Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 170 of 295
Found at i:53888133 original size:41 final size:43
Alignment explanation
Indices: 53888049--53888141 Score: 122
Period size: 41 Copynumber: 2.2 Consensus size: 43
53888039 GGCTTCGGGC
* *
53888049 CTAGCAGGCTATAATGCCGGTGAAATGATATCATGCTTCAAGT
1 CTAGCAGGCGATAATGCCGGTGAAATGATATCATGCTTAAAGT
53888092 CTAGCAGGCGA-AATGCCGGTG-AATGAGT-TCA-GACTTAAAGT
1 CTAGCAGGCGATAATGCCGGTGAAATGA-TATCATG-CTTAAAGT
53888133 CTAGCAGGC
1 CTAGCAGGC
53888142 TTCGGGCCAG
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
40 1 0.02
41 24 0.52
42 11 0.24
43 10 0.22
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (43 bp):
CTAGCAGGCGATAATGCCGGTGAAATGATATCATGCTTAAAGT
Found at i:53888180 original size:40 final size:40
Alignment explanation
Indices: 53888146--53888235 Score: 144
Period size: 40 Copynumber: 2.2 Consensus size: 40
53888136 GCAGGCTTCG
53888146 GGCCAGTGATGAATTCGGGTTTAAAACCTAGCAGGCTAAA
1 GGCCAGTGATGAATTCGGGTTTAAAACCTAGCAGGCTAAA
* *
53888186 TGCCGGTGATGAATTCGGGTTTAAAACCTAGCAGGCTAAA
1 GGCCAGTGATGAATTCGGGTTTAAAACCTAGCAGGCTAAA
* *
53888226 TGCCGGTGAT
1 GGCCAGTGAT
53888236 TTGATAAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (40 bp):
GGCCAGTGATGAATTCGGGTTTAAAACCTAGCAGGCTAAA
Found at i:53890195 original size:27 final size:26
Alignment explanation
Indices: 53890164--53890332 Score: 171
Period size: 27 Copynumber: 6.4 Consensus size: 26
53890154 GGCATAATCA
* * *
53890164 TCATTTTACCATACAGGGATATTATGG
1 TCATTTTACCCTACAGGG-CATTACGG
*
53890191 TCA-TTTATCCTACAAGGGCATTACGG
1 TCATTTTACCCTAC-AGGGCATTACGG
* *
53890217 TCATTTTACCCTATAGGGGTATTACGG
1 TCATTTTACCCTACA-GGGCATTACGG
* *
53890244 TTA-TTTACCCTACAGGTCATTACGG
1 TCATTTTACCCTACAGGGCATTACGG
*
53890269 TCATTTTACCCTACAAGGGCATTATGG
1 TCATTTTACCCTAC-AGGGCATTACGG
* * *
53890296 TTATTTTACCCTATAGGGGCATTACGA
1 TCATTTTACCCTACA-GGGCATTACGG
53890323 TCATTTTACC
1 TCATTTTACC
53890333 TATTTTAGGT
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
25 11 0.09
26 39 0.33
27 67 0.57
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (26 bp):
TCATTTTACCCTACAGGGCATTACGG
Found at i:53890208 original size:53 final size:53
Alignment explanation
Indices: 53890151--53890332 Score: 154
Period size: 53 Copynumber: 3.4 Consensus size: 53
53890141 TATGGAGCAT
* *
53890151 AAGGGCATAATC-ATCATTTTACCATACAGGGATATTATGGTCATTTATCCTAC
1 AAGGGCATAA-CGATCATTTTACCATACAGGGATATTACGGTCATTTACCCTAC
* * * * * *
53890204 AAGGGCATTACGGTCATTTTACCCTATAGGGGTATTACGGTTATTTACCCTAC
1 AAGGGCATAACGATCATTTTACCATACAGGGATATTACGGTCATTTACCCTAC
* * * * * * * *
53890257 -AGGTCATTACGGTCATTTTACCCTACAAGGG-CATTATGGTTATTTTACCCTAT
1 AAGGGCATAACGATCATTTTACCATAC-AGGGATATTACGGTCA-TTTACCCTAC
* *
53890310 AGGGGCATTACGATCATTTTACC
1 AAGGGCATAACGATCATTTTACC
53890333 TATTTTAGGT
Statistics
Matches: 109, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 34 0.31
53 56 0.51
54 19 0.17
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (53 bp):
AAGGGCATAACGATCATTTTACCATACAGGGATATTACGGTCATTTACCCTAC
Found at i:53898923 original size:23 final size:23
Alignment explanation
Indices: 53898897--53898944 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
53898887 GATTATTGAG
53898897 AACATGTTGAGCATGTCGAATAA
1 AACATGTTGAGCATGTCGAATAA
53898920 AACATGTTGAGCATGTCGAATAA
1 AACATGTTGAGCATGTCGAATAA
53898943 AA
1 AA
53898945 GTGAAAAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (23 bp):
AACATGTTGAGCATGTCGAATAA
Found at i:53901711 original size:17 final size:19
Alignment explanation
Indices: 53901689--53901725 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
53901679 TTGGGCTTAA
53901689 TGGG-CCACACGGG-CGTG
1 TGGGCCCACACGGGCCGTG
*
53901706 TGGGCCCACATGGGCCGTG
1 TGGGCCCACACGGGCCGTG
53901725 T
1 T
53901726 TATGGGCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 4 0.24
18 8 0.47
19 5 0.29
ACGTcount: A:0.11, C:0.30, G:0.43, T:0.16
Consensus pattern (19 bp):
TGGGCCCACACGGGCCGTG
Found at i:53912745 original size:38 final size:38
Alignment explanation
Indices: 53912703--53912911 Score: 166
Period size: 38 Copynumber: 5.0 Consensus size: 38
53912693 TTTCAAATTA
* *
53912703 ACATGTATAACCGTGGCATATCCACTTAGCACCAAGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
* *
53912741 ACATGTTTAACCGTGGTATATCCAATTAGCACCACGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
* *
53912782 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
* *
53912826 ACATGTATCAATATGTGTAATCGTGGTATATCCACTTACCACCACGTT
1 ACATG------TA----TAACCGTGGTATATCCACTTAGCACCACGTT
*
53912874 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
53912912 TTTCCATTTC
Statistics
Matches: 139, Mismatches: 15, Indels: 34
0.74 0.08 0.18
Matches are distributed among these distances:
38 61 0.44
39 1 0.01
40 2 0.01
41 2 0.01
42 3 0.02
43 1 0.01
44 2 0.01
45 3 0.02
46 3 0.02
47 27 0.19
48 34 0.24
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:53912857 original size:48 final size:48
Alignment explanation
Indices: 53912743--53912881 Score: 199
Period size: 48 Copynumber: 2.9 Consensus size: 48
53912733 ACCAAGTTAC
* * *
53912743 ATGTTTAACCGTGGTATATCCAATTAGCACCACGTTA-ATGAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
53912790 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * *
53912838 ATGTGTAATCGTGGTATATCCACTTACCACCACGTTACACGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
53912882 AACCGTGGTA
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 33 0.41
48 48 0.59
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:53916027 original size:19 final size:19
Alignment explanation
Indices: 53915988--53916024 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
53915978 ATAAATCCAA
*
53915988 AAATTAAAAGTAAAATACC
1 AAATTAAAAATAAAATACC
53916007 AAATTAAAAAT-AAATACC
1 AAATTAAAAATAAAATACC
53916025 CAAGAGGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.65, C:0.11, G:0.03, T:0.22
Consensus pattern (19 bp):
AAATTAAAAATAAAATACC
Found at i:53920620 original size:27 final size:27
Alignment explanation
Indices: 53920590--53920670 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
53920580 ATCTCATATC
* *
53920590 TGTAGGCTAGCATTACTGAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
* *
53920617 TGTAGGGTAGAATTACTGAAATGCCCC
1 TGTAGGGTAGAATTACTGAAATACCCT
**
53920644 TGTAGGGTAGAATTACCAAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
53920671 AGGTTTATAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (27 bp):
TGTAGGGTAGAATTACTGAAATACCCT
Found at i:53920684 original size:27 final size:27
Alignment explanation
Indices: 53920654--53920766 Score: 158
Period size: 27 Copynumber: 4.2 Consensus size: 27
53920644 TGTAGGGTAG
*
53920654 AATTACCAAAATA-CCCTAGGTTTATAA
1 AATTACCAAAATACCCCTA-GTTTGTAA
53920681 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
53920708 AATTACCAAAATACCCCTACTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
53920735 AATTACCAAAATACCTCT-GATTTGTGA
1 AATTACCAAAATACCCCTAG-TTTGTAA
53920762 AATTA
1 AATTA
53920767 ATGAAATACC
Statistics
Matches: 79, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
27 74 0.94
28 5 0.06
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:53920685 original size:54 final size:54
Alignment explanation
Indices: 53920635--53920749 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 54
53920625 AGAATTACTG
* * *
53920635 AAATGCCCCT-GTAGGGTAGAATTACCAAAATA-CCCTAGGTTTATAAAATTACCA
1 AAATACCCCTAGT-GGGTAAAATTACCAAAATACCCCTA-CTTTATAAAATTACCA
** *
53920689 AAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTACTTTGTAAAATTACCA
1 AAATACCCCTAGTGGGTAAAATTACCAAAATACCCCTACTTTATAAAATTACCA
53920743 AAATACC
1 AAATACC
53920750 TCTGATTTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
54 46 0.87
55 7 0.13
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.27
Consensus pattern (54 bp):
AAATACCCCTAGTGGGTAAAATTACCAAAATACCCCTACTTTATAAAATTACCA
Found at i:53920759 original size:54 final size:53
Alignment explanation
Indices: 53920654--53920831 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 53
53920644 TGTAGGGTAG
* *
53920654 AATTACCAAAATA-CCCTAGGTTTATAAAATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTA-CTTTGTAAAATTACCAAAATA-CCCTGA-TTTGTAA
*
53920708 AATTACCAAAATACCCCTACTTTGTAAAATTACCAAAATACCTCTGATTTGTGA
1 AATTACCAAAATACCCCTACTTTGTAAAATTACCAAAATACC-CTGATTTGTAA
*** * * ** * *
53920762 AATTAATGAAATACCCTCGAC-CTGTAAAATTACTGAAATACCCTCGACTTATAA
1 AATTACCAAAATACCC-CTACTTTGTAAAATTACCAAAATACCCT-GATTTGTAA
*
53920816 AATTACCAAAGTACCC
1 AATTACCAAAATACCC
53920832 TCGATTTACA
Statistics
Matches: 102, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
53 4 0.04
54 89 0.87
55 9 0.09
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (53 bp):
AATTACCAAAATACCCCTACTTTGTAAAATTACCAAAATACCCTGATTTGTAA
Found at i:53920774 original size:81 final size:81
Alignment explanation
Indices: 53920654--53920839 Score: 189
Period size: 81 Copynumber: 2.3 Consensus size: 81
53920644 TGTAGGGTAG
* * **
53920654 AATTACCAAAATACCCTAGGTTTATAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAA
1 AATTACCAAAATACCCTAGATTTATAAAATTAACAAAATA-CCCTAGACCTGTAAAATTACCAAA
* *
53920718 ATACCC-CTACTTTGTAA
65 ATACCCTCGAC-TTATAA
* * ** * **
53920735 AATTACCAAAATACCTCT-GATTTGTGAAATTAATGAAATACCCTCGACCTGTAAAATTACTGAA
1 AATTACCAAAATACC-CTAGATTTATAAAATTAACAAAATACCCTAGACCTGTAAAATTACCAAA
53920799 ATACCCTCGACTTATAA
65 ATACCCTCGACTTATAA
* *
53920816 AATTACCAAAGTACCCTCGATTTA
1 AATTACCAAAATACCCTAGATTTA
53920840 CAGAATTATC
Statistics
Matches: 86, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
80 7 0.08
81 74 0.86
82 5 0.06
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (81 bp):
AATTACCAAAATACCCTAGATTTATAAAATTAACAAAATACCCTAGACCTGTAAAATTACCAAAA
TACCCTCGACTTATAA
Found at i:53920821 original size:27 final size:27
Alignment explanation
Indices: 53920761--53920835 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
53920751 CTGATTTGTG
* *
53920761 AAATTAATGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTATA
*
53920788 AAATTACTGAAATACCCTCGACTTATA
1 AAATTACTGAAATACCCTCGACCTATA
*
53920815 AAATTAC-CAAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
53920836 TTTACAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.25
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTATA
Found at i:53920846 original size:27 final size:27
Alignment explanation
Indices: 53920800--53921151 Score: 415
Period size: 27 Copynumber: 13.2 Consensus size: 27
53920790 ATTACTGAAA
* * * ***
53920800 TACCCTCGACTTATAAAATTACCAAAG
1 TACCCTCGATTTACAGAATTACCATTT
* *
53920827 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
53920854 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
53920881 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
53920908 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
53920935 TACCCTCAATTTACAAAATTATCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
53920962 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
53920989 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
53921016 TACCCTCGATTTACAAAATTACC--TT
1 TACCCTCGATTTACAGAATTACCATTT
53921041 T--CCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
53921066 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
53921093 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
53921120 TACCCTCCATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
53921147 TACCC
1 TACCC
53921152 CTAGGGTGTT
Statistics
Matches: 277, Mismatches: 44, Indels: 8
0.84 0.13 0.02
Matches are distributed among these distances:
23 19 0.07
25 6 0.02
27 252 0.91
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:53921431 original size:27 final size:26
Alignment explanation
Indices: 53921387--53921438 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
53921377 CTCGCTGCAA
*
53921387 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
53921414 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
53921439 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:53921506 original size:26 final size:27
Alignment explanation
Indices: 53921477--53921536 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
53921467 CCAAATATAT
*
53921477 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
53921503 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
53921530 ATATCTG
1 ATATCTG
53921537 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:53921692 original size:6 final size:6
Alignment explanation
Indices: 53921655--53921754 Score: 80
Period size: 6 Copynumber: 16.3 Consensus size: 6
53921645 TTGCATTCAC
* * *
53921655 ATTCTG CTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
53921704 ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
53921753 AT
1 AT
53921755 AATGTTTTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
5 4 0.05
6 61 0.82
7 7 0.09
8 2 0.03
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:53921716 original size:43 final size:43
Alignment explanation
Indices: 53921655--53921754 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 43
53921645 TTGCATTCAC
* * * *
53921655 ATTCTGCTTTTGATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTCATTCTG
* *
53921698 ATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTCATTTTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTCATTCTG
53921741 ATTCT-AGTTCTGAT
1 ATTCTGA-TTCTGAT
53921755 AATGTTTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
42 1 0.02
43 49 0.98
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (43 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTCATTCTG
Found at i:53923645 original size:27 final size:27
Alignment explanation
Indices: 53923615--53923697 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 27
53923605 ATCTCATATC
* *
53923615 TGTAGGCTAGCATTACTGAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
* *
53923642 TGTAGGGTAGAATTACTGAAATGCCCC
1 TGTAGGGTAGAATTACTGAAATACCCT
**
53923669 TGTAGGGTAGAATTACCAAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
53923696 TG
1 TG
53923698 GTTTATAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (27 bp):
TGTAGGGTAGAATTACTGAAATACCCT
Found at i:53923709 original size:27 final size:27
Alignment explanation
Indices: 53923679--53923874 Score: 189
Period size: 27 Copynumber: 7.3 Consensus size: 27
53923669 TGTAGGGTAG
* *
53923679 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
53923706 AATTGCCAAAATA-CCTCTGGTTTGTAA
1 AATTACCAAAATACCCT-TGATTTGTAA
*
53923733 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
* *
53923760 AATTACCAAAATACCTTTGATTTGTGA
1 AATTACCAAAATACCCTTGATTTGTAA
*** **
53923787 AATTAATGAAATACCCTTGACATGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
** * *
53923814 AATTACTGAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
53923841 AATTACCAAAGTACCCTCGATTTATAA
1 AATTACCAAAATACCCTTGATTTGTAA
53923868 AATTACC
1 AATTACC
53923875 TTTTTACCCT
Statistics
Matches: 142, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.02
27 136 0.96
28 3 0.02
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:53923882 original size:27 final size:27
Alignment explanation
Indices: 53923852--53924234 Score: 454
Period size: 27 Copynumber: 14.2 Consensus size: 27
53923842 ATTACCAAAG
*
53923852 TACCCTCGATTTATAAAATTACCTTTT
1 TACCCTCGATTTACAAAATTACCTTTT
* *
53923879 TACCCTCGATTTATAGAATTA-CTATTT
1 TACCCTCGATTTACAAAATTACCT-TTT
* *
53923906 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCTTTT
*
53923933 TACCCTCGATTTACAGAATTA-CTATTT
1 TACCCTCGATTTACAAAATTACCT-TTT
* * *
53923960 TACCCTCGATTTATAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCTTTT
53923987 TACCCTCGATTTACAAAATTA-CTATTT
1 TACCCTCGATTTACAAAATTACCT-TTT
*
53924014 TACCCTCGATTTACAGAATTA-CTATTT
1 TACCCTCGATTTACAAAATTACCT-TTT
*
53924041 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCTTTT
* *
53924068 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCTTTT
53924095 TACCCTCGATTTACAAAATTA-CTATTT
1 TACCCTCGATTTACAAAATTACCT-TTT
* * * *
53924122 TATCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCTTTT
* *
53924149 TACCCTCGATTTATAGAATTA-CTATTT
1 TACCCTCGATTTACAAAATTACCT-TTT
* * *
53924176 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCTTTT
* *
53924203 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCTTTT
53924230 TACCC
1 TACCC
53924235 CTAGGGTGTT
Statistics
Matches: 314, Mismatches: 32, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.02
27 303 0.96
28 5 0.02
ACGTcount: A:0.30, C:0.22, G:0.06, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCTTTT
Found at i:53923883 original size:54 final size:54
Alignment explanation
Indices: 53923825--53924234 Score: 559
Period size: 54 Copynumber: 7.6 Consensus size: 54
53923815 ATTACTGAAA
* * * *** * * *
53923825 TACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAAAATTACCTTTT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTT
* * *
53923879 TACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTT
* * * * *
53923933 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAAAATTATCGTTT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTT
* **
53923987 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTT
* * *
53924041 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTT
* * *
53924095 TACCCTCGATTTACAAAATTACTATTTTATCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTT
* *
53924149 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTT
*
53924203 TACCCTCGATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTATAAAATTACTATTTTACCC
53924235 CTAGGGTGTT
Statistics
Matches: 325, Mismatches: 31, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 325 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:53924225 original size:81 final size:81
Alignment explanation
Indices: 53923852--53924234 Score: 545
Period size: 81 Copynumber: 4.7 Consensus size: 81
53923842 ATTACCAAAG
* * * *
53923852 TACCCTCGATTTATAAAATTACCT-TTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGAT
1 TACCCTCGATTTACAGAATTA-CTATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGAT
*
53923916 TTACAAAATTA-TCGTTT
65 TTACAAAATTACT-ATTT
* *
53923933 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAAAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATT
53923998 TACAAAATTACTATTT
66 TACAAAATTACTATTT
*
53924014 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATT
* *
53924079 TACAGAATTACCATTT
66 TACAAAATTACTATTT
* * * * * *
53924095 TACCCTCGATTTACAAAATTACTATTTTATCCTCAATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATT
* *
53924160 TATAGAATTACTATTT
66 TACAAAATTACTATTT
* **
53924176 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAAAATTACCATTTTACCC
53924235 CTAGGGTGTT
Statistics
Matches: 272, Mismatches: 28, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
80 2 0.01
81 269 0.99
82 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.06, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATT
TACAAAATTACTATTT
Found at i:53924776 original size:31 final size:31
Alignment explanation
Indices: 53924741--53924844 Score: 136
Period size: 31 Copynumber: 3.4 Consensus size: 31
53924731 TTGCATTCAC
* * ** *
53924741 ATTCTGATTTTGATTTTGTGTCCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATTCTG
* * *
53924772 ATTCTGATTCTAATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGTCACCTGATTCTG
53924803 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATTCTG
53924834 ATTCTGATTCT
1 ATTCTGATTCT
53924845 CATTTTGATT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATTCTG
Found at i:53924780 original size:6 final size:6
Alignment explanation
Indices: 53924741--53924865 Score: 69
Period size: 6 Copynumber: 20.3 Consensus size: 6
53924731 TTGCATTCAC
* * * *
53924741 ATTCTG ATTTTG ATTTTG -TGTCCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-T-CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
53924790 -TCACCTA ATTTTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
53924840 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
53924866 AATGTTTCTT
Statistics
Matches: 90, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
5 4 0.04
6 75 0.83
7 8 0.09
8 3 0.03
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:53924842 original size:37 final size:34
Alignment explanation
Indices: 53924763--53924856 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 34
53924753 ATTTTGTGTC
* *
53924763 CTGATACTGATTCTGATTCTAATTCTGTCACCTA
1 CTGATTCTGATTCTGATTCTGATTCTGTCACCTA
*
53924797 ---ATTTTGATTCTGATTCTGATTCTGTCACCTGA
1 CTGATTCTGATTCTGATTCTGATTCTGTCACCT-A
* *
53924829 TTCTGATTCTGATTCTCATTTTGATTCT
1 --CTGATTCTGATTCTGATTCTGATTCT
53924857 AGTTCTGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
31 27 0.56
32 1 0.02
37 20 0.42
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (34 bp):
CTGATTCTGATTCTGATTCTGATTCTGTCACCTA
Found at i:53935695 original size:27 final size:28
Alignment explanation
Indices: 53935586--53935708 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
53935576 GAGATTGGCG
* * * *
53935586 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
53935615 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
53935643 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
53935671 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
53935698 CTGAGTGTGCG
1 CTAAGTGTGCG
53935709 GACTTAATAT
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 23 0.27
28 47 0.55
29 15 0.18
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:53935698 original size:55 final size:57
Alignment explanation
Indices: 53935586--53935708 Score: 169
Period size: 55 Copynumber: 2.2 Consensus size: 57
53935576 GAGATTGGCG
* * * *
53935586 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
* *
53935643 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
*
53935698 CTGAGTGTGCG
1 CTAAGTGTGCG
53935709 GACTTAATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 23 0.39
56 21 0.36
57 15 0.25
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (57 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
Found at i:53935719 original size:27 final size:27
Alignment explanation
Indices: 53935611--53935721 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
53935601 TAAATTGTAC
** * *
53935611 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGC-AACTTGAATATAT
** *
53935639 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGC-AACTTGAATATAT
* *
53935667 AGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCAACTTGAATATAT
* *
53935694 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-AACTTGAATATAT
53935721 A
1 A
53935722 CTTTTGAATC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 31 0.41
28 44 0.59
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCAACTTGAATATAT
Found at i:53940060 original size:46 final size:46
Alignment explanation
Indices: 53940007--53940179 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
53939997 TGGTTGAGCA
53940007 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
53940053 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
53940098 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
53940146 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
53940180 GGGGTGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:53940119 original size:93 final size:93
Alignment explanation
Indices: 53940004--53940174 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
53939994 GGATGGTTGA
* * *
53940004 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53940069 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
53940097 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53940162 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
53940175 ACTTAGGGGT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:53942485 original size:27 final size:27
Alignment explanation
Indices: 53942453--53942686 Score: 274
Period size: 27 Copynumber: 8.7 Consensus size: 27
53942443 CACATCACAT
* *
53942453 AGGGCAAAACAATCATCTTACCAT-ATA
1 AGGGCAAAACAGTCATTTTACC-TCATA
* *
53942480 AGGGCAAAATAGTCATTTTACCTCATG
1 AGGGCAAAACAGTCATTTTACCTCATA
* *
53942507 AGGACAAAACAGTCATTTTACCACATA
1 AGGGCAAAACAGTCATTTTACCTCATA
* * *
53942534 GGGGCAAAGCAGTCATTTTACCACATA
1 AGGGCAAAACAGTCATTTTACCTCATA
*
53942561 AGGGCAAAACAGTCATTTTACCTCATG
1 AGGGCAAAACAGTCATTTTACCTCATA
* * *
53942588 AGGGCAAAATAGTCATTTTACATCATG
1 AGGGCAAAACAGTCATTTTACCTCATA
* *
53942615 AGGGAAAAATC-GTCATTTTACCTCATG
1 AGGGCAAAA-CAGTCATTTTACCTCATA
* *
53942642 AGGGAAAAACAGTTATTTTACCTCATA
1 AGGGCAAAACAGTCATTTTACCTCATA
*
53942669 AGGGCAAAACAATCATTT
1 AGGGCAAAACAGTCATTT
53942687 ATTAATATGG
Statistics
Matches: 179, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 177 0.99
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (27 bp):
AGGGCAAAACAGTCATTTTACCTCATA
Found at i:53946538 original size:46 final size:46
Alignment explanation
Indices: 53946471--53946596 Score: 225
Period size: 46 Copynumber: 2.7 Consensus size: 46
53946461 AACCCGCCCC
* * *
53946471 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
53946517 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
53946563 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
53946597 TGCTCAACCA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:53949025 original size:15 final size:16
Alignment explanation
Indices: 53948999--53949054 Score: 82
Period size: 15 Copynumber: 3.7 Consensus size: 16
53948989 CAAGGAAACC
53948999 GAATAAAGAAATCCAA
1 GAATAAAGAAATCCAA
*
53949015 G-ATAGAGAAATCC-A
1 GAATAAAGAAATCCAA
53949029 GAATAAAGAAATCC-A
1 GAATAAAGAAATCCAA
53949044 GAATAAAGAAA
1 GAATAAAGAAA
53949055 CCTAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 34 0.92
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (16 bp):
GAATAAAGAAATCCAA
Found at i:53951901 original size:93 final size:93
Alignment explanation
Indices: 53951794--53951964 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
53951784 GCCCCTAAGT
* *
53951794 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53951859 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
53951887 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53951952 CGAGTTCGGATGC
66 CGAGTTCGGATGC
53951965 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:53951961 original size:46 final size:46
Alignment explanation
Indices: 53951789--53951961 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
53951779 AACCCGCCCC
* * *
53951789 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
53951835 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
53951883 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
53951928 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
53951962 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:53954408 original size:27 final size:26
Alignment explanation
Indices: 53954374--53954606 Score: 243
Period size: 27 Copynumber: 8.7 Consensus size: 26
53954364 ACATGCACAT
* *
53954374 AGGGCAAAATAGTCATCTTACCATATA
1 AGGGCAAAACAGTCATTTTACC-TATA
*
53954401 AAGGCAAAACAGTCATTTTACCT-TA
1 AGGGCAAAACAGTCATTTTACCTATA
*
53954426 TGTGGACAAAACAGTCATTTTACCTCATA
1 AG-GG-CAAAACAGTCATTTTACCT-ATA
*
53954455 AGGGCAAAACAATCATTTTACCATATA
1 AGGGCAAAACAGTCATTTTACC-TATA
* * * *
53954482 ACGGCAAAATAGCCATTTTACCACATA
1 AGGGCAAAACAGTCATTTTACC-TATA
* * *
53954509 AAGGCAAAACAGTCATTTTACCTCTG
1 AGGGCAAAACAGTCATTTTACCTATA
* *
53954535 AGGGCAAAATAGTCATTTTACCTCATG
1 AGGGCAAAACAGTCATTTTACCT-ATA
53954562 AGGGCAAAACAGTCATTTTACCTCATA
1 AGGGCAAAACAGTCATTTTACCT-ATA
* *
53954589 AGGGAAAAATAGTCATTT
1 AGGGCAAAACAGTCATTT
53954607 ATCAATATGG
Statistics
Matches: 175, Mismatches: 25, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
25 2 0.01
26 25 0.14
27 142 0.81
28 3 0.02
29 3 0.02
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.27
Consensus pattern (26 bp):
AGGGCAAAACAGTCATTTTACCTATA
Found at i:53954442 original size:54 final size:53
Alignment explanation
Indices: 53954376--53954606 Score: 268
Period size: 54 Copynumber: 4.3 Consensus size: 53
53954366 ATGCACATAG
* *
53954376 GGCAAAATAGTCATCTTACCAT-ATAAAGGCAAAACAGTCATTTTACCTTATGT
1 GGCAAAATAGTCATTTTACC-TCATAAAGGCAAAACAGTCATTTTACCTTATGA
* * * * *
53954429 GGACAAAACAGTCATTTTACCTCATAAGGGCAAAACAATCATTTTACCATATAA
1 GG-CAAAATAGTCATTTTACCTCATAAAGGCAAAACAGTCATTTTACCTTATGA
* * *
53954483 CGGCAAAATAGCCATTTTACCACATAAAGGCAAAACAGTCATTTTACC-TCTGA
1 -GGCAAAATAGTCATTTTACCTCATAAAGGCAAAACAGTCATTTTACCTTATGA
* * * *
53954536 GGGCAAAATAGTCATTTTACCTCATGAGGGCAAAACAGTCATTTTACCTCATAA
1 -GGCAAAATAGTCATTTTACCTCATAAAGGCAAAACAGTCATTTTACCTTATGA
*
53954590 GGGAAAAATAGTCATTT
1 -GGCAAAATAGTCATTT
53954607 ATCAATATGG
Statistics
Matches: 151, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
53 49 0.32
54 100 0.66
55 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (53 bp):
GGCAAAATAGTCATTTTACCTCATAAAGGCAAAACAGTCATTTTACCTTATGA
Found at i:53954476 original size:81 final size:80
Alignment explanation
Indices: 53954374--53954606 Score: 281
Period size: 81 Copynumber: 2.9 Consensus size: 80
53954364 ACATGCACAT
* * **
53954374 AGGGCAAAATAGTCATCTTACCATATAAAGGCAAAACAGTCATTTTACCTTAT-GTGGACAAAAC
1 AGGGCAAAATAGTCATTTTACCATATAAAGGCAAAACAGTCATTTTACCTCATAAAGG-CAAAAC
53954438 AGTCATTTTACCTCATA
65 AGTCATTTTACCTC-TA
* * * * * *
53954455 AGGGCAAAACAATCATTTTACCATATAACGGCAAAATAGCCATTTTACCACATAAAGGCAAAACA
1 AGGGCAAAATAGTCATTTTACCATATAAAGGCAAAACAGTCATTTTACCTCATAAAGGCAAAACA
*
53954520 GTCATTTTACCTCTG
66 GTCATTTTACCTCTA
* * * * *
53954535 AGGGCAAAATAGTCATTTTACC-TCATGAGGGCAAAACAGTCATTTTACCTCATAAGGGAAAAAT
1 AGGGCAAAATAGTCATTTTACCAT-ATAAAGGCAAAACAGTCATTTTACCTCATAAAGGCAAAAC
53954599 AGTCATTT
65 AGTCATTT
53954607 ATCAATATGG
Statistics
Matches: 129, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.01
80 61 0.47
81 65 0.50
82 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.27
Consensus pattern (80 bp):
AGGGCAAAATAGTCATTTTACCATATAAAGGCAAAACAGTCATTTTACCTCATAAAGGCAAAACA
GTCATTTTACCTCTA
Found at i:53956820 original size:27 final size:28
Alignment explanation
Indices: 53956779--53956884 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 28
53956769 CAGCCAGAAT
* * *
53956779 AGATA-TTGTGACAGAGTCACTAGATAC
1 AGATATTTGTGGCAGAGCCACCAGATAC
* * * *
53956806 AGATA-TTGTGGCAGAGCCGCCAAAAAT
1 AGATATTTGTGGCAGAGCCACCAGATAC
53956833 AGATATTTGTGGCAGAGCCACCAGAT-C
1 AGATATTTGTGGCAGAGCCACCAGATAC
*
53956860 AGATATTTGTGGGAGAGCCACCAGA
1 AGATATTTGTGGCAGAGCCACCAGA
53956885 ACGCTTCCTC
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 49 0.74
28 17 0.26
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (28 bp):
AGATATTTGTGGCAGAGCCACCAGATAC
Found at i:53971017 original size:15 final size:15
Alignment explanation
Indices: 53970997--53971027 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53970987 AATGAATGAT
*
53970997 TTTAATTTTAATTTA
1 TTTAATTTGAATTTA
53971012 TTTAATTTGAATTTA
1 TTTAATTTGAATTTA
53971027 T
1 T
53971028 ATTGATCAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
TTTAATTTGAATTTA
Found at i:53971390 original size:42 final size:43
Alignment explanation
Indices: 53971331--53971436 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 43
53971321 TATGATTTAT
* *
53971331 GTGTAAGACCATGTCTGGGACA-TCGACATC-ATATTTGATTTC
1 GTGTAAGACCATATCTGGGACAGT-GACATCAATATTTGATTGC
* *
53971373 GTGTAAGACCCTATCTGGGACAGTGGCATCAATATTTGATTGC
1 GTGTAAGACCATATCTGGGACAGTGACATCAATATTTGATTGC
* **
53971416 ATGTAAGACCACGTCTGGGAC
1 GTGTAAGACCATATCTGGGAC
53971437 GTTGGCATTG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 25 0.46
43 29 0.54
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATATCTGGGACAGTGACATCAATATTTGATTGC
Found at i:53971408 original size:43 final size:42
Alignment explanation
Indices: 53971283--53971425 Score: 123
Period size: 43 Copynumber: 3.3 Consensus size: 42
53971273 CGACATGTGT
* *
53971283 TTTCGTGTAAGACCAC-ATCTAGGAC-GTTAGCATCGAT-TTATGA
1 TTTCGTGTAAGACC-CTATCTGGGACAG-TGGCATC-ATATT-TGA
* * * *
53971326 TTTATGTGTAAGACCATGTCTGGGACA-TCGACATCATATTTGA
1 TTT-CGTGTAAGACCCTATCTGGGACAGT-GGCATCATATTTGA
53971369 TTTCGTGTAAGACCCTATCTGGGACAGTGGCATCAATATTTGA
1 TTTCGTGTAAGACCCTATCTGGGACAGTGGCATC-ATATTTGA
* *
53971412 TTGCATGTAAGACC
1 TTTCGTGTAAGACC
53971426 ACGTCTGGGA
Statistics
Matches: 81, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
42 25 0.31
43 33 0.41
44 23 0.28
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (42 bp):
TTTCGTGTAAGACCCTATCTGGGACAGTGGCATCATATTTGA
Found at i:53973947 original size:34 final size:34
Alignment explanation
Indices: 53973893--53973964 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
53973883 GCGTTACTAT
* * *
53973893 TACTGTTACTGTATTCGGCTAAGGCTCAT-ACTGA
1 TACTGATACTGTAATAGGCTAAGGC-CATAACTGA
* *
53973927 TACTGATACTGTAATAGGCTATGGCCCTAACTGA
1 TACTGATACTGTAATAGGCTAAGGCCATAACTGA
53973961 TACT
1 TACT
53973965 AGATTGTCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 2 0.06
34 30 0.94
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (34 bp):
TACTGATACTGTAATAGGCTAAGGCCATAACTGA
Found at i:53982035 original size:43 final size:43
Alignment explanation
Indices: 53981878--53982036 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
53981868 TATGTGTTTT
** *
53981878 CATGTAAGACCACATCGAGGACATTGGCATCGAT-TTATGATTTA
1 CATGTAAGACCATGTCTAGGACATTGGCATCGATATT-TGA-TTA
* * * * * * *
53981922 CGTGTAATACCATGTTTGGGACATCGACATC-ATATTTGATTT
1 CATGTAAGACCATGTCTAGGACATTGGCATCGATATTTGATTA
* * * *
53981964 CGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTA
1 CATGTAAGACCATGTCTAGGACATTGGCATCGATATTTGATTA
* *
53982007 CATGTAAGACCATGTCCAGGACGTTGGCAT
1 CATGTAAGACCATGTCTAGGACATTGGCAT
53982037 TGTACAAGCT
Statistics
Matches: 90, Mismatches: 23, Indels: 5
0.76 0.19 0.04
Matches are distributed among these distances:
42 27 0.30
43 39 0.43
44 24 0.27
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCATGTCTAGGACATTGGCATCGATATTTGATTA
Found at i:53985697 original size:20 final size:20
Alignment explanation
Indices: 53985672--53985740 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
53985662 CAATACACAT
53985672 CATTTAACCTACAATTCATA
1 CATTTAACCTACAATTCATA
* * * * *
53985692 CATTTATGCATTCATATACACA
1 CATTTA-ACCTACA-ATTCATA
*
53985714 TCATTTAACCTACAATTCGTA
1 -CATTTAACCTACAATTCATA
53985735 CATTTA
1 CATTTA
53985741 TGCATTCATA
Statistics
Matches: 35, Mismatches: 11, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
20 12 0.34
21 8 0.23
22 9 0.26
23 6 0.17
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.38
Consensus pattern (20 bp):
CATTTAACCTACAATTCATA
Found at i:53985725 original size:43 final size:43
Alignment explanation
Indices: 53985664--53985751 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
53985654 TTATCGATCA
53985664 ATACACATCATTTAACCTACAATTCATACATTTATGCATTCAT
1 ATACACATCATTTAACCTACAATTCATACATTTATGCATTCAT
*
53985707 ATACACATCATTTAACCTACAATTCGTACATTTATGCATTCAT
1 ATACACATCATTTAACCTACAATTCATACATTTATGCATTCAT
53985750 AT
1 AT
53985752 TCAAATATCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.38
Consensus pattern (43 bp):
ATACACATCATTTAACCTACAATTCATACATTTATGCATTCAT
Found at i:53985772 original size:43 final size:43
Alignment explanation
Indices: 53985668--53985776 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 43
53985658 CGATCAATAC
* *
53985668 ACATCATTTAACCTACAATTCATACATTTATGCATTCATATAC
1 ACATCATTTAAACTACAATTCATACATTTATGCATTCATATAA
* *
53985711 ACATCATTTAACCTACAATTCGTACATTTATGCATTCATATTCAA
1 ACATCATTTAAACTACAATTCATACATTTATGCATTCATA-T-AA
*
53985756 ATATCA-TTAAAC-ACAA-TCATA
1 ACATCATTTAAACTACAATTCATA
53985777 TTGTCCCTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
42 4 0.07
43 43 0.73
44 6 0.10
45 6 0.10
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (43 bp):
ACATCATTTAAACTACAATTCATACATTTATGCATTCATATAA
Found at i:53987072 original size:23 final size:23
Alignment explanation
Indices: 53987042--53987129 Score: 88
Period size: 23 Copynumber: 3.8 Consensus size: 23
53987032 GAGCTGATGC
*
53987042 ACAGTAAGCTCTGACGAGTTGAA
1 ACAGTAAGCTCTGACGAGATGAA
*
53987065 ACAGTAAGCTTTGACGAGATGAA
1 ACAGTAAGCTCTGACGAGATGAA
* * * *
53987088 CCAGTAATCTCAT-AAGAGGTGAGA
1 ACAGTAAGCTC-TGACGAGATGA-A
*
53987112 ACAGTAAGCTCTTACGAG
1 ACAGTAAGCTCTGACGAG
53987130 CTAATATATC
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
23 37 0.71
24 15 0.29
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (23 bp):
ACAGTAAGCTCTGACGAGATGAA
Found at i:54000436 original size:6 final size:6
Alignment explanation
Indices: 54000425--54000451 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
54000415 CACAAGATGA
54000425 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
54000452 TGTTCATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:54011220 original size:13 final size:13
Alignment explanation
Indices: 54011202--54011230 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
54011192 TTTAGTTTAA
54011202 TTAGTTAATTAGT
1 TTAGTTAATTAGT
54011215 TTAGTTAATTAGT
1 TTAGTTAATTAGT
54011228 TTA
1 TTA
54011231 ATAAGCAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:54016705 original size:6 final size:6
Alignment explanation
Indices: 54016696--54016734 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
54016686 TCTTTTATTT
* *
54016696 TTTTTA TTTTTA TTTTAA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
54016735 CAATTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:54016716 original size:12 final size:12
Alignment explanation
Indices: 54016693--54016741 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
54016683 TCCTCTTTTA
54016693 TTTT-TTTT-AT
1 TTTTATTTTAAT
54016703 TTTTATTTTAAT
1 TTTTATTTTAAT
*
54016715 TTTTATTTTTAT
1 TTTTATTTTAAT
* *
54016727 TTTCATTTCAAT
1 TTTTATTTTAAT
54016739 TTT
1 TTT
54016742 ATTAGTTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 4 0.12
11 4 0.12
12 25 0.76
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTATTTTAAT
Found at i:54016719 original size:18 final size:18
Alignment explanation
Indices: 54016696--54016734 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
54016686 TCTTTTATTT
54016696 TTTTTATTTTTATTTTAA
1 TTTTTATTTTTATTTTAA
*
54016714 TTTTTATTTTTATTTTCA
1 TTTTTATTTTTATTTTAA
54016732 TTT
1 TTT
54016735 CAATTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTATTTTTATTTTAA
Found at i:54016740 original size:18 final size:18
Alignment explanation
Indices: 54016701--54016741 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
54016691 TATTTTTTTT
**
54016701 ATTTTTATTTTAATTTTT
1 ATTTTTATTTTAATTTCA
*
54016719 ATTTTTATTTTCATTTCA
1 ATTTTTATTTTAATTTCA
54016737 ATTTT
1 ATTTT
54016742 ATTAGTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTTTATTTTAATTTCA
Found at i:54018461 original size:40 final size:39
Alignment explanation
Indices: 54018391--54018605 Score: 297
Period size: 40 Copynumber: 5.4 Consensus size: 39
54018381 AAACCAAGTA
* * *
54018391 CCTTCAGGATTTAGCCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCGGATATAG-TAACTCGCACAAATG
54018430 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCC-GGATATAGTAACTCGCACAAATG
*
54018470 CCTTCGGGACTTATCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTA-GCCGGATATAGTAACTCGCACAAATG
*
54018510 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
* * * *
54018550 CCTTCGGGACTTAGCCCGAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCGGATA-TAGTAACTCGCACAAATG
54018590 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
54018606 CGGTTACCAT
Statistics
Matches: 162, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
39 21 0.13
40 139 0.86
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
Found at i:54022175 original size:27 final size:26
Alignment explanation
Indices: 54022115--54022224 Score: 87
Period size: 27 Copynumber: 4.1 Consensus size: 26
54022105 CATGGCTACT
* * ***
54022115 AGAACAGATAATGTGACAGAGTTACC
1 AGAATAGATAATGTGGCAGACCCACC
*
54022141 AGATATAGATAATCGTGGCTGACCCACC
1 AGA-ATAGATAAT-GTGGCAGACCCACC
*
54022169 AGAATAGATATATGTGGCAGAGCCACC
1 AGAATAGATA-ATGTGGCAGACCCACC
* *
54022196 AG-ATCAGATAATTGTGGCATAGCCACC
1 AGAAT-AGATAA-TGTGGCAGACCCACC
54022223 AG
1 AG
54022225 GACGCTTACT
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
26 6 0.09
27 50 0.71
28 14 0.20
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (26 bp):
AGAATAGATAATGTGGCAGACCCACC
Found at i:54025825 original size:13 final size:13
Alignment explanation
Indices: 54025807--54025835 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
54025797 TTTAGTTTAA
54025807 TTAGTTAATTAGT
1 TTAGTTAATTAGT
54025820 TTAGTTAATTAGT
1 TTAGTTAATTAGT
54025833 TTA
1 TTA
54025836 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:54047696 original size:40 final size:39
Alignment explanation
Indices: 54047612--54047796 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
54047602 TTGAATGATG
* * * *
54047612 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
54047652 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
54047692 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
54047731 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
54047772 -CCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
54047797 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54047748 original size:79 final size:81
Alignment explanation
Indices: 54047612--54047796 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
54047602 TTGAATGATG
* *
54047612 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
54047676 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
54047691 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
54047753 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* * *
54047771 ACCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54047797 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:54047827 original size:79 final size:79
Alignment explanation
Indices: 54047651--54047829 Score: 186
Period size: 79 Copynumber: 2.3 Consensus size: 79
54047641 AAGTGACCAT
* * * *
54047651 ATCCGGACTAAGA-TCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATT
1 ATCCGGATTAA-ATTCCGAAGGCAATTGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATT
**
54047715 TGTGCGAGTTACTAA
65 TGAACGAGTTACTAA
* * * * *
54047730 ATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-ATAACCAGGCTATGTCCCGAAGGCAT
1 ATCCGGATTAAATTCCGAAGGCAATTGTGCGAGATACTAAT-ACCAGGCTAAG-CCCGAAGGCAT
*
54047794 TTGAACGAG-TAGCTAT
64 TTGAACGAGTTA-CTAA
54047810 ATCC-GATTAAATTCCGAAGG
1 ATCCGGATTAAATTCCGAAGG
54047830 TACGTGATTT
Statistics
Matches: 81, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
78 2 0.02
79 54 0.67
80 25 0.31
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
ATCCGGATTAAATTCCGAAGGCAATTGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTT
GAACGAGTTACTAA
Found at i:54055704 original size:79 final size:81
Alignment explanation
Indices: 54055568--54055752 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
54055558 TTGAATGATG
* *
54055568 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
54055632 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
54055647 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
54055709 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
54055727 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54055753 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:54055766 original size:40 final size:40
Alignment explanation
Indices: 54055569--54055752 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
54055559 TGAATGATGT
* * * *
54055569 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
54055609 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
54055649 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
54055687 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
54055728 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
54055753 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:54055774 original size:79 final size:79
Alignment explanation
Indices: 54055621--54055785 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
54055611 GGACTAAGAT
* * **
54055621 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
54055686 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
54055700 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
54055763 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
54055779 CCGAAGG
1 CCGAAGG
54055786 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:54064148 original size:30 final size:30
Alignment explanation
Indices: 54064092--54064148 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
54064082 ATCCCGAGCC
*
54064092 TAGGGGCAAAAATGTAAATATGCAAAAGTT
1 TAGGGGCAAAAATGTAAATATCCAAAAGTT
* * *
54064122 TAGGGGCAAAATTGTAATTTTCCAAAA
1 TAGGGGCAAAAATGTAAATATCCAAAA
54064149 TTTGATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATATCCAAAAGTT
Found at i:54064632 original size:46 final size:45
Alignment explanation
Indices: 54064569--54064829 Score: 224
Period size: 46 Copynumber: 5.6 Consensus size: 45
54064559 TGGTTGAGCA
*
54064569 TCCGAGCTCGTTAAGTTGAGTCCGAGTTCACATATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAA-G
* * ** * * *
54064615 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG-GCA-
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACATATG-GA-T-GCGAAG
*
54064662 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAA-G
* * * ** * * *
54064708 TCTGAACTCGTTGAGTTGAGTCTGAGTTCGTGAAATGTAACTAG-GCA-
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACATATG-GA-T-GCGAAG
*
54064755 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAA-G
*
54064801 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC
54064830 GCTTATGGGC
Statistics
Matches: 166, Mismatches: 35, Indels: 28
0.72 0.15 0.12
Matches are distributed among these distances:
43 2 0.01
44 6 0.04
45 2 0.01
46 86 0.52
47 60 0.36
48 2 0.01
49 6 0.04
50 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAAG
Found at i:54064683 original size:47 final size:47
Alignment explanation
Indices: 54064621--54064783 Score: 192
Period size: 47 Copynumber: 3.5 Consensus size: 47
54064611 AATGTCTGAA
54064621 CTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAG
* * * * * *
54064668 CTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAATGTCTGAA
1 CTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAG-GCA--TCCGAG
*
54064714 CTCGTTGAGTTGAGTCTGAGTTCGTGAAATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAG
54064761 CTCGTTGAGTTGAGTCCGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
54064784 ACTTATGGAT
Statistics
Matches: 93, Mismatches: 14, Indels: 18
0.74 0.11 0.14
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 29 0.31
47 52 0.56
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAG
Found at i:54064725 original size:93 final size:93
Alignment explanation
Indices: 54064566--54064830 Score: 467
Period size: 93 Copynumber: 2.8 Consensus size: 93
54064556 GGATGGTTGA
* *
54064566 GCATCCGAGCTCGTTAAGTTGAGTCCGAGTTCACATATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
54064631 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
54064659 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
*
54064724 TGAGTCTGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * *
54064752 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
54064817 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
54064831 CTTATGGGCG
Statistics
Matches: 164, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 164 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:54083057 original size:26 final size:26
Alignment explanation
Indices: 54082986--54083133 Score: 221
Period size: 26 Copynumber: 5.8 Consensus size: 26
54082976 CCTCTTTAAT
* * *
54082986 AACTGGGGCA-GAGCCCTTTTTAGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
54083011 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
54083036 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* **
54083062 AACTGGGGCATAAGCCATTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
54083088 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
54083114 AACTGGGGCATAA-CCCTTTT
1 AACTGGGGCATAAGCCCTTTT
54083134 GCACTTCCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
25 39 0.35
26 74 0.65
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:54083307 original size:24 final size:25
Alignment explanation
Indices: 54083245--54083316 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
54083235 ATAATTAAAC
* **
54083245 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGTAAAACAGTCATTTTTA
54083270 CCTAGGGGTAAAACAGTCATTTTTA
1 CCTAGGGGTAAAACAGTCATTTTTA
*
54083295 CCTAGGGG-CAAACAGTCATTTT
1 CCTAGGGGTAAAACAGTCATTTT
54083317 CATAATATAG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 13 0.30
25 30 0.70
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (25 bp):
CCTAGGGGTAAAACAGTCATTTTTA
Found at i:54088888 original size:29 final size:28
Alignment explanation
Indices: 54088852--54088929 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
54088842 TCATGAGATT
54088852 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
54088882 -GCACTAAGTGTGCGAGTTTGAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
54088909 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
54088930 GATTATTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.12
29 34 0.81
30 3 0.07
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:54089147 original size:174 final size:174
Alignment explanation
Indices: 54088882--54089731 Score: 1619
Period size: 174 Copynumber: 4.9 Consensus size: 174
54088872 AAATTGTACA
* *
54088882 GCACTAAGTGTGCGAGTTTGAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
54088947 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
54089012 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
54089056 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
54089121 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
54089186 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
54089230 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
54089295 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
54089360 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
54089404 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
54089469 TGTGCGAACGCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
54089534 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
54089578 GCACTAAGTGTGTGAGTTTAAAGTACGTGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
54089643 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
54089708 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
54089732 ACCTTGAGTT
Statistics
Matches: 665, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 665 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:54096881 original size:29 final size:28
Alignment explanation
Indices: 54096845--54096922 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
54096835 TCATGAGATT
54096845 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
54096875 -GCACTAAGTGTGCGAGTTTGAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
54096902 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
54096923 GATTATTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.12
29 34 0.81
30 3 0.07
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:54097140 original size:174 final size:174
Alignment explanation
Indices: 54096875--54097202 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
54096865 AAATTGTACA
*
54096875 GCACTAAGTGTGCGAGTTTGAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
54096940 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
54097005 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
54097049 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
54097114 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
54097179 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
54097203 ACCTTGAGTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:54099026 original size:56 final size:57
Alignment explanation
Indices: 54098954--54099063 Score: 161
Period size: 56 Copynumber: 1.9 Consensus size: 57
54098944 TAGGATTTCG
* *
54098954 ATATGTGATGTGCGAGTAAGACCATGT-TTATAC-GTTGGCATCGATATGTGATTCCA
1 ATATGTGATGTGCGAGTAAGACCATGTCTGAGACAG-TGGCATCGATATGTGATTCCA
* *
54099010 ATATGTGATGTGCGAGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATT
1 ATATGTGATGTGCGAGTAAGACCATGTCTGAGACAGTGGCATCGATATGTGATT
54099064 ACATGTAAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
56 26 0.54
57 21 0.44
58 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (57 bp):
ATATGTGATGTGCGAGTAAGACCATGTCTGAGACAGTGGCATCGATATGTGATTCCA
Found at i:54105308 original size:28 final size:28
Alignment explanation
Indices: 54105277--54105360 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
54105267 AATTTCAATC
54105277 ACGTGTGTAGTACTAAGTGCAGGGTACT
1 ACGTGTGTAGTACTAAGTGCAGGGTACT
* * *
54105305 ACGTGTATCAG-A-T-GGT-TA-GGT--T
1 ACGTGTGT-AGTACTAAGTGCAGGGTACT
*
54105327 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGGTACT
54105355 ACGTGT
1 ACGTGT
54105361 ACCGGATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 16
0.64 0.11 0.25
Matches are distributed among these distances:
21 2 0.05
22 9 0.22
23 1 0.02
24 5 0.12
25 2 0.05
26 4 0.10
27 1 0.02
28 15 0.37
29 2 0.05
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.31
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGGTACT
Found at i:54105355 original size:50 final size:50
Alignment explanation
Indices: 54105229--54105417 Score: 220
Period size: 50 Copynumber: 3.8 Consensus size: 50
54105219 TGAGGTCGCA
* * *
54105229 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAATTTCA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-AGGTCACG
* * ** *
54105280 TGTGTAGTACTAAGTGCAGGGTACTACGTGTATCAGATGGTTAGGTTACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACG
* * *
54105330 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACG
* **
54105379 TGTGTAGTACTATGTGCAGGCTACTATTTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
54105418 GCTTTGGCTA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 40 0.34
50 43 0.37
51 34 0.29
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACG
Found at i:54108536 original size:40 final size:40
Alignment explanation
Indices: 54108428--54108644 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
54108418 AAGCCAGGTA
* * * *
54108428 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
54108467 CCTTCGGGACATAG-CCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
54108506 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
54108546 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
54108586 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
54108626 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
54108645 TTATCATCCG
Statistics
Matches: 160, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 45 0.28
40 114 0.71
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:54111057 original size:44 final size:43
Alignment explanation
Indices: 54110994--54111114 Score: 122
Period size: 43 Copynumber: 2.8 Consensus size: 43
54110984 TCGAAATGTG
* * **
54110994 ATATTCGGGCCTCA-GCCTAGCAAGCTTTAA-GCTGGTGA-ATA
1 ATATT-GGGCTTCAGGCCTAGCAAGCTATAATGCCAGTGAGATA
* *
54111035 ATATTATCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGAGATA
1 ATA-T-T-GGGCTTCAGGCCTAGCAAGCTATAATGCCAGTGAGATA
*
54111081 ATATTGGGCTTCAGGCCTAGCAGGCTATAATGCC
1 ATATTGGGCTTCAGGCCTAGCAAGCTATAATGCC
54111115 GATGAAATGA
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
41 3 0.04
42 1 0.01
43 36 0.53
44 15 0.22
45 7 0.10
46 6 0.09
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (43 bp):
ATATTGGGCTTCAGGCCTAGCAAGCTATAATGCCAGTGAGATA
Found at i:54111142 original size:43 final size:43
Alignment explanation
Indices: 54111052--54111148 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
54111042 CGGGCTTCGG
* * * * *
54111052 GCCTAGCAGGCTATAATGCCAGTGAGATAATATTGGGCTTCAG
1 GCCTAGCAGGCTATAATGCCAGTGAAATAATATCGAGCGTCAA
*
54111095 GCCTAGCAGGCTATAATGCC-GATGAAATGATATCGAGCGTCAA
1 GCCTAGCAGGCTATAATGCCAG-TGAAATAATATCGAGCGTCAA
54111138 GCCTAGCAGGC
1 GCCTAGCAGGC
54111149 GAAATTTCGG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 1 0.02
43 46 0.98
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.22
Consensus pattern (43 bp):
GCCTAGCAGGCTATAATGCCAGTGAAATAATATCGAGCGTCAA
Found at i:54117337 original size:20 final size:18
Alignment explanation
Indices: 54117312--54117348 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
54117302 ACCTAAAACG
54117312 AATTAAATTTAAGACATATT
1 AATTAAA-TTAA-ACATATT
54117332 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
54117349 CAACATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:54129172 original size:22 final size:22
Alignment explanation
Indices: 54129144--54129185 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
54129134 AAATAAATAC
* *
54129144 TTAAATTTTGGGGCGTTACAAG
1 TTAAATTTTAGGGCATTACAAG
54129166 TTAAATTTTAGGGCATTACA
1 TTAAATTTTAGGGCATTACA
54129186 GGAATAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (22 bp):
TTAAATTTTAGGGCATTACAAG
Found at i:54129291 original size:14 final size:15
Alignment explanation
Indices: 54129269--54129297 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
54129259 ACATATGCTC
54129269 TCTT-TTTTTCTTTT
1 TCTTATTTTTCTTTT
54129283 TCTTATTTTTCTTTT
1 TCTTATTTTTCTTTT
54129298 CACGACCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (15 bp):
TCTTATTTTTCTTTT
Found at i:54131502 original size:69 final size:70
Alignment explanation
Indices: 54131370--54131502 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
54131360 TAGTTTATTA
* * * * *
54131370 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
54131435 CTTAG
66 CTTAG
54131440 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
54131503 GTTATGTGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:54134280 original size:28 final size:27
Alignment explanation
Indices: 54134217--54134286 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
54134207 ATATTAAGTC
*
54134217 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
54134244 CGCACACTTAGTGCTATGTAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
54134272 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54134287 GTACAATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:54134309 original size:29 final size:28
Alignment explanation
Indices: 54134216--54134311 Score: 104
Period size: 28 Copynumber: 3.4 Consensus size: 28
54134206 TATATTAAGT
* *
54134216 CCGCACACTCAGTGCTATATAATC-AAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* **
54134243 TCGCACACTTAGTGCTATGTAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
54134271 TCGCACACTTAGTGCTGTACAATTTAAAC
1 CCGCACACTTAGTGCTATACAA-TCAAAC
54134300 CCGCACACTTAG
1 CCGCACACTTAG
54134312 CGCCAATCTC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
27 21 0.36
28 22 0.37
29 16 0.27
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:54136114 original size:47 final size:47
Alignment explanation
Indices: 54136060--54136654 Score: 1028
Period size: 47 Copynumber: 12.6 Consensus size: 47
54136050 TATTTGAATA
*
54136060 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGAGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
54136107 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
54136154 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
54136201 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
54136248 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
54136297 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
54136344 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
54136391 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
54136440 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
54136487 AATGTGAAAGTGTATATATGTGAAAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
54136534 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
54136581 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
54136628 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
54136655 TCCCGAAGGG
Statistics
Matches: 523, Mismatches: 21, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
47 433 0.83
49 90 0.17
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:54136321 original size:143 final size:141
Alignment explanation
Indices: 54136060--54136654 Score: 1028
Period size: 143 Copynumber: 4.2 Consensus size: 141
54136050 TATTTGAATA
* * *
54136060 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGAGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
54136125 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
54136190 CCGATGTGATG
131 CCGATGTGATG
54136201 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATA
54136266 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
54136331 GGCCGATGTGATG
129 GGCCGATGTGATG
54136344 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATA
54136409 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
54136474 GGCCGATGTGATG
129 GGCCGATGTGATG
* * *
54136487 AATGTGAAAGTGTATATATGTGAAAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* * * *
54136552 TGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* *
54136617 CCAACGTGATG
131 CCGATGTGATG
* *
54136628 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
54136655 TCCCGAAGGG
Statistics
Matches: 437, Mismatches: 15, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
141 156 0.36
143 281 0.64
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATG
Found at i:54136554 original size:25 final size:25
Alignment explanation
Indices: 54136526--54136604 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
54136516 CTAATGGCCG
54136526 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** * **
54136551 ATGTGAT-AAGGCCTAA-TG-GTCG
1 ATGTGATGAATGTGAAAGTGTATAT
54136573 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
54136598 ATGTGAT
1 ATGTGAT
54136605 AGGGCCGAGT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 8 0.22
23 7 0.19
24 7 0.19
25 15 0.41
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.34
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:54140436 original size:50 final size:50
Alignment explanation
Indices: 54140308--54140642 Score: 329
Period size: 50 Copynumber: 6.7 Consensus size: 50
54140298 ATTCGTTGTG
* * * * *
54140308 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACTCATTAACTTTG
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CA-GATCGTTA
* * *
54140360 A-TCACGTGTGTATTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGTTA
* * * *
54140409 AGTCACGTGTGTAGTAGTAAGTGCAGGCTACTACGTGTACCAAATTGATA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGTTA
* * * * * * *
54140459 GGTCGCAG-GTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGTTAACTTTA
1 AGTCAC-GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG--ATCGTTA
* * *
54140511 A-TCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGA-CGGTTA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATC-GTTA
* * *
54140560 AGTCACGTGTGTAGTACTAAGTGTAGGCT-CTTACGTGTACCAGATTGATA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTAC-TACGTGTACCAGATCGTTA
* *
54140610 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
54140643 TACATACCAG
Statistics
Matches: 232, Mismatches: 41, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.00
49 10 0.04
50 147 0.63
51 70 0.30
52 4 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGTTA
Found at i:54140572 original size:101 final size:99
Alignment explanation
Indices: 54140308--54140642 Score: 318
Period size: 101 Copynumber: 3.3 Consensus size: 99
54140298 ATTCGTTGTG
* * *
54140308 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACTCATTAACTTTGA-TCACGTGTGTA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCA--AACGTTAAGTCACGTGTGTA
* * * **
54140372 TTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
63 GTACTAAGTGCAGGCTACTACGCGTACCAGAACGTTA
* * * * * *
54140409 AGTCACGTGTGTAGTAGTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCAG-GTGTAG
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAA-CGTTAAGTCAC-GTGTGTAG
* * *
54140473 TACTAAGTGCAGGCTACTATGCGTACCTGTTAACTTTA
64 TACTAAGTGCAGGCTACTACGCGTACCAG--AACGTTA
* * *
54140511 A-TCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGACGGTTAAGTCACGTGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAAC-GTTAAGTCACGTGTGTAGT
* * ** *
54140575 ACTAAGTGTAGGCT-CTTACGTGTACCAGATTGATA
65 ACTAAGTGCAGGCTAC-TACGCGTACCAGAACGTTA
* *
54140610 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
54140643 TACATACCAG
Statistics
Matches: 189, Mismatches: 36, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
98 2 0.01
99 4 0.02
100 67 0.35
101 111 0.59
102 5 0.03
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (99 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAACGTTAAGTCACGTGTGTAGTA
CTAAGTGCAGGCTACTACGCGTACCAGAACGTTA
Found at i:54140595 original size:151 final size:151
Alignment explanation
Indices: 54140316--54140643 Score: 516
Period size: 151 Copynumber: 2.2 Consensus size: 151
54140306 TGAGTCACGT
* * * *
54140316 GTGTAGTACTAAGTGCAGGCTACTATGTGTACTCATTAACTTTGATCACGTGTGTATTACTAAGT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACTCATTAACTTTAATCACATGTGTAGTACTAAGT
* *
54140381 GCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAGTAAGTGCAGGCTACTACGTG
66 GCAGGCTACTACGTGTATCAGACGGTTAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTG
*
54140446 TACCAAATTGATAGGTCGCAG
131 TACCAAATTGATAGGTCACAG
*
54140467 GTGTAGTACTAAGTGCAGGCTACTATGCGTAC-CTGTTAACTTTAATCACATGTGTAGTACTAAG
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-ATTAACTTTAATCACATGTGTAGTACTAAG
* *
54140531 TGTAGGCTACTACGTGTATCAGACGGTTAAGTCACGTGTGTAGTACTAAGTGTAGGCT-CTTACG
65 TGCAGGCTACTACGTGTATCAGACGGTTAAGTCACGTGTGTAGTACTAAGTGCAGGCTAC-TACG
* *
54140595 TGTACCAGATTGATAGGTCACAT
129 TGTACCAAATTGATAGGTCACAG
54140618 GTGTAGTACTAAGTGCAGGCTACTAT
1 GTGTAGTACTAAGTGCAGGCTACTAT
54140644 ACATACCAGA
Statistics
Matches: 163, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
150 2 0.01
151 161 0.99
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (151 bp):
GTGTAGTACTAAGTGCAGGCTACTATGCGTACTCATTAACTTTAATCACATGTGTAGTACTAAGT
GCAGGCTACTACGTGTATCAGACGGTTAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTG
TACCAAATTGATAGGTCACAG
Found at i:54142611 original size:16 final size:16
Alignment explanation
Indices: 54142590--54142620 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54142580 GCATGGCTTT
54142590 CTATTTCTTTTATTAC
1 CTATTTCTTTTATTAC
*
54142606 CTATTTGTTTTATTA
1 CTATTTCTTTTATTA
54142621 TACTTTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.13, G:0.03, T:0.65
Consensus pattern (16 bp):
CTATTTCTTTTATTAC
Found at i:54145500 original size:27 final size:27
Alignment explanation
Indices: 54145462--54145945 Score: 412
Period size: 27 Copynumber: 18.0 Consensus size: 27
54145452 AAACATACAT
* *
54145462 CACATAAGGGTAAAATAATCATCTTAC
1 CACATAAGGGTAAAACAATCATTTTAC
* * *
54145489 CATAAAAGGGTAAAACAGTCATTTTAC
1 CACATAAGGGTAAAACAATCATTTTAC
* *
54145516 CACATAAGGGCAAAAAAATCATTTTAC
1 CACATAAGGGTAAAACAATCATTTTAC
*
54145543 CACATAAGGGAAAAACAATCATTTTAC
1 CACATAAGGGTAAAACAATCATTTTAC
* * *
54145570 CTCATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGTAAAACAATCATTTTAC
* * *
54145597 CACATAATGGCAAAACAGTCATTTTAC
1 CACATAAGGGTAAAACAATCATTTTAC
* * * * *
54145624 CTCATAAAGGCAAAACAGTCATTATAC
1 CACATAAGGGTAAAACAATCATTTTAC
* * * * *
54145651 CTCATAAAGGCAAAACAGTCATTATAC
1 CACATAAGGGTAAAACAATCATTTTAC
* * * *
54145678 CTCACAAGGGTAAAATAGTCATTTTAC
1 CACATAAGGGTAAAACAATCATTTTAC
* * * *
54145705 CAAATAAGGGCAAAACAGTTATTTTAC
1 CACATAAGGGTAAAACAATCATTTTAC
* * * *
54145732 CAAATAAGAGCAAAACAGTCATTTTAC
1 CACATAAGGGTAAAACAATCATTTTAC
* * * * *
54145759 CTCACAAAGGCAAAATAATCATTTTAC
1 CACATAAGGGTAAAACAATCATTTTAC
* * * * *
54145786 CTCATAAAGGAAAAATAGTCA-TTTAC
1 CACATAAGGGTAAAACAATCATTTTAC
* * *
54145812 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGTAAAACAATCATTTTAC
* * * * *
54145839 CTCACAAGGGCAAAACAGTTATTTTAC
1 CACATAAGGGTAAAACAATCATTTTAC
* *
54145866 CTCATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGTAAAACAATCATTTTAC
* * *
54145893 CACAAAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGTAAAACAATCATTTTAC
* *
54145920 CTCATAAGGGCAAAACAATCATTTTA
1 CACATAAGGGTAAAACAATCATTTTA
54145946 TTAATTTGGG
Statistics
Matches: 397, Mismatches: 59, Indels: 2
0.87 0.13 0.00
Matches are distributed among these distances:
26 23 0.06
27 374 0.94
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (27 bp):
CACATAAGGGTAAAACAATCATTTTAC
Found at i:54145536 original size:54 final size:54
Alignment explanation
Indices: 54145464--54145945 Score: 524
Period size: 54 Copynumber: 8.9 Consensus size: 54
54145454 ACATACATCA
* * * * * * *
54145464 CATAAGGGTAAAATAATCATCTTACCATAAAAGGGTAAAACAGTCATTTTACCA
1 CATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAACAGTCATTTTACCT
* * * * *
54145518 CATAAGGGCAAAAAAATCATTTTACCACATAAGGGAAAAACAATCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAACAGTCATTTTACCT
* *
54145572 CATAAGGGCAAAACAGTCATTTTACCACATAATGGCAAAACAGTCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAACAGTCATTTTACCT
* * * *
54145626 CATAAAGGCAAAACAGTCATTATACC-TCATAAAGGCAAAACAGTCATTATACCT
1 CATAAGGGCAAAACAGTCATTTTACCAT-ATAAGGGCAAAACAGTCATTTTACCT
* * * * * *
54145680 CACAAGGGTAAAATAGTCATTTTACCAAATAAGGGCAAAACAGTTATTTTACCA
1 CATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAACAGTCATTTTACCT
* * * * * *
54145734 AATAAGAGCAAAACAGTCATTTTACC-TCACAAAGGCAAAATAATCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCAT-ATAAGGGCAAAACAGTCATTTTACCT
* * * * *
54145788 CATAAAGGAAAAATAGTCA-TTTACCACATAAGGGCAAAATAGTCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAACAGTCATTTTACCT
* * * *
54145841 CACAAGGGCAAAACAGTTATTTTACC-TCATAAGGGCAAAACAATCATTTTACCA
1 CATAAGGGCAAAACAGTCATTTTACCAT-ATAAGGGCAAAACAGTCATTTTACCT
* *
54145895 CAAAAGGGCAAAACAGTCATTTTACC-TCATAAGGGCAAAACAATCATTTTA
1 CATAAGGGCAAAACAGTCATTTTACCAT-ATAAGGGCAAAACAGTCATTTTA
54145946 TTAATTTGGG
Statistics
Matches: 362, Mismatches: 60, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
53 43 0.12
54 319 0.88
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (54 bp):
CATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAACAGTCATTTTACCT
Found at i:54145597 original size:81 final size:81
Alignment explanation
Indices: 54145462--54145945 Score: 574
Period size: 81 Copynumber: 6.0 Consensus size: 81
54145452 AAACATACAT
* * * * * * * *
54145462 CACATAAGGGTAAAATAATCATCTTACCATAAAAGGGTAAAACAGTCATTTTACCACATAAGGGC
1 CACATAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAACAGTCATTTTACCTCACAAGGGC
*
54145527 AAAAAAATCATTTTAC
66 AAAACAATCATTTTAC
* * * * *
54145543 CACATAAGGGAAAAACAATCATTTTACCTCATAAGGGCAAAACAGTCATTTTACCACATAATGGC
1 CACATAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAACAGTCATTTTACCTCACAAGGGC
*
54145608 AAAACAGTCATTTTAC
66 AAAACAATCATTTTAC
* * * * * * * *
54145624 CTCATAAAGGCAAAACAGTCATTATACCTCATAAAGGCAAAACAGTCATTATACCTCACAAGGGT
1 CACATAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAACAGTCATTTTACCTCACAAGGGC
* *
54145689 AAAATAGTCATTTTAC
66 AAAACAATCATTTTAC
* * * * * *
54145705 CAAATAAGGGCAAAACAGTTATTTTACCAAATAAGAGCAAAACAGTCATTTTACCTCACAAAGGC
1 CACATAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAACAGTCATTTTACCTCACAAGGGC
*
54145770 AAAATAATCATTTTAC
66 AAAACAATCATTTTAC
* * * * * *
54145786 CTCATAAAGGAAAAATAGTCA-TTTACCACATAAGGGCAAAATAGTCATTTTACCTCACAAGGGC
1 CACATAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAACAGTCATTTTACCTCACAAGGGC
* *
54145850 AAAACAGTTATTTTAC
66 AAAACAATCATTTTAC
* * *
54145866 CTCATAAGGGCAAAACAATCATTTTACCACAAAAGGGCAAAACAGTCATTTTACCTCATAAGGGC
1 CACATAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAACAGTCATTTTACCTCACAAGGGC
54145931 AAAACAATCATTTTA
66 AAAACAATCATTTTA
54145946 TTAATTTGGG
Statistics
Matches: 345, Mismatches: 57, Indels: 2
0.85 0.14 0.00
Matches are distributed among these distances:
80 69 0.20
81 276 0.80
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (81 bp):
CACATAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAACAGTCATTTTACCTCACAAGGGC
AAAACAATCATTTTAC
Found at i:54152380 original size:27 final size:27
Alignment explanation
Indices: 54152350--54152527 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
54152340 ATATCGAGTC
* * * *
54152350 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
54152377 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
54152404 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
54152432 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
54152459 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
54152486 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
54152513 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54152528 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:54152489 original size:82 final size:81
Alignment explanation
Indices: 54152371--54152526 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
54152361 TGCTATATAA
*
54152371 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
54152436 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
54152453 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
54152517 CACTTAGTGC
65 CACTTAGTGC
54152527 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:54158802 original size:53 final size:53
Alignment explanation
Indices: 54158625--54158847 Score: 216
Period size: 53 Copynumber: 4.2 Consensus size: 53
54158615 CTTAGGGTTT
* * * *
54158625 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTTATAAGGC
* * * * * * * **
54158679 AAGGAAATCATGTAAGACCGTGTCAAGACATGGCATTGATAAACTACGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGT-TTATAAGGC
* * *
54158734 AAAGATCCCATGTAAGACCATGCCAATG-CATGGCAATGGTGAGTTTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAA-GACATGGCAATGGTAAGTTTATAAGGC
* * * *
54158787 AAGGATACCATGTAAGACCATGTCAAGACATGCCAATGGTAAGTTTAAAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTATAAGGC
54158840 AAGG-TACC
1 AAGGATACC
54158848 TGTGTATCCT
Statistics
Matches: 135, Mismatches: 30, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
52 5 0.04
53 55 0.41
54 36 0.27
55 38 0.28
56 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTATAAGGC
Found at i:54164409 original size:31 final size:32
Alignment explanation
Indices: 54164376--54164475 Score: 100
Period size: 31 Copynumber: 3.1 Consensus size: 32
54164366 ATATACTCAT
54164376 AAACTAATTTTAAATCATTACTAACACATATA
1 AAACTAATTTTAAATCATTACTAACACATATA
* *
54164408 AAACATAA--TCAAATCA-TATTAA-ACATACTCA
1 AAAC-TAATTTTAAATCATTACTAACACATA-T-A
* *
54164439 TCAACTAATTTTAAACCATTACTAACACATATA
1 -AAACTAATTTTAAATCATTACTAACACATATA
54164472 AAAC
1 AAAC
54164476 ATAACCAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
29 5 0.09
30 6 0.11
31 11 0.21
32 10 0.19
33 10 0.19
34 6 0.11
35 5 0.09
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (32 bp):
AAACTAATTTTAAATCATTACTAACACATATA
Found at i:54164448 original size:64 final size:64
Alignment explanation
Indices: 54164359--54164493 Score: 225
Period size: 64 Copynumber: 2.1 Consensus size: 64
54164349 TTTCAACATT
* * *
54164359 TATTCAAATATACTCATAAACTAATTTTAAATCATTACTAACACATATAAAACATAATCAAATCA
1 TATT-AAACATACTCATAAACTAATTTTAAACCATTACTAACACATATAAAACATAACCAAATCA
*
54164424 TATTAAACATACTCATCAACTAATTTTAAACCATTACTAACACATATAAAACATAACCAAATCA
1 TATTAAACATACTCATAAACTAATTTTAAACCATTACTAACACATATAAAACATAACCAAATCA
54164488 TATTAA
1 TATTAA
54164494 CCAAATGTAG
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
64 62 0.94
65 4 0.06
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (64 bp):
TATTAAACATACTCATAAACTAATTTTAAACCATTACTAACACATATAAAACATAACCAAATCA
Found at i:54166363 original size:21 final size:20
Alignment explanation
Indices: 54166331--54166369 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
54166321 AAAATGTGTG
54166331 AATATATATAAGCTATGGCCA
1 AATATATATAAGCT-TGGCCA
54166352 AATATGAT-TAAGCTTGGC
1 AATAT-ATATAAGCTTGGC
54166370 TATTATATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 11 0.65
22 2 0.12
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (20 bp):
AATATATATAAGCTTGGCCA
Found at i:54171498 original size:358 final size:358
Alignment explanation
Indices: 54170841--54171571 Score: 1408
Period size: 358 Copynumber: 2.0 Consensus size: 358
54170831 TGACGCAATT
54170841 GTTGGAGGAACCATCAATAATAAAACACCTGAAGATGCTTATGGGTTTATAGAGGAGATGTCACT
1 GTTGGAGGAACCATCAATAATAAAACACCTGAAGATGCTTATGGGTTTATAGAGGAGATGTCACT
54170906 GAATAAATATTAGTGGCAAATCATGAGGACAAAACCAATGAAAACAACCGGTGTTTATAATGTCA
66 GAATAAATATTAGTGGCAAATCATGAGGACAAAACCAATGAAAACAACCGGTGTTTATAATGTCA
54170971 ATTCGGTCACCATGCTCTCTAATCAGGTAGAACTCTTGAATAAGAAAATTGATGATTTTATTAGT
131 ATTCGGTCACCATGCTCTCTAATCAGGTAGAACTCTTGAATAAGAAAATTGATGATTTTATTAGT
* *
54171036 TCTTCACAGGTTCACCCAGTAATGCAGTGTGAAGCAAGTGGAGGTGGATCAAGCAATTCAGAATA
196 TCTTCACAGGTTCACCCAGTAATGCAATGTGAAGCAAATGGAGGTGGATCAAGCAATTCAGAATA
*
54171101 CCAACCTTATGGGCACAACATGGATAACGAGCAGTTAAATTACATCGGTAATAATTCTCGATCTC
261 CCAACCTTATGGCCACAACATGGATAACGAGCAGTTAAATTACATCGGTAATAATTCTCGATCTC
54171166 AAAACAATCCATATAGTAATACTTACAATGCAG
326 AAAACAATCCATATAGTAATACTTACAATGCAG
54171199 GTTGGAGGAACCATCAATAATAAAACACCTGAAGATGCTTATGGGTTTATAGAGGAGATGTCACT
1 GTTGGAGGAACCATCAATAATAAAACACCTGAAGATGCTTATGGGTTTATAGAGGAGATGTCACT
* *
54171264 GAATAAATATTAGTGGCAAGTCATGAGGACAAAACCAATGAAAACAGCCGGTGTTTATAATGTCA
66 GAATAAATATTAGTGGCAAATCATGAGGACAAAACCAATGAAAACAACCGGTGTTTATAATGTCA
54171329 ATTCGGTCACCATGCTCTCTAATCAGGTAGAACTCTTGAATAAGAAAATTGATGATTTTATTAGT
131 ATTCGGTCACCATGCTCTCTAATCAGGTAGAACTCTTGAATAAGAAAATTGATGATTTTATTAGT
54171394 TCTTCACAGGTTCACCCAGTAATGCAATGTGAAGCAAATGGAGGTGGATCAAGCAATTCAGAATA
196 TCTTCACAGGTTCACCCAGTAATGCAATGTGAAGCAAATGGAGGTGGATCAAGCAATTCAGAATA
*
54171459 CCAACCTTATGGCCACAACATGGATAACGAGCAGTTAAATTACATGGGTAATAATTCTCGATCTC
261 CCAACCTTATGGCCACAACATGGATAACGAGCAGTTAAATTACATCGGTAATAATTCTCGATCTC
54171524 AAAACAATCCATATAGTAATACTTACAATGCAG
326 AAAACAATCCATATAGTAATACTTACAATGCAG
54171557 GTTGGAGGAACCATC
1 GTTGGAGGAACCATC
54171572 CAAATTTCTC
Statistics
Matches: 367, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
358 367 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (358 bp):
GTTGGAGGAACCATCAATAATAAAACACCTGAAGATGCTTATGGGTTTATAGAGGAGATGTCACT
GAATAAATATTAGTGGCAAATCATGAGGACAAAACCAATGAAAACAACCGGTGTTTATAATGTCA
ATTCGGTCACCATGCTCTCTAATCAGGTAGAACTCTTGAATAAGAAAATTGATGATTTTATTAGT
TCTTCACAGGTTCACCCAGTAATGCAATGTGAAGCAAATGGAGGTGGATCAAGCAATTCAGAATA
CCAACCTTATGGCCACAACATGGATAACGAGCAGTTAAATTACATCGGTAATAATTCTCGATCTC
AAAACAATCCATATAGTAATACTTACAATGCAG
Found at i:54197953 original size:21 final size:21
Alignment explanation
Indices: 54197927--54197969 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
54197917 TTTCCATCCT
54197927 TTGTAGTCCCGCCAAGCTAGC
1 TTGTAGTCCCGCCAAGCTAGC
*
54197948 TTGTAGTTCCGCCAAGCTAGC
1 TTGTAGTCCCGCCAAGCTAGC
54197969 T
1 T
54197970 CGGGGATCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.28
Consensus pattern (21 bp):
TTGTAGTCCCGCCAAGCTAGC
Found at i:54201943 original size:12 final size:12
Alignment explanation
Indices: 54201926--54201952 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
54201916 ATTCCGAAGT
54201926 ATATATATATAC
1 ATATATATATAC
54201938 ATATATATATAC
1 ATATATATATAC
54201950 ATA
1 ATA
54201953 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:54202483 original size:27 final size:28
Alignment explanation
Indices: 54202399--54202493 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
54202389 CATGAGATTG
* * * *
54202399 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
54202428 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
54202456 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
54202483 GCACTGAGTGT
1 GCACTAAGTGT
54202494 ACGGACTTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.34
28 22 0.36
29 18 0.30
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:54202507 original size:27 final size:27
Alignment explanation
Indices: 54202427--54202509 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
54202417 TAAATTGTAC
* * *
54202427 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTACGA-CTTGAATATAT
* * *
54202455 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTACGACTTGAATATAT
*
54202482 AGCACTGAGTGTACGGACTT-AATATAT
1 AGCACTAAGTGTAC-GACTTGAATATAT
54202509 A
1 A
54202510 CTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 29 0.59
28 20 0.41
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTACGACTTGAATATAT
Found at i:54206561 original size:46 final size:47
Alignment explanation
Indices: 54206510--54206604 Score: 174
Period size: 46 Copynumber: 2.0 Consensus size: 47
54206500 TTAAAGAAGA
54206510 GAAAATTTTCATTTTTCACACCATAAAT-AGTCTTTTCTAGTTTTGT
1 GAAAATTTTCATTTTTCACACCATAAATAAGTCTTTTCTAGTTTTGT
54206556 GAAAATTTTCATTTTTCACACCATAAATAAAGTCTTTTCTAGTTTTGT
1 GAAAATTTTCATTTTTCACACCATAAAT-AAGTCTTTTCTAGTTTTGT
54206604 G
1 G
54206605 TTTTGATTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 28 0.60
48 19 0.40
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.46
Consensus pattern (47 bp):
GAAAATTTTCATTTTTCACACCATAAATAAGTCTTTTCTAGTTTTGT
Found at i:54209386 original size:27 final size:26
Alignment explanation
Indices: 54209342--54209393 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
54209332 CTTGCTGCAA
*
54209342 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
54209369 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
54209394 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:54209457 original size:67 final size:67
Alignment explanation
Indices: 54209323--54209460 Score: 188
Period size: 67 Copynumber: 2.1 Consensus size: 67
54209313 GAGGAAGCGT
* * * * *
54209323 TCTGGCAGCCTTGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATGTTCTGGTGACCTAGTCAAAA
54209388 TA
66 TA
* * *
54209390 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATGTTCTTGTGGCCTAG-CTAAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATGTTCTGGTGACCTAGTC-AAA
54209454 ATA
65 ATA
54209457 TCTG
1 TCTG
54209461 TATCTGGTGA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 1 0.02
67 61 0.98
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.32
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATGTTCTGGTGACCTAGTCAAAA
TA
Found at i:54216615 original size:33 final size:32
Alignment explanation
Indices: 54216566--54216629 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
54216556 CTCGCTGCAA
* *
54216566 TCTAGTGGCTTCGCCACATATATATATATCTGT
1 TCTAGTGGCCTAGCCACA-ATATATATATCTGT
* *
54216599 TCTAGTGGCCTAGCCACAATATCTGTATCTG
1 TCTAGTGGCCTAGCCACAATATATATATCTG
54216630 GTGACTTTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (32 bp):
TCTAGTGGCCTAGCCACAATATATATATCTGT
Found at i:54217501 original size:22 final size:20
Alignment explanation
Indices: 54217471--54217516 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
54217461 TGAAATTTTA
54217471 ATTAGTATTATGAGATAAAATT
1 ATTAGTATTATGAGA-AAAA-T
* *
54217493 ATTATTATTATTAGAAAAAT
1 ATTAGTATTATGAGAAAAAT
54217513 ATTA
1 ATTA
54217517 CTGTATGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 4 0.18
22 13 0.59
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (20 bp):
ATTAGTATTATGAGAAAAAT
Found at i:54223156 original size:27 final size:27
Alignment explanation
Indices: 54223125--54223176 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
54223115 ACAAGTGAGG
54223125 AAAAAGAAAAAGAGAATGAAAAAGAGC
1 AAAAAGAAAAAGAGAATGAAAAAGAGC
* ** *
54223152 AAAAAGAGATTGAGAGTGAAAAAGA
1 AAAAAGAAAAAGAGAATGAAAAAGA
54223177 ATGTGAAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.65, C:0.02, G:0.25, T:0.08
Consensus pattern (27 bp):
AAAAAGAAAAAGAGAATGAAAAAGAGC
Found at i:54225974 original size:31 final size:31
Alignment explanation
Indices: 54225933--54226028 Score: 156
Period size: 31 Copynumber: 3.1 Consensus size: 31
54225923 GGCTGTTACA
54225933 TACCTGATCAGTGAAAAGTGGTAGCTCCGGC
1 TACCTGATCAGTGAAAAGTGGTAGCTCCGGC
* *
54225964 TACCTAATCAGTGAAAAATGGTAGCTCCGGC
1 TACCTGATCAGTGAAAAGTGGTAGCTCCGGC
* *
54225995 TACCTGATCAGTGAATAGTGGTAGCTTCGGC
1 TACCTGATCAGTGAAAAGTGGTAGCTCCGGC
54226026 TAC
1 TAC
54226029 AAGTGACAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (31 bp):
TACCTGATCAGTGAAAAGTGGTAGCTCCGGC
Found at i:54226123 original size:47 final size:48
Alignment explanation
Indices: 54226053--54226178 Score: 170
Period size: 47 Copynumber: 2.7 Consensus size: 48
54226043 AAGTGATTTC
*
54226053 CGTATAAGACCATATCTGGGATATGGCATCGATGTGATATATG-GTACT
1 CGTATAAGACCATATCTGGGATATGGCATCGATGTGAGATATGTG-ACT
*
54226101 -GTATAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATT
1 CGTATAAGACCATATCTGGGATATGGCATCGATGTGAGATATGTGACT
* * *
54226146 CGTGTAAGACCATAGCTGGGCTATGGCATCGAT
1 CGTATAAGACCATATCTGGGATATGGCATCGAT
54226179 ATATGAATAT
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
45 11 0.16
46 28 0.41
47 30 0.43
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (48 bp):
CGTATAAGACCATATCTGGGATATGGCATCGATGTGAGATATGTGACT
Found at i:54226255 original size:42 final size:42
Alignment explanation
Indices: 54226147--54226261 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 42
54226137 TATGTGATTC
*
54226147 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
* * *
54226189 GTGTAAGACCATAGCAGGGCTATGGCAT-TATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAAGAT
* *
54226231 GTGTAAGACCATAGTTGAAG-TATGGCATCGA
1 GTGTAAGACCATAGCTG-GGCTATGGCATCGA
54226262 GAAAACGAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
41 1 0.02
42 59 0.95
43 2 0.03
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGAT
Found at i:54230693 original size:50 final size:50
Alignment explanation
Indices: 54230589--54230714 Score: 175
Period size: 50 Copynumber: 2.5 Consensus size: 50
54230579 CCATGGCAAC
* *
54230589 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGACCAAGGAAAAGTGA
*
54230639 AAGTGATAAGTGATAGCTTC-GCTACACTTATCTGACCAATGACAAA-TGA
1 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGACCAAGGA-AAAGTGA
* *
54230688 GAAGTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCAGCTAC
54230715 TTGATCAGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
49 23 0.33
50 41 0.59
51 5 0.07
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGACCAAGGAAAAGTGA
Found at i:54230728 original size:31 final size:31
Alignment explanation
Indices: 54230690--54230869 Score: 238
Period size: 31 Copynumber: 5.8 Consensus size: 31
54230680 ACAAATGAGA
* *
54230690 AGTGAAAAGTGGTAGCTTCAGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
54230721 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
54230752 AGTGAAAAGTAGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
* *
54230783 AGTGAAAAGTTGTAG-TTGCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
* *
54230814 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
54230845 AATGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
54230870 AAGTGACAAG
Statistics
Matches: 132, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
30 2 0.02
31 129 0.98
32 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Done.