Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 101 of 163
Found at i:32670399 original size:4 final size:4
Alignment explanation
Indices: 32670390--32670418 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
32670380 TTTTCAAACT
32670390 TTAA TTAA TTAA TTAA TTAA TTAA -TAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
32670419 CAAAAAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:32670685 original size:22 final size:22
Alignment explanation
Indices: 32670657--32670701 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
32670647 AGTCACGAAG
32670657 TCATTCCACTATAATATAGCGA
1 TCATTCCACTATAATATAGCGA
* *
32670679 TCATTCCACTATAGTATTGCGA
1 TCATTCCACTATAATATAGCGA
32670701 T
1 T
32670702 TGAGCTCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (22 bp):
TCATTCCACTATAATATAGCGA
Found at i:32680288 original size:21 final size:21
Alignment explanation
Indices: 32680262--32680306 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
32680252 AGAATATTAG
* *
32680262 AATTTGTTGGTGTGGTTTCCA
1 AATTTGTTGGTATGATTTCCA
32680283 AATTTGTTGGTATGATTTCCA
1 AATTTGTTGGTATGATTTCCA
32680304 AAT
1 AAT
32680307 GAAATCCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.09, G:0.22, T:0.47
Consensus pattern (21 bp):
AATTTGTTGGTATGATTTCCA
Found at i:32680816 original size:13 final size:13
Alignment explanation
Indices: 32680798--32680828 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
32680788 CCGGGCCTCA
*
32680798 CCAAACAGCCAAC
1 CCAAACAGCAAAC
32680811 CCAAACAGCAAAC
1 CCAAACAGCAAAC
32680824 CCAAA
1 CCAAA
32680829 ATAACCCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.52, C:0.42, G:0.06, T:0.00
Consensus pattern (13 bp):
CCAAACAGCAAAC
Found at i:32681908 original size:3 final size:3
Alignment explanation
Indices: 32681900--32681929 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
32681890 TTATCATCTT
32681900 TTA TTA TTA TTTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT
32681930 TTAATTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:32681941 original size:16 final size:15
Alignment explanation
Indices: 32681876--32681941 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 15
32681866 TATTTTCTTC
32681876 ATTATTTTAATGTATT
1 ATTATTTTAAT-TATT
* *
32681892 ATCATCTTTTATTATT
1 ATTAT-TTTAATTATT
32681908 ATTTATTATT-ATTATT
1 A-TTATT-TTAATTATT
32681924 ATTATTTTAATTACTT
1 ATTATTTTAATTA-TT
32681940 AT
1 AT
32681942 ATATATACGC
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
14 2 0.05
15 9 0.21
16 21 0.50
17 10 0.24
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (15 bp):
ATTATTTTAATTATT
Found at i:32681941 original size:19 final size:19
Alignment explanation
Indices: 32681900--32681941 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
32681890 TTATCATCTT
*
32681900 TTATTATTATTTATTATTA
1 TTATTATTATTTATAATTA
32681919 TTATTATTATTT-TAATTA
1 TTATTATTATTTATAATTA
32681937 CTTAT
1 -TTAT
32681942 ATATATACGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTATTATTTATAATTA
Found at i:32685757 original size:17 final size:18
Alignment explanation
Indices: 32685735--32685771 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
32685725 TTATTCTTTT
32685735 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
32685752 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
32685770 AT
1 AT
32685772 ACTGTGCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:32688693 original size:85 final size:85
Alignment explanation
Indices: 32688541--32688849 Score: 539
Period size: 85 Copynumber: 3.6 Consensus size: 85
32688531 AACGGATCAA
* * *
32688541 TAAAGACATCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAGCCTTGCATTC
1 TAAAGA-AGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTC
32688606 ATTGGTTACAGTGGAGCTGGT
65 ATTGGTTACAGTGGAGCTGGT
32688627 TAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCA
1 TAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCA
*
32688692 TTGGTTACAGTGGAGTTGGT
66 TTGGTTACAGTGGAGCTGGT
*
32688712 TAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAATAAAG-CTTGCCTTC
1 TAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAA-CAAGCCTTGCCTTC
*
32688776 ATTGGTTACGGTGGAGCTGGT
65 ATTGGTTACAGTGGAGCTGGT
32688797 TAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAA
1 TAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAA
32688850 ANNNNNNNNN
Statistics
Matches: 214, Mismatches: 8, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
84 2 0.01
85 203 0.95
86 9 0.04
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (85 bp):
TAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCA
TTGGTTACAGTGGAGCTGGT
Found at i:32693376 original size:35 final size:35
Alignment explanation
Indices: 32693337--32693406 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
32693327 GAGGATCCAT
32693337 GGGTGTAGATGCTGGTATACAGTTGAAAAGATTAA
1 GGGTGTAGATGCTGGTATACAGTTGAAAAGATTAA
32693372 GGGTGTAGATGCTGGTATACAGTTGAAAAGATTAA
1 GGGTGTAGATGCTGGTATACAGTTGAAAAGATTAA
32693407 ACTTTTTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.06, G:0.31, T:0.29
Consensus pattern (35 bp):
GGGTGTAGATGCTGGTATACAGTTGAAAAGATTAA
Found at i:32696850 original size:48 final size:49
Alignment explanation
Indices: 32696794--32696891 Score: 180
Period size: 48 Copynumber: 2.0 Consensus size: 49
32696784 AATGCCTCGT
32696794 GCTCGACTCCGGAAACGGTCTCGGGTAAGGGGTGTTAC-TTCCAGCGAC
1 GCTCGACTCCGGAAACGGTCTCGGGTAAGGGGTGTTACATTCCAGCGAC
32696842 GCTCGACTCCGGAAACGGTCTCGGGTAAGGGGTGTTACAGTTCCAGCGAC
1 GCTCGACTCCGGAAACGGTCTCGGGTAAGGGGTGTTACA-TTCCAGCGAC
32696892 CTTCATTTTC
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
48 38 0.79
50 10 0.21
ACGTcount: A:0.19, C:0.27, G:0.34, T:0.20
Consensus pattern (49 bp):
GCTCGACTCCGGAAACGGTCTCGGGTAAGGGGTGTTACATTCCAGCGAC
Found at i:32716230 original size:21 final size:23
Alignment explanation
Indices: 32716193--32716240 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
32716183 TCTTTATTCC
*
32716193 TTTTTAAATAAAAG-AAAAGATA
1 TTTTTAAATAAAAGAAAAAGAGA
*
32716215 TTTTTAAAT-AAGGAAAAAGAGA
1 TTTTTAAATAAAAGAAAAAGAGA
32716237 TTTT
1 TTTT
32716241 ATTCTCATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.35
Consensus pattern (23 bp):
TTTTTAAATAAAAGAAAAAGAGA
Found at i:32716882 original size:40 final size:40
Alignment explanation
Indices: 32716838--32716913 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
32716828 GCAAAAAATC
* *
32716838 GAGCATTAGCGGCGATTTAGCCA-AAGCGCCGCTAAAGGTA
1 GAGCATCAGCGGCGATTTAG-AAGAAGCGCCGCTAAAGGTA
* *
32716878 GAGCATCCGCGGCGATTTCGAAGAAGCGCCGCTAAA
1 GAGCATCAGCGGCGATTTAGAAGAAGCGCCGCTAAA
32716914 AATAGAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.03
40 30 0.97
ACGTcount: A:0.29, C:0.25, G:0.30, T:0.16
Consensus pattern (40 bp):
GAGCATCAGCGGCGATTTAGAAGAAGCGCCGCTAAAGGTA
Found at i:32717048 original size:41 final size:41
Alignment explanation
Indices: 32716991--32717308 Score: 304
Period size: 41 Copynumber: 7.8 Consensus size: 41
32716981 ATTTTTAAAC
* * *
32716991 CTTTAGCGGCGTTTTTATTTGTGCGCCGCTAATGATCGGAT
1 CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCTCGGAT
* * * *
32717032 CTTTAGTGGCGTTTTTATCTGAGCGTCGCTAATTCTCCGAT
1 CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCTCGGAT
* * ** *
32717073 CTTTAGCGGC-TTTTTATATGAACGCCGCTAAACCTCTGG-C
1 CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCTC-GGAT
* * * *
32717113 CTTTAGCGGCGATTTTCTCTCAGCGCCGCTAATGCTCTGAT
1 CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCTCGGAT
* * *
32717154 CTTTAGTGGCGTTTTTATCTGAGCGCCACTAATACTCTGG--
1 CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCTC-GGAT
* * *
32717194 CATTTAGCGACGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
1 C-TTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCTCGGAT
* * * * *
32717236 CTTTAGTGACGTTTTTATCTGAGCGCCACTAATTCTCCGG-C
1 CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCT-CGGAT
* *
32717277 CTTTAGCGGCGTTTGTATCTAAGCGCCGCTAA
1 CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAA
32717309 CGCATTTACC
Statistics
Matches: 221, Mismatches: 48, Indels: 16
0.78 0.17 0.06
Matches are distributed among these distances:
40 35 0.16
41 181 0.82
42 5 0.02
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCTCGGAT
Found at i:32717331 original size:82 final size:82
Alignment explanation
Indices: 32716991--32717333 Score: 354
Period size: 82 Copynumber: 4.2 Consensus size: 82
32716981 ATTTTTAAAC
* * * * * *
32716991 CTTTAGCGGCGTTTTTATTTGTGCGCCGCTAATGA-T-CGGATCTTTAGTGGCGTTTTTATCTGA
1 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAAT-ACTCCGG-CCTTTAGCGGCGTTTTTATCTAA
* * *
32717054 GCGTCGCTAATTCTCCGAT
64 GCGCCGCTAATGCTCTGAT
* * * * * * *
32717073 CTTTAGCGGC-TTTTTATATGAACGCCGCTAA-ACCTCTGGCCTTTAGCGGCGATTTTCTCTCAG
1 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATA-CTCCGGCCTTTAGCGGCGTTTTTATCTAAG
32717136 CGCCGCTAATGCTCTGAT
65 CGCCGCTAATGCTCTGAT
* * * * *
32717154 CTTTAGTGGCGTTTTTATCTGAGCGCCACTAATACTCTGGCATTTAGCGACGTTTTTGTCTAAGC
1 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATACTCCGGCCTTTAGCGGCGTTTTTATCTAAGC
*
32717219 GCCGCTAATGCTCGGAT
66 GCCGCTAATGCTCTGAT
* * * *
32717236 CTTTAGTGACGTTTTTATCTGAGCGCCACTAATTCTCCGGCCTTTAGCGGCGTTTGTATCTAAGC
1 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATACTCCGGCCTTTAGCGGCGTTTTTATCTAAGC
* * *
32717301 GCCGCTAACGCAT-TTAC
66 GCCGCTAATGC-TCTGAT
32717318 CTTTAGCGGCGTTTTT
1 CTTTAGCGGCGTTTTT
32717334 GCCGAAGCGC
Statistics
Matches: 220, Mismatches: 35, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
79 1 0.00
81 62 0.28
82 155 0.70
83 2 0.01
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.36
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATACTCCGGCCTTTAGCGGCGTTTTTATCTAAGC
GCCGCTAATGCTCTGAT
Found at i:32718813 original size:12 final size:10
Alignment explanation
Indices: 32718783--32718811 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
32718773 TAAATTTTTT
32718783 GATATATATG
1 GATATATATG
32718793 GATATATATG
1 GATATATATG
32718803 GATATATAT
1 GATATATAT
32718812 ATATAGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (10 bp):
GATATATATG
Found at i:32718911 original size:27 final size:27
Alignment explanation
Indices: 32718881--32718932 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
32718871 AATAAACAAA
* *
32718881 TAAATAAGTAAGTAATTATTTATTTGT
1 TAAATAAATAAGTAATTAATTATTTGT
**
32718908 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATAAGTAATTAATTATTT
32718933 AAATGTAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (27 bp):
TAAATAAATAAGTAATTAATTATTTGT
Found at i:32719839 original size:11 final size:11
Alignment explanation
Indices: 32719823--32719849 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
32719813 TTTGTTTAAT
32719823 TTACTTTCATA
1 TTACTTTCATA
32719834 TTACTTTCATA
1 TTACTTTCATA
32719845 TTACT
1 TTACT
32719850 GGTTGAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.56
Consensus pattern (11 bp):
TTACTTTCATA
Found at i:32721198 original size:65 final size:64
Alignment explanation
Indices: 32721093--32721257 Score: 190
Period size: 65 Copynumber: 2.5 Consensus size: 64
32721083 GATCAAATTA
* * ** *
32721093 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAGATATGAAG-AACTCCA
1 CACAACTTAAAGCAGATGCGGCAGCGAGAGAAGCTGAGGTTCAACAAAG-TATG-AGCAACTCCA
32721156 G
64 G
*
32721157 CTACAACTTAAAGCAGATGCGGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAGCAACTGCA
1 C-ACAACTTAAAGCAGATGCGGCAGCGAGAGAAGCTGAGGTTCAAC-AAAGTATGAGCAACTCCA
32721222 G
64 G
* * *
32721223 CAGTAGCTTAAAGAAGATGCGGCAGCGAGAGAAGC
1 CA-CAACTTAAAGCAGATGCGGCAGCGAGAGAAGC
32721258 AGCGGTTGCA
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
64 1 0.01
65 41 0.47
66 41 0.47
67 4 0.05
ACGTcount: A:0.39, C:0.19, G:0.28, T:0.14
Consensus pattern (64 bp):
CACAACTTAAAGCAGATGCGGCAGCGAGAGAAGCTGAGGTTCAACAAAGTATGAGCAACTCCAG
Found at i:32721244 original size:66 final size:65
Alignment explanation
Indices: 32721117--32721257 Score: 189
Period size: 66 Copynumber: 2.2 Consensus size: 65
32721107 GAGGCAACAT
*
32721117 CGAGAGAAGCTGAGGTTCAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGCAGATGCGGCAG
1 CGAGAGAAGCTGAGGTTCAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGAAGATGCGGCAG
* * *
32721182 CGAGAGAAGCTGAGGTTCAACGAAAG-TATG-AGCAACTGCAGC-AGTAGCTTAAAGAAGATGCG
1 CGAGAGAAGCTGAGGTTCAA--AAAGATATGAAG-AACTCCAGCTA-CAACTTAAAGAAGATGCG
32721244 GCAG
62 GCAG
32721248 CGAGAGAAGC
1 CGAGAGAAGC
32721258 AGCGGTTGCA
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
65 23 0.34
66 41 0.60
67 4 0.06
ACGTcount: A:0.38, C:0.18, G:0.30, T:0.14
Consensus pattern (65 bp):
CGAGAGAAGCTGAGGTTCAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGAAGATGCGGCAG
Found at i:32721718 original size:43 final size:42
Alignment explanation
Indices: 32721613--32721957 Score: 404
Period size: 43 Copynumber: 8.0 Consensus size: 42
32721603 ATTAGCGGTA
** * * *
32721613 TTTTTTGGGTAAGCGCCGCTAAAGAACACGGCCTATAGTGGCAT
1 TTTTTTGTCTAAGCGCCGCTAAAGACCAC-GTCTATAGTGGC-G
*
32721657 TTTTTTGCCTAAGCGCCGCTAAAGACCATCGTCTATAGTGGCG
1 TTTTTTGTCTAAGCGCCGCTAAAGACCA-CGTCTATAGTGGCG
* * *
32721700 TTTTTTGTCCAAGCGCCGCTGAAA-ACCATGGTCTATAATGGCG
1 TTTTTTGTCTAAGCGCCGCT-AAAGACCA-CGTCTATAGTGGCG
* *
32721743 TTTTTTGTCCAAACGCCGCTAAAGACCACGATCTATAGTGGCG
1 TTTTTTGTCTAAGCGCCGCTAAAGACCACG-TCTATAGTGGCG
* *
32721786 TTTTTTGTATAAGCGCCGCTAAAGACCACAATCTATAGTGGCG
1 TTTTTTGTCTAAGCGCCGCTAAAGACCAC-GTCTATAGTGGCG
* *
32721829 TTTTTTGTATAAGCGCCGCTAAAGACCACAATCTATAGTGGCG
1 TTTTTTGTCTAAGCGCCGCTAAAGACCAC-GTCTATAGTGGCG
* * * *
32721872 TTTTTTGTATAAGCGCCGCTAAAGACCATGGTCTATCGCGGCG
1 TTTTTTGTCTAAGCGCCGCTAAAGACCA-CGTCTATAGTGGCG
* *
32721915 TTTTTTGTCTAAGCGCCGCTAAAGACCATAGTCTATAGCGGCG
1 TTTTTTGTCTAAGCGCCGCTAAAGACCA-CGTCTATAGTGGCG
32721958 CTTTAAAAGA
Statistics
Matches: 272, Mismatches: 23, Indels: 13
0.88 0.07 0.04
Matches are distributed among these distances:
42 4 0.01
43 228 0.84
44 39 0.14
45 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (42 bp):
TTTTTTGTCTAAGCGCCGCTAAAGACCACGTCTATAGTGGCG
Found at i:32722015 original size:129 final size:129
Alignment explanation
Indices: 32721731--32722024 Score: 299
Period size: 129 Copynumber: 2.3 Consensus size: 129
32721721 AAAACCATGG
* ** *
32721731 TCTATAATGGCGTTTTTTGTCCAAA-CGCCGCTAAAGACCACGATCTATAGTGGCGTTTTTTGTA
1 TCTATAGTGGCGTTTTTTG-AAAAAGCGCCGCTAAAGACCACGATCTATAGCGGCGTTTTTTGTA
* * *** * * *
32721795 TAAGCGCCGCTAAAGACCACAATCTATAGTGGCGTTTTTTGTATAAGCGCCGCTAAAGACCACAA
65 TAAGCGCCGCTAAAGACCACAATCTATAGCGGCGTCTTTAAAAGAAACGCCGCAAAAGACCACAA
* * * * * *
32721860 TCTATAGTGGCGTTTTTTGTATAAGCGCCGCTAAAGACCATGGTCTATCGCGGCGTTTTTTGTCT
1 TCTATAGTGGCGTTTTTTGAAAAAGCGCCGCTAAAGACCACGATCTATAGCGGCGTTTTTTGTAT
* * * * **
32721925 AAGCGCCGCTAAAGACCATAGTCTATAGCGGCG-CTTTAAAAGAAATGCCGCAAAAGGTCTTC-A
66 AAGCGCCGCTAAAGACCACAATCTATAGCGGCGTCTTTAAAAGAAACGCCGCAAAA-GACCACAA
*
32721988 TCTTTAGCT-GCGTTTATTTGAAAAAGCGCCGCTAAAG
1 TCTATAG-TGGCGTTT-TTTGAAAAAGCGCCGCTAAAG
32722025 TTAGCGACGC
Statistics
Matches: 135, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
128 29 0.21
129 106 0.79
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (129 bp):
TCTATAGTGGCGTTTTTTGAAAAAGCGCCGCTAAAGACCACGATCTATAGCGGCGTTTTTTGTAT
AAGCGCCGCTAAAGACCACAATCTATAGCGGCGTCTTTAAAAGAAACGCCGCAAAAGACCACAA
Found at i:32730152 original size:23 final size:24
Alignment explanation
Indices: 32730124--32730177 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
32730114 TAATCACTTT
* *
32730124 AATATTAAATTTAATCTAATA-TC
1 AATATTAAATTAAATCTAATATTA
* *
32730147 AATATTAGATTAAATTTAATATTA
1 AATATTAAATTAAATCTAATATTA
32730171 AATATTA
1 AATATTA
32730178 TTAAAATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (24 bp):
AATATTAAATTAAATCTAATATTA
Found at i:32744330 original size:35 final size:34
Alignment explanation
Indices: 32744271--32744364 Score: 93
Period size: 33 Copynumber: 2.8 Consensus size: 34
32744261 TGAATTGACG
* * * *
32744271 GATAAGACCATGGTTGGACCATGGCAATTTTTAAAT
1 GATAAGACCATAGCTGGGCTATGGCAA-TTTT-AAT
32744307 G-TAAGACCATAGCTGGGCTATGGC-ATTTTAAT
1 GATAAGACCATAGCTGGGCTATGGCAATTTTAAT
* * *
32744339 GAAAAGACCATAACTGGGTTATGGCA
1 GATAAGACCATAGCTGGGCTATGGCA
32744365 CCTTGAACGT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
32 4 0.08
33 24 0.49
34 1 0.02
35 19 0.39
36 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (34 bp):
GATAAGACCATAGCTGGGCTATGGCAATTTTAAT
Found at i:32744379 original size:33 final size:32
Alignment explanation
Indices: 32744307--32744383 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
32744297 ATTTTTAAAT
* * * *
32744307 GTAAGACCATAGCTGGGCTATGGCATTTTAAT
1 GTAAGACCATAACTGGGCTATGGCACTTGAAC
* *
32744339 GAAAAGACCATAACTGGGTTATGGCACCTTGAAC
1 G-TAAGACCATAACTGGGCTATGGCA-CTTGAAC
32744373 GTAAGACCATA
1 GTAAGACCATA
32744384 GTTAGACCAA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
32 1 0.03
33 30 0.83
34 5 0.14
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (32 bp):
GTAAGACCATAACTGGGCTATGGCACTTGAAC
Found at i:32752843 original size:17 final size:17
Alignment explanation
Indices: 32752810--32752844 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
32752800 GTTACAAAAT
*
32752810 CAAATCTTATTAGATTA
1 CAAATCTTATAAGATTA
*
32752827 CAAATCTTATAATATTA
1 CAAATCTTATAAGATTA
32752844 C
1 C
32752845 TTTCCCTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (17 bp):
CAAATCTTATAAGATTA
Found at i:32754431 original size:47 final size:46
Alignment explanation
Indices: 32754379--32754477 Score: 110
Period size: 47 Copynumber: 2.1 Consensus size: 46
32754369 TGGTTGGACC
* *
32754379 ATGGCAAT-ATGTGATAAGTGATTTCCGTATAAGACCATAGCTGGGCT
1 ATGGC-ATCATGTGATAAGTG-CTTCCATATAAGACCATAGCTGGGCT
* * * *
32754426 ATGGCATCGGTGTGATATGTGCTTCCATGTAAGACCATGGCTGGGCT
1 ATGGCATC-ATGTGATAAGTGCTTCCATATAAGACCATAGCTGGGCT
32754473 ATGGC
1 ATGGC
32754478 TTTGGTTTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
46 2 0.05
47 32 0.73
48 10 0.23
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (46 bp):
ATGGCATCATGTGATAAGTGCTTCCATATAAGACCATAGCTGGGCT
Found at i:32754509 original size:49 final size:46
Alignment explanation
Indices: 32754408--32754514 Score: 126
Period size: 47 Copynumber: 2.2 Consensus size: 46
32754398 GATTTCCGTA
*
32754408 TAAGACCATAGCTGGGCTATGGCATCGGTGTGATATGTGCTTCCATG
1 TAAGACCATAGCTGGGCTATGGCATCGGTGTGATATGTGATT-CATG
* * *
32754455 TAAGACCATGGCTGGGCTATGGCTTTGGTTTGTGATATGTGATT-ATG
1 TAAGACCATAGCTGGGCTATGGCATCGG--TGTGATATGTGATTCATG
32754502 TGCAAGACCATAG
1 T--AAGACCATAG
32754515 TTATACTATG
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
47 29 0.57
49 22 0.43
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (46 bp):
TAAGACCATAGCTGGGCTATGGCATCGGTGTGATATGTGATTCATG
Found at i:32755088 original size:46 final size:46
Alignment explanation
Indices: 32755034--32755129 Score: 183
Period size: 46 Copynumber: 2.1 Consensus size: 46
32755024 TATTAGTGGC
32755034 ATGCCATTAAGGAACCTTAGCGCGCTCCCTGATTATTAGAACATCA
1 ATGCCATTAAGGAACCTTAGCGCGCTCCCTGATTATTAGAACATCA
*
32755080 ATGCCATTAAGGAACCTTAGCGCGCTCTCTGATTATTAGAACATCA
1 ATGCCATTAAGGAACCTTAGCGCGCTCCCTGATTATTAGAACATCA
32755126 ATGC
1 ATGC
32755130 TCTCTGTTCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (46 bp):
ATGCCATTAAGGAACCTTAGCGCGCTCCCTGATTATTAGAACATCA
Found at i:32757494 original size:18 final size:18
Alignment explanation
Indices: 32757457--32757505 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
32757447 TAAAGAAATT
*
32757457 TAAA-AACA-TAATTTTA
1 TAAATAACATTAAATTTA
32757473 -AAATAACATTAAATTTA
1 TAAATAACATTAAATTTA
*
32757490 TAAATTA-ATTAAATTT
1 TAAATAACATTAAATTT
32757506 CAAAGTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 3 0.11
16 4 0.14
17 16 0.57
18 5 0.18
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAATAACATTAAATTTA
Found at i:32762019 original size:24 final size:25
Alignment explanation
Indices: 32761972--32762019 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
32761962 TGATTAATTT
*
32761972 AATTTTTTTTGTAATTTAGGCACTG
1 AATTTATTTTGTAATTTAGGCACTG
* *
32761997 AATTTATTTT-TATTTTAGTCACT
1 AATTTATTTTGTAATTTAGGCACT
32762020 CGCTAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.25, C:0.08, G:0.10, T:0.56
Consensus pattern (25 bp):
AATTTATTTTGTAATTTAGGCACTG
Found at i:32765260 original size:30 final size:30
Alignment explanation
Indices: 32765227--32765469 Score: 463
Period size: 30 Copynumber: 8.2 Consensus size: 30
32765217 AGATTAAATT
32765227 TTTTTATTTTTAAAATACACTACATATAT-
1 TTTTTATTTTTAAAATACACTACATATATA
32765256 TTTTTATTTTTAAAATACACTACATATATA
1 TTTTTATTTTTAAAATACACTACATATATA
32765286 TTTTTATTTTTAAAATACACTACATATATA
1 TTTTTATTTTTAAAATACACTACATATATA
32765316 TTTTTATTTTTAAAATACACTACATATATA
1 TTTTTATTTTTAAAATACACTACATATATA
32765346 TTTTTATTTTTAAAATACACTACATATATA
1 TTTTTATTTTTAAAATACACTACATATATA
32765376 TTTTTATTTTTAAAATACACTACATATATA
1 TTTTTATTTTTAAAATACACTACATATATA
32765406 TTTTTATTTTTAAAATACACTACATATAT-
1 TTTTTATTTTTAAAATACACTACATATATA
*
32765435 TTTTTATTTTTAAAATACAATACATATATA
1 TTTTTATTTTTAAAATACACTACATATATA
32765465 TTTTT
1 TTTTT
32765470 TTATTGAAGC
Statistics
Matches: 211, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
29 57 0.27
30 154 0.73
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.51
Consensus pattern (30 bp):
TTTTTATTTTTAAAATACACTACATATATA
Found at i:32770271 original size:25 final size:26
Alignment explanation
Indices: 32770243--32770293 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
32770233 AAATAAGTAA
* *
32770243 ATTCAATCCAGT-TAATATTCATACT
1 ATTCAATCCAGTCCAAAATTCATACT
*
32770268 ATTCAATTCAGTCCAAAATTCATACT
1 ATTCAATCCAGTCCAAAATTCATACT
32770294 TTTGAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.37
Consensus pattern (26 bp):
ATTCAATCCAGTCCAAAATTCATACT
Found at i:32771506 original size:25 final size:26
Alignment explanation
Indices: 32771470--32771520 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
32771460 TTAGGAACCA
* *
32771470 ATTCAATCCAGT-TAATATTCATACT
1 ATTCAATCCAGTCCAAAATTCATACT
*
32771495 ATTCAATTCAGTCCAAAATTCATACT
1 ATTCAATCCAGTCCAAAATTCATACT
32771521 TTTGAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.37
Consensus pattern (26 bp):
ATTCAATCCAGTCCAAAATTCATACT
Found at i:32772731 original size:10 final size:8
Alignment explanation
Indices: 32772705--32772738 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
32772695 CGTAATTAGG
32772705 TTAAATAA
1 TTAAATAA
32772713 TTAAATAA
1 TTAAATAA
32772721 TTAGGAATAA
1 TTA--AATAA
32772731 TTAAATAA
1 TTAAATAA
32772739 AATATTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 16 0.67
10 8 0.33
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (8 bp):
TTAAATAA
Found at i:32772752 original size:21 final size:23
Alignment explanation
Indices: 32772726--32772767 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
32772716 AATAATTAGG
32772726 AATAATT-AAA-TAAAATATTAA
1 AATAATTAAAATTAAAATATTAA
32772747 AATAATTAAAATTAAAATATT
1 AATAATTAAAATTAAAATATT
32772768 GAGTTACGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
AATAATTAAAATTAAAATATTAA
Found at i:32775242 original size:26 final size:26
Alignment explanation
Indices: 32775213--32775275 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
32775203 TGAGTTCACT
* *
32775213 ATAGGGTTCACTAGAGTGTGTTTGCC
1 ATAGGGTTCACTAGAGTGTGTCTACC
** *
32775239 ATAGGGTTTGCTAGAGTGTGTCTATC
1 ATAGGGTTCACTAGAGTGTGTCTACC
32775265 ATAGGGTTCAC
1 ATAGGGTTCAC
32775276 CAGTAATACA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.21, C:0.14, G:0.30, T:0.35
Consensus pattern (26 bp):
ATAGGGTTCACTAGAGTGTGTCTACC
Found at i:32784742 original size:24 final size:25
Alignment explanation
Indices: 32784673--32784745 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 25
32784663 ATGTATGCTT
32784673 ATACGAGCTGTAAATCGGTAAGCTC
1 ATACGAGCTGTAAATCGGTAAGCTC
* * *
32784698 ATACAAGTTGTGAATCGGTAAGCTC
1 ATACGAGCTGTAAATCGGTAAGCTC
32784723 -TCACGAGCTG-AAATCGGTAAGCT
1 AT-ACGAGCTGTAAATCGGTAAGCT
32784746 AGTACAAGCT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
24 13 0.32
25 28 0.68
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (25 bp):
ATACGAGCTGTAAATCGGTAAGCTC
Found at i:32784755 original size:24 final size:24
Alignment explanation
Indices: 32784672--32784757 Score: 93
Period size: 25 Copynumber: 3.5 Consensus size: 24
32784662 CATGTATGCT
*
32784672 TATACGAGCTGTAAATCGGTAAGC
1 TATACAAGCTGTAAATCGGTAAGC
* *
32784696 TCATACAAGTTGTGAATCGGTAAGC
1 T-ATACAAGCTGTAAATCGGTAAGC
* *
32784721 TCTCACGAGCTG-AAATCGGTAAGC
1 TAT-ACAAGCTGTAAATCGGTAAGC
32784745 TAGTACAAGCTGT
1 TA-TACAAGCTGT
32784758 GTTGTGCCCA
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
24 21 0.43
25 28 0.57
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (24 bp):
TATACAAGCTGTAAATCGGTAAGC
Found at i:32790374 original size:2 final size:2
Alignment explanation
Indices: 32790367--32790397 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
32790357 TTCTTGGACC
*
32790367 GA GA GA GA GA GA GA GA GA GA GA GC GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
32790398 GAGTTTGGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.03, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:32797117 original size:14 final size:15
Alignment explanation
Indices: 32797082--32797111 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
32797072 GAATCAAAAC
32797082 ATCTTAATCTTTATT
1 ATCTTAATCTTTATT
32797097 ATCTTAA-CTTTATT
1 ATCTTAATCTTTATT
32797111 A
1 A
32797112 ATTTAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (15 bp):
ATCTTAATCTTTATT
Found at i:32797962 original size:13 final size:13
Alignment explanation
Indices: 32797944--32797986 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
32797934 ATAAATTTTA
32797944 TTAAATATATAAT
1 TTAAATATATAAT
*
32797957 TTAAATAATATTAT
1 TTAAAT-ATATAAT
*
32797971 TAAATATATATAAT
1 TTAA-ATATATAAT
32797985 TT
1 TT
32797987 TTTTCAACTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 6 0.25
14 16 0.67
15 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TTAAATATATAAT
Found at i:32797981 original size:14 final size:14
Alignment explanation
Indices: 32797941--32797981 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
32797931 TTTATAAATT
32797941 TTATTAAATATATA
1 TTATTAAATATATA
*
32797955 AT-TTAAATA-ATA
1 TTATTAAATATATA
32797967 TTATTAAATATATA
1 TTATTAAATATATA
32797981 T
1 T
32797982 AATTTTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 4 0.17
13 14 0.61
14 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TTATTAAATATATA
Found at i:32800045 original size:18 final size:18
Alignment explanation
Indices: 32800022--32800056 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32800012 TGAAAATTAA
32800022 AATTAAAAATATTAAAAG
1 AATTAAAAATATTAAAAG
**
32800040 AATTAAATTTATTAAAA
1 AATTAAAAATATTAAAA
32800057 AAACTAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
AATTAAAAATATTAAAAG
Found at i:32800077 original size:18 final size:18
Alignment explanation
Indices: 32800031--32800066 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32800021 AAATTAAAAA
* *
32800031 TATTAAAAGAATTAAATT
1 TATTAAAAAAACTAAATT
32800049 TATTAAAAAAACTAAATT
1 TATTAAAAAAACTAAATT
32800067 CTATAAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (18 bp):
TATTAAAAAAACTAAATT
Found at i:32802345 original size:9 final size:9
Alignment explanation
Indices: 32802331--32802357 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
32802321 AACAGTTATG
32802331 ATGGAGTCA
1 ATGGAGTCA
32802340 ATGGAGTCA
1 ATGGAGTCA
32802349 ATGGAGTCA
1 ATGGAGTCA
32802358 TGTGTCCCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.22
Consensus pattern (9 bp):
ATGGAGTCA
Found at i:32805136 original size:15 final size:16
Alignment explanation
Indices: 32805118--32805147 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32805108 TAACTTAAAC
32805118 TTTT-TTAAAGTTTTA
1 TTTTGTTAAAGTTTTA
32805133 TTTTGTTAAAGTTTT
1 TTTTGTTAAAGTTTT
32805148 TTTAAAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (16 bp):
TTTTGTTAAAGTTTTA
Found at i:32807406 original size:31 final size:31
Alignment explanation
Indices: 32807368--32807461 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
32807358 AGGAGGGTTC
32807368 GGGTAAAAATATAGGCCCGAAATATGGGCTT
1 GGGTAAAAATATAGGCCCGAAATATGGGCTT
32807399 GGGTAAAAATATAGGCCCGAAATATGGGCTT
1 GGGTAAAAATATAGGCCCGAAATATGGGCTT
32807430 -GGTAAAAATATAGGCCCGAAATATGGGCTT
1 GGGTAAAAATATAGGCCCGAAATATGGGCTT
32807460 GG
1 GG
32807462 CCAAAAAAGT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
30 30 0.48
31 32 0.52
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (31 bp):
GGGTAAAAATATAGGCCCGAAATATGGGCTT
Found at i:32807436 original size:30 final size:30
Alignment explanation
Indices: 32807369--32807461 Score: 177
Period size: 30 Copynumber: 3.1 Consensus size: 30
32807359 GGAGGGTTCG
32807369 GGTAAAAATATAGGCCCGAAATATGGGCTT
1 GGTAAAAATATAGGCCCGAAATATGGGCTT
32807399 GGGTAAAAATATAGGCCCGAAATATGGGCTT
1 -GGTAAAAATATAGGCCCGAAATATGGGCTT
32807430 GGTAAAAATATAGGCCCGAAATATGGGCTT
1 GGTAAAAATATAGGCCCGAAATATGGGCTT
32807460 GG
1 GG
32807462 CCAAAAAAGT
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 32 0.52
31 30 0.48
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (30 bp):
GGTAAAAATATAGGCCCGAAATATGGGCTT
Found at i:32807828 original size:27 final size:27
Alignment explanation
Indices: 32807798--32807852 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
32807788 GAGTTAAGTA
32807798 AGGATTTATCCTAAAATGAAGCATTGT
1 AGGATTTATCCTAAAATGAAGCATTGT
32807825 AGGATTTATCCTAAAATGAAGCATTGT
1 AGGATTTATCCTAAAATGAAGCATTGT
32807852 A
1 A
32807853 CGTAAAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (27 bp):
AGGATTTATCCTAAAATGAAGCATTGT
Found at i:32808182 original size:77 final size:78
Alignment explanation
Indices: 32808050--32808219 Score: 306
Period size: 77 Copynumber: 2.2 Consensus size: 78
32808040 AATGAATTTA
*
32808050 TTTTCTTTTATATTTTTGGATAGAAGAATAATAATAAAGGAAAGAGAAGA-TTTTTTCTTTTTAA
1 TTTTATTTTATATTTTTGGATAGAAGAATAATAATAAAGGAAAGAGAAGATTTTTTTCTTTTTAA
32808114 AGTTTGTTGGATT
66 AGTTTGTTGGATT
*
32808127 TTTTATTTTATATTTTTGGATAGAAGAATAATAATAAAGGAAGGAGAAGATTTTTTTCTTTTTAA
1 TTTTATTTTATATTTTTGGATAGAAGAATAATAATAAAGGAAAGAGAAGATTTTTTTCTTTTTAA
32808192 AGTTTGTTGGATT
66 AGTTTGTTGGATT
*
32808205 TTTTATTTTTTATTT
1 TTTTATTTTATATTT
32808220 GTTTTTGTTG
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
77 48 0.54
78 41 0.46
ACGTcount: A:0.32, C:0.02, G:0.16, T:0.51
Consensus pattern (78 bp):
TTTTATTTTATATTTTTGGATAGAAGAATAATAATAAAGGAAAGAGAAGATTTTTTTCTTTTTAA
AGTTTGTTGGATT
Found at i:32813080 original size:23 final size:23
Alignment explanation
Indices: 32813050--32813094 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
32813040 GAGAATGAGG
*
32813050 AGGTAATTATAGAATAATTGCAT
1 AGGTAATTATAAAATAATTGCAT
32813073 AGGTAATTATAAAATAATTGCA
1 AGGTAATTATAAAATAATTGCA
32813095 CTCAAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.47, C:0.04, G:0.16, T:0.33
Consensus pattern (23 bp):
AGGTAATTATAAAATAATTGCAT
Found at i:32821319 original size:6 final size:6
Alignment explanation
Indices: 32821308--32821339 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
32821298 TTTTTAACTG
32821308 ATAATT ATAATT ATAATT ATAATT ATAATT AT
1 ATAATT ATAATT ATAATT ATAATT ATAATT AT
32821340 CACAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:32821735 original size:22 final size:24
Alignment explanation
Indices: 32821679--32821729 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
32821669 TTTCAAATTT
*
32821679 TATTAATATTTTATTGAAAAATCA
1 TATTAATATTTTAATGAAAAATCA
32821703 TATTAATATTTTAAT-AAAAAT-A
1 TATTAATATTTTAATGAAAAATCA
32821725 TATTA
1 TATTA
32821730 CAATTTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 6 0.23
23 6 0.23
24 14 0.54
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
TATTAATATTTTAATGAAAAATCA
Found at i:32821778 original size:23 final size:23
Alignment explanation
Indices: 32821750--32821802 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
32821740 ATTTAGTAAA
*
32821750 AATATTTT-ATAGTATAAAATATG
1 AATATTTTAATAATAT-AAATATG
32821773 AATATTTTAATAATATAAATATG
1 AATATTTTAATAATATAAATATG
*
32821796 AACATTT
1 AATATTT
32821803 GTTTAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (23 bp):
AATATTTTAATAATATAAATATG
Found at i:32825120 original size:22 final size:22
Alignment explanation
Indices: 32825095--32825137 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
32825085 TTTCCCTATC
*
32825095 TTTTGCTGTTGCTTTCTCACTA
1 TTTTGCTGTTGCTTTCCCACTA
* *
32825117 TTTTGTTGTTGTTTTCCCACT
1 TTTTGCTGTTGCTTTCCCACT
32825138 GTATTGTTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.21, G:0.14, T:0.58
Consensus pattern (22 bp):
TTTTGCTGTTGCTTTCCCACTA
Found at i:32825144 original size:22 final size:22
Alignment explanation
Indices: 32825101--32825147 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
32825091 TATCTTTTGC
* *
32825101 TGTTGCTTTCTCACTATTTTGT
1 TGTTGCTTTCCCACTATATTGT
* *
32825123 TGTTGTTTTCCCACTGTATTGT
1 TGTTGCTTTCCCACTATATTGT
32825145 TGT
1 TGT
32825148 CATTTCACTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.17, G:0.17, T:0.57
Consensus pattern (22 bp):
TGTTGCTTTCCCACTATATTGT
Found at i:32825767 original size:19 final size:19
Alignment explanation
Indices: 32825743--32825780 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
32825733 AACAAAAAGA
32825743 ATGTCAGTGACAGTTAGAC
1 ATGTCAGTGACAGTTAGAC
32825762 ATGTCAGTGACAGTTAGAC
1 ATGTCAGTGACAGTTAGAC
32825781 CCAACAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (19 bp):
ATGTCAGTGACAGTTAGAC
Found at i:32826822 original size:3 final size:3
Alignment explanation
Indices: 32826814--32826850 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
32826804 AAAATATACA
32826814 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
32826851 CAATATCAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:32828833 original size:30 final size:31
Alignment explanation
Indices: 32828780--32828842 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
32828770 AAAGTGGGAA
*
32828780 GGAGTAAAAATTTGGGGGAAAAT-GTTTTTG
1 GGAGTAAAAATTTGGGGGAAAATGGATTTTG
*
32828810 GGAGTAAAATTTTGGTGGG-AAATGGATTTTG
1 GGAGTAAAAATTTGG-GGGAAAATGGATTTTG
32828841 GG
1 GG
32828843 TAGATTGGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 18 0.62
31 11 0.38
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (31 bp):
GGAGTAAAAATTTGGGGGAAAATGGATTTTG
Found at i:32831261 original size:30 final size:30
Alignment explanation
Indices: 32831225--32831287 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
32831215 AGGTCACATG
*
32831225 GCCATGTCATCAGGCCGTGTAACTTTCTAT
1 GCCATGTCATCAGGCCGTGTAACTCTCTAT
** *
32831255 GCCATGTGGTTAGGCCGTGTAACTCTCTAT
1 GCCATGTCATCAGGCCGTGTAACTCTCTAT
32831285 GCC
1 GCC
32831288 GTATGGAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.32
Consensus pattern (30 bp):
GCCATGTCATCAGGCCGTGTAACTCTCTAT
Found at i:32833532 original size:42 final size:43
Alignment explanation
Indices: 32833442--32833554 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 43
32833432 AGTCCGTACA
* * *
32833442 ATGCCAACGTCACAGACGTGGTCTTACATGTAATCACATGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGGAATCACAAGTCG
*
32833485 ATGCC-ACTGTCCCAGACAG-GGTCTTACA-GGAATCACAAGTTG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGGAATCACAAGTCG
32833527 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
32833555 CGAAAACACA
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
41 1 0.02
42 36 0.58
43 24 0.39
44 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGGAATCACAAGTCG
Found at i:32834453 original size:23 final size:24
Alignment explanation
Indices: 32834426--32834476 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
32834416 TAATTTGTTA
32834426 TATTAA-ACATATATTAACC-TTAC
1 TATTAATAC-TATATTAACCTTTAC
32834449 TATTAATTTACTATATTAACCTTTAC
1 TATTAA--TACTATATTAACCTTTAC
32834475 TA
1 TA
32834477 ATATATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.25
25 10 0.42
26 8 0.33
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (24 bp):
TATTAATACTATATTAACCTTTAC
Found at i:32836210 original size:26 final size:26
Alignment explanation
Indices: 32836170--32836345 Score: 176
Period size: 26 Copynumber: 6.8 Consensus size: 26
32836160 GCTAACTATT
*
32836170 CATCGGTTCAAAGCCTGCTAAATAAA
1 CATCGGCTCAAAGCCTGCTAAATAAA
* * * * *
32836196 CACCGGCTCATAGCCTACTAAGTAAT
1 CATCGGCTCAAAGCCTGCTAAATAAA
*
32836222 CATCGGCTCAAAGCCTACTAAATAAA
1 CATCGGCTCAAAGCCTGCTAAATAAA
* *
32836248 CATCGGCTCAAGGCCTGCTAAGTAAA
1 CATCGGCTCAAAGCCTGCTAAATAAA
*
32836274 CATCAGCTCAAAGCCTGCTAAATAAA
1 CATCGGCTCAAAGCCTGCTAAATAAA
* * * *
32836300 CA-CTGGCTTAAGGCTTGCTAAGTAAA
1 CATC-GGCTCAAAGCCTGCTAAATAAA
* *
32836326 TA-CTGGCTCAAGGCCTGCTA
1 CATC-GGCTCAAAGCCTGCTA
32836346 TTCCGGTACA
Statistics
Matches: 125, Mismatches: 24, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
25 1 0.01
26 124 0.99
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (26 bp):
CATCGGCTCAAAGCCTGCTAAATAAA
Found at i:32836247 original size:52 final size:52
Alignment explanation
Indices: 32836169--32836345 Score: 207
Period size: 52 Copynumber: 3.4 Consensus size: 52
32836159 TGCTAACTAT
*
32836169 TCATCGGTTCAAAGCCTGCTAAATAAACACCGGCTCATA-GCCTACTAAGTAA
1 TCATCGGCTCAAAGCCTGCTAAATAAACACCGGCTCA-AGGCCTACTAAGTAA
* * *
32836221 TCATCGGCTCAAAGCCTACTAAATAAACATCGGCTCAAGGCCTGCTAAGTAA
1 TCATCGGCTCAAAGCCTGCTAAATAAACACCGGCTCAAGGCCTACTAAGTAA
* * * * * *
32836273 ACATCAGCTCAAAGCCTGCTAAATAAACACTGGCTTAAGGCTTGCTAAGTAA
1 TCATCGGCTCAAAGCCTGCTAAATAAACACCGGCTCAAGGCCTACTAAGTAA
*
32836325 --ATACTGGCTCAAGGCCTGCTA
1 TCAT-C-GGCTCAAAGCCTGCTA
32836346 TTCCGGTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
50 2 0.02
51 2 0.02
52 105 0.96
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (52 bp):
TCATCGGCTCAAAGCCTGCTAAATAAACACCGGCTCAAGGCCTACTAAGTAA
Found at i:32843325 original size:16 final size:16
Alignment explanation
Indices: 32843304--32843334 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32843294 GCATGGCTTT
32843304 CTATTTCTTTTATTAC
1 CTATTTCTTTTATTAC
*
32843320 CTATTTGTTTTATTA
1 CTATTTCTTTTATTA
32843335 TACTTTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.13, G:0.03, T:0.65
Consensus pattern (16 bp):
CTATTTCTTTTATTAC
Found at i:32844291 original size:9 final size:9
Alignment explanation
Indices: 32844277--32844307 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
32844267 GTTAAAAGAA
32844277 TCGAGTTAT
1 TCGAGTTAT
*
32844286 TCGAGTTAA
1 TCGAGTTAT
32844295 TCGAGTTAT
1 TCGAGTTAT
32844304 TCGA
1 TCGA
32844308 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:32844388 original size:9 final size:9
Alignment explanation
Indices: 32844359--32844388 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
32844349 TGAGTTTTCG
32844359 AATTCGAAT
1 AATTCGAAT
*
32844368 AACTCGAAT
1 AATTCGAAT
32844377 AATTCGAAT
1 AATTCGAAT
32844386 AAT
1 AAT
32844389 NNNNNNNNNN
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:32844866 original size:18 final size:18
Alignment explanation
Indices: 32844843--32844913 Score: 52
Period size: 18 Copynumber: 3.9 Consensus size: 18
32844833 CAATTTCACA
32844843 TTTTATTTTTAAAATAAT
1 TTTTATTTTTAAAATAAT
***
32844861 TTTTATTAAAAAAATATAT
1 TTTTATTTTTAAAATA-AT
** * *
32844880 TTTTACATTTAATATATT
1 TTTTATTTTTAAAATAAT
* *
32844898 TTTTAATTCTAAAATA
1 TTTTATTTTTAAAATA
32844914 CATAGTGACA
Statistics
Matches: 38, Mismatches: 14, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
18 26 0.68
19 12 0.32
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTATTTTTAAAATAAT
Found at i:32855271 original size:4 final size:4
Alignment explanation
Indices: 32855262--32855286 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
32855252 TTGTTTCTTT
32855262 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
32855287 CAGATGATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:32860886 original size:6 final size:6
Alignment explanation
Indices: 32860849--32860897 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
32860839 CCAAACACAC
* *
32860849 CAGTATA CAGTAA TCAGTAA CGGTAG CAGTAA CAGTAA CAGTAA CAGTA
1 CAGTA-A CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
32860898 TTCAACACAC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
6 26 0.70
7 11 0.30
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (6 bp):
CAGTAA
Found at i:32860927 original size:39 final size:39
Alignment explanation
Indices: 32860881--32861047 Score: 174
Period size: 39 Copynumber: 4.2 Consensus size: 39
32860871 GTAGCAGTAA
* **
32860881 CAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCTGT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAA----T
*
32860924 AACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAAT
1 --CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* * *
32860965 CGGTAATAGTAACAGTATTCGACACACAAAATGCCGAAT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* * * *
32861004 CAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTAAT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
32861042 CAGTAA
1 CAGTAA
32861048 GCCGGCAATT
Statistics
Matches: 107, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 15 0.14
39 57 0.53
41 1 0.01
45 34 0.32
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (39 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
Found at i:32860927 original size:45 final size:44
Alignment explanation
Indices: 32860877--32861020 Score: 181
Period size: 45 Copynumber: 3.3 Consensus size: 44
32860867 AACGGTAGCA
* **
32860877 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATC
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC
*
32860921 TGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATC
1 -GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC
* *
32860966 G-----GTAATAGTAACAGTATTCGACACACAAAATGCCGAATC
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC
32861005 AGTAACAGTAACAGTA
1 -GTAACAGTAACAGTA
32861021 GTCGGCACAT
Statistics
Matches: 85, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
39 35 0.41
40 1 0.01
44 1 0.01
45 48 0.56
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (44 bp):
GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC
Found at i:32864792 original size:49 final size:51
Alignment explanation
Indices: 32864737--32864832 Score: 128
Period size: 49 Copynumber: 1.9 Consensus size: 51
32864727 TTCGTTTTCT
*
32864737 CGATGCCATAGT-CCA-ACTATGGTCTTACATAG-AATCACAT-ATCACTTAC
1 CGATGCCATA-TCCCAGA-TATGGTCTTACACAGAAATCACATAATCACTTAC
*
32864786 CGATGCCATATCCCAGATATGGTCTTACACGGAAATCACATAATCAC
1 CGATGCCATATCCCAGATATGGTCTTACACAGAAATCACATAATCAC
32864833 ATTTTCACAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
48 1 0.02
49 26 0.63
50 9 0.22
51 5 0.12
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (51 bp):
CGATGCCATATCCCAGATATGGTCTTACACAGAAATCACATAATCACTTAC
Found at i:32871571 original size:31 final size:31
Alignment explanation
Indices: 32871536--32871602 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
32871526 TAATTGAATG
* *
32871536 AAATTATTATTCTAGATCAAGAATGGGTTAA
1 AAATTATTATTCTAAATCAAGAATGCGTTAA
*
32871567 AAATTATTATTCTAAATCAAGAATGCGTTGA
1 AAATTATTATTCTAAATCAAGAATGCGTTAA
32871598 AAATT
1 AAATT
32871603 GAGCCATGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.36
Consensus pattern (31 bp):
AAATTATTATTCTAAATCAAGAATGCGTTAA
Found at i:32872128 original size:164 final size:164
Alignment explanation
Indices: 32871857--32872185 Score: 604
Period size: 164 Copynumber: 2.0 Consensus size: 164
32871847 GAATATGAGA
32871857 TAGTGAGATATTCACATATTGTTCTGTGATGGAATGCTCTGAACCGATGAACGTAGGATAGAGTA
1 TAGTGAGATATTCACATATTGTTCTGTGATGGAATGCTCTGAACCGATGAACGTAGGATAGAGTA
* * *
32871922 CGATTGGCATGTCAATAGGTTATTATGCGCGCGGTACGGGATTGATCTGAGTAGTTAAGATTATT
66 CGACTGGCATGTCAATAGGTTATTATGCGCGCGGTACGGGATTGATCTGAGTAGTGAAGATGATT
32871987 TCTGTATATTCTTTGTTCACTGGATATCCCGAGG
131 TCTGTATATTCTTTGTTCACTGGATATCCCGAGG
* *
32872021 TAGTGAGATATTCACATATTTTTCTGTGATGGAATGCTCTGAATCGATGAACGTAGGATAGAGTA
1 TAGTGAGATATTCACATATTGTTCTGTGATGGAATGCTCTGAACCGATGAACGTAGGATAGAGTA
*
32872086 CGACTGGCATGTCAATAGGTTATTATGCGTGCGGTACGGGATTGATCTGAGTAGTGAAGATGATT
66 CGACTGGCATGTCAATAGGTTATTATGCGCGCGGTACGGGATTGATCTGAGTAGTGAAGATGATT
32872151 TCTGTATATTCTTTGTTCACTGGATATCCCGAGG
131 TCTGTATATTCTTTGTTCACTGGATATCCCGAGG
32872185 T
1 T
32872186 CTTGCATTTG
Statistics
Matches: 159, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
164 159 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (164 bp):
TAGTGAGATATTCACATATTGTTCTGTGATGGAATGCTCTGAACCGATGAACGTAGGATAGAGTA
CGACTGGCATGTCAATAGGTTATTATGCGCGCGGTACGGGATTGATCTGAGTAGTGAAGATGATT
TCTGTATATTCTTTGTTCACTGGATATCCCGAGG
Found at i:32872282 original size:35 final size:35
Alignment explanation
Indices: 32872243--32872314 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 35
32872233 GTGATGGTTT
* * *
32872243 GTACTGGCTATTATGAGCATTTGGTGTGCTAGATG
1 GTACTAGCTATTATAAGCATCTGGTGTGCTAGATG
* * *
32872278 GTACTAGCTCTTATAAGCATCTGGTGTGTTGGATG
1 GTACTAGCTATTATAAGCATCTGGTGTGCTAGATG
32872313 GT
1 GT
32872315 TAAACATGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.19, C:0.12, G:0.31, T:0.38
Consensus pattern (35 bp):
GTACTAGCTATTATAAGCATCTGGTGTGCTAGATG
Found at i:32892254 original size:50 final size:50
Alignment explanation
Indices: 32892175--32892359 Score: 262
Period size: 50 Copynumber: 3.7 Consensus size: 50
32892165 AAAGAGGTCT
32892175 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGTCC
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGTCC
* * *
32892225 CATATAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGTCC
** * * * *
32892275 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATGAGAAAATCC
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG-AAGTCC
* *
32892326 CATGTAAGACCATGTCTGGGACATGACTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCA
32892360 TGTTTTTACC
Statistics
Matches: 117, Mismatches: 17, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
50 84 0.72
51 33 0.28
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.20
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGTCC
Found at i:32897058 original size:14 final size:14
Alignment explanation
Indices: 32897025--32897076 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
32897015 CACAAATTTA
*
32897025 AAAATTAAAAGGGT
1 AAAATTAAAAGGTT
*
32897039 ACAATTAAAAGGTT
1 AAAATTAAAAGGTT
*
32897053 AAAATTTAAA-GTT
1 AAAATTAAAAGGTT
*
32897066 AAAATTTAAAG
1 AAAATTAAAAG
32897077 ATGATAATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
13 13 0.39
14 20 0.61
ACGTcount: A:0.56, C:0.02, G:0.13, T:0.29
Consensus pattern (14 bp):
AAAATTAAAAGGTT
Found at i:32897068 original size:13 final size:13
Alignment explanation
Indices: 32897050--32897076 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32897040 CAATTAAAAG
32897050 GTTAAAATTTAAA
1 GTTAAAATTTAAA
32897063 GTTAAAATTTAAA
1 GTTAAAATTTAAA
32897076 G
1 G
32897077 ATGATAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (13 bp):
GTTAAAATTTAAA
Found at i:32897137 original size:47 final size:47
Alignment explanation
Indices: 32897083--32897235 Score: 201
Period size: 47 Copynumber: 3.3 Consensus size: 47
32897073 AAAGATGATA
32897083 ATCATAACTTACATAAACATTTAAAGAATAAATAAAAAAATCTTTGG
1 ATCATAACTTACATAAACATTTAAAGAATAAATAAAAAAATCTTTGG
* * * * *
32897130 ATCATAACTTACAT-AAC--TTACATAATACATAAATATATATC-AT--
1 ATCATAACTTACATAAACATTTAAAGAATAAATAAA-A-AAATCTTTGG
32897173 ATCATAACTTACATAAACATTTAAAGAATAAATAAAAAAATCTTTGG
1 ATCATAACTTACATAAACATTTAAAGAATAAATAAAAAAATCTTTGG
32897220 ATCATAACTTACATAA
1 ATCATAACTTACATAA
32897236 CTTACATAAT
Statistics
Matches: 88, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
43 14 0.16
44 20 0.23
45 4 0.05
46 20 0.23
47 30 0.34
ACGTcount: A:0.52, C:0.13, G:0.04, T:0.31
Consensus pattern (47 bp):
ATCATAACTTACATAAACATTTAAAGAATAAATAAAAAAATCTTTGG
Found at i:32897186 original size:90 final size:90
Alignment explanation
Indices: 32897083--32897283 Score: 395
Period size: 90 Copynumber: 2.2 Consensus size: 90
32897073 AAAGATGATA
32897083 ATCATAACTTACATAAACATTTAAAGAATAAATAAAAAAATCTTTGGATCATAACTTACATAACT
1 ATCATAACTTACATAAACATTTAAAGAATAAATAAAAAAATCTTTGGATCATAACTTACATAACT
32897148 TACATAATACATAAATATATATCAT
66 TACATAATACATAAATATATATCAT
32897173 ATCATAACTTACATAAACATTTAAAGAATAAATAAAAAAATCTTTGGATCATAACTTACATAACT
1 ATCATAACTTACATAAACATTTAAAGAATAAATAAAAAAATCTTTGGATCATAACTTACATAACT
32897238 TACATAATACATAAATATATATCAT
66 TACATAATACATAAATATATATCAT
32897263 ATCATAACTTACATAAA-ATTT
1 ATCATAACTTACATAAACATTT
32897284 TGGATCAGAA
Statistics
Matches: 111, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
89 4 0.04
90 107 0.96
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (90 bp):
ATCATAACTTACATAAACATTTAAAGAATAAATAAAAAAATCTTTGGATCATAACTTACATAACT
TACATAATACATAAATATATATCAT
Found at i:32897188 original size:43 final size:43
Alignment explanation
Indices: 32897130--32897278 Score: 185
Period size: 43 Copynumber: 3.4 Consensus size: 43
32897120 AAATCTTTGG
32897130 ATCATAACTTACATAACTTACATAATACATAAATATATATCAT
1 ATCATAACTTACATAACTTACATAATACATAAATATATATCAT
* * * * *
32897173 ATCATAACTTACATAAACATTTAAAGAATAAATAAA-A-AAATCTTT
1 ATCATAACTTACAT-AAC--TTACATAATACATAAATATATATC-AT
32897218 GGATCATAACTTACATAACTTACATAATACATAAATATATATCAT
1 --ATCATAACTTACATAACTTACATAATACATAAATATATATCAT
32897263 ATCATAACTTACATAA
1 ATCATAACTTACATAA
32897279 AATTTTGGAT
Statistics
Matches: 88, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
43 30 0.34
44 20 0.23
45 4 0.05
46 20 0.23
47 14 0.16
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.33
Consensus pattern (43 bp):
ATCATAACTTACATAACTTACATAATACATAAATATATATCAT
Found at i:32906004 original size:24 final size:24
Alignment explanation
Indices: 32905958--32906004 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
32905948 TCAATTTCTA
* *
32905958 AAAAGTTATTATTTCATTATATGT
1 AAAAGTTATTAATTAATTATATGT
32905982 AAAAGTTAATTAATTAATT-TATG
1 AAAAGTT-ATTAATTAATTATATG
32906005 AAGAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.47
Consensus pattern (24 bp):
AAAAGTTATTAATTAATTATATGT
Found at i:32906149 original size:18 final size:18
Alignment explanation
Indices: 32906109--32906150 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
32906099 TTATGTACAA
*
32906109 ATTTTTTCAAGTTGAAGT
1 ATTTTTTCAAGTTGAAAT
* *
32906127 TTTTTTTCAAGTTTAAAT
1 ATTTTTTCAAGTTGAAAT
32906145 ATTTTT
1 ATTTTT
32906151 ACTTTTTGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.60
Consensus pattern (18 bp):
ATTTTTTCAAGTTGAAAT
Found at i:32909478 original size:25 final size:25
Alignment explanation
Indices: 32909440--32909531 Score: 89
Period size: 25 Copynumber: 3.6 Consensus size: 25
32909430 AAGTTCAAGT
*
32909440 GAGCCAAT-ATCGGGAAGCTCCGGA
1 GAGCCATTAATCGGGAAGCTCCGGA
***
32909464 GAGCCATTAATCGGGAAGCTCATAAAA
1 GAGCCATTAATCGGGAAGCTC--CGGA
* *
32909491 GAGCCTTTAATCGGAAAGCTCCGGA
1 GAGCCATTAATCGGGAAGCTCCGGA
32909516 GAGCCA-TATATCGGGA
1 GAGCCATTA-ATCGGGA
32909532 CTCTCATAAG
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
24 9 0.17
25 24 0.45
27 20 0.38
ACGTcount: A:0.33, C:0.22, G:0.28, T:0.17
Consensus pattern (25 bp):
GAGCCATTAATCGGGAAGCTCCGGA
Found at i:32915792 original size:20 final size:21
Alignment explanation
Indices: 32915769--32915819 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
32915759 AAATCTTACA
* *
32915769 ATTTTTTATATATA-TTTTCT
1 ATTTTTTATATAAATTTTTAT
*
32915789 ATTTTTAATA-AAATTTTTAT
1 ATTTTTTATATAAATTTTTAT
32915809 ATTTTTTATAT
1 ATTTTTTATAT
32915820 TTTTATTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTTTATATAAATTTTTAT
Found at i:32915804 original size:19 final size:18
Alignment explanation
Indices: 32915749--32915805 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 18
32915739 TTTTTTAAAT
*
32915749 AATTTTTATAAAATCTTAC
1 AATTTTTATAAAAT-TTTC
*
32915768 AATTTTTTATATATATTTTC
1 AA-TTTTTATA-AAATTTTC
*
32915788 TATTTTTAATAAAATTTT
1 AATTTTT-ATAAAATTTT
32915806 TATATTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 13 0.42
20 15 0.48
21 3 0.10
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (18 bp):
AATTTTTATAAAATTTTC
Found at i:32915820 original size:29 final size:31
Alignment explanation
Indices: 32915771--32915833 Score: 94
Period size: 29 Copynumber: 2.1 Consensus size: 31
32915761 ATCTTACAAT
*
32915771 TTTTTATATATATTTTCTATTTTTAATAAAA
1 TTTTTATATATATTTTATATTTTTAATAAAA
*
32915802 TTTTTATAT-T-TTTTATATTTTTATTAAAA
1 TTTTTATATATATTTTATATTTTTAATAAAA
32915831 TTT
1 TTT
32915834 AATAACTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 20 0.67
30 1 0.03
31 9 0.30
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (31 bp):
TTTTTATATATATTTTATATTTTTAATAAAA
Found at i:32915843 original size:29 final size:29
Alignment explanation
Indices: 32915773--32915843 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
32915763 CTTACAATTT
*
32915773 TTTATATA-TATTTTCTATTTTTAATAAAA
1 TTTATATACT-TTTTATATTTTTAATAAAA
* * *
32915802 TTTTTATATTTTTTATATTTTTATTAAAA
1 TTTATATACTTTTTATATTTTTAATAAAA
32915831 TTTA-ATAACTTTT
1 TTTATAT-ACTTTT
32915844 ATTTACTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 2 0.06
29 32 0.91
30 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (29 bp):
TTTATATACTTTTTATATTTTTAATAAAA
Found at i:32926527 original size:19 final size:19
Alignment explanation
Indices: 32926505--32926576 Score: 53
Period size: 19 Copynumber: 3.8 Consensus size: 19
32926495 AAAAAATCAA
32926505 TAAAATTTATAAAAATTAT
1 TAAAATTTATAAAAATTAT
*
32926524 TAAATTTTAATAAAGAA--AT
1 TAAAATTT-ATAAA-AATTAT
32926543 TAAAATATT-T-AAAATTCAT
1 TAAAAT-TTATAAAAATT-AT
* *
32926562 TAAAAATTAGAAAAA
1 TAAAATTTATAAAAA
32926577 ATATAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 15
0.68 0.07 0.25
Matches are distributed among these distances:
16 2 0.05
17 2 0.05
18 3 0.07
19 21 0.51
20 11 0.27
21 2 0.05
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (19 bp):
TAAAATTTATAAAAATTAT
Found at i:32926612 original size:15 final size:15
Alignment explanation
Indices: 32926592--32926624 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
32926582 AAAAATCGTA
32926592 AAATTATAGA-ATAAT
1 AAATTATA-ATATAAT
32926607 AAATTATAATATAAT
1 AAATTATAATATAAT
32926622 AAA
1 AAA
32926625 AAATTATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 1 0.06
15 16 0.94
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AAATTATAATATAAT
Found at i:32926645 original size:18 final size:17
Alignment explanation
Indices: 32926590--32926645 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
32926580 TAAAAAATCG
*
32926590 TAAAATTATAGAATAA-
1 TAAAATTATAAAATAAT
*
32926606 T-AAATTATAATATAAT
1 TAAAATTATAAAATAAT
*
32926622 AAAAAATTATAAAATACAT
1 -TAAAATTATAAAATA-AT
32926641 TAAAA
1 TAAAA
32926646 AGGTCATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 12 0.39
16 1 0.03
18 16 0.52
19 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (17 bp):
TAAAATTATAAAATAAT
Found at i:32926646 original size:20 final size:18
Alignment explanation
Indices: 32926601--32926637 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
32926591 AAAATTATAG
* *
32926601 AATAATAAATTATAATAT
1 AATAAAAAATTATAAAAT
32926619 AATAAAAAATTATAAAAT
1 AATAAAAAATTATAAAAT
32926637 A
1 A
32926638 CATTAAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAAAAATTATAAAAT
Found at i:32930932 original size:24 final size:26
Alignment explanation
Indices: 32930890--32930937 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
32930880 AAACTACCAG
32930890 CCCAATAACCCAATATGGCCCAAATT
1 CCCAATAACCCAATATGGCCCAAATT
*
32930916 CCCAA-AACCCTA-ATGGCCCAAA
1 CCCAATAACCCAATATGGCCCAAA
32930938 AACTAAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
25 6 0.29
26 5 0.24
ACGTcount: A:0.40, C:0.38, G:0.08, T:0.15
Consensus pattern (26 bp):
CCCAATAACCCAATATGGCCCAAATT
Found at i:32932325 original size:110 final size:110
Alignment explanation
Indices: 32932115--32932788 Score: 1014
Period size: 110 Copynumber: 6.1 Consensus size: 110
32932105 GCATACTAAT
*
32932115 TATCCTTTTAAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCC
1 TATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCC
* * * *
32932180 AAATGTGTTGGGTTTCAATTTTTCTCGTTCAACCAAATAGCCAAA
66 TAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCAAA
* * * *
32932225 TATCCTTGTAAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTTGAGAAAACGTGCCC
1 TATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCC
*
32932290 TAATGTGCTGGGTTTCGATCTTTC-CTGTTCGACCAAATAGCCAAA
66 TAATGTGCTGGGTTTCGATTTTTCTC-GTTCGACCAAATAGCCAAA
** * * *
32932335 TATCCTCTTTTAAAAAAAATCAAAATGAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAATGTGC
1 TAT-C-CTTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGC
*
32932400 CCTAATGTGTTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCAAA
64 CCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCAAA
32932447 TATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCC
1 TATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCC
* *
32932512 TAATGTGCTGGGTTTCGATCTTTCCCGTTCGACCAAATAGCCAAA
66 TAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCAAA
* * *
32932557 TATCCTCTTTTAAAAAAAATTCAAAATGAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTG
1 TAT-C-CTTTT-AAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTG
*
32932622 CCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATGGCCAAA
63 CCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCAAA
*
32932670 TATCCTTTT-AAAAACTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCC
1 TATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCC
* * **
32932734 TAATGCGCTGGGTTTCGA--TTTCTCGTTGGACCAAATAGCTGAA
66 TAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCAAA
*
32932777 TATCCTCTTAAA
1 TATCCTTTTAAA
32932789 TCTTAATCCA
Statistics
Matches: 516, Mismatches: 40, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
107 29 0.06
108 2 0.00
109 70 0.14
110 204 0.40
111 8 0.02
112 104 0.20
113 99 0.19
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (110 bp):
TATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCC
TAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCAAA
Found at i:32932505 original size:222 final size:223
Alignment explanation
Indices: 32932131--32932785 Score: 1104
Period size: 222 Copynumber: 3.0 Consensus size: 223
32932121 TTTAAAAATT
* * *
32932131 TTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCAAATGTGTTGGGTTTC
1 TTCAAAATGAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAATGTGTTGGGTTTC
* * * *
32932196 AATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTGTAAAAATTTTCAAAATAAGGCAATGTTT
66 GATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTT
* *
32932261 TGCGTTTAGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATCTTTCCTGTTCGACCAA
131 TGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATCTTTCCTGTTCGACCAA
32932326 ATAGCCAAATATCCTCTTTTAAAAAAAA
196 ATAGCCAAATATCCTCTTTTAAAAAAAA
*
32932354 -TCAAAATGAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAATGTGCCCTAATGTGTTGGGTTTC
1 TTCAAAATGAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAATGTGTTGGGTTTC
32932418 GATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTT
66 GATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTT
*
32932483 TGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATCTTTCCCGTTCGACCAA
131 TGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATCTTTCCTGTTCGACCAA
32932548 ATAGCCAAATATCCTCTTTTAAAAAAAA
196 ATAGCCAAATATCCTCTTTTAAAAAAAA
*
32932576 TTCAAAATGAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAATGTGCTGGGTTTC
1 TTCAAAATGAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAATGTGTTGGGTTTC
* *
32932641 GATTTTTCTCGTTCGACCAAATGGCCAAATATCCTTTT-AAAAACTTCAAAATAAGGCAATGTTT
66 GATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTT
* *
32932705 TGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGCGCTGGGTTTCGA--TTT-CTCGTTGGACCA
131 TGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATCTTTCCT-GTTCGACCA
**
32932767 AATAGCTGAATATCCTCTT
195 AATAGCCAAATATCCTCTT
32932786 AAATCTTAAT
Statistics
Matches: 410, Mismatches: 20, Indels: 7
0.94 0.05 0.02
Matches are distributed among these distances:
219 1 0.00
220 28 0.07
222 282 0.69
223 99 0.24
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (223 bp):
TTCAAAATGAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAATGTGTTGGGTTTC
GATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTT
TGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATCTTTCCTGTTCGACCAA
ATAGCCAAATATCCTCTTTTAAAAAAAA
Found at i:32932721 original size:332 final size:330
Alignment explanation
Indices: 32932115--32932788 Score: 1023
Period size: 332 Copynumber: 2.0 Consensus size: 330
32932105 GCATACTAAT
*
32932115 TATCCTTTTAAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCC
1 TATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCC
* * * **
32932180 AAATGTGTTGGGTTTCAATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTGTAAAAATTTTCA
66 AAATGTGCTGGGTTTCAATCTTTCCCGTTCAACCAAATAGCCAAATATCCTTGTAAAAAAATTCA
*
32932245 AAATAAGGCAATGTTTTGCGTTTAGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATC
131 AAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATC
*
32932310 TTTCCTGTTCGACCAAATAGCCAAATATCCTCTTTTAAAAAAAATCAAAATGAGGCAATGTTTTG
196 TTTCCTGTTCGACCAAATAGCCAAATATCCTCTTTTAAAAAAAATCAAAATAAGGCAATGTTTTG
* * *
32932375 CGTTTAGAAATTCGAGAAAATGTGCCCTAATGTGTTGGGTTTCGATTTTTCTCGTTCGACCAAAT
261 CGTTTAGAAATTCGAGAAAACGTGCCCTAATGCGCTGGGTTTCGA--TTTCTCGTTCGACCAAAT
32932440 AGCCAAA
324 AGCCAAA
32932447 TATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCC
1 TATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCC
* * * *
32932512 TAATGTGCTGGGTTTCGATCTTTCCCGTTCGACCAAATAGCCAAATATCCTCTTTTAAAAAAAAT
66 AAATGTGCTGGGTTTCAATCTTTCCCGTTCAACCAAATAGCCAAATAT-C-CTTGT-AAAAAAAT
* * *
32932577 TCAAAATGAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAATGTGCTGGGTTTCG
128 TCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCG
* * **
32932642 AT-TTTTCTCGTTCGACCAAATGGCCAAATAT-C-CTTTT-AAAAACTTCAAAATAAGGCAATGT
193 ATCTTTCCT-GTTCGACCAAATAGCCAAATATCCTCTTTTAAAAAAAATCAAAATAAGGCAATGT
* *
32932703 TTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGCGCTGGGTTTCGATTTCTCGTTGGACCAA
257 TTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAATGCGCTGGGTTTCGATTTCTCGTTCGACCAA
**
32932768 ATAGCTGAA
322 ATAGCCAAA
*
32932777 TATCCTCTTAAA
1 TATCCTTTTAAA
32932789 TCTTAATCCA
Statistics
Matches: 311, Mismatches: 27, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
330 33 0.11
332 172 0.55
333 6 0.02
334 10 0.03
335 90 0.29
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (330 bp):
TATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCC
AAATGTGCTGGGTTTCAATCTTTCCCGTTCAACCAAATAGCCAAATATCCTTGTAAAAAAATTCA
AAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATC
TTTCCTGTTCGACCAAATAGCCAAATATCCTCTTTTAAAAAAAATCAAAATAAGGCAATGTTTTG
CGTTTAGAAATTCGAGAAAACGTGCCCTAATGCGCTGGGTTTCGATTTCTCGTTCGACCAAATAG
CCAAA
Found at i:32936097 original size:2 final size:2
Alignment explanation
Indices: 32936090--32936124 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
32936080 CAATCTCACA
32936090 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32936125 ACAAAATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32939481 original size:21 final size:21
Alignment explanation
Indices: 32939457--32939503 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
32939447 GATGTTTGAA
32939457 TGTCTTGAGAGAAGGGATTCT
1 TGTCTTGAGAGAAGGGATTCT
32939478 TGTCTTGAGAGAAGGGATTCT
1 TGTCTTGAGAGAAGGGATTCT
32939499 TGTCT
1 TGTCT
32939504 CGAAGCCTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.11, G:0.32, T:0.36
Consensus pattern (21 bp):
TGTCTTGAGAGAAGGGATTCT
Found at i:32943711 original size:31 final size:31
Alignment explanation
Indices: 32943673--32943731 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
32943663 ACTACCTAAT
32943673 GTCGTTTTTGACTACATACGATAAATTTAAC
1 GTCGTTTTTGACTACATACGATAAATTTAAC
*
32943704 GTCGTTTTTGACTACGTACGATAAATTT
1 GTCGTTTTTGACTACATACGATAAATTT
32943732 GATAATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (31 bp):
GTCGTTTTTGACTACATACGATAAATTTAAC
Found at i:32947482 original size:12 final size:11
Alignment explanation
Indices: 32947462--32947491 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
32947452 TTTTGAGGCC
32947462 AAAAAAAACAA
1 AAAAAAAACAA
32947473 AAACAAAAACAA
1 AAA-AAAAACAA
32947485 AAAAAAA
1 AAAAAAA
32947492 CCCAAAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:32953412 original size:2 final size:2
Alignment explanation
Indices: 32953405--32953445 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
32953395 GCATATGCTC
32953405 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32953446 AACAAATGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32955580 original size:21 final size:22
Alignment explanation
Indices: 32955556--32955608 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
32955546 AATGGGACAG
*
32955556 TGTCTTGATACATT-GAACC-TA
1 TGTCTTGAGAC-TTGGAACCTTA
*
32955577 TGTCTTGAGACTTGGCACCTTA
1 TGTCTTGAGACTTGGAACCTTA
32955599 TGTCTTGAGA
1 TGTCTTGAGA
32955609 TAATCTAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 14 0.50
22 12 0.43
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.38
Consensus pattern (22 bp):
TGTCTTGAGACTTGGAACCTTA
Found at i:32963420 original size:41 final size:41
Alignment explanation
Indices: 32963368--32963499 Score: 178
Period size: 41 Copynumber: 3.2 Consensus size: 41
32963358 AGGTACAAAA
* *
32963368 GTGC-ATTCAGGGGCACCAAATTACAAACAAGGGCACGTAT
1 GTGCAATTCAGGGGTACCAAAGTACAAACAAGGGCACGTAT
* *
32963408 GTGCAATTCAGGGGTATCGAAGTACAAAC-AGGGACACGTAT
1 GTGCAATTCAGGGGTACCAAAGTACAAACAAGGG-CACGTAT
* *
32963449 GTGCAATTCAGGGGTACCAAAGTACAAATAAGGTCACGTAT
1 GTGCAATTCAGGGGTACCAAAGTACAAACAAGGGCACGTAT
*
32963490 ATGCAATTCA
1 GTGCAATTCA
32963500 ACAATATTCT
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
40 8 0.10
41 69 0.86
42 3 0.04
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (41 bp):
GTGCAATTCAGGGGTACCAAAGTACAAACAAGGGCACGTAT
Found at i:32963460 original size:21 final size:20
Alignment explanation
Indices: 32963397--32963461 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 20
32963387 ATTACAAACA
32963397 AGGGCACGTATGTGCAATTC
1 AGGGCACGTATGTGCAATTC
* * * *
32963417 AGGGGTATCG-AAGTACAA-AC
1 A-GGGCA-CGTATGTGCAATTC
32963437 AGGGACACGTATGTGCAATTC
1 AGGG-CACGTATGTGCAATTC
32963458 AGGG
1 AGGG
32963462 GTACCAAAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 9
0.65 0.16 0.18
Matches are distributed among these distances:
19 5 0.16
20 10 0.31
21 15 0.47
22 2 0.06
ACGTcount: A:0.31, C:0.17, G:0.32, T:0.20
Consensus pattern (20 bp):
AGGGCACGTATGTGCAATTC
Found at i:32969088 original size:28 final size:28
Alignment explanation
Indices: 32969048--32969130 Score: 139
Period size: 28 Copynumber: 3.0 Consensus size: 28
32969038 ATATCGGTAC
*
32969048 AGTGTGGGCCTTAGCCCATTACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
*
32969076 AGTGTGGGCCTTAGCCCAATACAGTGAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
*
32969104 AATGTGGGCCTTAGCCCAATACAGTAA
1 AGTGTGGGCCTTAGCCCAATACAGTAA
32969131 ACAAAATAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAT
Found at i:32969293 original size:26 final size:26
Alignment explanation
Indices: 32969238--32969313 Score: 118
Period size: 26 Copynumber: 3.0 Consensus size: 26
32969228 GCACCAATAT
32969238 CGCAGCAAAGCTGCCAG-AATAGTAA
1 CGCAGCAAAGCTGCCAGTAATAGTAA
*
32969263 CGCAGCAAAGTTGCCAGTAATAGTAA
1 CGCAGCAAAGCTGCCAGTAATAGTAA
* *
32969289 TGCAGCAAAGCTGCCAGTAACAGTA
1 CGCAGCAAAGCTGCCAGTAATAGTA
32969314 TATGTGGCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
25 16 0.35
26 30 0.65
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAATAGTAA
Found at i:32969332 original size:27 final size:27
Alignment explanation
Indices: 32969276--32969341 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
32969266 AGCAAAGTTG
* **
32969276 CCAGTAATAGTA-ATGCAGCAAAGCTG
1 CCAGTAACAGTATATGCAGCAAAGCCA
**
32969302 CCAGTAACAGTATATGTGGCAAAGCCA
1 CCAGTAACAGTATATGCAGCAAAGCCA
32969329 CCAGT-ACAGTATA
1 CCAGTAACAGTATA
32969342 CTTCCCCTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 19 0.56
27 15 0.44
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTATATGCAGCAAAGCCA
Found at i:32969630 original size:81 final size:80
Alignment explanation
Indices: 32969493--32969780 Score: 359
Period size: 81 Copynumber: 3.5 Consensus size: 80
32969483 CATAACAATT
* * *
32969493 ATTTTACCCTTCAGGGGTATTTCGATCAATTTACCCATTAGGGGTATTTCGATCATTTTACCCTT
1 ATTTTACCCTTCAGGGGTATTTCGATCATTTTACCC-TTGGGGGTATTTCGGTCATTTTACCCTT
32969558 TGAGGGTATTTCGGTC
65 TGAGGGTATTTCGGTC
*
32969574 ATTTTACCCTTCAGGAGTATTTCGATCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCC-T
1 ATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTT-GGGGGTATTTCGGTCATTTTACCCTT
* * *
32969638 TCAGGGGTATTTTGGTG
65 TGA-GGGTATTTCGGTC
* *
32969655 ATTTTACCCTTC-GAGGGTATTTCGATCATTTTATCCTTAGGGGGTATTTCGGTCATTTTATCCT
1 ATTTTACCCTTCAG-GGGTATTTCGATCATTTTACCCTT-GGGGGTATTTCGGTCATTTTACCCT
* *
32969719 ATGGGGGTATTTTC-GTC
64 TTGAGGGTA-TTTCGGTC
* *
32969736 ATTTTATCCTAT-GGGGGTATTTCGATCATTTTACCCTATGGGGGT
1 ATTTTACCCT-TCAGGGGTATTTCGATCATTTTACCCT-TGGGGGT
32969781 CTCAATACAG
Statistics
Matches: 181, Mismatches: 18, Indels: 16
0.84 0.08 0.07
Matches are distributed among these distances:
80 6 0.03
81 168 0.93
82 7 0.04
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.42
Consensus pattern (80 bp):
ATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTTGGGGGTATTTCGGTCATTTTACCCTTT
GAGGGTATTTCGGTC
Found at i:32969773 original size:27 final size:27
Alignment explanation
Indices: 32969493--32969780 Score: 325
Period size: 27 Copynumber: 10.7 Consensus size: 27
32969483 CATAACAATT
*
32969493 ATTTTACCCTTCAGGGGTATTTCGATC
1 ATTTTACCCTTCGGGGGTATTTCGATC
* *
32969520 AATTTACCCATT-AGGGGTATTTCGATC
1 ATTTTACCC-TTCGGGGGTATTTCGATC
* * *
32969547 ATTTTACCCTTTGAGGGTATTTCGGTC
1 ATTTTACCCTTCGGGGGTATTTCGATC
* *
32969574 ATTTTACCCTTCAGGAGTATTTCGATC
1 ATTTTACCCTTCGGGGGTATTTCGATC
*
32969601 ATTTTACCCTTCGGGGGTATTTCGGTC
1 ATTTTACCCTTCGGGGGTATTTCGATC
* * * *
32969628 ATTTTACCCTTCAGGGGTATTTTGGTG
1 ATTTTACCCTTCGGGGGTATTTCGATC
*
32969655 ATTTTACCCTTCGAGGGTATTTCGATC
1 ATTTTACCCTTCGGGGGTATTTCGATC
* * *
32969682 ATTTTATCCTTAGGGGGTATTTCGGTC
1 ATTTTACCCTTCGGGGGTATTTCGATC
*
32969709 ATTTTATCCTAT-GGGGGTATTTTCG-TC
1 ATTTTACCCT-TCGGGGGTA-TTTCGATC
*
32969736 ATTTTATCCTAT-GGGGGTATTTCGATC
1 ATTTTACCCT-TCGGGGGTATTTCGATC
32969763 ATTTTACCCTAT-GGGGGT
1 ATTTTACCCT-TCGGGGGT
32969781 CTCAATACAG
Statistics
Matches: 230, Mismatches: 26, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
26 7 0.03
27 215 0.93
28 8 0.03
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGGGGGTATTTCGATC
Found at i:32976959 original size:33 final size:33
Alignment explanation
Indices: 32976922--32976989 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
32976912 GATGGACTAT
*
32976922 CTCTATTCCGTGTTTACTGTCCCGGTGAACTTA
1 CTCTATTCCGTGTTTACTATCCCGGTGAACTTA
* * *
32976955 CTCTATTCTGTGTTTACTATCCTGGTGGACTTA
1 CTCTATTCCGTGTTTACTATCCCGGTGAACTTA
32976988 CT
1 CT
32976990 TTGTGGATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.43
Consensus pattern (33 bp):
CTCTATTCCGTGTTTACTATCCCGGTGAACTTA
Found at i:32984924 original size:27 final size:26
Alignment explanation
Indices: 32984877--32984927 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
32984867 TCCTAAGTCC
*
32984877 ATAACAGATACAGATAGCATAATCAG
1 ATAACAGATACAGATAACATAATCAG
32984903 ATAAGCAGA-ACAGATATACATAATC
1 ATAA-CAGATACAGATA-ACATAATC
32984928 CTACCCCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.20
Consensus pattern (26 bp):
ATAACAGATACAGATAACATAATCAG
Found at i:32990470 original size:26 final size:26
Alignment explanation
Indices: 32990371--32990470 Score: 85
Period size: 26 Copynumber: 3.8 Consensus size: 26
32990361 AGGGGAAGTA
** * *
32990371 TACTG-TACTGGTGGCTTTGCCACAAA
1 TACTGTTACTGGCAGCTTTGCTAC-AT
* *
32990397 TACTGTTACTGGTAGCTTTCCTACAT
1 TACTGTTACTGGCAGCTTTGCTACAT
** * *
32990423 TACTAATACTGACAGCTCTGCTACAT
1 TACTGTTACTGGCAGCTTTGCTACAT
*
32990449 TATTGTTACTGGCAGCTTTGCT
1 TACTGTTACTGGCAGCTTTGCT
32990471 GCGTGGGTCG
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
26 43 0.74
27 15 0.26
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTACAT
Found at i:32990645 original size:30 final size:30
Alignment explanation
Indices: 32990559--32990646 Score: 97
Period size: 30 Copynumber: 2.9 Consensus size: 30
32990549 ACTGCATTTG
* * *
32990559 CACTGTTACTGTATTGGGCTAAGACCCATA
1 CACTGTTACTGTATTGGGCTTAGGCCCACA
* *
32990589 CTCTGTTACTATATTGGGC-TATGGCCCACA
1 CACTGTTACTGTATTGGGCTTA-GGCCCACA
* *
32990619 CACTGCTACTGTATAGGGCTTAGGCCCA
1 CACTGTTACTGTATTGGGCTTAGGCCCA
32990647 GATTGATTCT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 1 0.02
30 44 0.94
31 2 0.04
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.30
Consensus pattern (30 bp):
CACTGTTACTGTATTGGGCTTAGGCCCACA
Found at i:32993289 original size:27 final size:28
Alignment explanation
Indices: 32993144--32993289 Score: 149
Period size: 27 Copynumber: 5.4 Consensus size: 28
32993134 AGTAGGCCTC
* * *
32993144 TAAAATGACTGAAATACCCT-TAAAGGG
1 TAAAATGACCGAAATACCCTCGATAGGG
*
32993171 TAAAATGATCGAAATACCCTCGAT-GGG
1 TAAAATGACCGAAATACCCTCGATAGGG
** *
32993198 TAAAATGATTGAAATATCCTCGAT-GGG
1 TAAAATGACCGAAATACCCTCGATAGGG
* * *
32993225 TAAAATAACTGAAATACCCTCAATA-GG
1 TAAAATGACCGAAATACCCTCGATAGGG
* *
32993252 TAAAATTACCGAAATACCCT-TATAGGG
1 TAAAATGACCGAAATACCCTCGATAGGG
32993279 TAAAATGACCG
1 TAAAATGACCG
32993290 TTATACCTCT
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.03
27 98 0.96
28 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (28 bp):
TAAAATGACCGAAATACCCTCGATAGGG
Found at i:32993296 original size:54 final size:54
Alignment explanation
Indices: 32993144--32993289 Score: 177
Period size: 54 Copynumber: 2.7 Consensus size: 54
32993134 AGTAGGCCTC
* * * *
32993144 TAAAATGACTGAAATACCCTTAAAGGGTAAAATGATCGAAATACCCTCGATGGG
1 TAAAATGACTGAAATACCCTTATAGGGTAAAATGACCGAAATACCCTCAATAGG
* * * * *
32993198 TAAAATGATTGAAATATCCTCGAT-GGGTAAAATAACTGAAATACCCTCAATAGG
1 TAAAATGACTGAAATACCCT-TATAGGGTAAAATGACCGAAATACCCTCAATAGG
* *
32993252 TAAAATTACCGAAATACCCTTATAGGGTAAAATGACCG
1 TAAAATGACTGAAATACCCTTATAGGGTAAAATGACCG
32993290 TTATACCTCT
Statistics
Matches: 74, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
53 2 0.03
54 71 0.96
55 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (54 bp):
TAAAATGACTGAAATACCCTTATAGGGTAAAATGACCGAAATACCCTCAATAGG
Found at i:32993570 original size:26 final size:26
Alignment explanation
Indices: 32993480--32993576 Score: 88
Period size: 26 Copynumber: 3.7 Consensus size: 26
32993470 TTGCCACAAA
* *
32993480 TACTGTTACTGGAAGCTTTACTGCGT
1 TACTATTACTGGCAGCTTTACTGCGT
* * * **
32993506 TACTGA-TACTGACAGCTCTATTGTAT
1 TACT-ATTACTGGCAGCTTTACTGCGT
* *
32993532 TACTGTTACTGGCAGCTTTACTACGT
1 TACTATTACTGGCAGCTTTACTGCGT
*
32993558 TACTATTACTGGCAACTTT
1 TACTATTACTGGCAGCTTT
32993577 GTTGCGATAT
Statistics
Matches: 53, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.39
Consensus pattern (26 bp):
TACTATTACTGGCAGCTTTACTGCGT
Found at i:32993724 original size:30 final size:30
Alignment explanation
Indices: 32993688--32993775 Score: 113
Period size: 30 Copynumber: 2.9 Consensus size: 30
32993678 ACTGTATTTG
32993688 CACTGTTACTGTATTGGGCTAAGGCCCACA
1 CACTGTTACTGTATTGGGCTAAGGCCCACA
* * * *
32993718 CTCTGTTACTATATTGGGCTATGGCACACA
1 CACTGTTACTGTATTGGGCTAAGGCCCACA
* * *
32993748 CACTGCTACTGTATAGGGCTCAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
32993776 GACTGATTTT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (30 bp):
CACTGTTACTGTATTGGGCTAAGGCCCACA
Found at i:32995821 original size:18 final size:18
Alignment explanation
Indices: 32995798--32995840 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
32995788 TGCCAGGTGC
*
32995798 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
32995816 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
32995834 GTTTCCT
1 GTATCCT
32995841 TTTCTCAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Done.