Indices: 17051190--17051256 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
17051180 TCATAAATAC
* *
17051190 ATCATGTGCATGTCATTCAT
1 ATCATGTGCATATCATACAT
17051210 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
17051230 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
17051250 ACCATGT
1 ATCATGT
17051257 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:17051321 original size:25 final size:25
Alignment explanation
Indices: 17051293--17051340 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17051283 ATGTATAAAC
* * *
17051293 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
17051318 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
17051341 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:17052485 original size:18 final size:17
Alignment explanation
Indices: 17052458--17052491 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
17052448 TAGGGAAGAA
17052458 AATAAGAAGAGAAAACT
1 AATAAGAAGAGAAAACT
17052475 AATACAGAAGAGAAAAC
1 AATA-AGAAGAGAAAAC
17052492 GGCACAGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.65, C:0.09, G:0.18, T:0.09
Consensus pattern (17 bp):
AATAAGAAGAGAAAACT
Found at i:17055300 original size:30 final size:30
Alignment explanation
Indices: 17055266--17055326 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17055256 TCCTTAACTC
17055266 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
17055296 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
17055326 A
1 A
17055327 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:17056669 original size:53 final size:53
Alignment explanation
Indices: 17056602--17056706 Score: 149
Period size: 53 Copynumber: 2.0 Consensus size: 53
17056592 TTCCTTTTTA
* * *
17056602 AACTTACCATTGCCATG-ACTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTCACCATTGCCATGCA-TTGACATGGTCTTACATGGGATCCTTGCCTTATG
* *
17056655 AACTCACCATTGCCATGCATTGGCATGGTCTTACATGGGATCTTTGCCTTAT
1 AACTCACCATTGCCATGCATTGACATGGTCTTACATGGGATCCTTGCCTTAT
17056707 CGTAGTTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 45 0.98
54 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (53 bp):
AACTCACCATTGCCATGCATTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:17058838 original size:55 final size:53
Alignment explanation
Indices: 17058714--17058899 Score: 214
Period size: 55 Copynumber: 3.5 Consensus size: 53
17058704 TTACCATTGC
* * *
17058714 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATG-
1 CATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAATGT
* *
17058766 CTATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGT
1 C-ATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAATGT
* * * * *
17058822 CATGTCTTGACATGGTCTTACATGATTTCATTGCCTTATAGAACTTATCAATGT
1 CATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAATGT
*
17058876 CATGCCTTGGCATGGTCTTACATG
1 CATGCCTTGACATGGTCTTACATG
17058900 ATATCCTTAT
Statistics
Matches: 114, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
52 3 0.03
53 31 0.27
54 35 0.31
55 43 0.38
56 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.37
Consensus pattern (53 bp):
CATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAATGT
Found at i:17067762 original size:43 final size:42
Alignment explanation
Indices: 17067659--17067762 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
17067649 GAGATCTATG
* ** * * *
17067659 TGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTCG
1 TGTAAGACCACGTCTGGGACAAAGGCATCGTATCTAATTACA
17067701 TGTAAGACC-CAGTCTGGGACAAAGGCATCG-ATACTAAATTACA
1 TGTAAGACCAC-GTCTGGGACAAAGGCATCGTAT-CT-AATTACA
17067744 TGTAAGACCACGTCTGGGA
1 TGTAAGACCACGTCTGGGA
17067763 TGTCAGTATT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
41 2 0.04
42 28 0.54
43 21 0.40
44 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAAAGGCATCGTATCTAATTACA
Found at i:17070480 original size:28 final size:29
Alignment explanation
Indices: 17070441--17070495 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
17070431 CGAGCCTTGA
*
17070441 GGAAAAAGTGTAAATATGTAAAAGTTTAG
1 GGAAAAAGTGTAAATATGAAAAAGTTTAG
* *
17070470 GGAAAAA-TGTAATTTTGAAAAAGTTT
1 GGAAAAAGTGTAAATATGAAAAAGTTT
17070496 GAGTCAAGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.47, C:0.00, G:0.22, T:0.31
Consensus pattern (29 bp):
GGAAAAAGTGTAAATATGAAAAAGTTTAG
Found at i:17082327 original size:40 final size:39
Alignment explanation
Indices: 17082167--17082329 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
17082157 TGTGTATGAA
*
17082167 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
17082206 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
17082245 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
17082284 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
17082324 TGTGCG
1 TGTGCG
17082330 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:17082345 original size:40 final size:39
Alignment explanation
Indices: 17082167--17082360 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
17082157 TGTGTATGAA
* *
17082167 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
17082206 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
17082245 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
17082284 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
17082324 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
17082361 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:17090248 original size:40 final size:39
Alignment explanation
Indices: 17090088--17090250 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
17090078 TGTGTATGAA
*
17090088 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
17090127 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
17090166 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
17090205 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
17090245 TGTGCG
1 TGTGCG
17090251 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:17090266 original size:40 final size:39
Alignment explanation
Indices: 17090088--17090281 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
17090078 TGTGTATGAA
* *
17090088 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
17090127 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
17090166 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
17090205 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
17090245 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
17090282 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:17107348 original size:28 final size:28
Alignment explanation
Indices: 17107287--17107384 Score: 99
Period size: 28 Copynumber: 3.5 Consensus size: 28
17107277 TCACAAATTG
** * *
17107287 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
17107316 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* * *
17107344 TCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
17107372 GCACTAAGTGTGC
1 GCACTAAGTGTGC
17107385 GGGCTTATGG
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
27 1 0.02
28 41 0.71
29 16 0.28
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:17110834 original size:29 final size:30
Alignment explanation
Indices: 17110783--17110884 Score: 115
Period size: 29 Copynumber: 3.6 Consensus size: 30
17110773 TGGCCCACTA
* *
17110783 GGCCCA-CTAGGCCCAATCT-TATTCAAAT
1 GGCCCATCTAGGCCCAATTTATATTCATAT
* *
17110811 GGGCCATCT-GGCCCAATTTATATTCTTAT
1 GGCCCATCTAGGCCCAATTTATATTCATAT
* *
17110840 GGCCCA-CTAGGCCCAATTCACATTCATAT
1 GGCCCATCTAGGCCCAATTTATATTCATAT
17110869 GGCCCAT-TAGGCCCAA
1 GGCCCATCTAGGCCCAA
17110885 ATCATATTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
28 16 0.26
29 46 0.74
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.26
Consensus pattern (30 bp):
GGCCCATCTAGGCCCAATTTATATTCATAT
Found at i:17110892 original size:58 final size:57
Alignment explanation
Indices: 17110783--17110892 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 57
17110773 TGGCCCACTA
** * * *
17110783 GGCCCACTAGGCCCAATCTTATTCAAATGGGCCATCTGGCCCAATTTATATTCTTAT
1 GGCCCACTAGGCCCAATCACATTCAAATGGCCCATCTGGCCCAAATCATATTCTTAT
*
17110840 GGCCCACTAGGCCCAATTCACATTCATATGGCCCAT-TAGGCCCAAATCATATT
1 GGCCCACTAGGCCCAA-TCACATTCAAATGGCCCATCT-GGCCCAAATCATATT
17110893 ATATTCATGC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
57 17 0.38
58 28 0.62
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.28
Consensus pattern (57 bp):
GGCCCACTAGGCCCAATCACATTCAAATGGCCCATCTGGCCCAAATCATATTCTTAT
Found at i:17117138 original size:43 final size:43
Alignment explanation
Indices: 17117059--17117206 Score: 129
Period size: 43 Copynumber: 3.4 Consensus size: 43
17117049 TAATACCATA
* ** * * *
17117059 TCCTAGATATGGTCTTACATGTTATCAC-ATATCGATGCCACTG
1 TCCTAGACATGGTCTTACACATAACCACAATA-CGATGCCAATG
* * * * *
17117102 TCCTAGACAGGGTCTTACACATAATC-GATTAACGATGCCAATT
1 TCCTAGACATGGTCTTACACATAACCACAAT-ACGATGCCAATG
* * * *
17117145 TCCCAGACATAGTCATACACATAACCACAATACAATGCCAATG
1 TCCTAGACATGGTCTTACACATAACCACAATACGATGCCAATG
17117188 TCCTAGACATGGTCTTACA
1 TCCTAGACATGGTCTTACA
17117207 TCTAATCTCT
Statistics
Matches: 81, Mismatches: 21, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
43 78 0.96
44 3 0.04
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
TCCTAGACATGGTCTTACACATAACCACAATACGATGCCAATG
Found at i:17117764 original size:29 final size:29
Alignment explanation
Indices: 17117700--17117765 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
17117690 TTTTCATCTA
* *
17117700 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATATACACT
* * *
17117729 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAACCCCTCAATATACACT
17117757 TTTACTCAA
1 TTT-CTCAA
17117766 AATCACCTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATATACACT
Found at i:17132794 original size:14 final size:15
Alignment explanation
Indices: 17132777--17132805 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17132767 TCACGAAAAT
17132777 TTCACACAT-ATAAA
1 TTCACACATAATAAA
17132791 TTCACACATAATAAA
1 TTCACACATAATAAA
17132806 CACTGACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:17138690 original size:29 final size:28
Alignment explanation
Indices: 17138658--17138760 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
17138648 GTGACGAGAT
* *
17138658 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
17138687 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
17138716 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
17138745 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
17138761 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:17141992 original size:28 final size:29
Alignment explanation
Indices: 17141910--17141999 Score: 130
Period size: 29 Copynumber: 3.1 Consensus size: 29
17141900 AAAGAAGAAC
17141910 TATGAAT-ATGATTTGGGCCTAATGGGCCA
1 TATGAATGA-GATTTGGGCCTAATGGGCCA
* *
17141939 TACGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGAGATTTGGGCCTAATGGGCCA
*
17141968 TATGAATGAGA-TTGGGCCTAGTGGGCCA
1 TATGAATGAGATTTGGGCCTAATGGGCCA
17141996 TATG
1 TATG
17142000 CAGGTATGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
28 20 0.36
29 35 0.64
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (29 bp):
TATGAATGAGATTTGGGCCTAATGGGCCA
Found at i:17151367 original size:39 final size:40
Alignment explanation
Indices: 17151168--17151371 Score: 281
Period size: 40 Copynumber: 5.2 Consensus size: 40
17151158 TGGATGATAA
* *
17151168 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
*
17151208 AGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
17151248 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* *
17151288 CGAAGGCATTTGTGCTAGTTACTATAACCGGGCT-AGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * * *
17151327 CGAAGACATTTGAGCGAG-TAGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
17151366 CGAAGG
1 CGAAGG
17151372 TACTTGGTTT
Statistics
Matches: 148, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 5 0.03
39 36 0.24
40 106 0.72
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:17156365 original size:29 final size:29
Alignment explanation
Indices: 17156320--17156433 Score: 149
Period size: 29 Copynumber: 4.0 Consensus size: 29
17156310 GCATGACTAT
*
17156320 GAATGTGATTTGGGCCTAATGGGTCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
**
17156349 GAATGTGATTTCAGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
*
17156378 GAATGTGATTTGGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* * **
17156407 AAATGAGA-TTGGGCCTGGTGGGCCATA
1 GAATGTGATTTGGGCCTAATGGGCCATA
17156434 TGCATGTTTG
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 17 0.23
29 58 0.77
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:17157591 original size:17 final size:18
Alignment explanation
Indices: 17157558--17157591 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17157548 TCTAAAGAAG
17157558 GGTTTTCAATGAAAACAT
1 GGTTTTCAATGAAAACAT
*
17157576 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
17157592 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAT
Found at i:17159467 original size:24 final size:24
Alignment explanation
Indices: 17159416--17159604 Score: 296
Period size: 24 Copynumber: 8.0 Consensus size: 24
17159406 GCTTTATCAT
*
17159416 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
17159441 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
17159465 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
17159488 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
17159511 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
17159535 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
17159559 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
17159582 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
17159605 GCACTTCCTC
Statistics
Matches: 156, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
23 68 0.44
24 76 0.49
25 12 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:17159491 original size:23 final size:23
Alignment explanation
Indices: 17159437--17159603 Score: 280
Period size: 23 Copynumber: 7.1 Consensus size: 23
17159427 CCTAGCCTCT
*
17159437 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17159460 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
17159484 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17159507 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
17159530 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
17159554 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
17159578 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17159601 TTT
1 TTT
17159604 TGCACTTCCT
Statistics
Matches: 139, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
23 71 0.51
24 68 0.49
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:17159605 original size:47 final size:47
Alignment explanation
Indices: 17159437--17159604 Score: 293
Period size: 47 Copynumber: 3.6 Consensus size: 47
17159427 CCTAGCCTCT
*
17159437 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
17159484 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
17159530 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
17159578 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
17159605 GCACTTCCTC
Statistics
Matches: 115, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
46 23 0.20
47 70 0.61
48 22 0.19
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:17159674 original size:9 final size:9
Alignment explanation
Indices: 17159660--17159716 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
17159650 ATCTCATGTG
17159660 CATATCATA
1 CATATCATA
*
17159669 CATATCATGTG
1 CATATCA--TA
17159680 CATATCATA
1 CATATCATA
* *
17159689 CATGTCATGTG
1 CATATCA--TA
17159700 CATATCATA
1 CATATCATA
17159709 CATATCAT
1 CATATCAT
17159717 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:17159676 original size:20 final size:20
Alignment explanation
Indices: 17159648--17159718 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
17159638 GCATTTATGA
*
17159648 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
17159668 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
17159688 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
17159708 ACATATCATGT
1 ACATATCATGT
17159719 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:17159683 original size:11 final size:11
Alignment explanation
Indices: 17159653--17159707 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
17159643 TATGAACATC
17159653 TCATGTGCATA
1 TCATGTGCATA
*
17159664 TCA--TACATA
1 TCATGTGCATA
17159673 TCATGTGCATA
1 TCATGTGCATA
* *
17159684 TCA--TACATG
1 TCATGTGCATA
17159693 TCATGTGCATA
1 TCATGTGCATA
17159704 TCAT
1 TCAT
17159708 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:17159782 original size:25 final size:25
Alignment explanation
Indices: 17159754--17159801 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17159744 ATATATAAAC
* * *
17159754 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
17159779 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
17159802 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:17161055 original size:27 final size:27
Alignment explanation
Indices: 17161035--17161458 Score: 464
Period size: 27 Copynumber: 15.7 Consensus size: 27
17161025 AGGGTATTTT
*
17161035 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
17161062 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
17161089 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
17161116 AGTAATTCTATAAATCGAAGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
17161143 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
17161170 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
17161197 -GATAATTATGTAAATTTG-GGGTAAAAT
1 AG-TAATTCTGTAAA-TCGAGGGTAAAAC
* * *
17161224 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
17161251 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
17161278 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
17161305 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
17161332 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
17161359 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* **
17161386 -GATAATTTTACAAATCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
*
17161413 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
17161440 GGTAATTCTGTAAATCGAG
1 AGTAATTCTGTAAATCGAG
17161459 AGTACTTTGG
Statistics
Matches: 351, Mismatches: 34, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.01
27 339 0.97
28 7 0.02
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:17164621 original size:24 final size:24
Alignment explanation
Indices: 17164584--17164758 Score: 284
Period size: 24 Copynumber: 7.4 Consensus size: 24
17164574 CTAGAGGCCT
*
17164584 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
17164609 AGCCCTTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
17164633 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
17164656 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
17164679 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
17164703 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
17164727 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
17164750 AGCCCTTTT
1 AGCCCTTTT
17164759 GCACTTCTTC
Statistics
Matches: 143, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 67 0.47
24 72 0.50
25 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:17164645 original size:23 final size:23
Alignment explanation
Indices: 17164591--17164757 Score: 271
Period size: 23 Copynumber: 7.1 Consensus size: 23
17164581 CCTAGCCTCT
*
17164591 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
17164614 TTTTAATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
17164638 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17164661 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
17164684 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
17164708 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
17164732 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17164755 TTT
1 TTT
17164758 TGCACTTCTT
Statistics
Matches: 137, Mismatches: 5, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
23 70 0.51
24 67 0.49
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:17164759 original size:47 final size:47
Alignment explanation
Indices: 17164591--17164758 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
17164581 CCTAGCCTCT
* *
17164591 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
17164638 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
17164684 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
17164732 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
17164759 GCACTTCTTC
Statistics
Matches: 114, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
46 22 0.19
47 70 0.61
48 22 0.19
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:17164830 original size:9 final size:9
Alignment explanation
Indices: 17164816--17164872 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
17164806 ATCTCATGTG
17164816 CATATCATA
1 CATATCATA
*
17164825 CATATCATGTG
1 CATATCA--TA
17164836 CATATCATA
1 CATATCATA
* *
17164845 CATGTCATGTG
1 CATATCA--TA
17164856 CATATCATA
1 CATATCATA
17164865 CATATCAT
1 CATATCAT
17164873 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:17164832 original size:20 final size:20
Alignment explanation
Indices: 17164804--17164874 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
17164794 GCATTTATGA
*
17164804 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
17164824 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
17164844 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
17164864 ACATATCATGT
1 ACATATCATGT
17164875 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:17164839 original size:11 final size:11
Alignment explanation
Indices: 17164809--17164863 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
17164799 TATGAACATC
17164809 TCATGTGCATA
1 TCATGTGCATA
*
17164820 TCA--TACATA
1 TCATGTGCATA
17164829 TCATGTGCATA
1 TCATGTGCATA
* *
17164840 TCA--TACATG
1 TCATGTGCATA
17164849 TCATGTGCATA
1 TCATGTGCATA
17164860 TCAT
1 TCAT
17164864 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:17164939 original size:25 final size:25
Alignment explanation
Indices: 17164911--17164958 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17164901 ATACATAAAC
* * *
17164911 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
17164936 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
17164959 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:17166121 original size:15 final size:14
Alignment explanation
Indices: 17166085--17166112 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
17166075 TTATCCCAAT
17166085 CAAATAAAGAAAAA
1 CAAATAAAGAAAAA
17166099 CAAATAAAGAAAAA
1 CAAATAAAGAAAAA
17166113 ATTAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (14 bp):
CAAATAAAGAAAAA
Found at i:17167802 original size:45 final size:45
Alignment explanation
Indices: 17167738--17167827 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
17167728 CAAATACCAT
*
17167738 AGCCAATAACTCTTTCTCAATAATCATGTAATTTAGCTGAGCATC
1 AGCCAATAACTCTTTCTCAATAATCATGTAATTCAGCTGAGCATC
*
17167783 AGCCAATAACTCTTTCTCAATAGTCATGTAATTCAGCTGAGCATC
1 AGCCAATAACTCTTTCTCAATAATCATGTAATTCAGCTGAGCATC
17167828 TATCATGGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.32
Consensus pattern (45 bp):
AGCCAATAACTCTTTCTCAATAATCATGTAATTCAGCTGAGCATC
Found at i:17169801 original size:43 final size:43
Alignment explanation
Indices: 17169634--17169801 Score: 110
Period size: 43 Copynumber: 3.9 Consensus size: 43
17169624 GTATATTGAT
* * *
17169634 CTGAATTATCATGTAAGACCATGTCTGGGACACAGGCATCGA-A
1 CTGAATTA-CATGTAAGACCACGTCCGGGACATAGGCATCGATA
* ** * * * * *
17169677 TTGAAATTTATGTGTAAGACCATGACCGGGACATCGACATTG-TA
1 CTG-AA-TTACATGTAAGACCACGTCCGGGACATAGGCATCGATA
* * * * *
17169721 TCT-AATTTCGTATAAGACC-CTGTCTGGGACAGAGGCATCGATA
1 -CTGAATTACATGTAAGACCAC-GTCCGGGACATAGGCATCGATA
*
17169764 CTGAATTACATGTAAGACCACGTCCGGGACATTGGCAT
1 CTGAATTACATGTAAGACCACGTCCGGGACATAGGCAT
17169802 TATACCCGTT
Statistics
Matches: 91, Mismatches: 26, Indels: 16
0.68 0.20 0.12
Matches are distributed among these distances:
42 26 0.29
43 33 0.36
44 28 0.31
45 4 0.04
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (43 bp):
CTGAATTACATGTAAGACCACGTCCGGGACATAGGCATCGATA
Found at i:17177933 original size:79 final size:80
Alignment explanation
Indices: 17177798--17177979 Score: 239
Period size: 79 Copynumber: 2.3 Consensus size: 80
17177788 TCGAATGATG
*
17177798 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTTG
17177863 TGCGAGTTACTA-AA
66 TGCGAGTTACTATAA
* * * **
17177877 TCCGGACTAAGAT-CCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTGTGCTAAGTGACT-AATCCGGACTAAGAT-CCGAAGGCAT
17177939 TTGTGCGAGTTACTATAA
63 TTGTGCGAGTTACTATAA
*
17177957 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
17177980 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
78 8 0.09
79 79 0.88
80 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTATAA
Found at i:17177988 original size:40 final size:40
Alignment explanation
Indices: 17177798--17177981 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
17177788 TCGAATGATG
* *
17177798 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
17177837 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17177877 TCCGGACTAAGAT-CCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17177916 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
17177957 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17177982 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 7, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
38 1 0.01
39 59 0.45
40 70 0.53
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:17178003 original size:79 final size:78
Alignment explanation
Indices: 17177798--17178013 Score: 212
Period size: 79 Copynumber: 2.7 Consensus size: 78
17177788 TCGAATGATG
* * * * **
17177798 TCCGGGCTAAG-TCCCGAAGGCTTTGTGCTAAGTGACT-AATCCGGACTAAGATCCGAAGGCATT
1 TCCGGACTAAGAT-CCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAA-ATCCGAAGGCATT
17177861 TGTGCGAGTTACTAAA
63 TGTGCGAGTTACTAAA
*
17177877 TCCGGACTAAGATCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGACTAAGATCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAAT-CCGAAGGCATTTG
17177942 TGCGAGTTACTATAA
65 TGCGAGTTACTA-AA
* * *
17177957 -CCGGGCTATG-TCCCGAAGGCATT-TGAACGAG-TAGCTATATCC-GGTTAAATCCGAAGG
1 TCCGGACTAAGAT-CCGAAGGCATTGTG--CGAGTTA-CTAAATCCGGGTTAAATCCGAAGG
17178014 TACGTGATTC
Statistics
Matches: 118, Mismatches: 11, Indels: 17
0.81 0.08 0.12
Matches are distributed among these distances:
78 17 0.14
79 87 0.74
80 14 0.12
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
TCCGGACTAAGATCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAATCCGAAGGCATTTGT
GCGAGTTACTAAA
Found at i:17185973 original size:40 final size:40
Alignment explanation
Indices: 17185885--17186067 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
17185875 TCGAATGATG
*
17185885 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TACT-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
17185923 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17185963 TCCGGACTAAGAT-CCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
17186002 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
17186043 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17186068 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
38 21 0.16
39 47 0.36
40 61 0.47
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:17186039 original size:79 final size:79
Alignment explanation
Indices: 17185885--17186065 Score: 228
Period size: 79 Copynumber: 2.3 Consensus size: 79
17185875 TCGAATGATG
*
17185885 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTACTAATCCGGACTAAGATCCGAAGGCATTTGT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTACTAATCCGGACTAAGATCCGAAGGCATTTGT
*
17185950 GCGAGTTACTA-AA
66 GCGAGCTACTATAA
* * **
17185963 TCCGGACTAAGAT-CCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTGTGCTAAG-TACT-AATCCGGACTAAGAT-CCGAAGGCAT
17186025 TTGTGCGAGCTACTATAA
62 TTGTGCGAGCTACTATAA
*
17186043 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
17186066 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 8, Indels: 11
0.82 0.07 0.10
Matches are distributed among these distances:
77 2 0.02
78 30 0.34
79 55 0.62
80 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTACTAATCCGGACTAAGATCCGAAGGCATTTGT
GCGAGCTACTATAA
Found at i:17186089 original size:79 final size:74
Alignment explanation
Indices: 17185885--17186100 Score: 211
Period size: 79 Copynumber: 2.7 Consensus size: 74
17185875 TCGAATGATG
* * *
17185885 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTACTAATCCGGACTAAGATCCGAAGGCATTTGT
1 TCCGGGCTAAGTCCCGAAGGCATT-TGC-GAGTACTAATCCGG-TTAAG-TCCGAAGGCATTTGT
*
17185950 GCGAGTTACTAAA
62 GCGAGCTACTAAA
*
17185963 TCCGGACTAAGAT-CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAG-TCCCGAAGGCATT-TGCGAG-TACT-AATCC-GGTTAAGT-CCGAAGGCATTT
17186027 GTGCGAGCTACTATAA
60 GTGCGAGCTACTA-AA
* *
17186043 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTG--CGAGTA-CTA-ATCCGGTT-AAGTCCGAAGG
17186101 TACGTGATTC
Statistics
Matches: 118, Mismatches: 8, Indels: 23
0.79 0.05 0.15
Matches are distributed among these distances:
77 2 0.02
78 32 0.27
79 67 0.57
80 17 0.14
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (74 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGCGAGTACTAATCCGGTTAAGTCCGAAGGCATTTGTGCGA
GCTACTAAA
Found at i:17187808 original size:44 final size:43
Alignment explanation
Indices: 17187748--17187906 Score: 139
Period size: 44 Copynumber: 3.7 Consensus size: 43
17187738 GGTATTGATC
* * *
17187748 TGAA-TTATCGTGTAAGACCGTGTCTGGAACACAGGCATCAAAT
1 TGAATTTA-CGTGTAAGACCATGTCTGGGACACAGGCATCATAT
*
17187791 TGAAATTTACGTGTAAGACCATGTCCGGGACATC-GGCATCATAT
1 TG-AATTTACGTGTAAGACCATGTCTGGGACA-CAGGCATCATAT
* * * *
17187835 CT-AATTT-TGTATAAGACCCTGTCTGGGACAGAGGCATCGATAT
1 -TGAATTTACGTGTAAGACCATGTCTGGGACACAGGCATC-ATAT
* * *
17187878 TGAA-TTACATGTAAGACCACGTCCGGGAC
1 TGAATTTACGTGTAAGACCATGTCTGGGAC
17187907 GTTGGCATTA
Statistics
Matches: 93, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
42 28 0.30
43 29 0.31
44 31 0.33
45 5 0.05
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (43 bp):
TGAATTTACGTGTAAGACCATGTCTGGGACACAGGCATCATAT
Found at i:17187871 original size:42 final size:43
Alignment explanation
Indices: 17187760--17187906 Score: 113
Period size: 42 Copynumber: 3.4 Consensus size: 43
17187750 AATTATCGTG
* * * *
17187760 TAAGACCGTGTCTGGAACACAGGCATCAAATTGAAATTTACGTG
1 TAAGACCATGTCTGGGACACAGGCATCATATT-AAATTTACGTA
* *
17187804 TAAGACCATGTCCGGGACATC-GGCATCATATCT-AATTT-TGTA
1 TAAGACCATGTCTGGGACA-CAGGCATCATAT-TAAATTTACGTA
* * * * *
17187846 TAAGACCCTGTCTGGGACAGAGGCATCGATATTGAA-TTACATG
1 TAAGACCATGTCTGGGACACAGGCATC-ATATTAAATTTACGTA
* *
17187889 TAAGACCACGTCCGGGAC
1 TAAGACCATGTCTGGGAC
17187907 GTTGGCATTA
Statistics
Matches: 82, Mismatches: 15, Indels: 13
0.75 0.14 0.12
Matches are distributed among these distances:
42 28 0.34
43 27 0.33
44 25 0.30
45 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACACAGGCATCATATTAAATTTACGTA
Found at i:17189908 original size:15 final size:15
Alignment explanation
Indices: 17189888--17189918 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17189878 AAATGTGAAA
17189888 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
17189903 GATATGTTTTGTATT
1 GATATGTTTTGGATT
17189918 G
1 G
17189919 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:17191055 original size:56 final size:56
Alignment explanation
Indices: 17190991--17191106 Score: 232
Period size: 56 Copynumber: 2.1 Consensus size: 56
17190981 TATGTACTTA
17190991 TGATCTTGAAAATAAATGTGAATATGATAGCATAAATTAGTTTGGTTAAGTTTAGT
1 TGATCTTGAAAATAAATGTGAATATGATAGCATAAATTAGTTTGGTTAAGTTTAGT
17191047 TGATCTTGAAAATAAATGTGAATATGATAGCATAAATTAGTTTGGTTAAGTTTAGT
1 TGATCTTGAAAATAAATGTGAATATGATAGCATAAATTAGTTTGGTTAAGTTTAGT
17191103 TGAT
1 TGAT
17191107 GTTAACATTG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.40
Consensus pattern (56 bp):
TGATCTTGAAAATAAATGTGAATATGATAGCATAAATTAGTTTGGTTAAGTTTAGT
Found at i:17200070 original size:40 final size:40
Alignment explanation
Indices: 17200015--17200138 Score: 173
Period size: 39 Copynumber: 3.1 Consensus size: 40
17200005 TGGATGATAA
17200015 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
17200055 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCT-AGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * * *
17200094 CGAAGACATTTGAGCGAG-TAGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
17200133 CGAAGG
1 CGAAGG
17200139 TACTTGGTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
38 5 0.07
39 37 0.49
40 33 0.44
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:17206642 original size:70 final size:71
Alignment explanation
Indices: 17206557--17206719 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
17206547 CGATTTGTCT
17206557 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTA-
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
17206621 CTTTCA
66 CTTTCA
17206627 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
17206692 CTTTCA
66 CTTTCA
17206698 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
17206720 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 64 0.70
71 28 0.30
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:17206757 original size:71 final size:69
Alignment explanation
Indices: 17206557--17206753 Score: 247
Period size: 70 Copynumber: 2.8 Consensus size: 69
17206547 CGATTTGTCT
* * * *
17206557 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAC
17206622 TTTCA
65 TTTCA
* * * *
17206627 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTA-
17206692 CTTTCA
64 CTTTCA
* *
17206698 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
17206754 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 65 0.55
71 31 0.26
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (69 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTACT
TTCA
Found at i:17214188 original size:66 final size:68
Alignment explanation
Indices: 17214110--17214296 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
17214100 TAGTACCACT
*
17214110 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
17214172 CACG
65 CACG
17214176 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
17214241 ATCACG
63 ATCACG
17214247 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
17214297 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:17214221 original size:71 final size:71
Alignment explanation
Indices: 17214133--17214296 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
17214123 CGATTTGTCT
17214133 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
17214198 CTTTCA
66 CTTTCA
17214204 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
17214269 CTTTCA
66 CTTTCA
17214275 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
17214297 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:17214334 original size:71 final size:70
Alignment explanation
Indices: 17214133--17214330 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
17214123 CGATTTGTCT
* * * *
17214133 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
17214198 CTTTCA
65 CTTTCA
* * * *
17214204 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
17214269 CTTTCA
65 CTTTCA
* *
17214275 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
17214331 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:17215662 original size:21 final size:21
Alignment explanation
Indices: 17215624--17215663 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17215614 AGAGCACCAA
*
17215624 GAGCCAAAAGGAGCCAAAAAC
1 GAGCCAAAAGGAGACAAAAAC
17215645 GAGCCAAAAAGG-GACAAAA
1 GAGCC-AAAAGGAGACAAAA
17215664 CGGACCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.55, C:0.20, G:0.25, T:0.00
Consensus pattern (21 bp):
GAGCCAAAAGGAGACAAAAAC
Found at i:17223145 original size:40 final size:40
Alignment explanation
Indices: 17223100--17223266 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
17223090 CGGAATATGA
17223100 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * * *
17223140 CCGGATAGAATAACTCGCACGAATGCCCTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
17223180 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
17223220 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
17223259 CCGGATAT
1 CCGGATAT
17223267 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:17224115 original size:17 final size:19
Alignment explanation
Indices: 17224092--17224137 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
17224082 AAGAAGCATG
17224092 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
17224110 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
17224128 AATCATGCTC
1 AATCATGCTC
17224138 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:17225095 original size:28 final size:27
Alignment explanation
Indices: 17225028--17225126 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 27
17225018 TCATGAATTG
* ** *
17225028 GCACTAAGTGTGCGGGTTCAAATTGTGTA
1 GCACTAAGTGTGCGAGTT-TGATTAT-TA
17225057 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTAT-TA
*
17225085 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGATTATT-A
17225113 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
17225127 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTTGATTATTA
Found at i:17231373 original size:21 final size:21
Alignment explanation
Indices: 17231326--17231373 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
17231316 CCTTTCATAA
*
17231326 AGTATCGATTATTTTACTCTG
1 AGTATCGATTATTTTACTATG
17231347 -GCTATCGATTATTTTACTATG
1 AG-TATCGATTATTTTACTATG
17231368 AGTATC
1 AGTATC
17231374 AATACTCATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.46
Consensus pattern (21 bp):
AGTATCGATTATTTTACTATG
Found at i:17241565 original size:42 final size:42
Alignment explanation
Indices: 17241510--17241712 Score: 228
Period size: 42 Copynumber: 4.8 Consensus size: 42
17241500 AATTTAGTAT
** * *
17241510 CGATGCCTCTGTCCCAGACAGGGTCTTATACGAAATCAGATA
1 CGATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATA
* * *
17241552 CAATGCCGATGTCCCAGACATGATCTTACAGGAAATCAGATA
1 CGATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATA
*
17241594 CGATGCCGATGTCCCAGACATGGTCTTACAGGAAATCAGATA
1 CGATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATA
* * *
17241636 CGATGTCGATGTCTCAGACATGGTCTTACACGTAAATATCAAAT-
1 CGATGCCGATGTCCCAGACATGGTCTTACACG--AA-ATCAGATA
* * * **
17241680 CGAGGCCTATGTCCTAGACACAGTCTTACACGA
1 CGATGCCGATGTCCCAGACATGGTCTTACACGA
17241713 TATCTCAGAT
Statistics
Matches: 138, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
42 105 0.76
44 27 0.20
45 6 0.04
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (42 bp):
CGATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATA
Found at i:17248914 original size:42 final size:42
Alignment explanation
Indices: 17248836--17249058 Score: 245
Period size: 42 Copynumber: 5.2 Consensus size: 42
17248826 GTCTCAAACG
* **
17248836 TGGTCTTACATGTAATTCAG-TATCGATGCCTCTGTCCCAGACA
1 TGGTCTTACATG-AAATCAGATA-CGATGCCGATGTCCCAGACA
* * *
17248879 GGGTCTTATATGAAATCAGATACAATGCCGATGTCCCAGACA
1 TGGTCTTACATGAAATCAGATACGATGCCGATGTCCCAGACA
* * *
17248921 TGGTCTTACATGAAATCTGATATGATGTCGATGTCCCAGACA
1 TGGTCTTACATGAAATCAGATACGATGCCGATGTCCCAGACA
* *
17248963 TGGTCTTACACGAAATCAGATACGATGCCGATGTCTCAGACA
1 TGGTCTTACATGAAATCAGATACGATGCCGATGTCCCAGACA
* *
17249005 TGGTCTTACATGTAAATCTCAAAT-CGAGGCCTG-TGTCCCAGACA
1 TGGTCTTACATG-AAA--TCAGATACGATGCC-GATGTCCCAGACA
*
17249049 CGGTCTTACA
1 TGGTCTTACA
17249059 CGATATCTCA
Statistics
Matches: 153, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
42 107 0.70
43 15 0.10
44 25 0.16
45 6 0.04
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (42 bp):
TGGTCTTACATGAAATCAGATACGATGCCGATGTCCCAGACA
Found at i:17248978 original size:84 final size:86
Alignment explanation
Indices: 17248836--17249061 Score: 282
Period size: 84 Copynumber: 2.7 Consensus size: 86
17248826 GTCTCAAACG
* * * * * *
17248836 TGGTCTTACATGT-AAT-TCAGTATCGATGCCTCTGTCCCAGACAGGGTCTTATATGAAATCAGA
1 TGGTCTTACATGTAAATCTCA-AATCGAGGCCTGTGTCCCAGACACGGTCTTACACGAAATCAGA
17248899 TACAATGCCGATGTCCCAGACA
65 TACAATGCCGATGTCCCAGACA
* * * * *
17248921 TGGTCTTACATG-AAATCTGATAT-GATGTC-GATGTCCCAGACATGGTCTTACACGAAATCAGA
1 TGGTCTTACATGTAAATCTCAAATCGAGGCCTG-TGTCCCAGACACGGTCTTACACGAAATCAGA
* *
17248983 TACGATGCCGATGTCTCAGACA
65 TACAATGCCGATGTCCCAGACA
17249005 TGGTCTTACATGTAAATCTCAAATCGAGGCCTGTGTCCCAGACACGGTCTTACACGA
1 TGGTCTTACATGTAAATCTCAAATCGAGGCCTGTGTCCCAGACACGGTCTTACACGA
17249062 TATCTCAGAT
Statistics
Matches: 122, Mismatches: 13, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
84 65 0.53
85 27 0.22
86 29 0.24
87 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (86 bp):
TGGTCTTACATGTAAATCTCAAATCGAGGCCTGTGTCCCAGACACGGTCTTACACGAAATCAGAT
ACAATGCCGATGTCCCAGACA
Found at i:17253063 original size:42 final size:42
Alignment explanation
Indices: 17252985--17253074 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
17252975 TCGGCCTCGG
* * * * *
17252985 TATGCGATTTCATGTAAGACCATATCTAGGATATGGCGTTGA
1 TATGAGATTTCATGCAAGACCATATCTAGGACATGGCATCGA
* *
17253027 TATGAGATTTCGTGCAAGACCATGTC-AGCGACATGGCATCGA
1 TATGAGATTTCATGCAAGACCATATCTAG-GACATGGCATCGA
17253069 TATGAG
1 TATGAG
17253075 GTCCCGTATA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 2 0.05
42 38 0.95
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (42 bp):
TATGAGATTTCATGCAAGACCATATCTAGGACATGGCATCGA
Found at i:17253122 original size:90 final size:90
Alignment explanation
Indices: 17253028--17253195 Score: 205
Period size: 90 Copynumber: 1.9 Consensus size: 90
17253018 TGGCGTTGAT
* * * * *
17253028 ATGAGATTTCGTGCAAGACCATGTCAGCGACATGGCATCGATATG-AGGTCCCGTATAAGACCAT
1 ATGAGACTTCGTACAAGACCATATCAGCGACATGGCATCGATATGTA-GACCCATATAAGACCAT
17253092 GTCTG-GGACATGGCATCAGCACTGAC
65 GTC-GAGGACATGGCATCAGCACTGAC
* * * * * *
17253118 ATGAGACTTCGTATAAGACCATATCTGGGATATGGCATCGGTATGTAGACCCATGTAAGACCATG
1 ATGAGACTTCGTACAAGACCATATCAGCGACATGGCATCGATATGTAGACCCATATAAGACCATG
17253183 TCGAGGACATGGC
66 TCGAGGACATGGC
17253196 TTTGGCATTT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
89 1 0.02
90 63 0.97
91 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (90 bp):
ATGAGACTTCGTACAAGACCATATCAGCGACATGGCATCGATATGTAGACCCATATAAGACCATG
TCGAGGACATGGCATCAGCACTGAC
Found at i:17261000 original size:90 final size:90
Alignment explanation
Indices: 17260891--17261056 Score: 210
Period size: 90 Copynumber: 1.8 Consensus size: 90
17260881 TGGCATTGAT
* * * * *
17260891 ATGAGATTTCGCTTAAGACCATGTCGGGGACATGGAATCGATATG-AGGTCCTGTATAAGACCAT
1 ATGAGACTTCGCTTAAGACCATATCGGGGACATGGAATCGATATGTA-GACCTATATAAAACCAT
*
17260955 GTCTGGGACATGACATCGGCACCGAC
65 GTCGGGGACATGACATCGGCACCGAC
* * * *
17260981 ATGAGACTTCG-TATAAGACCATATCTGGGATATGGCATCGGTATGTAGACCTATATAAAACCAT
1 ATGAGACTTCGCT-TAAGACCATATCGGGGACATGGAATCGATATGTAGACCTATATAAAACCAT
17261045 GTCGGGGACATG
65 GTCGGGGACATG
17261057 GCTTTGGCAT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
89 1 0.02
90 62 0.97
91 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (90 bp):
ATGAGACTTCGCTTAAGACCATATCGGGGACATGGAATCGATATGTAGACCTATATAAAACCATG
TCGGGGACATGACATCGGCACCGAC
Found at i:17269977 original size:23 final size:23
Alignment explanation
Indices: 17269949--17269994 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
17269939 CAGTGTCAAT
* *
17269949 AATTTTTAGAGTCTAGAGTTTCA
1 AATTTTCAGAATCTAGAGTTTCA
*
17269972 AATTTTCAGAATCTATAGTTTCA
1 AATTTTCAGAATCTAGAGTTTCA
17269995 GAATCTACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (23 bp):
AATTTTCAGAATCTAGAGTTTCA
Found at i:17271863 original size:15 final size:17
Alignment explanation
Indices: 17271828--17271864 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
17271818 GTTGTTTGTC
*
17271828 AAAAAGGAGAGAAAATT
1 AAAAAGGAGAGAAAATG
17271845 AAAAAGGA-AG-AAATG
1 AAAAAGGAGAGAAAATG
17271860 AAAAA
1 AAAAA
17271865 AAAATGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 9 0.47
16 2 0.11
17 8 0.42
ACGTcount: A:0.70, C:0.00, G:0.22, T:0.08
Consensus pattern (17 bp):
AAAAAGGAGAGAAAATG
Found at i:17273588 original size:67 final size:65
Alignment explanation
Indices: 17273444--17273596 Score: 166
Period size: 67 Copynumber: 2.3 Consensus size: 65
17273434 CTAGCCAGTT
* * * *
17273444 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTATA
1 TATCTCGTAGCTCTCTTGTCTACATGGTG--CTACACATAGAACCACCCATGCGACCTAGCTATA
17273509 TA
64 TA
* * *
17273511 TATCCCGTAGCTCT-TTGTCTACATGGTG-TACACATAGTATCACCCATGCGACCTAGCTACATC
1 TATCTCGTAGCTCTCTTGTCTACATGGTGCTACACATAGAACCACCCATGCGACCTAGCT--AT-
17273574 ATAA
63 AT-A
*
17273578 TGTCTCGTAGCTCTCTTGT
1 TATCTCGTAGCTCTCTTGT
17273597 ACACATGATA
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
63 24 0.33
65 2 0.03
66 16 0.22
67 26 0.36
68 4 0.06
ACGTcount: A:0.22, C:0.29, G:0.17, T:0.33
Consensus pattern (65 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGCTACACATAGAACCACCCATGCGACCTAGCTATATA
Done.