Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 36 of 433
Found at i:9361326 original size:24 final size:24
Alignment explanation
Indices: 9361299--9361348 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
9361289 ATATTTTTAG
9361299 TTATTTATCACTAATTACCAACTT
1 TTATTTATCACTAATTACCAACTT
9361323 TTATTTATCACTAATTACCAACTT
1 TTATTTATCACTAATTACCAACTT
9361347 TT
1 TT
9361349 GATTCAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (24 bp):
TTATTTATCACTAATTACCAACTT
Found at i:9363117 original size:2 final size:2
Alignment explanation
Indices: 9363110--9363141 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9363100 TATATTTTTA
9363110 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9363142 TTTGTTTCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9364444 original size:17 final size:18
Alignment explanation
Indices: 9364421--9364464 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
9364411 ATTTTATCAT
9364421 TTTATTTTTTTAAATTTA
1 TTTATTTTTTTAAATTTA
* *
9364439 -TTATTTATTTGAATTTA
1 TTTATTTTTTTAAATTTA
9364456 TTTATTTTT
1 TTTATTTTT
9364465 ATTTAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTATTTTTTTAAATTTA
Found at i:9364444 original size:22 final size:22
Alignment explanation
Indices: 9364406--9364448 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
9364396 GTAATTTAAA
9364406 TTTAAATTTTATCATTTTATTTT
1 TTTAAATTTTATCA-TTTATTTT
*
9364429 TTTAAA-TTTATTATTTATTT
1 TTTAAATTTTATCATTTATTT
9364449 GAATTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 6 0.32
23 6 0.32
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTAAATTTTATCATTTATTTT
Found at i:9365324 original size:16 final size:18
Alignment explanation
Indices: 9365291--9365326 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
9365281 TGAATGATGG
9365291 TATTATTTAAATATTAAA
1 TATTATTTAAATATTAAA
9365309 TATT-TTTAAA-ATTAAA
1 TATTATTTAAATATTAAA
9365325 TA
1 TA
9365327 ACATAATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTATTTAAATATTAAA
Found at i:9365582 original size:11 final size:12
Alignment explanation
Indices: 9365560--9365600 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
9365550 ATCACATTTG
*
9365560 ATTTTTATATAA
1 ATTTTTACATAA
9365572 ATTTTTA-ATAA
1 ATTTTTACATAA
9365583 ATTTGTTACAT-A
1 ATTT-TTACATAA
9365595 ATTTTT
1 ATTTTT
9365601 TTCACTCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 10 0.37
12 15 0.56
13 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (12 bp):
ATTTTTACATAA
Found at i:9366742 original size:16 final size:17
Alignment explanation
Indices: 9366721--9366753 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
9366711 CTATCTATAT
9366721 ATACGAAATT-ATAAAA
1 ATACGAAATTAATAAAA
9366737 ATACGAAATTAATAAAA
1 ATACGAAATTAATAAAA
9366754 TTCACAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.24
Consensus pattern (17 bp):
ATACGAAATTAATAAAA
Found at i:9370811 original size:39 final size:40
Alignment explanation
Indices: 9370697--9370883 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
9370687 GCTACTCGTT
*
9370697 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
9370737 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
9370777 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * * *
9370816 CAAATGCCTT-TGGATTTTAGTCCAGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
* *
9370857 CAAAAGACTTCGGGACTTAGCCCGGAT
1 CAAATGCCTTCGGGACTTAGCCCGGAT
9370884 ATCATTCGAA
Statistics
Matches: 122, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 62 0.51
41 23 0.19
42 3 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:9375178 original size:30 final size:30
Alignment explanation
Indices: 9375144--9375208 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
9375134 ATACTGGTGC
*
9375144 ACCCCAAGGTGAGAAACTTGGTCGAGCGAA
1 ACCCCAAGGTGAGAAACTTGGTCGAGCAAA
9375174 ACCCCAAGGTGAGAAACTTGGTCGAGCAAA
1 ACCCCAAGGTGAGAAACTTGGTCGAGCAAA
9375204 ACCCC
1 ACCCC
9375209 TATCCGTCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.34, C:0.28, G:0.26, T:0.12
Consensus pattern (30 bp):
ACCCCAAGGTGAGAAACTTGGTCGAGCAAA
Found at i:9378797 original size:79 final size:81
Alignment explanation
Indices: 9378686--9378871 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
9378676 GCTACTCGTT
* * *
9378686 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGTACAAATGCCTTCAGGA-CTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
9378749 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
9378766 CCAATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
*
9378830 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
* *
9378846 CAAAAGCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTC-GGGCTTAGCCCGGA
9378872 TATCATTCGA
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
78 3 0.03
79 47 0.52
80 27 0.30
81 13 0.14
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:9378800 original size:39 final size:40
Alignment explanation
Indices: 9378686--9378871 Score: 200
Period size: 40 Copynumber: 4.6 Consensus size: 40
9378676 GCTACTCGTT
* * *
9378686 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGTA
1 CAAATGCCTTC-GGACTTAGCCCGGAATATAGTAACTCGCA
* *
9378726 CAAATGCCTTCAGGACTTAACCCGG-ATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGAATATAGTAACTCGCA
* *
9378766 CCAATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGAATATAGTAACTCGCA
* * *
9378805 CAAATGCCTTCGGATCTTAGTCCGG-ATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGAATATAGTAAC-TCGCA
*
9378846 CAAAAGCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
9378872 TATCATTCGA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 37 0.30
40 61 0.49
41 23 0.19
42 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGACTTAGCCCGGAATATAGTAACTCGCA
Found at i:9381935 original size:29 final size:28
Alignment explanation
Indices: 9381894--9381980 Score: 104
Period size: 28 Copynumber: 3.1 Consensus size: 28
9381884 GACTGTAAAA
9381894 GTGATTGGGCCTAGTGGGCCATAT-AGAT
1 GTGATTGGGCCTAGTGGGCCATATGA-AT
*
9381922 GTGATTTGGGCCTAATGGGCCATATGAAT
1 GTGA-TTGGGCCTAGTGGGCCATATGAAT
* * * *
9381951 GAGATTGGACCTAGTGGGTCATAAGAAT
1 GTGATTGGGCCTAGTGGGCCATATGAAT
9381979 GT
1 GT
9381981 ATGTGGACTT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
28 25 0.50
29 24 0.48
30 1 0.02
ACGTcount: A:0.25, C:0.13, G:0.33, T:0.29
Consensus pattern (28 bp):
GTGATTGGGCCTAGTGGGCCATATGAAT
Found at i:9385974 original size:28 final size:28
Alignment explanation
Indices: 9385942--9386020 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
9385932 ACTATAAAAG
9385942 TGATTGGGCCTAGTGGGCCATAT-AGATC
1 TGATTGGGCCTAGTGGGCCATATGA-ATC
* * *
9385970 TGATTTGGGTCT-GATGGGCCATGTGAATG
1 TGA-TTGGGCCTAG-TGGGCCATATGAATC
*
9385999 AGATTGGGCCTAGTGGGCCATA
1 TGATTGGGCCTAGTGGGCCATA
9386021 AGCATGTATG
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
28 19 0.46
29 21 0.51
30 1 0.02
ACGTcount: A:0.20, C:0.15, G:0.35, T:0.29
Consensus pattern (28 bp):
TGATTGGGCCTAGTGGGCCATATGAATC
Found at i:9389981 original size:29 final size:28
Alignment explanation
Indices: 9389940--9390026 Score: 113
Period size: 28 Copynumber: 3.1 Consensus size: 28
9389930 GACTGTAAAA
*
9389940 GTGATTGGGCCTAGTAGGCCATAT-AGAT
1 GTGATTGGGCCTAGTGGGCCATATGA-AT
*
9389968 GTGATTTGGGCCTAATGGGCCATATGAAT
1 GTGA-TTGGGCCTAGTGGGCCATATGAAT
* *
9389997 GAGATTGGGCCTAGTGGGCCATAAGAAT
1 GTGATTGGGCCTAGTGGGCCATATGAAT
9390025 GT
1 GT
9390027 ATGTGGACTT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
28 27 0.53
29 23 0.45
30 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.28
Consensus pattern (28 bp):
GTGATTGGGCCTAGTGGGCCATATGAAT
Found at i:9393054 original size:25 final size:25
Alignment explanation
Indices: 9393019--9393084 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
9393009 ACACACCACA
*
9393019 GCTCTCTTGAGCTTCCCGATACTTG
1 GCTCTCATGAGCTTCCCGATACTTG
*
9393044 GCTCTCATGAGCTTCCCGATATTTG
1 GCTCTCATGAGCTTCCCGATACTTG
*
9393069 GCT-TACAAGAGCTTCC
1 GCTCT-CATGAGCTTCC
9393085 TGTTTACATG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.17, C:0.30, G:0.20, T:0.33
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATACTTG
Found at i:9394947 original size:25 final size:23
Alignment explanation
Indices: 9394895--9394943 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
9394885 TATAAATAGT
9394895 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
9394918 TATAGTGTTTGAAGTATATAC-ATA
1 AATAGTGTTAGAA--ATATACTATA
9394942 AA
1 AA
9394944 ATAGCGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
23 11 0.52
24 4 0.19
25 6 0.29
ACGTcount: A:0.45, C:0.04, G:0.14, T:0.37
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:9395064 original size:22 final size:24
Alignment explanation
Indices: 9395006--9395098 Score: 77
Period size: 25 Copynumber: 3.9 Consensus size: 24
9394996 ATAGATATAA
* *
9395006 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
9395030 AAGAAATACATACATAATATAAT-T
1 AA-AAATATATACATAATATAATGT
*
9395054 -AAAATATATACATAAGATAACATGT
1 AAAAATATATACATAATAT-A-ATGT
*
9395079 AGAAAA-ATATATAT-ATATAA
1 A-AAAATATATACATAATATAA
9395099 ATAATATAGT
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
22 15 0.27
23 3 0.05
24 6 0.11
25 21 0.38
26 7 0.12
27 4 0.07
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.30
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:9395114 original size:15 final size:14
Alignment explanation
Indices: 9395083--9395147 Score: 53
Period size: 14 Copynumber: 4.5 Consensus size: 14
9395073 ACATGTAGAA
9395083 AAATATATATATAT
1 AAATATATATATAT
9395097 AAATA-ATATAGTATT
1 AAATATATATA-TA-T
* *
9395112 AAAGATATATACAT
1 AAATATATATATAT
9395126 AAA-ATAGTATAATAT
1 AAATATA-TAT-ATAT
*
9395141 ACATATA
1 AAATATA
9395148 CGTAATATAG
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 8 0.20
14 14 0.34
15 11 0.27
16 8 0.20
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (14 bp):
AAATATATATATAT
Found at i:9395119 original size:25 final size:24
Alignment explanation
Indices: 9395093--9395221 Score: 99
Period size: 25 Copynumber: 5.5 Consensus size: 24
9395083 AAATATATAT
*
9395093 ATATAAATAATATAGTATTAAAGA
1 ATATACATAATATAGTATTAAAGA
* *
9395117 TATATACATAAAATAGTA-TAATATA
1 -ATATACATAATATAGTATTAA-AGA
* * *
9395142 CATATACGTAATATAGAATT-TAGA
1 -ATATACATAATATAGTATTAAAGA
* *
9395166 ATATACCTAATATA-T-TAAAAGA
1 ATATACATAATATAGTATTAAAGA
* *
9395188 ATATATATAATATAATATTAAA-A
1 ATATACATAATATAGTATTAAAGA
9395211 ATATA-ATAATA
1 ATATACATAATA
9395222 ACAAAAAAAA
Statistics
Matches: 83, Mismatches: 16, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
21 1 0.01
22 21 0.25
23 20 0.24
24 9 0.11
25 31 0.37
26 1 0.01
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (24 bp):
ATATACATAATATAGTATTAAAGA
Found at i:9395515 original size:16 final size:16
Alignment explanation
Indices: 9395477--9395515 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9395467 CTCCAAAAAA
*
9395477 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
9395493 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
9395509 AATAACT
1 AAAAACT
9395516 CTTCTTCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:9395704 original size:30 final size:30
Alignment explanation
Indices: 9395663--9395756 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
9395653 AGGTACAAGT
*
9395663 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
9395693 GGTGGTAGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
9395723 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
9395753 GGTG
1 GGTG
9395757 ATGGCAAAGG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.20, C:0.06, G:0.49, T:0.24
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:9398331 original size:286 final size:286
Alignment explanation
Indices: 9397819--9398392 Score: 1148
Period size: 286 Copynumber: 2.0 Consensus size: 286
9397809 AAAGGAAAAC
9397819 CACTTTTCATTACAAATAGCTCTATCCAACCATTAAGATAAATTTCCTTAACACCAAGTAAATTG
1 CACTTTTCATTACAAATAGCTCTATCCAACCATTAAGATAAATTTCCTTAACACCAAGTAAATTG
9397884 ATATCTGATGGCACCCAAATTCTGCAACCCATTATCAAACAAAAATTCACAAAACCTTTTACATC
66 ATATCTGATGGCACCCAAATTCTGCAACCCATTATCAAACAAAAATTCACAAAACCTTTTACATC
9397949 CAACCCTTAATAGAGTAGCACCACCTACTCTTTCGGAACTATCAATGATCAAATTAAAATCCCCA
131 CAACCCTTAATAGAGTAGCACCACCTACTCTTTCGGAACTATCAATGATCAAATTAAAATCCCCA
9398014 GCTAAAATCCAAGGACTAACCAACAAAATTGCCAAAGACTCTAAAAATTGCCAAAGTTTTCATTG
196 GCTAAAATCCAAGGACTAACCAACAAAATTGCCAAAGACTCTAAAAATTGCCAAAGTTTTCATTG
9398079 CTGTGTTGGTTGTAGACTAGCATACA
261 CTGTGTTGGTTGTAGACTAGCATACA
9398105 CACTTTTCATTACAAATAGCTCTATCCAACCATTAAGATAAATTTCCTTAACACCAAGTAAATTG
1 CACTTTTCATTACAAATAGCTCTATCCAACCATTAAGATAAATTTCCTTAACACCAAGTAAATTG
9398170 ATATCTGATGGCACCCAAATTCTGCAACCCATTATCAAACAAAAATTCACAAAACCTTTTACATC
66 ATATCTGATGGCACCCAAATTCTGCAACCCATTATCAAACAAAAATTCACAAAACCTTTTACATC
9398235 CAACCCTTAATAGAGTAGCACCACCTACTCTTTCGGAACTATCAATGATCAAATTAAAATCCCCA
131 CAACCCTTAATAGAGTAGCACCACCTACTCTTTCGGAACTATCAATGATCAAATTAAAATCCCCA
9398300 GCTAAAATCCAAGGACTAACCAACAAAATTGCCAAAGACTCTAAAAATTGCCAAAGTTTTCATTG
196 GCTAAAATCCAAGGACTAACCAACAAAATTGCCAAAGACTCTAAAAATTGCCAAAGTTTTCATTG
9398365 CTGTGTTGGTTGTAGACTAGCATACA
261 CTGTGTTGGTTGTAGACTAGCATACA
9398391 CA
1 CA
9398393 GCTGAACAAA
Statistics
Matches: 288, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
286 288 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (286 bp):
CACTTTTCATTACAAATAGCTCTATCCAACCATTAAGATAAATTTCCTTAACACCAAGTAAATTG
ATATCTGATGGCACCCAAATTCTGCAACCCATTATCAAACAAAAATTCACAAAACCTTTTACATC
CAACCCTTAATAGAGTAGCACCACCTACTCTTTCGGAACTATCAATGATCAAATTAAAATCCCCA
GCTAAAATCCAAGGACTAACCAACAAAATTGCCAAAGACTCTAAAAATTGCCAAAGTTTTCATTG
CTGTGTTGGTTGTAGACTAGCATACA
Found at i:9401244 original size:18 final size:18
Alignment explanation
Indices: 9401221--9401257 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9401211 CAAACATAGA
* *
9401221 TTTAAATTAAGTTCATGT
1 TTTAAAGTAAATTCATGT
9401239 TTTAAAGTAAATTCATGT
1 TTTAAAGTAAATTCATGT
9401257 T
1 T
9401258 ATACTGTTAA
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:0.35, C:0.05, G:0.11, T:0.49
Consensus pattern (18 bp):
TTTAAAGTAAATTCATGT
Found at i:9405529 original size:15 final size:15
Alignment explanation
Indices: 9405509--9405560 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
9405499 ACTACAAAAC
9405509 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
9405524 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
9405543 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
9405558 ATT
1 ATT
9405561 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:9405653 original size:18 final size:18
Alignment explanation
Indices: 9405615--9405650 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9405605 TTATTATTTT
*
9405615 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
9405633 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
9405651 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:9405681 original size:22 final size:22
Alignment explanation
Indices: 9405641--9405696 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
9405631 AATAAAATTT
*
9405641 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
9405661 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
9405683 TATTAATAATTTAT
1 AAATAATAAATTAT
9405697 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:9407539 original size:2 final size:2
Alignment explanation
Indices: 9407532--9407556 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9407522 GCCAAAATAC
9407532 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 A
9407557 AATAGTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9408082 original size:17 final size:17
Alignment explanation
Indices: 9408060--9408092 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9408050 ATACATGATA
9408060 ATATATAAACATATACG
1 ATATATAAACATATACG
*
9408077 ATATATAAATATATAC
1 ATATATAAACATATAC
9408093 TAGAAATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.33
Consensus pattern (17 bp):
ATATATAAACATATACG
Found at i:9408456 original size:3 final size:3
Alignment explanation
Indices: 9408448--9408516 Score: 50
Period size: 3 Copynumber: 22.3 Consensus size: 3
9408438 ATTAAGTAAA
* * * * *
9408448 AAT AAT AAT AAT GA- AAT ACT GAT AAAT AAA AAC AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
*
9408493 AAC AAT AAT AAT AGAT AAAT AAT A
1 AAT AAT AAT AAT A-AT -AAT AAT A
9408517 TTAAAATTAA
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
2 1 0.02
3 43 0.84
4 6 0.12
5 1 0.02
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:9408496 original size:15 final size:15
Alignment explanation
Indices: 9408472--9408510 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
9408462 AATACTGATA
*
9408472 AATAAAAACAATAAT
1 AATAATAACAATAAT
9408487 AATAATAACAATAAT
1 AATAATAACAATAAT
9408502 AATAGATAA
1 AATA-ATAA
9408511 ATAATATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (15 bp):
AATAATAACAATAAT
Found at i:9409056 original size:17 final size:18
Alignment explanation
Indices: 9409020--9409059 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
9409010 CGGGGCCAGT
*
9409020 CACCGGCCGATCGTCGGC
1 CACCGGCCGATCGCCGGC
*
9409038 CACCGTCCG-TCGCCGGC
1 CACCGGCCGATCGCCGGC
9409055 CACCG
1 CACCG
9409060 CAAAAGGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.10, C:0.50, G:0.30, T:0.10
Consensus pattern (18 bp):
CACCGGCCGATCGCCGGC
Found at i:9410041 original size:3 final size:3
Alignment explanation
Indices: 9410027--9410083 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
9410017 AAATAGATAT
* *
9410027 TTA TTA TAA TTA TTA -TA GTT- TTA -TA TTA -AA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
9410069 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
9410084 AAATGAAGAC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
2 7 0.16
3 37 0.82
4 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:9410219 original size:16 final size:16
Alignment explanation
Indices: 9410198--9410237 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
9410188 ATGAATTAAA
*
9410198 TATTATTATATTATAT
1 TATTATTATAATATAT
*
9410214 TATTATTATAATGTAT
1 TATTATTATAATATAT
9410230 TATTATTA
1 TATTATTA
9410238 AAACTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
TATTATTATAATATAT
Found at i:9411806 original size:11 final size:12
Alignment explanation
Indices: 9411776--9411809 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
9411766 GTATGTTTAC
9411776 TTATTATATAAG
1 TTATTATATAAG
9411788 TATATTAT-TAAG
1 T-TATTATATAAG
9411800 TTATTATATA
1 TTATTATATA
9411810 TATATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:9411811 original size:2 final size:2
Alignment explanation
Indices: 9411804--9411862 Score: 77
Period size: 2 Copynumber: 30.0 Consensus size: 2
9411794 ATTAAGTTAT
* *
9411804 TA TA TA TA TA TA TA TA TA TA TA TA GTA AA TG T- TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
9411845 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
9411863 GAGTAAATGA
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.04
2 47 0.92
3 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9411942 original size:19 final size:18
Alignment explanation
Indices: 9411920--9411961 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9411910 GAATAGCAAT
*
9411920 AGGGAAAAGAAGGAAGAAA
1 AGGGAAAAGAA-AAAGAAA
*
9411939 AGGGGAAAGAAAAAGAAA
1 AGGGAAAAGAAAAAGAAA
9411957 AGGGA
1 AGGGA
9411962 GAATTAGGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (18 bp):
AGGGAAAAGAAAAAGAAA
Found at i:9413246 original size:18 final size:18
Alignment explanation
Indices: 9413223--9413322 Score: 96
Period size: 18 Copynumber: 5.6 Consensus size: 18
9413213 AATTGACCGC
*
9413223 TACTGAATAATCAACTGT
1 TACTGAATAATCGACTGT
9413241 TACTGAATCAAT-GACTGT
1 TACTGAAT-AATCGACTGT
**
9413259 TACTGAATAA-CTGACTAC
1 TACTGAATAATC-GACTGT
* *
9413277 TACTGAATAATTGACTGA
1 TACTGAATAATCGACTGT
* * *
9413295 TATTGAATAAACGACCGT
1 TACTGAATAATCGACTGT
9413313 TACTGAATAA
1 TACTGAATAA
9413323 CTAATTATTA
Statistics
Matches: 66, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
17 2 0.03
18 61 0.92
19 3 0.05
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (18 bp):
TACTGAATAATCGACTGT
Found at i:9413265 original size:36 final size:35
Alignment explanation
Indices: 9413206--9413322 Score: 112
Period size: 36 Copynumber: 3.3 Consensus size: 35
9413196 TAAATAAATG
* * *
9413206 TACTGAA-AATTGACCGCTACTGAATAATCAACTGT
1 TACTGAATAATTGACTGATACTGAATAA-CGACTGT
* **
9413241 TACTGAATCAA-TGACTGTTACTGAATAACTGACTAC
1 TACTGAAT-AATTGACTGATACTGAATAAC-GACTGT
* *
9413277 TACTGAATAATTGACTGATATTGAATAAACGACCGT
1 TACTGAATAATTGACTGATACTGAAT-AACGACTGT
9413313 TACTGAATAA
1 TACTGAATAA
9413323 CTAATTATTA
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
35 10 0.15
36 52 0.78
37 5 0.07
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (35 bp):
TACTGAATAATTGACTGATACTGAATAACGACTGT
Found at i:9413280 original size:54 final size:54
Alignment explanation
Indices: 9413222--9413324 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 54
9413212 AAATTGACCG
* * * *
9413222 CTACTGAATAATCAACTGTTACTGAATCAATGACTGTTACTGAATAACTGACTA
1 CTACTGAATAATCAACTGATACTGAATAAACGACCGTTACTGAATAACTGACTA
** *
9413276 CTACTGAATAATTGACTGATATTGAATAAACGACCGTTACTGAATAACT
1 CTACTGAATAATCAACTGATACTGAATAAACGACCGTTACTGAATAACT
9413325 AATTATTACT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (54 bp):
CTACTGAATAATCAACTGATACTGAATAAACGACCGTTACTGAATAACTGACTA
Found at i:9413335 original size:54 final size:54
Alignment explanation
Indices: 9413222--9413336 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 54
9413212 AAATTGACCG
* * * * *
9413222 CTACTGAATAATCAACTGTTACTGAATCAATGACTGTTACTGAATAACTGACTA
1 CTACTGAATAATCAACTGATACTGAATAAACGACCGTTACTGAATAACTAACTA
** * *
9413276 CTACTGAATAATTGACTGATATTGAATAAACGACCGTTACTGAATAACTAATTA
1 CTACTGAATAATCAACTGATACTGAATAAACGACCGTTACTGAATAACTAACTA
*
9413330 TTACTGA
1 CTACTGA
9413337 TGACTGACTG
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (54 bp):
CTACTGAATAATCAACTGATACTGAATAAACGACCGTTACTGAATAACTAACTA
Found at i:9414391 original size:19 final size:20
Alignment explanation
Indices: 9414351--9414395 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
9414341 CACATGGGTT
9414351 TGTTATGGAACACACGGGCG
1 TGTTATGGAACACACGGGCG
9414371 TGTTATGGAACACAC-GGCG
1 TGTTATGGAACACACGGGCG
9414390 TGTTAT
1 TGTTAT
9414396 CTAGACCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (20 bp):
TGTTATGGAACACACGGGCG
Found at i:9418796 original size:11 final size:12
Alignment explanation
Indices: 9418766--9418799 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
9418756 GTATGTTTAC
9418766 TTATTATATAAG
1 TTATTATATAAG
9418778 TATATTAT-TAAG
1 T-TATTATATAAG
9418790 TTATTATATA
1 TTATTATATA
9418800 TATAAATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:9420210 original size:18 final size:18
Alignment explanation
Indices: 9420180--9420300 Score: 120
Period size: 18 Copynumber: 6.8 Consensus size: 18
9420170 TAAATAAAGG
*
9420180 TACTGAA-AATTGACCGC
1 TACTGAATAATTGACTGC
*
9420197 TACTGAATAATTGACTGT
1 TACTGAATAATTGACTGC
*
9420215 TACTGAATCAA-TGACTGT
1 TACTGAAT-AATTGACTGC
* *
9420233 TACTGAATAACTGACTAC
1 TACTGAATAATTGACTGC
* *
9420251 TACTGAATAATTGATTGA
1 TACTGAATAATTGACTGC
* * *
9420269 TATTGAATAAATGACTGT
1 TACTGAATAATTGACTGC
*
9420287 TACTAAATAATTGA
1 TACTGAATAATTGA
9420301 TTATTACTGA
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
17 9 0.10
18 75 0.87
19 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (18 bp):
TACTGAATAATTGACTGC
Found at i:9420239 original size:36 final size:36
Alignment explanation
Indices: 9420180--9420328 Score: 151
Period size: 36 Copynumber: 4.2 Consensus size: 36
9420170 TAAATAAAGG
** * *
9420180 TACTGAA-AATTGACCGCTACTGAATAATTGACTGT
1 TACTGAATAATTGATTGTTACTGAATAACTGACTGT
* **
9420215 TACTGAATCAA-TGACTGTTACTGAATAACTGACTAC
1 TACTGAAT-AATTGATTGTTACTGAATAACTGACTGT
* * *
9420251 TACTGAATAATTGATTGATATTGAATAAATGACTGT
1 TACTGAATAATTGATTGTTACTGAATAACTGACTGT
* * *
9420287 TACTAAATAATTGATTATTACTG-ATGACTGACTGT
1 TACTGAATAATTGATTGTTACTGAATAACTGACTGT
9420322 TACTGAA
1 TACTGAA
9420329 CAATAAAGAT
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
35 25 0.27
36 66 0.71
37 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.35
Consensus pattern (36 bp):
TACTGAATAATTGATTGTTACTGAATAACTGACTGT
Found at i:9420254 original size:54 final size:54
Alignment explanation
Indices: 9420196--9420332 Score: 170
Period size: 54 Copynumber: 2.6 Consensus size: 54
9420186 AAATTGACCG
*
9420196 CTACTGAATAATTGACTGTTACTGAATCAATGACTGTTACTGAATAACTGACTA
1 CTACTGAATAATTGACTGTTACTGAATCAATGACTGTTACTAAATAACTGACTA
* * * * * *
9420250 CTACTGAATAATTGATTGATATTGAATAAATGACTGTTACTAAATAATTGATTA
1 CTACTGAATAATTGACTGTTACTGAATCAATGACTGTTACTAAATAACTGACTA
* * *
9420304 TTACTG-ATGACTGACTGTTACTGAA-CAAT
1 CTACTGAATAATTGACTGTTACTGAATCAAT
9420333 AAAGATCAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
52 3 0.04
53 14 0.20
54 52 0.75
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (54 bp):
CTACTGAATAATTGACTGTTACTGAATCAATGACTGTTACTAAATAACTGACTA
Found at i:9420307 original size:18 final size:18
Alignment explanation
Indices: 9420197--9420328 Score: 108
Period size: 18 Copynumber: 7.4 Consensus size: 18
9420187 AATTGACCGC
*
9420197 TACTGAATAATTGACTGT
1 TACTGAATAATTGACTAT
*
9420215 TACTGAATCAA-TGACTGT
1 TACTGAAT-AATTGACTAT
* *
9420233 TACTGAATAACTGACTAC
1 TACTGAATAATTGACTAT
*
9420251 TACTGAATAATTGATTGA-
1 TACTGAATAATTGACT-AT
* * *
9420269 TATTGAATAAATGACTGT
1 TACTGAATAATTGACTAT
* *
9420287 TACTAAATAATTGATTAT
1 TACTGAATAATTGACTAT
* * *
9420305 TACTG-ATGACTGACTGT
1 TACTGAATAATTGACTAT
9420322 TACTGAA
1 TACTGAA
9420329 CAATAAAGAT
Statistics
Matches: 91, Mismatches: 18, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
17 15 0.16
18 73 0.80
19 3 0.03
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (18 bp):
TACTGAATAATTGACTAT
Found at i:9421642 original size:23 final size:21
Alignment explanation
Indices: 9421615--9421677 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
9421605 GGCTTTGCCG
* *
9421615 ATCAGGCACTTTATGTGTCATAT
1 ATCAGGCACCTCATGTGTC--AT
* *
9421638 ATCAGACACCTCGTGTGTCAT
1 ATCAGGCACCTCATGTGTCAT
*
9421659 ATCAGGCACCTCGTGTGTC
1 ATCAGGCACCTCATGTGTC
9421678 GCTTCAGGCA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 20 0.57
23 15 0.43
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (21 bp):
ATCAGGCACCTCATGTGTCAT
Found at i:9421688 original size:21 final size:21
Alignment explanation
Indices: 9421636--9421677 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
9421626 TATGTGTCAT
*
9421636 ATATCAGACACCTCGTGTGTC
1 ATATCAGGCACCTCGTGTGTC
9421657 ATATCAGGCACCTCGTGTGTC
1 ATATCAGGCACCTCGTGTGTC
9421678 GCTTCAGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (21 bp):
ATATCAGGCACCTCGTGTGTC
Found at i:9422919 original size:30 final size:30
Alignment explanation
Indices: 9422883--9422941 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
9422873 CACGGCCATG
9422883 ACACACGGGCGTGTAGCCTACCCGTGTGAT
1 ACACACGGGCGTGTAGCCTACCCGTGTGAT
* **
9422913 ACACACGGGCGTGTGGTTTACCCGTGTGA
1 ACACACGGGCGTGTAGCCTACCCGTGTGA
9422942 AAATGTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.27, G:0.32, T:0.22
Consensus pattern (30 bp):
ACACACGGGCGTGTAGCCTACCCGTGTGAT
Found at i:9426055 original size:10 final size:10
Alignment explanation
Indices: 9426040--9426075 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
9426030 CCAACCATAA
9426040 TTAAAAATTC
1 TTAAAAATTC
9426050 TTAAAAATTC
1 TTAAAAATTC
*
9426060 TT-AAAATTT
1 TTAAAAATTC
9426069 TTAAAAA
1 TTAAAAA
9426076 AAGTAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (10 bp):
TTAAAAATTC
Found at i:9426993 original size:20 final size:22
Alignment explanation
Indices: 9426970--9427019 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
9426960 TAATAATTTT
*
9426970 AATAATTTTT-TAA-TTTTAAA
1 AATAATTTTTAAAATTTTTAAA
*
9426990 AATAGTTTTTAAAATTTTTAAA
1 AATAATTTTTAAAATTTTTAAA
9427012 AATCAATT
1 AAT-AATT
9427020 AAATGTCAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 9 0.38
21 2 0.08
22 10 0.42
23 3 0.12
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
AATAATTTTTAAAATTTTTAAA
Found at i:9432761 original size:40 final size:40
Alignment explanation
Indices: 9432616--9432936 Score: 333
Period size: 41 Copynumber: 7.9 Consensus size: 40
9432606 CGTTTGTCCG
* * * * *
9432616 AAACGCCACTAAAAACTAAACTATAGCGGCGTTTTTGGCAA
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTT-CCCA
* * * *
9432657 AAACGCTACTAAAAATTGGTCAATAGCGGCGTTTTTGGCCA
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTT-CCCA
* * *
9432698 AAACGCCACTAAAAACTGGTCAATAACGGTGTTTTTCGCC-
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTC-CCA
* * * *
9432738 AAACGCCACTAAAAGCTTATCAATAGCAGCGTTTAATCCC-
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTT-TTCCCA
*
9432778 AAACGCCACTAAAAACTGATCAATTGCGGCGTTTTTATCCC-
1 AAACGCCACTAAAAACTGATCAATAGCGGCG-TTTT-TCCCA
* *
9432819 AAACGCCACTAAAAACTGATCAATTGTGGCGTTTTTCTCCA
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTC-CCA
* * * *
9432860 AAACGCCATTAAAAACTGATCAATTGTGGCGTTTTTATCCA
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTT-CCCA
*
9432901 AAACGCCACTAAACACTGATCAATAGCGGCGTTTTT
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTT
9432937 GGTCTAAATG
Statistics
Matches: 242, Mismatches: 31, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.01
40 63 0.26
41 177 0.73
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (40 bp):
AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTCCCA
Found at i:9433277 original size:21 final size:21
Alignment explanation
Indices: 9433238--9433300 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
9433228 TGGCTTTCTG
* *
9433238 TAAACCCTTAAATCTTAAACAT
1 TAAACCC-TAAACCATAAACAT
* **
9433260 TAAACCCTAAACCCTAAATTT
1 TAAACCCTAAACCATAAACAT
* *
9433281 TAAAACATAAACCATAAACA
1 TAAACCCTAAACCATAAACA
9433301 CTAATCCATA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
21 25 0.78
22 7 0.22
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACCCTAAACCATAAACAT
Found at i:9433283 original size:28 final size:28
Alignment explanation
Indices: 9433238--9433304 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
9433228 TGGCTTTCTG
*
9433238 TAAACCCTTAAATCTT-AAACATTAAACCC
1 TAAACCC-TAAATCTTAAAACA-TAAACCA
*
9433267 TAAACCCTAAATTTTAAAACATAAACCA
1 TAAACCCTAAATCTTAAAACATAAACCA
*
9433295 TAAACACTAA
1 TAAACCCTAA
9433305 TCCATAAACT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 22 0.65
29 12 0.35
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (28 bp):
TAAACCCTAAATCTTAAAACATAAACCA
Found at i:9433548 original size:41 final size:43
Alignment explanation
Indices: 9433492--9433573 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 43
9433482 GTTTAGGGTA
* *
9433492 CAATGGTAGAATATAT-T-TTAAGTTTATGGTTTAGGCCGGTT
1 CAATGGTAGAATATATATATTAAGTTAATGGTATAGGCCGGTT
* * *
9433533 CAATGGTATAGTATATATATTAAGTTAATGGTATGGGCCGG
1 CAATGGTAGAATATATATATTAAGTTAATGGTATAGGCCGG
9433574 GTTTGTTATC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 14 0.41
42 1 0.03
43 19 0.56
ACGTcount: A:0.29, C:0.07, G:0.26, T:0.38
Consensus pattern (43 bp):
CAATGGTAGAATATATATATTAAGTTAATGGTATAGGCCGGTT
Found at i:9433853 original size:13 final size:13
Alignment explanation
Indices: 9433835--9433873 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
9433825 AGATAATTTA
9433835 AAATACTTTAATT
1 AAATACTTTAATT
9433848 AAATACTTTAATT
1 AAATACTTTAATT
*
9433861 AAGTACTTTAATT
1 AAATACTTTAATT
9433874 TTAAGATGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (13 bp):
AAATACTTTAATT
Found at i:9434441 original size:2 final size:2
Alignment explanation
Indices: 9434434--9434459 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9434424 ATGGTTTTGA
9434434 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9434460 TTTATTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9434796 original size:41 final size:39
Alignment explanation
Indices: 9434734--9434844 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 39
9434724 GTGTAGAGGC
* *
9434734 ATTAGCGGCGTTTTTACAAAAACGCCACTAAAAA-TAGAGA
1 ATTAGCGACGCTTTTA-AAAAACGCCACTAAAAACT-GAGA
* * *
9434774 ATTAGTGGCGCTTTCGTAAAAAACGCCGC-AAAAACTGAGA
1 ATTAGCGACGCTTT--TAAAAAACGCCACTAAAAACTGAGA
* *
9434814 ATTAGCGACGCTTTTATAAAACACCACTAAA
1 ATTAGCGACGCTTTTAAAAAACGCCACTAAA
9434845 TGTTTAATTG
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
38 10 0.17
39 3 0.05
40 33 0.56
41 11 0.19
42 2 0.03
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.23
Consensus pattern (39 bp):
ATTAGCGACGCTTTTAAAAAACGCCACTAAAAACTGAGA
Found at i:9436614 original size:25 final size:25
Alignment explanation
Indices: 9436585--9436632 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
9436575 TTATAATATG
* * *
9436585 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
9436610 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
9436633 GTTTATACAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:9436703 original size:9 final size:9
Alignment explanation
Indices: 9436671--9436747 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
9436661 TTTGATAAAC
9436671 ATGATATGT
1 ATGATATGT
* *
9436680 ATGGTATGCAC
1 ATGATATG--T
9436691 ATGATATGT
1 ATGATATGT
*
9436700 ATGATATGCAC
1 ATGATATG--T
*
9436711 ATGACATGT
1 ATGATATGT
*
9436720 ATGATATGCAC
1 ATGATATG--T
9436731 ATGATATGT
1 ATGATATGT
9436740 ATGATATG
1 ATGATATG
9436748 CACACGAGAT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:9436759 original size:20 final size:20
Alignment explanation
Indices: 9436669--9436751 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
9436659 ATTTTGATAA
*
9436669 ACATGATATGTATGGTATGC
1 ACATGATATGTATGATATGC
9436689 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
9436709 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
9436729 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
9436749 ACA
1 ACA
9436752 CGAGATGTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:9436896 original size:47 final size:48
Alignment explanation
Indices: 9436806--9436922 Score: 161
Period size: 48 Copynumber: 2.5 Consensus size: 48
9436796 AGGAAGTGCA
9436806 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGAT
*
9436854 AAAGGGCTTATGCCCCAGTT-TTAAAAGGGCTT-TGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATGAT
*
9436900 AAAGAGGC-TAGGCCTCCAGTTAT
1 AAAG-GGCTTATGCC-CCAGTTAT
9436923 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
46 9 0.14
47 24 0.38
48 30 0.48
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (48 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGAT
Found at i:9436902 original size:23 final size:24
Alignment explanation
Indices: 9436805--9436922 Score: 163
Period size: 23 Copynumber: 5.0 Consensus size: 24
9436795 GAGGAAGTGC
9436805 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
9436829 -AAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATT
9436852 ATAAAGGGCTTATGCCCCAGTT-TT
1 A-AAAGGGCTTATGCCCCAGTTATT
9436876 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
9436899 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
9436923 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 3, Indels: 11
0.86 0.03 0.11
Matches are distributed among these distances:
22 10 0.12
23 39 0.46
24 8 0.09
25 28 0.33
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:9437147 original size:31 final size:31
Alignment explanation
Indices: 9437112--9437192 Score: 119
Period size: 31 Copynumber: 2.6 Consensus size: 31
9437102 CGTTTACAGT
9437112 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
9437143 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
9437174 AAAGGGCTAT-GGCCCAGTA
1 AAA-GGCT-TCGGCCCAGTA
9437193 CATGTTGAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
31 32 0.71
32 12 0.27
33 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:9444718 original size:25 final size:25
Alignment explanation
Indices: 9444689--9444736 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
9444679 TTATAATATG
* *
9444689 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
9444714 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
9444737 GTTTATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:9444787 original size:9 final size:9
Alignment explanation
Indices: 9444775--9444831 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
9444765 TTTGATAAAC
9444775 ATGATATGT
1 ATGATATGT
*
9444784 ATGATATGCAC
1 ATGATATG--T
*
9444795 ATGACATGT
1 ATGATATGT
*
9444804 ATGATATGCAC
1 ATGATATG--T
9444815 ATGATATGT
1 ATGATATGT
9444824 ATGATATG
1 ATGATATG
9444832 CACACGAGAT
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:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:9444798 original size:20 final size:20
Alignment explanation
Indices: 9444773--9444835 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
9444763 ATTTTGATAA
9444773 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
9444793 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
9444813 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
9444833 ACA
1 ACA
9444836 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:9445010 original size:23 final size:24
Alignment explanation
Indices: 9444889--9445030 Score: 202
Period size: 23 Copynumber: 6.0 Consensus size: 24
9444879 GAGGAAGTGC
9444889 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
9444913 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
9444936 -AAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATT
*
9444959 ATAAAGGGCTTATGCCCCAGTTGTT
1 A-AAAGGGCTTATGCCCCAGTTATT
9444984 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
9445007 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
9445031 ATGATAAAGC
Statistics
Matches: 108, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
23 63 0.58
24 15 0.14
25 30 0.28
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:9445027 original size:48 final size:48
Alignment explanation
Indices: 9444889--9445030 Score: 202
Period size: 48 Copynumber: 3.0 Consensus size: 48
9444879 GAGGAAGTGC
9444889 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
* *
9444936 -AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTGTT
1 AAAAGGGCTTATGCCCCAGTTATTA-AAAGGGCTTATGCCCCAGTTATT
*
9444984 AAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTATGCC-CCAGTTAT
9445031 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
46 22 0.26
47 9 0.11
48 45 0.53
49 9 0.11
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:9445281 original size:31 final size:31
Alignment explanation
Indices: 9445225--9445304 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
9445215 CGTTTACAGT
9445225 AAAGGCTTCGGCCCA-TAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
9445255 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
9445286 AAAGGGCTAT-GGCCCAGTA
1 AAA-GGCT-TCGGCCCAGTA
9445305 CATGTTGAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 15 0.34
31 16 0.36
32 12 0.27
33 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:9448871 original size:33 final size:33
Alignment explanation
Indices: 9448829--9448910 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 33
9448819 TTAGAATTAA
* *
9448829 TGTTTTTGGTTGTATTTTTTATGTTAAATTTGC
1 TGTTTTTGGTTGCATTTTTTATATTAAATTTGC
* *
9448862 TGTTTTTGGTTGCA--TTTTATATTATATTTGT
1 TGTTTTTGGTTGCATTTTTTATATTAAATTTGC
* *
9448893 TGTATTTGGTTGGATTTT
1 TGTTTTTGGTTGCATTTT
9448911 AATGCAGGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
31 26 0.63
33 15 0.37
ACGTcount: A:0.15, C:0.02, G:0.20, T:0.63
Consensus pattern (33 bp):
TGTTTTTGGTTGCATTTTTTATATTAAATTTGC
Found at i:9449081 original size:42 final size:42
Alignment explanation
Indices: 9448989--9449137 Score: 262
Period size: 43 Copynumber: 3.5 Consensus size: 42
9448979 GAAAAAGCGT
*
9448989 CGCTAAAAGCCTTGACCTTTAGCGACGCTTCTCCCACAAACGC
1 CGCTAAAAGCCTTGACCTTTAGCGGCGCTTCT-CCACAAACGC
9449032 CGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCACAAACGC
1 CGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCACAAACGC
9449074 CGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTTCCACAAACGC
1 CGCTAAAAGCCTTGACCTTTAGCGGCGCTTC-TCCACAAACGC
*
9449117 CGCTAAAAGCCTTGACTTTTA
1 CGCTAAAAGCCTTGACCTTTA
9449138 ACGGAGTTTT
Statistics
Matches: 103, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
42 41 0.40
43 62 0.60
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.23
Consensus pattern (42 bp):
CGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCACAAACGC
Found at i:9450601 original size:17 final size:17
Alignment explanation
Indices: 9450579--9450640 Score: 79
Period size: 17 Copynumber: 3.5 Consensus size: 17
9450569 CCTGGGTAGT
9450579 AGAAGAAGAAGAGAAAA
1 AGAAGAAGAAGAGAAAA
*
9450596 AGAAGAATAAGAGAAAAA
1 AGAAGAAGAAGAG-AAAA
* *
9450614 ATGGAGAAGAAGAGGAAA
1 A-GAAGAAGAAGAGAAAA
9450632 AGAAGAAGA
1 AGAAGAAGA
9450641 GAAAATGGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
17 19 0.50
18 9 0.24
19 10 0.26
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (17 bp):
AGAAGAAGAAGAGAAAA
Found at i:9458041 original size:18 final size:18
Alignment explanation
Indices: 9458018--9458052 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9458008 ATGTTTTGAG
9458018 TTTAAATATT-TTAAAATT
1 TTTAAAT-TTATTAAAATT
9458036 TTTAAATTTATTAAAAT
1 TTTAAATTTATTAAAAT
9458053 ATAAAAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTAAATTTATTAAAATT
Found at i:9461111 original size:66 final size:69
Alignment explanation
Indices: 9461041--9461171 Score: 169
Period size: 69 Copynumber: 1.9 Consensus size: 69
9461031 ATAGACAATA
* ** * *
9461041 TAATGATTTTGACTTTTAAC-TT-AATGA-GTAAACATTTATCAAAATAATGTAGTTTTGCCTTT
1 TAATGATTTTGACTTTCAACTTTAAAAAAGGTAAACATTTATCAAAACAATGTAATTTTGCCTTT
9461103 AATT
66 AATT
* * *
9461107 TAATGGTTTTGACTTTCAACTTTAAAAAAGGTAAACATTTATCAAAACGATGTAATTTTGTCTTT
1 TAATGATTTTGACTTTCAACTTTAAAAAAGGTAAACATTTATCAAAACAATGTAATTTTGCCTTT
9461172 TCTTATTCTG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
66 18 0.33
67 2 0.04
68 3 0.06
69 31 0.57
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (69 bp):
TAATGATTTTGACTTTCAACTTTAAAAAAGGTAAACATTTATCAAAACAATGTAATTTTGCCTTT
AATT
Found at i:9466763 original size:17 final size:17
Alignment explanation
Indices: 9466741--9466775 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
9466731 TTTTTAAGTC
9466741 GGTTATTGTTCTAACAT
1 GGTTATTGTTCTAACAT
9466758 GGTTATTGTTCTAACAT
1 GGTTATTGTTCTAACAT
9466775 G
1 G
9466776 AAGTCATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.46
Consensus pattern (17 bp):
GGTTATTGTTCTAACAT
Found at i:9474694 original size:16 final size:16
Alignment explanation
Indices: 9474673--9474704 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9474663 GTGACCATGC
9474673 GATAAAATATGATTGT
1 GATAAAATATGATTGT
9474689 GATAAAATATGATTGT
1 GATAAAATATGATTGT
9474705 ATTGAGTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (16 bp):
GATAAAATATGATTGT
Found at i:9475259 original size:13 final size:13
Alignment explanation
Indices: 9475241--9475265 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9475231 CATAATGGGT
9475241 AATTAAACTTGAA
1 AATTAAACTTGAA
9475254 AATTAAACTTGA
1 AATTAAACTTGA
9475266 GAATGAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (13 bp):
AATTAAACTTGAA
Found at i:9476671 original size:19 final size:19
Alignment explanation
Indices: 9476639--9476692 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
9476629 TTATGCGCTT
9476639 ATGCACCAAGATGCACTTC
1 ATGCACCAAGATGCACTTC
* *
9476658 ATGTACCAATATGCACTTC
1 ATGCACCAAGATGCACTTC
*
9476677 GTGCACCAAGATGCAC
1 ATGCACCAAGATGCAC
9476693 ATTGTGTGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (19 bp):
ATGCACCAAGATGCACTTC
Found at i:9476704 original size:19 final size:20
Alignment explanation
Indices: 9476682--9476753 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 20
9476672 ACTTCGTGCA
9476682 CCAAG-ATGCACATTGTGTG
1 CCAAGAATGCACATTGTGTG
*
9476701 CCAAGAATGTAC-TTCGTGTG
1 CCAAGAATGCACATT-GTGTG
* * *
9476721 -CTAGTATGCACTTTGTGTG
1 CCAAGAATGCACATTGTGTG
*
9476740 CCAA-TATGCACATT
1 CCAAGAATGCACATT
9476754 ACGTGACAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 29 0.67
20 14 0.33
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (20 bp):
CCAAGAATGCACATTGTGTG
Found at i:9488727 original size:24 final size:24
Alignment explanation
Indices: 9488692--9488740 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
9488682 CATTAAATTA
*
9488692 TTAGTAAGTTTATATTTTGGTCAT
1 TTAGTAAATTTATATTTTGGTCAT
9488716 TTAGTAAATTTATATTTTGGTCAT
1 TTAGTAAATTTATATTTTGGTCAT
9488740 T
1 T
9488741 CCACTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.04, G:0.14, T:0.55
Consensus pattern (24 bp):
TTAGTAAATTTATATTTTGGTCAT
Found at i:9497393 original size:20 final size:20
Alignment explanation
Indices: 9497351--9497394 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
9497341 AGAGTTTTTG
* *
9497351 AAAATTTTAGTTATACCCTT
1 AAAATTTTAATTATACCCCT
9497371 AAAATTTTAATTA-ACCTCCT
1 AAAATTTTAATTATACC-CCT
9497391 AAAA
1 AAAA
9497395 AAATTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAATTTTAATTATACCCCT
Found at i:9501899 original size:7 final size:7
Alignment explanation
Indices: 9501879--9501964 Score: 55
Period size: 6 Copynumber: 13.1 Consensus size: 7
9501869 CAAATTCTAT
9501879 TCAAT-A
1 TCAATAA
9501885 TCAATAA
1 TCAATAA
*
9501892 TCACTAA
1 TCAATAA
*
9501899 TAAATAAA
1 TCAAT-AA
*
9501907 T-ATTCAA
1 TCAAT-AA
9501914 TTCAATAA
1 -TCAATAA
9501922 T-AATAA
1 TCAATAA
9501928 T-AATAA
1 TCAATAA
9501934 T-AATAA
1 TCAATAA
9501940 T-AATAA
1 TCAATAA
9501946 T-AATAA
1 TCAATAA
9501952 T-AATAA
1 TCAATAA
9501958 T-AATAA
1 TCAATAA
9501964 T
1 T
9501965 ACTTACCATT
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
6 47 0.67
7 15 0.21
8 6 0.09
9 2 0.03
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (7 bp):
TCAATAA
Found at i:9501925 original size:3 final size:3
Alignment explanation
Indices: 9501917--9501965 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
9501907 TATTCAATTC
9501917 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9501965 A
1 A
9501966 CTTACCATTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9502635 original size:16 final size:15
Alignment explanation
Indices: 9502614--9502652 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
9502604 CTTTTTCTCC
*
9502614 TTCTTTCTCCTGTGT
1 TTCTTTCTCCTCTGT
*
9502629 TTCCTTTCTTCTCTGT
1 TT-CTTTCTCCTCTGT
9502645 TTCTTTCT
1 TTCTTTCT
9502653 ATTCTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.64
Consensus pattern (15 bp):
TTCTTTCTCCTCTGT
Found at i:9502652 original size:15 final size:15
Alignment explanation
Indices: 9502614--9502669 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
9502604 CTTTTTCTCC
* *
9502614 TTCTTTCTCCTGTGT
1 TTCTTTCTTCTCTGT
9502629 TTCCTTTCTTCTCTGT
1 TT-CTTTCTTCTCTGT
*
9502645 TTCTTTCTAT-TCTTT
1 TTCTTTCT-TCTCTGT
9502660 TTCTTT-TTCT
1 TTCTTTCTTCT
9502670 TTTACTTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
13 1 0.03
14 2 0.06
15 18 0.51
16 14 0.40
ACGTcount: A:0.02, C:0.25, G:0.05, T:0.68
Consensus pattern (15 bp):
TTCTTTCTTCTCTGT
Found at i:9502740 original size:3 final size:3
Alignment explanation
Indices: 9502692--9502728 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
9502682 TGTTTTATAT
9502692 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9502729 CTTATATAAT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9502884 original size:18 final size:19
Alignment explanation
Indices: 9502845--9502889 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
9502835 TAAAAATCTT
*
9502845 ATAATATAATTATTTAATTA
1 ATAA-ATAATTATTTAAATA
9502865 ATAAATAATT-TTTAAATA
1 ATAAATAATTATTTAAATA
9502883 ATAAATA
1 ATAAATA
9502890 TATATTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 14 0.58
19 6 0.25
20 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAAATAATTATTTAAATA
Found at i:9502897 original size:18 final size:17
Alignment explanation
Indices: 9502845--9502897 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
9502835 TAAAAATCTT
9502845 ATAATATAAT-TATTTAA
1 ATAATA-AATATATTTAA
* *
9502862 TTAATAAATAATTTTTAA
1 ATAATAAAT-ATATTTAA
9502880 ATAATAAATATATATTAA
1 ATAATAAATATAT-TTAA
9502898 TACTTAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
16 3 0.10
17 8 0.28
18 18 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATAATAAATATATTTAA
Found at i:9515980 original size:21 final size:21
Alignment explanation
Indices: 9515954--9516008 Score: 80
Period size: 18 Copynumber: 2.8 Consensus size: 21
9515944 GGATGATGCA
9515954 ACATTCAAGGAGGAAGTCGCG
1 ACATTCAAGGAGGAAGTCGCG
9515975 ACATTC---GAGGAAGTCGCG
1 ACATTCAAGGAGGAAGTCGCG
*
9515993 ATATTCAAGGAGGAAG
1 ACATTCAAGGAGGAAG
9516009 AACTAATGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 17 0.57
21 13 0.43
ACGTcount: A:0.35, C:0.16, G:0.33, T:0.16
Consensus pattern (21 bp):
ACATTCAAGGAGGAAGTCGCG
Found at i:9521229 original size:43 final size:43
Alignment explanation
Indices: 9521182--9521332 Score: 135
Period size: 43 Copynumber: 3.5 Consensus size: 43
9521172 TCGAGATGTG
* *
9521182 ATTACATGTAAGACCATGTCTGGAACATTGGCATTGTATTGAA
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGAA
* * * * *
9521225 ATTACGTGTAAGACTATTTCTGGGGCATTGGCATCATATT-ATA
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA-A
* * * * *
9521268 ATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATGTA
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGAA
* * *
9521311 TTTACATGTAATACCATATCTG
1 ATTACATGTAAGACCATGTCTG
9521333 AGATATGGCA
Statistics
Matches: 84, Mismatches: 21, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
42 3 0.04
43 81 0.96
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (43 bp):
ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGAA
Found at i:9525445 original size:39 final size:39
Alignment explanation
Indices: 9525390--9525517 Score: 188
Period size: 39 Copynumber: 3.3 Consensus size: 39
9525380 GGACTAAGAT
* *
9525390 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGTTAAGTC
*
9525429 CCGAAGGCATTTGTGCGAGTTACTAAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCGGGTTAAGTC
*
9525468 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCGGGTTAAGTC
9525507 CCGAAGGCATT
1 CCGAAGGCATT
9525518 TGAGCTAGTC
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
38 10 0.12
39 63 0.77
40 9 0.11
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCGGGTTAAGTC
Found at i:9525550 original size:78 final size:78
Alignment explanation
Indices: 9525389--9525552 Score: 181
Period size: 78 Copynumber: 2.1 Consensus size: 78
9525379 CGGACTAAGA
* * *
9525389 TCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
*
9525454 AACCGGGTTAAGT
66 AACCGGGTTAAAT
* * * * **
9525467 CCCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGTT-TGTCCCGAAGGCATTTGAGCTAGTCGT
1 TCCGAAGGCATTCGTGCGAGTTAATA-AATCCGGGTTAAG-CCCGAAGGCATTTGAGCGAGTCAC
*
9525530 TATATCC-GGTTAAAT
64 TA-AACCGGGTTAAAT
9525545 TCCGAAGG
1 TCCGAAGG
9525553 TACGTGATTC
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
77 1 0.01
78 65 0.92
79 5 0.07
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (78 bp):
TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
AACCGGGTTAAAT
Found at i:9533442 original size:40 final size:39
Alignment explanation
Indices: 9533406--9533512 Score: 142
Period size: 39 Copynumber: 2.7 Consensus size: 39
9533396 ATATCCGGAC
* *
9533406 TAAGATCCGAAGGCGTTCGTACGAGTTAATAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
* * * *
9533446 TAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
9533485 TAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
9533513 CTATAACCGG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 33 0.57
40 25 0.43
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
Found at i:9533513 original size:40 final size:40
Alignment explanation
Indices: 9533412--9533541 Score: 165
Period size: 40 Copynumber: 3.3 Consensus size: 40
9533402 GGACTAAGAT
* * * *
9533412 CCGAAGGCGTTCGTACGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
*
9533451 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
9533491 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
*
9533531 CCGAATGCATT
1 CCGAAGGCATT
9533542 TGAGCTAGTC
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 33 0.41
40 38 0.47
41 9 0.11
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:9537108 original size:9 final size:9
Alignment explanation
Indices: 9537094--9537143 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
9537084 GTAAGTATAA
9537094 AATTAACCG
1 AATTAACCG
* *
9537103 AATTAATCA
1 AATTAACCG
9537112 AATTAACCG
1 AATTAACCG
*
9537121 AATTACCCG
1 AATTAACCG
*
9537130 AATTAACTG
1 AATTAACCG
9537139 AATTA
1 AATTA
9537144 TTTGTATTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:9537174 original size:6 final size:6
Alignment explanation
Indices: 9537163--9537203 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
9537153 AATTATATGT
9537163 TTTTTA TTTTTA TTTTTA TTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
9537204 ATTAAATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:9537191 original size:14 final size:13
Alignment explanation
Indices: 9537163--9537200 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
9537153 AATTATATGT
9537163 TTTTTATTTTT-A
1 TTTTTATTTTTAA
9537175 TTTTTATTTTTAGA
1 TTTTTATTTTTA-A
9537189 TTTTTATTTTTA
1 TTTTTATTTTTA
9537201 TTTATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.46
14 13 0.54
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTTATTTTTAA
Found at i:9538058 original size:12 final size:12
Alignment explanation
Indices: 9538037--9538066 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9538027 GAGATCAATG
9538037 TGATTCGAACCC
1 TGATTCGAACCC
*
9538049 TGATTTGAACCC
1 TGATTCGAACCC
9538061 TGATTC
1 TGATTC
9538067 AGAATTTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (12 bp):
TGATTCGAACCC
Found at i:9543418 original size:27 final size:25
Alignment explanation
Indices: 9543369--9543432 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
9543359 CCTCTTCCCA
9543369 TCCCTCTCTCTTTCCCTTTCTTTCT
1 TCCCTCTCTCTTTCCCTTTCTTTCT
9543394 TCCCTCTC-CTTT--CTTCTCTTTCTT
1 TCCCTCTCTCTTTCCCTT-TCTTTC-T
* *
9543418 TCCCTTTCTTTTTCC
1 TCCCTCTCTCTTTCC
9543433 GCTTCCACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
22 3 0.09
23 6 0.19
24 12 0.38
25 11 0.34
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (25 bp):
TCCCTCTCTCTTTCCCTTTCTTTCT
Found at i:9543428 original size:14 final size:13
Alignment explanation
Indices: 9543380--9543419 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
9543370 CCCTCTCTCT
9543380 TTCCCTTTCTTTC
1 TTCCCTTTCTTTC
*
9543393 TTCCCTCTCCTTTC
1 TTCCCT-TTCTTTC
*
9543407 TTCTCTTTCTTTC
1 TTCCCTTTCTTTC
9543420 CCTTTCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (13 bp):
TTCCCTTTCTTTC
Found at i:9543551 original size:7 final size:7
Alignment explanation
Indices: 9543539--9543566 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
9543529 GCTTCAACCT
9543539 ACCACCA
1 ACCACCA
9543546 ACCACCA
1 ACCACCA
9543553 ACCACCA
1 ACCACCA
9543560 ACCACCA
1 ACCACCA
9543567 TCGATTCTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.57, G:0.00, T:0.00
Consensus pattern (7 bp):
ACCACCA
Found at i:9548905 original size:47 final size:47
Alignment explanation
Indices: 9548851--9548947 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
9548841 GCATTAGTGA
9548851 AAGTCTTATGGCATCTACACGGGGTTGAAGAAGCTACTTTGGAAACT
1 AAGTCTTATGGCATCTACACGGGGTTGAAGAAGCTACTTTGGAAACT
9548898 AAGTCTTATGGCATCTACACGGGGTTGAAGAAGCTACTTTGGAAACT
1 AAGTCTTATGGCATCTACACGGGGTTGAAGAAGCTACTTTGGAAACT
9548945 AAG
1 AAG
9548948 GATGCTATGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (47 bp):
AAGTCTTATGGCATCTACACGGGGTTGAAGAAGCTACTTTGGAAACT
Found at i:9550398 original size:43 final size:41
Alignment explanation
Indices: 9550245--9550406 Score: 119
Period size: 43 Copynumber: 3.8 Consensus size: 41
9550235 TCGAGATGTG
* * ** *
9550245 ATTACATGTAAGACCATGTATAGGACATTGGAATTGTATTGAG
1 ATTACATGTAAGACCATGTATGGGACA-TGGCATCATATT-AT
** * *
9550288 ATTATGTGTAAGACTATGTCTGGGACATTGGCATCATATTAT
1 ATTACATGTAAGACCATGTATGGGACA-TGGCATCATATTAT
* * * *
9550330 AATTTCGTGTAAGACCCTGTTTGGGACAGTGGCATCGATATGTAT
1 -ATTACATGTAAGACCATGTATGGGACA-TGGCATC-ATAT-TAT
* *
9550375 -TTACATGTAAGACCATATATGGGATATGGCAT
1 ATTACATGTAAGACCATGTATGGGACATGGCAT
9550407 TGTACGGGTT
Statistics
Matches: 95, Mismatches: 21, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 7 0.07
43 81 0.85
44 4 0.04
45 3 0.03
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.34
Consensus pattern (41 bp):
ATTACATGTAAGACCATGTATGGGACATGGCATCATATTAT
Found at i:9555253 original size:12 final size:12
Alignment explanation
Indices: 9555223--9555255 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
9555213 AATATATTTT
9555223 AAAATT-ATATA
1 AAAATTAATATA
9555234 AAAA-TAATATA
1 AAAATTAATATA
9555245 AAAATTAATAT
1 AAAATTAATAT
9555256 GGACGAGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:9555560 original size:6 final size:6
Alignment explanation
Indices: 9555542--9555577 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
9555532 GCAAATGGGT
*
9555542 CATTTC TCATTTC CATTTC CATTTC CATTTT CATTT
1 CATTTC -CATTTC CATTTC CATTTC CATTTC CATTT
9555578 TTTGAGAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (6 bp):
CATTTC
Found at i:9556119 original size:49 final size:52
Alignment explanation
Indices: 9556065--9556174 Score: 129
Period size: 56 Copynumber: 2.1 Consensus size: 52
9556055 GAACTTCACA
9556065 AGTGAATAGA-TC-C-ATTCTACTT-AGGTCTAGTCTGATGTACTGTCAGCCT
1 AGTGAATAGATTCACTATTCTACTTGA-GTCTAGTCTGATGTACTGTCAGCCT
* *
9556114 AGTGAATAGATTCAGGATCTATTCTACTTGAGTCTAGTCTGATGTACTGTCTGTCT
1 AGTGAATAGATTC---A-CTATTCTACTTGAGTCTAGTCTGATGTACTGTCAGCCT
9556170 AGTGA
1 AGTGA
9556175 GTCATGTAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
49 10 0.20
50 2 0.04
55 1 0.02
56 37 0.73
57 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (52 bp):
AGTGAATAGATTCACTATTCTACTTGAGTCTAGTCTGATGTACTGTCAGCCT
Found at i:9558816 original size:26 final size:26
Alignment explanation
Indices: 9558785--9558891 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
9558775 TGAAATGCCC
*
9558785 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
9558811 ATCATGGAACA-TTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
9558836 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
9558862 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9558888 ATCA
1 ATCA
9558892 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:9558855 original size:51 final size:52
Alignment explanation
Indices: 9558785--9558891 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
9558775 TGAAATGCCC
9558785 ATCATGGAACATTTACCTAAACCATTATCATGGAACA-TTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
9558836 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
9558888 ATCA
1 ATCA
9558892 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 35 0.66
52 18 0.34
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:9560356 original size:90 final size:90
Alignment explanation
Indices: 9560203--9560388 Score: 345
Period size: 90 Copynumber: 2.1 Consensus size: 90
9560193 AGGGTAAAAA
* *
9560203 TGTGAAATACATGAAACATATGGGCTTATATGGACTAGGGGTAAATTCGGCCTAACATGGGTGTA
1 TGTGAAATAAATGAAACATATGGGCTTATATGGACTAGGGGTAAATTCGGCCAAACATGGGTGTA
9560268 TTCAAATTTTGAATATTTTGTGTTT
66 TTCAAATTTTGAATATTTTGTGTTT
*
9560293 TGTGAAATAAATGAAACATATGGGCTTGTATGGACTAGGGGTAAATTCGGCCAAACATGGGTGTA
1 TGTGAAATAAATGAAACATATGGGCTTATATGGACTAGGGGTAAATTCGGCCAAACATGGGTGTA
9560358 TTCAAATTTTGAATATTTTGTGTTT
66 TTCAAATTTTGAATATTTTGTGTTT
9560383 TGTGAA
1 TGTGAA
9560389 TTAGGGACTA
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 93 1.00
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (90 bp):
TGTGAAATAAATGAAACATATGGGCTTATATGGACTAGGGGTAAATTCGGCCAAACATGGGTGTA
TTCAAATTTTGAATATTTTGTGTTT
Found at i:9562147 original size:25 final size:24
Alignment explanation
Indices: 9562114--9562161 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
9562104 TAAAATCACC
9562114 TTTTATATATCATATTTT-TTTAAAA
1 TTTTATATA--ATATTTTATTTAAAA
*
9562139 TTTTGTATAATATTTTATTTAAA
1 TTTTATATAATATTTTATTTAAA
9562162 TTACTCATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
24 6 0.29
25 8 0.38
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTTATATAATATTTTATTTAAAA
Found at i:9562615 original size:2 final size:2
Alignment explanation
Indices: 9562566--9562595 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9562556 ACATCCATAA
9562566 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9562596 CCTTAGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9564658 original size:28 final size:29
Alignment explanation
Indices: 9564606--9564673 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
9564596 TTCAAAATCA
*
9564606 ATGCATTT-CTTTCCATTGCATTCATCCC
1 ATGCATTTGCATTCCATTGCATTCATCCC
* **
9564634 ATGCATTTGCATTGCATTGCA-TCATTGC
1 ATGCATTTGCATTCCATTGCATTCATCCC
9564662 AT-CATTTGCATT
1 ATGCATTTGCATT
9564674 AGATTTTCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 10 0.29
28 15 0.43
29 10 0.29
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.43
Consensus pattern (29 bp):
ATGCATTTGCATTCCATTGCATTCATCCC
Found at i:9568979 original size:63 final size:61
Alignment explanation
Indices: 9568901--9569078 Score: 242
Period size: 55 Copynumber: 2.9 Consensus size: 61
9568891 TCATTCATAA
9568901 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTT-GATCAT-GCATCTAATTATTTGACATAAGCAT
9568964 CACATCTAGTTAGGAGCATTTGATTCA-TT--TCAT-C--CTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTGATCATGCATCTAATTATTTGACATAAGCAT
* * *
9569019 CACATCTAGTTAGGAGCATCTGATTCATTTTGATCATTGCATCCTAGTTATTTGGCATAA
1 CACATCTAGTTAGGAGCATTTGATTCA-TTTGATCA-TGCAT-CTAATTATTTGACATAA
9569079 ACATAGATAC
Statistics
Matches: 103, Mismatches: 3, Indels: 17
0.84 0.02 0.14
Matches are distributed among these distances:
55 47 0.46
57 3 0.03
59 7 0.07
60 1 0.01
61 1 0.01
62 2 0.02
63 27 0.26
64 15 0.15
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (61 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTGATCATGCATCTAATTATTTGACATAAGCAT
Found at i:9569244 original size:45 final size:44
Alignment explanation
Indices: 9569151--9569405 Score: 139
Period size: 45 Copynumber: 5.6 Consensus size: 44
9569141 GAATTCACAA
*
9569151 CTTATCTCCCTGAAGTTGCAGTAGAGCAACATTGAAATGATAGGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAACA-TGAAATGATAGGT
*
9569196 CTTATCTCCCTGAAGTTGCAGTGGAGTAGAC-T-AAA-GATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA-ACATGAAATGATAG-G--T
* * * * *
9569241 CTTATTTCCCTGAAGTTGCAGTGGAATAGGTTGAAGCTAT-AAATAAACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGG---A-G--CAA-C-ATGAAAT-GATAGGT
* * * * * * *
9569293 CTTATCTCTCTGAAGTTGCAGTAGAG-TAGATCATA-GCA-A-GC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAACATGAAATG-ATAGGT
*** * *
9569334 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTGACAGGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAACATGAAATGATAGGT
*
9569378 CTTATTTCCCTGAAGTTGCAGTGGAGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA
9569406 GACCAAAGAC
Statistics
Matches: 163, Mismatches: 26, Indels: 43
0.70 0.11 0.19
Matches are distributed among these distances:
41 24 0.15
42 10 0.06
43 9 0.06
44 31 0.19
45 51 0.31
46 2 0.01
48 2 0.01
49 2 0.01
50 1 0.01
51 2 0.01
52 22 0.13
53 4 0.02
55 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAACATGAAATGATAGGT
Found at i:9569358 original size:93 final size:95
Alignment explanation
Indices: 9569195--9569369 Score: 239
Period size: 93 Copynumber: 1.8 Consensus size: 95
9569185 AAATGATAGG
* * * *
9569195 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAAGATAGCGAATCTTATTTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTAGAGTAGACT--ACATAGCGAACCTTATCTCCCTGAAGTTGC
*
9569260 AGTGGAATAGGTTGAAGCTATAAATAAACAGA
64 AGTGGAACAGGTTGAAGCTATAAATAAACAGA
*
9569292 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-T-CATAGC-AAGCCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGTAGACTACATAGCGAA-CCTTATCTCCCTGAAGTTGCA
*
9569354 GTGGAGCAGGTTGAAG
65 GTGGAACAGGTTGAAG
9569370 TGACAGGTCT
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
92 2 0.03
93 38 0.54
96 1 0.01
97 29 0.41
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (95 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGTAGACTACATAGCGAACCTTATCTCCCTGAAGTTGCAG
TGGAACAGGTTGAAGCTATAAATAAACAGA
Found at i:9569727 original size:44 final size:44
Alignment explanation
Indices: 9569644--9569727 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
9569634 AGCCACTATC
** *
9569644 CTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTGGCGATTGTAGT
1 CTTATCTCTTTGAGGTAGCAAGAGAGCAGAATGGAGATTGTAGT
*
9569688 CTTATCT-TCTTGAGGTAGTAAG-GAAGCAGAATGGAGATTG
1 CTTATCTCT-TTGAGGTAGCAAGAG-AGCAGAATGGAGATTG
9569728 AAGATCTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.26, C:0.12, G:0.31, T:0.31
Consensus pattern (44 bp):
CTTATCTCTTTGAGGTAGCAAGAGAGCAGAATGGAGATTGTAGT
Found at i:9571573 original size:2 final size:2
Alignment explanation
Indices: 9571566--9571596 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9571556 TAAATCTATT
9571566 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9571597 GTTTTTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9574248 original size:13 final size:13
Alignment explanation
Indices: 9574232--9574275 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
9574222 CTATGTTTAG
9574232 ATATAGTTTATTA
1 ATATAGTTTATTA
*
9574245 ATATTAGTGT-TTA
1 ATA-TAGTTTATTA
9574258 GATATAGTTTATTA
1 -ATATAGTTTATTA
9574272 ATAT
1 ATAT
9574276 TAGTAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.52
Consensus pattern (13 bp):
ATATAGTTTATTA
Found at i:9574255 original size:27 final size:27
Alignment explanation
Indices: 9574225--9574279 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
9574215 TTAGTGACTA
9574225 TGTTTAGATATAGTTTATTAATATTAG
1 TGTTTAGATATAGTTTATTAATATTAG
9574252 TGTTTAGATATAGTTTATTAATATTAG
1 TGTTTAGATATAGTTTATTAATATTAG
9574279 T
1 T
9574280 AAATATATAC
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:0.33, C:0.00, G:0.15, T:0.53
Consensus pattern (27 bp):
TGTTTAGATATAGTTTATTAATATTAG
Done.