Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 79 of 226
Found at i:25101834 original size:23 final size:24
Alignment explanation
Indices: 25101808--25101878 Score: 92
Period size: 23 Copynumber: 3.0 Consensus size: 24
25101798 TTGGTGGGAG
25101808 CATTCTGGCACTTCGGTGCAAT-T
1 CATTCTGGCACTTCGGTGCAATAT
*
25101831 CATTCTGGCACTTCAGTGC-ATAT
1 CATTCTGGCACTTCGGTGCAATAT
* *
25101854 CATTTTGGCACTACGGTGCATATAT
1 CATTCTGGCACTTCGGTGCA-ATAT
25101879 AGAGTGTTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
22 2 0.05
23 35 0.85
25 4 0.10
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (24 bp):
CATTCTGGCACTTCGGTGCAATAT
Found at i:25104895 original size:12 final size:11
Alignment explanation
Indices: 25104873--25104910 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
25104863 TAGCTTAAGG
25104873 TTTCTTTAGTT
1 TTTCTTTAGTT
25104884 TTTCTCTTAGTT
1 TTTCT-TTAGTT
25104896 TTTCTTT--TT
1 TTTCTTTAGTT
25104905 TTTCTT
1 TTTCTT
25104911 CTCGGGTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 8 0.31
11 7 0.27
12 11 0.42
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.76
Consensus pattern (11 bp):
TTTCTTTAGTT
Found at i:25111852 original size:49 final size:49
Alignment explanation
Indices: 25111781--25111887 Score: 162
Period size: 49 Copynumber: 2.2 Consensus size: 49
25111771 ACGAGCTGTG
*
25111781 AATCGGTAAGCTTATACAAGCTGAGAATCGATAAGCTCTCACGAGATGC
1 AATCGGTAAGCTCATACAAGCTGAGAATCGATAAGCTCTCACGAGATGC
* *
25111830 AATCGGTAAGCTCATA-AGAGCTGAGAATCGGTAAGCTCTCACGAGCTGC
1 AATCGGTAAGCTCATACA-AGCTGAGAATCGATAAGCTCTCACGAGATGC
*
25111879 AATTGGTAA
1 AATCGGTAA
25111888 TCCCTAATGA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
48 1 0.02
49 52 0.98
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (49 bp):
AATCGGTAAGCTCATACAAGCTGAGAATCGATAAGCTCTCACGAGATGC
Found at i:25111875 original size:25 final size:25
Alignment explanation
Indices: 25111771--25111877 Score: 112
Period size: 25 Copynumber: 4.3 Consensus size: 25
25111761 GTATGCTTAT
* *
25111771 ACGAGCTGTGAATCGGTAAGCT-TAT
1 ACGAGCTGAGAATCGGTAAGCTCT-C
* *
25111796 ACAAGCTGAGAATCGATAAGCTCTC
1 ACGAGCTGAGAATCGGTAAGCTCTC
* *
25111821 ACGAGATG-CAATCGGTAAGCTCAT-
1 ACGAGCTGAGAATCGGTAAGCTC-TC
*
25111845 AAGAGCTGAGAATCGGTAAGCTCTC
1 ACGAGCTGAGAATCGGTAAGCTCTC
25111870 ACGAGCTG
1 ACGAGCTG
25111878 CAATTGGTAA
Statistics
Matches: 66, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
24 19 0.29
25 46 0.70
26 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (25 bp):
ACGAGCTGAGAATCGGTAAGCTCTC
Found at i:25112642 original size:404 final size:403
Alignment explanation
Indices: 25111884--25112682 Score: 1291
Period size: 404 Copynumber: 2.0 Consensus size: 403
25111874 GCTGCAATTG
* * *
25111884 GTAATCCCTAATGACATGTCGTTTGTATCCTACGAATTCGTAAGGTTCAAACAAGACTTAGTAAT
1 GTAATCCCTAATGACATGTCATTTGTATCCTACGAATTCCTAAGGTTCAAACAAGACTCAGTAAT
* *
25111949 TTTCGTACGTCGTCGGATATACAATCATTATTTATACATGGTAATTATACGAATCACATACATAT
66 TGTCGTACGTCGTCGGATATACAATCAGTATTTATACATGGTAATTATACGAATCACATACATAT
25112014 AATTCAATTAAAACATATAAATACAAAATTTAATTACACAAACTTACCTCGACGAGTACGTAGAT
131 AATTCAATTAAAACATATAAATACAAAATTTAATTACACAAACTTACCTCGACGAGTACGTAGAT
* * *
25112079 ACGAAGGCGATTAATCCGAGATTTTCTCTTTGTCTCGATCTAACTCTGTACGAGTTTTGGCTGGA
196 ACGAAGGCGATTAATCCGAGA-TTTCTCTTTGTCTCGATCTAACTCTGTACGAGGTCTGACTGGA
*
25112144 TCTATACGGATAAATTTAACTCAATTTAATATATTTATCATTCAAATTAGTCCAAAACATATTTT
260 TCTACACGGATAAATTTAACTCAATTTAATATATTTATCATTCAAATTAGTCCAAAACATATTTT
25112209 TGAAAAATTTATCATTTTGCTCCTATACTTTTAATTTCTTTGCAATTTAGTCCCTAGGCTCAAAA
325 TGAAAAATTTATCATTTTGCTCCTATACTTTTAATTTCTTTGCAATTTAGTCCCTAGGCTCAAAA
25112274 AATGACTACAATCA
390 AATGACTACAATCA
* * * ** *
25112288 GTAATCCCTAATGACATTTCATTTGTATCCTATGAATTCCTAAGTTTCAAACGGGACTCATTAAT
1 GTAATCCCTAATGACATGTCATTTGTATCCTACGAATTCCTAAGGTTCAAACAAGACTCAGTAAT
* * *
25112353 TGTCGTACGTCGTCGGATATACGATCGGTATTTATACATGGTAATTATATGAATCACATACATAT
66 TGTCGTACGTCGTCGGATATACAATCAGTATTTATACATGGTAATTATACGAATCACATACATAT
* *
25112418 AATTCAATTAAAACATATAAATACACAATTTAATTACACAAACTTACCTCGACTAGTATACGTAG
131 AATTCAATTAAAACATATAAATACAAAATTTAATTACACAAACTTACCTCGACGAG--TACGTAG
*
25112483 ATACGGAGGCGATTAATCCGAGA-TTCTCTTTGGT-TCGATCTAACT-TCGTACGAGGTCTGACT
194 ATACGAAGGCGATTAATCCGAGATTTCTCTTT-GTCTCGATCTAACTCT-GTACGAGGTCTGACT
25112545 GGATCTACACGGATAAATTTAACTCAATTTAATATATTTATCATTCAAATTAGTCCAAAACATAT
257 GGATCTACACGGATAAATTTAACTCAATTTAATATATTTATCATTCAAATTAGTCCAAAACATAT
* *
25112610 TTTTGTAAAATTTATCATTTTTC-CCTTATACTTTTAATTTCTTTGCAATTTAGTCCCTAGGCTC
322 TTTTGAAAAATTTATCATTTTGCTCC-TATACTTTTAATTTCTTTGCAATTTAGTCCCTAGGCTC
* *
25112674 GAAAGATGA
386 AAAAAATGA
25112683 AATTCATGCA
Statistics
Matches: 365, Mismatches: 25, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
403 3 0.01
404 331 0.91
405 2 0.01
406 29 0.08
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.36
Consensus pattern (403 bp):
GTAATCCCTAATGACATGTCATTTGTATCCTACGAATTCCTAAGGTTCAAACAAGACTCAGTAAT
TGTCGTACGTCGTCGGATATACAATCAGTATTTATACATGGTAATTATACGAATCACATACATAT
AATTCAATTAAAACATATAAATACAAAATTTAATTACACAAACTTACCTCGACGAGTACGTAGAT
ACGAAGGCGATTAATCCGAGATTTCTCTTTGTCTCGATCTAACTCTGTACGAGGTCTGACTGGAT
CTACACGGATAAATTTAACTCAATTTAATATATTTATCATTCAAATTAGTCCAAAACATATTTTT
GAAAAATTTATCATTTTGCTCCTATACTTTTAATTTCTTTGCAATTTAGTCCCTAGGCTCAAAAA
ATGACTACAATCA
Found at i:25124535 original size:6 final size:6
Alignment explanation
Indices: 25124526--25124557 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
25124516 GTCTCTTCTA
25124526 CTTCCC CTTCCC CTTCCC CTTCCC CTTCCC CT
1 CTTCCC CTTCCC CTTCCC CTTCCC CTTCCC CT
25124558 CCGCTTCTCT
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:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (6 bp):
CTTCCC
Found at i:25129237 original size:21 final size:20
Alignment explanation
Indices: 25129208--25129247 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
25129198 AAAACAAGCT
*
25129208 TTTAACGGCGTTTTTTAGGCC
1 TTTAACGGCG-CTTTTAGGCC
*
25129229 TTTAGCGGCGCTTTTAGGC
1 TTTAACGGCGCTTTTAGGC
25129248 GCCACTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.12, C:0.20, G:0.28, T:0.40
Consensus pattern (20 bp):
TTTAACGGCGCTTTTAGGCC
Found at i:25130833 original size:2 final size:2
Alignment explanation
Indices: 25130826--25130859 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
25130816 CCAACAACTG
25130826 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
25130860 AGGGAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:25131137 original size:20 final size:20
Alignment explanation
Indices: 25131112--25131150 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
25131102 TTAGAATTTA
25131112 AAATAATAAATCAATAACAC
1 AAATAATAAATCAATAACAC
*
25131132 AAATAATAAATTAATAACA
1 AAATAATAAATCAATAACA
25131151 TGTACTTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (20 bp):
AAATAATAAATCAATAACAC
Found at i:25133180 original size:23 final size:24
Alignment explanation
Indices: 25133145--25133189 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
25133135 CTTCAATCAT
*
25133145 TCTGCTTCAATTATCT-CAATTAAA
1 TCTGCATCAATTAT-TACAATTAAA
25133169 TCTGCATC-ATTATTACAATTA
1 TCTGCATCAATTATTACAATTA
25133190 TTGTGATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 1 0.05
23 11 0.58
24 7 0.37
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.42
Consensus pattern (24 bp):
TCTGCATCAATTATTACAATTAAA
Found at i:25141901 original size:34 final size:32
Alignment explanation
Indices: 25141821--25141903 Score: 80
Period size: 34 Copynumber: 2.5 Consensus size: 32
25141811 TCTCAAGGCT
*
25141821 GCAGCGCCTAATATATCCAACAGTTTCAAGATA
1 GCAG-GCCAAATATATCCAACAGTTTCAAGATA
* *
25141854 TGGCATGCCAAATATATCCAATAGTTTCAAGATCA
1 --GCAGGCCAAATATATCCAACAGTTTCAAGAT-A
25141889 -CAAGGCCAAA-ATATC
1 GC-AGGCCAAATATATC
25141904 TGAAATCAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
32 6 0.14
33 7 0.17
34 25 0.60
35 4 0.10
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (32 bp):
GCAGGCCAAATATATCCAACAGTTTCAAGATA
Found at i:25149654 original size:22 final size:22
Alignment explanation
Indices: 25149629--25149675 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
25149619 CTAAGAGCCG
* *
25149629 TAAACAGGATAGCTATAAGCTA
1 TAAACAGAATAGCTACAAGCTA
*
25149651 TAAACAGAATGGCTACAAGCTA
1 TAAACAGAATAGCTACAAGCTA
25149673 TAA
1 TAA
25149676 GTTTAGTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (22 bp):
TAAACAGAATAGCTACAAGCTA
Found at i:25149733 original size:32 final size:32
Alignment explanation
Indices: 25149687--25149833 Score: 141
Period size: 32 Copynumber: 4.6 Consensus size: 32
25149677 TTTAGTAATG
* * *
25149687 TGATTGGCACAAAGCCATTAGTAATGGTAACA
1 TGATCGGCACAAAGCCATCAGTAATAGTAACA
* ** * *
25149719 TGAGCGGCACAAAGCCATCAGTAGCAGTGATA
1 TGATCGGCACAAAGCCATCAGTAATAGTAACA
* * * * * *
25149751 TAATCCGTACATAGCCATCAATAATAGTGACA
1 TGATCGGCACAAAGCCATCAGTAATAGTAACA
* * *
25149783 TGATCAGCACAAAGCCATCAGTAATGGTAATA
1 TGATCGGCACAAAGCCATCAGTAATAGTAACA
25149815 TGATCGGCACAAAGCCATC
1 TGATCGGCACAAAGCCATC
25149834 CATAGCATCG
Statistics
Matches: 89, Mismatches: 26, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
32 89 1.00
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAATAGTAACA
Found at i:25149831 original size:64 final size:64
Alignment explanation
Indices: 25149680--25149833 Score: 164
Period size: 64 Copynumber: 2.4 Consensus size: 64
25149670 CTATAAGTTT
* * * * * * *
25149680 AGTAATGTGATTGGCACAAAGCCATTAGTAATGGTAACATGAGCGGCACAAAGCCATCAGTAGC
1 AGTAATATGATCGGCACAAAGCCATCAATAATAGTAACATGAGCAGCACAAAGCCATCAGTAAC
* * * * * * * *
25149744 AGTGATATAATCCGTACATAGCCATCAATAATAGTGACATGATCAGCACAAAGCCATCAGTAAT
1 AGTAATATGATCGGCACAAAGCCATCAATAATAGTAACATGAGCAGCACAAAGCCATCAGTAAC
*
25149808 GGTAATATGATCGGCACAAAGCCATC
1 AGTAATATGATCGGCACAAAGCCATC
25149834 CATAGCATCG
Statistics
Matches: 69, Mismatches: 21, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
64 69 1.00
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (64 bp):
AGTAATATGATCGGCACAAAGCCATCAATAATAGTAACATGAGCAGCACAAAGCCATCAGTAAC
Found at i:25150008 original size:24 final size:24
Alignment explanation
Indices: 25149994--25150115 Score: 131
Period size: 24 Copynumber: 5.1 Consensus size: 24
25149984 TCAGTCATAC
* *
25149994 AAATCACAGGCAAATCAATTATTT
1 AAATCACAGACAAATCAATCATTT
25150018 AAATCACAGACAAATCAATCATTT
1 AAATCACAGACAAATCAATCATTT
* *
25150042 AAATCACAGTCAAAT-AAGTTATTT
1 AAATCACAGACAAATCAA-TCATTT
* * *
25150066 ACATCTC-GAAAAAATCAATCATTT
1 AAATCACAG-ACAAATCAATCATTT
* *
25150090 ACATCACAGGCAAATCAATCATTT
1 AAATCACAGACAAATCAATCATTT
25150114 AA
1 AA
25150116 CCCCAAGGGC
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
23 3 0.04
24 75 0.93
25 3 0.04
ACGTcount: A:0.47, C:0.19, G:0.07, T:0.28
Consensus pattern (24 bp):
AAATCACAGACAAATCAATCATTT
Found at i:25150056 original size:48 final size:48
Alignment explanation
Indices: 25149994--25150115 Score: 158
Period size: 48 Copynumber: 2.5 Consensus size: 48
25149984 TCAGTCATAC
*
25149994 AAATCACAGGCAAATCAATTATTTAAATCAC-AGACAAATCAATCATTT
1 AAATCACAGGCAAATCAATTATTTAAATCACGA-AAAAATCAATCATTT
* * *
25150042 AAATCACAGTCAAAT-AAGTTATTTACATCTCGAAAAAATCAATCATTT
1 AAATCACAGGCAAATCAA-TTATTTAAATCACGAAAAAATCAATCATTT
* *
25150090 ACATCACAGGCAAATCAATCATTTAA
1 AAATCACAGGCAAATCAATTATTTAA
25150116 CCCCAAGGGC
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
47 2 0.03
48 58 0.92
49 3 0.05
ACGTcount: A:0.47, C:0.19, G:0.07, T:0.28
Consensus pattern (48 bp):
AAATCACAGGCAAATCAATTATTTAAATCACGAAAAAATCAATCATTT
Found at i:25150150 original size:26 final size:26
Alignment explanation
Indices: 25150076--25150143 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
25150066 ACATCTCGAA
**
25150076 AAAATCAATCATTT-ACATCACA-GGC
1 AAAATCAATCATTTAACCCCA-AGGGC
25150101 -AAATCAATCATTTAACCCCAAGGGC
1 AAAATCAATCATTTAACCCCAAGGGC
*
25150126 AAAAT-AATCATTTTACCC
1 AAAATCAATCATTTAACCC
25150144 TATAGGGGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
24 14 0.38
25 19 0.51
26 4 0.11
ACGTcount: A:0.43, C:0.25, G:0.07, T:0.25
Consensus pattern (26 bp):
AAAATCAATCATTTAACCCCAAGGGC
Found at i:25150163 original size:27 final size:27
Alignment explanation
Indices: 25150133--25150592 Score: 444
Period size: 27 Copynumber: 17.1 Consensus size: 27
25150123 GGCAAAATAA
* * *
25150133 TCATTTTACCCTATAGGGGCATTATGG
1 TCATTTTACCCTACAGGGGTATTACGG
* * * *
25150160 TCATCTTACCCTACAGGTGCATTACAG
1 TCATTTTACCCTACAGGGGTATTACGG
* **
25150187 TCATTTTACCCTACAGAGGCGTTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* * *
25150214 TCATTTTACCCTATAGGAGTATTACGA
1 TCATTTTACCCTACAGGGGTATTACGG
25150241 TCATTTTACCCTACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* *
25150268 TCATTTTACCTTACAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
*
25150295 TCATTTTACCCTATAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* *
25150322 TCATTTTACCCTATAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
*
25150349 TCATTTTTCCCTACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
** * *
25150376 TTGTTTTACCATACAGGGGAATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
*
25150403 TTATTTTACCCTACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* *
25150430 TCATTTTACCCTTCAAGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* ** *
25150457 TCATTTTACCCTA-TGAGGGTATTTTGA
1 TCATTTTACCCTACAG-GGGTATTACGG
** * * *
25150484 T-ATTTTACATTACGGGGGTATTTCGA
1 TCATTTTACCCTACAGGGGTATTACGG
* ** * * *
25150510 TCATTTTACCTTATGGGGGCATTTCGA
1 TCATTTTACCCTACAGGGGTATTACGG
* *
25150537 TCATTTTACCC-ATC-GAGGGTATTTCGA
1 TCATTTTACCCTA-CAG-GGGTATTACGG
* *
25150564 TCATTTTACCCTTC-GAGGGTATTTCGG
1 TCATTTTACCCTACAG-GGGTATTACGG
25150591 TC
1 TC
25150593 CAAATATCGA
Statistics
Matches: 370, Mismatches: 57, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
26 22 0.06
27 348 0.94
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTACGG
Found at i:25153973 original size:32 final size:32
Alignment explanation
Indices: 25153930--25154080 Score: 160
Period size: 32 Copynumber: 4.7 Consensus size: 32
25153920 TTCAGTAATG
*
25153930 TGATTGGCACAAAGCCATCAGTAACGGTAACA
1 TGATCGGCACAAAGCCATCAGTAACGGTAACA
* * * * *
25153962 TGACCGGCACAAAGCCAACAGTAGCAGTGACA
1 TGATCGGCACAAAGCCATCAGTAACGGTAACA
** * *
25153994 TGATCGATACACAA-CCATCAGTAACGGTGATA
1 TGATCGGCACA-AAGCCATCAGTAACGGTAACA
* *
25154026 TGATCGGCACAAAGCCATCAGTAATGGTAATA
1 TGATCGGCACAAAGCCATCAGTAACGGTAACA
* *
25154058 TGATCAGCAGAAAGCCATCAGTA
1 TGATCGGCACAAAGCCATCAGTA
25154081 GCATCGCAGC
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
31 2 0.02
32 94 0.96
33 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.18
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAACGGTAACA
Found at i:25154155 original size:27 final size:26
Alignment explanation
Indices: 25154124--25154188 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
25154114 AGCAAAGTTG
25154124 CCAGTAACAATATATGTGGCCA-AGCCA
1 CCAGTAACAATAT-TGTGG-CAGAGCCA
*
25154151 CCAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAACAAT-ATTGTGGCAGAGCCA
25154178 CCAGT-ACAATA
1 CCAGTAACAATA
25154189 CTTCCTTCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 1 0.03
26 6 0.18
27 25 0.74
28 2 0.06
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (26 bp):
CCAGTAACAATATTGTGGCAGAGCCA
Found at i:25154400 original size:24 final size:24
Alignment explanation
Indices: 25154252--25154392 Score: 185
Period size: 24 Copynumber: 5.9 Consensus size: 24
25154242 CCATGCACAG
**
25154252 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
*
25154276 AATCTA-TCATTTAAATCACAGAAA
1 AATC-AGTCATTTAAATCACAGACA
*
25154300 AATTAGTCATTTAAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
*
25154324 AATCAGTCATTTAAATCACAAACA
1 AATCAGTCATTTAAATCACAGACA
* * *
25154348 AATCAGTCATTTACATCTCGGACA
1 AATCAGTCATTTAAATCACAGACA
*
25154372 AATCAGTCATTTACATCACAG
1 AATCAGTCATTTAAATCACAG
25154393 GTGAATCAAT
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
23 1 0.01
24 100 0.98
25 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAGACA
Found at i:25154400 original size:72 final size:72
Alignment explanation
Indices: 25154251--25154409 Score: 185
Period size: 72 Copynumber: 2.2 Consensus size: 72
25154241 GCCATGCACA
** * *
25154251 GAATCAGTCATACAAATCACAGACAAATCTATCATTTAAATCACAGAAAAATTAGTCATTTAAAT
1 GAATCAGTCATTTAAATCACAAACAAATCTATCATTTAAATCACAGAAAAATCAGTCATTTAAAT
25154316 CACAGAC
66 CACAGAC
* * * * * *
25154323 AAATCAGTCATTTAAATCACAAACAAATC-AGTCATTTACATCTCGGACAAATCAGTCATTTACA
1 GAATCAGTCATTTAAATCACAAACAAATCTA-TCATTTAAATCACAGAAAAATCAGTCATTTAAA
**
25154387 TCACAGGT
65 TCACAGAC
*
25154395 GAATCAATCATTTAA
1 GAATCAGTCATTTAA
25154410 CCTTGAGGGC
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
71 1 0.01
72 71 0.99
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (72 bp):
GAATCAGTCATTTAAATCACAAACAAATCTATCATTTAAATCACAGAAAAATCAGTCATTTAAAT
CACAGAC
Found at i:25154406 original size:48 final size:48
Alignment explanation
Indices: 25154264--25154409 Score: 161
Period size: 48 Copynumber: 3.0 Consensus size: 48
25154254 TCAGTCATAC
* *
25154264 AAATCACAGACAAATCTA-TCATTTAAATCACAGAA-AAATTAGTCATTT
1 AAATCACAGACAAATC-AGTCATTTAAATCACA-AACAAATCAATCATTT
*
25154312 AAATCACAGACAAATCAGTCATTTAAATCACAAACAAATCAGTCATTT
1 AAATCACAGACAAATCAGTCATTTAAATCACAAACAAATCAATCATTT
* * * * ****
25154360 ACATCTCGGACAAATCAGTCATTTACATCACAGGTGAATCAATCATTT
1 AAATCACAGACAAATCAGTCATTTAAATCACAAACAAATCAATCATTT
25154408 AA
1 AA
25154410 CCTTGAGGGC
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
47 3 0.04
48 82 0.96
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.27
Consensus pattern (48 bp):
AAATCACAGACAAATCAGTCATTTAAATCACAAACAAATCAATCATTT
Found at i:25154456 original size:27 final size:27
Alignment explanation
Indices: 25154426--25154788 Score: 329
Period size: 27 Copynumber: 13.5 Consensus size: 27
25154416 GGGCAAAATA
*
25154426 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * * * *
25154453 GTCATCTTATCCTACTGGAGCATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
* *
25154480 ATCATTTTACCCTACA-AGG-ACTTACG
1 GTCATTTTACCCTACAGGGGTA-TTACG
* *
25154506 GTTATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
25154533 GTCATTTTACCCTACAGGGGTATTGCG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
25154560 ATTATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * ** *
25154587 GTTATTTTACCATATAGGGCCATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
25154614 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
25154641 ATCATTTTACCATACAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
25154668 GTTATTTTACCATATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
**
25154695 ACCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * **
25154722 ATCATTTTACCCTATAGTGGTATTTTG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
25154749 GT-GTTCTACCCTAC-GGGATAATTTCG
1 GTCATTTTACCCTACAGGGGT-ATTACG
*
25154775 ATCATTTTACCCTA
1 GTCATTTTACCCTA
25154789 TGGGGGCATT
Statistics
Matches: 268, Mismatches: 63, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
25 4 0.01
26 33 0.12
27 230 0.86
28 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:25154617 original size:81 final size:81
Alignment explanation
Indices: 25154429--25154745 Score: 404
Period size: 81 Copynumber: 3.9 Consensus size: 81
25154419 CAAAATAGTC
* * * * * * * *
25154429 ATTTTACCCTACAGGGGCATTACGGTCATCTTATCCTACTGGAGCATTACAATCATTTTACCCTA
1 ATTTTACCATATAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTA
*
25154494 CA-AGG-ACTTACGGTT
66 CAGGGGTA-TTACGGTT
* * * *
25154509 ATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTACAGGGGTATTGCGATTATTTTACCCTA
1 ATTTTACCATATAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTA
25154574 CAGGGGTATTACGGTT
66 CAGGGGTATTACGGTT
* * *
25154590 ATTTTACCATATAGGGCCATTATGGTCATTTTACCCTACAGGGGTATTACGATCATTTTACCATA
1 ATTTTACCATATAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTA
* *
25154655 CAAGGGCATTACGGTT
66 CAGGGGTATTACGGTT
* **
25154671 ATTTTACCATATAGGGGTATTACGACCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTA
1 ATTTTACCATATAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTA
* *
25154736 TAGTGGTATT
66 CAGGGGTATT
25154746 TTGGTGTTCT
Statistics
Matches: 205, Mismatches: 30, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
80 57 0.28
81 147 0.72
82 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (81 bp):
ATTTTACCATATAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTA
CAGGGGTATTACGGTT
Found at i:25154863 original size:54 final size:54
Alignment explanation
Indices: 25154776--25154895 Score: 161
Period size: 54 Copynumber: 2.2 Consensus size: 54
25154766 ATAATTTCGA
* * * * *
25154776 TCATTTTACCCTATGGGGGCATTTCAGTTATTTTACTC-ATCGAGGGTATTTTAG
1 TCATTTTACCCTAAGCGGGCATTTCAGTCATTTTAC-CAATCGAAGGTATTTCAG
* *
25154830 TCATTTTACCCTAAGCTGGCATTTCTGTCATTTTACCAATCGAAGGTATTTCAG
1 TCATTTTACCCTAAGCGGGCATTTCAGTCATTTTACCAATCGAAGGTATTTCAG
25154884 TCATTTTACCCT
1 TCATTTTACCCT
25154896 TCGAGGGTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.02
54 57 0.98
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.42
Consensus pattern (54 bp):
TCATTTTACCCTAAGCGGGCATTTCAGTCATTTTACCAATCGAAGGTATTTCAG
Found at i:25154899 original size:27 final size:27
Alignment explanation
Indices: 25154776--25154907 Score: 117
Period size: 27 Copynumber: 4.9 Consensus size: 27
25154766 ATAATTTCGA
* *
25154776 TCATTTTACCCTAT-GGGGGCATTTCAG
1 TCATTTTACCC-ATCGAGGGTATTTCAG
* * *
25154803 TTATTTTACTCATCGAGGGTATTTTAG
1 TCATTTTACCCATCGAGGGTATTTCAG
* * *
25154830 TCATTTTACCC-T-AAGCTGGCATTTCTG
1 TCATTTTACCCATCGAG--GGTATTTCAG
* *
25154857 TCATTTTACCAATCGAAGGTATTTCAG
1 TCATTTTACCCATCGAGGGTATTTCAG
*
25154884 TCATTTTACCCTTCGAGGGTATTT
1 TCATTTTACCCATCGAGGGTATTT
25154908 TGATCCAGAT
Statistics
Matches: 81, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
25 2 0.02
26 3 0.04
27 74 0.91
28 1 0.01
29 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCATCGAGGGTATTTCAG
Found at i:25159378 original size:50 final size:50
Alignment explanation
Indices: 25159312--25159508 Score: 198
Period size: 50 Copynumber: 3.8 Consensus size: 50
25159302 TTCTTATACG
* * * **
25159312 GCCAATGCCATATCCCAGATATGTTCTTACATAGGAGTTCTCATATCAGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATATCAGT
* *** * *
25159362 GCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATATCAGT
*
25159412 GCCAACGCCATGTCCCAGACATGGTCTTACAT-GAGACCTCTCATAACTTCAATGAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATAG-GACCTCTCAT-A--TC-A-G-T
* *
25159468 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCTCT
25159509 TTACCCAAAT
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
49 1 0.01
50 77 0.64
53 2 0.02
55 1 0.01
56 38 0.32
57 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATATCAGT
Found at i:25159440 original size:100 final size:105
Alignment explanation
Indices: 25159312--25159497 Score: 249
Period size: 100 Copynumber: 1.8 Consensus size: 105
25159302 TTCTTATACG
* * * ** *
25159312 GCCAATGCCATATCCCAGATATGTTCTTACAT-AGGAGTTCTCAT-A-TC-A-G-TGCCCATGCC
1 GCCAACGCCATATCCCAGACATGGTCTTACATGA-GACCTCTCATAACTCAATGATGCCAATGCC
25159371 ATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGT
65 ATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGT
*
25159412 GCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAACTTCAATGATGCCAATGCC
1 GCCAACGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATAAC-TCAATGATGCCAATGCC
25159477 ATGTCCCAGACATGGTCTTAC
65 ATGTCCCAGACATGGTCTTAC
25159498 ATGGGATCTC
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
100 36 0.50
101 2 0.03
103 2 0.03
104 1 0.01
105 1 0.01
106 30 0.42
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (105 bp):
GCCAACGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATAACTCAATGATGCCAATGCCA
TGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGT
Found at i:25159479 original size:56 final size:50
Alignment explanation
Indices: 25159261--25159500 Score: 184
Period size: 50 Copynumber: 4.7 Consensus size: 50
25159251 AGATAATAAC
** ** * * *
25159261 ATGCCAAAT-CCATGTCGTAGACATGGTCTTACATGAGATGTTTCTTATACG
1 ATGCC-AATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCT-CG
* * * ** *
25159312 --GCCAATGCCATATCCCAGATATGTTCTTACAT-AGGAGTTCTCATATC-
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGA-GACCTCTCATCTCG
* ** *
25159359 AGTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCG
1 A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCG
* *
25159410 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAACTTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCAT--C-TC---G
25159466 ATGCCAATGCCATGTCCCAGACATGGTCTTACATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATG
25159501 GGATCTCTTT
Statistics
Matches: 149, Mismatches: 27, Indels: 21
0.76 0.14 0.11
Matches are distributed among these distances:
48 5 0.03
49 31 0.21
50 76 0.51
52 1 0.01
53 2 0.01
56 34 0.23
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCG
Found at i:25160154 original size:6 final size:6
Alignment explanation
Indices: 25160126--25160173 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
25160116 ATAAAATCGA
* * *
25160126 TTTTGA TTTTG- TTTTGC TTTTGC TTTTGC TGTTGC TTTTAC TTTTGC
1 TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC
25160173 T
1 T
25160174 AAAATTTGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
5 5 0.14
6 32 0.86
ACGTcount: A:0.04, C:0.12, G:0.17, T:0.67
Consensus pattern (6 bp):
TTTTGC
Found at i:25162754 original size:102 final size:101
Alignment explanation
Indices: 25162578--25162968 Score: 454
Period size: 102 Copynumber: 3.9 Consensus size: 101
25162568 CGATGAACAG
* * *
25162578 GTGTGTAGTACTGTGTGGAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAAT-ATGATCACATGTGTAGTACTAA
*
25162643 GTGAAGGCTACTATGTGTACCGAAAAGCTTTGAGCAC
65 GTGAAGGCTACTATGTGTACCGAAAAGCTTTGATCAC
* * * *
25162680 GTGTGTAGTACTGTGTGAATGCTACTACGTGTATCGGTAAACTATGGTTACATGTGTAGTATTAA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAA-TATGATCACATGTGTAGTACTAA
* *
25162745 GTGAAGGCTACAATGGGTACCGAAAAGCTTTGATCAC
65 GTGAAGGCTACTATGTGTACCGAAAAGCTTTGATCAC
* * * * *
25162782 GTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAA-ACTTGATCACGTGTGTAGTACTA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAATA--TGATCACATGTGTAGTACTA
* * *
25162845 TGTGAAGGCTACTAAGTG-AGCTGTAAAA-C-TTGATCAC
64 AGTGAAGGCTACTATGTGTA-CCG-AAAAGCTTTGATCAC
* * * *
25162882 GTGTGTAGTACTGTGTGAAGGCTACTACGTGAAT-TGTAAA-ACTGATCACGTGTGTAGTACTAC
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAATA-TGATCACATGTGTAGTACTAA
* *
25162945 GTGAAGGCTACTACGTGTATCGAA
65 GTGAAGGCTACTATGTGTACCGAA
25162969 TGATAAATAT
Statistics
Matches: 251, Mismatches: 31, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
98 2 0.01
99 38 0.15
100 45 0.18
101 41 0.16
102 124 0.49
103 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (101 bp):
GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAATATGATCACATGTGTAGTACTAAG
TGAAGGCTACTATGTGTACCGAAAAGCTTTGATCAC
Found at i:25162842 original size:50 final size:50
Alignment explanation
Indices: 25162578--25162963 Score: 381
Period size: 51 Copynumber: 7.7 Consensus size: 50
25162568 CGATGAACAG
* * * * *
25162578 GTGTGTAGTACTGTGTGGAGGCTACTACGTGTATCGATAAATA-ATGGTCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCG-TAAA-ACTTGATCAC
* * * *
25162629 ATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGAGCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAA-C-TTGATCAC
* * * * *
25162680 GTGTGTAGTACTGTGTGAATGCTACTACGTGTATCGGT-AAACTATGGTTAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGTAAAACT-TGATCAC
* * * * * *
25162731 ATGTGTAGTATTAAGTGAAGGCTACAATGGGTACCG-AAAAGCTTTGATCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAA-C-TTGATCAC
*
25162782 GTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACTTGATCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGTAAAACTTGATCAC
* *
25162832 GTGTGTAGTACTATGTGAAGGCTACTAAGTG-AGCTGTAAAACTTGATCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGTAAAACTTGATCAC
* * **
25162882 GTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGTAAAAC-TGATCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTGATCAC
*
25162931 GTGTGTAGTACTACGTGAAGGCTACTACGTGTA
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTA
25162964 TCGAATGATA
Statistics
Matches: 278, Mismatches: 45, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
48 1 0.00
49 40 0.14
50 99 0.36
51 128 0.46
52 10 0.04
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (50 bp):
GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTGATCAC
Found at i:25165507 original size:120 final size:120
Alignment explanation
Indices: 25165383--25165737 Score: 665
Period size: 120 Copynumber: 3.0 Consensus size: 120
25165373 TAGATTATAA
* *
25165383 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTTATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTATAGTAAATTCATATAAGAATATTTAATATTAAG
25165448 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAG
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAG
25165503 ATTATATTTTATAGTATTATATATTATGATTATAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTATAGTAAATTCATATAAGAATATTTAATATTAAG
*
25165568 AATTTTATTAAATTATATATTTTTAATAAATTATATTTAATAATAATTATTTTAG
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAG
*
25165623 ATTATATTTTATAGTATTATATATTATGATTATAGTAAATTCATAGAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTATAGTAAATTCATATAAGAATATTTAATATTAAG
*
25165688 AATTTTATTAAATTATATATTTTTATTAAATTCTATTTAATAATAATTAT
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAT
25165738 GTTAAAATAT
Statistics
Matches: 229, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 229 1.00
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.52
Consensus pattern (120 bp):
ATTATATTTTATAGTATTATATATTATGATTATAGTAAATTCATATAAGAATATTTAATATTAAG
AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAG
Found at i:25165705 original size:59 final size:58
Alignment explanation
Indices: 25165402--25165705 Score: 232
Period size: 64 Copynumber: 5.1 Consensus size: 58
25165392 TATAGTATTA
25165402 TATATTATGATTTTAGTAAATTTATATAAGAATATTTAATATTAAGAATTTTATTAAAT
1 TATATTATGATTTTAGTAAA-TTATATAAGAATATTTAATATTAAGAATTTTATTAAAT
* * * * * *
25165461 TATA-TAT--TTTTATTAAATTATATTTAATAATAATT-ATTTTAGATTATATTTTA-TAGTATT
1 TATATTATGATTTTAGTAAATTATA--TAAGAATATTTAATATTA-A-GA-ATTTTATTA--AAT
*
25165521 ATATATTATGATTATAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
1 -TATATTATGATTTTAGTAAATT-ATATAAGAATATTTAATATTAAGAATTTTATTAAAT
* * * * * *
25165581 TATA-TAT--TTTTAATAAATTATATTTAATAATAATT-ATTTTAGATTATATTTTA-TAGTATT
1 TATATTATGATTTTAGTAAATTATA--TAAGAATATTTAATATTA-A-GA-ATTTTATTA--AAT
* *
25165641 ATATATTATGATTATAGTAAATTCATAGAAGAATATTTAATATTAAGAATTTTATTAAAT
1 -TATATTATGATTTTAGTAAATT-ATATAAGAATATTTAATATTAAGAATTTTATTAAAT
25165701 TATAT
1 TATAT
25165706 ATTTTTATTA
Statistics
Matches: 189, Mismatches: 28, Indels: 56
0.69 0.10 0.21
Matches are distributed among these distances:
55 8 0.04
56 29 0.15
57 20 0.11
58 12 0.06
59 25 0.13
60 8 0.04
61 20 0.11
62 12 0.06
63 19 0.10
64 30 0.16
65 6 0.03
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.51
Consensus pattern (58 bp):
TATATTATGATTTTAGTAAATTATATAAGAATATTTAATATTAAGAATTTTATTAAAT
Found at i:25165971 original size:45 final size:44
Alignment explanation
Indices: 25165882--25165974 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
25165872 ATTACAACAT
* *
25165882 CATTCCATTTAACCAAACACAATAATACTATTACAGTTCTATTC
1 CATTCCATTTAACCAAACACAATAATACTATTACAGCTATATTC
*
25165926 CATTCCATTTAACCAAACA-ATTGAATTACTATTAC-GCCTATATTC
1 CATTCCATTTAACCAAACACAAT-AA-TACTATTACAG-CTATATTC
25165971 CATT
1 CATT
25165975 ACACCTCTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
43 2 0.05
44 22 0.51
45 19 0.44
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (44 bp):
CATTCCATTTAACCAAACACAATAATACTATTACAGCTATATTC
Found at i:25165985 original size:16 final size:16
Alignment explanation
Indices: 25165956--25166009 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
25165946 TTGAATTACT
* *
25165956 ATTACGCCTATATTCC
1 ATTACACCTCTATTCC
25165972 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
**
25165988 ATTACAGTTCTATTCC
1 ATTACACCTCTATTCC
25166004 ATTACA
1 ATTACA
25166010 GCAAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.28, C:0.30, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:25166010 original size:16 final size:16
Alignment explanation
Indices: 25165966--25166011 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
25165956 ATTACGCCTA
*
25165966 TATTCCATTACACCTC
1 TATTCCATTACAGCTC
*
25165982 TATTCCATTACAGTTC
1 TATTCCATTACAGCTC
25165998 TATTCCATTACAGC
1 TATTCCATTACAGC
25166012 AAACCAAACG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.26, C:0.30, G:0.04, T:0.39
Consensus pattern (16 bp):
TATTCCATTACAGCTC
Found at i:25186575 original size:25 final size:25
Alignment explanation
Indices: 25186510--25186581 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 25
25186500 CAGGCCTATT
*
25186510 TTCACAGCTCGGGTGAGCATATTTA
1 TTCACAGCTCGCGTGAGCATATTTA
* * **
25186535 TTCAGAACTCATGTGAGCATATTTA
1 TTCACAGCTCGCGTGAGCATATTTA
* *
25186560 TTCATAGCTCGCGTGAACATAT
1 TTCACAGCTCGCGTGAGCATAT
25186582 ATGTAAAGGA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (25 bp):
TTCACAGCTCGCGTGAGCATATTTA
Found at i:25195023 original size:43 final size:43
Alignment explanation
Indices: 25194839--25195077 Score: 155
Period size: 43 Copynumber: 5.6 Consensus size: 43
25194829 TCTAGTACGT
* ** * *
25194839 TAGTGCATCATCGGATAAACTGAA-CAAAATATAATGGCACACA
1 TAGTGCATCATCAGATAAACCAAAGC-AAATATACTAGCACACA
* * ** * * *
25194882 TAGTGCACCATCGGGA-AAGTCGAAGTAATTATACTAGCACACGA
1 TAGTGCATCATC-AGATAAACCAAAGCAAATATACTAGCACAC-A
* * * * * * * * *
25194926 -AGGGCATCATCAAACAGACCGAAGTAATTATATTGGCACACA
1 TAGTGCATCATCAGATAAACCAAAGCAAATATACTAGCACACA
* *
25194968 TAGTGCATCATCAGATAAATCTAAGC-AATCATACTAGCACACA
1 TAGTGCATCATCAGATAAACCAAAGCAAAT-ATACTAGCACACA
* *
25195011 TAGTGCATCATCATATAAACCAAAGCAAATATACTAGCACTCA
1 TAGTGCATCATCAGATAAACCAAAGCAAATATACTAGCACACA
* *
25195054 TAATGCATCAT-TGACTAAACCAAA
1 TAGTGCATCATCAGA-TAAACCAAA
25195078 AGTATAAACC
Statistics
Matches: 154, Mismatches: 34, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
42 5 0.03
43 142 0.92
44 7 0.05
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (43 bp):
TAGTGCATCATCAGATAAACCAAAGCAAATATACTAGCACACA
Found at i:25199625 original size:9 final size:9
Alignment explanation
Indices: 25199611--25199733 Score: 96
Period size: 8 Copynumber: 13.7 Consensus size: 9
25199601 AAGTGTCTTT
25199611 ATTTTTATA
1 ATTTTTATA
*
25199620 ATTTTT-TT
1 ATTTTTATA
*
25199628 AGTTTTATA
1 ATTTTTATA
25199637 TATTTTTATAA
1 -ATTTTTAT-A
25199648 TATTTTTAATA
1 -ATTTTT-ATA
25199659 ATTTTTAT-
1 ATTTTTATA
*
25199667 ATTTTCATA
1 ATTTTTATA
*
25199676 TTTTTTTCATA
1 -ATTTTT-ATA
*
25199687 ATTTATATA
1 ATTTTTATA
25199696 A-TTTT-TA
1 ATTTTTATA
25199703 ATTTTT-TA
1 ATTTTTATA
25199711 ATTTTT-TA
1 ATTTTTATA
*
25199719 ATTTTAATA
1 ATTTTTATA
25199728 ATTTTT
1 ATTTTT
25199734 GAGTCAGTTA
Statistics
Matches: 93, Mismatches: 12, Indels: 18
0.76 0.10 0.15
Matches are distributed among these distances:
7 3 0.03
8 35 0.38
9 20 0.22
10 21 0.23
11 12 0.13
12 2 0.02
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:25199652 original size:38 final size:36
Alignment explanation
Indices: 25199610--25199733 Score: 114
Period size: 38 Copynumber: 3.4 Consensus size: 36
25199600 TAAGTGTCTT
*
25199610 TATTTTTATAATTTTTTTAGTTTT-ATATATTTTTATAA
1 TATTTTTATAATTTTTATA-TTTTCATAT-TTTTT-TAA
*
25199648 TATTTTTAATAATTTTTATATTTTCATATTTTTTTCA
1 TATTTTT-ATAATTTTTATATTTTCATATTTTTTTAA
* * *
25199685 TAATTTATATAATTTTTA-ATTTT-TTAATTTTTT-A
1 T-ATTTTTATAATTTTTATATTTTCATATTTTTTTAA
*
25199719 -ATTTTAATAATTTTT
1 TATTTTTATAATTTTT
25199734 GAGTCAGTTA
Statistics
Matches: 76, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
32 13 0.17
34 1 0.01
35 8 0.11
36 5 0.07
37 13 0.17
38 21 0.28
39 15 0.20
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.68
Consensus pattern (36 bp):
TATTTTTATAATTTTTATATTTTCATATTTTTTTAA
Found at i:25199660 original size:39 final size:39
Alignment explanation
Indices: 25199610--25199707 Score: 116
Period size: 39 Copynumber: 2.6 Consensus size: 39
25199600 TAAGTGTCTT
*
25199610 TATTTTTATAATTTTTTTAGTTTT-ATATATTTTT-ATAA
1 TATTTTTATAATTTTTATA-TTTTCATATATTTTTCATAA
*
25199648 TATTTTTAATAATTTTTATATTTTCATATTTTTTTCAT-A
1 TATTTTT-ATAATTTTTATATTTTCATATATTTTTCATAA
*
25199687 -ATTTATATAATTTTTA-ATTTT
1 TATTTTTATAATTTTTATATTTT
25199708 TTAATTTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
36 5 0.09
37 10 0.19
38 16 0.30
39 21 0.39
40 2 0.04
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (39 bp):
TATTTTTATAATTTTTATATTTTCATATATTTTTCATAA
Found at i:25199664 original size:37 final size:32
Alignment explanation
Indices: 25199623--25199733 Score: 91
Period size: 37 Copynumber: 3.2 Consensus size: 32
25199613 TTTTATAATT
25199623 TTTTTAGTTTTATATATTTTTATAATATTTTTAATAA
1 TTTTTA-TTTT-TATATTTTT-T-ATA-TTTTAATAA
*
25199660 TTTTTATATTTTCATATTTTTTTCATAATTTATATAA
1 TTTTTAT-TTTT-ATA-TTTTTT-ATATTTTA-ATAA
25199697 TTTTTAATTTTT-TAATTTTTTA-ATTTTAATAA
1 TTTTT-ATTTTTAT-ATTTTTTATATTTTAATAA
25199729 TTTTT
1 TTTTT
25199734 GAGTCAGTTA
Statistics
Matches: 65, Mismatches: 3, Indels: 17
0.76 0.04 0.20
Matches are distributed among these distances:
32 9 0.14
33 5 0.08
34 1 0.02
35 7 0.11
36 7 0.11
37 29 0.45
38 7 0.11
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.68
Consensus pattern (32 bp):
TTTTTATTTTTATATTTTTTATATTTTAATAA
Found at i:25199863 original size:24 final size:23
Alignment explanation
Indices: 25199835--25199902 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
25199825 TTTTAAAATA
25199835 TTATCATAATTTTTGTAATTTTTT
1 TTATCATAATTTTT-TAATTTTTT
* * *
25199859 TTATCACAATTCATATAA--TTTT
1 TTATCATAATT-TTTTAATTTTTT
25199881 TTAT-AT-ATTTTTTAATTTTTT
1 TTATCATAATTTTTTAATTTTTT
25199902 T
1 T
25199903 ACTTTTCTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
19 4 0.11
20 3 0.09
21 6 0.17
22 8 0.23
24 13 0.37
25 1 0.03
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (23 bp):
TTATCATAATTTTTTAATTTTTT
Found at i:25199915 original size:19 final size:19
Alignment explanation
Indices: 25199872--25199932 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
25199862 TCACAATTCA
25199872 TATAATTTTTTATATATTT
1 TATAATTTTTTATATATTT
*
25199891 TTTAATTTTTT-TACT-TTT
1 TATAATTTTTTATA-TATTT
*
25199909 CTATAATTTTATA-ATATTT
1 -TATAATTTTTTATATATTT
25199928 T-TAAT
1 TATAAT
25199933 AAGGTACTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
17 4 0.11
18 7 0.20
19 24 0.69
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
TATAATTTTTTATATATTT
Found at i:25200006 original size:9 final size:9
Alignment explanation
Indices: 25199986--25200054 Score: 50
Period size: 10 Copynumber: 7.2 Consensus size: 9
25199976 AAAATTTCAG
25199986 TTTTATATTT
1 TTTTATA-TT
25199996 TTTTATATT
1 TTTTATATT
* *
25200005 TTTCA-AAT
1 TTTTATATT
25200013 TTTTAGTATT
1 TTTTA-TATT
*
25200023 TGTTTATGTT
1 T-TTTATATT
*
25200033 TTTCTATAAT
1 TTT-TATATT
25200043 TTTTATGATT
1 TTTTAT-ATT
25200053 TT
1 TT
25200055 GAGTATAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
8 6 0.13
9 11 0.24
10 25 0.54
11 4 0.09
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.70
Consensus pattern (9 bp):
TTTTATATT
Found at i:25200022 original size:28 final size:29
Alignment explanation
Indices: 25199986--25200053 Score: 86
Period size: 28 Copynumber: 2.3 Consensus size: 29
25199976 AAAATTTCAG
*
25199986 TTTTATATTTTTTTATATTTTTC-A-AAT
1 TTTTATATTTGTTTATATTTTTCTATAAT
*
25200013 TTTTAGTATTTGTTTATGTTTTTCTATAAT
1 TTTTA-TATTTGTTTATATTTTTCTATAAT
25200043 TTTTATGATTT
1 TTTTAT-ATTT
25200054 TGAGTATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 5 0.14
28 16 0.46
29 2 0.06
30 12 0.34
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.69
Consensus pattern (29 bp):
TTTTATATTTGTTTATATTTTTCTATAAT
Found at i:25200187 original size:31 final size:31
Alignment explanation
Indices: 25200150--25200226 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
25200140 CAAAGAGCTT
* *
25200150 AATTGATTGAAAATTTGACATTTAGGGATTG
1 AATTGATTGAAAAATTGACATTTAGAGATTG
25200181 AATTGATTGAAAAATTGACATTTAGAGATTG
1 AATTGATTGAAAAATTGACATTTAGAGATTG
*
25200212 AATTGAGTGTAAAAA
1 AATTGATTG-AAAAA
25200227 AATATTGGGG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 37 0.88
32 5 0.12
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.35
Consensus pattern (31 bp):
AATTGATTGAAAAATTGACATTTAGAGATTG
Found at i:25217282 original size:15 final size:15
Alignment explanation
Indices: 25217259--25217288 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25217249 AAAGTAACCC
*
25217259 TCTCTGAGAAGTGAA
1 TCTCGGAGAAGTGAA
25217274 TCTCGGAGAAGTGAA
1 TCTCGGAGAAGTGAA
25217289 ACAACACACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.23
Consensus pattern (15 bp):
TCTCGGAGAAGTGAA
Found at i:25219228 original size:50 final size:50
Alignment explanation
Indices: 25219088--25219331 Score: 353
Period size: 50 Copynumber: 4.8 Consensus size: 50
25219078 GATAATAACA
* ** *
25219088 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* ** * *
25219139 TGCCCATTCCATAATCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAACGCCAT-GTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
25219190 TGCCAACGCCATGTCCAAGACATGGTCTTACATAGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
25219240 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
25219290 TGCCAACGCCATGTCCCATACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
25219332 TTACCCAAAT
Statistics
Matches: 173, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
50 122 0.71
51 28 0.16
52 23 0.13
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:25222025 original size:16 final size:17
Alignment explanation
Indices: 25222001--25222033 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
25221991 ATTATCATTT
25222001 TTTTCAATTATATTATA
1 TTTTCAATTATATTATA
*
25222018 TTTT-AATTATTTTATA
1 TTTTCAATTATATTATA
25222034 AAGTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTCAATTATATTATA
Found at i:25222855 original size:16 final size:16
Alignment explanation
Indices: 25222836--25222868 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
25222826 GTTTAGGGTT
25222836 TAGGGTTTTTATTTTC
1 TAGGGTTTTTATTTTC
25222852 TAGGGTTTTTATTTTC
1 TAGGGTTTTTATTTTC
25222868 T
1 T
25222869 CTTCTCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.18, T:0.64
Consensus pattern (16 bp):
TAGGGTTTTTATTTTC
Found at i:25233443 original size:45 final size:45
Alignment explanation
Indices: 25233394--25233560 Score: 167
Period size: 45 Copynumber: 3.7 Consensus size: 45
25233384 TATAGGAATT
* * *
25233394 GAGTAAAACCATAGTTGAAAGACGCTATGGCATCA-GAATTTAGAC
1 GAGTAAAACCATAGCTGAAAGACACTATGGCATCACG-ATTTAGAA
* * * *
25233439 GAGTAAGACCATCGCTAAAAGACACTATGGCATAACGATTTAGATA
1 GAGTAAAACCATAGCTGAAAGACACTATGGCATCACGATTTAGA-A
** ** * * *
25233485 -AGTAAGTCCATAGCTGAAAGATGCTATGACATCACGATTCAAAA
1 GAGTAAAACCATAGCTGAAAGACACTATGGCATCACGATTTAGAA
*
25233529 GAGTAAAACCATAGTTGAAAGACACTATGGCA
1 GAGTAAAACCATAGCTGAAAGACACTATGGCA
25233561 ACATGACGGG
Statistics
Matches: 97, Mismatches: 22, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
44 1 0.01
45 95 0.98
46 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (45 bp):
GAGTAAAACCATAGCTGAAAGACACTATGGCATCACGATTTAGAA
Found at i:25233715 original size:13 final size:13
Alignment explanation
Indices: 25233697--25233886 Score: 84
Period size: 13 Copynumber: 14.5 Consensus size: 13
25233687 ATGACGAATG
*
25233697 GTTATATGAATTA
1 GTTATATGAAATA
** *
25233710 GTTATACAAAATG
1 GTTATATGAAATA
*
25233723 GTTATGTGAAAT-
1 GTTATATGAAATA
* * *
25233735 GATTATAAGAATTG
1 G-TTATATGAAATA
25233749 GTTATATGGAAATA
1 GTTATAT-GAAATA
* * *
25233763 GATGTATGAAAGA
1 GTTATATGAAATA
* *
25233776 GTTGTATGAATTA
1 GTTATATGAAATA
*
25233789 GTTATATGGAAACA
1 GTTATAT-GAAATA
* * **
25233803 GATAAACAAAATA
1 GTTATATGAAATA
*
25233816 ATTATATG-AATCA
1 GTTATATGAAAT-A
*
25233829 GATATATGGAAATA
1 GTTATAT-GAAATA
* *
25233843 ATTATATGAAGT-
1 GTTATATGAAATA
25233855 GTTATATGAAAT-
1 GTTATATGAAATA
*
25233867 GTTTATAT-AGATA
1 G-TTATATGAAATA
25233880 GTTATAT
1 GTTATAT
25233887 TTAAAAAGAG
Statistics
Matches: 128, Mismatches: 40, Indels: 19
0.68 0.21 0.10
Matches are distributed among these distances:
12 24 0.19
13 76 0.59
14 25 0.20
15 3 0.02
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.36
Consensus pattern (13 bp):
GTTATATGAAATA
Found at i:25233820 original size:27 final size:28
Alignment explanation
Indices: 25233790--25233850 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
25233780 TATGAATTAG
25233790 TTATATGGAAACAGATA-AACAAAATAA
1 TTATATGGAAACAGATATAACAAAATAA
* ***
25233817 TTATAT-GAATCAGATATATGGAAATAA
1 TTATATGGAAACAGATATAACAAAATAA
25233844 TTATATG
1 TTATATG
25233851 AAGTGTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (28 bp):
TTATATGGAAACAGATATAACAAAATAA
Found at i:25236799 original size:21 final size:20
Alignment explanation
Indices: 25236773--25236818 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
25236763 TATCCATTAA
*
25236773 TAAAAATATAATTATATTAT-T
1 TAAAAATAAAATT-TA-TATCT
25236794 TAAAAATAAAATTTATATCT
1 TAAAAATAAAATTTATATCT
25236814 TAAAA
1 TAAAA
25236819 TTTAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 3 0.13
20 8 0.35
21 12 0.52
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAAATAAAATTTATATCT
Found at i:25238542 original size:33 final size:34
Alignment explanation
Indices: 25238505--25238571 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 34
25238495 TATGAGAGAA
**
25238505 CTCTATGAAAGTTAGGATTT-TTTTTTAGGTTTT
1 CTCTATGAAAGTTAGGATTTATTTTCAAGGTTTT
25238538 CTCTATGAAAGTTAGGATTTATTTTCAAGGTTTT
1 CTCTATGAAAGTTAGGATTTATTTTCAAGGTTTT
25238572 GGGTTTGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 20 0.65
34 11 0.35
ACGTcount: A:0.24, C:0.07, G:0.18, T:0.51
Consensus pattern (34 bp):
CTCTATGAAAGTTAGGATTTATTTTCAAGGTTTT
Found at i:25242276 original size:13 final size:13
Alignment explanation
Indices: 25242258--25242284 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25242248 ATGTTTGCTT
25242258 ACTGAAAAAGTCC
1 ACTGAAAAAGTCC
25242271 ACTGAAAAAGTCC
1 ACTGAAAAAGTCC
25242284 A
1 A
25242285 TTTACACTTT
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:0.48, C:0.22, G:0.15, T:0.15
Consensus pattern (13 bp):
ACTGAAAAAGTCC
Found at i:25246990 original size:34 final size:35
Alignment explanation
Indices: 25246952--25247018 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
25246942 TTGAGATAAC
*
25246952 TCTATGAAAGTTAG-GGTTTGGTTTTCAGGTTTGT
1 TCTATGAAAGTTAGAGCTTTGGTTTTCAGGTTTGT
* * *
25246986 TCTATGAGAGTTAGAGCTTTGTTTTTGAGGTTT
1 TCTATGAAAGTTAGAGCTTTGGTTTTCAGGTTT
25247019 TGGGTTTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 13 0.46
35 15 0.54
ACGTcount: A:0.18, C:0.06, G:0.28, T:0.48
Consensus pattern (35 bp):
TCTATGAAAGTTAGAGCTTTGGTTTTCAGGTTTGT
Found at i:25248212 original size:70 final size:72
Alignment explanation
Indices: 25248086--25248230 Score: 206
Period size: 70 Copynumber: 2.0 Consensus size: 72
25248076 TTACTATCAC
* * *
25248086 TTGCTTATTGAATAGAGTTGACTATTTGTTTTTGATAAGGAGGTGATTAGAACATCTCATTTTAT
1 TTGCTTATTGAATAGAGGTGACTATTTGTTTTTGATAAGAAGGTGATTAAAACATCTCATTTTAT
25248151 TCAAA-A
66 TCAAATA
* * *
25248157 TTGCTTATTGGATAGAGGT-ACTGTTTGTTTTTTATAAGAAGGT-ATTTAAAACATCTCATTTTA
1 TTGCTTATTGAATAGAGGTGACTATTTGTTTTTGATAAGAAGGTGA-TTAAAACATCTCATTTTA
25248220 TTCAAATA
65 TTCAAATA
25248228 TTG
1 TTG
25248231 TAATTTTCTG
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
69 1 0.02
70 44 0.67
71 21 0.32
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.44
Consensus pattern (72 bp):
TTGCTTATTGAATAGAGGTGACTATTTGTTTTTGATAAGAAGGTGATTAAAACATCTCATTTTAT
TCAAATA
Found at i:25248984 original size:46 final size:46
Alignment explanation
Indices: 25248931--25249061 Score: 171
Period size: 43 Copynumber: 2.9 Consensus size: 46
25248921 GTCTATGTGT
25248931 TAGGATATTATTATGAGATATTATCTCTTAGCAATTTGAGTT-TTAA
1 TAGGATATTATTATGAGATATTATCTCTTAGCAATTTGA-TTCTTAA
* * *
25248977 TAGGATATCA-TA-G-GATATTATCTCTTAGCAATTTTATTCTTAG
1 TAGGATATTATTATGAGATATTATCTCTTAGCAATTTGATTCTTAA
* * *
25249020 TAGGATATTATTATAAGATATTATCTTTTAGTAATTTGATTC
1 TAGGATATTATTATGAGATATTATCTCTTAGCAATTTGATTC
25249062 CTACGTAACT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
42 2 0.03
43 34 0.47
44 3 0.04
45 2 0.03
46 32 0.44
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.47
Consensus pattern (46 bp):
TAGGATATTATTATGAGATATTATCTCTTAGCAATTTGATTCTTAA
Found at i:25253602 original size:43 final size:44
Alignment explanation
Indices: 25253540--25253625 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 44
25253530 AGGGGGGTGT
**
25253540 TAGGATTATTATGGGATATTATCT-TTCAACAATTTGATCCCTAA
1 TAGGATTATTATACGATATTATCTCTT-AACAATTTGATCCCTAA
* *
25253584 TAGGA-TATTATACGATATTATCTCTTAGCAATTTGATTCCTA
1 TAGGATTATTATACGATATTATCTCTTAACAATTTGATCCCTA
25253626 CGTAACTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 30 0.81
44 7 0.19
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (44 bp):
TAGGATTATTATACGATATTATCTCTTAACAATTTGATCCCTAA
Found at i:25254922 original size:41 final size:41
Alignment explanation
Indices: 25254864--25255032 Score: 162
Period size: 41 Copynumber: 4.1 Consensus size: 41
25254854 GTACTGGAGA
* * * *
25254864 TATTGTATTAGGTCTTGAACCTAGCAGGCTTTGTGCCGGTA
1 TATTGAATTAGGCCTTGAGCCTAGCAGGCTTTGTGCCGGTG
* * *
25254905 TATT-ATGTTAGGCCTTGAGCCTAGTAGGCTTTGTACCGGTG
1 TATTGA-ATTAGGCCTTGAGCCTAGCAGGCTTTGTGCCGGTG
* * * *
25254946 TATTGAATCAGACCTTGAGCCTAGCAAGCTTTGAGCCGGTG
1 TATTGAATTAGGCCTTGAGCCTAGCAGGCTTTGTGCCGGTG
* * * * *
25254987 TATTGCATCAAGCCTTCAGCCTAGCAGGCTTCT-TGTCGGTG
1 TATTGAATTAGGCCTTGAGCCTAGCAGGCTT-TGTGCCGGTG
25255028 TATTG
1 TATTG
25255033 TATCAAGTAA
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
41 102 0.98
42 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (41 bp):
TATTGAATTAGGCCTTGAGCCTAGCAGGCTTTGTGCCGGTG
Found at i:25267937 original size:23 final size:22
Alignment explanation
Indices: 25267894--25267937 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
25267884 TTCTAAGTCG
25267894 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
25267917 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
25267938 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:25268094 original size:51 final size:50
Alignment explanation
Indices: 25268032--25268222 Score: 197
Period size: 51 Copynumber: 3.8 Consensus size: 50
25268022 ATGTCCAGCT
* * *
25268032 CACATAGTAGCCTACACATAGTACTAGACATGTGACCATTACCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATCCGGTA
* * * * * * *
25268083 CACTTAGTAGCCTGCACATGGTACTACACACGTGATCGAAACTATCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCATCCGGTA
* * * *
25268134 CGCATAGTAGCATGCACATAGTACTACACATGCGACC-TATCATTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-TCCGGTA
*
25268184 CACATAGTAGCCTGTACATAGTACTACACACT-TGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACA-TGTGACCAT
25268223 CACTTTCACT
Statistics
Matches: 111, Mismatches: 25, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
49 2 0.02
50 38 0.34
51 69 0.62
52 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATACCATCCGGTA
Found at i:25276523 original size:42 final size:42
Alignment explanation
Indices: 25276464--25276553 Score: 128
Period size: 42 Copynumber: 2.1 Consensus size: 42
25276454 ACAACCTAGC
* *
25276464 ACACGGCCTAGAACACGGGTC-TGTGTGGCAACTTAGAGAGTT
1 ACACGGCCTAGAACACGGG-CATGTGGGGCAACTCAGAGAGTT
* *
25276506 ACACGGCCTAGCACACGGGCATGTGGGGCAACTCAGTGAGTT
1 ACACGGCCTAGAACACGGGCATGTGGGGCAACTCAGAGAGTT
25276548 ACACGG
1 ACACGG
25276554 GTGAATACAC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 42 0.98
ACGTcount: A:0.26, C:0.24, G:0.32, T:0.18
Consensus pattern (42 bp):
ACACGGCCTAGAACACGGGCATGTGGGGCAACTCAGAGAGTT
Found at i:25280492 original size:26 final size:24
Alignment explanation
Indices: 25280435--25280531 Score: 77
Period size: 26 Copynumber: 3.8 Consensus size: 24
25280425 TGAGTGTCCC
* *
25280435 ATTATATGGCTCTTCATGAGCTTTCCG
1 ATTA-ATGGCTCTTTA-GAGC-TTCCA
* * *
25280462 CTTAAAGGCTCTTTGTGAGCTTCCTA
1 ATTAATGGCTCTTT-AGAGCTTCC-A
* *
25280488 ATTAATGGCTCTCTAGAGCTTCCC
1 ATTAATGGCTCTTTAGAGCTTCCA
*
25280512 ATTAATGGCTCTTCAGAGCT
1 ATTAATGGCTCTTTAGAGCT
25280532 ACCTGTTTTT
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
24 18 0.32
25 12 0.21
26 23 0.41
27 3 0.05
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.37
Consensus pattern (24 bp):
ATTAATGGCTCTTTAGAGCTTCCA
Found at i:25280651 original size:25 final size:24
Alignment explanation
Indices: 25280478--25280644 Score: 90
Period size: 24 Copynumber: 6.8 Consensus size: 24
25280468 GGCTCTTTGT
* *
25280478 GAGCTTCCTAATTAATGGCTCTCTA
1 GAGCTTCCT-GTTAATGGCTCTCAA
**
25280503 GAGCTTCCCATTAATGGCTCTTC-A
1 GAGCTTCCTGTTAATGGCTC-TCAA
* ** * *
25280527 GAGCTACCTGTTTTTGGCTCGCAT
1 GAGCTTCCTGTTAATGGCTCTCAA
* * *
25280551 GAGCTTCCTAATT-ATGGCTCTTAT
1 GAGCTTCCT-GTTAATGGCTCTCAA
* **
25280575 GAGCTTCCCGTTATACAGC-C-CAAA
1 GAGCTTCCTGTTA-ATGGCTCTC-AA
* *
25280599 TAAGCTTCTTGTTAATGGCTCTCAA
1 -GAGCTTCCTGTTAATGGCTCTCAA
25280624 GAGCTTCCTGTTATATGGCTC
1 GAGCTTCCTGTTA-ATGGCTC
25280645 GAGAGAGGGC
Statistics
Matches: 106, Mismatches: 26, Indels: 20
0.70 0.17 0.13
Matches are distributed among these distances:
23 3 0.03
24 67 0.63
25 35 0.33
26 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (24 bp):
GAGCTTCCTGTTAATGGCTCTCAA
Found at i:25283991 original size:40 final size:40
Alignment explanation
Indices: 25283936--25284018 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
25283926 GTCTTTGAGG
25283936 ATATGGAGGACATGAATAAAATATACCTTATTGAACTAAC
1 ATATGGAGGACATGAATAAAATATACCTTATTGAACTAAC
25283976 ATATGGAGGACATGAATAAAATATACCTTATTGAACTAAC
1 ATATGGAGGACATGAATAAAATATACCTTATTGAACTAAC
25284016 ATA
1 ATA
25284019 ATCATCCTAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (40 bp):
ATATGGAGGACATGAATAAAATATACCTTATTGAACTAAC
Found at i:25284174 original size:36 final size:36
Alignment explanation
Indices: 25284123--25284195 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
25284113 AGTAAACTCT
*
25284123 ATTCAACTCAATAGCCTTTTAGATCTATTCTAACTA
1 ATTCAACTCAATAGCCTTTCAGATCTATTCTAACTA
* * *
25284159 ATTCAATTCAGTAGCCTTTCGGATCTATTCTAACTA
1 ATTCAACTCAATAGCCTTTCAGATCTATTCTAACTA
25284195 A
1 A
25284196 AGCGCTCCTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (36 bp):
ATTCAACTCAATAGCCTTTCAGATCTATTCTAACTA
Found at i:25285791 original size:11 final size:11
Alignment explanation
Indices: 25285774--25285810 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
25285764 GAATGAGGAC
25285774 TGATTGAGGGA
1 TGATTGAGGGA
*
25285785 TGCTTGAGGGA
1 TGATTGAGGGA
*
25285796 TGATTGAGTGA
1 TGATTGAGGGA
25285807 TGAT
1 TGAT
25285811 GAATGAAGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.24, C:0.03, G:0.41, T:0.32
Consensus pattern (11 bp):
TGATTGAGGGA
Found at i:25288911 original size:23 final size:21
Alignment explanation
Indices: 25288885--25288927 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
25288875 TTATGCTGCA
* *
25288885 ACACACACCTTGTGTTGAGCC
1 ACACACACCCTATGTTGAGCC
25288906 ACACACACCCTATGTTGAGCC
1 ACACACACCCTATGTTGAGCC
25288927 A
1 A
25288928 TAGCCTGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.35, G:0.16, T:0.21
Consensus pattern (21 bp):
ACACACACCCTATGTTGAGCC
Found at i:25289260 original size:13 final size:13
Alignment explanation
Indices: 25289239--25289284 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
25289229 GAGCATTCTC
* *
25289239 TTTACTCTTTTAT
1 TTTATTCTTCTAT
25289252 TTTATTCTTCTAT
1 TTTATTCTTCTAT
25289265 TTTATTCTTCTAT
1 TTTATTCTTCTAT
25289278 TTATATT
1 TT-TATT
25289285 TTGTTAACCT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
13 26 0.87
14 4 0.13
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTATTCTTCTAT
Found at i:25298515 original size:125 final size:125
Alignment explanation
Indices: 25298287--25298603 Score: 447
Period size: 125 Copynumber: 2.5 Consensus size: 125
25298277 GATAAAATCA
* * * *
25298287 AAGCAGGATGCTTTATC-GAAAGAATTTCTGAAATTGCGCCCACGTGGACGCACTTTTGCTATAG
1 AAGCAGGATGCTTTATCAG-AAGAATTTCTGAAATCGCGCCCACATGGACGCGCTTTTGCTACAG
* * *
25298351 TTGGTCCTGAAAAAATAATTTCAAGTTGACGTTTTTGAGCGAATAGTATAAAAAACGCTTC
65 TAGGTCCTGAAAAAATAATTTCAAGTTGACATTTCTGAGCGAATAGTATAAAAAACGCTTC
* *
25298412 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACATGGACGTGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACATGGACGCGCTTTTGCTACAGT
* *
25298477 AGGTCCTGAACAAATAATTTCGAGTTGACATTTCTGAGCGAATAGTATAAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTCAAGTTGACATTTCTGAGCGAATAGTATAAAAAACGCTTC
* * * * * * * *
25298537 AAGCAGGATGCTTTATCAAAAAAATTTATGAAATCACACCCTCATGGACGCGTTTTTACTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACATGGACGCGCTTTTGCTACAGT
25298602 AG
66 AG
25298604 CATGTTTGGG
Statistics
Matches: 170, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
125 169 0.99
126 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (125 bp):
AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACATGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCAAGTTGACATTTCTGAGCGAATAGTATAAAAAACGCTTC
Found at i:25301671 original size:59 final size:59
Alignment explanation
Indices: 25301579--25301703 Score: 232
Period size: 59 Copynumber: 2.1 Consensus size: 59
25301569 CATTGTAAAC
*
25301579 AAATTATATTTTTTTGTACCAATCAAAATATTTTGTAAAAACGCAATAGTTTGTTAGTA
1 AAATTATATTTTTTTGTACCAATCAAAACATTTTGTAAAAACGCAATAGTTTGTTAGTA
*
25301638 AAATTATATTTTTTTGTACCAATCAAAACATTTTGTAAAAACGCTATAGTTTGTTAGTA
1 AAATTATATTTTTTTGTACCAATCAAAACATTTTGTAAAAACGCAATAGTTTGTTAGTA
25301697 AAATTAT
1 AAATTAT
25301704 TAATTGTTAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (59 bp):
AAATTATATTTTTTTGTACCAATCAAAACATTTTGTAAAAACGCAATAGTTTGTTAGTA
Found at i:25301819 original size:22 final size:21
Alignment explanation
Indices: 25301767--25301885 Score: 141
Period size: 22 Copynumber: 5.6 Consensus size: 21
25301757 GGTTAGGTTT
*
25301767 AGGGTTA-GGATTTTAAGTTA
1 AGGGTTAGGGTTTTTAAGTTA
25301787 AGGGTTAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTTTTAAGTTA
* *
25301808 TGGGTTTAGGGTTTTTAAGTTG
1 AGGG-TTAGGGTTTTTAAGTTA
***
25301830 TTTGTTAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTTTTAAGTTA
25301851 AGGGTTTAGGGTTTTTAAGTTAA
1 AGGG-TTAGGGTTTTTAAGTT-A
*
25301874 AGTGTTAGGGTT
1 AGGGTTAGGGTT
25301886 AGGGTTTCTG
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
20 7 0.08
21 32 0.38
22 42 0.49
23 4 0.05
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (21 bp):
AGGGTTAGGGTTTTTAAGTTA
Found at i:25301827 original size:43 final size:43
Alignment explanation
Indices: 25301777--25301885 Score: 164
Period size: 43 Copynumber: 2.5 Consensus size: 43
25301767 AGGGTTAGGA
* *
25301777 TTTTAAGTTAAGGGTTAGGGTTTTTAAGTTATGGGTTTAGGGT
1 TTTTAAGTTAAGTGTTAGGGTTTTTAAGTTAAGGGTTTAGGGT
***
25301820 TTTTAAGTTGTTTGTTAGGGTTTTTAAGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGTGTTAGGGTTTTTAAGTTAAGGGTTTAGGGT
25301863 TTTTAAGTTAAAGTGTTAGGGTT
1 TTTTAAGTT-AAGTGTTAGGGTT
25301886 AGGGTTTCTG
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 47 0.82
44 10 0.18
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (43 bp):
TTTTAAGTTAAGTGTTAGGGTTTTTAAGTTAAGGGTTTAGGGT
Found at i:25302005 original size:107 final size:108
Alignment explanation
Indices: 25301854--25302086 Score: 364
Period size: 107 Copynumber: 2.1 Consensus size: 108
25301844 TAAGTTAAGG
25301854 GTTTAGGGTTTTTAAGTTAAAGTGTTAGGGTTAGGGTTTCTGTTAAGGTTTGTCAATTAATATCA
1 GTTTAGGG-TTTTAAGTTAAAGTGTTAGGGTTAGGGTTTCTGTTAAGGTTTGTCAATTAA-ATCA
25301919 AAATT-TAATTATAAATTT-TAAATTTATAAATTTTTAATAAATTA
64 AAATTATAATTAT-AATTTATAAATTTATAAATTTTTAATAAATTA
* * * *
25301963 GTTTAGGGTTTTAAGTTAAAG-GTTAGGGTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATA
1 GTTTAGGGTTTTAAGTTAAAGTGTTAGGGTTAGGGTTTCTGTTAAGGTTTGTCAATTAAATCAAA
25302027 ATTATAATTATAATTTATAAATTTATAAATTTTTAATAAATTA
66 ATTATAATTATAATTTATAAATTTATAAATTTTTAATAAATTA
*
25302070 GTTTAGGTTTTTTAAGT
1 GTTTAGG-GTTTTAAGT
25302087 AATACCTCAA
Statistics
Matches: 116, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
106 12 0.10
107 75 0.65
108 21 0.18
109 8 0.07
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (108 bp):
GTTTAGGGTTTTAAGTTAAAGTGTTAGGGTTAGGGTTTCTGTTAAGGTTTGTCAATTAAATCAAA
ATTATAATTATAATTTATAAATTTATAAATTTTTAATAAATTA
Found at i:25303308 original size:16 final size:16
Alignment explanation
Indices: 25303287--25303319 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
25303277 ATTTCATACT
25303287 TACATGTGCTTCTGAC
1 TACATGTGCTTCTGAC
25303303 TACATGTGCTTCTGAC
1 TACATGTGCTTCTGAC
25303319 T
1 T
25303320 GTTGGTCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.39
Consensus pattern (16 bp):
TACATGTGCTTCTGAC
Found at i:25304478 original size:22 final size:21
Alignment explanation
Indices: 25304450--25304535 Score: 84
Period size: 22 Copynumber: 3.9 Consensus size: 21
25304440 AAATATGGAT
25304450 TTGAGAGAAACTTG-GAAGAAAA
1 TTGAGAGAAA-TTGAG-AGAAAA
* *
25304472 TTGAGAGCAAATTGAGAGCAAT
1 TTGAGAG-AAATTGAGAGAAAA
25304494 TTGAGAGAAATTTGAGAGAAAA
1 TTGAGAGAAA-TTGAGAGAAAA
*
25304516 TTGAGAAAATAATTGAGAGA
1 TTGAG-AGA-AATTGAGAGA
25304536 GGATTAGTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
21 3 0.06
22 35 0.65
23 14 0.26
24 2 0.04
ACGTcount: A:0.48, C:0.03, G:0.27, T:0.22
Consensus pattern (21 bp):
TTGAGAGAAATTGAGAGAAAA
Found at i:25304483 original size:11 final size:11
Alignment explanation
Indices: 25304469--25304521 Score: 72
Period size: 11 Copynumber: 4.8 Consensus size: 11
25304459 ACTTGGAAGA
25304469 AAATTGAGAGC
1 AAATTGAGAGC
25304480 AAATTGAGAGC
1 AAATTGAGAGC
*
25304491 AATTTGAGAG-
1 AAATTGAGAGC
*
25304501 AAATTTGAGAGA
1 AAA-TTGAGAGC
25304513 AAATTGAGA
1 AAATTGAGA
25304522 AAATAATTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
10 2 0.05
11 33 0.87
12 3 0.08
ACGTcount: A:0.47, C:0.04, G:0.26, T:0.23
Consensus pattern (11 bp):
AAATTGAGAGC
Found at i:25304488 original size:33 final size:33
Alignment explanation
Indices: 25304450--25304525 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
25304440 AAATATGGAT
*
25304450 TTGAGAGAAACTTGGA-AGAAAATTGAGAGCAAA
1 TTGAGAGAAA-TTGGAGAGAAAATTGAGAGAAAA
* * *
25304483 TTGAGAGCAATTTGAGAGAAATTTGAGAGAAAA
1 TTGAGAGAAATTGGAGAGAAAATTGAGAGAAAA
25304516 TTGAGA-AAAT
1 TTGAGAGAAAT
25304526 AATTGAGAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 7 0.19
33 30 0.81
ACGTcount: A:0.47, C:0.04, G:0.26, T:0.22
Consensus pattern (33 bp):
TTGAGAGAAATTGGAGAGAAAATTGAGAGAAAA
Found at i:25304529 original size:12 final size:11
Alignment explanation
Indices: 25304450--25304533 Score: 53
Period size: 11 Copynumber: 7.5 Consensus size: 11
25304440 AAATATGGAT
* *
25304450 TTGAGAGAAAC
1 TTGAGAAAAAA
25304461 TTG-GAAGAAAA
1 TTGAGAA-AAAA
**
25304472 TTGAGAGCAAA
1 TTGAGAAAAAA
** *
25304483 TTGAGAGCAAT
1 TTGAGAAAAAA
* *
25304494 TTGAGAGAAAT
1 TTGAGAAAAAA
*
25304505 TTGAGAGAAAA
1 TTGAGAAAAAA
25304516 TTGAGAAAATAA
1 TTGAGAAAA-AA
25304528 TTGAGA
1 TTGAGA
25304534 GAGGATTAGT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
10 2 0.03
11 50 0.81
12 10 0.16
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.23
Consensus pattern (11 bp):
TTGAGAAAAAA
Found at i:25305813 original size:2 final size:2
Alignment explanation
Indices: 25305806--25305830 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25305796 CATGTTTTGA
25305806 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
25305831 AACACTTTCT
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:25315789 original size:25 final size:25
Alignment explanation
Indices: 25315748--25315795 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
25315738 CAAAAGCTAC
* *
25315748 GACAAATGCTTGGAGTTTGCAAGGT
1 GACAAATGCTAGGAGTTAGCAAGGT
25315773 GACAAATGC-AGGAAGTTAGCAAG
1 GACAAATGCTAGG-AGTTAGCAAG
25315796 ATTTTTTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.21
Consensus pattern (25 bp):
GACAAATGCTAGGAGTTAGCAAGGT
Found at i:25316844 original size:110 final size:110
Alignment explanation
Indices: 25316638--25316949 Score: 537
Period size: 110 Copynumber: 2.9 Consensus size: 110
25316628 TTTTTATTGT
* *
25316638 AATTTTTATGTTTTTTTAATTTATTTTAAAGTTATTTTGTTAGTAA-CTA---TTA--TAAATTA
1 AATTTTTATGTTTTTTT-ATTTATTTTAAAGTTATTTTGTTAGTAATTTATGGTTAGGTTAATTA
* *
25316697 TTTGTCTATTTTAATATTTATTGTGATTTGTTAGGTTATGAATGTA
65 TTTGTTTAGTTTAATATTTATTGTGATTTGTTAGGTTATGAATGTA
25316743 AATTTTTATGTTTTTTTATTTATTTTAAAGTTATTTTGTTAGTAATTTATGGTTAGGTTAATTAT
1 AATTTTTATGTTTTTTTATTTATTTTAAAGTTATTTTGTTAGTAATTTATGGTTAGGTTAATTAT
25316808 TTGTTTAGTTTAATATTTATTGTGATTTGTTAGGTTATGAATGTA
66 TTGTTTAGTTTAATATTTATTGTGATTTGTTAGGTTATGAATGTA
25316853 AATTTTTATGTTTTTTTATTTATTTTAAAGTTATTTTGTTAGTAATTTATGGTTAGGTTAATTAT
1 AATTTTTATGTTTTTTTATTTATTTTAAAGTTATTTTGTTAGTAATTTATGGTTAGGTTAATTAT
25316918 TTGTTTAGTTTAATATTTATTGTGATTTGTTA
66 TTGTTTAGTTTAATATTTATTGTGATTTGTTA
25316950 TGAATGTAAT
Statistics
Matches: 197, Mismatches: 4, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
104 28 0.14
105 19 0.10
108 3 0.02
110 147 0.75
ACGTcount: A:0.26, C:0.01, G:0.13, T:0.60
Consensus pattern (110 bp):
AATTTTTATGTTTTTTTATTTATTTTAAAGTTATTTTGTTAGTAATTTATGGTTAGGTTAATTAT
TTGTTTAGTTTAATATTTATTGTGATTTGTTAGGTTATGAATGTA
Found at i:25317649 original size:12 final size:12
Alignment explanation
Indices: 25317632--25317656 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25317622 GGTGTTCATT
25317632 CGGTTAACCGAC
1 CGGTTAACCGAC
25317644 CGGTTAACCGAC
1 CGGTTAACCGAC
25317656 C
1 C
25317657 CGAAATTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:25317865 original size:20 final size:20
Alignment explanation
Indices: 25317836--25317883 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
25317826 CGATTAACCG
* *
25317836 AATTAACCGAATTACCCGAA
1 AATTACCCGAATTACCCAAA
25317856 AATTACCCGAATTACCCAAA
1 AATTACCCGAATTACCCAAA
25317876 AATTACCC
1 AATTACCC
25317884 AAAAAGTTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.44, C:0.29, G:0.06, T:0.21
Consensus pattern (20 bp):
AATTACCCGAATTACCCAAA
Found at i:25317870 original size:9 final size:9
Alignment explanation
Indices: 25317824--25317872 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
25317814 TAAAAATATC
25317824 CCCG-ATTA
1 CCCGAATTA
*
25317832 ACCGAATTA
1 CCCGAATTA
*
25317841 ACCGAATTA
1 CCCGAATTA
25317850 CCCGAAAATTA
1 CCCG--AATTA
25317861 CCCGAATTA
1 CCCGAATTA
25317870 CCC
1 CCC
25317873 AAAAATTACC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
8 3 0.08
9 24 0.67
11 9 0.25
ACGTcount: A:0.37, C:0.33, G:0.10, T:0.20
Consensus pattern (9 bp):
CCCGAATTA
Found at i:25317888 original size:11 final size:11
Alignment explanation
Indices: 25317845--25317888 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
25317835 GAATTAACCG
*
25317845 AATTACCCGAA
1 AATTACCCAAA
*
25317856 AATTACCC--G
1 AATTACCCAAA
25317865 AATTACCCAAA
1 AATTACCCAAA
25317876 AATTACCCAAA
1 AATTACCCAAA
25317887 AA
1 AA
25317889 GTTCGGTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 8 0.28
11 21 0.72
ACGTcount: A:0.50, C:0.27, G:0.05, T:0.18
Consensus pattern (11 bp):
AATTACCCAAA
Found at i:25319927 original size:33 final size:36
Alignment explanation
Indices: 25319861--25319942 Score: 116
Period size: 33 Copynumber: 2.4 Consensus size: 36
25319851 TGGAACAAGC
*
25319861 TTGGAACAAACTTTGTATTTATTTAATTGAGATTCA
1 TTGGAACAAACTTTGTATTTATTAAATTGAGATTCA
*
25319897 TTGGAACAAATTTTGTA-TT-TTAAATT-AGATTCA
1 TTGGAACAAACTTTGTATTTATTAAATTGAGATTCA
*
25319930 TTGGTACAAACTT
1 TTGGAACAAACTT
25319943 GGAACAAACT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
33 18 0.43
34 6 0.14
35 2 0.05
36 16 0.38
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.44
Consensus pattern (36 bp):
TTGGAACAAACTTTGTATTTATTAAATTGAGATTCA
Found at i:25323659 original size:16 final size:16
Alignment explanation
Indices: 25323607--25323659 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
25323597 GTGGCCCCTC
25323607 AGTAAAATTTTAATTT
1 AGTAAAATTTTAATTT
**
25323623 AG-ACCATTTATAATTT
1 AGTAAAATTT-TAATTT
*
25323639 A-TAAAATTTTAAATT
1 AGTAAAATTTTAATTT
25323654 AGTAAA
1 AGTAAA
25323660 GATAATATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 11 0.38
16 18 0.62
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (16 bp):
AGTAAAATTTTAATTT
Found at i:25330395 original size:3 final size:3
Alignment explanation
Indices: 25330387--25330420 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
25330377 GTTTGTGTCC
25330387 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
25330421 CCAATTAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:25335093 original size:2 final size:2
Alignment explanation
Indices: 25335086--25335124 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
25335076 CCTCCCGACA
* *
25335086 TC TC TC TC TC TG TC TC TC TC TC TC TC TC TC TC TT TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
25335125 GTGTCTTGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.44, G:0.03, T:0.54
Consensus pattern (2 bp):
TC
Found at i:25338851 original size:41 final size:41
Alignment explanation
Indices: 25338793--25338882 Score: 144
Period size: 41 Copynumber: 2.2 Consensus size: 41
25338783 AGATATATCT
* * * *
25338793 TTTTCAACCTTTTCATGTGTTATCCTTTTCGGGTAATTTCC
1 TTTTCAACATTTCCATGTGTTATCCCTTTCGGGTAACTTCC
25338834 TTTTCAACATTTCCATGTGTTATCCCTTTCGGGTAACTTCC
1 TTTTCAACATTTCCATGTGTTATCCCTTTCGGGTAACTTCC
25338875 TTTTCAAC
1 TTTTCAAC
25338883 CTTTTCAAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.17, C:0.24, G:0.11, T:0.48
Consensus pattern (41 bp):
TTTTCAACATTTCCATGTGTTATCCCTTTCGGGTAACTTCC
Found at i:25340046 original size:40 final size:39
Alignment explanation
Indices: 25339915--25340049 Score: 123
Period size: 40 Copynumber: 3.5 Consensus size: 39
25339905 ACCAGTTTGG
*
25339915 CACCCAGTGCCTCATCGAATAAT-TCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAATAATCT-GAAGTAGT-AATTGA
* * * ** * * *
25339955 CACTCTGTGTCTCATCGGCTAAACCGAAGT-G-AATTGG
1 CACCCAGTGCCTCATCGAATAATCTGAAGTAGTAATTGA
*
25339992 CACCGAGTGCCTCATCGAATTAATCTGAAGTAGTAATTGA
1 CACCCAGTGCCTCATCGAA-TAATCTGAAGTAGTAATTGA
*
25340032 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
25340050 CTCGAAGTCG
Statistics
Matches: 71, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
37 18 0.25
38 9 0.13
39 1 0.01
40 43 0.61
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGAATAATCTGAAGTAGTAATTGA
Found at i:25340250 original size:24 final size:24
Alignment explanation
Indices: 25340205--25340261 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 24
25340195 TATAAATACC
25340205 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
25340229 AATTC-ATCACATACTAAA-TCAATA
1 AATTCAATCA-ATA-TAAATTCAATA
25340253 AATTTCAAT
1 AA-TTCAAT
25340262 TGTAAAACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 4 0.14
24 16 0.55
25 7 0.24
26 2 0.07
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:25340943 original size:15 final size:15
Alignment explanation
Indices: 25340910--25340949 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
25340900 TTCGTCTCCT
* **
25340910 TTTTTCTTTCTTTGT
1 TTTTTGTTTCTTTCC
25340925 TTTTTGTTTCTTTCC
1 TTTTTGTTTCTTTCC
25340940 TTTTTGTTTC
1 TTTTTGTTTC
25340950 GTTTTTGCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.00, C:0.15, G:0.07, T:0.78
Consensus pattern (15 bp):
TTTTTGTTTCTTTCC
Found at i:25341082 original size:42 final size:42
Alignment explanation
Indices: 25341003--25341082 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
25340993 TTTATTCTAA
*
25341003 TATAATATATAATATATATACTTAACATTTAAGTTTTAATAT
1 TATAATATATAATATATATACTTAACATTTAAATTTTAATAT
*
25341045 TATAATATTATAATATATAT-TTTAAC-TTTAAAATTTTA
1 TATAATA-TATAATATATATACTTAACATTT-AAATTTTA
25341083 TAATAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 3 0.09
42 19 0.56
43 12 0.35
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (42 bp):
TATAATATATAATATATATACTTAACATTTAAATTTTAATAT
Found at i:25353580 original size:16 final size:17
Alignment explanation
Indices: 25353553--25353587 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
25353543 AGAGAGTTGA
25353553 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
25353570 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
25353586 GA
1 GA
25353588 TGTGAGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:25355955 original size:51 final size:51
Alignment explanation
Indices: 25355883--25356170 Score: 316
Period size: 51 Copynumber: 5.7 Consensus size: 51
25355873 TATCGATGAA
* * * * *
25355883 CACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGATAAATGTTGGT
* * * * * *
25355934 CACATGTGTAGTACTAAGTGAATGCTACAATGTGTACCGAGAAACT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGATAAA-TGTTGGT
* * *
25355985 CATGTGTGTAGTACTATGTGAAGGCTACTATGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGATAAATGTTGGT
* * *
25356036 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGATAAATG--TTGGT
* ** *
25356087 CACGTGTGTAGTGCTATGTGAAGGCTACT-TCGTGAACCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTAT-GTGAACCGATAAATGTTGGT
25356137 CACGTGTGTAGTACTATGTGAAGGCTACTATGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTG
25356171 TATCGAATGA
Statistics
Matches: 196, Mismatches: 33, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
49 1 0.01
50 40 0.20
51 154 0.79
52 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGATAAATGTTGGT
Found at i:25356063 original size:102 final size:102
Alignment explanation
Indices: 25355883--25356177 Score: 416
Period size: 102 Copynumber: 2.9 Consensus size: 102
25355873 TATCGATGAA
* * *
25355883 CACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* *
25355948 TAAGTGAATGCTACAATGTGTACCGAGAAA-CTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGA-AAAGCTTTGGT
*
25355985 CATGTGTGTAGTACTATGTGAAGGCTACTATGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAATCGATAAATGATGGTCACATGTGTAGTAC
25356050 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* * *** * *
25356087 CACGTGTGTAGTGCTATGTGAAGGCTACT-TCGTGAACCG-TAAAACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTAT-GTGAATCGATAAATGATGGTCACATGTGTAGTA
* *
25356150 CTATGTGAAGGCTACTATGTGTATCGAA
65 CTAAGTGAAGGCTACTATGTGTACCGAA
25356178 TGATAAAAGT
Statistics
Matches: 175, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
101 49 0.28
102 126 0.72
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.31
Consensus pattern (102 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
Found at i:25356209 original size:152 final size:153
Alignment explanation
Indices: 25355890--25356209 Score: 355
Period size: 152 Copynumber: 2.1 Consensus size: 153
25355880 GAACACGTGT
* *
25355890 GTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAGTGA
1 GTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACATGTGTAGTACTAAGTGA
* * * *
25355955 ATGCTACAATGTGTACCGAGAAACTTTGGTCATGTGTGTAGTACTATGTGAAGGCTACTATGTGA
66 AGGCTACAATGTGAACCGAGAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTATGTGA
* ** * *
25356020 ATCGATAAATGATGGTCACATGT
131 ATCGATAAATAAAAGTAACATGG
** * * * * * *
25356043 GTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGTCACGTGTGTAGTGCTATGT
1 GTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAATG--ATGGTCACATGTGTAGTACTAAGT
*
25356106 GAAGGCTAC-TTCGTGAACCGTA-AAAC-TTGATCACGTGTGTAGTACTATGTGAAGGCTACTAT
64 GAAGGCTACAAT-GTGAACCG-AGAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTAT
* *
25356168 GTGTATCGA-ATGATAAAAGTAACATGG
127 GTGAATCGATA-AATAAAAGTAACATGG
25356195 GTAGTACTGTGTGAA
1 GTAGTACTGTGTGAA
25356210 AAACCCCAAA
Statistics
Matches: 138, Mismatches: 24, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
151 2 0.01
152 69 0.50
153 66 0.48
154 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.31
Consensus pattern (153 bp):
GTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACATGTGTAGTACTAAGTGA
AGGCTACAATGTGAACCGAGAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTATGTGA
ATCGATAAATAAAAGTAACATGG
Found at i:25360613 original size:20 final size:20
Alignment explanation
Indices: 25360588--25360625 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25360578 ACCCCCTTTA
25360588 TTAACATAAA-AATTTAAAAT
1 TTAACA-AAATAATTTAAAAT
25360608 TTAACAAAATAATTTAAA
1 TTAACAAAATAATTTAAA
25360626 CGAGAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TTAACAAAATAATTTAAAAT
Found at i:25365849 original size:39 final size:34
Alignment explanation
Indices: 25365784--25365862 Score: 88
Period size: 39 Copynumber: 2.2 Consensus size: 34
25365774 AAGTAAGTGT
*
25365784 AGAAAAATAAACTCTAAAACTAAGAAAGAA-TAAG
1 AGAAAAAAAAACTCTAAAACTAAGAAA-AACTAAG
25365818 AGAAAATAAAAACTCTAAAAAACTTATAGAAAAACTAAG
1 AGAAAA-AAAAACTCT--AAAAC-TA-AGAAAAACTAAG
25365857 AGAAAA
1 AGAAAA
25365863 CCTAGAGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
34 6 0.16
35 8 0.21
37 5 0.13
38 4 0.11
39 15 0.39
ACGTcount: A:0.66, C:0.09, G:0.10, T:0.15
Consensus pattern (34 bp):
AGAAAAAAAAACTCTAAAACTAAGAAAAACTAAG
Found at i:25370364 original size:24 final size:25
Alignment explanation
Indices: 25370335--25370385 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
25370325 AAATATCATA
*
25370335 TTAATTTTAATTAATT-TGATTAAT
1 TTAATTTTAATTAATTAAGATTAAT
* *
25370359 TTAATTTTACTTGATTAAGATTAAT
1 TTAATTTTAATTAATTAAGATTAAT
25370384 TT
1 TT
25370386 TCTTAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (25 bp):
TTAATTTTAATTAATTAAGATTAAT
Found at i:25389609 original size:37 final size:37
Alignment explanation
Indices: 25389550--25389732 Score: 321
Period size: 37 Copynumber: 4.9 Consensus size: 37
25389540 AGCTCAGACG
* * *
25389550 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
25389587 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
25389624 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
25389661 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
25389698 TAATCTCCACACGTAATCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
25389733 ATATATTTCC
Statistics
Matches: 141, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 141 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:25389997 original size:47 final size:47
Alignment explanation
Indices: 25389938--25390231 Score: 399
Period size: 47 Copynumber: 6.1 Consensus size: 47
25389928 CATACACGTT
* * * ** *
25389938 TCACATTAGCCATTCGGCCTTACCACATATATTCATGTTAACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
*
25389985 TCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
*
25390032 TCACATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
*
25390079 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
* ** *
25390126 TCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCA
* *
25390179 TCACATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATCCA
1 TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
25390226 TCACAT
1 TCACAT
25390232 AAAATCCTAA
Statistics
Matches: 222, Mismatches: 19, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
47 178 0.80
49 1 0.00
51 1 0.00
53 42 0.19
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
Found at i:25390035 original size:25 final size:24
Alignment explanation
Indices: 25390006--25390083 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 24
25389996 ATTCGGCCTT
25390006 ATCACACATACACATGTTCACATTC
1 ATCACACATAC-CATGTTCACATTC
* * *
25390031 ATCACA-TTGGCCA--TTCAGCCTT-
1 ATCACACAT-ACCATGTTCA-CATTC
25390053 ATCACACATACGCATGTTCACATTC
1 ATCACACATAC-CATGTTCACATTC
25390078 ATCACA
1 ATCACA
25390084 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 6 0.15
25 17 0.43
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.28
Consensus pattern (24 bp):
ATCACACATACCATGTTCACATTC
Found at i:25390116 original size:141 final size:143
Alignment explanation
Indices: 25389938--25390231 Score: 457
Period size: 147 Copynumber: 2.0 Consensus size: 143
25389928 CATACACGTT
* *
25389938 TCACATTAGCCATTCGGCCTTACCACATATATTCATGTTAACATTCATCACATTGGCCATTCGGC
1 TCACATTAGCCATTCGGCCTTACCACACATATGCATGTTAACATTCATCACATTGGCCATTCGGC
*
25390003 CTTATCA-C-ACATACACATGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACGC
66 CTTATCACCAACATACACAGGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACGC
*
25390066 ATGTTCACATTCA
131 ATGTTCACATCCA
* * *
25390079 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 TCACATTAGCCATTCGGCCTTACCACACATATGCATGTTAACATTCATCACATTGGCCATTCGGC
* *
25390144 CTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACAT
66 CTTATCAC-C--A-ACATACACAGGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACAT
25390209 ACGCATGTTCACATCCA
127 ACGCATGTTCACATCCA
25390226 TCACAT
1 TCACAT
25390232 AAAATCCTAA
Statistics
Matches: 138, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
141 67 0.49
143 1 0.01
147 70 0.51
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (143 bp):
TCACATTAGCCATTCGGCCTTACCACACATATGCATGTTAACATTCATCACATTGGCCATTCGGC
CTTATCACCAACATACACAGGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACGC
ATGTTCACATCCA
Found at i:25393756 original size:40 final size:40
Alignment explanation
Indices: 25393724--25393955 Score: 329
Period size: 40 Copynumber: 5.8 Consensus size: 40
25393714 CCAGCATGAT
* * * *
25393724 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* ** *
25393764 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
25393804 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
25393844 TGCTCCTCTGGACTTAGCCCAGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
25393884 TGCTCCTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
25393924 TGCTCCTCGGGACTTAGCCCGGATATATCACT
1 TGCTCCTCGGGACTTAGCCCGGATATATCACT
25393956 CTCAATTCTC
Statistics
Matches: 171, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 171 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:25395291 original size:36 final size:37
Alignment explanation
Indices: 25395209--25395350 Score: 220
Period size: 37 Copynumber: 3.9 Consensus size: 37
25395199 AGCTCAGACG
* * *
25395209 AAATCTCCACATGAAGTTATCGGGTCTT-CCCGGAC-
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
25395244 -AATCTCCACACGTAGTCATCGGGTCTTACCC-GACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
25395279 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
25395316 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
25395351 ATATATTTCC
Statistics
Matches: 99, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
34 27 0.27
35 3 0.03
36 31 0.31
37 38 0.38
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:25395337 original size:73 final size:70
Alignment explanation
Indices: 25395209--25395348 Score: 226
Period size: 73 Copynumber: 2.0 Consensus size: 70
25395199 AGCTCAGACG
* *
25395209 AAATCTCCACATGAAGTTATCGGGTCTTCCCGGACAATCTCCACACGTAGTCATCGGGTCTTACC
1 AAATCTCCACACGAAGTCATCGGGTCTTCCCGGACAATCTCCACACGTAGTCATCGGGTCTTACC
25395274 CGACA
66 CGACA
*
25395279 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGAAGTCATCGGGTCTT-CCCGGAC--AATCTCCACACGTAGTCATCGGGTCTT
25395344 ACCCG
63 ACCCG
25395349 GAATATATTT
Statistics
Matches: 64, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
70 25 0.39
71 7 0.11
73 32 0.50
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (70 bp):
AAATCTCCACACGAAGTCATCGGGTCTTCCCGGACAATCTCCACACGTAGTCATCGGGTCTTACC
CGACA
Found at i:25395619 original size:47 final size:47
Alignment explanation
Indices: 25395557--25395842 Score: 416
Period size: 47 Copynumber: 6.1 Consensus size: 47
25395547 ACACGTTTCG
* * *
25395557 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
25395604 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* **
25395651 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
25395698 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
25395745 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATATGCATGTTCACATTCATCA
*
25395796 CATTGGCCATTCGGCCTTATCACA-ATACGCATGTTCACA--CATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
25395840 CAT
1 CAT
25395843 AAAATCCTAA
Statistics
Matches: 219, Mismatches: 16, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
44 8 0.04
46 12 0.05
47 154 0.70
49 2 0.01
51 43 0.20
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:25399822 original size:42 final size:42
Alignment explanation
Indices: 25399718--25399810 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
25399708 GATGCAAGGG
*
25399718 ACACACGGCCAAAACACACGCCCATGTGCTAAGTCATATGTC
1 ACACACGGCCAAAACACACGCCCATGTGCTAAGTCATATGCC
* *
25399760 ACACACGGCCAAAACACACGCCCATGTGCTAGGTCATGTGCC
1 ACACACGGCCAAAACACACGCCCATGTGCTAAGTCATATGCC
*
25399802 ACATACGGC
1 ACACACGGC
25399811 TGAGACACAC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.31, C:0.34, G:0.19, T:0.15
Consensus pattern (42 bp):
ACACACGGCCAAAACACACGCCCATGTGCTAAGTCATATGCC
Found at i:25402273 original size:50 final size:50
Alignment explanation
Indices: 25402145--25402342 Score: 234
Period size: 50 Copynumber: 3.8 Consensus size: 50
25402135 ATTTGGGTAA
* * *
25402145 AGAGATCCCATGTAAGACCGTGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---AG---ATG
*
25402201 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
** * *
25402251 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATTGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
** * *
25402301 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
25402343 GTACAAGAAA
Statistics
Matches: 127, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
50 84 0.66
53 2 0.02
56 41 0.32
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
Found at i:25402335 original size:100 final size:104
Alignment explanation
Indices: 25402156--25402342 Score: 265
Period size: 100 Copynumber: 1.8 Consensus size: 104
25402146 GAGATCCCAT
* * **
25402156 GTAAGACCGTGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCATCACT--GATTATGAGAACTCCCATGTAAGACCA
* *
25402221 TGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCCC
64 TATCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCCCC
25402262 GTAAGACCATGTCTGGGACATGGCATTGGCA-C-CT-A-TATGAGAACTCCCATGTAAGACCATA
1 GTAAGACCATGTCTGGGACATGGCATTGGCATCACTGATTATGAGAACTCCCATGTAAGACCATA
*
25402323 TCTGGGATATGGCATTGGCA
66 TCTGGGACATGGCATTGGCA
25402343 GTACAAGAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
100 41 0.55
101 1 0.01
104 1 0.01
105 1 0.01
106 30 0.41
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (104 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCATCACTGATTATGAGAACTCCCATGTAAGACCATA
TCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCCCC
Found at i:25405540 original size:16 final size:17
Alignment explanation
Indices: 25405515--25405547 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
25405505 ATACCTTTAT
*
25405515 TTTTACTAA-TTTAAAA
1 TTTTAATAATTTTAAAA
25405531 TTTTAATAATTTTAAAA
1 TTTTAATAATTTTAAAA
25405548 AATTAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTAATAATTTTAAAA
Found at i:25410509 original size:14 final size:14
Alignment explanation
Indices: 25410481--25410513 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
25410471 CTTTATTTTT
25410481 TTTAT-GTTGTATA
1 TTTATAGTTGTATA
*
25410494 TTTATAGTTGTTTA
1 TTTATAGTTGTATA
25410508 TTTATA
1 TTTATA
25410514 CAATATGCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (14 bp):
TTTATAGTTGTATA
Done.