Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 183 of 218
Found at i:54903193 original size:8 final size:9
Alignment explanation
Indices: 54903174--54903211 Score: 69
Period size: 9 Copynumber: 4.3 Consensus size: 9
54903164 CTATTTTGAC
54903174 TTTGATTTT
1 TTTGATTTT
54903183 TTTGA-TTT
1 TTTGATTTT
54903191 TTTGATTTT
1 TTTGATTTT
54903200 TTTGATTTT
1 TTTGATTTT
54903209 TTT
1 TTT
54903212 TGAATTCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.29
9 20 0.71
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.79
Consensus pattern (9 bp):
TTTGATTTT
Found at i:54903196 original size:17 final size:17
Alignment explanation
Indices: 54903174--54903210 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
54903164 CTATTTTGAC
54903174 TTTGATTTTTTTGATTT
1 TTTGATTTTTTTGATTT
54903191 TTTGATTTTTTTGATTT
1 TTTGATTTTTTTGATTT
54903208 TTT
1 TTT
54903211 TTGAATTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.78
Consensus pattern (17 bp):
TTTGATTTTTTTGATTT
Found at i:54903199 original size:7 final size:8
Alignment explanation
Indices: 54903174--54903210 Score: 56
Period size: 8 Copynumber: 4.4 Consensus size: 8
54903164 CTATTTTGAC
54903174 TTTGATTTT
1 TTTGA-TTT
54903183 TTTGATTT
1 TTTGATTT
54903191 TTTGATTTT
1 TTTGA-TTT
54903200 TTTGATTT
1 TTTGATTT
54903208 TTT
1 TTT
54903211 TTGAATTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 14 0.52
9 13 0.48
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.78
Consensus pattern (8 bp):
TTTGATTT
Found at i:54909515 original size:30 final size:29
Alignment explanation
Indices: 54909481--54909552 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
54909471 ATATATTACA
54909481 TAAAAATAAAAGATATAAGTATGTATATCG
1 TAAAAATAAAAGATATAAGTATGTATAT-G
* *
54909511 T-AAAATAAAACAATGTAAGTATGTATATG
1 TAAAAATAAAA-GATATAAGTATGTATATG
* *
54909540 TATATATAAAAGA
1 TAAAAATAAAAGA
54909553 AAATAGACGT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 12 0.34
30 23 0.66
ACGTcount: A:0.54, C:0.03, G:0.12, T:0.31
Consensus pattern (29 bp):
TAAAAATAAAAGATATAAGTATGTATATG
Found at i:54909681 original size:18 final size:18
Alignment explanation
Indices: 54909660--54909719 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
54909650 AAAATATGTT
*
54909660 TATAAAAAGATATATAGA
1 TATAAAAAGATATAAAGA
*
54909678 TATATAATAAGATATAAATA
1 TATA-AA-AAGATATAAAGA
*
54909698 TATAATAAGATATAAAGA
1 TATAAAAAGATATAAAGA
54909716 TATA
1 TATA
54909720 TATAAATAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 19 0.53
19 3 0.08
20 14 0.39
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
TATAAAAAGATATAAAGA
Found at i:54914026 original size:31 final size:31
Alignment explanation
Indices: 54913991--54914055 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
54913981 TAACAGCTGT
*
54913991 TGACCAGAAAAGAAAATTTCGAATAATTGGG
1 TGACCAGAAAAGAAAATCTCGAATAATTGGG
*
54914022 TGACCAGAAAAGAAAATCTCGAATAGTTGGG
1 TGACCAGAAAAGAAAATCTCGAATAATTGGG
54914053 TGA
1 TGA
54914056 TCATTTTGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.22
Consensus pattern (31 bp):
TGACCAGAAAAGAAAATCTCGAATAATTGGG
Found at i:54918027 original size:31 final size:31
Alignment explanation
Indices: 54917992--54918058 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
54917982 TTTAACAGCT
*
54917992 GGTGACCAGAAAAGAAAATTTCGAATAATTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
*
54918023 GGTGACCAGAAAAGAAAATCTCGAATAGTTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
54918054 GGTGA
1 GGTGA
54918059 TCATTTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.21
Consensus pattern (31 bp):
GGTGACCAGAAAAGAAAATCTCGAATAATTG
Found at i:54922027 original size:31 final size:31
Alignment explanation
Indices: 54921992--54922058 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
54921982 TTTAACAGCT
*
54921992 GGTGACCAGAAAAGAAAATTTCGAATAATTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
*
54922023 GGTGACCAGAAAAGAAAATCTCGAATAGTTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
54922054 GGTGA
1 GGTGA
54922059 TCATTTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.21
Consensus pattern (31 bp):
GGTGACCAGAAAAGAAAATCTCGAATAATTG
Found at i:54926030 original size:31 final size:31
Alignment explanation
Indices: 54925995--54926061 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
54925985 TTTAACAGCT
*
54925995 GGTGACCAGAAAAGAAAATTTCGAATAATTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
*
54926026 GGTGACCAGAAAAGAAAATCTCGAATAGTTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
54926057 GGTGA
1 GGTGA
54926062 TCATTTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.21
Consensus pattern (31 bp):
GGTGACCAGAAAAGAAAATCTCGAATAATTG
Found at i:54936169 original size:19 final size:20
Alignment explanation
Indices: 54936129--54936172 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
54936119 GTCTCTTTAG
* *
54936129 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
54936148 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
54936167 GCATTA
1 GCATTA
54936173 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:54938760 original size:8 final size:8
Alignment explanation
Indices: 54938747--54938780 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
54938737 TTTAGACTAG
54938747 AAAAAATC
1 AAAAAATC
54938755 AAAAAATC
1 AAAAAATC
*
54938763 -AAAAATA
1 AAAAAATC
54938770 AAAAAATC
1 AAAAAATC
54938778 AAA
1 AAA
54938781 GTCAAAATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAATC
Found at i:54938785 original size:21 final size:22
Alignment explanation
Indices: 54938744--54938802 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
54938734 GAGTTTAGAC
54938744 TAGAAAAAATCAAAAAATCAAAAA
1 TAGAAAAAATC-AAAAATC-AAAA
*
54938768 TA-AAAAAATC-AAAGTCAAAA
1 TAGAAAAAATCAAAAATCAAAA
54938788 TAGAAAAAAT-AAAAA
1 TAGAAAAAATCAAAAA
54938803 GAGAAGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 6 0.19
21 15 0.48
23 8 0.26
24 2 0.06
ACGTcount: A:0.75, C:0.07, G:0.05, T:0.14
Consensus pattern (22 bp):
TAGAAAAAATCAAAAATCAAAA
Found at i:54938787 original size:15 final size:15
Alignment explanation
Indices: 54938748--54938780 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
54938738 TTAGACTAGA
*
54938748 AAAAATCAAAAAATC
1 AAAAATAAAAAAATC
54938763 AAAAATAAAAAAATC
1 AAAAATAAAAAAATC
54938778 AAA
1 AAA
54938781 GTCAAAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAAATAAAAAAATC
Found at i:54938812 original size:18 final size:19
Alignment explanation
Indices: 54938784--54938831 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
54938774 AATCAAAGTC
*
54938784 AAAATAGAAAAAATAAAAAG
1 AAAA-AGAAAAAAGAAAAAG
*
54938804 -AGAAG-AAAAAGAAAAAG
1 AAAAAGAAAAAAGAAAAAG
54938821 AAAAAGAAAAA
1 AAAAAGAAAAA
54938832 GGAGGGGTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
17 11 0.48
18 6 0.26
19 6 0.26
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (19 bp):
AAAAAGAAAAAAGAAAAAG
Found at i:54938815 original size:6 final size:6
Alignment explanation
Indices: 54938792--54938832 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
54938782 TCAAAATAGA
* *
54938792 AAAAAT AAAAAG -AGAAG AAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
54938833 GAGGGGTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:54939214 original size:13 final size:14
Alignment explanation
Indices: 54939162--54939206 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
54939152 TCAAAAAAGA
*
54939162 AAAAGATGAAGAATG
1 AAAA-ATGAAAAATG
*
54939177 -AAAATGGAAAATG
1 AAAAATGAAAAATG
54939190 AAAAATGAAAAATG
1 AAAAATGAAAAATG
54939204 AAA
1 AAA
54939207 GAGTAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.67, C:0.00, G:0.20, T:0.13
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:54940687 original size:85 final size:85
Alignment explanation
Indices: 54940452--54940728 Score: 421
Period size: 84 Copynumber: 3.2 Consensus size: 85
54940442 ATCAGTGAAC
54940452 ATCGAAAACAAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
1 ATCGAAAAC-AAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
*
54940517 CCTGCGTTAACAACGAAGCAG
65 CCTACGTTAACAACGAAGCAG
*
54940538 ATCGAAAACAATCCTTG-CTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTC
1 ATCGAAAACAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTC
54940602 CTACGTTAACAACGAAGCAG
66 CTACGTTAACAACGAAGCAG
* * **
54940622 ATCGAAAACAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAAAAGCAGATCTTATCTTC
1 ATCGAAAACAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTC
* * * *
54940687 CTACATTGACAGCGAAGTAG
66 CTACGTTAACAACGAAGCAG
*
54940707 ATCGAGGACACAAGCCTTGCCT
1 ATCGA--AAACAAGCCTTGCCT
54940729 CCCTTAGTTG
Statistics
Matches: 176, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
84 82 0.47
85 71 0.40
86 9 0.05
87 14 0.08
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (85 bp):
ATCGAAAACAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTC
CTACGTTAACAACGAAGCAG
Found at i:54940792 original size:169 final size:168
Alignment explanation
Indices: 54940452--54940774 Score: 360
Period size: 169 Copynumber: 1.9 Consensus size: 168
54940442 ATCAGTGAAC
* *
54940452 ATCGAAAACAAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
1 ATCGAAAACAAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAAAAGCAGATCTTACCTT
* * * * * * * * *
54940517 CCTGCGTTAACAACGAAGCAGATCGAAAACAATCCTTGCTTCATTGGTTACAGTGGAGCTGGTTA
66 CCTACATTAACAACGAAGCAGATCGAAAACAAGCCTTGCTCCATTAGTTACAGGGGAGCAGATCA
* * *
54940582 AAGAAGCAGATCTTGCCTTCCTACGTTAACAACGAAGCAG
131 AAGAAGCAAATCTTACCTTCCTAAGTT-A-AACGAAGCAG
* *
54940622 ATCGAAAAC-AAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAAAAGCAGATCTTATCTT
1 ATCGAAAACAAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAAAAGCAGATCTTACCTT
* * * * * **
54940686 CCTACATTGACAGCGAAGTAGATCGAGGACACAAGCCTTGCCTCCCTTAGTTGTAGGGGAGCAGA
66 CCTACATTAACAACGAAGCAGATCGA--AAACAAGCCTTG-CTCCATTAGTTACAGGGGAGCAGA
* *
54940751 TCAAAGACATCAAATCTTATCTTC
128 TCAAAGA-AGCAAATCTTACCTTC
54940775 AAGTGTAAGG
Statistics
Matches: 125, Mismatches: 24, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
169 72 0.58
170 9 0.07
171 10 0.08
172 22 0.18
173 12 0.10
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (168 bp):
ATCGAAAACAAAGCCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAAAAGCAGATCTTACCTT
CCTACATTAACAACGAAGCAGATCGAAAACAAGCCTTGCTCCATTAGTTACAGGGGAGCAGATCA
AAGAAGCAAATCTTACCTTCCTAAGTTAAACGAAGCAG
Found at i:54940901 original size:43 final size:43
Alignment explanation
Indices: 54940848--54941261 Score: 236
Period size: 44 Copynumber: 9.5 Consensus size: 43
54940838 GAAATTTCAG
*
54940848 ATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATA
1 ATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACATA
* * * * * * *
54940891 ATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAAAATAAA
1 ATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACATA
* ** * * * *
54940933 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-TCA-G
1 --ATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACATA
* * * * *
54940976 GTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAGA-ATTTCA
1 ATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACA--T-A
*
54941021 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATA
1 -ATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACATA
* * * * * *
54941065 ATCCTATCTCCCTGAAGTTACAGTGGAG-AGAAT-TAAAATAAA
1 ATCTTATCTCCCTGAAGTTACAGCGGAGCAG-ATCGAAGACATA
* ** * * * *
54941107 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-TCA-G
1 --ATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACATA
* * * * * * *
54941150 GTCTTATTTCCCTGAGGTTACAGCGGAGTAGATTGAAGTCACA
1 ATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACATA
*
54941193 AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGA-CTGAAGATAGCA-A
1 A-TCTTATCTCCCTGAAGTTACAGCGGAGCAGATC-GAAG--A-CATA
* *
54941239 ATCTTATTTCCCTGAAATTACAG
1 ATCTTATCTCCCTGAAGTTACAG
54941262 TGGAATGGAT
Statistics
Matches: 283, Mismatches: 66, Indels: 42
0.72 0.17 0.11
Matches are distributed among these distances:
41 59 0.21
42 15 0.05
43 56 0.20
44 89 0.31
45 24 0.08
46 37 0.13
47 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACATA
Found at i:54940938 original size:87 final size:87
Alignment explanation
Indices: 54940847--54941265 Score: 320
Period size: 87 Copynumber: 4.8 Consensus size: 87
54940837 GGAAATTTCA
*
54940847 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTAC
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTAC
*
54940912 AGTGGAGCGGATTAAAATAAAG
66 AGTGGAGAGGATTAAAATAAAG
* ** * * * ** * * *
54940934 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-TCA-GGTCTTATTTCCCTGAGGTTAC
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTAC
* ** **
54940997 AGCGGAGTA-GACCGAAGAATTTCA-
66 AGTGGAG-AGGA-TTAA-AA-TAAAG
*
54941021 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTAC
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTAC
*
54941086 AGTGGAGAGAATTAAAATAAAG
66 AGTGGAGAGGATTAAAATAAAG
* ** * * * ** * * *
54941108 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-TCA-GGTCTTATTTCCCTGAGGTTAC
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTAC
* * *
54941171 AGCGGAGTA-GATTGAAGTCACAA-
66 AGTGGAG-AGGATTAAAAT-A-AAG
* * * *
54941194 G-TCTTATCTCCCTGAAGTTGCAGCGGAGCAGA-CTGAAGATAGCA-AATCTTATTTCCCTGAAA
1 GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATC-GAAG--A-CATAATCCTATCTCCCTGAAG
54941256 TTACAGTGGA
62 TTACAGTGGA
54941266 ATGGATTGAA
Statistics
Matches: 252, Mismatches: 64, Indels: 30
0.73 0.18 0.09
Matches are distributed among these distances:
84 1 0.00
85 82 0.33
86 11 0.04
87 102 0.40
88 7 0.03
89 49 0.19
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (87 bp):
GATCTTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTAC
AGTGGAGAGGATTAAAATAAAG
Found at i:54941038 original size:174 final size:174
Alignment explanation
Indices: 54940840--54941265 Score: 673
Period size: 174 Copynumber: 2.4 Consensus size: 174
54940830 ATAGGTTGGA
54940840 AATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTG
1 AATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTG
* *
54940905 AAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
66 AAGTTACAGTGGAGAGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
54940970 CATCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAG
131 CATCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAG
54941014 AATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTG
1 AATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTG
54941079 AAGTTACAGTGGAGAGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
66 AAGTTACAGTGGAGAGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
**
54941144 CATCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGATTGAAG
131 CATCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAG
** * * * *
54941188 --TCACA-AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGA-CTGAAGATAGCA-AATCTTATTT
1 AATTTCAGA-TCTTATCTCCCTGAGGTTACAGCGGAGCAGATC-GAAG--A-CATAATCCTATCT
*
54941248 CCCTGAAATTACAGTGGA
61 CCCTGAAGTTACAGTGGA
54941266 ATGGATTGAA
Statistics
Matches: 236, Mismatches: 11, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
171 2 0.01
172 36 0.15
174 196 0.83
175 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (174 bp):
AATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTG
AAGTTACAGTGGAGAGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
CATCAGGTCTTATTTCCCTGAGGTTACAGCGGAGTAGACCGAAG
Found at i:54941636 original size:19 final size:20
Alignment explanation
Indices: 54941612--54941650 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
54941602 CATGACGGAA
54941612 GCAGC-AACAG-AAGCAAAAC
1 GCAGCAAACAGTAA-CAAAAC
54941631 GCAGCAAACAGTAACAAAAC
1 GCAGCAAACAGTAACAAAAC
54941651 AACAATAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 11 0.61
21 2 0.11
ACGTcount: A:0.54, C:0.26, G:0.18, T:0.03
Consensus pattern (20 bp):
GCAGCAAACAGTAACAAAAC
Found at i:54951166 original size:6 final size:6
Alignment explanation
Indices: 54951157--54951186 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
54951147 GATGCATGAG
54951157 CATGTA CATGTA CATGTA CATGTA CATGTA
1 CATGTA CATGTA CATGTA CATGTA CATGTA
54951187 GTTTGTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (6 bp):
CATGTA
Found at i:54961998 original size:5 final size:5
Alignment explanation
Indices: 54961988--54962013 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
54961978 CAAGGGAATT
54961988 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
54962014 AAAACTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:54965087 original size:42 final size:42
Alignment explanation
Indices: 54964973--54965102 Score: 154
Period size: 42 Copynumber: 3.1 Consensus size: 42
54964963 CTCTAACTCA
* * * * *
54964973 TATGAGTTTCCGTTCAACCCTAATGGGTTTTTGTTTAGCTCT
1 TATGAGCTTCCGTTTAACCCTTATGAGTTTCTGTTTAGCTCT
* * * *
54965015 TTTGAGCTTCTGTTTAACCCTTAT-AGGTTTCCGTTCAGCTCT
1 TATGAGCTTCCGTTTAACCCTTATGA-GTTTCTGTTTAGCTCT
*
54965057 TATGAGCTTCCGTTTAACCCTTATGAGTTTCTGTTTAGCACT
1 TATGAGCTTCCGTTTAACCCTTATGAGTTTCTGTTTAGCTCT
54965099 TATG
1 TATG
54965103 CGTTTCTATT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
42 71 0.99
43 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.45
Consensus pattern (42 bp):
TATGAGCTTCCGTTTAACCCTTATGAGTTTCTGTTTAGCTCT
Found at i:54965107 original size:21 final size:21
Alignment explanation
Indices: 54964973--54965109 Score: 96
Period size: 21 Copynumber: 6.5 Consensus size: 21
54964963 CTCTAACTCA
* * *
54964973 TATGAGTTTCCGTTCAACCCT
1 TATGAGTTTCTGTTTAGCCCT
* * * *
54964994 AATGGGTTTTTGTTTAGCTCT
1 TATGAGTTTCTGTTTAGCCCT
* * *
54965015 TTTGAGCTTCTGTTTAACCCT
1 TATGAGTTTCTGTTTAGCCCT
* * *
54965036 TAT-AGGTTTCCGTTCAGCTCT
1 TATGA-GTTTCTGTTTAGCCCT
* * *
54965057 TATGAGCTTCCGTTTAACCCT
1 TATGAGTTTCTGTTTAGCCCT
*
54965078 TATGAGTTTCTGTTTAGCACT
1 TATGAGTTTCTGTTTAGCCCT
*
54965099 TATGCGTTTCT
1 TATGAGTTTCT
54965110 ATTCAGCCTT
Statistics
Matches: 85, Mismatches: 29, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
20 1 0.01
21 83 0.98
22 1 0.01
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (21 bp):
TATGAGTTTCTGTTTAGCCCT
Found at i:54965626 original size:21 final size:21
Alignment explanation
Indices: 54965600--54965639 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
54965590 TAAAACAGGT
*
54965600 TTTTAGCGGCGTTTTTTAGTC
1 TTTTAGCGGCGCTTTTTAGTC
54965621 TTTTAGCGGCGCTTTTTAG
1 TTTTAGCGGCGCTTTTTAG
54965640 CGCCACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.15, G:0.25, T:0.50
Consensus pattern (21 bp):
TTTTAGCGGCGCTTTTTAGTC
Found at i:54965733 original size:30 final size:30
Alignment explanation
Indices: 54965697--54965767 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
54965687 CGCTATTGAC
*
54965697 AACGTCGCTAAGGTTTGCGGCGTTTCTATA
1 AACGTCGCTAAGGTTTGCGGCATTTCTATA
54965727 AACGTCGCTAAGGTTTGCGGCATTTCTATA
1 AACGTCGCTAAGGTTTGCGGCATTTCTATA
*
54965757 AACGCCGCTAA
1 AACGTCGCTAA
54965768 AGGTCATGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.30
Consensus pattern (30 bp):
AACGTCGCTAAGGTTTGCGGCATTTCTATA
Found at i:54965809 original size:43 final size:43
Alignment explanation
Indices: 54965756--54965847 Score: 132
Period size: 43 Copynumber: 2.1 Consensus size: 43
54965746 GCATTTCTAT
* * *
54965756 AAACGCCGCTAAAGGTCATG-TTCTTTAGCGGCGCTTATCCCAC
1 AAACGTCGCTAAAGGTCATGACT-TTTAGCAGCGCTTATCCCAC
*
54965799 AAACGTCGCTAAAGGTCATGACTTTTAGCAGCGCTTTTCCCAC
1 AAACGTCGCTAAAGGTCATGACTTTTAGCAGCGCTTATCCCAC
54965842 AAACGT
1 AAACGT
54965848 TGCTTTTACA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 43 0.98
44 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (43 bp):
AAACGTCGCTAAAGGTCATGACTTTTAGCAGCGCTTATCCCAC
Found at i:54965909 original size:43 final size:43
Alignment explanation
Indices: 54965849--54965974 Score: 227
Period size: 43 Copynumber: 3.0 Consensus size: 43
54965839 CACAAACGTT
*
54965849 GCTTTTA-CACAAACGCCGCTATAAATCATGACTTTTAGCGGC
1 GCTTTTATCACAAACGCCGCTATAGATCATGACTTTTAGCGGC
*
54965891 GCTTTTATCACAAACGCCGCTATAGATCATGACTTTTAGCAGC
1 GCTTTTATCACAAACGCCGCTATAGATCATGACTTTTAGCGGC
54965934 GCTTTTATCACAAACGCCGCTATAGATCATGACTTTTAGCG
1 GCTTTTATCACAAACGCCGCTATAGATCATGACTTTTAGCG
54965975 ACGTTTTTTC
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
42 7 0.09
43 73 0.91
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (43 bp):
GCTTTTATCACAAACGCCGCTATAGATCATGACTTTTAGCGGC
Found at i:54965992 original size:43 final size:43
Alignment explanation
Indices: 54965849--54965999 Score: 218
Period size: 43 Copynumber: 3.5 Consensus size: 43
54965839 CACAAACGTT
* *
54965849 GCTTTTA-CACAAACGCCGCTATAAATCATGACTTTTAGCGGC
1 GCTTTTATCACAAACGCCGCTATAGATCATGACTTTTAGCGAC
54965891 GCTTTTATCACAAACGCCGCTATAGATCATGACTTTTAGC-AGC
1 GCTTTTATCACAAACGCCGCTATAGATCATGACTTTTAGCGA-C
54965934 GCTTTTATCACAAACGCCGCTATAGATCATGACTTTTAGCGAC
1 GCTTTTATCACAAACGCCGCTATAGATCATGACTTTTAGCGAC
* * *
54965977 G-TTTTTTCTATAAACGCTGCTAT
1 GCTTTTATC-ACAAACGCCGCTAT
54966000 TGTTTGGTGA
Statistics
Matches: 100, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
42 13 0.13
43 86 0.86
44 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (43 bp):
GCTTTTATCACAAACGCCGCTATAGATCATGACTTTTAGCGAC
Found at i:54968392 original size:34 final size:34
Alignment explanation
Indices: 54968354--54968423 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
54968344 ATGTTAGTAA
*
54968354 TGTAAGTTGTGTATTATGTAAGTTATGTAAGTTG
1 TGTAAGTTCTGTATTATGTAAGTTATGTAAGTTG
54968388 TGTAAGTTCTGTATTATGTAAGTTATGTAAGTTG
1 TGTAAGTTCTGTATTATGTAAGTTATGTAAGTTG
54968422 TG
1 TG
54968424 AATTATGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.47
Consensus pattern (34 bp):
TGTAAGTTCTGTATTATGTAAGTTATGTAAGTTG
Found at i:54968479 original size:16 final size:16
Alignment explanation
Indices: 54968460--54968501 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
54968450 ATTATGGAAG
54968460 TTATGTAAGTAATGTA
1 TTATGTAAGTAATGTA
* *
54968476 TTATGTCAGTTATGTA
1 TTATGTAAGTAATGTA
54968492 TTATGTAAGT
1 TTATGTAAGT
54968502 TTATGTAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (16 bp):
TTATGTAAGTAATGTA
Found at i:54968507 original size:10 final size:9
Alignment explanation
Indices: 54968327--54968739 Score: 241
Period size: 9 Copynumber: 46.2 Consensus size: 9
54968317 TATATTTATG
54968327 TATGTAAGT
1 TATGTAAGT
54968336 TATGT-A-T
1 TATGTAAGT
*
54968343 TATGTTAGT
1 TATGTAAGT
*
54968352 AATGTAAGT
1 TATGTAAGT
*
54968361 TGTGT-A-T
1 TATGTAAGT
54968368 TATGTAAGT
1 TATGTAAGT
54968377 TATGTAAGT
1 TATGTAAGT
*
54968386 TGTGTAAGT
1 TATGTAAGT
*
54968395 TCTGT-A-T
1 TATGTAAGT
54968402 TATGTAAGT
1 TATGTAAGT
54968411 TATGTAAGT
1 TATGTAAGT
*
54968420 TGTG-AA-T
1 TATGTAAGT
*
54968427 TATGTAATT
1 TATGTAAGT
54968436 TATGTAA-T
1 TATGTAAGT
*
54968444 TCGTGT-A-T
1 T-ATGTAAGT
*
54968452 TATGGAAGT
1 TATGTAAGT
54968461 TATGTAAGT
1 TATGTAAGT
*
54968470 AATGT-A-T
1 TATGTAAGT
*
54968477 TATGTCAGT
1 TATGTAAGT
54968486 TATGT-A-T
1 TATGTAAGT
54968493 TATGTAAGTT
1 TATGTAAG-T
54968503 TATGTAAGT
1 TATGTAAGT
*
54968512 TATGTAAAT
1 TATGTAAGT
* *
54968521 TATATAATT
1 TATGTAAGT
* *
54968530 TATGAAATT
1 TATGTAAGT
* *
54968539 TGACCTTTAAAT
1 T-A--TGTAAGT
54968551 TATGTAAGT
1 TATGTAAGT
*
54968560 TATGTAAAT
1 TATGTAAGT
54968569 TATGTAAGT
1 TATGTAAGT
* * *
54968578 TAAGAAATT
1 TATGTAAGT
* *
54968587 TGATCTTTAAAT
1 T-A--TGTAAGT
54968599 TATGTAAGT
1 TATGTAAGT
*
54968608 CT-TGTAACT
1 -TATGTAAGT
54968617 TATGTAAGT
1 TATGTAAGT
* *
54968626 TATGAAATT
1 TATGTAAGT
* *
54968635 TGATTTTTAAAT
1 T-A--TGTAAGT
54968647 TATGTAAGT
1 TATGTAAGT
*
54968656 TATGTAAAT
1 TATGTAAGT
54968665 TATGTAAGT
1 TATGTAAGT
* *
54968674 TATGAAATT
1 TATGTAAGT
* *
54968683 TGATCTTTAAAT
1 T-A--TGTAAGT
54968695 TATGTAAGT
1 TATGTAAGT
54968704 TATGT-A-T
1 TATGTAAGT
*
54968711 TATGTAATT
1 TATGTAAGT
*
54968720 TATGTAAAT
1 TATGTAAGT
54968729 TATGTAAGT
1 TATGTAAGT
54968738 TA
1 TA
54968740 AAATATTTGA
Statistics
Matches: 315, Mismatches: 57, Indels: 64
0.72 0.13 0.15
Matches are distributed among these distances:
7 39 0.12
8 23 0.07
9 216 0.69
10 14 0.04
11 4 0.01
12 19 0.06
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (9 bp):
TATGTAAGT
Found at i:54968560 original size:48 final size:48
Alignment explanation
Indices: 54968502--54968729 Score: 354
Period size: 48 Copynumber: 4.8 Consensus size: 48
54968492 TTATGTAAGT
* * *
54968502 TTATGTAAGTTATGTAAATTATATAATTTATGAAATTTGACCTTTAAA
1 TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
*
54968550 TTATGTAAGTTATGTAAATTATGTAAGTTAAGAAATTTGATCTTTAAA
1 TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
* *
54968598 TTATGTAAGTCT-TGTAACTTATGTAAGTTATGAAATTTGATTTTTAAA
1 TTATGTAAGT-TATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
54968646 TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
1 TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
*
54968694 TTATGTAAGTTATGT--ATTATGTAATTTATGTAAATT
1 TTATGTAAGTTATGTAAATTATGTAAGTTATG-AAATT
54968730 ATGTAAGTTA
Statistics
Matches: 167, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
46 14 0.08
47 6 0.04
48 146 0.87
49 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.47
Consensus pattern (48 bp):
TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
Found at i:54968694 original size:30 final size:30
Alignment explanation
Indices: 54968660--54968770 Score: 109
Period size: 30 Copynumber: 3.6 Consensus size: 30
54968650 GTAAGTTATG
54968660 TAAATTATGTAAGTTATGAAATTTGATCTT
1 TAAATTATGTAAGTTATGAAATTTGATCTT
* *
54968690 TAAATTATGTAAGTTATG-TATTATGTAATTTAT
1 TAAATTATGTAAGTTATGAAATT-TG--ATCT-T
* *
54968723 GTAAATTATGTAAGTTA-AAATATTTGATGTT
1 -TAAATTATGTAAGTTATGAA-ATTTGATCTT
*
54968754 TGAATTATGTAAGTTAT
1 TAAATTATGTAAGTTAT
54968771 ATAAATTATG
Statistics
Matches: 67, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
29 3 0.04
30 35 0.52
31 1 0.01
32 6 0.09
33 1 0.01
34 18 0.27
35 3 0.04
ACGTcount: A:0.37, C:0.01, G:0.14, T:0.48
Consensus pattern (30 bp):
TAAATTATGTAAGTTATGAAATTTGATCTT
Found at i:54968723 original size:64 final size:65
Alignment explanation
Indices: 54968644--54968794 Score: 218
Period size: 64 Copynumber: 2.3 Consensus size: 65
54968634 TTGATTTTTA
* *
54968644 AATTATGTAAGTTATGTAAATTATGTAAGTTATGAA-ATTTGATCTTTAAATTATGTAAGTTATG
1 AATTATGTAAGTTATGTAAATTATGTAAGTTA-AAATATTTGATCTTTAAATTATGTAAGTTATA
54968708 T
65 T
* * *
54968709 -ATTATGTAATTTATGTAAATTATGTAAGTTAAAATATTTGATGTTTGAATTATGTAAGTTATAT
1 AATTATGTAAGTTATGTAAATTATGTAAGTTAAAATATTTGATCTTTAAATTATGTAAGTTATAT
54968773 AAATTATGTAAGTTATG-AAATT
1 -AATTATGTAAGTTATGTAAATT
54968795 TTATCTTTAA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
63 2 0.03
64 56 0.73
65 5 0.06
66 14 0.18
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.46
Consensus pattern (65 bp):
AATTATGTAAGTTATGTAAATTATGTAAGTTAAAATATTTGATCTTTAAATTATGTAAGTTATAT
Found at i:54968725 original size:25 final size:25
Alignment explanation
Indices: 54968327--54968734 Score: 197
Period size: 25 Copynumber: 16.6 Consensus size: 25
54968317 TATATTTATG
*
54968327 TATGTAAGTTATGTATTATGTTAGT
1 TATGTAAGTTATGTATTATGTAAGT
* *
54968352 AATGTAAGTTGTGTATTATGTAAGT
1 TATGTAAGTTATGTATTATGTAAGT
* *
54968377 TATGTAAGTTGTGTAAGTTCTGT-A-T
1 TATGTAAGTTATGT-A-TTATGTAAGT
*
54968402 TATGTAAGTTATGTAAGT-TGTGAA-T
1 TATGTAAGTTATGT-ATTATGT-AAGT
* *
54968427 TATGTAATTTATGTAATTCGTGT-A-T
1 TATGTAAGTTATGT-ATT-ATGTAAGT
* *
54968452 TATGGAAGTTATGTAAGTAATGT-A-T
1 TATGTAAGTTATGT-A-TTATGTAAGT
*
54968477 TATGTCAGTTATGTATTATGTAAGTT
1 TATGTAAGTTATGTATTATGTAAG-T
* *
54968503 TATGTAAGTTATGTAAATTATATAATT
1 TATGTAAGTTATGT--ATTATGTAAGT
* * *
54968530 TATG-AAATT-TG-ACCT-T-TAAAT
1 TATGTAAGTTATGTA-TTATGTAAGT
54968551 TATGTAAGTTATGTAAATTATGTAAGT
1 TATGTAAGTTATGT--ATTATGTAAGT
* * *
54968578 TAAG-AAATT-TG-ATCT-T-TAAAT
1 TATGTAAGTTATGTAT-TATGTAAGT
54968599 TATGTAAGTCT-TGTAACTTATGTAAGT
1 TATGTAAGT-TATGT-A-TTATGTAAGT
* * *
54968626 TATG-AAATT-TG-ATT-TTTAAAT
1 TATGTAAGTTATGTATTATGTAAGT
54968647 TATGTAAGTTATGTAAATTATGTAAGT
1 TATGTAAGTTATGT--ATTATGTAAGT
* *
54968674 TATG-AAATT-TG-ATCT-T-TAAAT
1 TATGTAAGTTATGTAT-TATGTAAGT
*
54968695 TATGTAAGTTATGTATTATGTAATT
1 TATGTAAGTTATGTATTATGTAAGT
*
54968720 TATGTAAATTATGTA
1 TATGTAAGTTATGTA
54968735 AGTTAAAATA
Statistics
Matches: 301, Mismatches: 42, Indels: 80
0.71 0.10 0.19
Matches are distributed among these distances:
21 32 0.11
22 25 0.08
23 22 0.07
24 6 0.02
25 132 0.44
26 39 0.13
27 37 0.12
28 8 0.03
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (25 bp):
TATGTAAGTTATGTATTATGTAAGT
Found at i:54968748 original size:112 final size:112
Alignment explanation
Indices: 54968597--54968816 Score: 345
Period size: 112 Copynumber: 2.0 Consensus size: 112
54968587 TGATCTTTAA
* * * *
54968597 ATTATGTAAGTCTTGTAACTTATGTAAGTTATGAAATTTGATTTTTAAATTATGTAAGTTATGTA
1 ATTATGTAAGTCTTGTAAATTATGTAAGTTATAAAATTTGATGTTTAAATTATGTAAGTTATATA
54968662 AATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
66 AATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
* *
54968709 ATTATGTAA-TTTATGTAAATTATGTAAGTTA-AAATATTTGATGTTTGAATTATGTAAGTTATA
1 ATTATGTAAGTCT-TGTAAATTATGTAAGTTATAAA-ATTTGATGTTTAAATTATGTAAGTTATA
*
54968772 TAAATTATGTAAGTTATGAAATTTTATCTTTAAATTATGTAAGTT
64 TAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTT
54968817 TATTAAGCGA
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
111 4 0.04
112 95 0.96
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (112 bp):
ATTATGTAAGTCTTGTAAATTATGTAAGTTATAAAATTTGATGTTTAAATTATGTAAGTTATATA
AATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
Found at i:54968763 original size:48 final size:47
Alignment explanation
Indices: 54968709--54968819 Score: 143
Period size: 48 Copynumber: 2.3 Consensus size: 47
54968699 TAAGTTATGT
* * *
54968709 ATTATGTAATTTATGTAAATTATGTAAGTTA-AAATATTTGATGTTTGA
1 ATTATGTAATTTATATAAATTATGTAAGTTAGAAAT-TTT-ATCTTTAA
*
54968757 ATTATGTAAGTTATATAAATTATGTAAGTTATGAAATTTTATCTTTAA
1 ATTATGTAATTTATATAAATTATGTAAGTTA-GAAATTTTATCTTTAA
54968805 ATTATGTAAGTTTAT
1 ATTATGTAA-TTTAT
54968820 TAAGCGAAGT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
48 44 0.80
49 7 0.13
50 4 0.07
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.49
Consensus pattern (47 bp):
ATTATGTAATTTATATAAATTATGTAAGTTAGAAATTTTATCTTTAA
Found at i:54970940 original size:27 final size:27
Alignment explanation
Indices: 54970899--54970965 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
54970889 CAAGAGACTA
*
54970899 ATAGGTGGCATCAAAGGTGCCATTCCC
1 ATAGGTGGCACCAAAGGTGCCATTCCC
*
54970926 ATAGGTGGCACCAAAGGTGCCATTCCT
1 ATAGGTGGCACCAAAGGTGCCATTCCC
* *
54970953 ATGGGCGGCACCA
1 ATAGGTGGCACCA
54970966 TTCGTGTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.25, C:0.27, G:0.28, T:0.19
Consensus pattern (27 bp):
ATAGGTGGCACCAAAGGTGCCATTCCC
Found at i:54971315 original size:40 final size:36
Alignment explanation
Indices: 54971255--54971340 Score: 93
Period size: 40 Copynumber: 2.3 Consensus size: 36
54971245 AAACTAGTAT
* * *
54971255 TATTATTATGGTTAGTTATTATTTTTAGTA-AAACCC
1 TATTATTATTGTTAGTTATTATTTTGAGTATAAA-AC
54971291 TAATTATTATTGTTAGTTACTATTATTTTGAGTATAAAAC
1 T-ATTATTATTGTTAG-T--TATTATTTTGAGTATAAAAC
54971331 TATTATTATT
1 TATTATTATT
54971341 TTTATTGTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 1 0.02
37 13 0.31
38 1 0.02
39 9 0.21
40 15 0.36
41 3 0.07
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (36 bp):
TATTATTATTGTTAGTTATTATTTTGAGTATAAAAC
Found at i:54976623 original size:160 final size:157
Alignment explanation
Indices: 54976064--54976803 Score: 529
Period size: 160 Copynumber: 4.7 Consensus size: 157
54976054 ACTTCGGCCA
* * * *
54976064 TTTGTTCGTATT-TTTTCTCGGCATTTTATTACTTTAAAAAAATATCATAATTTCTAATTTTAAA
1 TTTGCTCGTATTATTTTCTC-GAATTTTATTACTTCAAAAAAATATCATAATTTCTAATTTTATA
* * ***
54976128 ATTTTACATTATTTCAGTGCATTATGTTAT-TTCTTTATTAATTTAGT-GTTTTTTAAATTAATT
65 ATTTTATATTATTTCAGTACATTATGTT-TGAAATTTATTAATTTAGTGGTTTTTTAAATTAATT
*
54976191 TAGTGTAAAAAAGAACCCAACCCTTATTCTTGCCC
129 TAGTGT---AAAGAA---AACCCTTATTCCTGCCC
* * * * * *
54976226 TTTGCTCGTATTATTTTTTCGAATTTTATTACTTCCAAAAATATAT-ATTATTTTTTTATTTTTT
1 TTTGCTCGTATTATTTTCTCGAATTTTATTACTT-CAAAAAAATATCA-TAATTTCTAATTTTAT
* * * ** **
54976290 TATTTTATATTATTTCAGTACATTTTGTTTGAAATTTTTCTATTATTTTTTTCCGAATTTTTAAA
64 AATTTTATATTATTTCAGTACATTATGTTTGAAA---TT-TATTAATTTAGT--GGTTTTTTAAA
* * * * * *
54976355 -AAAGTTA--GT-AA-AACACTCTTTACTT-CGGCCA
123 TTAATTTAGTGTAAAGAAAAC-CCTTA-TTCCTGCCC
* * * *
54976386 TTTGTTCGTATTTTTTTCTCCGCATTTTATTACTT-TAAAAAATATCATAATTTCTAATTTTATA
1 TTTGCTCGTATTATTTTCT-CGAATTTTATTACTTCAAAAAAATATCATAATTTCTAATTTTATA
*
54976450 ATTTTATATTATTTCAGTGCATTATGTTTGAAATTTATTAATTTAGTGGGTTTTTTAAATTAATT
65 ATTTTATATTATTTCAGTACATTATGTTTGAAATTTATTAATTTAGT-GGTTTTTTAAATTAATT
54976515 TAGTGTAAAGAAAACCCTTATTCCTGCCC
129 TAGTGTAAAGAAAACCCTTATTCCTGCCC
* *
54976544 TTTGCTCGTATTATTTTCTCGAATTTTATTACTTCCAATAAAAATAT-ATTATTTTCAAATTTTA
1 TTTGCTCGTATTATTTTCTCGAATTTTATTACTT-CAA-AAAAATATCA-TAATTTCTAATTTTA
* * * * ** **
54976608 TTATTTTATATTATTTTAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAATTTTTAA
63 TAATTTTATATTATTTCAGTACATTATGTTTG-AA-A-TT-TATTAA-T-TTAGTGGTTTTTTAA
* * *
54976673 A--AATGTTA--GT-AA-AACACTCTTACTT-C-GACCA
122 ATTAAT-TTAGTGTAAAGAAAACCCTTA-TTCCTG-CCC
* * * *
54976704 TTTGTTCG--TT-TTTTCTCTACATTTTATTACTT-TAAAAGATATCATAATTTCTAATTTTATA
1 TTTGCTCGTATTATTTTCTCGA-ATTTTATTACTTCAAAAAAATATCATAATTTCTAATTTTATA
* * *
54976765 ATTTTACATTATTTCAGTGCATTATATTTGAAATTTATT
65 ATTTTATATTATTTCAGTACATTATGTTTGAAATTTATT
54976804 GAATATACCA
Statistics
Matches: 457, Mismatches: 85, Indels: 83
0.73 0.14 0.13
Matches are distributed among these distances:
151 4 0.01
152 2 0.00
153 1 0.00
154 11 0.02
155 59 0.13
156 4 0.01
157 26 0.06
158 41 0.09
159 60 0.13
160 90 0.20
161 22 0.05
162 31 0.07
163 58 0.13
164 9 0.02
165 10 0.02
166 5 0.01
167 11 0.02
169 5 0.01
170 8 0.02
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (157 bp):
TTTGCTCGTATTATTTTCTCGAATTTTATTACTTCAAAAAAATATCATAATTTCTAATTTTATAA
TTTTATATTATTTCAGTACATTATGTTTGAAATTTATTAATTTAGTGGTTTTTTAAATTAATTTA
GTGTAAAGAAAACCCTTATTCCTGCCC
Found at i:54976788 original size:315 final size:316
Alignment explanation
Indices: 54976030--54976803 Score: 1171
Period size: 322 Copynumber: 2.4 Consensus size: 316
54976020 CAAGTTGAAA
*
54976030 AAAAAAGTTAGTAAAACACTCTTTACTTCGGCCATTTGTTCGTATTTTTTCTCGGCATTTTATTA
1 AAAAAAGTTAGTAAAACACTCTTTACTTCGGCCATTTGTTCGT-TTTTTTCTCCGCATTTTATTA
* *
54976095 CTTTAAAAAAATATCATAATTTCTAATTTTAAAATTTTACATTATTTCAGTGCATTATGTTAT-T
65 CTTT-AAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTT-TGA
** *
54976159 TCTTTATTAATTTAGTGTTTTTTAAATTAATTTAGTGTAAAAAAGAACCCAACCCTTATTCTTGC
128 AATTTATTAATTTAGTGTTTTTTAAATTAATTTAGTGT--AAAAGAA--CAACCCTTATTCCTGC
* * *** *
54976224 CCTTTGCTCGTATTATTTTTTCGAATTTTATTACTTCCAAAAATATATATTATTTTTTTATTTTT
189 CCTTTGCTCGTATTATTTTCTCGAATTTTATTACTTCCAAAAAAATATATTATTTTCAAATTTTA
* * * *
54976289 TTATTTTATATTATTTCAGTACATTTTGTTTGAAATTTTTCTATTATTTTTTTCCGAATTTTT
254 TTATTTTATATTATTTCAGTACATTTTGTTAGAAATATTTCTATTAATTATTTCCGAATTTTT
54976352 AAAAAAGTTAGTAAAACACTCTTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATT
1 AAAAAAGTTAGTAAAACACTCTTTACTTCGGCCATTTGTTCG--TTTTTTTCTCCGCATTTTATT
*
54976417 ACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTATATTATTTCAGTGCATTATGTTTGAA
64 ACTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAA
54976482 ATTTATTAATTTAGTGGGTTTTTTAAATTAATTTAGTGT-AAAGAA-AACCCTTATTCCTGCCCT
129 ATTTATTAATTTAGT--GTTTTTTAAATTAATTTAGTGTAAAAGAACAACCCTTATTCCTGCCCT
54976545 TTGCTCGTATTATTTTCTCGAATTTTATTACTTCCAATAAAAATATATTATTTTCAAATTTTATT
192 TTGCTCGTATTATTTTCTCGAATTTTATTACTTCCAA-AAAAATATATTATTTTCAAATTTTATT
* * *
54976610 ATTTTATATTATTTTAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAATTTTT
256 ATTTTATATTATTTCAGTACATTTTGTTAGAAATATTTCTATTAATTATTTCCGAATTTTT
* * **
54976671 AAAAATGTTAGTAAAACACTC-TTACTTCGACCATTTGTTCG-TTTTTTCTCTACATTTTATTAC
1 AAAAAAGTTAGTAAAACACTCTTTACTTCGGCCATTTGTTCGTTTTTTTCTCCGCATTTTATTAC
* *
54976734 TTTAAAAGATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATATTTGAAAT
66 TTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAAT
54976799 TTATT
131 TTATT
54976804 GAATATACCA
Statistics
Matches: 419, Mismatches: 27, Indels: 19
0.90 0.06 0.04
Matches are distributed among these distances:
315 87 0.21
318 72 0.17
319 96 0.23
321 7 0.02
322 110 0.26
323 24 0.06
324 23 0.05
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (316 bp):
AAAAAAGTTAGTAAAACACTCTTTACTTCGGCCATTTGTTCGTTTTTTTCTCCGCATTTTATTAC
TTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAAT
TTATTAATTTAGTGTTTTTTAAATTAATTTAGTGTAAAAGAACAACCCTTATTCCTGCCCTTTGC
TCGTATTATTTTCTCGAATTTTATTACTTCCAAAAAAATATATTATTTTCAAATTTTATTATTTT
ATATTATTTCAGTACATTTTGTTAGAAATATTTCTATTAATTATTTCCGAATTTTT
Found at i:54977195 original size:49 final size:45
Alignment explanation
Indices: 54977140--54977307 Score: 158
Period size: 44 Copynumber: 3.8 Consensus size: 45
54977130 AATTACCTTT
* *
54977140 TTTTCTTTCCCTCTTCTCCTTCTTTCTTTTTTTTTCTCTTCTCC-TTTCC
1 TTTTCTTTCCTTCTT-T--TTCTTTCTTTTTTTCT-TCTTC-CCTTTTCC
*
54977189 TTTTCTTTCCTTATTTTTCTTTC-TTTTTTCTTCTTCCCTTTTCC
1 TTTTCTTTCCTTCTTTTTCTTTCTTTTTTTCTTCTTCCCTTTTCC
*
54977233 TTTTCTTTCCTTCTTTTTCTTTC----TTTCCTC-T-CC-TTTCC
1 TTTTCTTTCCTTCTTTTTCTTTCTTTTTTTCTTCTTCCCTTTTCC
* *
54977271 TTTTCTTT-CTTTTTCTTTCTTTCTTTCTTTCTTCTTC
1 TTTTCTTTCCTTCTT-TTTCTTTCTTTTTTTCTTCTTC
54977308 TTTCCCTCTC
Statistics
Matches: 104, Mismatches: 7, Indels: 21
0.79 0.05 0.16
Matches are distributed among these distances:
37 5 0.05
38 21 0.20
39 2 0.02
40 1 0.01
41 6 0.06
42 6 0.06
43 3 0.03
44 32 0.31
45 7 0.07
46 7 0.07
48 1 0.01
49 13 0.12
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (45 bp):
TTTTCTTTCCTTCTTTTTCTTTCTTTTTTTCTTCTTCCCTTTTCC
Found at i:54977208 original size:14 final size:14
Alignment explanation
Indices: 54977168--54977312 Score: 84
Period size: 14 Copynumber: 10.0 Consensus size: 14
54977158 CTTCTTTCTT
54977168 TTTTTTTCTCTTCTCC
1 TTTTTTT-TCTT-TCC
*
54977184 TTTCCTTTTCTTTCC
1 TTT-TTTTTCTTTCC
*
54977199 TTATTTTTCTTT-C
1 TTTTTTTTCTTTCC
*
54977212 TTTTTTCTTCTTCCC
1 TTTTTT-TTCTTTCC
54977227 TTTTCCTTTTCTTTCC
1 TTTT--TTTTCTTTCC
*
54977243 TTCTTTTTCTTT-C
1 TTTTTTTTCTTTCC
* * *
54977256 TTTCCTCTCCTTTCC
1 TTT-TTTTTCTTTCC
*
54977271 TTTTCTTTCTTT--
1 TTTTTTTTCTTTCC
54977283 TTCTTTCTTTCTTT-C
1 TT-TTT-TTTCTTTCC
*
54977298 TTTCTTCTTCTTTCC
1 TTT-TTTTTCTTTCC
54977313 CTCTCCTTCT
Statistics
Matches: 100, Mismatches: 17, Indels: 25
0.70 0.12 0.18
Matches are distributed among these distances:
12 2 0.02
13 11 0.11
14 46 0.46
15 19 0.19
16 17 0.17
17 5 0.05
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTTTTCTTTCC
Found at i:54977232 original size:34 final size:33
Alignment explanation
Indices: 54977193--54977291 Score: 105
Period size: 34 Copynumber: 2.9 Consensus size: 33
54977183 CTTTCCTTTT
54977193 CTTTCCTTATTTTTCTTTCTTTTTTC-TTCTTCC
1 CTTTCCTT-TTTTTCTTTCTTTTTTCTTTCTTCC
* *
54977226 CTTTTCCTTTTCTTTCCTTC-TTTTTCTTTCTTTC
1 C-TTTCCTTTT-TTTCTTTCTTTTTTCTTTCTTCC
*
54977260 CTCTCCTTTCCTTTTCTTTC-TTTTTCTTTCTT
1 CTTTCCTTT--TTTTCTTTCTTTTTTCTTTCTT
54977292 TCTTTCTTTC
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
33 16 0.28
34 40 0.70
35 1 0.02
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (33 bp):
CTTTCCTTTTTTTCTTTCTTTTTTCTTTCTTCC
Found at i:54977232 original size:44 final size:43
Alignment explanation
Indices: 54977162--54977307 Score: 173
Period size: 44 Copynumber: 3.5 Consensus size: 43
54977152 CTTCTCCTTC
54977162 TTTCTTT-TTTTTTC-TCTTCTCCTTTCCTTTTCTTTCCTTATT
1 TTTCTTTCTTTTTTCTTCTTC-CCTTTCCTTTTCTTTCCTTATT
*
54977204 TTTCTTTCTTTTTTCTTCTTCCCTTTTCCTTTTCTTTCCTTCTT
1 TTTCTTTCTTTTTTCTTCTTCCC-TTTCCTTTTCTTTCCTTATT
* *
54977248 TTTCTTTC---TTTCCTC-T-CCTTTCCTTTTCTTT-CTTTTT
1 TTTCTTTCTTTTTTCTTCTTCCCTTTCCTTTTCTTTCCTTATT
54977285 CTTTCTTTCTTTCTTTCTTCTTC
1 -TTTCTTTCTTT-TTTCTTCTTC
54977308 TTTCCCTCTC
Statistics
Matches: 90, Mismatches: 4, Indels: 18
0.80 0.04 0.16
Matches are distributed among these distances:
37 5 0.06
38 21 0.23
39 2 0.02
40 1 0.01
41 6 0.07
42 13 0.14
43 10 0.11
44 32 0.36
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.71
Consensus pattern (43 bp):
TTTCTTTCTTTTTTCTTCTTCCCTTTCCTTTTCTTTCCTTATT
Found at i:54977292 original size:34 final size:35
Alignment explanation
Indices: 54977203--54977298 Score: 117
Period size: 34 Copynumber: 2.8 Consensus size: 35
54977193 CTTTCCTTAT
* * *
54977203 TTTTCTTTCTTTTT-TCTTCTTCCCTTTTCCTTTTC
1 TTTTCTTTCTTTTTCT-TTCTTTCCTTCTCCTTTCC
*
54977238 -TTTCCTTCTTTTTCTTTCTTTCC-TCTCCTTTCC
1 TTTTCTTTCTTTTTCTTTCTTTCCTTCTCCTTTCC
*
54977271 TTTTCTTTCTTTTTCTTTCTTTCTTTCT
1 TTTTCTTTCTTTTTCTTTCTTTCCTTCT
54977299 TTCTTCTTCT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
33 8 0.15
34 40 0.77
35 4 0.08
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (35 bp):
TTTTCTTTCTTTTTCTTTCTTTCCTTCTCCTTTCC
Found at i:54977296 original size:38 final size:38
Alignment explanation
Indices: 54977151--54977297 Score: 147
Period size: 38 Copynumber: 3.6 Consensus size: 38
54977141 TTTCTTTCCC
54977151 TCTTCTCCTTCTTTCTTT-TTTTTTCTCTTCTCCTTTCCTTT
1 TCTT-TCCTT-TTTCTTTCTTTTTTC-C-TCTCCTTTCCTTT
*
54977192 TCTTTCCTTATTTTTCTTTCTTTTTTCTTCTTCCCTTTTCCTTT
1 TCTTTCC---TTTTTCTTTCTTTTTTCCTC-T-CC-TTTCCTTT
*
54977236 TCTTTCCTTCTT-TTTCTTTCTTTCCTCTCCTTTCCTTT
1 TCTTTCCTTTTTCTTTCTTT-TTTCCTCTCCTTTCCTTT
54977274 TCTTT-CTTTTTCTTTCTTTCTTTC
1 TCTTTCCTTTTTCTTTCTTT-TTTC
54977298 TTTCTTCTTC
Statistics
Matches: 93, Mismatches: 4, Indels: 21
0.79 0.03 0.18
Matches are distributed among these distances:
37 5 0.05
38 25 0.27
39 2 0.02
40 11 0.12
41 16 0.17
42 8 0.09
43 11 0.12
44 15 0.16
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (38 bp):
TCTTTCCTTTTTCTTTCTTTTTTCCTCTCCTTTCCTTT
Found at i:54977311 original size:10 final size:10
Alignment explanation
Indices: 54977153--54977311 Score: 71
Period size: 10 Copynumber: 15.3 Consensus size: 10
54977143 TCTTTCCCTC
*
54977153 TTCTCCTTCT
1 TTCTTCTTCT
* *
54977163 TTCTTTTTTTT
1 TTC-TTCTTCT
*
54977174 TCTCTTCTCCT
1 T-TCTTCTTCT
54977185 TTCCTT-TTCT
1 TT-CTTCTTCT
*
54977195 TTCCTTATT-T
1 TT-CTTCTTCT
*
54977205 TTCTTTCTTTT
1 TTC-TTCTTCT
54977216 TTCTTCTTCCCTT
1 TTCTTCTT--C-T
54977229 TTCCTT-TTCT
1 TT-CTTCTTCT
54977239 TTC--CTTCT
1 TTCTTCTTCT
54977247 TT-TTCTTTCT
1 TTCTTC-TTCT
* *
54977257 TTCCTCTCCT
1 TTCTTCTTCT
54977267 TTCCTT-TTCT
1 TT-CTTCTTCT
*
54977277 TTCTTTTTCT
1 TTCTTCTTCT
54977287 TTCTTTCTTTCT
1 TTC-TTC-TTCT
54977299 TTCTTCTTCT
1 TTCTTCTTCT
54977309 TTC
1 TTC
54977312 CCTCTCCTTC
Statistics
Matches: 116, Mismatches: 14, Indels: 38
0.69 0.08 0.23
Matches are distributed among these distances:
8 6 0.05
9 6 0.05
10 58 0.50
11 29 0.25
12 9 0.08
13 5 0.04
14 3 0.03
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTCTTCTTCT
Found at i:54978077 original size:13 final size:14
Alignment explanation
Indices: 54978042--54978094 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
54978032 TCCTAATCCC
54978042 TAAACCATAAA-CA
1 TAAACCATAAATCA
*
54978055 CTTAACCATAAAT-A
1 -TAAACCATAAATCA
* *
54978069 TATACCATAAATCG
1 TAAACCATAAATCA
54978083 TAAACCATAAAT
1 TAAACCATAAAT
54978095 TCTTAAAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 10 0.31
14 22 0.69
ACGTcount: A:0.53, C:0.21, G:0.02, T:0.25
Consensus pattern (14 bp):
TAAACCATAAATCA
Found at i:54978238 original size:7 final size:7
Alignment explanation
Indices: 54978228--54978324 Score: 52
Period size: 7 Copynumber: 13.4 Consensus size: 7
54978218 CCTATACTTT
54978228 AACCCTA
1 AACCCTA
54978235 AACCCTA
1 AACCCTA
54978242 AACCCTTA
1 AACCC-TA
*
54978250 AGCCC-A
1 AACCCTA
*
54978256 TAACCTTA
1 -AACCCTA
*
54978264 AGCCACTA
1 AACC-CTA
*
54978272 ACCCCTA
1 AACCCTA
*
54978279 ACCCCTA
1 AACCCTA
* *
54978286 AGCCTGTA
1 AACC-CTA
*
54978294 ACCCCTA
1 AACCCTA
54978301 AACCCTA
1 AACCCTA
* *
54978308 AGCCCTC
1 AACCCTA
*
54978315 ACCCCTA
1 AACCCTA
54978322 AAC
1 AAC
54978325 ACTTAACATG
Statistics
Matches: 69, Mismatches: 16, Indels: 10
0.73 0.17 0.11
Matches are distributed among these distances:
6 1 0.01
7 51 0.74
8 17 0.25
ACGTcount: A:0.34, C:0.44, G:0.05, T:0.16
Consensus pattern (7 bp):
AACCCTA
Found at i:54978245 original size:14 final size:14
Alignment explanation
Indices: 54978228--54978313 Score: 66
Period size: 15 Copynumber: 5.9 Consensus size: 14
54978218 CCTATACTTT
*
54978228 AACCCTAAACCCTA
1 AACCCTAAGCCCTA
54978242 AACCCTTAAGCCC-A
1 AACCC-TAAGCCCTA
*
54978256 TAACCTTAAGCCACTA
1 -AACCCTAAGCC-CTA
* *
54978272 ACCCCTAACCCCTA
1 AACCCTAAGCCCTA
* * *
54978286 AGCCTGTAACCCCTA
1 AACC-CTAAGCCCTA
54978301 AACCCTAAGCCCT
1 AACCCTAAGCCCT
54978314 CACCCCTAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
14 25 0.44
15 31 0.54
16 1 0.02
ACGTcount: A:0.34, C:0.43, G:0.06, T:0.17
Consensus pattern (14 bp):
AACCCTAAGCCCTA
Found at i:54978288 original size:22 final size:21
Alignment explanation
Indices: 54978230--54978324 Score: 93
Period size: 22 Copynumber: 4.4 Consensus size: 21
54978220 TATACTTTAA
* *
54978230 CCCTAAACCCTAAACCCTTAAG
1 CCCTAAACCCTAAGCCC-TAAC
*
54978252 CCC-ATAACCTTAAGCCACTAAC
1 CCCTA-AACCCTAAGCC-CTAAC
* *
54978274 CCCTAACCCCTAAGCCTGTAAC
1 CCCTAAACCCTAAGCC-CTAAC
*
54978296 CCCTAAACCCTAAGCCCTCAC
1 CCCTAAACCCTAAGCCCTAAC
54978317 CCCTAAAC
1 CCCTAAAC
54978325 ACTTAACATG
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
21 12 0.20
22 46 0.77
23 2 0.03
ACGTcount: A:0.33, C:0.45, G:0.05, T:0.17
Consensus pattern (21 bp):
CCCTAAACCCTAAGCCCTAAC
Found at i:54978296 original size:36 final size:36
Alignment explanation
Indices: 54978228--54978322 Score: 93
Period size: 36 Copynumber: 2.6 Consensus size: 36
54978218 CCTATACTTT
* *
54978228 AACCCTAAACCCTAAACCCTTAAGCCCATAA-CCTTA
1 AACCCTAAACCCT-AACCCCTAAGCCCATAACCCCTA
* * **
54978264 AGCCACTAACCCCTAACCCCTAAGCCTGTAACCCCTA
1 AACC-CTAAACCCTAACCCCTAAGCCCATAACCCCTA
* *
54978301 AACCCTAAGCCCTCACCCCTAA
1 AACCCTAAACCCTAACCCCTAA
54978323 ACACTTAACA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
36 33 0.69
37 15 0.31
ACGTcount: A:0.34, C:0.44, G:0.05, T:0.17
Consensus pattern (36 bp):
AACCCTAAACCCTAACCCCTAAGCCCATAACCCCTA
Found at i:54978383 original size:13 final size:13
Alignment explanation
Indices: 54978343--54978387 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
54978333 TGTAAATTGA
*
54978343 AAACGTACACCAT
1 AAACCTACACCAT
*
54978356 AAACACTAAACCAT
1 AAAC-CTACACCAT
*
54978370 AAACTTACACCAT
1 AAACCTACACCAT
54978383 AAACC
1 AAACC
54978388 GTAAACACTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.51, C:0.31, G:0.02, T:0.16
Consensus pattern (13 bp):
AAACCTACACCAT
Found at i:54978499 original size:22 final size:24
Alignment explanation
Indices: 54978474--54978519 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
54978464 TATCAATAAC
54978474 CCTAACC-CTTAAACCAT-AATAG
1 CCTAACCTCTTAAACCATGAATAG
*
54978496 CCTAACCTGTTAAACCATGAATAG
1 CCTAACCTCTTAAACCATGAATAG
54978520 TAACTAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 9 0.43
24 5 0.24
ACGTcount: A:0.39, C:0.28, G:0.09, T:0.24
Consensus pattern (24 bp):
CCTAACCTCTTAAACCATGAATAG
Found at i:54978927 original size:125 final size:125
Alignment explanation
Indices: 54978757--54979322 Score: 898
Period size: 125 Copynumber: 4.5 Consensus size: 125
54978747 GGCGTTTATT
* * * * * *
54978757 ATAAAGCGCCGTTAGTGCCACTACAAGTTAAAGTTAAACGACGGTGTTTTGCTTAATTATTTACG
1 ATAAA-CGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTATTTGCG
*
54978822 GAGCATTAGTGGCGTTTTTTGATAAGCGCCGCAAATGCTAGATCTTTACCGGCGTTTCTAG
65 GAGCATTAGTGGCGTTTTTTGATAAGCGCCGCAAATGCTAGATCTTTACCGGCGTTTCCAG
* * * * **
54978883 ATAAACACCGCTAGTGCCACTACATGTCAAAATTAAACGACGGTGTTCTGCTTAATTATTTGTTG
1 ATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTATTTGCGG
* *
54978948 AGCATTAGTGGCGTTTTTTGGTAAGCGCCGCAAATGCTAGATCTTTACCGACGTTTCCAG
66 AGCATTAGTGGCGTTTTTTGATAAGCGCCGCAAATGCTAGATCTTTACCGGCGTTTCCAG
* * *
54979008 ATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACAGCGTTCCGCTTAATTATTTGTGG
1 ATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTATTTGCGG
*
54979073 AGCATTAGTGGCGTTTTTTGATAAGAGCCGCAAATGCTAGATCTTTACCGGCGTTTCCAG
66 AGCATTAGTGGCGTTTTTTGATAAGCGCCGCAAATGCTAGATCTTTACCGGCGTTTCCAG
*
54979133 ATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCATTCTGCTTAATTATTTGCGG
1 ATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTATTTGCGG
** * *
54979198 AGCATTAGTGGTATTTTTTGATAAGCGCCGCAAATGCTAGATCTTTACTGGCATTTCCAG
66 AGCATTAGTGGCGTTTTTTGATAAGCGCCGCAAATGCTAGATCTTTACCGGCGTTTCCAG
*
54979258 ATAAACGTCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTATTTGCGG
1 ATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTATTTGCGG
54979323 CGCTTTTTGA
Statistics
Matches: 407, Mismatches: 33, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
125 402 0.99
126 5 0.01
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (125 bp):
ATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTATTTGCGG
AGCATTAGTGGCGTTTTTTGATAAGCGCCGCAAATGCTAGATCTTTACCGGCGTTTCCAG
Found at i:54979952 original size:20 final size:20
Alignment explanation
Indices: 54979909--54979952 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
54979899 TTAAAATACA
* * * *
54979909 TTTAAAATAATTTTTTTATT
1 TTTAAAACAAATTTTTAATG
54979929 TTTAAAACAAATTTTTAATG
1 TTTAAAACAAATTTTTAATG
54979949 TTTA
1 TTTA
54979953 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTAAAACAAATTTTTAATG
Found at i:54983405 original size:11 final size:11
Alignment explanation
Indices: 54983389--54983417 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
54983379 TTTTAATTTT
54983389 TAATTTTAAAA
1 TAATTTTAAAA
54983400 TAATTTTAAAA
1 TAATTTTAAAA
54983411 TAATTTT
1 TAATTTT
54983418 TTTATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TAATTTTAAAA
Found at i:54987872 original size:12 final size:13
Alignment explanation
Indices: 54987855--54987883 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
54987845 ATGGTAAAGC
54987855 AAAATAAAAA-TA
1 AAAATAAAAATTA
54987867 AAAATAAAAATTA
1 AAAATAAAAATTA
54987880 AAAA
1 AAAA
54987884 AAATCTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATAAAAATTA
Found at i:54989370 original size:16 final size:17
Alignment explanation
Indices: 54989342--54989375 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
54989332 ACCAATGCTT
*
54989342 TATTTTGAATTTTTTTA
1 TATTTTGAATTTTATTA
54989359 TATTTT-AATTTTATTA
1 TATTTTGAATTTTATTA
54989375 T
1 T
54989376 GTATCCTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TATTTTGAATTTTATTA
Found at i:54996203 original size:15 final size:15
Alignment explanation
Indices: 54996192--54996224 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
54996182 TAAGAAAATG
54996192 AAAA-AAAAGAAAAA
1 AAAAGAAAAGAAAAA
54996206 AAAAGAAAAGAAAAA
1 AAAAGAAAAGAAAAA
54996221 AAAA
1 AAAA
54996225 AGAGTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAGAAAAA
Found at i:54996205 original size:10 final size:10
Alignment explanation
Indices: 54996192--54996225 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
54996182 TAAGAAAATG
54996192 AAAAAAAAGA
1 AAAAAAAAGA
54996202 AAAAAAAAGA
1 AAAAAAAAGA
*
54996212 AAAGAAAA-A
1 AAAAAAAAGA
54996221 AAAAA
1 AAAAA
54996226 GAGTATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 5 0.23
10 17 0.77
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:55000351 original size:19 final size:19
Alignment explanation
Indices: 55000327--55000365 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
55000317 GCAAATACTT
55000327 TAAAA-TTAGAAAAGAAATA
1 TAAAATTTAGAAAA-AAATA
*
55000346 TAAAATTTATAAAAAAATA
1 TAAAATTTAGAAAAAAATA
55000365 T
1 T
55000366 TATTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (19 bp):
TAAAATTTAGAAAAAAATA
Found at i:55000393 original size:21 final size:20
Alignment explanation
Indices: 55000336--55000393 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
55000326 TTAAAATTAG
*
55000336 AAAAGAAATATA-AAATTTAT
1 AAAA-AAATATATAATTTTAT
55000356 AAAAAAATATTATTAATTTTAT
1 AAAAAAATA-TA-TAATTTTAT
*
55000378 CAAAATAATATATAAT
1 -AAAAAAATATATAAT
55000394 AAATAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
19 5 0.16
20 6 0.19
21 4 0.12
22 9 0.28
23 8 0.25
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAAAAATATATAATTTTAT
Found at i:55001368 original size:22 final size:23
Alignment explanation
Indices: 55001334--55001392 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 23
55001324 TATATTTGGT
*
55001334 TAAAAATTAAAAATGATTTGAAAA
1 TAAAAATT-AAAATGATGTGAAAA
* *
55001358 TGAAAA-TAAAAT-ATGTGAAAT
1 TAAAAATTAAAATGATGTGAAAA
55001379 TAAAAATTAAAATG
1 TAAAAATTAAAATG
55001393 TTTTCTAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
21 12 0.41
22 11 0.38
23 1 0.03
24 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (23 bp):
TAAAAATTAAAATGATGTGAAAA
Found at i:55012934 original size:20 final size:19
Alignment explanation
Indices: 55012895--55012934 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
55012885 TTTTAAAAAA
* *
55012895 TTTAAAATTTTCATACTTT
1 TTTAAAATTTTAATAATTT
55012914 TTTAATAATTTTAATAATTT
1 TTTAA-AATTTTAATAATTT
55012934 T
1 T
55012935 AAATTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTAAAATTTTAATAATTT
Found at i:55012941 original size:27 final size:28
Alignment explanation
Indices: 55012884--55012949 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
55012874 TAGTAATTAA
* * *
55012884 TTTTTAAAAAATTTAAAATTTTCATACT
1 TTTTTAATAATTTTAAAATTTTCATAAT
55012912 TTTTTAATAATTTTAATAATTTT-A-AAT
1 TTTTTAATAATTTTAA-AATTTTCATAAT
*
55012939 TTTTAAATAAT
1 TTTTTAATAAT
55012950 AGTTTTGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 12 0.36
28 15 0.45
29 6 0.18
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (28 bp):
TTTTTAATAATTTTAAAATTTTCATAAT
Found at i:55018412 original size:13 final size:13
Alignment explanation
Indices: 55018394--55018420 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
55018384 CACTCAACTC
55018394 TTGTAATAGGAAT
1 TTGTAATAGGAAT
55018407 TTGTAATAGGAAT
1 TTGTAATAGGAAT
55018420 T
1 T
55018421 CAGTGGTGAG
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:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (13 bp):
TTGTAATAGGAAT
Found at i:55019146 original size:48 final size:48
Alignment explanation
Indices: 55019039--55019155 Score: 159
Period size: 48 Copynumber: 2.4 Consensus size: 48
55019029 GTGGGTTGGG
*
55019039 GGGA-GGGGGGGAGAGCATTGAAAAAATGATAATGGAGGATTAAATGA
1 GGGAGGGGGGGGAGAGCATTGAAAAAAGGATAATGGAGGATTAAATGA
* *
55019086 GGGTAGGAGGGGGTGAGCATTG-AAAAAGGATAATGGAGGATTAAATGA
1 GGG-AGGGGGGGGAGAGCATTGAAAAAAGGATAATGGAGGATTAAATGA
55019134 GGG-GGCCGGGGGGAGAGCATTG
1 GGGAGG--GGGGGGAGAGCATTG
55019156 GAACAAATTA
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
46 2 0.03
47 3 0.05
48 42 0.69
49 14 0.23
ACGTcount: A:0.34, C:0.04, G:0.45, T:0.16
Consensus pattern (48 bp):
GGGAGGGGGGGGAGAGCATTGAAAAAAGGATAATGGAGGATTAAATGA
Found at i:55019217 original size:17 final size:16
Alignment explanation
Indices: 55019191--55019245 Score: 62
Period size: 17 Copynumber: 3.6 Consensus size: 16
55019181 AGTATTGAAT
*
55019191 TATTAATATTTTAATA
1 TATTAATATTTAAATA
55019207 TATTAAATATTTAAATA
1 TATT-AATATTTAAATA
*
55019224 TAAT-ATA-TTAAATA
1 TATTAATATTTAAATA
55019238 T-TTAATAT
1 TATTAATAT
55019246 AAAAATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 1 0.03
14 11 0.33
15 3 0.09
16 4 0.12
17 14 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TATTAATATTTAAATA
Found at i:55019230 original size:22 final size:21
Alignment explanation
Indices: 55019202--55019247 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 21
55019192 ATTAATATTT
55019202 TAATATATTAAATATTTAAATA
1 TAATATATTAAATATTT-AATA
55019224 TAATATATTAAATATTTAATA
1 TAATATATTAAATATTTAATA
55019245 TAA
1 TAA
55019248 AAATTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATATATTAAATATTTAATA
Found at i:55019573 original size:16 final size:16
Alignment explanation
Indices: 55019552--55019614 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
55019542 TGAATTACTG
*
55019552 ATTATAGCTCTATTCC
1 ATTACAGCTCTATTCC
* * * *
55019568 ATTATAGTTTTATTAC
1 ATTACAGCTCTATTCC
* *
55019584 ATTACAGTTCTATTTC
1 ATTACAGCTCTATTCC
*
55019600 ATTACAGCCCTATTC
1 ATTACAGCTCTATTC
55019615 TATTCCAGTG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.46
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:55022275 original size:30 final size:30
Alignment explanation
Indices: 55022239--55022315 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
55022229 TTTTTGAGAA
* * * *
55022239 ACACGGGCATGTGTCGTACACGGGTGGTCC
1 ACACGGGCGTGTGCCGCACACGGGCGGTCC
55022269 ACACGGGCGTGTGCCGCACACGGGCGGTCC
1 ACACGGGCGTGTGCCGCACACGGGCGGTCC
55022299 ACACGGGCGTGTGCCGC
1 ACACGGGCGTGTGCCGC
55022316 TTAAGAAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.14, C:0.32, G:0.39, T:0.14
Consensus pattern (30 bp):
ACACGGGCGTGTGCCGCACACGGGCGGTCC
Found at i:55022290 original size:17 final size:17
Alignment explanation
Indices: 55022268--55022315 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
55022258 ACGGGTGGTC
55022268 CACACGGGCGTGTGCCG
1 CACACGGGCGTGTGCCG
55022285 CACACGGGCG-GT--C-
1 CACACGGGCGTGTGCCG
55022298 CACACGGGCGTGTGCCG
1 CACACGGGCGTGTGCCG
55022315 C
1 C
55022316 TTAAGAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
13 10 0.37
14 3 0.11
16 3 0.11
17 11 0.41
ACGTcount: A:0.12, C:0.38, G:0.40, T:0.10
Consensus pattern (17 bp):
CACACGGGCGTGTGCCG
Found at i:55022306 original size:13 final size:13
Alignment explanation
Indices: 55022256--55022307 Score: 59
Period size: 13 Copynumber: 3.7 Consensus size: 13
55022246 CATGTGTCGT
*
55022256 ACACGGGTGGTCC
1 ACACGGGCGGTCC
55022269 ACACGGGCGTGTGCCGC
1 ACACGGGCG-GT--C-C
55022286 ACACGGGCGGTCC
1 ACACGGGCGGTCC
55022299 ACACGGGCG
1 ACACGGGCG
55022308 TGTGCCGCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
13 18 0.53
14 3 0.09
16 3 0.09
17 10 0.29
ACGTcount: A:0.15, C:0.35, G:0.40, T:0.10
Consensus pattern (13 bp):
ACACGGGCGGTCC
Found at i:55022540 original size:21 final size:20
Alignment explanation
Indices: 55022516--55022566 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
55022506 CGTGTCTCTC
*
55022516 AGCCACACGACCCTGTATCTT
1 AGCCACACGA-CCTGTACCTT
* *
55022537 AGCCACACAGACTTGTCCCTT
1 AGCCACAC-GACCTGTACCTT
55022558 AGCCACACG
1 AGCCACACG
55022567 GTCATGTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.88
22 2 0.08
ACGTcount: A:0.25, C:0.39, G:0.16, T:0.20
Consensus pattern (20 bp):
AGCCACACGACCTGTACCTT
Found at i:55025533 original size:14 final size:13
Alignment explanation
Indices: 55025496--55025548 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
55025486 TGGAAATTCC
55025496 ATTAGGTTAATTTA
1 ATTA-GTTAATTTA
*
55025510 GGTTAGTTAATTTA
1 -ATTAGTTAATTTA
*
55025524 ATTAGTTTAATTAA
1 ATTAG-TTAATTTA
55025538 ATTA-TTAATTT
1 ATTAGTTAATTT
55025549 GGATCTGCAC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
12 6 0.18
13 4 0.12
14 20 0.61
15 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (13 bp):
ATTAGTTAATTTA
Found at i:55027420 original size:10 final size:10
Alignment explanation
Indices: 55027385--55027443 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
55027375 ATGTTCAAGC
55027385 TTTTTATGAT-
1 TTTTTAT-ATA
*
55027395 TTTTTTTATA
1 TTTTTATATA
**
55027405 AGTTTATATA
1 TTTTTATATA
55027415 TTTTTAATATA
1 TTTTT-ATATA
55027426 TTTTTATGAT-
1 TTTTTAT-ATA
55027436 TTTTTATA
1 TTTTTATA
55027444 AGTACGTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
9 3 0.08
10 25 0.62
11 12 0.30
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (10 bp):
TTTTTATATA
Found at i:55029076 original size:26 final size:29
Alignment explanation
Indices: 55029032--55029087 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
55029022 CATAAAACCC
55029032 AATTACAACCCAAACCCAAA-ACCCAACA
1 AATTACAACCCAAACCCAAATACCCAACA
*
55029060 AATTA-AA-CCAAGCCCAAATACCCAACA
1 AATTACAACCCAAACCCAAATACCCAACA
55029087 A
1 A
55029088 GCCCAAAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 10 0.38
27 11 0.42
28 5 0.19
ACGTcount: A:0.54, C:0.36, G:0.02, T:0.09
Consensus pattern (29 bp):
AATTACAACCCAAACCCAAATACCCAACA
Found at i:55030271 original size:3 final size:3
Alignment explanation
Indices: 55030258--55030366 Score: 86
Period size: 3 Copynumber: 36.7 Consensus size: 3
55030248 TTATTTTCTC
*
55030258 ATT ATT A-T ATT ATT A-T ATT -TT ATT ATT AGCTT ATT ATT ATT ATG
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A--TT ATT ATT ATT ATT
* *
55030302 GTT ATT ATT ATT ATT ACT ATT ATT AATT ATT ATT AGTT -TT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT A-TT ATT ATT ATT
* *
55030347 CTT -TT ATTT ATT ACT ATT AT
1 ATT ATT A-TT ATT ATT ATT AT
55030367 ACTAATACAT
Statistics
Matches: 87, Mismatches: 8, Indels: 22
0.74 0.07 0.19
Matches are distributed among these distances:
2 12 0.14
3 64 0.74
4 8 0.09
5 3 0.03
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:55030358 original size:51 final size:52
Alignment explanation
Indices: 55030233--55030370 Score: 124
Period size: 51 Copynumber: 2.6 Consensus size: 52
55030223 GTCATACTTA
*
55030233 TATTTTCTTTTATATTTATTTTCTCATTATTA-TATTATTATATTTTATTATTAGCT
1 TATTTTC-TTT-TATTTATTAT-T-ATTATTACTATTATTATA-TTTATTATTAGCT
* * *
55030289 TATTAT-TATTATGGTTATTATTATTATTACTATTATTA-A-TTATTATTAGTTT
1 TATTTTCTTTTAT--TTATTATTATTATTACTATTATTATATTTATTATTAG-CT
*
55030341 TATTTTCTTTTATTTATTACTATTA-TACTA
1 TATTTTCTTTTATTTATTATTATTATTACTA
55030371 ATACATTAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
50 5 0.07
51 21 0.30
52 6 0.09
53 16 0.23
54 11 0.16
55 6 0.09
56 5 0.07
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.64
Consensus pattern (52 bp):
TATTTTCTTTTATTTATTATTATTATTACTATTATTATATTTATTATTAGCT
Found at i:55043220 original size:46 final size:46
Alignment explanation
Indices: 55043153--55043611 Score: 227
Period size: 44 Copynumber: 10.6 Consensus size: 46
55043143 TTTAAAAAGG
* *
55043153 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTGCAGA
* * *
55043199 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAG-ATAT--ATA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAAT-TGCAGA
* * * ** *
55043243 TCCTATCT-CCTGA-ATTACCGTGGAGCGGATTAAATAA--G--GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTGCAGA
* * * *
55043283 TCTTATCTCTCTGA-AGTTACAGTAGAG-AGATC---GCA-T-CAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATTGCAGA
* *
55043323 TCTTATCTCCCTGAGATTACAGTGGAGTAGA-CCAAGAATTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTGCAGA
* *
55043368 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAG-ATAT--A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAAT-TGCAGA
* * * * **
55043411 TCCTATCTCCCTGA-AGTTACCGTGGAGCGGAT-TAA-AA-TAAAGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATTGCA-GA
* * * * *
55043455 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GCA-T-CAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATTGCAGA
* * * * * *
55043496 TATTATTTCCCTGAGATTACAGCGGAGCAAATTGAAG--TTAGTA-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT-GCAGA
* * *
55043540 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG--TTAGTA-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT-GCAGA
*
55043584 TCCTATCTCCCTGAGATTACAGTGGAGC
1 TCTTATCTCCCTGAGATTACAGTGGAGC
55043612 GGATTAAAAT
Statistics
Matches: 320, Mismatches: 61, Indels: 66
0.72 0.14 0.15
Matches are distributed among these distances:
38 1 0.00
40 34 0.11
41 36 0.11
42 30 0.09
43 38 0.12
44 106 0.33
45 36 0.11
46 39 0.12
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTGCAGA
Found at i:55043376 original size:85 final size:84
Alignment explanation
Indices: 55043150--55043694 Score: 336
Period size: 85 Copynumber: 6.3 Consensus size: 84
55043140 AGGTTTAAAA
* * * *
55043150 AGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGCA-GATCTTATCTCCCTGAG
1 AGGTCTTATCTCCCTGAGATTACAGTGGAGCAGA--TAA-AA-TGAAGGATCTTATCTCCCTGAA
* * *
55043214 GTTACAGCGGAGCAGATCGAAGATAT
62 GTTACAGCAGAGCAGATCG--CAT-C
** * * * * *
55043240 ATATCCTATCT-CCTGA-ATTACCGTGGAGCGGATTAAAT-AAGGATCTTATCTCTCTGAAGTTA
1 AGGTCTTATCTCCCTGAGATTACAGTGGAGCAGATAAAATGAAGGATCTTATCTCCCTGAAGTTA
*
55043302 CAGTAGAG-AGATCGCATC
66 CAGCAGAGCAGATCGCATC
* * * *
55043320 AGGTCTTATCTCCCTGAGATTACAGTGGAGTAGACCAAGAATTGCA-GATCTTATCTCCCTGAGG
1 AGGTCTTATCTCCCTGAGATTACAGTGGAGCAGA-TAA-AA-TGAAGGATCTTATCTCCCTGAAG
* *
55043384 TTACAGCGGAGCAGATCGAAGAT-
63 TTACAGCAGAGCAGATCG--CATC
** * * * * *
55043407 ATAATCCTATCTCCCTGA-AGTTACCGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAG
1 A-GGTCTTATCTCCCTGAGA-TTACAGTGGAGCAGA-TAAAATGAAGGATCTTATCTCCCTGAAG
* *
55043471 TTACAGTAGAGTAGATCGCATC
63 TTACAGCAGAGCAGATCGCATC
* * * * ** * *
55043493 AGGTATTATTTCCCTGAGATTACAGCGGAGCAAATTGAA-GTTAGTAATCTTATCTCCCTG-AGA
1 AGGTCTTATCTCCCTGAGATTACAGTGGAGCAGATAAAATG-AAG-GATCTTATCTCCCTGAAG-
* * * *
55043556 TTACAGCGGAGCAGATTGAAGTT
63 TTACAGCAGAGCAGATCGCA-TC
* * * * * *
55043579 AGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTACCTCTCTGAAG
1 AG--GTCTTATCTCCCTGAGATTACAGTGGAGCAGA-TAAAATGAAGGATCTTATCTCCCTGAAG
* * *
55043644 TTACAGTAGAGAAGATCGTATC
63 TTACAGCAGAGCAGATCGCATC
* * *
55043666 AGGTCTTACCTCCCTGTGGTTACAGTGGA
1 AGGTCTTATCTCCCTGAGATTACAGTGGA
55043695 ATACATTGAA
Statistics
Matches: 340, Mismatches: 91, Indels: 53
0.70 0.19 0.11
Matches are distributed among these distances:
80 8 0.02
81 7 0.02
82 13 0.04
83 8 0.02
84 35 0.10
85 102 0.30
86 15 0.04
87 38 0.11
88 94 0.28
89 12 0.04
90 8 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (84 bp):
AGGTCTTATCTCCCTGAGATTACAGTGGAGCAGATAAAATGAAGGATCTTATCTCCCTGAAGTTA
CAGCAGAGCAGATCGCATC
Found at i:55043591 original size:129 final size:128
Alignment explanation
Indices: 55043326--55043606 Score: 289
Period size: 129 Copynumber: 2.2 Consensus size: 128
55043316 CATCAGGTCT
* * * * * *
55043326 TATCTCCCTGAGATTACAGTGGAGTAGACCAAGAATTGCAGATCTTATCTCCCTGAGGTTACAGC
1 TATCTCCCTGAGATTACAGTAGAGTAGATC--GCA-T-CAGGTATTATCTCCCTGAGATTACAGC
* * * * *
55043391 GGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACCGTGGAGCGGATTAAAATAAAGGAT
62 GGAGCAAATCGAAGATATAATCCTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAATAAAGAAT
*
55043456 CT
127 CC
* *
55043458 TATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGGTATTATTTCCCTGAGATTACAGCGGA
1 TATCTCCCTGAGA-TTACAGTAGAGTAGATCGCATCAGGTATTATCTCCCTGAGATTACAGCGGA
* * * * * *
55043522 GCAAATTGAAGTTAGTAATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGT-TAGTAAT
65 GCAAATCGAAGATA-TAATCCTATCTCCCTGAAG-TTACAGCGGAGCAGATTAAAATAAAG-AAT
55043585 CC
127 CC
55043587 TATCTCCCTGAGATTACAGT
1 TATCTCCCTGAGATTACAGT
55043607 GGAGCGGATT
Statistics
Matches: 123, Mismatches: 21, Indels: 13
0.78 0.13 0.08
Matches are distributed among these distances:
128 41 0.33
129 53 0.43
130 3 0.02
131 1 0.01
132 25 0.20
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (128 bp):
TATCTCCCTGAGATTACAGTAGAGTAGATCGCATCAGGTATTATCTCCCTGAGATTACAGCGGAG
CAAATCGAAGATATAATCCTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAATAAAGAATCC
Found at i:55043705 original size:173 final size:170
Alignment explanation
Indices: 55043150--55043705 Score: 773
Period size: 173 Copynumber: 3.2 Consensus size: 170
55043140 AGGTTTAAAA
* **
55043150 AGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGCAGATCTTATCTCCCTGAGG
1 AGGTCTTATCTCCCTGAGATTACAGTGGAACACATTGAAG--TTGCAGATCTTATCTCCCTGAGG
55043215 TTACAGCGGAGCAGATCGAAGATATATATCCTATCT-CCTGAATTACCGTGGAGCGGATT-AAAT
64 TTACAGCGGAGCAGATCGAAGATATA-ATCCTATCTCCCTGAATTACCGTGGAGCGGATTAAAAT
55043278 -AAGGATCTTATCTCTCTGAAGTTACAGTAGAGAGATCGCATC
128 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAGATCGCATC
* *
55043320 AGGTCTTATCTCCCTGAGATTACAGTGGAGTAGACCA-AGAA-TTGCAGATCTTATCTCCCTGAG
1 AGGTCTTATCTCCCTGAGATTACAGTGGA--ACA-CATTGAAGTTGCAGATCTTATCTCCCTGAG
55043383 GTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACCGTGGAGCGGATTAAAA
63 GTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAA-TTACCGTGGAGCGGATTAAAA
55043448 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
127 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAG-AGATCGCATC
* * * * * * *
55043493 AGGTATTATTTCCCTGAGATTACAGCGGAGCAAATTGAAGTTAGTA-ATCTTATCTCCCTGAGAT
1 AGGTCTTATCTCCCTGAGATTACAGTGGAACACATTGAAGTT-GCAGATCTTATCTCCCTGAGGT
* * *
55043557 TACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAT
65 TACAGCGGAGCAGATCGAAGATA-TAATCCTATCTCCCTGA-ATTACCGTGGAGCGGATTAAAAT
* *
55043622 AAAGGATCTTACCTCTCTGAAGTTACAGTAGAGAAGATCGTATC
128 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAG-AGATCGCATC
* * * *
55043666 AGGTCTTACCTCCCTGTGGTTACAGTGGAATACATTGAAG
1 AGGTCTTATCTCCCTGAGATTACAGTGGAACACATTGAAG
55043706 CCAATAATTC
Statistics
Matches: 346, Mismatches: 27, Indels: 23
0.87 0.07 0.06
Matches are distributed among these distances:
168 9 0.03
169 55 0.16
170 47 0.14
171 8 0.02
172 77 0.22
173 149 0.43
174 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (170 bp):
AGGTCTTATCTCCCTGAGATTACAGTGGAACACATTGAAGTTGCAGATCTTATCTCCCTGAGGTT
ACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAATTACCGTGGAGCGGATTAAAATAAA
GGATCTTATCTCTCTGAAGTTACAGTAGAGAGATCGCATC
Found at i:55044198 original size:26 final size:29
Alignment explanation
Indices: 55044154--55044209 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
55044144 CATAAAACCC
55044154 AATTACAACCCAAACCCAAA-ACCCAACA
1 AATTACAACCCAAACCCAAATACCCAACA
*
55044182 AATTA-AA-CCAAGCCCAAATACCCAACA
1 AATTACAACCCAAACCCAAATACCCAACA
55044209 A
1 A
55044210 GCCCAAAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 10 0.38
27 11 0.42
28 5 0.19
ACGTcount: A:0.54, C:0.36, G:0.02, T:0.09
Consensus pattern (29 bp):
AATTACAACCCAAACCCAAATACCCAACA
Found at i:55045387 original size:3 final size:3
Alignment explanation
Indices: 55045374--55045482 Score: 86
Period size: 3 Copynumber: 36.7 Consensus size: 3
55045364 TTATTTGCTC
*
55045374 ATT ATT A-T ATT ATT A-T ATT -TT ATT ATT AGCTT ATT ATT ATT ATG
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A--TT ATT ATT ATT ATT
* *
55045418 GTT ATT ATT ATT ATT ACT ATT ATT AATT ATT ATT AGTT -TT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT A-TT ATT ATT ATT
* *
55045463 CTT -TT ATTT ATT ACT ATT AT
1 ATT ATT A-TT ATT ATT ATT AT
55045483 ACTAATACAT
Statistics
Matches: 87, Mismatches: 8, Indels: 22
0.74 0.07 0.19
Matches are distributed among these distances:
2 12 0.14
3 64 0.74
4 8 0.09
5 3 0.03
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:55047347 original size:43 final size:43
Alignment explanation
Indices: 55047297--55047385 Score: 133
Period size: 43 Copynumber: 2.1 Consensus size: 43
55047287 ATATGAAGTT
* * *
55047297 TTTCGCTAAGCCCTGACGTTAATTGTGAAAAGATATAATACTC
1 TTTCGCTAAGCCCTAACATTAATTATGAAAAGATATAATACTC
* *
55047340 TTTCGCTAAGCCCTAACATTAATTATGAAAAGATATACTATTC
1 TTTCGCTAAGCCCTAACATTAATTATGAAAAGATATAATACTC
55047383 TTT
1 TTT
55047386 TGTAGTGGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (43 bp):
TTTCGCTAAGCCCTAACATTAATTATGAAAAGATATAATACTC
Found at i:55058673 original size:33 final size:33
Alignment explanation
Indices: 55058631--55058855 Score: 124
Period size: 33 Copynumber: 6.4 Consensus size: 33
55058621 ATATAAAGGG
55058631 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
55058664 GGTTGCTAAGTGCTGA-TCCCAACGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCC--CG-A--TT-CAT-T---GGT
*
55058706 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
55058733 GATTGCTAAGTGCTCATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
55058766 GGTTGCTAAGTGCTGATTCCACC-ATATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGAT-TC-----AT-TG---GT
* *
55058809 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
55058842 GGTTGCTAAGTGCT
1 GGTTGCTAAGTGCT
55058856 AAATCCACCG
Statistics
Matches: 149, Mismatches: 14, Indels: 58
0.67 0.06 0.26
Matches are distributed among these distances:
27 20 0.13
28 2 0.01
31 2 0.01
32 6 0.04
33 51 0.34
34 6 0.04
35 1 0.01
36 2 0.01
37 3 0.02
38 2 0.01
39 3 0.02
40 2 0.01
41 1 0.01
42 22 0.15
43 26 0.17
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:55058713 original size:75 final size:76
Alignment explanation
Indices: 55058554--55058727 Score: 262
Period size: 75 Copynumber: 2.3 Consensus size: 76
55058544 ATTCCCCCAA
* ** *
55058554 GGGGTTGCTAAGT-CTGATTCTCCGACTCATTGGTGGTTGCTAAGTGCTGATTTCACCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATCCCAACGTATCTT
*
55058618 TGAATATAAAG
66 TAAATATAAAG
*
55058629 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCAACGTAT-TT
1 GGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATCCCAACGTATCTT
* *
55058693 TAAATGTGAAG
66 TAAATATAAAG
55058704 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
55058728 CAAGGGATTG
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
75 47 0.52
76 43 0.48
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (76 bp):
GGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATCCCAACGTATCTT
TAAATATAAAG
Found at i:55058739 original size:102 final size:103
Alignment explanation
Indices: 55058633--55058830 Score: 326
Period size: 102 Copynumber: 1.9 Consensus size: 103
55058623 ATAAAGGGGG
* * *
55058633 TTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCAACGTAT-TTTAAA
1 TTGCTAAGTGCTCATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCAACATATCTTTAAA
*
55058697 TGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGA
66 TGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAAGGGA
* * *
55058735 TTGCTAAGTGCTCATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATATCTTTGAA
1 TTGCTAAGTGCTCATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCAACATATCTTTAAA
55058800 TGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 TGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
55058831 GAATCACTGG
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 53 0.60
103 35 0.40
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (103 bp):
TTGCTAAGTGCTCATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCAACATATCTTTAAA
TGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAAGGGA
Found at i:55058822 original size:178 final size:177
Alignment explanation
Indices: 55058524--55058855 Score: 549
Period size: 178 Copynumber: 1.9 Consensus size: 177
55058514 ATTGAATATA
* * * * *
55058524 AAGGGGGTTGCTAAGTGTTGATTCCCCCAAGGGGTTGCTAAGTCTGATTCTCCGACTCATTGGTG
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGATTGCTAAGTCTCATTCCCCGAATCATTGGTG
* *
55058589 GTTGCTAAGTGCTGATTTCACCGTATCTTTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCG
66 GTTGCTAAGTGCTGATTCCACCATATCTTTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCG
* *
55058654 ATTCATTGGTGGTTGCTAAGTGCTGATCCCAACGTATTTTAAATGTG
131 AATCACTGGTGGTTGCTAAGTGCTGATCCCAACGTATTTTAAATGTG
55058701 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGATTGCTAAGTGCTCATTCCCCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGATTGCTAAGT-CTCATTCCCCGAATCATTGGT
*
55058766 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGTGAAA-GGGGTTGCTAAGTGCTGATTCCC
65 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATAT-AAAGGGGGTTGCTAAGTGCTGATTCCC
55058830 CGAATCACTGGTGGTTGCTAAGTGCT
129 CGAATCACTGGTGGTTGCTAAGTGCT
55058856 AAATCCACCG
Statistics
Matches: 143, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
177 41 0.29
178 99 0.69
179 3 0.02
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.32
Consensus pattern (177 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGATTGCTAAGTCTCATTCCCCGAATCATTGGTG
GTTGCTAAGTGCTGATTCCACCATATCTTTGAATATAAAGGGGGTTGCTAAGTGCTGATTCCCCG
AATCACTGGTGGTTGCTAAGTGCTGATCCCAACGTATTTTAAATGTG
Found at i:55060533 original size:43 final size:43
Alignment explanation
Indices: 55060479--55060567 Score: 115
Period size: 43 Copynumber: 2.1 Consensus size: 43
55060469 ATATGAAGTT
* * * * *
55060479 TTTCGCTAAGCCTTGACGTTAATTGTGAAAAGATATAATATTC
1 TTTCGCTAAGCCCTAACATTAATTATGAAAAGATACAATATTC
* *
55060522 TTTCGCTAAGCCCTAACATTGATTATGAAAAGATACACTATTC
1 TTTCGCTAAGCCCTAACATTAATTATGAAAAGATACAATATTC
55060565 TTT
1 TTT
55060568 TGTGGTGCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (43 bp):
TTTCGCTAAGCCCTAACATTAATTATGAAAAGATACAATATTC
Found at i:55066277 original size:213 final size:213
Alignment explanation
Indices: 55065903--55066336 Score: 751
Period size: 213 Copynumber: 2.0 Consensus size: 213
55065893 TAGAAGTGTG
* * *
55065903 TTGCCCTCCACACTGAAAGAACTTGATATAAACAAGTGTCCAAAGCTAGAGTCCATATCCCAAGA
1 TTGCCCACCACACTGAAAGAACTTGAAATAAACAAGTGTCCAAAACTAGAGTCCATATCCCAAGA
* **
55065968 AATTCAAGATAACTCTTCTCTTGAATCTATTAAAATCTGTGGATGTGATATGCTTAAGGGTTTAC
66 AATTCAAGATAACTCTTCTCTTGAATCTATTAAAATCTGTGAATGCCATATGCTTAAGGGTTTAC
*
55066033 CTCAAGGATTGAACAAGCTCAATCATTGCAAGAGATTAGTCATAAAGGATTGTTCAAATTTGATT
131 CTCAAGGATTGAACAAGCTCAAGCATTGCAAGAGATTAGTCATAAAGGATTGTTCAAATTTGATT
55066098 TCCTTAGGAGAGAGTGGT
196 TCCTTAGGAGAGAGTGGT
* * *
55066116 TTGCCCACCACACTGGAAGTACTTGAAATAAAGAAGTGTCCAAAACTAGAGTCCATATCCCAAGA
1 TTGCCCACCACACTGAAAGAACTTGAAATAAACAAGTGTCCAAAACTAGAGTCCATATCCCAAGA
*
55066181 AATTCAAGATAACTCTTCTCTTGAATCTATTGAAATCTGTGAATGCCATATGCTTAAGGGTTTAC
66 AATTCAAGATAACTCTTCTCTTGAATCTATTAAAATCTGTGAATGCCATATGCTTAAGGGTTTAC
* *
55066246 CTCAAGGATTGAACAAGCTCAAGCATTGCAAGAGATTAGTCATAGAGTATTGTTCAAATTTGATT
131 CTCAAGGATTGAACAAGCTCAAGCATTGCAAGAGATTAGTCATAAAGGATTGTTCAAATTTGATT
55066311 TCCTTAGGAGAGAGTGGT
196 TCCTTAGGAGAGAGTGGT
55066329 TTGCCCAC
1 TTGCCCAC
55066337 TACAAACCTT
Statistics
Matches: 208, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
213 208 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (213 bp):
TTGCCCACCACACTGAAAGAACTTGAAATAAACAAGTGTCCAAAACTAGAGTCCATATCCCAAGA
AATTCAAGATAACTCTTCTCTTGAATCTATTAAAATCTGTGAATGCCATATGCTTAAGGGTTTAC
CTCAAGGATTGAACAAGCTCAAGCATTGCAAGAGATTAGTCATAAAGGATTGTTCAAATTTGATT
TCCTTAGGAGAGAGTGGT
Found at i:55070232 original size:15 final size:17
Alignment explanation
Indices: 55070212--55070249 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
55070202 TTTCATATAT
*
55070212 TTTTTAAT-T-TAGTAA
1 TTTTTAATATCTAATAA
55070227 TTTTTAATATCTAATAA
1 TTTTTAATATCTAATAA
55070244 TTTTTA
1 TTTTTA
55070250 TAATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 1 0.05
17 11 0.55
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTTTAATATCTAATAA
Found at i:55070258 original size:10 final size:9
Alignment explanation
Indices: 55070020--55070257 Score: 51
Period size: 9 Copynumber: 25.6 Consensus size: 9
55070010 CAATTCAAGT
55070020 TTTTTATAA
1 TTTTTATAA
55070029 TTTTTATAA
1 TTTTTATAA
* *
55070038 GTTTATAACAA
1 -TTT-TTATAA
* *
55070049 TTTTAATAC
1 TTTTTATAA
* *
55070058 TTTTGA-AT
1 TTTTTATAA
*
55070066 TTTTTATAT
1 TTTTTATAA
55070075 TTTTTAT-A
1 TTTTTATAA
* *
55070083 TTTATAAAA
1 TTTTTATAA
* *
55070092 TTTTAATACG
1 TTTTTATA-A
55070102 TTTTTATACA
1 TTTTTATA-A
* *
55070112 CTTTTAAAA
1 TTTTTATAA
*
55070121 TATTTTAAATAT
1 T-TTTT--ATAA
*
55070133 TTTTTATTA
1 TTTTTATAA
*
55070142 CTTTTATAA
1 TTTTTATAA
* *
55070151 TTTATTAGAT
1 TTT-TTATAA
* *
55070161 TTTATTAGAT
1 TTT-TTATAA
*
55070171 TTCCTTTATCA
1 TT--TTTATAA
55070182 -TTTTATAA
1 TTTTTATAA
*
55070190 CTTTATATCAA
1 -TTTTTAT-AA
*
55070201 TTTTCATATA
1 TTTTTATA-A
55070211 TTTTT-TAA
1 TTTTTATAA
55070219 --TTTAGTAA
1 TTTTTA-TAA
55070227 -TTTT-TAA
1 TTTTTATAA
* *
55070234 TATCTAATAA
1 T-TTTTATAA
55070244 TTTTTATAA
1 TTTTTATAA
55070253 TTTTT
1 TTTTT
55070258 TTTTCTGATT
Statistics
Matches: 168, Mismatches: 40, Indels: 42
0.67 0.16 0.17
Matches are distributed among these distances:
6 3 0.02
7 3 0.02
8 21 0.12
9 64 0.38
10 60 0.36
11 13 0.08
12 4 0.02
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:55072901 original size:10 final size:9
Alignment explanation
Indices: 55072836--55072989 Score: 62
Period size: 9 Copynumber: 16.3 Consensus size: 9
55072826 CCAGTTCAAG
*
55072836 TTTTTATACT
1 TTTTTATA-A
*
55072846 TTTTTCTAA
1 TTTTTATAA
55072855 TTTTTATAA
1 TTTTTATAA
*
55072864 GTTTATATCAA
1 -TTTTTAT-AA
* *
55072875 TTTTAATAC
1 TTTTTATAA
*
55072884 TTTTTA-AT
1 TTTTTATAA
55072892 TTTTTATAA
1 TTTTTATAA
55072901 TTTTT-T-A
1 TTTTTATAA
55072908 TTTTTATAAAA
1 TTTTTAT--AA
* *
55072919 TTTTAATATG
1 TTTTTATA-A
55072929 TTTTTATACA
1 TTTTTATA-A
* *
55072939 CTTTTAAAA
1 TTTTTATAA
*
55072948 TATTTTAAATAT
1 T-TTTT--ATAA
*
55072960 TTTTTATTA
1 TTTTTATAA
* *
55072969 CTTTTATTA
1 TTTTTATAA
*
55072978 CTTTTATAA
1 TTTTTATAA
55072987 TTT
1 TTT
55072990 ATTAGATTTT
Statistics
Matches: 108, Mismatches: 25, Indels: 23
0.69 0.16 0.15
Matches are distributed among these distances:
7 6 0.06
8 9 0.08
9 42 0.39
10 35 0.32
11 13 0.12
12 3 0.03
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:55072905 original size:18 final size:18
Alignment explanation
Indices: 55072884--55072922 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
55072874 ATTTTAATAC
* *
55072884 TTTTTAATTTTT-TATAA
1 TTTTTTATTTTTATAAAA
55072901 TTTTTTATTTTTATAAAA
1 TTTTTTATTTTTATAAAA
55072919 TTTT
1 TTTT
55072923 AATATGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTTATTTTTATAAAA
Found at i:55072953 original size:21 final size:21
Alignment explanation
Indices: 55072906--55072953 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
55072896 TATAATTTTT
*
55072906 TATTTTTATAAAATTTTAATA
1 TATTTTTATAAAATTTTAAAA
* * *
55072927 TGTTTTTATACACTTTTAAAA
1 TATTTTTATAAAATTTTAAAA
55072948 TATTTT
1 TATTTT
55072954 AAATATTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (21 bp):
TATTTTTATAAAATTTTAAAA
Found at i:55072953 original size:31 final size:30
Alignment explanation
Indices: 55072909--55072975 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
55072899 AATTTTTTAT
55072909 TTTTATAAAATTTT-AATATGTTTTTATACAC
1 TTTTATAAAATTTTAAATAT-TTTTTAT-CAC
*
55072940 TTTTA-AAATATTTTAAATATTTTTTATTAC
1 TTTTATAAA-ATTTTAAATATTTTTTATCAC
55072970 TTTTAT
1 TTTTAT
55072976 TACTTTTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
30 10 0.31
31 17 0.53
32 5 0.16
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (30 bp):
TTTTATAAAATTTTAAATATTTTTTATCAC
Found at i:55073065 original size:14 final size:14
Alignment explanation
Indices: 55073048--55073099 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 14
55073038 TTTCATATAT
55073048 TTTTTAATTTAATA
1 TTTTTAATTTAATA
*
55073062 TTTTTAATATCTAATT
1 TTTTTAAT-T-TAATA
55073078 TTTTATAATTTTAATAA
1 TTTT-TAA-TTTAAT-A
55073095 TTTTT
1 TTTTT
55073100 TATGAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 8 0.26
15 1 0.03
16 13 0.42
17 8 0.26
18 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTTTAATTTAATA
Found at i:55074844 original size:18 final size:18
Alignment explanation
Indices: 55074804--55074846 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
55074794 CCTAAGTCCT
*
55074804 TTACAGATATAGATAAAG
1 TTACAGATACAGATAAAG
* * *
55074822 ATACAGATACAGTTACAG
1 TTACAGATACAGATAAAG
55074840 TTACAGA
1 TTACAGA
55074847 GACAAATATG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.26
Consensus pattern (18 bp):
TTACAGATACAGATAAAG
Found at i:55076329 original size:43 final size:43
Alignment explanation
Indices: 55076217--55076330 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
55076207 AGTGTTTCTG
* * * *
55076217 TGTAAGACCACGTCTAGGACGTTGGCATCGACTTGTGTTTTCG
1 TGTAAGACCACGTCTAGGACGTTGGCATCGACTAGTGATTACA
*
55076260 TGTAAGAACC-TGTCTAGGACAG-TGGCATCGA-TCAGTGATTACA
1 TGTAAG-ACCACGTCTAGGAC-GTTGGCATCGACT-AGTGATTACA
*
55076303 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTAGGACGTTGGCAT
55076331 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
42 5 0.08
43 50 0.85
44 4 0.07
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (43 bp):
TGTAAGACCACGTCTAGGACGTTGGCATCGACTAGTGATTACA
Found at i:55077030 original size:40 final size:39
Alignment explanation
Indices: 55076983--55077097 Score: 135
Period size: 40 Copynumber: 2.9 Consensus size: 39
55076973 GTTTAGATAA
* *
55076983 AAAACGCCGCTAAAAATCAAGCACTAGCGGCGCTTTTAAT
1 AAAACGCCACTAAAAAT-AAGCATTAGCGGCGCTTTTAAT
* *
55077023 AAAACGCCACTAAAGATAGAGTATTAGCGGCGCTTTTTAA-
1 AAAACGCCACTAAAAATA-AGCATTAGCGGCGC-TTTTAAT
* *
55077063 AAAATGCCACTAAAAATGAGCATTAGCGGCG-TTTT
1 AAAACGCCACTAAAAATAAGCATTAGCGGCGCTTTT
55077098 CCATAAAGCG
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
37 4 0.06
39 13 0.20
40 42 0.65
41 6 0.09
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.23
Consensus pattern (39 bp):
AAAACGCCACTAAAAATAAGCATTAGCGGCGCTTTTAAT
Found at i:55077222 original size:41 final size:41
Alignment explanation
Indices: 55077154--55077231 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
55077144 GAGTTTTTAG
* * *
55077154 GGGCATTAGTGGCGTTTTTGAAGAAGCGCTGCTAATGTTCA
1 GGGCATTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGTTCA
*
55077195 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATG
1 GGGCATTAGCGGCGTTTTTGAAAAAGCGCCGCTAATG
55077232 CTCTATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (41 bp):
GGGCATTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGTTCA
Found at i:55077262 original size:40 final size:40
Alignment explanation
Indices: 55077199--55077274 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
55077189 TGTTCAGGGC
*
55077199 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTATT
1 TTTAGCGGCGTTTATGAAAAAGCGCCGCTAATGCTCTATT
**
55077239 TTTAGCGGCGTTTATGAGGAAGCGCCGCTAATGCTC
1 TTTAGCGGCGTTTATGAAAAAGCGCCGCTAATGCTC
55077275 AGATTTATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (40 bp):
TTTAGCGGCGTTTATGAAAAAGCGCCGCTAATGCTCTATT
Found at i:55078256 original size:7 final size:7
Alignment explanation
Indices: 55078230--55078276 Score: 69
Period size: 7 Copynumber: 6.7 Consensus size: 7
55078220 ACAGTTATAA
55078230 GGGTT-G
1 GGGTTAG
*
55078236 GGGTTTAA
1 GGG-TTAG
55078244 GGGTTAG
1 GGGTTAG
55078251 GGGTTAG
1 GGGTTAG
55078258 GGGTTAG
1 GGGTTAG
55078265 GGGTTAG
1 GGGTTAG
55078272 GGGTT
1 GGGTT
55078277 TACGGTTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
6 3 0.08
7 31 0.84
8 3 0.08
ACGTcount: A:0.13, C:0.00, G:0.55, T:0.32
Consensus pattern (7 bp):
GGGTTAG
Found at i:55079343 original size:17 final size:17
Alignment explanation
Indices: 55079318--55079357 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
55079308 TCACTGGACT
*
55079318 GAAACCCTAGATGAGAA
1 GAAATCCTAGATGAGAA
55079335 GAAATCCTAGATGAGAA
1 GAAATCCTAGATGAGAA
55079352 GAAATC
1 GAAATC
55079358 GGAGGAAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (17 bp):
GAAATCCTAGATGAGAA
Found at i:55080948 original size:23 final size:23
Alignment explanation
Indices: 55080914--55082481 Score: 1039
Period size: 23 Copynumber: 68.7 Consensus size: 23
55080904 GAATGTTGTT
55080914 AATTGATA-TGTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * * *
55080937 AATTTAAGTGTTTAAATGTTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
55080960 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
*
55080983 AATTGCAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
* *
55081006 AATTGAAGTGCTT-AGTTGCTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
* * *
55081029 AATTG-AGATGTTTTA-TCGCCG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * ***
55081051 AATTGAGGTGTATAAATGTTTTT
1 AATTGAAGTGTTTAAGTGCTGCA
55081074 AATTGATA-TGTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * * *
55081097 AATTTAAGTGTTTAAATGTTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
* *
55081120 AATTGACGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
55081143 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
*
55081166 AATTGAAGTGCTT-AGTTGCTGCA
1 AATTGAAGTGTTTAAG-TGCTGCA
* *
55081189 AATTG-AGATGTTTTA-TCGCTG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * **
55081211 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
55081234 AATTGATA-TGTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * *
55081257 AATTTAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
*
55081280 AATTGACGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
55081303 AATTGAAGTGTTTTAAGTGCTGCA
1 AATTGAAGTG-TTTAAGTGCTGCA
*
55081327 AATTGAAGTGTTT-AGTTGCTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
* * *
55081350 AATTG-AGATGTTTTA-TCGCCG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * **
55081372 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
* *
55081395 AACTGATA-TGTTTAAGTGTTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * *
55081418 AATTTAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
55081441 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
55081464 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
* *
55081487 AATTGAAGTGCTT-AGTTGCTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
* *
55081510 AATTG-AGATGTTTTA-TCGCTG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * **
55081532 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
55081555 AATTGATA-TGTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * * *
55081578 AATTTAAGTGTTTAAATGTTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
55081601 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
55081624 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
* *
55081647 AATTGAAGTGCTT-AGTTGCTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
* * *
55081670 AATTG-AGATGTTTTA-TCGCCG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * **
55081692 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
55081715 AATTGATA-TGTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * *
55081738 AATTTAAGTG-TTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
55081760 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
* *
55081783 AATTGAAGTGCTT-AGTTGCTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
* *
55081806 AATTG-AGATGTTTTA-TCGCTG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * **
55081828 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
55081851 AATTGATA-TGTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * *
55081874 AATTTAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
*
55081897 AATTGAAGTGTTTAATTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
* **
55081920 AATTGCAGACTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
* *
55081943 AATTGAAGTGCTT-AGTTGCTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
* *
55081966 AATTG-AGATGTTTTA-TCGCTG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * **
55081988 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
55082011 AATTGATA-TGTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * * *
55082034 AATTTAAGTGATTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
*
55082057 AATTGACGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
*
55082080 AATTGAAGTGTTTTAAGTGCAGCA
1 AATTGAAGTG-TTTAAGTGCTGCA
*
55082104 AATTGAAGTGTTT-AGTTGCTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
* * *
55082127 AATTG-AGATGTTTTA-TCGCCG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * **
55082149 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
* *
55082172 AACTGATA-TGTTTAAGTGTTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
55082195 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
55082218 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
* *
55082241 AATTGAAGTATTT-AGTTGCTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
* *
55082264 AATTG-AGATGTTTTA-TCGCTG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * **
55082286 AATTGAGGTGTGTAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
*
55082309 AATT-AATATGTTTAAGTGCTGCA
1 AATTGAA-GTGTTTAAGTGCTGCA
* * *
55082332 AATTTAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
55082355 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
*
55082378 AATTGAAGTGTTT-AGTTGCTGAA
1 AATTGAAGTGTTTAAG-TGCTGCA
* *
55082401 AATTG-AGATGTTTTA-TCGCTG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * **
55082423 AATTGATGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
*
55082446 AATTGATA-TG-TT-GGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
55082467 AATTGAAGTGTTTAA
1 AATTGAAGTGTTTAA
55082482 ATTTAACTTG
Statistics
Matches: 1218, Mismatches: 231, Indels: 192
0.74 0.14 0.12
Matches are distributed among these distances:
20 1 0.00
21 12 0.01
22 207 0.17
23 941 0.77
24 57 0.05
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (23 bp):
AATTGAAGTGTTTAAGTGCTGCA
Found at i:55081155 original size:114 final size:114
Alignment explanation
Indices: 55080944--55081492 Score: 279
Period size: 114 Copynumber: 4.8 Consensus size: 114
55080934 GCAAATTTAA
* * *
55080944 GTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGCAGTGTTTAAGTGCTGCAAAT
1 GTGTATAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAAT
*
55081009 TGAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCCGTAATTGAG
66 TGAAGTGCTTAGTTGCTGCAAATTGAGATGTTTTATCGCCGTAATTGAG
* * * * *
55081058 GTGTATAAATGTTTTTAATTGATA-TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGTTGTAAA
1 GTGTATAAATGTTGTAAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAA
* * * * *
55081122 TTGACGTG-TTAAAG-TGCTGCAAATTGA-AGTGTTTAAGT-GCTGCAAATTGAA
65 TTGAAGTGCTT--AGTTGCTGCAAATTGAGA-TGTTTTA-TCGCCG-TAATTGAG
** * * * * * * * **
55081173 GTGCT-TAGTTGCTGCAAATTG-AGATGTTTTA-TCGCTG-TAATTGAGGTGTATAAATGTTGTT
1 GTG-TATAAATGTTGTAAATTGAAG-TGTTTAAGT-GCTGCAAATTGAAGTGTTTAAATGCTGCA
* * * * *
55081234 AATTGATA-TGTTTAAG-TGCTGCAAATTTA-AGTGTTTAAAT-GCTGTAAATTGAC
63 AATTGA-AGTGCTT-AGTTGCTGCAAATTGAGA-TGTTT-TATCGCCGT-AATTGAG
* * * * ** *
55081287 GTGTTTAAGTGCTGCAAATTGAAGTGTTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTGGAAA
1 GTGTATAAATGTTGTAAATTGAAGTG-TTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAA
* * * * * ** ** * *
55081352 TTG-AGATGTTTTA-TCGCCG-TAATTGAGGTGTATAAAT-GTTGTTAACTGAT
65 TTGAAG-TG-CTTAGTTGCTGCAAATTGAGATGT-TTTATCGCCG-TAATTGAG
* * * * * * * *
55081402 ATGTTTAAGTGTTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAAT
1 GTGTATAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAAT
*
55081467 TGAAGTGTTTAAG-TGCTGCAAATTGA
66 TGAAGTGCTT-AGTTGCTGCAAATTGA
55081493 AGTGCTTAGT
Statistics
Matches: 344, Mismatches: 61, Indels: 59
0.74 0.13 0.13
Matches are distributed among these distances:
113 8 0.02
114 205 0.60
115 97 0.28
116 31 0.09
117 3 0.01
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.39
Consensus pattern (114 bp):
GTGTATAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAAT
TGAAGTGCTTAGTTGCTGCAAATTGAGATGTTTTATCGCCGTAATTGAG
Found at i:55081176 original size:160 final size:160
Alignment explanation
Indices: 55080905--55081811 Score: 1638
Period size: 160 Copynumber: 5.7 Consensus size: 160
55080895 AGCAGCATCG
*
55080905 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGTTGTAAATTGAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
*
55080970 TTTAAGTGCTGCAAATTGCAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
66 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
55081035 GATGTTTTATCGCCGTAATTGAGGTGTATA
131 GATGTTTTATCGCCGTAATTGAGGTGTATA
* * *
55081065 AATGTTTTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGTTGTAAATTGACGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
* *
55081130 TTAAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGCAAATTGA
66 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
*
55081195 GATGTTTTATCGCTGTAATTGAGGTGTATA
131 GATGTTTTATCGCCGTAATTGAGGTGTATA
*
55081225 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGACGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
*
55081290 TTTAAGTGCTGCAAATTGAAGTGTTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTGGAAATTG
66 TTTAAGTGCTGCAAATTGAAGTG-TTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTG
55081355 AGATGTTTTATCGCCGTAATTGAGGTGTATA
130 AGATGTTTTATCGCCGTAATTGAGGTGTATA
* *
55081386 AATGTTGTTAACTGATATGTTTAAGTGTTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
55081451 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
66 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
*
55081516 GATGTTTTATCGCTGTAATTGAGGTGTATA
131 GATGTTTTATCGCCGTAATTGAGGTGTATA
*
55081546 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGTTGTAAATTGAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
55081611 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
66 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
55081676 GATGTTTTATCGCCGTAATTGAGGTGTATA
131 GATGTTTTATCGCCGTAATTGAGGTGTATA
55081706 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTG-TTAAATGCTGTAAATTGAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
* *
55081770 TTTAAGTGCTGCAAATTGAAGTGCTT-AGTTGCTGGAAATTGA
66 TTTAAGTGCTGCAAATTGAAGTGTTTAAG-TGCTGCAAATTGA
55081812 GATGTTTTAT
Statistics
Matches: 721, Mismatches: 24, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
158 2 0.00
159 58 0.08
160 507 0.70
161 154 0.21
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.39
Consensus pattern (160 bp):
AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
GATGTTTTATCGCCGTAATTGAGGTGTATA
Found at i:55081214 original size:137 final size:135
Alignment explanation
Indices: 55080914--55082483 Score: 878
Period size: 137 Copynumber: 11.5 Consensus size: 135
55080904 GAATGTTGTT
* * * * * *
55080914 AATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTGC
1 AATTGA-ATGTTTAA-TGCTGCTAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGC
* * *
55080979 TGCAAATTGCAGTGTTTAAGTGCTGCAAATTGAAGTGCTT-AGTTGCTGGAAATTG-AGATGTTT
64 TGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAG-TGCTGCAAATTGAAG-TG-TT
* *
55081042 TA-TCGCCG-T
126 TAGT-GCTGCA
* * * ** *
55081051 AATTGAGGTGTATAAATGTTTTTAATTGATA-TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATG
1 AATTGA-ATGT-TTAATGCTGCTAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATG
* * * * *
55081115 TTGTAAATTGACGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTA
63 CTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTA
55081180 GTTGCTGCA
128 G-TGCTGCA
* * * * * ** *
55081189 AATTGAGATGTTTTATCGCTG-TAATTGAGGTGTATAAATGTTGTTAATTGATA-TGTTTAAGTG
1 AATTGA-ATGTTTAAT-GCTGCTAATTGAAGTGTTTAAGTGCTGCAAATTGA-AGTGTTTAAATG
* * * *
55081252 CTGCAAATTTAAGTGTTTAAATGCTGTAAATTGACGTGTTTAAGTGCTGCAAATTGAAGTGTTTT
63 CTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTG-TTT
55081317 AAGTGCTGCA
127 -AGTGCTGCA
* ** * * * * *
55081327 AATTGAAGTGTTTAGTTGCTGGAAATTG-AGATGTTTTA-TCGCCG-TAATTGAGGTGTATAAAT
1 AATTGAA-TGTTTA-ATGCTGCTAATTGAAG-TGTTTAAGT-GCTGCAAATTGAAGTGTTTAAAT
* ** * * * * *
55081389 GTTGTTAACTGATA-TGTTTAAGTGTTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTT
62 GCTGCAAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTT
55081453 TAAGTGCTGCA
126 T-AGTGCTGCA
* * * *
55081464 AATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTT-AGTTGCTGGAAATTG-AGATGTTT-TAT
1 AATTGAA-TGTTTAA-TGCTGCTAATTGAAGTGTTTAAG-TGCTGCAAATTGAAG-TGTTTAAAT
* * * * * ** *
55081526 CGCTG-TAATTGAGGTGTATAAATGTTGTTAATTGATA-TGTTTAAGTGCTGCAAATTTAAGTGT
62 -GCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGT
* * *
55081589 TTAAATGTTGTA
125 TT-AGTGCTGCA
* * **
55081601 AATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGC
1 AATTGAA-TGTTTAA-TGCTGCTAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGC
* * * * * * * * **
55081666 TGGAAATTG-AGATGTTTTA-TCGCCG-TAATTGAGGTGTATAAATGTTGTTAATTGATA-TGTT
64 TGCAAATTGAAG-TGTTTAAGT-GCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA-AGTGTT
55081727 TAAGTGCTGCA
126 T-AGTGCTGCA
* * * **
55081738 AATTTAAGTGTTAAATGCTG-TAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGC
1 AATTGAA-TGTTTAATGCTGCT-AATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGC
* * * * * * * **
55081802 TGGAAATTG-AGATGTTTTA-TCGCTG-TAATTGAGGTGTATAAATGTTGTTAATTGATA-TGTT
64 TGCAAATTGAAG-TGTTTAAGT-GCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA-AGTGTT
55081863 TAAGTGCTGCA
126 T-AGTGCTGCA
* * * ** *
55081874 AATTTAAGTGTTTAAATGCTG-TAAATTGAAGTGTTTAATTGCTGCAAATTGCAGACTTTAAGTG
1 AATTGAA-TGTTT-AATGCTGCT-AATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATG
* * * * *
55081938 CTGCAAATTGAAGTGCTT-AGTTGCTGGAAATTG-AGATGTTTTA-TCGCTG-TAATTGAGGTGT
63 CTGCAAATTGAAGTGTTTAAG-TGCTGCAAATTGAAG-TGTTTAAGT-GCTGCAAATTGAAGTGT
* * * **
55081999 ATAAATGTTGTT
125 -TTAGTGCTGCA
* * * * * * *
55082011 AATTGATATGTTTAAGTGCTGCAAATTTAAGTGATTAAATGCTGTAAATTGACGTGTTTAAGTGC
1 AATTGA-ATGTTTAA-TGCTGCTAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGC
* *
55082076 TGCAAATTGAAGTGTTTTAAGTGCAGCAAATTGAAGTGTTT-AGTTGCTGGAAATTG-AGATGTT
64 TGCAAATTGAAGTG-TTTAAGTGCTGCAAATTGAAGTGTTTAAG-TGCTGCAAATTGAAG-TG-T
* *
55082139 TTA-TCGCCG-T
125 TTAGT-GCTGCA
* * * * * * *
55082149 AATTGAGGTGTATAAATGTTGTTAACTGATA-TGTTTAAGTGTTGCAAATTGAAGTGTTTAAGTG
1 AATTGA-ATGT-TTAATGCTGCTAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATG
* *
55082213 CTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTT-AGTTGCTGGAAATTG-AGATGTT
63 CTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAG-TGCTGCAAATTGAAG-TG-T
*
55082276 TTA-TCGCTG-T
125 TTAGT-GCTGCA
* * * * * *
55082286 AATTGAGGTGTGTAAATGTTGTTAATT-AATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATG
1 AATTGA-ATGT-TTAATGCTGCTAATTGAA-GTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATG
* *
55082350 CTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTT-AGTTGCTGAAAATTG-AGATGTT
63 CTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAG-TGCTGCAAATTGAAG-TG-T
*
55082413 TTA-TCGCTG-T
125 TTAGT-GCTGCA
* * *
55082423 AATTG-ATGTGTATAAATGTTGTTAATTGATA-TG-TT-GGTGCTGCAAATTGAAGTGTTTAAAT
1 AATTGAATGT-T-T-AATGCTGCTAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAAT
55082484 TTAACTTGTT
Statistics
Matches: 1185, Mismatches: 182, Indels: 134
0.79 0.12 0.09
Matches are distributed among these distances:
135 30 0.03
136 140 0.12
137 730 0.62
138 247 0.21
139 37 0.03
140 1 0.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (135 bp):
AATTGAATGTTTAATGCTGCTAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTG
CAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTG
CTGCA
Found at i:55081735 original size:68 final size:68
Alignment explanation
Indices: 55081663--55081877 Score: 249
Period size: 68 Copynumber: 3.2 Consensus size: 68
55081653 AGTGCTTAGT
* *
55081663 TGCTGGAAATTGAGATGTTTTATCGCCGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTT
1 TGCTGCAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTT
55081728 AAG
66 AAG
* ** * * * * **
55081731 TGCTGCAAATTTA-AGTGTTAAAT-GCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGA-AGTG
1 TGCTGCAAATTGAGA-TGTTTTATCGCTGT-AATTGAGGTGTATAAATGTTGTTAATTGATA-TG
*
55081793 CTT-AG
63 TTTAAG
*
55081798 TTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTT
1 -TGCTGCAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTT
55081863 TAAG
65 TAAG
55081867 TGCTGCAAATT
1 TGCTGCAAATT
55081878 TAAGTGTTTA
Statistics
Matches: 115, Mismatches: 24, Indels: 16
0.74 0.15 0.10
Matches are distributed among these distances:
67 8 0.07
68 98 0.85
69 9 0.08
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (68 bp):
TGCTGCAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTT
AAG
Found at i:55081786 original size:136 final size:137
Alignment explanation
Indices: 55081586--55081924 Score: 599
Period size: 136 Copynumber: 2.5 Consensus size: 137
55081576 CAAATTTAAG
* * * * * *
55081586 TGTTTAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATT
1 TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATT
55081651 GAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCCGTAATTGAGGTGTATAAATGTTGTTA
66 GAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCCGTAATTGAGGTGTATAAATGTTGTTA
55081716 ATTGATA
131 ATTGATA
55081723 TGTTTAAGTGCTGCAAATTTAAGTG-TTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATT
1 TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATT
*
55081787 GAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
66 GAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCCGTAATTGAGGTGTATAAATGTTGTTA
55081852 ATTGATA
131 ATTGATA
*
55081859 TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAATTGCTGCAAATT
1 TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATT
55081924 G
66 G
55081925 CAGACTTTAA
Statistics
Matches: 193, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
136 133 0.69
137 60 0.31
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (137 bp):
TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATT
GAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCCGTAATTGAGGTGTATAAATGTTGTTA
ATTGATA
Found at i:55081967 original size:160 final size:160
Alignment explanation
Indices: 55081403--55082269 Score: 855
Period size: 160 Copynumber: 5.4 Consensus size: 160
55081393 TTAACTGATA
* * * * * **
55081403 TGTTTAAGTGTTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATT
1 TGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGACTTTAAGTGCTGCAAATT
* * * * * * ** *
55081468 GAAGTGTTTAAG-TGCTGCAAATTGA-A-GTGCTTAGTTGCTGGAAATTGAGATGT-TTTATCGC
66 GAAGTGCTT-AGTTGCTGGAAATTGAGATGT-TTTA-TCGCT-GTAATTGAGGTGTATAAAT-GT
** * * * ** *
55081529 TG-TAATTGAGGTGTATAAATGTTGTTAATTGATA-
126 TGTTAATTGATATGTTTAAGTGCTGCAAATTTA-AG
* * * * * **
55081563 TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTGCTGCAAATT
1 TGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGACTTTAAGTGCTGCAAATT
* * * * * * ** *
55081628 GAAGTGTTTAAG-TGCTGCAAATTGA-A-GTGCTTAGTTGCTGGAAATTGAGATGT-TTTATCGC
66 GAAGTGCTT-AGTTGCTGGAAATTGAGATGT-TTTA-TCGCT-GTAATTGAGGTGTATAAAT-GT
* ** * * * ** *
55081689 CG-TAATTGAGGTGTATAAATGTTGTTAATTGATA-
126 TGTTAATTGATATGTTTAAGTGCTGCAAATTTA-AG
* * * * **
55081723 TGTTTAAGTGCTGCAAATTTAAGTG-TTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATT
1 TGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGACTTTAAGTGCTGCAAATT
55081787 GAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
66 GAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
55081852 ATTGATATGTTTAAGTGCTGCAAATTTAAG
131 ATTGATATGTTTAAGTGCTGCAAATTTAAG
* * *
55081882 TGTTTAAATGCTGTAAATTGAAGTGTTTAATTGCTGCAAATTGCAGACTTTAAGTGCTGCAAATT
1 TGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGACTTTAAGTGCTGCAAATT
55081947 GAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
66 GAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
55082012 ATTGATATGTTTAAGTGCTGCAAATTTAAG
131 ATTGATATGTTTAAGTGCTGCAAATTTAAG
* * * ** *
55082042 TGATTAAATGCTGTAAATTGACGTGTTTAAGTGCTGCAAATTGAAGTGTTTTAAGTGCAGCAAAT
1 TGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAG-ACTTTAAGTGCTGCAAAT
* *
55082107 TGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATCGCCGTAATTGAGGTGTATAAATGTTGTT
65 TGAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTT
* * *
55082172 AACTGATATGTTTAAGTGTTGCAAATTGAAG
130 AATTGATATGTTTAAGTGCTGCAAATTTAAG
* *
55082203 TGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTA-TTT-AGTTGCTGGAAA
1 TGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAG-ACTTTAAG-TGCTGCAAA
55082266 TTGA
64 TTGA
55082270 GATGTTTTAT
Statistics
Matches: 649, Mismatches: 49, Indels: 18
0.91 0.07 0.03
Matches are distributed among these distances:
158 16 0.02
159 111 0.17
160 371 0.57
161 151 0.23
ACGTcount: A:0.30, C:0.07, G:0.24, T:0.39
Consensus pattern (160 bp):
TGTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGACTTTAAGTGCTGCAAATT
GAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
ATTGATATGTTTAAGTGCTGCAAATTTAAG
Found at i:55083152 original size:43 final size:43
Alignment explanation
Indices: 55083105--55083540 Score: 635
Period size: 43 Copynumber: 10.1 Consensus size: 43
55083095 ACCTTCAGTT
* * * * **
55083105 GCGTTTTTGGGAAAAGCACCACTAAAGGTTTTGGTCTTTAGCG
1 GCGTTTGTGGGAGAAGCGCCGCTAAAGGTCCTGGTCTTTAGCG
*
55083148 GCGTTTGTGGGAGAAGTGCCGCTAAAGGTCCTGGTCTTTAGCG
1 GCGTTTGTGGGAGAAGCGCCGCTAAAGGTCCTGGTCTTTAGCG
* * *
55083191 GCGTTTGTGGGAAAAGTGCCGCTAAAGGTTCTGGTCTTTAGCG
1 GCGTTTGTGGGAGAAGCGCCGCTAAAGGTCCTGGTCTTTAGCG
*
55083234 GCGTTT-TCGGGAGAAGCGCCGCTAAAGGTTCTGGTCTTTAGCG
1 GCGTTTGT-GGGAGAAGCGCCGCTAAAGGTCCTGGTCTTTAGCG
*
55083277 GCGTTT-TCGAGAGAAGCGCCGCTAAAGGTCCTGGTCTTTAGCG
1 GCGTTTGT-GGGAGAAGCGCCGCTAAAGGTCCTGGTCTTTAGCG
55083320 GCGTTTGTGGGAGAAGCGCCGCTAAAGGTCCTGGTCTTTAGCG
1 GCGTTTGTGGGAGAAGCGCCGCTAAAGGTCCTGGTCTTTAGCG
55083363 GCGTTT-TCGGGAGAAGCGCCGCTAAAGGTCCTGGTCTTTAGCG
1 GCGTTTGT-GGGAGAAGCGCCGCTAAAGGTCCTGGTCTTTAGCG
* * *
55083406 GCGTTTGCGGGAGAAGCGTCGCTAAAGGTCTTGGTCTTTAGCG
1 GCGTTTGTGGGAGAAGCGCCGCTAAAGGTCCTGGTCTTTAGCG
* *
55083449 GCGTTTGTGGGAAAAGCGCCGCTAAAGATCCTGGTCTTTAGCG
1 GCGTTTGTGGGAGAAGCGCCGCTAAAGGTCCTGGTCTTTAGCG
* ** *
55083492 GCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTAATCTTTAGTG
1 GCGTTTGTGGGAGAAGCGCCGCTAAAGGTCCTGGTCTTTAGCG
55083535 GCGTTT
1 GCGTTT
55083541 TTTTCGGCGC
Statistics
Matches: 363, Mismatches: 26, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
42 2 0.01
43 360 0.99
44 1 0.00
ACGTcount: A:0.18, C:0.20, G:0.34, T:0.28
Consensus pattern (43 bp):
GCGTTTGTGGGAGAAGCGCCGCTAAAGGTCCTGGTCTTTAGCG
Found at i:55083714 original size:43 final size:43
Alignment explanation
Indices: 55083617--55083700 Score: 125
Period size: 43 Copynumber: 1.9 Consensus size: 43
55083607 AGTGCATGCG
* *
55083617 AAAATGGCTTAATGTTCTTGTCTATGCTTGGTGTTTTGTTAAA
1 AAAATGGCTTAACGTTCTTGTCTATGCTTGGTGTTGTGTTAAA
55083660 AAAATGGCTTAACGTTCTTGTCTATG-TTCGGTGTTCGTGTT
1 AAAATGGCTTAACGTTCTTGTCTATGCTT-GGTGTT-GTGTT
55083701 GGATAATGGC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 2 0.05
43 31 0.84
44 4 0.11
ACGTcount: A:0.20, C:0.12, G:0.23, T:0.45
Consensus pattern (43 bp):
AAAATGGCTTAACGTTCTTGTCTATGCTTGGTGTTGTGTTAAA
Done.