Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 138 of 310
Found at i:44820017 original size:28 final size:28
Alignment explanation
Indices: 44819972--44820042 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 28
44819962 TAGGATATGA
*
44819972 CATTGTGCTAAGTGAAATAAGTCCATGG
1 CATTGTGCTAAGTGAAATAAGCCCATGG
44820000 CAATT-TGCTAAGTGAAATAAGCCCATGG
1 C-ATTGTGCTAAGTGAAATAAGCCCATGG
44820028 CATTGTGCTAAGTGA
1 CATTGTGCTAAGTGA
44820043 GAAATTTCTC
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
27 3 0.08
28 34 0.85
29 3 0.08
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (28 bp):
CATTGTGCTAAGTGAAATAAGCCCATGG
Found at i:44821522 original size:40 final size:40
Alignment explanation
Indices: 44821455--44821740 Score: 404
Period size: 40 Copynumber: 7.2 Consensus size: 40
44821445 CCTTCGGAGT
* *
44821455 TTAG-CCGGATATAGCT-ACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
*
44821494 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
44821534 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
44821573 TTAGCCC-GAAATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
* *
44821613 TTAGCCCGGTTATCGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
44821653 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
44821692 TTAGCCC-GAAATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
44821732 TTAGCCCGG
1 TTAGCCCGG
44821741 TTATCAATCC
Statistics
Matches: 222, Mismatches: 17, Indels: 14
0.88 0.07 0.06
Matches are distributed among these distances:
38 6 0.03
39 69 0.31
40 144 0.65
41 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:44821598 original size:79 final size:80
Alignment explanation
Indices: 44821455--44821740 Score: 404
Period size: 79 Copynumber: 3.6 Consensus size: 80
44821445 CCTTCGGAGT
* *
44821455 TTAG-CCGGATATAGCT-ACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 TTAGCCCGGATATAG-TAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
44821518 CAAATGCCTTCGGGAC
65 CAAATGCCTTCGGGAC
* * * *
44821534 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCC-GAAATTAGTCACTAGCA
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
44821597 CAAATGCCTTCGGGAC
65 CAAATGCCTTCGGGAC
* * *
44821613 TTAGCCCGGTTATCGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
44821678 AAATGCCTTCGGG-C
66 AAATGCCTTCGGGAC
* *
44821692 TTAGCCC-GAAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
44821741 TTATCAATCC
Statistics
Matches: 185, Mismatches: 16, Indels: 12
0.87 0.08 0.06
Matches are distributed among these distances:
78 4 0.02
79 117 0.63
80 61 0.33
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
AAATGCCTTCGGGAC
Found at i:44821656 original size:119 final size:119
Alignment explanation
Indices: 44821471--44821745 Score: 532
Period size: 119 Copynumber: 2.3 Consensus size: 119
44821461 GGATATAGCT
* *
44821471 ACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATCGTAACTCGCACAAATGCCTTCGGGACTT
44821536 AGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGAAATTAGTC
66 AGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGAAATTAGTC
44821590 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATCGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATCGTAACTCGCACAAATGCCTTCGGGACTT
44821655 AGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGAAATTAGTC
66 AGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGAAATTAGTC
44821709 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATC
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATC
44821746 AATCCGAATA
Statistics
Matches: 154, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
119 154 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (119 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATCGTAACTCGCACAAATGCCTTCGGGACTT
AGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGAAATTAGTC
Found at i:44823436 original size:51 final size:50
Alignment explanation
Indices: 44823358--44823486 Score: 197
Period size: 51 Copynumber: 2.5 Consensus size: 50
44823348 TTAGGGTTGT
* *
44823358 CACAAGTGTGGTACTATATGAAGGCCACTTTGTGAATATAATAGCTTTGG
1 CACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTTTGG
44823408 ACACAAGTGTGGTACTATGTG-AGAGCCACTTTGTGAATAAAATAGCTTTGG
1 -CACAAGTGTGGTACTATGTGAAG-GCCACTTTGTGAATAAAATAGCTTTGG
*
44823459 CTACAAGGGTGGTACTATGTGAAGGCCA
1 C-ACAAGTGTGGTACTATGTGAAGGCCA
44823487 TCGTGTATCC
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
50 3 0.04
51 67 0.93
52 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (50 bp):
CACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTTTGG
Found at i:44826338 original size:23 final size:22
Alignment explanation
Indices: 44826278--44826346 Score: 70
Period size: 21 Copynumber: 3.1 Consensus size: 22
44826268 TCATTCATTC
* *
44826278 ATTAAGGCCAAATTGTTTACAAA
1 ATTAAGG-CAAACTATTTACAAA
*
44826301 ATGAAGG-AAACTATTTACAAA
1 ATTAAGGCAAACTATTTACAAA
*
44826322 ATTAAGGTCAAACTA-TTACCAA
1 ATTAAGG-CAAACTATTTACAAA
44826344 ATT
1 ATT
44826347 TATCTACAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 18 0.46
22 9 0.23
23 12 0.31
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (22 bp):
ATTAAGGCAAACTATTTACAAA
Found at i:44826716 original size:21 final size:21
Alignment explanation
Indices: 44826690--44826736 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
44826680 AGCTTTTGCC
* *
44826690 TTGGGGCAGCTTGTTGGTAAG
1 TTGGGGCAGCTTCTTGATAAG
* *
44826711 TTGGGGTAGCTTCTTGATGAG
1 TTGGGGCAGCTTCTTGATAAG
44826732 TTGGG
1 TTGGG
44826737 ACAAACACTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.13, C:0.09, G:0.43, T:0.36
Consensus pattern (21 bp):
TTGGGGCAGCTTCTTGATAAG
Found at i:44827403 original size:63 final size:65
Alignment explanation
Indices: 44827322--44827467 Score: 190
Period size: 65 Copynumber: 2.3 Consensus size: 65
44827312 GTAAAGGCAT
* * *
44827322 CATGTGATGGCAT-AATAA-G-CATGTGATATTAAAAAATAGTAAATGCGGGATGGGAAACACCA
1 CATGTGATGG-ATGAATAAGGACATGTGATATTAAAAAATAGTAAAGGCAGGATAGGAAACACCA
44827384 A
65 A
* * * *
44827385 CATGTGATGGATGAATAAGGACATGTGATATTAAAAAATAGTAAAGGCATGCTAGGACACACCAG
1 CATGTGATGGATGAATAAGGACATGTGATATTAAAAAATAGTAAAGGCAGGATAGGAAACACCAA
*
44827450 CATGTGATGGAAGAATAA
1 CATGTGATGGATGAATAA
44827468 AGGCTTACAT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
62 2 0.03
63 15 0.21
64 1 0.01
65 54 0.75
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.22
Consensus pattern (65 bp):
CATGTGATGGATGAATAAGGACATGTGATATTAAAAAATAGTAAAGGCAGGATAGGAAACACCAA
Found at i:44835284 original size:42 final size:43
Alignment explanation
Indices: 44835223--44835305 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 43
44835213 ACGACCTACT
* *
44835223 CACATGGTCCTGTACCTCAGTTGCACGGGTGTGT-CCCCTAGC
1 CACATGGTCCTGTACCTCAGTCGCACGGCTGTGTACCCCTAGC
* * *
44835265 CACATGGTCGTTTATCTCAGTCGCACGGCTGTGTACCCCTA
1 CACATGGTCCTGTACCTCAGTCGCACGGCTGTGTACCCCTA
44835306 TCATACGATC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 29 0.83
43 6 0.17
ACGTcount: A:0.16, C:0.33, G:0.24, T:0.28
Consensus pattern (43 bp):
CACATGGTCCTGTACCTCAGTCGCACGGCTGTGTACCCCTAGC
Found at i:44837240 original size:25 final size:25
Alignment explanation
Indices: 44837212--44837261 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
44837202 TAACTAAAGA
*
44837212 AATCTAATTCACTACATATTCATAT
1 AATCCAATTCACTACATATTCATAT
* *
44837237 AATCCAATTCATTGCATATTCATAT
1 AATCCAATTCACTACATATTCATAT
44837262 TCGTACAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.40
Consensus pattern (25 bp):
AATCCAATTCACTACATATTCATAT
Found at i:44840078 original size:27 final size:27
Alignment explanation
Indices: 44840038--44840149 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
44840028 AGGAAGCGTC
*
44840038 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
44840065 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
44840092 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
44840120 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
44840146 CTGG
1 CTGG
44840150 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:44840142 original size:54 final size:54
Alignment explanation
Indices: 44840038--44840149 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
44840028 AGGAAGCGTC
*
44840038 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
44840092 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
44840146 CTGG
1 CTGG
44840150 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:44848119 original size:54 final size:54
Alignment explanation
Indices: 44848042--44848207 Score: 244
Period size: 54 Copynumber: 3.1 Consensus size: 54
44848032 AGGAAGCGTC
* * * *
44848042 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGGT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
44848096 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * **
44848150 CTAGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTTACAT-TATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTG-ATCTGGTGGCTCTGCCACATATATCTGTT
44848204 CTGG
1 CTGG
44848208 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 85 0.83
55 17 0.17
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:44848197 original size:27 final size:26
Alignment explanation
Indices: 44848042--44848207 Score: 197
Period size: 27 Copynumber: 6.2 Consensus size: 26
44848032 AGGAAGCGTC
* *
44848042 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
44848069 CTGGTGGCTCTGCCACATATATCTGGT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
44848096 CTGGTGGCTCTGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
44848123 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
44848150 CTAGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* ** *
44848178 CTGGTGACTCTGTTACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
44848204 CTGG
1 CTGG
44848208 CAGCCATGCT
Statistics
Matches: 122, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.07
27 97 0.80
28 17 0.14
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:44848198 original size:81 final size:81
Alignment explanation
Indices: 44848042--44848207 Score: 219
Period size: 81 Copynumber: 2.0 Consensus size: 81
44848032 AGGAAGCGTC
* * *
44848042 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGGTCTGGTGGCTCT
1 CTGGTGGCTATGCCACAAATATCTGATCTAGTGGCTCTGCCACATATATCTGATCTGGTGACTCT
44848107 GCCACGATTATCTGAT
66 GCCACGATTATCTGAT
* * *
44848123 CTGGTGGCTCTGCCACATATATCTGTTCTAGTGGCTCTGCCACGAT-TATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAATATCTGATCTAGTGGCTCTGCCAC-ATATATCTG-ATCTGGTGACT
** *
44848187 CTGTTAC-ATTATCTGTT
64 CTGCCACGATTATCTGAT
44848204 CTGG
1 CTGG
44848208 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
81 58 0.78
82 16 0.22
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAAATATCTGATCTAGTGGCTCTGCCACATATATCTGATCTGGTGACTCT
GCCACGATTATCTGAT
Found at i:44849417 original size:14 final size:14
Alignment explanation
Indices: 44849398--44849426 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44849388 GAAGTTTGGC
44849398 AAAAATATCAATTT
1 AAAAATATCAATTT
44849412 AAAAATATCAATTT
1 AAAAATATCAATTT
44849426 A
1 A
44849427 GATTATAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAAATATCAATTT
Found at i:44853842 original size:20 final size:20
Alignment explanation
Indices: 44853817--44853858 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
44853807 TATTTAATCT
44853817 AAGCGTTTGGGAATGTACTC
1 AAGCGTTTGGGAATGTACTC
44853837 AAGCGTTTGGGAATGTACTC
1 AAGCGTTTGGGAATGTACTC
44853857 AA
1 AA
44853859 CCATTTCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (20 bp):
AAGCGTTTGGGAATGTACTC
Found at i:44860853 original size:19 final size:19
Alignment explanation
Indices: 44860826--44860872 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
44860816 TTTACAAGAA
44860826 AATAT-TGAAAAATA-AAG
1 AATATATGAAAAATATAAG
44860843 AATATAGTGAAAAATATAAG
1 AATATA-TGAAAAATATAAG
44860863 AATATATGAA
1 AATATATGAA
44860873 TATTGTAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.19
19 13 0.48
20 9 0.33
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.26
Consensus pattern (19 bp):
AATATATGAAAAATATAAG
Found at i:44861417 original size:22 final size:22
Alignment explanation
Indices: 44861392--44861467 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
44861382 TTCACACTTT
*
44861392 GGTGCTTAGTGATTTTCATTTC
1 GGTGCTTACTGATTTTCATTTC
44861414 GGTGCTTACTG-TTTTGCATTTC
1 GGTGCTTACTGATTTT-CATTTC
* * * *
44861436 TGTGCTTATTGATTTGCACTTC
1 GGTGCTTACTGATTTTCATTTC
*
44861458 GGTGCCTACT
1 GGTGCTTACT
44861468 CTTCTATTAG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
21 4 0.09
22 37 0.84
23 3 0.07
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.47
Consensus pattern (22 bp):
GGTGCTTACTGATTTTCATTTC
Found at i:44869097 original size:3 final size:3
Alignment explanation
Indices: 44869076--44869260 Score: 130
Period size: 3 Copynumber: 61.7 Consensus size: 3
44869066 TACTATTGTC
* * * **
44869076 ATT ATT AAT ATAT ACT ATT ATT ATT ATT ATT AAT A-T ATT GCT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * **
44869121 ATT ATT ATT ATT ATT ACT AAT ATC ACT ATT ACC ATT -TT -TT ATT ACTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
* *
44869168 -TT ATT ATT ATT ATT ATT ATT ATTT ACT ATCT AAT A-T ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT AT-T ATT ATT ATT ATT ATT
* * *
44869213 ACCTT ATT ATT ATT ATT ACT ATT -GT ATT ATT ACT ATT ATT ATT ATT
1 A--TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
44869259 AT
1 AT
44869261 ATTTTCTTTT
Statistics
Matches: 142, Mismatches: 29, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
2 11 0.08
3 119 0.84
4 9 0.06
5 3 0.02
ACGTcount: A:0.34, C:0.08, G:0.01, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:44869120 original size:23 final size:24
Alignment explanation
Indices: 44869066--44869130 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 24
44869056 TATTATTTTC
* *
44869066 TACTATTGTCATTATTAATATATA
1 TACTATTATTATTATTAATATATA
*
44869090 CTATTATTATTATTATTAATATAT-
1 -TACTATTATTATTATTAATATATA
*
44869114 TGCTATTATTATTATTA
1 TACTATTATTATTATTA
44869131 TTATTACTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 15 0.43
25 20 0.57
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (24 bp):
TACTATTATTATTATTAATATATA
Found at i:44869249 original size:23 final size:23
Alignment explanation
Indices: 44869066--44869263 Score: 95
Period size: 23 Copynumber: 8.5 Consensus size: 23
44869056 TATTATTTTC
* *
44869066 TACTATTGTCATTATTAATA-TA-
1 TACTATTAT-ATTATTACTATTAT
*
44869088 TACTATTATTATTATTATTAATATAT
1 TACTATTA-TATTATTACT-AT-TAT
* *
44869114 TGCTA-T-TATTATTATTATTAT
1 TACTATTATATTATTACTATTAT
* * *
44869135 TACTAATATCACTATTACCATT-T
1 TACTATTAT-ATTATTACTATTAT
* * *
44869158 T-TTATTACTTTTATTATTATTAT
1 TACTATTA-TATTATTACTATTAT
* *
44869181 TATTATTAT-TTACTATCTAATATAT
1 TACTATTATATTATTA-CT-AT-TAT
* ** *
44869206 TATTATTACCTTATTATTATTAT
1 TACTATTATATTATTACTATTAT
*
44869229 TACTATTGTATTATTACTATTAT
1 TACTATTATATTATTACTATTAT
*
44869252 TATTATTATATT
1 TACTATTATATT
44869264 TTCTTTTTTT
Statistics
Matches: 136, Mismatches: 25, Indels: 29
0.72 0.13 0.15
Matches are distributed among these distances:
21 7 0.05
22 35 0.26
23 51 0.38
24 19 0.14
25 15 0.11
26 9 0.07
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.58
Consensus pattern (23 bp):
TACTATTATATTATTACTATTAT
Found at i:44869444 original size:3 final size:3
Alignment explanation
Indices: 44869423--44869617 Score: 119
Period size: 3 Copynumber: 64.7 Consensus size: 3
44869413 CAAACTTTAG
* * * **
44869423 ATT ATTT ATT ATT -TGT ATT ATT GTT ATT ATT ACT ATTT ATT CTT ACC
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* * * *
44869470 ATT ATT ATT ACT ATT ATT TTT GCTT -TT ATT ATT ATT ACT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
44869514 GTT ATT ATT ATT TTCT ATT ACT ATT ATC ATT ATT ATT AAT ACT AAT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
44869560 ATT AAT ATT CTT ATT ATT ACT ATT ATT ATT ATC ATT AGT ATT ATA ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
44869608 ATT A-T ATT AT
1 ATT ATT ATT AT
44869618 CATGTTTTAT
Statistics
Matches: 144, Mismatches: 39, Indels: 18
0.72 0.19 0.09
Matches are distributed among these distances:
2 7 0.05
3 127 0.88
4 10 0.07
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:44881338 original size:44 final size:44
Alignment explanation
Indices: 44881282--44881878 Score: 305
Period size: 44 Copynumber: 13.6 Consensus size: 44
44881272 AAGTTTCAGC
* * * *
44881282 GGAGTAGATCGAAGCTACAAATCTTTTCTCCCTAAAATGGCACT
1 GGAGTAGCTCGAAGCCACAAATCTTTTCTCCTTGAAATGGCACT
* * * * * ** *
44881326 GGAGCT-GCTCGAAGCCATAATTCATATCTCCTTGAAGTTTCAAT
1 GGAG-TAGCTCGAAGCCACAAATCTTTTCTCCTTGAAATGGCACT
* * * *
44881370 GGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGAACT
1 GGAGTAGCTCGAAGCCACAAATCTTTTCTCCTTGAAATGGCACT
* * ** *
44881414 GGAGTGGCTCGAAGCCAC-AAT-TTGCATCTCCTTGAAATTTCAGT
1 GGAGTAGCTCGAAGCCACAAATCTT--TTCTCCTTGAAATGGCACT
* * * * * *
44881458 AGAGAAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCACT
1 GGAGTAGCTCGAAGCCACAAATCTTTTCTCCTTGAAATGGCACT
* * * * * * * **
44881502 AGAGTGGCTCGAAGCCATAATTCGTATCTCCTTGAAGTTTCAGC-
1 GGAGTAGCTCGAAGCCACAAATCTTTTCTCCTTGAAATGGCA-CT
* * * *
44881546 GGAGTAGATCGAAGCTACAAATCTTTTCTCCCTAAAATGGCACT
1 GGAGTAGCTCGAAGCCACAAATCTTTTCTCCTTGAAATGGCACT
* * * * * ** *
44881590 GGAGCT-GCTCGAAGCCATAATTCATATCTCCTTGAAGTTTCAAT
1 GGAG-TAGCTCGAAGCCACAAATCTTTTCTCCTTGAAATGGCACT
* * * *
44881634 GGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGAACT
1 GGAGTAGCTCGAAGCCACAAATCTTTTCTCCTTGAAATGGCACT
* * *** *
44881678 GGAGTGGCTCGAAGCCAC-AAT-TTGCATCTCCTTGAAATTTTAGT
1 GGAGTAGCTCGAAGCCACAAATCTT--TTCTCCTTGAAATGGCACT
* * * ** * *
44881722 AGAGAAGATCGAAGGTACAAATCTCTTCTCCCTGAAATGGCACT
1 GGAGTAGCTCGAAGCCACAAATCTTTTCTCCTTGAAATGGCACT
* * * **
44881766 AGAGTAGCTCAAAGCCAC-AAT-TTGTATCTCCTTGAAGTTTCAGC-
1 GGAGTAGCTCGAAGCCACAAATCTT-T-TCTCCTTGAAATGGCA-CT
* * * * * * *
44881810 GAAGAAGATCGAAGCTACAAATCTCTTCTCCATGAAATGGCGCT
1 GGAGTAGCTCGAAGCCACAAATCTTTTCTCCTTGAAATGGCACT
* * * *
44881854 AGAGTGGCTCAAAGCCACAAGTCTT
1 GGAGTAGCTCGAAGCCACAAATCTT
44881879 ATCTACCTGA
Statistics
Matches: 386, Mismatches: 147, Indels: 40
0.67 0.26 0.07
Matches are distributed among these distances:
42 3 0.01
43 14 0.04
44 352 0.91
45 14 0.04
46 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.27
Consensus pattern (44 bp):
GGAGTAGCTCGAAGCCACAAATCTTTTCTCCTTGAAATGGCACT
Found at i:44881374 original size:88 final size:88
Alignment explanation
Indices: 44881254--44881901 Score: 852
Period size: 88 Copynumber: 7.4 Consensus size: 88
44881244 GCTAGAAATT
* * *
44881254 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTTTTCTCCCTAAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
44881319 TGGCACTGGAGCT-GCTCGAAGCC
66 TGGCACTGGAG-TGGCTCGAAGCC
* * * *
44881342 ATAATTCATATCTCCTTGAAGTTTCAATGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
*
44881407 TGGAACTGGAGTGGCTCGAAGCC
66 TGGCACTGGAGTGGCTCGAAGCC
* * * * *
44881430 ACAATTTGCATCTCCTTGAAATTTCAGTAGAGAAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
*
44881495 TGGCACTAGAGTGGCTCGAAGCC
66 TGGCACTGGAGTGGCTCGAAGCC
* * * *
44881518 ATAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTTTTCTCCCTAAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
44881583 TGGCACTGGAGCT-GCTCGAAGCC
66 TGGCACTGGAG-TGGCTCGAAGCC
* * * *
44881606 ATAATTCATATCTCCTTGAAGTTTCAATGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
*
44881671 TGGAACTGGAGTGGCTCGAAGCC
66 TGGCACTGGAGTGGCTCGAAGCC
* * * * * * *
44881694 ACAATTTGCATCTCCTTGAAATTTTAGTAGAGAAGATCGAAGGTACAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* * *
44881759 TGGCACTAGAGTAGCTCAAAGCC
66 TGGCACTGGAGTGGCTCGAAGCC
* * * * *
44881782 ACAATTTGTATCTCCTTGAAGTTTCAGCGAAGAAGATCGAAGCTACAAATCTCTTCTCCATGAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* * *
44881847 TGGCGCTAGAGTGGCTCAAAGCC
66 TGGCACTGGAGTGGCTCGAAGCC
* * *
44881870 ACAAGTCTTATCTACC-TGAAGTTGCAGTGGAG
1 ACAATTCGTATCT-CCTTGAAGTTTCAGTGGAG
44881902 CAAATTGAAG
Statistics
Matches: 489, Mismatches: 67, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
87 2 0.00
88 484 0.99
89 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (88 bp):
ACAATTCGTATCTCCTTGAAGTTTCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
TGGCACTGGAGTGGCTCGAAGCC
Found at i:44881892 original size:264 final size:264
Alignment explanation
Indices: 44881254--44881850 Score: 1095
Period size: 264 Copynumber: 2.3 Consensus size: 264
44881244 GCTAGAAATT
44881254 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTTTTCTCCCTAAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTTTTCTCCCTAAAA
44881319 TGGCACTGGAGCTGCTCGAAGCCATAATTCATATCTCCTTGAAGTTTCAATGGAGTAGATCGAAG
66 TGGCACTGGAGCTGCTCGAAGCCATAATTCATATCTCCTTGAAGTTTCAATGGAGTAGATCGAAG
44881384 CTACAAATCTCTTCTCCTTGAAATGGAACTGGAGTGGCTCGAAGCCACAATTTGCATCTCCTTGA
131 CTACAAATCTCTTCTCCTTGAAATGGAACTGGAGTGGCTCGAAGCCACAATTTGCATCTCCTTGA
* *
44881449 AATTTCAGTAGAGAAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCACTAGAGTGGCTCGA
196 AATTTCAGTAGAGAAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCACTAGAGTAGCTCAA
44881514 AGCC
261 AGCC
*
44881518 ATAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTTTTCTCCCTAAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTTTTCTCCCTAAAA
44881583 TGGCACTGGAGCTGCTCGAAGCCATAATTCATATCTCCTTGAAGTTTCAATGGAGTAGATCGAAG
66 TGGCACTGGAGCTGCTCGAAGCCATAATTCATATCTCCTTGAAGTTTCAATGGAGTAGATCGAAG
44881648 CTACAAATCTCTTCTCCTTGAAATGGAACTGGAGTGGCTCGAAGCCACAATTTGCATCTCCTTGA
131 CTACAAATCTCTTCTCCTTGAAATGGAACTGGAGTGGCTCGAAGCCACAATTTGCATCTCCTTGA
* *
44881713 AATTTTAGTAGAGAAGATCGAAGGTACAAATCTCTTCTCCCTGAAATGGCACTAGAGTAGCTCAA
196 AATTTCAGTAGAGAAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCACTAGAGTAGCTCAA
44881778 AGCC
261 AGCC
* * * * * *
44881782 ACAATTTGTATCTCCTTGAAGTTTCAGCGAAGAAGATCGAAGCTACAAATCTCTTCTCCATGAAA
1 ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTTTTCTCCCTAAAA
44881847 TGGC
66 TGGC
44881851 GCTAGAGTGG
Statistics
Matches: 321, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
264 321 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (264 bp):
ACAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTTTTCTCCCTAAAA
TGGCACTGGAGCTGCTCGAAGCCATAATTCATATCTCCTTGAAGTTTCAATGGAGTAGATCGAAG
CTACAAATCTCTTCTCCTTGAAATGGAACTGGAGTGGCTCGAAGCCACAATTTGCATCTCCTTGA
AATTTCAGTAGAGAAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCACTAGAGTAGCTCAA
AGCC
Found at i:44881941 original size:45 final size:45
Alignment explanation
Indices: 44881875--44882483 Score: 353
Period size: 44 Copynumber: 13.4 Consensus size: 45
44881865 AAGCCACAAG
*
44881875 TCTTATCTAC-CTGAAGTTGCAGTGGAGCAAATTGAAGATAGCAAA
1 TCTTATCT-CTCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * *
44881920 TCTTATTTCTCTGAAGCTGCAGTGGAACAGATTGAAGCTATAAGTCACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAG--AT-AG---CAAA
* * *
44881971 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-TCAA-A-A-CAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * * *
44882012 CCTTATCTCTCTGAAGTTGCAATGGAGCAGGTTGAAG-TCGCTAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * *
44882056 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAATATAGCAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * * *
44882101 TTTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATCACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A--GCAAA
* * * * *
44882152 TATTATCTCTCTGAAGTTGTAGTAGAGTAGA-TCAA-A-A-CAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * * * *
44882193 CCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAG-TCA-CTAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGAT-AGCAAA
* * * *
44882237 TCTTATCTC-CTTGAAGTTGCAATGGAGCAGACTGAAGATAGTAGA
1 TCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * * *
44882282 TCTTATTTTTCCTGAAGTTGCAGTGGAACAGATTGAAACTATAAGTAAATAGA
1 TCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTG-AA-GAT-AG--CA-A-A
* * *
44882335 TTTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCAA-A-A-CAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * *
44882376 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG-T--CATAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA-AA
* * *
44882419 GTCTTATCTC-CATGAAGTTGCAGTGGAGCAGGTTCAAAGCTA-CAAA
1 -TCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATT-GAAGATAGCAAA
* *
44882465 CCTTATTTCTCTGAAGTTG
1 TCTTATCTCTCTGAAGTTG
44882484 TACTGGATTG
Statistics
Matches: 435, Mismatches: 85, Indels: 88
0.72 0.14 0.14
Matches are distributed among these distances:
41 86 0.20
42 12 0.03
43 5 0.01
44 99 0.23
45 94 0.22
46 25 0.06
47 11 0.03
48 5 0.01
49 3 0.01
50 8 0.02
51 60 0.14
52 19 0.04
53 8 0.02
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (45 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
Found at i:44882392 original size:183 final size:181
Alignment explanation
Indices: 44881873--44882449 Score: 856
Period size: 181 Copynumber: 3.2 Consensus size: 181
44881863 CAAAGCCACA
* * * *
44881873 AGTCTTATCTACCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCAAATCTTATTTCT-CTGAAGC
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTTTCCTGAAGT
*
44881937 TGCAGTGGAACAGATTGAAGCTATAAGTCACAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGA
65 TGCAGTGGAACAGATTGAAGCTATAAGTCACAAATATTATCTCTCTGAAGTTGCAGTAGAGTAGA
* * *
44882002 TCAAAACAAACCTTATCTCTCTGAAGTTGCAATGGAGCAGGTTGAAGTCGCT
130 TCAAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTCACT
* * * * *
44882054 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAATATAGCAAATTTTA-TTTCCCTGAAGT
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTTTCCTGAAGT
* *
44882118 TGCAGTGGAACAGATTGAAGCTATAAATCACAAATATTATCTCTCTGAAGTTGTAGTAGAGTAGA
65 TGCAGTGGAACAGATTGAAGCTATAAGTCACAAATATTATCTCTCTGAAGTTGCAGTAGAGTAGA
*
44882183 TCAAAACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTCACT
130 TCAAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTCACT
* * *
44882235 AGTCTTATCTCCTTGAAGTTGCAATGGAGCAGACTGAAGATAGTAGATCTTATTTTTCCTGAAGT
1 AGTCTTATCTCC-TGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTTTCCTGAAGT
* * * *
44882300 TGCAGTGGAACAGATTGAAACTATAAGT-AAATAGATTTTATCTCTCTGAAGTTGCAGTAGAGCA
65 TGCAGTGGAACAGATTGAAGCTATAAGTCACA-A-ATATTATCTCTCTGAAGTTGCAGTAGAGTA
44882364 GATCAAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTCA-T
128 GATCAAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTCACT
44882417 AAGTCTTATCTCCATGAAGTTGCAGTGGAGCAG
1 -AGTCTTATCTCC-TGAAGTTGCAGTGGAGCAG
44882450 GTTCAAAGCT
Statistics
Matches: 356, Mismatches: 34, Indels: 10
0.89 0.09 0.03
Matches are distributed among these distances:
180 4 0.01
181 205 0.58
182 39 0.11
183 108 0.30
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (181 bp):
AGTCTTATCTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTTTCCTGAAGTT
GCAGTGGAACAGATTGAAGCTATAAGTCACAAATATTATCTCTCTGAAGTTGCAGTAGAGTAGAT
CAAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTCACT
Found at i:44885254 original size:3 final size:3
Alignment explanation
Indices: 44885246--44885418 Score: 82
Period size: 3 Copynumber: 57.0 Consensus size: 3
44885236 AAATAGTACC
* *
44885246 AAT AAT AAT AAAT AAT AA- AAGT AAT AAT AAT CAC AAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * ** *
44885292 AAT AAT AAAG AAT AAC AAT AAT -AC AAG AAC AA- AAG AAT GGT GAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * ** *
44885336 AAT ACT ACT ACT ACT AAA AAT AAT AAT GAT AGT AAT AGC AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
44885384 AAAT AAT AAT AAT AAT AAT AAT AAGT GAT AAT AAT
1 -AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
44885419 TAGAATAAAG
Statistics
Matches: 130, Mismatches: 32, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
2 5 0.04
3 113 0.87
4 12 0.09
ACGTcount: A:0.61, C:0.06, G:0.07, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:44885283 original size:12 final size:12
Alignment explanation
Indices: 44885190--44885299 Score: 54
Period size: 12 Copynumber: 9.4 Consensus size: 12
44885180 AGAAATTTAA
*
44885190 AATAATAATAAT
1 AATAATAACAAT
44885202 AATAATATA-AAT
1 AATAATA-ACAAT
*
44885214 AGTAATAGA-AA-
1 AATAATA-ACAAT
**
44885225 AGCAATAACAGA-
1 AATAATAACA-AT
* *
44885237 AATAGTACCAAT
1 AATAATAACAAT
44885249 AATAAT-A-AAT
1 AATAATAACAAT
*
44885259 AATAA-AAGTAAT
1 AATAATAA-CAAT
*
44885271 AATAATCACAAT
1 AATAATAACAAT
*
44885283 AATAATAATAAT
1 AATAATAACAAT
44885295 AATAA
1 AATAA
44885300 AGAATAACAA
Statistics
Matches: 77, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
10 10 0.13
11 8 0.10
12 57 0.74
13 2 0.03
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.25
Consensus pattern (12 bp):
AATAATAACAAT
Found at i:44885311 original size:16 final size:17
Alignment explanation
Indices: 44885286--44885320 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
44885276 TCACAATAAT
*
44885286 AATAATAATAATA-AAG
1 AATAACAATAATACAAG
44885302 AATAACAATAATACAAG
1 AATAACAATAATACAAG
44885319 AA
1 AA
44885321 CAAAAGAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (17 bp):
AATAACAATAATACAAG
Found at i:44885400 original size:22 final size:22
Alignment explanation
Indices: 44885375--44885418 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
44885365 TAGTAATAGC
44885375 AATAAAAATAAATAATAATAAT
1 AATAAAAATAAATAATAATAAT
* * *
44885397 AATAATAATAAGTGATAATAAT
1 AATAAAAATAAATAATAATAAT
44885419 TAGAATAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (22 bp):
AATAAAAATAAATAATAATAAT
Found at i:44886676 original size:3 final size:3
Alignment explanation
Indices: 44886655--44886821 Score: 83
Period size: 3 Copynumber: 55.7 Consensus size: 3
44886645 CTCTACAGTC
* * * **
44886655 ATT ATT AAT ATAT ACT ATT ATT ATT AAT A-T ATT GCT ATT ATT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * ** * *
44886700 ACT AAT ATC ACT ATT ACC ATT -TT -TT ATT ACT GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
44886746 ATT ATTT ACT ATCT AAT A-T ATT ATT ATT ACCTT TTT ATT ATT ATT ACT
1 ATT A-TT ATT AT-T ATT ATT ATT ATT ATT A--TT ATT ATT ATT ATT ATT
* *
44886794 ATT -GT ATT ATT ACT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
44886822 ATTTTCTTTT
Statistics
Matches: 120, Mismatches: 35, Indels: 18
0.69 0.20 0.10
Matches are distributed among these distances:
2 9 0.08
3 102 0.85
4 7 0.06
5 2 0.02
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:44886742 original size:28 final size:31
Alignment explanation
Indices: 44886711--44886821 Score: 79
Period size: 31 Copynumber: 3.6 Consensus size: 31
44886701 CTAATATCAC
*
44886711 TATTACCATTTTTTATTA-CT-GT-TATTAT
1 TATTACCATTTTTTATTATCTAATATATTAT
** * *
44886739 TATTATTATTATTTACTATCTAATATATTAT
1 TATTACCATTTTTTATTATCTAATATATTAT
* *
44886770 TATTACCTTTTTATTATTAT-TACTAT-TGTAT
1 TATTACCATTTT-TTATTATCTAATATAT-TAT
*
44886801 TATTACTATTATTATTATTAT
1 TATTACCATT-TT-TTATTAT
44886822 ATTTTCTTTT
Statistics
Matches: 64, Mismatches: 13, Indels: 8
0.75 0.15 0.09
Matches are distributed among these distances:
28 14 0.22
29 2 0.03
30 2 0.03
31 30 0.47
32 16 0.25
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (31 bp):
TATTACCATTTTTTATTATCTAATATATTAT
Found at i:44886786 original size:17 final size:17
Alignment explanation
Indices: 44886764--44886805 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
44886754 CTATCTAATA
*
44886764 TATTATTATTACCT-TTT
1 TATTATTATTA-CTATTG
44886781 TATTATTATTACTATTG
1 TATTATTATTACTATTG
44886798 TATTATTA
1 TATTATTA
44886806 CTATTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (17 bp):
TATTATTATTACTATTG
Found at i:44886801 original size:14 final size:15
Alignment explanation
Indices: 44886784--44886824 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
44886774 ACCTTTTTAT
44886784 TATTATTACTATT-G
1 TATTATTACTATTAG
*
44886798 TATTATTACTATTAT
1 TATTATTACTATTAG
44886813 TATTATTA-TATT
1 TATTATTACTATT
44886825 TTCTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (15 bp):
TATTATTACTATTAG
Found at i:44886959 original size:26 final size:25
Alignment explanation
Indices: 44886913--44886963 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
44886903 TTATTTATAT
44886913 ATCATTACTTTTATTGTTATCATTTC
1 ATCATTACTTTTATTGTTATC-TTTC
44886939 ATCATTTA-TTTTATT-TATATCTTTC
1 ATCA-TTACTTTTATTGT-TATCTTTC
44886964 TAAATAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
25 5 0.22
26 15 0.65
27 3 0.13
ACGTcount: A:0.24, C:0.14, G:0.02, T:0.61
Consensus pattern (25 bp):
ATCATTACTTTTATTGTTATCTTTC
Found at i:44887005 original size:3 final size:3
Alignment explanation
Indices: 44886984--44887195 Score: 114
Period size: 3 Copynumber: 71.7 Consensus size: 3
44886974 CAAACTTTAG
* * **
44886984 ATT ATTT ATT ATT -TGT ATT ATT GTT ATT ATT ACT ATTT ATT ATT ACC
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* * * *
44887031 ATT ATT ATT ACT ATT ATT TTT ACTT -TT ATT ACT ATT ACT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * *
44887075 ATT TTT ATT TTT ATT -TT CTT A-T ACT ATT ATC ATC ATT ATT AAT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * **
44887121 AAT ATT AAT ATT CTT ATT ATT ACT ATT ATT ATT ATC ATT AGC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
44887169 ATT -TT -TT ACT ACT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
44887196 CGTTTTCATT
Statistics
Matches: 158, Mismatches: 41, Indels: 20
0.72 0.19 0.09
Matches are distributed among these distances:
2 13 0.08
3 137 0.87
4 8 0.05
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:44887086 original size:29 final size:30
Alignment explanation
Indices: 44887033--44887089 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
44887023 TTATTACCAT
*
44887033 TATTATTACTATTATTTTTACTTTTATTAC
1 TATTACTACTATTATTTTTACTTTTATTAC
*
44887063 TATTACTA-TATTATTTTTATTTTTATT
1 TATTACTACTATTATTTTTACTTTTATT
44887090 TTCTTATACT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (30 bp):
TATTACTACTATTATTTTTACTTTTATTAC
Found at i:44893870 original size:58 final size:58
Alignment explanation
Indices: 44893802--44893930 Score: 240
Period size: 58 Copynumber: 2.2 Consensus size: 58
44893792 TATAAAAATA
44893802 AATATATTATATTCGTACAACTTACCAAAAAAAAAAGAAAAAGAAAATACGACATGCT
1 AATATATTATATTCGTACAACTTACCAAAAAAAAAAGAAAAAGAAAATACGACATGCT
*
44893860 AATATATTATATTCGTACAACTTACCAAAAAAAAAAGAAAAAGGAAATACGACATGCT
1 AATATATTATATTCGTACAACTTACCAAAAAAAAAAGAAAAAGAAAATACGACATGCT
44893918 AATATATATATAT
1 AATATAT-TATAT
44893931 ATATATATAT
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 64 0.93
59 5 0.07
ACGTcount: A:0.54, C:0.12, G:0.09, T:0.25
Consensus pattern (58 bp):
AATATATTATATTCGTACAACTTACCAAAAAAAAAAGAAAAAGAAAATACGACATGCT
Found at i:44897356 original size:19 final size:19
Alignment explanation
Indices: 44897324--44897364 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
44897314 AAAACGCATT
*
44897324 AAAATTTTTGAGGTTTATAA
1 AAAATATTTGAGGTTTA-AA
44897344 AAAATATTT-AGGTTTAAA
1 AAAATATTTGAGGTTTAAA
44897362 AAA
1 AAA
44897365 CACTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 7 0.35
20 8 0.40
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (19 bp):
AAAATATTTGAGGTTTAAA
Found at i:44899202 original size:15 final size:15
Alignment explanation
Indices: 44899182--44899213 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
44899172 CATTTCACTA
*
44899182 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
44899197 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
44899212 TT
1 TT
44899214 TTCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:44900493 original size:19 final size:20
Alignment explanation
Indices: 44900463--44900500 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
44900453 TAAATTGAGC
*
44900463 CCAAGAACCCAAAATCAAGA
1 CCAAGAACCCAAAAACAAGA
44900483 CCAAG-ACCCAAAAACAAG
1 CCAAGAACCCAAAAACAAG
44900501 TTGATCAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.55, C:0.32, G:0.11, T:0.03
Consensus pattern (20 bp):
CCAAGAACCCAAAAACAAGA
Found at i:44902446 original size:50 final size:50
Alignment explanation
Indices: 44902325--44902617 Score: 236
Period size: 50 Copynumber: 5.8 Consensus size: 50
44902315 ATGAGAACAT
* * *** *
44902325 ATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGTCAC
* * * **
44902377 GTGTGTAGTAGC-AAATGCAGGCTATTACGTGTACCAGATAGTTAGGTTGC
1 ATGTGTAGTA-CTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCAC
* * * * *
44902427 ATGTCTAGTACTAAGTGCAGGCTACTATGCGTACCCGAGA-ACTTCA-ATCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-AGATAGTT-AGGTCAC
* * * ** * * *
44902478 GTGTGTAGTACTAAATGCAGGTTACTACGTGTATTACATGGTTAGGTCAT
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCAC
* * *
44902528 GTGTGTAGTACTAAGTGCATGCTACTACGTGTACCAGATTGTT-GGTCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCAC
*
44902577 ATGTGTAGTACTAAGTGCAGGCTACTATGCT-TACCAGATAG
1 ATGTGTAGTACTAAGTGCAGGCTACTACG-TGTACCAGATAG
44902618 GTTCGGTTAC
Statistics
Matches: 187, Mismatches: 46, Indels: 19
0.74 0.18 0.08
Matches are distributed among these distances:
49 44 0.24
50 74 0.40
51 34 0.18
52 34 0.18
53 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (50 bp):
ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCAC
Found at i:44902507 original size:101 final size:100
Alignment explanation
Indices: 44902373--44902554 Score: 242
Period size: 101 Copynumber: 1.8 Consensus size: 100
44902363 TGGTTTTAGG
* *
44902373 TCACGTGTGTAGTAGCAAATGCAGGCTATTACGTGTACCAGATAGTTAGGTTGCA-TGTCTAGTA
1 TCACGTGTGTAGTAGCAAATGCAGGCTACTACGTGTACCACATAGTTAGG-T-CAGTGTCTAGTA
44902437 CTAAGTGCAGGCTACTATGCGTACCCGAGAACTTCAA
64 CTAAGTGCAGGCTACTATGCGTACCCGAGAACTTCAA
* ** * *
44902474 TCACGTGTGTAGTA-CTAAATGCAGGTTACTACGTGTATTACATGGTTAGGTCATGTGTGTAGTA
1 TCACGTGTGTAGTAGC-AAATGCAGGCTACTACGTGTACCACATAGTTAGGTCA-GTGTCTAGTA
*
44902538 CTAAGTGCATGCTACTA
64 CTAAGTGCAGGCTACTA
44902555 CGTGTACCAG
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
99 2 0.03
100 2 0.03
101 66 0.94
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (100 bp):
TCACGTGTGTAGTAGCAAATGCAGGCTACTACGTGTACCACATAGTTAGGTCAGTGTCTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAGAACTTCAA
Found at i:44902563 original size:151 final size:151
Alignment explanation
Indices: 44902326--44902611 Score: 389
Period size: 151 Copynumber: 1.9 Consensus size: 151
44902316 TGAGAACATA
** * *
44902326 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTAGCAA
1 TGTGTAGTACTAAATGCAGGCTACTACGTGTTTAACATGG-TTTAGGTCACGTGTGTAGTAGCAA
* **
44902391 ATGCAGGCTATTACGTGTACCAGATAGTTAGGTTGCATGTCTAGTACTAAGTGCAGGCTACTATG
65 ATGCAGGCTACTACGTGTACCAGATAGTT-GGTCACATGTCTAGTACTAAGTGCAGGCTACTATG
44902456 CGTACCCGAGAACTTCAATCACG
129 CGTACCCGAGAACTTCAATCACG
* *
44902479 TGTGTAGTACTAAATGCAGGTTACTACGTGTATT-ACATGG-TTAGGTCATGTGTGTAGTA-CTA
1 TGTGTAGTACTAAATGCAGGCTACTACGTGT-TTAACATGGTTTAGGTCACGTGTGTAGTAGC-A
* * * *
44902541 AGTGCATGCTACTACGTGTACCAGATTGTTGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
64 AATGCAGGCTACTACGTGTACCAGATAGTTGGTCACATGTCTAGTACTAAGTGCAGGCTACTATG
*
44902606 CTTACC
129 CGTACC
44902612 AGATAGGTTC
Statistics
Matches: 117, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
150 38 0.32
151 45 0.38
153 32 0.27
154 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (151 bp):
TGTGTAGTACTAAATGCAGGCTACTACGTGTTTAACATGGTTTAGGTCACGTGTGTAGTAGCAAA
TGCAGGCTACTACGTGTACCAGATAGTTGGTCACATGTCTAGTACTAAGTGCAGGCTACTATGCG
TACCCGAGAACTTCAATCACG
Found at i:44907833 original size:48 final size:48
Alignment explanation
Indices: 44907774--44907866 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
44907764 GGGTTATGTG
*
44907774 CGATCCTATGTAAGACCATGTCTGGGACACGACATTGGCATCGATCTA
1 CGATCCCATGTAAGACCATGTCTGGGACACGACATTGGCATCGATCTA
* *
44907822 CGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAT
1 CGATCCCATGTAAGACCATGTCTGGGACACGACATTGGCATCGAT
44907867 ATGTGATCCC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (48 bp):
CGATCCCATGTAAGACCATGTCTGGGACACGACATTGGCATCGATCTA
Found at i:44907875 original size:48 final size:48
Alignment explanation
Indices: 44907774--44907878 Score: 156
Period size: 48 Copynumber: 2.2 Consensus size: 48
44907764 GGGTTATGTG
* *
44907774 CGATCCTATGTAAGACCATGTCTGGGACACGACATTGGCATCGATCTA
1 CGATCCCATGTAAGACCATGTCTGGGACACGACATTGGCATCGATATA
* * *
44907822 CGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
1 CGATCCCATGTAAGACCATGTCTGGGACACGACATTGGCATCGATATA
*
44907870 TGATCCCAT
1 CGATCCCAT
44907879 ATGGCATTGG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.26
Consensus pattern (48 bp):
CGATCCCATGTAAGACCATGTCTGGGACACGACATTGGCATCGATATA
Found at i:44911871 original size:30 final size:30
Alignment explanation
Indices: 44911837--44911916 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 30
44911827 AGCCAAAACT
*
44911837 ATCCATTTTCATAATTTGATGGTCGTCACC
1 ATCCATTTTCATAATTTGATGGTCATCACC
*** *
44911867 ATCCATTTTCATTGCTCGATGGTCATCACC
1 ATCCATTTTCATAATTTGATGGTCATCACC
*
44911897 ATCCCTTTTCATAATTTGAT
1 ATCCATTTTCATAATTTGAT
44911917 AGCCAAAGCT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (30 bp):
ATCCATTTTCATAATTTGATGGTCATCACC
Found at i:44912004 original size:29 final size:30
Alignment explanation
Indices: 44911945--44912008 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
44911935 ACATAGATCG
* *
44911945 ATCCTTTTTCATAGTTCGATGGTTGTCACC
1 ATCCCTTTTCATAGTTCGATGGTCGTCACC
*
44911975 ATCCCTTTTCATTA-TT-GATGGTCGTTACC
1 ATCCCTTTTCA-TAGTTCGATGGTCGTCACC
44912004 ATCCC
1 ATCCC
44912009 ATTGCATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 16 0.53
30 12 0.40
31 2 0.07
ACGTcount: A:0.17, C:0.27, G:0.14, T:0.42
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTCGATGGTCGTCACC
Found at i:44912027 original size:29 final size:29
Alignment explanation
Indices: 44911972--44912027 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
44911962 GATGGTTGTC
* * * * *
44911972 ACCATCCCTTTTCATTATTGATGGTCGTT
1 ACCATCCCATTGCATAATCGATAGTCGTT
44912001 ACCATCCCATTGCATAATCGATAGTCG
1 ACCATCCCATTGCATAATCGATAGTCG
44912028 AAGCTATCCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (29 bp):
ACCATCCCATTGCATAATCGATAGTCGTT
Found at i:44912036 original size:29 final size:29
Alignment explanation
Indices: 44912004--44912066 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
44911994 GGTCGTTACC
*
44912004 ATCCCATTGCATAATCGATAGTCGAAGCT
1 ATCCCATTGCATAATCGATAGCCGAAGCT
* * * *
44912033 ATCCCTTTTCGTATTCGATAGCCGAAGCT
1 ATCCCATTGCATAATCGATAGCCGAAGCT
44912062 ATCCC
1 ATCCC
44912067 TTTTCATTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (29 bp):
ATCCCATTGCATAATCGATAGCCGAAGCT
Found at i:44918443 original size:39 final size:40
Alignment explanation
Indices: 44918348--44918531 Score: 177
Period size: 40 Copynumber: 4.7 Consensus size: 40
44918338 TTGAATGCTG
*
44918348 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
44918386 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
44918427 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
44918466 TCCGGGTTAAGTCCCGAAGGCATTTGTGCG-GATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
44918505 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
44918532 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 17
0.80 0.08 0.11
Matches are distributed among these distances:
39 53 0.43
40 58 0.47
41 11 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:44918553 original size:79 final size:79
Alignment explanation
Indices: 44918400--44918554 Score: 183
Period size: 79 Copynumber: 2.0 Consensus size: 79
44918390 GGACTAAGAT
* * ** *
44918400 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
44918465 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
*
44918479 CCGAAGGCATTTGTGCG-GATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
*
44918541 CTATATCC-GGTTAA
62 CTAAATCCGGGTTAA
44918555 ATTTCGAAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
78 4 0.06
79 36 0.55
80 25 0.38
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAGTC
Found at i:44922525 original size:47 final size:47
Alignment explanation
Indices: 44922405--44922525 Score: 188
Period size: 47 Copynumber: 2.6 Consensus size: 47
44922395 CCCTTCGGGA
* * * *
44922405 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTAGGC
* *
44922452 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTAGGC
44922499 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
44922526 TATTCAAATA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTAGGC
Found at i:44928040 original size:3 final size:3
Alignment explanation
Indices: 44928032--44928090 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
44928022 ACTCTATTGT
* *
44928032 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44928080 TTA TTA TTA TT
1 TTA TTA TTA TT
44928091 TTTGTAGCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:44930169 original size:43 final size:43
Alignment explanation
Indices: 44930122--44930207 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
44930112 CATAACATCA
*
44930122 CGTTTTCGCAACATTGTTGAAATGCTTCCGCAACAAACATGTT
1 CGTTTTCGCAACATTGTTCAAATGCTTCCGCAACAAACATGTT
44930165 CGTTTTCGCAACATTGTTCAAATGCTTCCGCAACAAACATGTT
1 CGTTTTCGCAACATTGTTCAAATGCTTCCGCAACAAACATGTT
44930208 TTTAAAAGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (43 bp):
CGTTTTCGCAACATTGTTCAAATGCTTCCGCAACAAACATGTT
Found at i:44930265 original size:34 final size:34
Alignment explanation
Indices: 44930217--44930284 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
44930207 TTTTAAAAGT
44930217 AAGGATGGTTTAAAATGGTTAACAAATAATTAAG
1 AAGGATGGTTTAAAATGGTTAACAAATAATTAAG
*
44930251 AAGGCTGGTTTAAAATGGTTAACAAATAATTAAG
1 AAGGATGGTTTAAAATGGTTAACAAATAATTAAG
44930285 TTGACTTTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.46, C:0.04, G:0.21, T:0.29
Consensus pattern (34 bp):
AAGGATGGTTTAAAATGGTTAACAAATAATTAAG
Found at i:44933767 original size:19 final size:19
Alignment explanation
Indices: 44933743--44933780 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
44933733 TCTACAACTT
44933743 AAGGAATAATTTAATTGAG
1 AAGGAATAATTTAATTGAG
44933762 AAGGAATAATTTAATTGAG
1 AAGGAATAATTTAATTGAG
44933781 TCAATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (19 bp):
AAGGAATAATTTAATTGAG
Found at i:44934876 original size:17 final size:17
Alignment explanation
Indices: 44934854--44934913 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
44934844 AATTCAAAGC
44934854 AAAGAATGGGTTGGAAA
1 AAAGAATGGGTTGGAAA
* ** *
44934871 AAAGAAAGGGAAGAACAA
1 AAAGAATGGGTTGGA-AA
44934889 AGTAAGAATGGGTTGGAAA
1 A--AAGAATGGGTTGGAAA
44934908 AAAGAA
1 AAAGAA
44934914 AGGGAAGAAC
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 16 0.50
18 3 0.09
19 3 0.09
20 10 0.31
ACGTcount: A:0.55, C:0.02, G:0.32, T:0.12
Consensus pattern (17 bp):
AAAGAATGGGTTGGAAA
Found at i:44934878 original size:21 final size:21
Alignment explanation
Indices: 44934849--44934915 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 21
44934839 CGAAGAATTC
44934849 AAAGCAAAGAATGGGTTGGAAA
1 AAAG-AAAGAATGGGTTGGAAA
** *
44934871 AAAG--A-AA-GGG-AAGAAC
1 AAAGAAAGAATGGGTTGGAAA
*
44934887 AAAGTAAGAATGGGTTGGAAA
1 AAAGAAAGAATGGGTTGGAAA
44934908 AAAGAAAG
1 AAAGAAAG
44934916 GGAAGAACAA
Statistics
Matches: 33, Mismatches: 7, Indels: 11
0.65 0.14 0.22
Matches are distributed among these distances:
16 7 0.21
17 3 0.09
18 3 0.09
19 3 0.09
20 3 0.09
21 10 0.30
22 4 0.12
ACGTcount: A:0.55, C:0.03, G:0.31, T:0.10
Consensus pattern (21 bp):
AAAGAAAGAATGGGTTGGAAA
Found at i:44934890 original size:33 final size:33
Alignment explanation
Indices: 44934853--44934936 Score: 114
Period size: 37 Copynumber: 2.4 Consensus size: 33
44934843 GAATTCAAAG
44934853 CAAAGAATGGGTTGGAAAAAAGAAAGGGAAGAA
1 CAAAGAATGGGTTGGAAAAAAGAAAGGGAAGAA
44934886 CAAAGTAAGAATGGGTTGGAAAAAAGAAAGGGAAGAA
1 C--A--AAGAATGGGTTGGAAAAAAGAAAGGGAAGAA
* *
44934923 CAAAGTATGTGTTG
1 CAAAGAATGGGTTG
44934937 ATTCAAAAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
33 11 0.24
35 2 0.04
37 32 0.71
ACGTcount: A:0.50, C:0.04, G:0.32, T:0.14
Consensus pattern (33 bp):
CAAAGAATGGGTTGGAAAAAAGAAAGGGAAGAA
Found at i:44934897 original size:37 final size:37
Alignment explanation
Indices: 44934855--44934929 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
44934845 ATTCAAAGCA
44934855 AAGAATGGGTTGGAAAAAAGAAAGGGAAGAACAAAGT
1 AAGAATGGGTTGGAAAAAAGAAAGGGAAGAACAAAGT
44934892 AAGAATGGGTTGGAAAAAAGAAAGGGAAGAACAAAGT
1 AAGAATGGGTTGGAAAAAAGAAAGGGAAGAACAAAGT
44934929 A
1 A
44934930 TGTGTTGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.55, C:0.03, G:0.32, T:0.11
Consensus pattern (37 bp):
AAGAATGGGTTGGAAAAAAGAAAGGGAAGAACAAAGT
Found at i:44943569 original size:26 final size:25
Alignment explanation
Indices: 44943527--44943587 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
44943517 ATACATAAAT
* *
44943527 TATATTATATGCGTGGGTCTTACTA
1 TATAATATATGCATGGGTCTTACTA
* *
44943552 TGTACATATATGCATGGGTCTTATTA
1 TATA-ATATATGCATGGGTCTTACTA
44943578 TATAATATAT
1 TATAATATAT
44943588 ATAATTATGG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 9 0.30
26 21 0.70
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (25 bp):
TATAATATATGCATGGGTCTTACTA
Found at i:44944086 original size:83 final size:83
Alignment explanation
Indices: 44943946--44944121 Score: 334
Period size: 83 Copynumber: 2.1 Consensus size: 83
44943936 GCACCCTCGT
*
44943946 AACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTT
1 AACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCATCGATTTGTTCCTT
44944011 GTAAGCACAAGGATGCCA
66 GTAAGCACAAGGATGCCA
*
44944029 AACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCATTGATTTGTTCCTT
1 AACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCATCGATTTGTTCCTT
44944094 GTAAGCACAAGGATGCCA
66 GTAAGCACAAGGATGCCA
44944112 AACCATCTTG
1 AACCATCTTG
44944122 GATCTGCTTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 91 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (83 bp):
AACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCATCGATTTGTTCCTT
GTAAGCACAAGGATGCCA
Found at i:44944760 original size:119 final size:119
Alignment explanation
Indices: 44944045--44944757 Score: 1183
Period size: 119 Copynumber: 6.0 Consensus size: 119
44944035 CTTGAGTCTG
* * * * * * * * *
44944045 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCATTGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
44944110 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * *
44944164 TTTGAGAACGTCTAAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * * *
44944229 CAAATCATCTTGGATCTGCTTTAGTATAAACATCTAAAGGCTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
44944283 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
44944348 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
44944402 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGAGTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
44944467 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * *
44944521 TTTGAGAACGTCTGAGAGTCAAATCTGTTATGTCCTCGATTTGTTCCTTGTAAACAAAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
** *
44944586 CAAATCATCTTTAATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
44944640 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
44944705 CAAATCATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
44944758 CTTCAATCTG
Statistics
Matches: 559, Mismatches: 35, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
119 559 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:44944797 original size:44 final size:44
Alignment explanation
Indices: 44944749--44944928 Score: 168
Period size: 44 Copynumber: 4.1 Consensus size: 44
44944739 TGAAGGTTAG
*
44944749 ATCTGCTATCTTCAATCTGTTCCCTATAAACACAAAGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAACACAAGGATGCCAA
* *
44944793 ATCTGCTATCTTCAA-CTTGTTCCCTATAAACACAGGGATGCCAT
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAACACAAGGATGCCAA
* ** * * * * *
44944837 GT-TGAAATCTTCAATCTGCTTCGCTGTAAGCAC-AGGAATGTCAG
1 ATCTGCTATCTTCAATCTG-TTCCCTATAAACACAAGG-ATGCCAA
* * * * *
44944881 ATCTACTATCTTCGACCTGTTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAACACAAGGATGCCAA
44944925 ATCT
1 ATCT
44944929 TGTTTCTTTG
Statistics
Matches: 105, Mismatches: 25, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
43 15 0.14
44 77 0.73
45 13 0.12
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCAATCTGTTCCCTATAAACACAAGGATGCCAA
Found at i:44951920 original size:17 final size:17
Alignment explanation
Indices: 44951898--44951959 Score: 106
Period size: 17 Copynumber: 3.6 Consensus size: 17
44951888 AAAAACTAAG
44951898 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
*
44951915 TCTAAGATTGCAATCATA
1 TCTAAGATTG-TATCATA
44951933 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
44951950 TCTAAGATTG
1 TCTAAGATTG
44951960 CATATCATTG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
17 26 0.62
18 16 0.38
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (17 bp):
TCTAAGATTGTATCATA
Found at i:44951944 original size:35 final size:36
Alignment explanation
Indices: 44951898--44951967 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 36
44951888 AAAAACTAAG
44951898 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCATATCATA
44951933 TCTAAGATTGTATCATATCTAAGATTGCATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCATATCAT
44951968 TGAAGATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 29 0.85
36 5 0.15
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (36 bp):
TCTAAGATTGTATCATATCTAAGATTGCATATCATA
Found at i:44954639 original size:20 final size:19
Alignment explanation
Indices: 44954616--44954656 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
44954606 ATTTTTTGTT
* *
44954616 TTAGGTTAGGGATTTTTAGG
1 TTAGGTTAAGG-TTATTAGG
44954636 TTAGGTTAAGGTTATTAGG
1 TTAGGTTAAGGTTATTAGG
44954655 TT
1 TT
44954657 TGGGTTAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (19 bp):
TTAGGTTAAGGTTATTAGG
Found at i:44969431 original size:45 final size:44
Alignment explanation
Indices: 44969350--44969462 Score: 133
Period size: 45 Copynumber: 2.5 Consensus size: 44
44969340 CAGCATTTCC
*
44969350 CCTGTTAGGCTCAAGGCCCG-ATATCAGTTCACCGGCATTATAG
1 CCTGCTAGGCTCAAGGCCCGAATATCAGTTCACCGGCATTATAG
44969393 CCTGCTAGGCTCGAAGGCCCGAATAGT-A-TCTCACCGGCATTATAG
1 CCTGCTAGGCTC-AAGGCCCGAATA-TCAGT-TCACCGGCATTATAG
** *
44969438 TTTGCTAAGCTCAAAGGCCCGAATA
1 CCTGCTAGGCTC-AAGGCCCGAATA
44969463 ATCAAGTCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
43 11 0.18
44 9 0.15
45 40 0.66
46 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (44 bp):
CCTGCTAGGCTCAAGGCCCGAATATCAGTTCACCGGCATTATAG
Found at i:44969841 original size:43 final size:43
Alignment explanation
Indices: 44969794--44969903 Score: 175
Period size: 43 Copynumber: 2.6 Consensus size: 43
44969784 GGCATTATGT
* *
44969794 CTGCTAGGCACGAAGGCCCAAATACATATCACCGGCACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
* * *
44969837 CTGCTAGGCATGAAGGCCTGAATACACATCACCGGCACTAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
44969880 CTGCTAGGCACGAAGGCCCGAATA
1 CTGCTAGGCACGAAGGCCCGAATA
44969904 TAATACCAGC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.31, C:0.31, G:0.25, T:0.14
Consensus pattern (43 bp):
CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
Found at i:44969944 original size:38 final size:38
Alignment explanation
Indices: 44969896--44969979 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
44969886 GGCACGAAGG
* * *
44969896 CCCGAATATAATACCAGCACTAGGCCTACGGGATTTAT
1 CCCGAATATAATACCAGCACAAAGCCTACGGGATTTAA
* *
44969934 CCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACAAAGCCTACGGGATTTAA
44969972 CCCGAATA
1 CCCGAATA
44969980 CACATTAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACAAAGCCTACGGGATTTAA
Found at i:44977387 original size:27 final size:27
Alignment explanation
Indices: 44977356--44977533 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
44977346 TAAATTGTAC
44977356 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44977383 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44977409 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44977437 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
44977465 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44977492 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44977519 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44977534 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44977470 original size:82 final size:81
Alignment explanation
Indices: 44977357--44977512 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
44977347 AAATTGTACA
*
44977357 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
44977421 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44977438 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
44977503 TGCGAGTTGA
65 TGCGAATTGA
44977513 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44977524 original size:82 final size:81
Alignment explanation
Indices: 44977353--44977533 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
44977343 GATTAAATTG
*
44977353 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
44977418 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
44977434 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
44977498 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44977516 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44977534 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44984758 original size:98 final size:98
Alignment explanation
Indices: 44984393--44984750 Score: 664
Period size: 98 Copynumber: 3.7 Consensus size: 98
44984383 CGCTGCAATT
* * *
44984393 TGGTGGCCTCGCCACATATATTTGT-TCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCA
1 TGGTGGCCTAGCCACA-ATATCTATATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCA
44984457 ATCTGGTGGCTTCGCCATATATATATATCTGTTC
65 ATCTGGTGGCTTCGCCATATATATATATCTGTTC
44984491 TGGTGGCCTAGCCACAATATCTATATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCAA
1 TGGTGGCCTAGCCACAATATCTATATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCAA
44984556 TCTGGTGGCTTCGCCATATATATATATCTGTTC
66 TCTGGTGGCTTCGCCATATATATATATCTGTTC
44984589 TGGTGGCCTAGCCACAATATCTATATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCAA
1 TGGTGGCCTAGCCACAATATCTATATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCAA
44984654 TCTGGTGGCTTCGCCATATATATATATCTGTTC
66 TCTGGTGGCTTCGCCATATATATATATCTGTTC
*
44984687 TGGTGGCCTAGCCACAATATCTATATCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTGCA
1 TGGTGGCCTAGCCACAATATCTATATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCA
44984751 CTGTGGTGTG
Statistics
Matches: 255, Mismatches: 4, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
97 6 0.02
98 249 0.98
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (98 bp):
TGGTGGCCTAGCCACAATATCTATATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCAA
TCTGGTGGCTTCGCCATATATATATATCTGTTC
Found at i:44991887 original size:71 final size:67
Alignment explanation
Indices: 44991747--44991887 Score: 169
Period size: 67 Copynumber: 2.0 Consensus size: 67
44991737 GAGGAAGCGC
* * * *
44991747 TCTGGCAGCCTCACTGCAATCTGGTGGCCTTGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAACCTCACTACAATCTGGTGGCCTTGCCACATATATCTGTTCTGGTGACTTAGCCACAA
44991812 TA
66 TA
*
44991814 TCTGGCAACCTCGCTACAATCTGGTGG-CTTCGCCACATATATATATCTGTTCTGGTGGAC-TAG
1 TCTGGCAACCTCACTACAATCTGGTGGCCTT-GCCAC----ATATATCTGTTCTGGT-GACTTAG
44991877 CCACAATA
60 CCACAATA
44991885 TCT
1 TCT
44991888 ATATCTGATG
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
66 3 0.05
67 29 0.46
71 28 0.44
72 3 0.05
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (67 bp):
TCTGGCAACCTCACTACAATCTGGTGGCCTTGCCACATATATCTGTTCTGGTGACTTAGCCACAA
TA
Found at i:44992015 original size:14 final size:14
Alignment explanation
Indices: 44991996--44992028 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
44991986 GTCTAAAATA
44991996 TGTGATTATGAATG
1 TGTGATTATGAATG
44992010 TGTGATTATGAATG
1 TGTGATTATGAATG
44992024 TGTGA
1 TGTGA
44992029 AAGTTTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.42
Consensus pattern (14 bp):
TGTGATTATGAATG
Found at i:44993708 original size:40 final size:40
Alignment explanation
Indices: 44993653--44993870 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
44993643 TGGATGATAA
* * * * *
44993653 CCGGGCTAAGTCTCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TAT
* *
44993693 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
44993733 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
44993773 CTGGGCTACGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
44993813 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
44993853 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
44993871 TACGTGGCTT
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 147 0.90
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:45001499 original size:40 final size:40
Alignment explanation
Indices: 45001441--45001604 Score: 224
Period size: 40 Copynumber: 4.1 Consensus size: 40
45001431 TGGATGATAA
* *
45001441 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
45001481 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
45001521 CCTGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
45001561 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
45001601 CCGG
1 CCGG
45001605 TTAAATCTCG
Statistics
Matches: 113, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 3 0.03
40 110 0.97
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:45010465 original size:44 final size:45
Alignment explanation
Indices: 45010415--45010502 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
45010405 GTTTTAAACG
* *
45010415 TGGTCTTACTCGTACA-CATATATCAGAATCACATATCGATGCCA
1 TGGTCTTACTCGCACATCACATATCAGAATCACATATCGATGCCA
* **
45010459 TGGTCTTACTCGCACATCACATGTTGGAATCACATATCGATGCC
1 TGGTCTTACTCGCACATCACATATCAGAATCACATATCGATGCC
45010503 TCATATACAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
44 15 0.39
45 23 0.61
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (45 bp):
TGGTCTTACTCGCACATCACATATCAGAATCACATATCGATGCCA
Found at i:45016551 original size:76 final size:76
Alignment explanation
Indices: 45016425--45016576 Score: 268
Period size: 76 Copynumber: 2.0 Consensus size: 76
45016415 TTAAGTAAGT
*
45016425 TGTTTTAACAATAGAATTAATTTATGATAATCTAAACCCACATAAATAAAACCTTATCACCTATT
1 TGTTTTAACAACAGAATTAATTTATGATAATCTAAACCCACATAAATAAAACCTTATCACCTATT
45016490 GTCTAGGTTCG
66 GTCTAGGTTCG
* *
45016501 TGTTTTAACAACAGAATTAATTTATGATAATCTAAACTCACATAAATAAAACCTTATCACTTATT
1 TGTTTTAACAACAGAATTAATTTATGATAATCTAAACCCACATAAATAAAACCTTATCACCTATT
*
45016566 TTCTAGGTTCG
66 GTCTAGGTTCG
45016577 CCGATATCTG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (76 bp):
TGTTTTAACAACAGAATTAATTTATGATAATCTAAACCCACATAAATAAAACCTTATCACCTATT
GTCTAGGTTCG
Found at i:45018113 original size:27 final size:27
Alignment explanation
Indices: 45018074--45018141 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
45018064 TGATATTCTT
*
45018074 TTGGTGAACCCTCAGTTCACCGATACA
1 TTGGTGAATCCTCAGTTCACCGATACA
**
45018101 TTGGTGAATCCTCAGTTTGCCGATACA
1 TTGGTGAATCCTCAGTTCACCGATACA
*
45018128 TTGGCGAATCCTCA
1 TTGGTGAATCCTCA
45018142 CTTGTGAGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (27 bp):
TTGGTGAATCCTCAGTTCACCGATACA
Found at i:45020748 original size:79 final size:78
Alignment explanation
Indices: 45020648--45020863 Score: 233
Period size: 79 Copynumber: 2.7 Consensus size: 78
45020638 GCTCCTCGTT
*
45020648 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCAG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCAG
*
45020713 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* * * *
45020728 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGTACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCCAG
*
45020791 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
45020806 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTA
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTA
45020864 GCCCGGACAT
Statistics
Matches: 115, Mismatches: 14, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
78 46 0.40
79 49 0.43
80 19 0.17
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCAGAA
TTAGTAACTCGCA
Found at i:45020770 original size:39 final size:40
Alignment explanation
Indices: 45020648--45020870 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
45020638 GCTCCTCGTT
* *
45020648 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
45020688 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
45020728 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
45020767 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
45020806 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
45020847 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45020871 CATCATTCAA
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.01
39 86 0.53
40 63 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:45023438 original size:60 final size:60
Alignment explanation
Indices: 45023344--45023531 Score: 340
Period size: 60 Copynumber: 3.1 Consensus size: 60
45023334 AATAAAAGAT
**
45023344 ACAAATTCAAATTCTGAGAATTAATGAAACCTAATTTCACTAAGATCAAACCTAGAGGAGA
1 ACAAATT-AAATTCTGAGTTTTAATGAAACCTAATTTCACTAAGATCAAACCTAGAGGAGA
45023405 ACAAATTAAATTCTGAGTTTTAATGAAACCTAATTTCACTAAGATCAAACCTAGAGGAGA
1 ACAAATTAAATTCTGAGTTTTAATGAAACCTAATTTCACTAAGATCAAACCTAGAGGAGA
*
45023465 ACAAATTAAATTCTGAGTTTTAATGAAACCTAATTTCACTAAGATCAAACCTAAAGGAGA
1 ACAAATTAAATTCTGAGTTTTAATGAAACCTAATTTCACTAAGATCAAACCTAGAGGAGA
45023525 ACAAATT
1 ACAAATT
45023532 CAAAAGCTTT
Statistics
Matches: 124, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
60 117 0.94
61 7 0.06
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.27
Consensus pattern (60 bp):
ACAAATTAAATTCTGAGTTTTAATGAAACCTAATTTCACTAAGATCAAACCTAGAGGAGA
Found at i:45024501 original size:17 final size:17
Alignment explanation
Indices: 45024481--45024514 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
45024471 TAGAGAAATT
45024481 AAAACTTAAATTTAAAAA
1 AAAAC-TAAATTTAAAAA
45024499 AAAACTAAATTTAAAA
1 AAAACTAAATTTAAAA
45024515 TGTATGGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAACTAAATTTAAAAA
Found at i:45025247 original size:7 final size:7
Alignment explanation
Indices: 45025235--45025263 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
45025225 TAACAAGATG
45025235 AAAATAA
1 AAAATAA
45025242 AAAATAA
1 AAAATAA
45025249 AAAATAA
1 AAAATAA
45025256 AAAATAA
1 AAAATAA
45025263 A
1 A
45025264 CCTTGATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:45025552 original size:43 final size:43
Alignment explanation
Indices: 45025497--45025581 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
45025487 TGGATATCAC
*
45025497 ATATATAATAAGAATAATTACATATTATTTTTTACTATCATAT
1 ATATATAATAAGAATAATTACATATTAGTTTTTACTATCATAT
*
45025540 ATATATAGTAAGAATAATTACATATTAGTTTTTACTATCATA
1 ATATATAATAAGAATAATTACATATTAGTTTTTACTATCATA
45025582 AAAAGTTGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.45
Consensus pattern (43 bp):
ATATATAATAAGAATAATTACATATTAGTTTTTACTATCATAT
Found at i:45027160 original size:22 final size:21
Alignment explanation
Indices: 45027113--45027160 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
45027103 TTGATTTACC
** *
45027113 AATATTTTACATTAGTATTAA
1 AATATTTTACATTAAAATAAA
*
45027134 TATATTTTACAATTAAAATAAA
1 AATATTTTAC-ATTAAAATAAA
45027156 AATAT
1 AATAT
45027161 ATTATTACTA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (21 bp):
AATATTTTACATTAAAATAAA
Found at i:45030321 original size:42 final size:43
Alignment explanation
Indices: 45030245--45030355 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 43
45030235 ATTGACTTGA
* * * *
45030245 GATTTACATGTAATACCATGTCTGGGACATTGGCATC-GTATAT
1 GATTT-CATGTAAGACCCTGTCTGGGACAGTGGCATCAATATAT
* * *
45030288 GATTTCATGGAAGACCCTGTCTGGGATAGTGGCATCAATATTT
1 GATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCAATATAT
*
45030331 GATTACATGTAAGACCAC-GTCTGGG
1 GATTTCATGTAAGACC-CTGTCTGGG
45030356 GCGTTGGCAT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 26 0.46
43 30 0.53
44 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
GATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCAATATAT
Found at i:45030353 original size:43 final size:42
Alignment explanation
Indices: 45030248--45030355 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 42
45030238 GACTTGAGAT
* * * *
45030248 TTACATGTAATACCATGTCTGGGACATTGGCATCGTATATGA
1 TTACATGTAAGACCACGTCTGGGACAGTGGCATCATATATGA
* * * *
45030290 TTTCATGGAAGACC-CTGTCTGGGATAGTGGCATCAATATTTGA
1 TTACATGTAAGACCAC-GTCTGGGACAGTGGCATC-ATATATGA
45030333 TTACATGTAAGACCACGTCTGGG
1 TTACATGTAAGACCACGTCTGGG
45030356 GCGTTGGCAT
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
42 27 0.51
43 25 0.47
44 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCACGTCTGGGACAGTGGCATCATATATGA
Found at i:45030364 original size:43 final size:42
Alignment explanation
Indices: 45030209--45030365 Score: 115
Period size: 43 Copynumber: 3.7 Consensus size: 42
45030199 TGTGATATCG
* * *
45030209 TGTAAGATCACATCTGGGACGTTGGCATTGACT-TGA-GATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCA-TCA-TAT-ATGA-TTACA
* * * * *
45030253 TGTAATACCATGTCTGGGACATTGGCATCGTATATGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCATATATGATTACA
* * *
45030295 TGGAAGACC-CTGTCTGGGATAG-TGGCATCAATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGA-CGTTGGCATC-ATATATGATTACA
*
45030338 TGTAAGACCACGTCTGGGGCGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
45030366 TGTACGAGCT
Statistics
Matches: 87, Mismatches: 19, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
42 29 0.33
43 35 0.40
44 23 0.26
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCATATATGATTACA
Found at i:45036497 original size:44 final size:44
Alignment explanation
Indices: 45036443--45036530 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
45036433 TCCGATATGT
*
45036443 GATTTAGTGTAAGACCATATCTGGGACATTGGCATTG-ATTTGA
1 GATTTAGTGTAAGACCATATCTGGGACATTGGCATCGTATTTGA
*
45036486 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
1 GATTTA-GTGTAAGACCATATCTGGGACATTGGCATCGTATTTGA
45036531 TGTAACACCT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 6 0.15
44 29 0.71
45 6 0.15
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (44 bp):
GATTTAGTGTAAGACCATATCTGGGACATTGGCATCGTATTTGA
Found at i:45038636 original size:21 final size:20
Alignment explanation
Indices: 45038571--45038639 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
45038561 AATAATGCTA
45038571 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
45038592 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
45038611 ATAATAATTAAATATAAAACC
1 ATAATAATT-AATATAAAACC
45038632 ATAATAAT
1 ATAATAAT
45038640 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 3 0.08
21 18 0.47
22 3 0.08
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.35
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:45038639 original size:30 final size:30
Alignment explanation
Indices: 45038603--45038661 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
45038593 TAATGTTAAT
*
45038603 TAATAATTATAATAATTAA-ATATAAAACCA
1 TAATAATAATAATAA-TAATATATAAAACCA
* *
45038633 TAATAATAATCATTATAATATATAAAACC
1 TAATAATAATAATAATAATATATAAAACC
45038662 TAAAAAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (30 bp):
TAATAATAATAATAATAATATATAAAACCA
Found at i:45051609 original size:19 final size:19
Alignment explanation
Indices: 45051587--45051625 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
45051577 ACGAACTTAC
45051587 TAAGCTGTAAAGCTTACTT
1 TAAGCTGTAAAGCTTACTT
45051606 TAAGCTGTAAAGCTTACTT
1 TAAGCTGTAAAGCTTACTT
45051625 T
1 T
45051626 GTGTTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (19 bp):
TAAGCTGTAAAGCTTACTT
Found at i:45057785 original size:43 final size:43
Alignment explanation
Indices: 45057724--45057819 Score: 174
Period size: 43 Copynumber: 2.2 Consensus size: 43
45057714 CAACCCTATA
*
45057724 TCACACGGGCATGTCTACTAGCTGTGTGAGGCACACAGTCTGT
1 TCACACGGGCATGTCTACTAGCCGTGTGAGGCACACAGTCTGT
*
45057767 TCACACGGGCATGTCTACTAGCCGTGTGAGGCACACGGTCTGT
1 TCACACGGGCATGTCTACTAGCCGTGTGAGGCACACAGTCTGT
45057810 TCACACGGGC
1 TCACACGGGC
45057820 TGAGACCTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.20, C:0.28, G:0.29, T:0.23
Consensus pattern (43 bp):
TCACACGGGCATGTCTACTAGCCGTGTGAGGCACACAGTCTGT
Found at i:45067928 original size:79 final size:79
Alignment explanation
Indices: 45067784--45068001 Score: 235
Period size: 79 Copynumber: 2.7 Consensus size: 79
45067774 GAATCACGTA
* ** *
45067784 CCTTCGGAATTTAACCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGT
1 CCTTCGGAACTTAACCGGATATAGCAACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGT
45067849 AACTCGCACAAATG
66 AACTCGCACAAATG
* * * * *
45067863 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGA-ATTA
1 CCTTCGGAACTTAA-CCGGATATAGCAACTCGCACAAATGCCTTCGGGACATAGCCCGGATA-TA
45067926 GTAACTCGCACAAATG
64 GTAACTCGCACAAATG
* * ** ** *
45067942 CCTTCGGATCTTAGTCCGGATATAGTCATTTATCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGAACTTA-ACCGGATATAG-CAACTCGCACAAATGCCTTCGGGACATAGCCCGGA
45068002 CATCATTTGA
Statistics
Matches: 115, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
78 1 0.01
79 68 0.59
80 46 0.40
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CCTTCGGAACTTAACCGGATATAGCAACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:45068001 original size:40 final size:40
Alignment explanation
Indices: 45067798--45068001 Score: 236
Period size: 40 Copynumber: 5.1 Consensus size: 40
45067788 CGGAATTTAA
* ** *
45067798 CCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
45067838 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
45067878 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
45067917 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
** **
45067957 CCGGATATAGTCATTTATCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-AACTCGCACAAATGCCTTCGGGACTTAGC
45067997 CCGGA
1 CCGGA
45068002 CATCATTTGA
Statistics
Matches: 140, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:45072278 original size:46 final size:46
Alignment explanation
Indices: 45072228--45072397 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
45072218 TTGAGCATCA
* *
45072228 GAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTTC
* * * * *
45072274 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTTC
* * * *
45072321 GAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACGCTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTTC
*
45072367 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
45072398 GGGGCGGGTT
Statistics
Matches: 99, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 55 0.56
47 27 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTTC
Found at i:45072381 original size:93 final size:93
Alignment explanation
Indices: 45072222--45072392 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
45072212 GGATGGTTGA
* *
45072222 GCATCAGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAGT
1 GCATCAGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCTCGAACTCGTTGAGT
45072287 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* ** * * *
45072315 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACGCTCGAGCTCGTTGAGT
1 GCATCAGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCTCGAACTCGTTGAGT
45072380 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
45072393 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCAGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCTCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45083888 original size:48 final size:48
Alignment explanation
Indices: 45083728--45083896 Score: 170
Period size: 48 Copynumber: 3.6 Consensus size: 48
45083718 TGATATGTGT
*
45083728 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAT--AGCAT-G--AGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAG-ATAGTCA-A
* *
45083774 GCAAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAGTTAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAGTCAA
* * * * *
45083822 GCCAATGTATGACATGTCTGAGACATGCATTGGCCTCGCGATA-TACAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAGT-CAA
* *
45083870 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCCAGTGTAAGACATGTCTGGGACATG
45083897 GAATCAGCTT
Statistics
Matches: 103, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
45 1 0.01
46 35 0.34
47 4 0.04
48 62 0.60
49 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (48 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAGTCAA
Found at i:45085821 original size:40 final size:40
Alignment explanation
Indices: 45085784--45085861 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
45085774 ATGTTTGATG
45085784 ACAAATT-GGCTAAATATGGCACTTAGTGTGCGGTTTGAC
1 ACAAATTCGGCTAAATATGGCACTTAGTGTGCGGTTTGAC
* ** *
45085823 ATAGCTTCGGCTAAATATGGCACTTAGTGTGCGATTTGA
1 ACAAATTCGGCTAAATATGGCACTTAGTGTGCGGTTTGA
45085862 GATAGTTTCG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (40 bp):
ACAAATTCGGCTAAATATGGCACTTAGTGTGCGGTTTGAC
Found at i:45085887 original size:40 final size:40
Alignment explanation
Indices: 45085793--45085894 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
45085783 GACAAATTGG
* * * *
45085793 CTAAATATGGCACTTAGTGTGCGGTTTGACATAGCTTCGG
1 CTAAATACGACACTTAGTGTGCGATTTGACATAGCTTCGA
* * * *
45085833 CTAAATATGGCACTTAGTGTGCGATTTGAGATAGTTTCGA
1 CTAAATACGACACTTAGTGTGCGATTTGACATAGCTTCGA
**
45085873 CTATGTACGACACTTAGTGTGC
1 CTAAATACGACACTTAGTGTGC
45085895 AAGACATCGA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (40 bp):
CTAAATACGACACTTAGTGTGCGATTTGACATAGCTTCGA
Found at i:45085921 original size:28 final size:28
Alignment explanation
Indices: 45085881--45085948 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
45085871 GACTATGTAC
*
45085881 GACACTTAGTGTGC-AAGACATCGAGTAT
1 GACACTTAGTGTGCGAA-ACATCGAGAAT
*
45085909 GACACTTAGTGTGCGAAACATTGAGAAT
1 GACACTTAGTGTGCGAAACATCGAGAAT
**
45085937 GGTACTTAGTGT
1 GACACTTAGTGT
45085949 CTGAGATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 33 0.94
29 2 0.06
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (28 bp):
GACACTTAGTGTGCGAAACATCGAGAAT
Found at i:45088397 original size:37 final size:37
Alignment explanation
Indices: 45088349--45088445 Score: 113
Period size: 37 Copynumber: 2.6 Consensus size: 37
45088339 TGAGTACGTA
*
45088349 TAAGACTATAGCTGGGCTATGGCATCATAATAACATG
1 TAAGACCATAGCTGGGCTATGGCATCATAATAACATG
* ** * **
45088386 TAAGACCATAGCTGGACTATGGCATTGTGATCCCATG
1 TAAGACCATAGCTGGGCTATGGCATCATAATAACATG
* *
45088423 TAAGACCATATCTGGGATATGGC
1 TAAGACCATAGCTGGGCTATGGC
45088446 GTTGGCATCG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (37 bp):
TAAGACCATAGCTGGGCTATGGCATCATAATAACATG
Found at i:45088471 original size:48 final size:48
Alignment explanation
Indices: 45088411--45088512 Score: 195
Period size: 48 Copynumber: 2.1 Consensus size: 48
45088401 ACTATGGCAT
45088411 TGTGATCCCATGTAAGACCATATCTGGGATATGGCGTTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTGGGATATGGCGTTGGCATCGATA
*
45088459 TGTGATCCCATGTAAGACCATATTTGGGATATGGCGTTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTGGGATATGGCGTTGGCATCGATA
45088507 TGTGAT
1 TGTGAT
45088513 TTCGTATAAG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATATCTGGGATATGGCGTTGGCATCGATA
Found at i:45088523 original size:48 final size:48
Alignment explanation
Indices: 45088411--45088541 Score: 190
Period size: 48 Copynumber: 2.7 Consensus size: 48
45088401 ACTATGGCAT
* *
45088411 TGTGATCCCATGTAAGACCATATCTGGGATATGGCGTTGGCATCGATA
1 TGTGATCCCATATAAGACCATATTTGGGATATGGCGTTGGCATCGATA
*
45088459 TGTGATCCCATGTAAGACCATATTTGGGATATGGCGTTGGCATCGATA
1 TGTGATCCCATATAAGACCATATTTGGGATATGGCGTTGGCATCGATA
** * * *
45088507 TGTGATTTCGTATAAGACCATGTTTGGGACATGGC
1 TGTGATCCCATATAAGACCATATTTGGGATATGGC
45088542 ATCAAGAAGA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 76 1.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (48 bp):
TGTGATCCCATATAAGACCATATTTGGGATATGGCGTTGGCATCGATA
Found at i:45093022 original size:40 final size:40
Alignment explanation
Indices: 45092941--45093044 Score: 118
Period size: 40 Copynumber: 2.6 Consensus size: 40
45092931 ACGATTAATT
**
45092941 GGCTAAATATGGCACTTAGTGTGCGGTTCGACATAGCTTC
1 GGCTAAATATGGCACTTAGTGTGCAATTCGACATAGCTTC
* * * *
45092981 GGCTAAATATGGCACTTAGTGTTCAATTTGAGATAGTTTC
1 GGCTAAATATGGCACTTAGTGTGCAATTCGACATAGCTTC
** * *
45093021 GGCTATGTACGACACTTAGTGTGC
1 GGCTAAATATGGCACTTAGTGTGC
45093045 GAGACATCGA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (40 bp):
GGCTAAATATGGCACTTAGTGTGCAATTCGACATAGCTTC
Found at i:45093073 original size:28 final size:28
Alignment explanation
Indices: 45093031--45093142 Score: 100
Period size: 28 Copynumber: 4.0 Consensus size: 28
45093021 GGCTATGTAC
* *
45093031 GACACTTAGTGTGCGAGACATCGAGTAT
1 GACACTTTGTGTGCGAGACATTGAGTAT
* * *
45093059 GTCACTTTGTGTGCGAAACATTGAGAAT
1 GACACTTTGTGTGCGAGACATTGAGTAT
* * *
45093087 GGCA-TTTAGTGTGCGAGATATTGAGTAC
1 GACACTTT-GTGTGCGAGACATTGAGTAT
* * * *
45093115 AACACTTTGTGTGGGAAATATTGAGTAT
1 GACACTTTGTGTGCGAGACATTGAGTAT
45093143 TCAATTGGCA
Statistics
Matches: 67, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
27 3 0.04
28 61 0.91
29 3 0.04
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.31
Consensus pattern (28 bp):
GACACTTTGTGTGCGAGACATTGAGTAT
Found at i:45108668 original size:96 final size:95
Alignment explanation
Indices: 45108547--45108723 Score: 230
Period size: 96 Copynumber: 1.9 Consensus size: 95
45108537 GTGATTGCTA
* * ** *
45108547 GTGTAAGACCATGTCCGGGATATGGCATCAGCACCGATAGATTAGAG-CTAGTGTAAGACCGTGT
1 GTGTAAGACCATGTCCGGGACATGGCATCAGCACAGATAGACGAGAGTC-AGTG-AAGACCATGT
*
45108611 TTGGGACATGACATCAGCTATGAGATGTGTCG
64 CTGGGACATGACATCAGCTATGAGATGTGTCG
** * *
45108643 GTGTAAGACCATGTCTTGGACATGGCATTAGCACAGATGGACGAGAGTCAGTGAAGACCATGTCT
1 GTGTAAGACCATGTCCGGGACATGGCATCAGCACAGATAGACGAGAGTCAGTGAAGACCATGTCT
*
45108708 GGGACATGGCATCAGC
66 GGGACATGACATCAGC
45108724 CTCGACATAC
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
95 25 0.36
96 43 0.62
97 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23
Consensus pattern (95 bp):
GTGTAAGACCATGTCCGGGACATGGCATCAGCACAGATAGACGAGAGTCAGTGAAGACCATGTCT
GGGACATGACATCAGCTATGAGATGTGTCG
Found at i:45108736 original size:49 final size:48
Alignment explanation
Indices: 45108497--45108871 Score: 225
Period size: 50 Copynumber: 7.7 Consensus size: 48
45108487 ACAAGATAGT
* * * * ** ** **
45108497 TAGTGTAAGAACATGTCTAGGACATGGCATCGGCATTGATGTGATTGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAATACGAGAGC
* * *
45108545 TAGTGTAAGACCATGTCCGGGATATGGCATCAGCAC-CGATA-GATTAGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTCAATACG---AGAGC
* * * *
45108595 TAGTGTAAGACCGTGTTTGGGACATGACATCAG-CT--AT--GAGATGTG
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAATACGAGA-G-C
* * * *
45108640 TCGGTGTAAGACCATGTCTTGGACATGGCATTAG-CACAGATGGACGAGAG-
1 T-AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCA-AT--ACGAGAGC
45108690 TCAGTG-AAGACCATGTCTGGGACATGGCATCAGCCTCGACATACGAGAGC
1 T-AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC-A-ATACGAGAGC
* ** * * *
45108740 TAGTTTAAGACCATGTCTGGGACATGGTGTCTGGCTCAATACATGATAG-
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAATAC--GAGAGC
* ** *
45108789 TCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTTGATACGTGAGC
1 T-AGTGTAAGACCATGTCTGGGACATGGCATCAG-CCTCAATACGAGAGC
*
45108838 TAGTGTAAGACCATGTCTGGGACACGGCATCAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAGC
45108872 TTCCTACCCT
Statistics
Matches: 258, Mismatches: 44, Indels: 50
0.73 0.12 0.14
Matches are distributed among these distances:
43 3 0.01
44 1 0.00
45 1 0.00
46 28 0.11
47 3 0.01
48 70 0.27
49 42 0.16
50 102 0.40
51 3 0.01
52 1 0.00
53 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAATACGAGAGC
Found at i:45114702 original size:30 final size:30
Alignment explanation
Indices: 45114668--45114726 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
45114658 ATGTTAGCAG
*
45114668 CTAAAAAATTCGCGATATCTGCAAACCAAA
1 CTAAAAAATTCACGATATCTGCAAACCAAA
* *
45114698 CTAAAAAATTCACGATGTCTGTAAACCAA
1 CTAAAAAATTCACGATATCTGCAAACCAA
45114727 GGTACCTCGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.46, C:0.22, G:0.10, T:0.22
Consensus pattern (30 bp):
CTAAAAAATTCACGATATCTGCAAACCAAA
Found at i:45122528 original size:91 final size:91
Alignment explanation
Indices: 45122373--45122550 Score: 304
Period size: 91 Copynumber: 2.0 Consensus size: 91
45122363 AGAATACATC
*
45122373 ATTCAAACCCACTGAGAATAGATAAGAAAATGACAATATACTTCCCATATATGTATATATATCAG
1 ATTCAAACCCACTGAGAATAGATAAGAAAAGGACAATATACTTCCCATATATGTATATATATCAG
*
45122438 GCAGAGCAATAATTAGAAGAAACAGG
66 ACAGAGCAATAATTAGAAGAAACAGG
* *
45122464 ATTCAAACCCACTGGGAATAGATACA-ACAAGGACAATATACTTCCCATATATGTATATATATCA
1 ATTCAAACCCACTGAGAATAGATA-AGAAAAGGACAATATACTTCCCATATATGTATATATATCA
45122528 GACAGAGCAATAATTAGAAGAAA
65 GACAGAGCAATAATTAGAAGAAA
45122551 TAGAATCATA
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
91 81 0.99
92 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.15, T:0.23
Consensus pattern (91 bp):
ATTCAAACCCACTGAGAATAGATAAGAAAAGGACAATATACTTCCCATATATGTATATATATCAG
ACAGAGCAATAATTAGAAGAAACAGG
Found at i:45129415 original size:27 final size:27
Alignment explanation
Indices: 45129385--45129443 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
45129375 GAGTCCACTT
45129385 ATTTTACTTTTATCTTTATCT-TTATTA
1 ATTTTACTTTTAT-TTTATCTCTTATTA
* * * *
45129412 ATTTCAGTTTTATTTTGTCTCTTATTT
1 ATTTTACTTTTATTTTATCTCTTATTA
45129439 ATTTT
1 ATTTT
45129444 TGAAGATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.19, C:0.10, G:0.03, T:0.68
Consensus pattern (27 bp):
ATTTTACTTTTATTTTATCTCTTATTA
Found at i:45143109 original size:25 final size:25
Alignment explanation
Indices: 45143081--45143150 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
45143071 CTCTTTTAAT
*
45143081 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
45143106 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
45143131 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
45143151 AGCACTTTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:45173216 original size:19 final size:18
Alignment explanation
Indices: 45173183--45173218 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
45173173 AACTTGGCAC
*
45173183 CATAATCATTTAATTTAA
1 CATAATCAATTAATTTAA
45173201 CATAACTCAATTAATTTA
1 CATAA-TCAATTAATTTA
45173219 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (18 bp):
CATAATCAATTAATTTAA
Found at i:45173548 original size:30 final size:30
Alignment explanation
Indices: 45173514--45173574 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
45173504 TCCTTAACTC
45173514 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
45173544 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
45173574 A
1 A
45173575 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Done.