Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 175 of 425
Found at i:53037677 original size:29 final size:29
Alignment explanation
Indices: 53037635--53037710 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
53037625 TGAATGTGAC
*
53037635 TGGGCCTAACGGGCCATATAAACGTGATT
1 TGGGCCTAATGGGCCATATAAACGTGATT
* * *
53037664 TTGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAACGTGATT
53037693 TGGGCCTAAT-GGCCATAT
1 TGGGCCTAATGGGCCATAT
53037711 GAATATGATT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 8 0.19
29 34 0.81
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAACGTGATT
Found at i:53037719 original size:28 final size:28
Alignment explanation
Indices: 53037622--53037720 Score: 94
Period size: 29 Copynumber: 3.5 Consensus size: 28
53037612 GTGAGCATGA
* *
53037622 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAA-TGGCC
* * *
53037650 ATATAAACGTGATTTTGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAAT-GGCC
*
53037679 ATAT-ACAGGTGATTTGGGCCTAATGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGCC
*
53037707 ATATGAATATGATT
1 ATATGAATGTGATT
53037721 GGACTTAATA
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
28 25 0.43
29 33 0.57
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (28 bp):
ATATGAATGTGATTTGGGCCTAATGGCC
Found at i:53040714 original size:80 final size:81
Alignment explanation
Indices: 53040552--53040752 Score: 296
Period size: 80 Copynumber: 2.5 Consensus size: 81
53040542 CCAAATTGAT
* ** * *
53040552 AAATGATTGTTTTGCCCTCATGTGGTAAAATGTTTATTTTGCCCTTATGTAGTAAAATGATTGTT
1 AAATGATTGTTTTGCCCTTATGTGGTAAAATGACTATTTTACCCTTATGTAGTAAAATGACTGTT
53040617 TTGCCCTTATGTGGTA
66 TTGCCCTTATGTGGTA
* * * *
53040633 AAATGATTATTTTGCCCTTATGTTGTAAAATGACTGTTTTATCCTTATG-AGTAAAATGACTGTT
1 AAATGATTGTTTTGCCCTTATGTGGTAAAATGACTATTTTACCCTTATGTAGTAAAATGACTGTT
53040697 TTGCCCTTATGTGGTA
66 TTGCCCTTATGTGGTA
* *
53040713 AAATGATTGTTTTGCCCTTATATGGTAAGATGACTATTTT
1 AAATGATTGTTTTGCCCTTATGTGGTAAAATGACTATTTT
53040753 GGGCTATGTG
Statistics
Matches: 106, Mismatches: 14, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
80 65 0.61
81 41 0.39
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.44
Consensus pattern (81 bp):
AAATGATTGTTTTGCCCTTATGTGGTAAAATGACTATTTTACCCTTATGTAGTAAAATGACTGTT
TTGCCCTTATGTGGTA
Found at i:53040753 original size:27 final size:27
Alignment explanation
Indices: 53040552--53040745 Score: 264
Period size: 27 Copynumber: 7.2 Consensus size: 27
53040542 CCAAATTGAT
*
53040552 AAATGATTGTTTTGCCCTCATGTGGTA
1 AAATGATTGTTTTGCCCTTATGTGGTA
* * *
53040579 AAATGTTTATTTTGCCCTTATGTAGTA
1 AAATGATTGTTTTGCCCTTATGTGGTA
53040606 AAATGATTGTTTTGCCCTTATGTGGTA
1 AAATGATTGTTTTGCCCTTATGTGGTA
* *
53040633 AAATGATTATTTTGCCCTTATGTTGTA
1 AAATGATTGTTTTGCCCTTATGTGGTA
* ** *
53040660 AAATGACTGTTTTATCCTTATG-AGTA
1 AAATGATTGTTTTGCCCTTATGTGGTA
*
53040686 AAATGACTGTTTTGCCCTTATGTGGTA
1 AAATGATTGTTTTGCCCTTATGTGGTA
*
53040713 AAATGATTGTTTTGCCCTTATATGGTA
1 AAATGATTGTTTTGCCCTTATGTGGTA
*
53040740 AGATGA
1 AAATGA
53040746 CTATTTTGGG
Statistics
Matches: 146, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 23 0.16
27 123 0.84
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (27 bp):
AAATGATTGTTTTGCCCTTATGTGGTA
Found at i:53049044 original size:47 final size:46
Alignment explanation
Indices: 53048927--53049099 Score: 198
Period size: 45 Copynumber: 3.8 Consensus size: 46
53048917 GGATGGTTGA
53048927 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTA-GGATGCGAAT
* *
53048974 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GT-GAGATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAG-GATGCGAA-T
*
53049017 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TA-GGATGCGAAT
*
53049067 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
53049100 TAGGGGCGGG
Statistics
Matches: 109, Mismatches: 6, Indels: 24
0.78 0.04 0.17
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
45 31 0.28
46 29 0.27
47 30 0.28
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAGGATGCGAAT
Found at i:53049096 original size:93 final size:92
Alignment explanation
Indices: 53048927--53049096 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
53048917 GGATGGTTGA
* *
53048927 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
53048992 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
53049019 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAACTCGTTGAGT
53049084 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
53049097 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 34 0.46
93 40 0.54
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53050748 original size:18 final size:19
Alignment explanation
Indices: 53050725--53050768 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
53050715 AGGACTTGTA
53050725 TACTGTTAT-TGCACTGAT
1 TACTGTTATCTGCACTGAT
53050743 TACTGTT-TCTGCACTGAT
1 TACTGTTATCTGCACTGAT
*
53050761 TATTGTTA
1 TACTGTTA
53050769 CTGTGCTGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (19 bp):
TACTGTTATCTGCACTGAT
Found at i:53057842 original size:30 final size:30
Alignment explanation
Indices: 53057806--53057906 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
53057796 GACAAGATTG
* * *
53057806 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
53057836 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
53057864 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
53057893 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
53057907 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:53057918 original size:29 final size:28
Alignment explanation
Indices: 53057835--53057910 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
53057825 AAAATTGTAC
* *
53057835 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
53057863 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
53057892 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
53057911 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:53061877 original size:48 final size:48
Alignment explanation
Indices: 53061790--53061960 Score: 245
Period size: 48 Copynumber: 3.6 Consensus size: 48
53061780 ACGATGCCTC
* * * *
53061790 ATGTCGATGTCATATCCCATACATGGTCTTACACTGGCTCACATAACA
1 ATGTAGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
* *
53061838 ATGTAGATGCCATGTCCTAGACATGGTCTTACACCGGCTCACATAACA
1 ATGTAGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
* * *
53061886 ATGTCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATAAAA
1 ATGTAGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
53061934 ATGTCA-ATGCCATGTCCCAGACATGGT
1 ATGT-AGATGCCATGTCCCAGACATGGT
53061961 TGTATGGCAT
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
48 110 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGTAGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
Found at i:53064079 original size:40 final size:40
Alignment explanation
Indices: 53063953--53064080 Score: 113
Period size: 40 Copynumber: 3.2 Consensus size: 40
53063943 AAATTGAATG
* * *
53063953 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAA--ATT
1 ATATCCGGGCTAAGA-CCCGAAGGCAATTGTGCT--AATGGTT
* * *
53063993 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAATGGTT
*
53064033 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-ACATGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTA-ATGGTT
53064073 ATATCCGG
1 ATATCCGG
53064081 TTATTTCCGA
Statistics
Matches: 72, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
38 1 0.01
39 4 0.06
40 66 0.92
41 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAATGGTT
Found at i:53070298 original size:40 final size:39
Alignment explanation
Indices: 53070171--53070300 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
53070161 ATGCTGGAAA
* *
53070171 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
53070211 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
53070251 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
53070291 TTATATCCGG
1 TTATATCCGG
53070301 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:53076230 original size:40 final size:40
Alignment explanation
Indices: 53076176--53076325 Score: 165
Period size: 40 Copynumber: 3.7 Consensus size: 40
53076166 TAGTGATTCG
* * *
53076176 CACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCA
1 CACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCA
* * * * *
53076216 CACGAATGCATTCGGGACTTAACCCGGTTTTGGTAACTCG
1 CACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCA
* * * *
53076256 CAAAAATGCCTTCGGGACTTAACCCGGTTTTAGTCACTTAA
1 CACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCA
* *
53076297 CACAAAAGCCTTCGGGACTTAGCCCGGAT
1 CACAAATGCCTTCGGGACTTAACCCGGAT
53076326 ACCATTCGAA
Statistics
Matches: 90, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
40 64 0.71
41 26 0.29
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCA
Found at i:53076243 original size:80 final size:81
Alignment explanation
Indices: 53076158--53076323 Score: 190
Period size: 80 Copynumber: 2.1 Consensus size: 81
53076148 CGGGACATTG
* * * * * * *
53076158 CCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC-TCACACGAA
1 CCCGGTTATAGTAACTCGCAAAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTTAACACAAA
*
53076222 TGCATTCGGGACTTAA
66 AGCATTCGGGACTTAA
* * * * *
53076238 CCCGGTTTTGGTAACTCGCAAAAATGCCTTCGGGACTTAACCCGGTTTTAGTCACTTAACACAAA
1 CCCGGTTATAGTAACTCGCAAAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTTAACACAAA
* *
53076303 AGCCTTCGGGACTTAG
66 AGCATTCGGGACTTAA
53076319 CCCGG
1 CCCGG
53076324 ATACCATTCG
Statistics
Matches: 70, Mismatches: 15, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
80 45 0.64
81 25 0.36
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCCGGTTATAGTAACTCGCAAAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTTAACACAAA
AGCATTCGGGACTTAA
Found at i:53078879 original size:13 final size:13
Alignment explanation
Indices: 53078861--53078887 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
53078851 GAAGTAATCG
53078861 CACACGGGCGTGT
1 CACACGGGCGTGT
53078874 CACACGGGCGTGT
1 CACACGGGCGTGT
53078887 C
1 C
53078888 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:53081071 original size:29 final size:28
Alignment explanation
Indices: 53081009--53081096 Score: 108
Period size: 29 Copynumber: 3.1 Consensus size: 28
53080999 CACATGCCTG
* *
53081009 TATATAGCCCACTAGGCCC-AATCTC-TT
1 TATATGGCCCA-TAGGCCCAAATCACATT
53081036 TCATATGGCCCATGAGGCCCAAATCACATT
1 T-ATATGGCCCAT-AGGCCCAAATCACATT
53081066 TATATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCA-TAGGCCCAAATCACATT
53081095 TA
1 TA
53081097 CAGTCATGCT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
27 2 0.04
28 15 0.28
29 33 0.61
30 4 0.07
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (28 bp):
TATATGGCCCATAGGCCCAAATCACATT
Found at i:53086396 original size:47 final size:46
Alignment explanation
Indices: 53086293--53086466 Score: 171
Period size: 47 Copynumber: 3.8 Consensus size: 46
53086283 TATAAGTGCT
* * * *
53086293 GATGCATGTCCCAAACATGTCTTACACTAGC-ACGAAGCT-TA-G-C
1 GATGCATGTCCCAGACATGTCTTACACTGGCTAC-CATCTCTACGTC
* *
53086336 TGATGCATGTCCCAGGCATGTCTTACACTGGCTACCATCAT-TGAGGTC
1 -GATGCATGTCCCAGACATGTCTTACACTGGCTACCATC-TCT-ACGTC
*
53086384 GATGCATGTCCCAGACACGTCTTACACTGGC-ACTCATCTCTACGTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTAC-CATCTCTACGTC
*
53086430 GATGCCATGTCCCAGACATGGTCTTACATTGGCTACC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTACC
53086467 GTAATGTGGC
Statistics
Matches: 110, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
44 30 0.27
45 4 0.04
46 12 0.11
47 48 0.44
48 14 0.13
49 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTACCATCTCTACGTC
Found at i:53086490 original size:94 final size:91
Alignment explanation
Indices: 53086290--53086552 Score: 280
Period size: 94 Copynumber: 2.8 Consensus size: 91
53086280 CTGTATAAGT
* ** * *
53086290 GCTGATGCATGTCCCAAACATGTCTTACACTAGCACGAAGCT-TAGCTGATG-CATGTCCCAGGC
1 GCTGATGCATGTCCCAAACACGTCTTACACTAGCACTCATCTCTAGC-GATGCCATGTCCCAGAC
*
53086353 ATGTCTTACACTGGCTACCATCATTGA
65 ATGTCTTACACTGGCTACCATAATTGA
* * *
53086380 GGTCGATGCATGTCCCAGACACGTCTTACACTGGCACTCATCTCTACGTCGATGCCATGTCCCAG
1 GCT-GATGCATGTCCCAAACACGTCTTACACTAGCACTCATCTCTA-G-CGATGCCATGTCCCAG
* *
53086445 ACATGGTCTTACATTGGCTACCGTAATGTG-
63 ACAT-GTCTTACACTGGCTACCATAAT-TGA
* * * * *
53086475 GCTGATGCATATCCCAAACACGTCTTACACTAGCCCTCGTCTCAATGCCGATGCCATGTTCCAGA
1 GCTGATGCATGTCCCAAACACGTCTTACACTAGCACTCATCTCTA-G-CGATGCCATGTCCCAGA
53086540 CATAGTCTTACAC
64 CAT-GTCTTACAC
53086553 AAGCTCTCAC
Statistics
Matches: 143, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
90 2 0.01
91 33 0.23
92 2 0.01
93 5 0.03
94 78 0.55
95 21 0.15
96 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (91 bp):
GCTGATGCATGTCCCAAACACGTCTTACACTAGCACTCATCTCTAGCGATGCCATGTCCCAGACA
TGTCTTACACTGGCTACCATAATTGA
Found at i:53091724 original size:40 final size:40
Alignment explanation
Indices: 53091679--53091826 Score: 242
Period size: 40 Copynumber: 3.7 Consensus size: 40
53091669 ATAACCACAA
* * *
53091679 GCACAATTGCCTTCGGGTTTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
53091719 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
*
53091759 GCACAAATGCCTTCGGGTCTTAACTCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
53091799 GCACAAATGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
53091827 GTATCATTCA
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:53096809 original size:94 final size:93
Alignment explanation
Indices: 53096670--53096840 Score: 220
Period size: 94 Copynumber: 1.8 Consensus size: 93
53096660 AAGCTTAGCC
* * * *
53096670 GATGCATGTTCTAGACACGTCTTACACTGGTACTCATCTCTATGCCAATGCCATGTCCCA-AGCA
1 GATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCTATGCCAATGCCATG-CCCAGA-CA
53096734 TAGTCTTACACTGGATATCATAGTGTGGTT
64 TAGTCTTACACTGGATATCATAGTGTGGTT
* ** *
53096764 GATGCATGTCCCAGACACGTCTTACACTAGCCCTTGTCT-TAATGCCACTGCCATGCCCAGACAT
1 GATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCT-ATGCCAATGCCATGCCCAGACAT
*
53096828 GGTCTTACACTGG
65 AGTCTTACACTGG
53096841 CTTCACATAT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
93 20 0.30
94 46 0.70
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (93 bp):
GATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCTATGCCAATGCCATGCCCAGACATA
GTCTTACACTGGATATCATAGTGTGGTT
Found at i:53098649 original size:30 final size:30
Alignment explanation
Indices: 53098613--53098674 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
53098603 AATCGGAAGT
*
53098613 TTTGGCACTAAGTGTGCGATTTAAACAAGC
1 TTTGGCACTAAGTGTGCAATTTAAACAAGC
*
53098643 TTTGGCACTAAGTGTGCAATTTAAACTAGC
1 TTTGGCACTAAGTGTGCAATTTAAACAAGC
53098673 TT
1 TT
53098675 CGGCTACTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (30 bp):
TTTGGCACTAAGTGTGCAATTTAAACAAGC
Found at i:53103593 original size:49 final size:49
Alignment explanation
Indices: 53103519--53103789 Score: 208
Period size: 49 Copynumber: 5.7 Consensus size: 49
53103509 ATATGTTGCC
* * *
53103519 GATGCCATGTCCCAGAGATGATCTTACACTGGCTATCATCATCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGGCT
* * * *
53103568 GATGCCATGTCCCAAACATGGTCTTATACTAGCTCTCATCTATACG-TGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATC-AT-CGAGGCT
* * * * *
53103618 AATG-CATGTCCCAGACAT-GTCTTACACTAGC-A-GAAC-TCTTA-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATC-GAGGCT
* * *
53103662 GATG-CGTGTCCCAGACA-CGTCTTACACTAGCTAACATCATCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGGCT
* * * * *
53103709 GATGCCATGTCCAAGACATGGTCTTATACTAGCTCTCGTCTATACG-TGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATC-AT-CGAGGCT
*
53103759 GAT-TCATG-CCCTAGACAT-GTCTTACACTAGC
1 GATGCCATGTCCC-AGACATGGTCTTACACTAGC
53103790 ACAACTCTTA
Statistics
Matches: 176, Mismatches: 32, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.01
44 31 0.18
45 1 0.01
46 5 0.03
47 8 0.05
48 37 0.21
49 73 0.41
50 16 0.09
51 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGGCT
Found at i:53103796 original size:141 final size:141
Alignment explanation
Indices: 53103516--53103830 Score: 463
Period size: 141 Copynumber: 2.2 Consensus size: 141
53103506 GGGATATGTT
* * * * *
53103516 GCCGATGCCATGTCCCAGAGATGATCTTACACTGGCTATCATCATCGAGGCTGATGCCATGTCCC
1 GCCGATG-CGTGTCCCAGACACG-TCTTACACTAGCTAACATCATCGAGGCTGATGCCATGTCCC
53103581 AAACATGGTCTTATACTAGCTCTCATCTATACGTGCTAATGCATGTCCCAGACATGTCTTACACT
64 AAACATGGTCTTATACTAGCTCTCATCTATACGTGCTAATGCATGTCCCAGACATGTCTTACACT
*
53103646 AGCAGAACTCTTA
129 AGCACAACTCTTA
53103659 GCCGATGCGTGTCCCAGACACGTCTTACACTAGCTAACATCATCGAGGCTGATGCCATGT-CCAA
1 GCCGATGCGTGTCCCAGACACGTCTTACACTAGCTAACATCATCGAGGCTGATGCCATGTCCCAA
* * *
53103723 GACATGGTCTTATACTAGCTCTCGTCTATACGTGCTGATTCATG-CCCTAGACATGTCTTACACT
66 -ACATGGTCTTATACTAGCTCTCATCTATACGTGCTAATGCATGTCCC-AGACATGTCTTACACT
53103787 AGCACAACTCTTA
129 AGCACAACTCTTA
* * * *
53103800 GCTGATGCGTGTCCTACACACGTCCTACACT
1 GCCGATGCGTGTCCCAGACACGTCTTACACT
53103831 GGAACACAAG
Statistics
Matches: 157, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
140 7 0.04
141 131 0.83
142 12 0.08
143 7 0.04
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (141 bp):
GCCGATGCGTGTCCCAGACACGTCTTACACTAGCTAACATCATCGAGGCTGATGCCATGTCCCAA
ACATGGTCTTATACTAGCTCTCATCTATACGTGCTAATGCATGTCCCAGACATGTCTTACACTAG
CACAACTCTTA
Found at i:53108973 original size:37 final size:37
Alignment explanation
Indices: 53108919--53109019 Score: 168
Period size: 37 Copynumber: 2.7 Consensus size: 37
53108909 CGAATAGTCC
53108919 CCACACGTAGTTC-TCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAG-TCATCGGGTCTTACCCGGACAAAATCT
*
53108956 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
53108993 CCAAACGTAGTCATCGGGTCTTACCCG
1 CCACACGTAGTCATCGGGTCTTACCCG
53109020 AAATATATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
36 2 0.03
37 59 0.97
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:53109033 original size:37 final size:37
Alignment explanation
Indices: 53108923--53109033 Score: 147
Period size: 37 Copynumber: 3.0 Consensus size: 37
53108913 TAGTCCCCAC
*
53108923 ACGTAGTTC-TCGGGTCTTACCCGGACAA-AATCTCCAC
1 ACGTAG-TCATCGGGTCTTACCCGGA-AATAATCTCCAA
*
53108960 ACGTAGTCATCGGGTCTTACCCGGACATAATCTCCAA
1 ACGTAGTCATCGGGTCTTACCCGGAAATAATCTCCAA
*
53108997 ACGTAGTCATCGGGTCTTACCC-GAAATATATTTCCAA
1 ACGTAGTCATCGGGTCTTACCCGGAAATA-ATCTCCAA
53109034 GCTTCATGTA
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
36 8 0.12
37 59 0.88
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (37 bp):
ACGTAGTCATCGGGTCTTACCCGGAAATAATCTCCAA
Found at i:53109250 original size:48 final size:48
Alignment explanation
Indices: 53109194--53109550 Score: 579
Period size: 48 Copynumber: 7.4 Consensus size: 48
53109184 GCCGAATCAC
* *
53109194 TAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* * * *
53109242 TAGCCATTCTGCTTTACCACGTATACATATCTCATACATAGTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
53109290 TAGCCATTCGGCTTTACCCCATATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* * *
53109338 TAGCCATTCGGCTTTACCGCATATACCTATCTCATACATATTTCACAG
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* * *
53109386 TATCCATTCGGCTTTACCGCATATACATATCTCATACATATTACACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
53109434 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
53109482 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
53109530 TATCCATTCGGCTTTACCACA
1 TAGCCATTCGGCTTTACCACA
53109551 CACATATATA
Statistics
Matches: 289, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 289 1.00
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:53113080 original size:40 final size:40
Alignment explanation
Indices: 53113024--53113288 Score: 290
Period size: 40 Copynumber: 6.7 Consensus size: 40
53113014 TAATGGGGTC
* * *
53113024 AAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCT
*
53113064 AAGTCCCGAAGGCATTTGTGCGAGTTACTACA-TCCGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTGACTA-ATTCCGGGCT
* *
53113104 AAGTCCCGAAGGCAATTGTGCGAGAT-ACTAATTCCGGGCC
1 AAGTCCCGAAGGCATTTGTGCGAG-TGACTAATTCCGGGCT
* * *
53113144 AAGTTCCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCT
*
53113184 AAGTCCCGAAGGCATTTGTGCGAGTTG-CT-ATATCTGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAG-TGACTAAT-TCCGGGCT
* * * *
53113224 AAGACCCGAAGACATTTGTGCTAGTGAC-CATATCCGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCT
* * *
53113264 AAGACCCGACGGC-CTTGTGCGAGTG
1 AAGTCCCGAAGGCATTTGTGCGAGTG
53113289 GTTATATCCG
Statistics
Matches: 195, Mismatches: 22, Indels: 17
0.83 0.09 0.07
Matches are distributed among these distances:
39 16 0.08
40 176 0.90
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
AAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCT
Found at i:53113243 original size:120 final size:120
Alignment explanation
Indices: 53113023--53113244 Score: 336
Period size: 120 Copynumber: 1.9 Consensus size: 120
53113013 CTAATGGGGT
* * *
53113023 CAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 CAAGTCCCGAAGACATTGGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
* *
53113088 TTACTACATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGATACTAATTCCGGGC
66 TTACTACATCCGGGCTAAGACCCGAAGACAATTGTGCGAGATACTAATTCCGGGC
* * *
53113143 CAAGTTCCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 CAAGTCCCGAAGACATTGGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
* * * *
53113208 TTGCTATATCTGGGCTAAGACCCGAAGACATTTGTGC
66 TTACTACATCCGGGCTAAGACCCGAAGACAATTGTGC
53113245 TAGTGACCAT
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
120 90 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (120 bp):
CAAGTCCCGAAGACATTGGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTACATCCGGGCTAAGACCCGAAGACAATTGTGCGAGATACTAATTCCGGGC
Found at i:53125156 original size:40 final size:40
Alignment explanation
Indices: 53125100--53125327 Score: 250
Period size: 40 Copynumber: 5.7 Consensus size: 40
53125090 TAACGGGGTC
* * *
53125100 AAGTCCCAAAGACATTTGTG-GTAGTGATTAATTCTGGGCT
1 AAGTCCCGAAGGCATTTGTGCG-AGTGACTAATTCTGGGCT
*
53125140 AAGTCCCGAAGGCATTTGTGCGAGTTACTACA-TCTGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTGACTA-ATTCTGGGCT
* * * *
53125180 AAGTCCCGAAGGAAATTGTGCGAGAT-ACTAATTCCGGGCC
1 AAGTCCCGAAGGCATTTGTGCGAG-TGACTAATTCTGGGCT
* * *
53125220 AAGTCCCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCTGGGCT
53125260 AAGTCCCGAAGGCATTTGTGCGAGTTG-CT-ATATCTGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAG-TGACTAAT-TCTGGGCT
* * *
53125300 AAGACCCGAAGACATTTGTGCTAGTGAC
1 AAGTCCCGAAGGCATTTGTGCGAGTGAC
53125328 CATATCCGGG
Statistics
Matches: 162, Mismatches: 18, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
39 6 0.04
40 152 0.94
41 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
AAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCTGGGCT
Found at i:53125336 original size:120 final size:120
Alignment explanation
Indices: 53125128--53125348 Score: 313
Period size: 120 Copynumber: 1.8 Consensus size: 120
53125118 TGGTAGTGAT
* *
53125128 TAATTCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCTGGGCTAAGTCCCGAAGGA
1 TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCTGGGCTAAGACCCGAAGGA
* *
53125193 AATTGTGCGAGATACTAATTCCGGGCCAAGTCCCGAAGGCATTGGTGCGAGTTAC
66 AATTGTGCGAGATACCAATTCCGGGCCAAGACCCGAAGGCATTGGTGCGAGTTAC
* *
53125248 TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCTGGGCTAAGACCCGAA-GA
1 TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCTGGGCTAAGACCCGAAGGA
* * *
53125312 CATTTGTGCTAG-TGACC-ATATCCGGGCTAAGACCCGA
66 -AATTGTGCGAGAT-ACCAAT-TCCGGGCCAAGACCCGA
53125349 CGGCCTTGTG
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
119 5 0.06
120 84 0.94
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (120 bp):
TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCTGGGCTAAGACCCGAAGGA
AATTGTGCGAGATACCAATTCCGGGCCAAGACCCGAAGGCATTGGTGCGAGTTAC
Found at i:53130282 original size:40 final size:39
Alignment explanation
Indices: 53130226--53130405 Score: 181
Period size: 40 Copynumber: 4.5 Consensus size: 39
53130216 TAACGGGGTC
* *
53130226 AAGTCCCGAAGACATTTGTGGTAGTGATTAATTCCGGGCT
1 AAGTCCCGAAGGCATTTGTGG-AGTGACTAATTCCGGGCT
* *
53130266 AAGTCCCGAAGGCATTTGTGCGAGTTACTACA-TCCGGGAT
1 AAGTCCCGAAGGCATTTGTG-GAGTGACTA-ATTCCGGGCT
*
53130306 AAGTCCCGAAGGCAATTT-TACGAGAT-ACTAATTCCGGGCT
1 AAGTCCCGAAGGC-ATTTGT-GGAG-TGACTAATTCCGGGCT
53130346 AAGTCCCGAAGGCATTTGTGCGAGTTG-CT-ATATCCGGGCT
1 AAGTCCCGAAGGCATTTGTG-GAG-TGACTAAT-TCCGGGCT
* *
53130386 AAGACCCGAAGACATTTGTG
1 AAGTCCCGAAGGCATTTGTG
53130406 CTAGTGACCA
Statistics
Matches: 120, Mismatches: 10, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
39 7 0.06
40 106 0.88
41 7 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
AAGTCCCGAAGGCATTTGTGGAGTGACTAATTCCGGGCT
Found at i:53130406 original size:40 final size:40
Alignment explanation
Indices: 53130258--53130470 Score: 211
Period size: 40 Copynumber: 5.4 Consensus size: 40
53130248 AGTGATTAAT
* *
53130258 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATA
* * * *
53130298 TCCGGGATAAGTCCCGAAGGCAATTT-TACGAGATACTA-A
1 TCCGGGCTAAGTCCCGAAGGC-ATTTGTGCGAGTTGCTATA
53130337 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATA
* * * *
53130378 TCCGGGCTAAGACCCGAAGACATTTGTGCTAG-TGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATA
* * * * * *
53130418 TCTGGGCTAAGACCCGACGGC-CTTGTGCGAGTGGTTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATA
*
53130457 TCC-GGCTAAATCCC
1 TCCGGGCTAAGTCCC
53130471 AAAGATACTT
Statistics
Matches: 145, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 9 0.06
39 20 0.14
40 111 0.77
41 5 0.03
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATA
Found at i:53130425 original size:80 final size:80
Alignment explanation
Indices: 53130230--53130465 Score: 266
Period size: 80 Copynumber: 3.0 Consensus size: 80
53130220 GGGGTCAAGT
* * *
53130230 CCCGAAGACATTTGTGGTAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 CCCGAAGACATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
* * *
53130295 ACATCCGGGATAAGT
66 ATATCCGGGCTAAGA
* * *
53130310 CCCGAAGGCAATTT-TACGAGAT-ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG
1 CCCGAAGAC-ATTTGTGCTAG-TGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG
53130373 CTATATCCGGGCTAAGA
64 CTATATCCGGGCTAAGA
* * * * * * *
53130390 CCCGAAGACATTTGTGCTAGTGAC-CATATCTGGGCTAAGACCCGACGGC-CTTGTGCGAGTGGT
1 CCCGAAGACATTTGTGCTAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGC
53130453 TATATCC-GGCTAA
65 TATATCCGGGCTAA
53130466 ATCCCAAAGA
Statistics
Matches: 132, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
78 6 0.05
79 25 0.19
80 96 0.73
81 5 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCCGAAGACATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
ATATCCGGGCTAAGA
Found at i:53132642 original size:50 final size:50
Alignment explanation
Indices: 53132536--53132632 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
53132526 TAAAGTTTCA
*
53132536 ATATGAGATCCCATGTAAGACCATGTCTGGGACATAGCATTGCCATCGAT
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATAGCATTGCCATCGAT
* * *
53132586 ATATGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATC
1 ATATGTGATCCCATGTAAGACCATGTCTGGGACATAGCATTGCCATC
53132633 TTACTATGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (50 bp):
ATATGTGATCCCATGTAAGACCATGTCTGGGACATAGCATTGCCATCGAT
Found at i:53134360 original size:27 final size:28
Alignment explanation
Indices: 53134329--53134388 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
53134319 TGTACCTGGA
53134329 CCCCTAAT-CGATAAAATGACT-ATTATG
1 CCCCTAATGCGATAAAATGACTGA-TATG
*
53134356 CCCCT-ATGTGATAAAATGACTGATATG
1 CCCCTAATGCGATAAAATGACTGATATG
53134383 CCCCTA
1 CCCCTA
53134389 TGAGATGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 2 0.07
27 26 0.90
28 1 0.03
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.28
Consensus pattern (28 bp):
CCCCTAATGCGATAAAATGACTGATATG
Found at i:53134389 original size:27 final size:27
Alignment explanation
Indices: 53134338--53134390 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
53134328 ACCCCTAATC
53134338 GATAAAATGACTATTATGCCCCTATGT
1 GATAAAATGACTATTATGCCCCTATGT
53134365 GATAAAATGACTGA-TATGCCCCTATG
1 GATAAAATGACT-ATTATGCCCCTATG
53134391 AGATGTATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (27 bp):
GATAAAATGACTATTATGCCCCTATGT
Found at i:53136872 original size:50 final size:50
Alignment explanation
Indices: 53136818--53137041 Score: 267
Period size: 50 Copynumber: 4.5 Consensus size: 50
53136808 TAGCAAGCAT
*
53136818 TTAGTACTACACATGCGACCTAACAATCTGGTACATGTAGTAGCCTGCAC
1 TTAGTACTACACATGTGACCTAACAATCTGGTACATGTAGTAGCCTGCAC
* *
53136868 TTAGTACTACACACGTGACCTAACAATC-GGATACACGTAGTAGCCTGCAC
1 TTAGTACTACACATGTGACCTAACAATCTGG-TACATGTAGTAGCCTGCAC
* * * *
53136918 TTAGTACTACACACGTGA-TTGAAGCTATCAGGT--ATGAATAGTAGCCTGCAC
1 TTAGTACTACACATGTGACCT-AA-CAATCTGGTACATG--TAGTAGCCTGCAC
* * * * *
53136969 TTAGTACTACACGTGCGGCCTAGCAATCTGGTACATGTAGTAGTCTGCAC
1 TTAGTACTACACATGTGACCTAACAATCTGGTACATGTAGTAGCCTGCAC
53137019 TTAGTACTACACATGTGACCTAA
1 TTAGTACTACACATGTGACCTAA
53137042 AACCGTCTTA
Statistics
Matches: 146, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
49 5 0.03
50 102 0.70
51 33 0.23
52 6 0.04
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (50 bp):
TTAGTACTACACATGTGACCTAACAATCTGGTACATGTAGTAGCCTGCAC
Found at i:53136979 original size:101 final size:101
Alignment explanation
Indices: 53136855--53137036 Score: 276
Period size: 101 Copynumber: 1.8 Consensus size: 101
53136845 CTGGTACATG
*
53136855 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATC-GGATACACGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGG-TACACGTAGTAGCCTGCACT
53136919 TAGTACTACACACGTGATTGAAGCTATCAGGTATGAA
65 TAGTACTACACACGTGATTGAAGCTATCAGGTATGAA
** * * * *
53136956 TAGTAGCCTGCACTTAGTACTACACGTGCGGCCTAGCAATCTGGTACATGTAGTAGTCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGGTACACGTAGTAGCCTGCACTT
*
53137021 AGTACTACACATGTGA
66 AGTACTACACACGTGA
53137037 CCTAAAACCG
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 70 0.97
102 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGGTACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATTGAAGCTATCAGGTATGAA
Found at i:53140275 original size:15 final size:16
Alignment explanation
Indices: 53140251--53140293 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
53140241 ATATATAACA
*
53140251 AGAAAACCAAGATTA-
1 AGAAATCCAAGATTAG
*
53140266 AGAAGTCCAAGA-TAG
1 AGAAATCCAAGATTAG
53140281 AGAAATCCAAGAT
1 AGAAATCCAAGAT
53140294 ACAATATCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 21 0.91
ACGTcount: A:0.53, C:0.14, G:0.19, T:0.14
Consensus pattern (16 bp):
AGAAATCCAAGATTAG
Found at i:53142292 original size:18 final size:18
Alignment explanation
Indices: 53142269--53142312 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
53142259 GTGTGTTGAA
53142269 CCGTGTGGTCACACACGC
1 CCGTGTGGTCACACACGC
*
53142287 CCGTGTGGTCACACACTC
1 CCGTGTGGTCACACACGC
*
53142305 CGGTGTGG
1 CCGTGTGG
53142313 CTTGGGACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.14, C:0.34, G:0.32, T:0.20
Consensus pattern (18 bp):
CCGTGTGGTCACACACGC
Found at i:53144136 original size:50 final size:50
Alignment explanation
Indices: 53144082--53144349 Score: 256
Period size: 50 Copynumber: 5.3 Consensus size: 50
53144072 TAGCAAGCAT
*
53144082 TTAGTACTACACATGCGACCTAACAATCTGGTACATGTAGTAGCCTGCAC
1 TTAGTACTACACATGTGACCTAACAATCTGGTACATGTAGTAGCCTGCAC
* * * *
53144132 TTAGTACTACACACGTGACCTAACCATC-GGATACACGTAGAAGCCTGCAC
1 TTAGTACTACACATGTGACCTAACAATCTGG-TACATGTAGTAGCCTGCAC
* * * *
53144182 TTAGTACTACACATGTGATCGAAGCTATCGGGT--ATGCATAGTAGCCTGCAC
1 TTAGTACTACACATGTGACCTAA-CAATCTGGTACATG--TAGTAGCCTGCAC
* ** * *
53144233 TTTGTACTACACATGCAACCTAGCAATCTGGTACA-CTAGTAGCCTGCAC
1 TTAGTACTACACATGTGACCTAACAATCTGGTACATGTAGTAGCCTGCAC
* *** **
53144282 TTAGTACTACACATGTGACCTAAAACTATCTTAAACACATAGTAGCCTGCAC
1 TTAGTACTACACATGTGACCT--AACAATCTGGTACATGTAGTAGCCTGCAC
* *
53144334 ATAGTACTACATATGT
1 TTAGTACTACACATGT
53144350 CCTCTCACAA
Statistics
Matches: 177, Mismatches: 31, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
49 35 0.20
50 69 0.39
51 43 0.24
52 30 0.17
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
TTAGTACTACACATGTGACCTAACAATCTGGTACATGTAGTAGCCTGCAC
Found at i:53144323 original size:101 final size:101
Alignment explanation
Indices: 53144058--53144344 Score: 301
Period size: 101 Copynumber: 2.9 Consensus size: 101
53144048 ACCGAGGCTC
* ** * * * **
53144058 TCTGGTACGCATAGTAGCAAGCATTTAGTACTACACATGCGACCT-AACAATCTGGTACATGTAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAACTATCTGGTACACATAG
** *
53144122 TAGCCTGCACTTAGTACTACACACGTGACCTAACCA
66 TAGCCTGCACTTAGTACTACACACGCAACCTAACAA
* * * * * * **
53144158 TC-GGATACACGTAGAAGCCTGCACTTAGTACTACACATGTGATCGAAGCTATCGGGTATGCATA
1 TCTGG-TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAACTATCTGGTACACATA
* * *
53144222 GTAGCCTGCACTTTGTACTACACATGCAACCTAGCAA
65 GTAGCCTGCACTTAGTACTACACACGCAACCTAACAA
***
53144259 TCTGGTACAC-TAGTAGCCTGCACTTAGTACTACACATGTGACCTAAAACTATCTTAAACACATA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT-AAACTATCTGGTACACATA
*
53144323 GTAGCCTGCACATAGTACTACA
65 GTAGCCTGCACTTAGTACTACA
53144345 TATGTCCTCT
Statistics
Matches: 149, Mismatches: 34, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
99 2 0.01
100 64 0.43
101 81 0.54
102 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (101 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAACTATCTGGTACACATAG
TAGCCTGCACTTAGTACTACACACGCAACCTAACAA
Found at i:53146037 original size:14 final size:15
Alignment explanation
Indices: 53146008--53146040 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
53145998 TTATTTTTAA
53146008 ATTTTGAGTAATTTT
1 ATTTTGAGTAATTTT
*
53146023 ATTTTGGGT-ATTTT
1 ATTTTGAGTAATTTT
53146037 ATTT
1 ATTT
53146041 GTAATAAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.64
Consensus pattern (15 bp):
ATTTTGAGTAATTTT
Found at i:53150153 original size:40 final size:40
Alignment explanation
Indices: 53150091--53150242 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
53150081 CATTGGAATG
* * * *
53150091 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * *
53150131 ATATCCGGGCTAAGACCTGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
53150171 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * *
53150211 AAATCCGGGTTAAGACCCGAAGGCAATCGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
53150243 GAATCACTAT
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.03
40 89 0.95
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:53150193 original size:80 final size:80
Alignment explanation
Indices: 53150091--53150244 Score: 209
Period size: 80 Copynumber: 1.9 Consensus size: 80
53150081 CATTGGAATG
* * ** * *
53150091 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCTGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
53150156 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
53150171 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
53150236 ATCGTGCGA
66 ATCGTGCGA
53150245 ATCACTATAA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:53150261 original size:80 final size:80
Alignment explanation
Indices: 53150095--53150277 Score: 195
Period size: 80 Copynumber: 2.3 Consensus size: 80
53150085 GGAATGATAT
* ** * * *
53150095 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCTGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
53150160 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * *
53150175 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
53150240 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* * *
53150255 CTGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
53150278 CGAGCGAGTC
Statistics
Matches: 82, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:53154929 original size:93 final size:93
Alignment explanation
Indices: 53154765--53154935 Score: 234
Period size: 93 Copynumber: 1.8 Consensus size: 93
53154755 GCCCCTAAGT
****
53154765 GAACTCGGACTCAACTCAACGAGCTCAGGTGTCCGAATCCATAAGTGAACTCAGACTAAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAAACATCCGAATCCATAAGTGAACTCAGACTAAACTCAA
53154830 CAAGTTCGGATGCCTAGTTACATCTCAC
66 CAAGTTCGGATGCCTAGTTACATCTCAC
* * * * * * *
53154858 GAACTCGGACTCAACTCAATGAGTTCAAACATTCGCATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAAACATCCGAATCCATAAGTGAACTCAGACTAAACTCAA
*
53154923 CGAGTTCGGATGC
66 CAAGTTCGGATGC
53154936 TCAACCATCC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
93 66 1.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAAACATCCGAATCCATAAGTGAACTCAGACTAAACTCAA
CAAGTTCGGATGCCTAGTTACATCTCAC
Found at i:53162399 original size:93 final size:93
Alignment explanation
Indices: 53162270--53162440 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
53162260 GCCCCTAAGT
* ** *
53162270 GAACTCAGACTTAAATCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTGAACTCAA
1 GAACTCAGACTCAAATCAACGAGCTCGAACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53162335 CGAGTTAGGATGCCTAGTTACATCTCAC
66 CGAGTTAGGATGCCTAGTTACATCTCAC
* * * * *
53162363 GAACTCGGACTCAACTCAACGAGTTCGAACGTTCGCATCCGTAATTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAAATCAACGAGCTCGAACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
53162428 CGAGTTCGGATGC
66 CGAGTTAGGATGC
53162441 TCAACCATCC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAAATCAACGAGCTCGAACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTAGGATGCCTAGTTACATCTCAC
Found at i:53165414 original size:469 final size:469
Alignment explanation
Indices: 53164179--53165581 Score: 2504
Period size: 468 Copynumber: 3.0 Consensus size: 469
53164169 ACATCCCAAT
* *
53164179 TTTCGAGAATTCTGTGGATGTTGGCAAATTTTAAATTTTTGGTGTTCTGTTTGCTTGGCGTAGAT
1 TTTCAAGAATTCTGTGGATGTTGGCAAATTTTAAATTTTTGGTGTTCTGTTTGCTTGGCATAGAT
* * *
53164244 TTAATCAGGTT-GTGGGCCTCTAGAAGGACCAAGCTTAAGTTAAAACCCGGTAATTTTAATTAGT
66 TTAATCATGTTAGTGGGGCTCTAGAAGGA-CAAGCTTAAGTTAAAACCTGGTAATTTTAATTAGT
* *
53164308 TTTGATTCCATAGGAAGAAGAGGTTTTAGTTAATTGGGCTTTTAAGTATTAATTGGGTAAAAATT
130 TTTGATTCCATAGGAAGAAGAGGTTCTGGTTAATTGGGCTTTTAAGTATTAATTGGGTAAAAATT
* *
53164373 AAACAGAAGGAAGCAGGTGGCAAAGTGGCATGTGATGCCATTGGGGAGGCTATAAAGGTGGCGTG
195 AAACACAAGGAAGCAGGTGGCAAAGTGGCATGTGATGCCACTGGGGAGGCTATAAAGGTGGCGTG
*
53164438 TGGATGCTAGGGAGAACAAAGGTTCAAGTCACAATGAAAGCATATTAAGGGAATTATTTTTAAGG
260 TGGATGCTAGGGAGAACCAAGGTTCAAGTCACAATGAAAGCATATTAAGGGAATTATTTTTAAGG
*
53164503 GTAAGTAATGGAACTCAAGTGAAAAACTGTCAGGAGGAGTTTAAATTGCTCAAGGGATTGAGTAA
325 GTAAGTAATGGAACTCAAGTGAAAAACTGTCAGAAGGAGTTTAAATTGCTCAAGGGATTGAGTAA
*
53164568 GGAGGGGATAAGGGAGAGGATTTAGGAGCTAATTAGGGAGAGCAGTATTGGCCAAATGGTGGACT
390 GGAGGGGATAAGGGAGAGGATTTAGGAGCTAATTAGGGAGAGCAGTATTGGCCGAATGGTGGACT
53164633 CTTGGATCAGGTAAA
455 CTTGGATCAGGTAAA
*
53164648 TTTCAAGAATTCTGTGGATGTTGGCAAATTTTAAATTTTTGGTGTTCT-TTTACTTGGCATAGAT
1 TTTCAAGAATTCTGTGGATGTTGGCAAATTTTAAATTTTTGGTGTTCTGTTTGCTTGGCATAGAT
53164712 TTAATCATGTTAGTGGGGCTCTAGAAGGACAAGCTTAAGTTAAAACCTGGTAATTTTAATTAGTT
66 TTAATCATGTTAGTGGGGCTCTAGAAGGACAAGCTTAAGTTAAAACCTGGTAATTTTAATTAGTT
*
53164777 TTGATTCCATAGGAAGAAGGGGTTCTGGTTAATTGGGCTTTTAAGTATTAATTGGGTAAAAATTA
131 TTGATTCCATAGGAAGAAGAGGTTCTGGTTAATTGGGCTTTTAAGTATTAATTGGGTAAAAATTA
**
53164842 AACACAAGGAAGCAGGTGGCAAAGTGGCATGTGATGCCACTAAGGAGGCTATAAAGGTGGCGTGT
196 AACACAAGGAAGCAGGTGGCAAAGTGGCATGTGATGCCACTGGGGAGGCTATAAAGGTGGCGTGT
53164907 GGATGCTAGGGAGAACCAAGGTTCAAGTCACAATGAAAGCATATTAAGGGAATTATTTTTAAGGG
261 GGATGCTAGGGAGAACCAAGGTTCAAGTCACAATGAAAGCATATTAAGGGAATTATTTTTAAGGG
53164972 TAAGTAATGGAACTCAAGTGAAAAACTGTCAGAAGGAGTTTAAATTGCTCAAGGGATTGAGTAAG
326 TAAGTAATGGAACTCAAGTGAAAAACTGTCAGAAGGAGTTTAAATTGCTCAAGGGATTGAGTAAG
*
53165037 GAGGGGATAAGGGAGAGGATTAAGGAGCTAATTAGGGAGAGCAGTATTGGCCGAATGGTGGACTC
391 GAGGGGATAAGGGAGAGGATTTAGGAGCTAATTAGGGAGAGCAGTATTGGCCGAATGGTGGACTC
53165102 TTGGATCAGGTAAA
456 TTGGATCAGGTAAA
*
53165116 TTTCAAGAATTCTATGGATGTTGGCAAATTTTAAATTTTTGGTGTTCTGTTTGCTTGGCATAGAT
1 TTTCAAGAATTCTGTGGATGTTGGCAAATTTTAAATTTTTGGTGTTCTGTTTGCTTGGCATAGAT
53165181 TTAATCATGTTAGTGGGGCTCTAGAAGGACAAGCTTAAGTTAAAACCTGGTAATTTTAATTAGTT
66 TTAATCATGTTAGTGGGGCTCTAGAAGGACAAGCTTAAGTTAAAACCTGGTAATTTTAATTAGTT
53165246 TTGATTCCATAGGAAGAAGAGGTTCTGGTTAATTGGGCTTTTAAGTATTAATTGGGTAAAAATTA
131 TTGATTCCATAGGAAGAAGAGGTTCTGGTTAATTGGGCTTTTAAGTATTAATTGGGTAAAAATTA
*
53165311 AACACAAGGAAGCAGGTGGCAAAGTGGCATGTGACGCCACTGGGGAGGCTATAAAGGTGGCGTGT
196 AACACAAGGAAGCAGGTGGCAAAGTGGCATGTGATGCCACTGGGGAGGCTATAAAGGTGGCGTGT
*
53165376 GGATGCTAGGGAGAACCAAGGTTCAAGTCACAATGAAAGCATATTAATGGAATTATTTTTATGGT
261 GGATGCTAGGGAGAACCAAGGTTCAAGTCACAATGAAAGCATATTAAGGGAATTA---TT-T--T
*
53165441 TGGAAAGGGTAAGTAATGGAACTCAAGTGAAAAACTGTCAGTAGGAGTTTAAATTGCTCAAGGGA
320 T---AAGGGTAAGTAATGGAACTCAAGTGAAAAACTGTCAGAAGGAGTTTAAATTGCTCAAGGGA
*
53165506 TTGAGTAAGGAGGGGATAAGGGAGAGGATTTAGGAGCTAATTAGGGAGAGCAGTATTGGCTGAAT
382 TTGAGTAAGGAGGGGATAAGGGAGAGGATTTAGGAGCTAATTAGGGAGAGCAGTATTGGCCGAAT
53165571 GGTGGACTCTT
447 GGTGGACTCTT
53165582 AGGGAGCAAG
Statistics
Matches: 896, Mismatches: 27, Indels: 13
0.96 0.03 0.01
Matches are distributed among these distances:
468 434 0.48
469 323 0.36
472 2 0.00
473 1 0.00
475 2 0.00
478 134 0.15
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (469 bp):
TTTCAAGAATTCTGTGGATGTTGGCAAATTTTAAATTTTTGGTGTTCTGTTTGCTTGGCATAGAT
TTAATCATGTTAGTGGGGCTCTAGAAGGACAAGCTTAAGTTAAAACCTGGTAATTTTAATTAGTT
TTGATTCCATAGGAAGAAGAGGTTCTGGTTAATTGGGCTTTTAAGTATTAATTGGGTAAAAATTA
AACACAAGGAAGCAGGTGGCAAAGTGGCATGTGATGCCACTGGGGAGGCTATAAAGGTGGCGTGT
GGATGCTAGGGAGAACCAAGGTTCAAGTCACAATGAAAGCATATTAAGGGAATTATTTTTAAGGG
TAAGTAATGGAACTCAAGTGAAAAACTGTCAGAAGGAGTTTAAATTGCTCAAGGGATTGAGTAAG
GAGGGGATAAGGGAGAGGATTTAGGAGCTAATTAGGGAGAGCAGTATTGGCCGAATGGTGGACTC
TTGGATCAGGTAAA
Found at i:53171942 original size:35 final size:35
Alignment explanation
Indices: 53171902--53171970 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
53171892 TGGCATATCA
53171902 ACTAGCTTTACCTTCAGAATTAGAAAATATTCACG
1 ACTAGCTTTACCTTCAGAATTAGAAAATATTCACG
53171937 ACTAGCTTTACCTTCAGAATTAGAAAATATTCAC
1 ACTAGCTTTACCTTCAGAATTAGAAAATATTCAC
53171971 AACGTATTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (35 bp):
ACTAGCTTTACCTTCAGAATTAGAAAATATTCACG
Found at i:53172634 original size:16 final size:16
Alignment explanation
Indices: 53172615--53172647 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
53172605 TTTCAGCCAC
53172615 TTAGTTCTCTTACAAG
1 TTAGTTCTCTTACAAG
*
53172631 TTAGTTCTCTTGCAAG
1 TTAGTTCTCTTACAAG
53172647 T
1 T
53172648 AAGTGACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.45
Consensus pattern (16 bp):
TTAGTTCTCTTACAAG
Found at i:53174488 original size:16 final size:16
Alignment explanation
Indices: 53174467--53174520 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
53174457 TGCGCTCTTA
*
53174467 TAACATATAATCCATG
1 TAACATATAATTCATG
* *
53174483 TAACATGTGATTCATG
1 TAACATATAATTCATG
* *
53174499 TAATATATTATTCATG
1 TAACATATAATTCATG
53174515 TAACAT
1 TAACAT
53174521 GTACTTTATC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (16 bp):
TAACATATAATTCATG
Found at i:53174800 original size:23 final size:23
Alignment explanation
Indices: 53174743--53174806 Score: 78
Period size: 22 Copynumber: 2.8 Consensus size: 23
53174733 CCCGTAAGGA
*
53174743 CTGAAA-AGATAAGCTCAGAAGAG
1 CTGAAACA-ATAAGCTCATAAGAG
**
53174766 CT-AAACGGTAAGCTCATAAGAG
1 CTGAAACAATAAGCTCATAAGAG
53174788 CTGAAACAATAAGCTCATA
1 CTGAAACAATAAGCTCATA
53174807 CGAGTTGTGG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
22 18 0.53
23 16 0.47
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (23 bp):
CTGAAACAATAAGCTCATAAGAG
Found at i:53175668 original size:19 final size:19
Alignment explanation
Indices: 53175646--53175682 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
53175636 TCGGGTCGCG
*
53175646 ATGGGCCGAAAGGGCCTAT
1 ATGGGCCCAAAGGGCCTAT
*
53175665 ATGGGCCCAATGGGCCTA
1 ATGGGCCCAAAGGGCCTA
53175683 CGTGCCCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.35, T:0.16
Consensus pattern (19 bp):
ATGGGCCCAAAGGGCCTAT
Found at i:53175932 original size:27 final size:27
Alignment explanation
Indices: 53175862--53176121 Score: 255
Period size: 27 Copynumber: 9.7 Consensus size: 27
53175852 TTTAGTTTAC
* *
53175862 TAAAATTACTGAAATACTCC-C-AGTTG
1 TAAAATTACCGAAATAC-CCTCGATTTG
* *
53175888 TAAAATTACC-AAAGTACCCCCGATTTA
1 TAAAATTACCGAAA-TACCCTCGATTTG
*
53175915 TAAAATTACCGAAATACCGTCGA-TTG
1 TAAAATTACCGAAATACCCTCGATTTG
* * *
53175941 TAAAATTACTGAAATACTCTCGACTTG
1 TAAAATTACCGAAATACCCTCGATTTG
* * *
53175968 TAAAATTACC-AAAGTACCCCCGGTTTA
1 TAAAATTACCGAAA-TACCCTCGATTTG
* *
53175995 TAAAATTACCGAAATACCGTCCA-TTG
1 TAAAATTACCGAAATACCCTCGATTTG
** *
53176021 TAAAATTACTAAAATACCCTCGACTTG
1 TAAAATTACCGAAATACCCTCGATTTG
53176048 TAAAATTACCGAAATACCCTC-AGTTTG
1 TAAAATTACCGAAATACCCTCGA-TTTG
* *
53176075 CAAAATTACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTCGATTTG
**
53176102 TAAAATTACTAAAATACCCT
1 TAAAATTACCGAAATACCCT
53176122 TATAGGGTAG
Statistics
Matches: 193, Mismatches: 31, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
25 5 0.03
26 60 0.31
27 121 0.63
28 7 0.04
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTCGATTTG
Found at i:53175942 original size:53 final size:52
Alignment explanation
Indices: 53175862--53176120 Score: 204
Period size: 53 Copynumber: 4.9 Consensus size: 52
53175852 TTTAGTTTAC
* * *
53175862 TAAAATTACTGAAATACTCC-C-AGTTGTAAAATTACCAAAGTACCCCCGATTTA
1 TAAAATTACCGAAATAC-CCTCGACTTGTAAAATTACCAAA-TACCCCC-ATTTG
* * * * *
53175915 TAAAATTACCGAAATACCGTCGA-TTGTAAAATTACTGAAATACTCTCGACTTG
1 TAAAATTACCGAAATACCCTCGACTTGTAAAATTAC-CAAATAC-CCCCATTTG
* ** * *
53175968 TAAAATTACC-AAAGTACCCCCGGTTTATAAAATTACCGAAATACCGTCCA-TTG
1 TAAAATTACCGAAA-TACCCTCGACTTGTAAAATTACC-AAATACC-CCCATTTG
** *
53176021 TAAAATTACTAAAATACCCTCGACTTGTAAAATTACCGAAATACCCTCAGTTTG
1 TAAAATTACCGAAATACCCTCGACTTGTAAAATTACC-AAATACCCCCA-TTTG
* * * *
53176075 CAAAATTACTGAAATACCCTCGATTTGTAAAATTACTAAAATACCC
1 TAAAATTACCGAAATACCCTCGACTTGTAAAATTAC-CAAATACCC
53176121 TTATAGGGTA
Statistics
Matches: 170, Mismatches: 24, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
52 6 0.04
53 91 0.54
54 73 0.43
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (52 bp):
TAAAATTACCGAAATACCCTCGACTTGTAAAATTACCAAATACCCCCATTTG
Found at i:53175980 original size:80 final size:80
Alignment explanation
Indices: 53175862--53176118 Score: 358
Period size: 80 Copynumber: 3.2 Consensus size: 80
53175852 TTTAGTTTAC
* * *
53175862 TAAAATTACTGAAATACTC-CCAGTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCG
1 TAAAATTACTAAAATACTCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCG
53175926 AAATACCGTCGATTG
66 AAATACCGTCGATTG
* *
53175941 TAAAATTACTGAAATACTCTCGACTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCG
1 TAAAATTACTAAAATACTCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCG
*
53176006 AAATACCGTCCATTG
66 AAATACCGTCGATTG
* * **
53176021 TAAAATTACTAAAATACCCTCGACTTGTAAAATTACCGAAA-TACCCTC-AGTTTGCAAAATTAC
1 TAAAATTACTAAAATACTCTCGACTTGTAAAATTACC-AAAGTACCCCCGA-TTTATAAAATTAC
* *
53176084 TGAAATACCCTCGATTTG
64 CGAAATACCGTCGA-TTG
53176102 TAAAATTACTAAAATAC
1 TAAAATTACTAAAATAC
53176119 CCTTATAGGG
Statistics
Matches: 161, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
79 19 0.12
80 119 0.74
81 23 0.14
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (80 bp):
TAAAATTACTAAAATACTCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCG
AAATACCGTCGATTG
Found at i:53176135 original size:27 final size:27
Alignment explanation
Indices: 53176105--53176454 Score: 493
Period size: 27 Copynumber: 13.0 Consensus size: 27
53176095 CGATTTGTAA
* * *
53176105 AATTACTAAAATACCCTTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
53176132 AATTACTAAAATACCACTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53176159 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53176186 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* **
53176213 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53176240 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
53176267 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53176294 AATTACTGAAATACGCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
53176321 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53176348 AATTACTGAAATACCCTTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
53176375 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53176402 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
53176429 AATTACCGAGATACCCTTGTGGGGTA
1 AATTACTGAAATACCCCTGTAGGGTA
53176455 AAATGGTAAT
Statistics
Matches: 290, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 290 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:53176137 original size:81 final size:82
Alignment explanation
Indices: 53175995--53176446 Score: 363
Period size: 81 Copynumber: 5.6 Consensus size: 82
53175985 CCCCGGTTTA
* * ** * * * *
53175995 TAAAATTACCGAAATACCGTC-CATTGTAAAATTACTAAAATACCCTCGACT--TGTAAAATTAC
1 TAAAATTACCGAAATACCCTCGTAGGGTAAAATTACTGAAATACCCT-TA-TAGGGTAGAATTAC
* **
53176057 CGAAATACCCTCAGT-TTG
64 CAAAATACCCTCAGTAGGG
* * ** * *
53176075 CAAAATTACTGAAATACCCTCG-ATTTGTAAAATTACTAAAATACCCTTATAGGGTAGAATTACT
1 TAAAATTACCGAAATACCCTCGTA-GGGTAAAATTACTGAAATACCCTTATAGGGTAGAATTACC
53176139 AAAATACCACT-A-TAGGG
65 AAAATACC-CTCAGTAGGG
* * * * *
53176156 TAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCA
1 TAAAATTACCGAAATACCCTCGTAGGGTAAAATTACTGAAATACCCTTATAGGGTAGAATTACCA
*
53176221 AAATACCC-CTGTAGGG
66 AAATACCCTCAGTAGGG
* * * * * * **
53176237 TAGAATTACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTG
1 TAAAATTACCGAAATACCCTCGTAGGGTAAAATTACTGAAATACCCTTATAGGGTAGAATTACCA
53176302 AAATACGCCT--GTAGGG
66 AAATAC-CCTCAGTAGGG
* * * * *
53176318 TAGAATTACTGAAATACCC-CTGTAGGGTAGAATTACTGAAATACCCTTGTAAGGTAGAATTACC
1 TAAAATTACCGAAATACCCTC-GTAGGGTAAAATTACTGAAATACCCTTATAGGGTAGAATTACC
*
53176382 AAAATACCC-CTGTAGGG
65 AAAATACCCTCAGTAGGG
* ** * * *
53176399 TAGAATTATTGAAATACCC-CTGTAGGGTAGAATTACCGAGATACCCTT
1 TAAAATTACCGAAATACCCTC-GTAGGGTAAAATTACTGAAATACCCTT
53176447 GTGGGGTAAA
Statistics
Matches: 323, Mismatches: 35, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
79 1 0.00
80 24 0.07
81 293 0.91
82 5 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (82 bp):
TAAAATTACCGAAATACCCTCGTAGGGTAAAATTACTGAAATACCCTTATAGGGTAGAATTACCA
AAATACCCTCAGTAGGG
Found at i:53176727 original size:27 final size:26
Alignment explanation
Indices: 53176684--53176766 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
53176674 TGGAGGAAGC
*
53176684 GTTCTGGTGGCTATGCCACAAATATTT
1 GTTCTGGTGGCTATGCCAC-AATATCT
* *
53176711 GTTCTGGTTGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * *
53176737 GTATCTGGTGACTTTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
53176764 GTT
1 GTT
53176767 TACCGATCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 9 0.19
27 39 0.81
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.40
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:53176857 original size:20 final size:20
Alignment explanation
Indices: 53176810--53176857 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
53176800 CGAAGGCTGT
* *
53176810 GTGCCGTTATTGTGGGCTTC
1 GTGCCGATATTGTAGGCTTC
**
53176830 GTATCGATATTGTAGGCTTC
1 GTGCCGATATTGTAGGCTTC
53176850 GTGCCGAT
1 GTGCCGAT
53176858 TATAGACCCG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.12, C:0.19, G:0.31, T:0.38
Consensus pattern (20 bp):
GTGCCGATATTGTAGGCTTC
Found at i:53176946 original size:98 final size:98
Alignment explanation
Indices: 53176776--53176977 Score: 332
Period size: 98 Copynumber: 2.1 Consensus size: 98
53176766 TTACCGATCG
53176776 ATGGCTGAGTGCCAATCATGTTACCGAAGGCTGTGTGCCGTTATTGTGGGCTTCGTATCGATATT
1 ATGGCTGAGTGCCAATCATGTTACCGAAGGCTGTGTGCCGTTATTGTGGGCTTCGTATCGATATT
53176841 GTAGGCTTCGTGCCGATTATAGACCCGTTATCA
66 GTAGGCTTCGTGCCGATTATAGACCCGTTATCA
** *
53176874 ATGGCTGAGTGCTGATCATGTTACCGAAGGCTGTGTGCCGTTATTGTGGGCTTCGTATCGGTATT
1 ATGGCTGAGTGCCAATCATGTTACCGAAGGCTGTGTGCCGTTATTGTGGGCTTCGTATCGATATT
* * ** *
53176939 GTGGGCTTTGTTTCGATTATAGACCCGTTATCG
66 GTAGGCTTCGTGCCGATTATAGACCCGTTATCA
53176972 ATGGCT
1 ATGGCT
53176978 TTGTGCCACG
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (98 bp):
ATGGCTGAGTGCCAATCATGTTACCGAAGGCTGTGTGCCGTTATTGTGGGCTTCGTATCGATATT
GTAGGCTTCGTGCCGATTATAGACCCGTTATCA
Found at i:53179415 original size:60 final size:60
Alignment explanation
Indices: 53179322--53179441 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
53179312 CTATGAAAGT
53179322 GCAATTGATACTAAGGATAGTGAGATCGACACTTCAAGTAAGTTCGAAAGAGATAGAGTA
1 GCAATTGATACTAAGGATAGTGAGATCGACACTTCAAGTAAGTTCGAAAGAGATAGAGTA
* ** *
53179382 GCAATTGATACTATGGATAGTGAGATCGACACTTTGAGTAAGTTCGACAGAGATAGAGTA
1 GCAATTGATACTAAGGATAGTGAGATCGACACTTCAAGTAAGTTCGAAAGAGATAGAGTA
53179442 TCGAAAAATC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.25
Consensus pattern (60 bp):
GCAATTGATACTAAGGATAGTGAGATCGACACTTCAAGTAAGTTCGAAAGAGATAGAGTA
Found at i:53179605 original size:44 final size:44
Alignment explanation
Indices: 53179552--53179636 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
53179542 TATATATGAG
* *
53179552 GCATCTGAACTCGTTGAATTGGTCTGAGTTCATTATGGATGGAA
1 GCATCTGAACTCGTTGAATTGGTCCGAGTTCATAATGGATGGAA
53179596 GCATCTGAACTCGTTGAATTGGTCCGAGTTCATAATGGATG
1 GCATCTGAACTCGTTGAATTGGTCCGAGTTCATAATGGATG
53179637 TGATACATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (44 bp):
GCATCTGAACTCGTTGAATTGGTCCGAGTTCATAATGGATGGAA
Found at i:53185142 original size:93 final size:93
Alignment explanation
Indices: 53184983--53185153 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
53184973 GGATGGTTGA
* *
53184983 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
53185048 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
53185076 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
53185141 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
53185154 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53185156 original size:46 final size:46
Alignment explanation
Indices: 53184987--53185158 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
53184977 GGTTGAGCAT
* * *
53184987 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
53185033 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
*
53185078 ATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
53185126 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
53185159 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 59 0.56
47 27 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:53188951 original size:28 final size:29
Alignment explanation
Indices: 53188920--53189050 Score: 131
Period size: 29 Copynumber: 4.6 Consensus size: 29
53188910 GTGACGAGAT
53188920 TGGCACTAAGTGTGCGTGCTGGAAA-ATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
53188948 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ****
53188977 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
53189006 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
53189035 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53189051 AAATCGAGTA
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
28 26 0.30
29 61 0.70
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:53188987 original size:29 final size:28
Alignment explanation
Indices: 53188920--53188991 Score: 126
Period size: 28 Copynumber: 2.5 Consensus size: 28
53188910 GTGACGAGAT
*
53188920 TGGCACTAAGTGTGCGTGCTGGAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAATA
53188948 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAA-ATA
53188977 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
53188992 GAGCTCGAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 24 0.57
29 18 0.43
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
TGGCACTAAGTGTGCATGCTGGAAAATA
Found at i:53196686 original size:29 final size:29
Alignment explanation
Indices: 53196653--53196726 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
53196643 GTGACGAGAT
53196653 TGGCACTAAGTGTGCGTGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
53196682 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
53196711 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53196727 AGCTCGAAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:53196742 original size:29 final size:29
Alignment explanation
Indices: 53196710--53196785 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
53196700 CTGGAAATAT
* *
53196710 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
* * * *
53196739 ATGGCACTATGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
53196768 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
53196786 AATCGAGTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:53196743 original size:58 final size:58
Alignment explanation
Indices: 53196653--53196785 Score: 142
Period size: 58 Copynumber: 2.3 Consensus size: 58
53196643 GTGACGAGAT
* * * * *
53196653 TGGCACTAAGTGTGCGTGCTGGAAAAATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAAACATGGCACTAAGTGTGCAGGCT-GAAATCACA
*** * * * *
53196711 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTATGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAAACATGGCACTAAGTGTGCAGGCTGAAATCACA
53196769 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
53196786 AATCGAGTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
57 4 0.06
58 58 0.94
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.24
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAAACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:53199280 original size:48 final size:48
Alignment explanation
Indices: 53199225--53199457 Score: 394
Period size: 48 Copynumber: 4.9 Consensus size: 48
53199215 TATATATGTG
* * *
53199225 TGTGGTAAATCTGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
53199273 TGTGGTAAAGCCGAATGGCTAATGTGAGATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
53199321 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
53199369 TGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
53199417 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
53199458 GTTTGTATAT
Statistics
Matches: 174, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 174 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:53199648 original size:37 final size:37
Alignment explanation
Indices: 53199598--53199700 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
53199588 GGAAATATAT
53199598 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
53199635 TCCGGGTAAGACCCGAAGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
53199672 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
53199701 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:53201475 original size:48 final size:48
Alignment explanation
Indices: 53201413--53201836 Score: 724
Period size: 48 Copynumber: 8.9 Consensus size: 48
53201403 TATATATGTG
* *
53201413 TGTGATAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
53201461 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
53201509 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
53201557 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
53201605 TGTGGTAAA-CCCAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
53201652 TGTGGTAAAGTCGAATGGGTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
53201700 TGTGGTAAAGCCGAATGGGTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
53201748 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
53201796 AGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
53201837 GTGTGTATAT
Statistics
Matches: 362, Mismatches: 13, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 45 0.12
48 317 0.88
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:53201750 original size:191 final size:192
Alignment explanation
Indices: 53201418--53201836 Score: 723
Period size: 191 Copynumber: 2.2 Consensus size: 192
53201408 ATGTGTGTGA
*
53201418 TAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
1 TAAAGCCCAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
* *
53201483 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
66 TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
*
53201548 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
131 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAAGTGG
* *
53201610 TAAA-CCCAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGTCGAATGGGTAA
1 TAAAGCCCAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
*
53201674 TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGGTAATGTGAAATATATATGAG
66 TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
*
53201739 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATAAGTGG
131 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAAGTGG
* * * *
53201801 TAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TAAAGCCCAATGGCTAATGTGAAATATATATGAGAT
53201837 GTGTGTATAT
Statistics
Matches: 214, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
191 183 0.86
192 31 0.14
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.31
Consensus pattern (192 bp):
TAAAGCCCAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATAAGTGG
Found at i:53202076 original size:37 final size:37
Alignment explanation
Indices: 53201977--53202079 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
53201967 GGAAATATAT
*
53201977 TCCGGGTAAGACCCGATGACTACGTATGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
53202014 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
53202051 TCTGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
53202080 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:53204834 original size:27 final size:26
Alignment explanation
Indices: 53204795--53204851 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
53204785 AATACCTTTA
*
53204795 TAGGTGGACAATTTAC-AGATTTACCCC
1 TAGGTGGACAA-TTACTA-ATATACCCC
53204822 TAGGTGTGA-AATTACTAATATACCCC
1 TAGGTG-GACAATTACTAATATACCCC
53204848 TAGG
1 TAGG
53204852 GTTAAGGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 16 0.59
27 9 0.33
28 2 0.07
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (26 bp):
TAGGTGGACAATTACTAATATACCCC
Found at i:53215920 original size:48 final size:48
Alignment explanation
Indices: 53215844--53216014 Score: 270
Period size: 48 Copynumber: 3.6 Consensus size: 48
53215834 ATGCCATACA
* *
53215844 ACCATGTCTGGGACATGGCATCGACATTGCTATGTGAGCCTGTGTAAG
1 ACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCAGTGTAAG
* *
53215892 ACCATGTCTGGGACATGGCATCGTCATTGTTATGTGAGCCGGTGTAAG
1 ACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCAGTGTAAG
* *
53215940 ACCATGTCTGGGACATGGCATCGGCATTGTTATGTAAGCCAGTGTAAG
1 ACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCAGTGTAAG
* *
53215988 ACCATGTATGGGACATGACATCGACAT
1 ACCATGTCTGGGACATGGCATCGACAT
53216015 GAGGCATCGT
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 114 1.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.27
Consensus pattern (48 bp):
ACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCCAGTGTAAG
Found at i:53221303 original size:49 final size:49
Alignment explanation
Indices: 53221129--53221493 Score: 548
Period size: 49 Copynumber: 7.6 Consensus size: 49
53221119 CCCTTCGGGA
* *
53221129 CTTATCACAT-T-TATACACTTTCACATCCATCACGTT-GGCCACTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCAC-TTCGGCCATTAGGC
* *
53221176 CCTATCAC--ATATATACACTTTCACATTCATCACATT-GGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCAC-TTCGGCCATTAGGC
* * * *
53221223 CTTGTCAC--ATATATACACCTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
* *
53221270 CTTGTCACATATATATAAACTTTCACATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
53221319 CTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
53221368 CTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
53221417 CTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
* *
53221466 CGTATCACATATGTATACACTTTCACAT
1 CTTATCACATATATATACACTTTCACAT
53221494 ACCACATATA
Statistics
Matches: 294, Mismatches: 19, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
46 2 0.01
47 86 0.29
49 206 0.70
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
Found at i:53224668 original size:25 final size:25
Alignment explanation
Indices: 53224631--53224682 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
53224621 AAGGGATTTA
53224631 CACACACACAGTGC-CTCTAATCATT
1 CACACACACAGTGCTCT-TAATCATT
* *
53224656 CACACACATAGTGCTCTTATTCATT
1 CACACACACAGTGCTCTTAATCATT
53224681 CA
1 CA
53224683 TTATTACACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.29
Consensus pattern (25 bp):
CACACACACAGTGCTCTTAATCATT
Found at i:53224918 original size:40 final size:40
Alignment explanation
Indices: 53224866--53225057 Score: 330
Period size: 40 Copynumber: 4.8 Consensus size: 40
53224856 CCAGCATGAT
* * *
53224866 TGCTCTTCGGAACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCTGGATACATCACTAGCACGAA
*
53224906 TGCTCTTTGGAACTTAGTCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCTGGATACATCACTAGCACGAA
*
53224946 TGCTCTTCGGAACTTAGTCTGGATACATCACTAGCACAAA
1 TGCTCTTCGGAACTTAGTCTGGATACATCACTAGCACGAA
53224986 TGCTCTTCGGAACTTAGTCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCTGGATACATCACTAGCACGAA
*
53225026 TGCTCTTCGGAACTTAGTCCGGATACATCACT
1 TGCTCTTCGGAACTTAGTCTGGATACATCACT
53225058 CTCAGTTCTC
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 144 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCTGGATACATCACTAGCACGAA
Found at i:53227354 original size:49 final size:49
Alignment explanation
Indices: 53227191--53227543 Score: 540
Period size: 49 Copynumber: 7.3 Consensus size: 49
53227181 TTACCACATT
* * * *
53227191 TATACACTTTCACATCCATCACGTT-GGCCACTCGGCCCTATCAC--ATA
1 TATACACTTTCACATTCATCAC-TTCGGCCATTAGGCCTTATCACATATA
* *
53227238 TATACACTTTCACATTCATCACATT-GGCCATTCGGCCTTGTCAC--ATA
1 TATACACTTTCACATTCATCAC-TTCGGCCATTAGGCCTTATCACATATA
* * *
53227285 TATACACCTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATA
1 TATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATA
*
53227334 TATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTGTCACATATA
1 TATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATA
53227383 TATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATA
53227432 TATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTA-CACATATA
1 TATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATA
*
53227480 TATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATG
1 TATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATA
53227529 TATACACTTTCACAT
1 TATACACTTTCACAT
53227544 ACCACATATA
Statistics
Matches: 290, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 81 0.28
48 48 0.17
49 160 0.55
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.33
Consensus pattern (49 bp):
TATACACTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATA
Found at i:53232844 original size:28 final size:28
Alignment explanation
Indices: 53232797--53232878 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
53232787 GGAGGAAGCG
*
53232797 TTCTAGTGGCTATGCCACAAATATCTGT
1 TTCTAGTGGCTACGCCACAAATATCTGT
* * *
53232825 TTCTGGTGGCTACGCAACAAATATCTAT
1 TTCTAGTGGCTACGCCACAAATATCTGT
53232853 TT-TAGTGGCT-CTGCCAC-AATATCTGT
1 TTCTAGTGGCTAC-GCCACAAATATCTGT
53232879 ATCTGGTGAC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 9 0.20
27 11 0.24
28 26 0.57
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.35
Consensus pattern (28 bp):
TTCTAGTGGCTACGCCACAAATATCTGT
Found at i:53232871 original size:27 final size:28
Alignment explanation
Indices: 53232797--53232903 Score: 96
Period size: 27 Copynumber: 3.9 Consensus size: 28
53232787 GGAGGAAGCG
* *
53232797 TTCTAGTGGCTATGCCACAAATATCTGT
1 TTCTAGTGGCTCTGCCACAAATATCTAT
* *
53232825 TTCTGGTGGCTAC-GCAACAAATATCTAT
1 TTCTAGTGGCT-CTGCCACAAATATCTAT
*
53232853 TT-TAGTGGCTCTGCCAC-AATATCTGT
1 TTCTAGTGGCTCTGCCACAAATATCTAT
* * * *
53232879 ATCTGGTGACTCTGTCAC-AATATCT
1 TTCTAGTGGCTCTGCCACAAATATCT
53232904 GTTCTGGCAG
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
26 10 0.15
27 30 0.46
28 25 0.38
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (28 bp):
TTCTAGTGGCTCTGCCACAAATATCTAT
Found at i:53234461 original size:30 final size:30
Alignment explanation
Indices: 53234425--53234484 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
53234415 TTCCCGAGCC
53234425 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
53234455 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
53234485 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:53236478 original size:16 final size:15
Alignment explanation
Indices: 53236440--53236478 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
53236430 TGGATTTTCG
*
53236440 TATCATGGATTTCTT
1 TATCTTGGATTTCTT
53236455 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
53236470 TATTCTTGG
1 TA-TCTTGG
53236479 CTTCTTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:53238575 original size:30 final size:30
Alignment explanation
Indices: 53238528--53238587 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
53238518 TTCCCGAGCC
53238528 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* * *
53238558 TAGGGGCAAAA-TGGTAATTTTGCGAAAGTT
1 TAGGGGAAAAAGT-GTAATTATGCAAAAGTT
53238588 CGTATTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.38, C:0.05, G:0.28, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:53240016 original size:18 final size:19
Alignment explanation
Indices: 53239976--53240019 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
53239966 CCCAGTACAG
* *
53239976 TAACAATAATCAGTGTAGA
1 TAACAGTAATCAGTGCAGA
53239995 -AACAGTAATCAGTGCA-A
1 TAACAGTAATCAGTGCAGA
53240012 TAACAGTA
1 TAACAGTA
53240020 TACAAGTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.23
Consensus pattern (19 bp):
TAACAGTAATCAGTGCAGA
Found at i:53240381 original size:27 final size:27
Alignment explanation
Indices: 53240343--53240599 Score: 327
Period size: 27 Copynumber: 9.5 Consensus size: 27
53240333 TCACTTAGCC
* *
53240343 CAAAACAGTCATCTTACCATATAAGGG
1 CAAAACAGTCATTTTACCACATAAGGG
*
53240370 CAAAACAATCATTTTACCACATAAGGG
1 CAAAACAGTCATTTTACCACATAAGGG
*
53240397 CAAAACAGTCATTTTACCACATAAGAG
1 CAAAACAGTCATTTTACCACATAAGGG
* *
53240424 TAAAACAGTCATTCTACCACATAAGGG
1 CAAAACAGTCATTTTACCACATAAGGG
* * *
53240451 AAAAAAAGTCATTTTACCACATAAGGA
1 CAAAACAGTCATTTTACCACATAAGGG
*
53240478 TAAAACAGTCATTTTACCACATAAGGG
1 CAAAACAGTCATTTTACCACATAAGGG
* * * *
53240505 TAAAATAATCATTTTACCATATAAGGG
1 CAAAACAGTCATTTTACCACATAAGGG
* * *
53240532 AAAAATAGTCATTTTACCACATTAGGG
1 CAAAACAGTCATTTTACCACATAAGGG
53240559 CAAAACA-TGCATTTTACCACATAAGGG
1 CAAAACAGT-CATTTTACCACATAAGGG
* *
53240586 AAAAACGGTCATTT
1 CAAAACAGTCATTT
53240600 ATCAATTTGA
Statistics
Matches: 201, Mismatches: 27, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
26 1 0.00
27 199 0.99
28 1 0.00
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (27 bp):
CAAAACAGTCATTTTACCACATAAGGG
Found at i:53240599 original size:81 final size:81
Alignment explanation
Indices: 53240344--53240599 Score: 363
Period size: 81 Copynumber: 3.2 Consensus size: 81
53240334 CACTTAGCCC
* *
53240344 AAAACAGTCATCTTACCATATAAGGGCAAAACAA-TCATTTTACCACATAAGGGCAAAACAGTCA
1 AAAACAGTCATTTTACCATATAAGGG-AAAAAAAGTCATTTTACCACATAAGGGCAAAACAGTCA
*
53240408 TTTTACCACATAAGAGT
65 TTTTACCACATAAGGGT
* * **
53240425 AAAACAGTCATTCTACCACATAAGGGAAAAAAAGTCATTTTACCACATAAGGATAAAACAGTCAT
1 AAAACAGTCATTTTACCATATAAGGGAAAAAAAGTCATTTTACCACATAAGGGCAAAACAGTCAT
53240490 TTTACCACATAAGGGT
66 TTTACCACATAAGGGT
* * * *
53240506 AAAATAATCATTTTACCATATAAGGGAAAAATAGTCATTTTACCACATTAGGGCAAAACA-TGCA
1 AAAACAGTCATTTTACCATATAAGGGAAAAAAAGTCATTTTACCACATAAGGGCAAAACAGT-CA
*
53240570 TTTTACCACATAAGGGA
65 TTTTACCACATAAGGGT
*
53240587 AAAACGGTCATTT
1 AAAACAGTCATTT
53240600 ATCAATTTGA
Statistics
Matches: 154, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
80 7 0.05
81 147 0.95
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.25
Consensus pattern (81 bp):
AAAACAGTCATTTTACCATATAAGGGAAAAAAAGTCATTTTACCACATAAGGGCAAAACAGTCAT
TTTACCACATAAGGGT
Found at i:53240730 original size:30 final size:30
Alignment explanation
Indices: 53240694--53240763 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
53240684 ATAGTAAAAA
53240694 TGGGCCCACAACCCATACTACGGGCCCATG
1 TGGGCCCACAACCCATACTACGGGCCCATG
53240724 TGGGCCCACAACCCATACTACGGGCCCATG
1 TGGGCCCACAACCCATACTACGGGCCCATG
53240754 TGGGCCCACA
1 TGGGCCCACA
53240764 CGCCTGTCTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.23, C:0.40, G:0.24, T:0.13
Consensus pattern (30 bp):
TGGGCCCACAACCCATACTACGGGCCCATG
Found at i:53243951 original size:2 final size:2
Alignment explanation
Indices: 53243944--53243971 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
53243934 CGGCTCTAGC
53243944 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53243972 GTTTGCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53244777 original size:40 final size:39
Alignment explanation
Indices: 53244722--53244925 Score: 255
Period size: 40 Copynumber: 5.1 Consensus size: 39
53244712 TGAATGATAC
* * * * *
53244722 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTCTAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
*
53244762 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
53244802 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* * *
53244842 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* **
53244882 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGT-GTTATAT
53244922 CCGG
1 CCGG
53244926 CTAAATTCCG
Statistics
Matches: 146, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 143 0.98
41 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (39 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:53244855 original size:80 final size:80
Alignment explanation
Indices: 53244718--53244929 Score: 311
Period size: 80 Copynumber: 2.7 Consensus size: 80
53244708 CAATTGAATG
* * * * *
53244718 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTCTATCCGGGTTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
53244782 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
53244798 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
53244863 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
53244878 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
53244930 ATTCCGAAGA
Statistics
Matches: 119, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
79 6 0.05
80 111 0.93
81 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:53253760 original size:40 final size:40
Alignment explanation
Indices: 53253715--53253881 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
53253705 CGGAATATAA
53253715 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
53253755 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
53253795 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
53253835 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
53253874 CCGGATAT
1 CCGGATAT
53253882 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53261757 original size:40 final size:40
Alignment explanation
Indices: 53261712--53261879 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
53261702 CGGAATATAA
53261712 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
53261752 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
53261792 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
53261832 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
53261872 CCGGATAT
1 CCGGATAT
53261880 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53267065 original size:40 final size:40
Alignment explanation
Indices: 53267010--53267213 Score: 275
Period size: 40 Copynumber: 5.1 Consensus size: 40
53267000 TGAATGATAC
* * * *
53267010 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
53267050 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
53267090 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
53267130 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
53267170 CCGGGTTAAGACCCGAAGGTAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
53267210 CCGG
1 CCGG
53267214 CTAAATTCCG
Statistics
Matches: 146, Mismatches: 17, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
40 144 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:53267143 original size:80 final size:80
Alignment explanation
Indices: 53267006--53267217 Score: 311
Period size: 80 Copynumber: 2.7 Consensus size: 80
53266996 CAATTGAATG
* * * *
53267006 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGTTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
53267070 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
53267086 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
53267151 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * * *
53267166 ATACCCGGGTTAAGACCCGAAGGTAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
53267218 ATTCCGAAGA
Statistics
Matches: 119, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
79 6 0.05
80 111 0.93
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:53271176 original size:27 final size:28
Alignment explanation
Indices: 53271119--53271188 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
53271109 AAATTTGTAC
**
53271119 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
53271147 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
53271174 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
53271189 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:53271197 original size:27 final size:27
Alignment explanation
Indices: 53271119--53271200 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
53271109 AAATTTGTAC
* *
53271119 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
53271147 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
53271174 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
53271201 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:53279101 original size:27 final size:28
Alignment explanation
Indices: 53279044--53279113 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
53279034 AAATTTGTAC
**
53279044 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
53279072 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
53279099 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
53279114 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:53279122 original size:27 final size:27
Alignment explanation
Indices: 53279044--53279125 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
53279034 AAATTTGTAC
* *
53279044 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
53279072 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
53279099 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
53279126 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:53281038 original size:39 final size:39
Alignment explanation
Indices: 53280993--53281123 Score: 174
Period size: 39 Copynumber: 3.3 Consensus size: 39
53280983 GACTTTAAAC
*
53280993 CCGGATATATTTCCAGCATATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCATATAGCCTGCGGACCTTAAGT
* * **
53281032 CTGGATATAATTCCAGCATATAGCCTACGGGTA-CTTAAAC
1 CCGGATATAATTCCAGCATATAGCCTGC-GG-ACCTTAAGT
* *
53281072 CCGGATATAATTCCAACACATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCATATAGCCTGCGGACCTTAAGT
53281111 CCGGATATAATTC
1 CCGGATATAATTC
53281124 TAGATATCAT
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
38 1 0.01
39 45 0.58
40 31 0.40
41 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (39 bp):
CCGGATATAATTCCAGCATATAGCCTGCGGACCTTAAGT
Found at i:53283063 original size:29 final size:29
Alignment explanation
Indices: 53283030--53283103 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
53283020 GGGCTGTCAC
*
53283030 ATGGCCCATTAGGCCCAAATCACCTGTAT
1 ATGGCCCATTAGGCCCAAATCACATGTAT
* *
53283059 ATGGCCCATTAGGCCAAAATCACATTTAT
1 ATGGCCCATTAGGCCCAAATCACATGTAT
*
53283088 ATGGCCCGTT-GGCCCA
1 ATGGCCCATTAGGCCCA
53283104 GTCACATTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (29 bp):
ATGGCCCATTAGGCCCAAATCACATGTAT
Found at i:53289830 original size:39 final size:39
Alignment explanation
Indices: 53289746--53289833 Score: 122
Period size: 39 Copynumber: 2.3 Consensus size: 39
53289736 GTAATTAGCA
* * *
53289746 TGCTAGGTATAAACCTGAACTTATCATTGGCACGAGGCG
1 TGCTAGGTATAAACCTGAACTTATCACTGGCACGAGCCC
* **
53289785 TACTAGGTATAAACCTGAACTTATTGCTGGCACGAGCCC
1 TGCTAGGTATAAACCTGAACTTATCACTGGCACGAGCCC
53289824 TGCTAGGTAT
1 TGCTAGGTAT
53289834 TAAGTCCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (39 bp):
TGCTAGGTATAAACCTGAACTTATCACTGGCACGAGCCC
Found at i:53294591 original size:60 final size:59
Alignment explanation
Indices: 53294480--53294598 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 59
53294470 CTATGAAAGG
*
53294480 GCAATTGATACTATGGATAGTGGATCGACACTTCGAGTAAGTTCGATAGAGATAGAGTA
1 GCAATTGATACTATGGATAGTGGATCGACACTTCGAGTAAGTTCGACAGAGATAGAGTA
* *
53294539 GCAATTGATACTATGGATAGTGAGATTGACACTTTGAGTAAGTTCGACAGAGATAGAGTA
1 GCAATTGATACTATGGATAGTG-GATCGACACTTCGAGTAAGTTCGACAGAGATAGAGTA
53294599 TCGAAAAATC
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
59 22 0.39
60 34 0.61
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (59 bp):
GCAATTGATACTATGGATAGTGGATCGACACTTCGAGTAAGTTCGACAGAGATAGAGTA
Found at i:53298911 original size:44 final size:44
Alignment explanation
Indices: 53298794--53298921 Score: 109
Period size: 44 Copynumber: 2.9 Consensus size: 44
53298784 GAATTAAGAA
* * ** *
53298794 ATCCAAACTTGTTGAGTTA-TTCCAAGTTCGTGATATATATGAG-GC
1 ATCCAAACTTGTTGAATTAGTT-CAAGTTCAT-A-ATGGATGGGAGC
* * * *
53298839 ATCTAAACTTGTTGACTTAGTTCGAGTTCATTATGGATGGGAGC
1 ATCCAAACTTGTTGAATTAGTTCAAGTTCATAATGGATGGGAGC
*
53298883 ATCCAAACTTGTTGAATT-GGTCTAAGTTCATAATGGATG
1 ATCCAAACTTGTTGAATTAGTTC-AAGTTCATAATGGATG
53298922 CGATACATGT
Statistics
Matches: 67, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
43 9 0.13
44 32 0.48
45 24 0.36
46 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (44 bp):
ATCCAAACTTGTTGAATTAGTTCAAGTTCATAATGGATGGGAGC
Found at i:53301157 original size:7 final size:7
Alignment explanation
Indices: 53301145--53301169 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
53301135 GTTGTCTTCT
53301145 TGTTTGA
1 TGTTTGA
53301152 TGTTTGA
1 TGTTTGA
53301159 TGTTTGA
1 TGTTTGA
53301166 TGTT
1 TGTT
53301170 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:53302097 original size:27 final size:28
Alignment explanation
Indices: 53302041--53302110 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
53302031 AAATTTGTAC
53302041 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
53302069 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
53302096 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
53302111 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:53304542 original size:7 final size:7
Alignment explanation
Indices: 53304530--53304554 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
53304520 GTTGTCTTCT
53304530 TGTTTGA
1 TGTTTGA
53304537 TGTTTGA
1 TGTTTGA
53304544 TGTTTGA
1 TGTTTGA
53304551 TGTT
1 TGTT
53304555 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:53305482 original size:27 final size:28
Alignment explanation
Indices: 53305426--53305495 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
53305416 AAATTTGTAC
53305426 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
53305454 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
53305481 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
53305496 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:53312372 original size:7 final size:7
Alignment explanation
Indices: 53312360--53312384 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
53312350 GTTGTCTTCT
53312360 TGTTTGA
1 TGTTTGA
53312367 TGTTTGA
1 TGTTTGA
53312374 TGTTTGA
1 TGTTTGA
53312381 TGTT
1 TGTT
53312385 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:53312778 original size:22 final size:22
Alignment explanation
Indices: 53312750--53312794 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
53312740 CATTCGGCTA
53312750 TATATATATATATATGCATGTG
1 TATATATATATATATGCATGTG
53312772 TATATATATATATATGCATGTG
1 TATATATATATATATGCATGTG
53312794 T
1 T
53312795 GATTGGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (22 bp):
TATATATATATATATGCATGTG
Found at i:53318635 original size:23 final size:24
Alignment explanation
Indices: 53318601--53318645 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
53318591 TAGAAAGAAT
53318601 AAAATAATGAAAAAAAAAGAAAGG
1 AAAATAATGAAAAAAAAAGAAAGG
* *
53318625 AAAAT-ATGAAAACAAAGGAAA
1 AAAATAATGAAAAAAAAAGAAA
53318646 AAAAAAAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.73, C:0.02, G:0.16, T:0.09
Consensus pattern (24 bp):
AAAATAATGAAAAAAAAAGAAAGG
Found at i:53318651 original size:23 final size:24
Alignment explanation
Indices: 53318592--53318651 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 24
53318582 TGGTTATGTT
53318592 AGAAAGAATAAAATAATGAAAAAAAA
1 AGAAA-AA-AAAATAATGAAAAAAAA
** *
53318618 AGAAAGGAAAAT-ATGAAAACAAA
1 AGAAAAAAAAATAATGAAAAAAAA
*
53318641 GGAAAAAAAAA
1 AGAAAAAAAAA
53318652 AGTGTCCATC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 18 0.64
24 5 0.18
26 5 0.18
ACGTcount: A:0.75, C:0.02, G:0.15, T:0.08
Consensus pattern (24 bp):
AGAAAAAAAAATAATGAAAAAAAA
Found at i:53319819 original size:27 final size:28
Alignment explanation
Indices: 53319763--53319832 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
53319753 AAATTTGTAC
53319763 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
53319791 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
53319818 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
53319833 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:53321516 original size:31 final size:31
Alignment explanation
Indices: 53321478--53321538 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
53321468 TTTCATATTT
53321478 CATATTTCATAACACTGGGCCGAAGCCTTTC
1 CATATTTCATAACACTGGGCCGAAGCCTTTC
**
53321509 CATATTTCATATTACTGGGCCGAAGCCTTT
1 CATATTTCATAACACTGGGCCGAAGCCTTT
53321539 ACTGTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (31 bp):
CATATTTCATAACACTGGGCCGAAGCCTTTC
Found at i:53323296 original size:31 final size:31
Alignment explanation
Indices: 53323258--53323318 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
53323248 TTTCATATTT
53323258 CATATTTCATAACACTGGGCCGAAGCCTTTC
1 CATATTTCATAACACTGGGCCGAAGCCTTTC
**
53323289 CATATTTCATATTACTGGGCCGAAGCCTTT
1 CATATTTCATAACACTGGGCCGAAGCCTTT
53323319 ACTGTAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (31 bp):
CATATTTCATAACACTGGGCCGAAGCCTTTC
Found at i:53325944 original size:45 final size:45
Alignment explanation
Indices: 53325895--53326066 Score: 141
Period size: 45 Copynumber: 3.7 Consensus size: 45
53325885 ACATTTTGTA
* *
53325895 GCCGATGCATGTCCTAGACATGTCTTACACTGGCTTATGTC-CCGG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TATGTCACAGG
* * * ** **
53325940 GCCGATGTATGTCCCATACATGTCTTACACTAGC-ACTCGTCTTAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTA-T-GTCACAGG
* * *
53325986 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTCACTATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATGTCAC-A-G-G
*
53326036 GCCGATGCATGTCCTAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
53326067 AGCCCACAAT
Statistics
Matches: 98, Mismatches: 20, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
45 33 0.34
46 6 0.06
47 14 0.14
48 24 0.24
49 13 0.13
50 6 0.06
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.30
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATGTCACAGG
Found at i:53335047 original size:39 final size:39
Alignment explanation
Indices: 53335003--53335316 Score: 522
Period size: 39 Copynumber: 8.1 Consensus size: 39
53334993 ATGCAAGACA
53335003 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
53335042 CTGGAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
53335081 CTGGAAATATATCAGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
53335120 CTGGAAATGTATCCGGGCTAAAGTCCCGCAAGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
53335159 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
53335198 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
53335237 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
53335276 CT-GAAATGTATCCGGGTTAAAGTCCCGCAGGATTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
53335314 CTG
1 CTG
53335317 ATAATATAAT
Statistics
Matches: 255, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
38 34 0.13
39 221 0.87
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Done.