Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 59 of 211
Found at i:17909247 original size:18 final size:18
Alignment explanation
Indices: 17909224--17909261 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
17909214 AAAAATTACT
17909224 TAACAA-AATACTTATAAA
1 TAACAACAATACTTA-AAA
17909242 TAACAACTAATACTTAAAA
1 TAACAAC-AATACTTAAAA
17909261 T
1 T
17909262 TCGTCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (18 bp):
TAACAACAATACTTAAAA
Found at i:17914659 original size:23 final size:24
Alignment explanation
Indices: 17914611--17914664 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
17914601 ATATATAATT
*
17914611 TTTAAAATATAAAAATGAAAAGTA
1 TTTAAAATATAAAAATCAAAAGTA
*
17914635 TTTAAAAT-TCAAAATTCAAAA-TA
1 TTTAAAATAT-AAAAATCAAAAGTA
17914658 TTTAAAA
1 TTTAAAA
17914665 AATATTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (24 bp):
TTTAAAATATAAAAATCAAAAGTA
Found at i:17915100 original size:17 final size:17
Alignment explanation
Indices: 17915067--17915100 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17915057 ATATCACTGA
* *
17915067 ATTTTGAAAGTTTTTAT
1 ATTTTGAAAATTGTTAT
17915084 ATTTTGAAAATTGTTAT
1 ATTTTGAAAATTGTTAT
17915101 GAATATCTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (17 bp):
ATTTTGAAAATTGTTAT
Found at i:17921807 original size:21 final size:23
Alignment explanation
Indices: 17921763--17921813 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
17921753 ATGTGCATTT
17921763 AAAAATAGTATACAATAATGTTAA
1 AAAAATAGTATACAATAA-GTTAA
*
17921787 AAAAATA-TATACACTAA-TTAA
1 AAAAATAGTATACAATAAGTTAA
*
17921808 TAAAAT
1 AAAAAT
17921814 GTAAGGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 9 0.36
23 9 0.36
24 7 0.28
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (23 bp):
AAAAATAGTATACAATAAGTTAA
Found at i:17921812 original size:23 final size:24
Alignment explanation
Indices: 17921763--17921812 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
17921753 ATGTGCATTT
*
17921763 AAAAATAGTATACAATAATGTTAA
1 AAAAATAGTATACAATAATGTAAA
* *
17921787 AAAAATA-TATACACTAAT-TAAT
1 AAAAATAGTATACAATAATGTAAA
17921809 AAAA
1 AAAA
17921813 TGTAAGGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 6 0.26
23 10 0.43
24 7 0.30
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (24 bp):
AAAAATAGTATACAATAATGTAAA
Found at i:17929374 original size:51 final size:51
Alignment explanation
Indices: 17929240--17929375 Score: 188
Period size: 50 Copynumber: 2.7 Consensus size: 51
17929230 AGTGAATGTG
*
17929240 ATGGTCACGTGTGTAGTACTATATGCAGGCTACTACGTGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATATGCAGGCTACTACGTGTACCGGAATGAT
* *
17929291 A-GGTCGA-ATGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GAATGAT
1 ATGGTC-ACATGTGTAGTACTATATGCAGGCTACTACGTGTACCGGAATGAT
* *
17929340 AATGGTCACATGTGTAGTATTATATGCAGACTACTA
1 -ATGGTCACATGTGTAGTACTATATGCAGGCTACTA
17929376 TGTGAACAGG
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
49 7 0.09
50 38 0.51
51 30 0.40
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATATGCAGGCTACTACGTGTACCGGAATGAT
Found at i:17929435 original size:45 final size:45
Alignment explanation
Indices: 17929384--17929474 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
17929374 TATGTGAACA
* * *
17929384 GGACATCATTGATTAGTAAGGTGGTTGCTGTGTGCTGATTCCACC
1 GGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
17929429 GGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
1 GGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
17929474 G
1 G
17929475 AGTATCTGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (45 bp):
GGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
Found at i:17929545 original size:23 final size:22
Alignment explanation
Indices: 17929519--17929562 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
17929509 AATTGACTAA
17929519 GTGT-AATTGAATAATGAATATAG
1 GTGTGAATTGAAT--TGAATATAG
17929542 GTGTGGAATTGAATTGAATAT
1 GTGT-GAATTGAATTGAATAT
17929563 CGACTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (22 bp):
GTGTGAATTGAATTGAATATAG
Found at i:17933126 original size:45 final size:44
Alignment explanation
Indices: 17933072--17933157 Score: 104
Period size: 45 Copynumber: 1.9 Consensus size: 44
17933062 TAATTTTTAT
*
17933072 ATTTCTATATATTTTA-TAATTTTT-TCGATTTTTTAAAAATTTACA
1 ATTTCTATATACTTTACT-ATTTTTAT--ATTTTTTAAAAATTTACA
* *
17933117 ATTTTTATATACTTTACTATTTTTATATTTTTTATAAATTT
1 ATTTCTATATACTTTACTATTTTTATATTTTTTAAAAATTT
17933158 TAATAAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
44 14 0.39
45 20 0.56
46 2 0.06
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (44 bp):
ATTTCTATATACTTTACTATTTTTATATTTTTTAAAAATTTACA
Found at i:17933138 original size:53 final size:54
Alignment explanation
Indices: 17933031--17933150 Score: 138
Period size: 53 Copynumber: 2.2 Consensus size: 54
17933021 TTACATTTTG
* * *
17933031 TATAATTTTCTTACGACTTTATAAAATTTTATAATTTTTATATTTCTATATATTT
1 TATAATTTT-TTACGACTTTATAAAAATTTACAATTTTTATATTACTATATATTT
* * *
17933086 TATAATTTTTT-CGATTTTTTAAAAATTTACAATTTTTATA-TACTTTACTATTT
1 TATAATTTTTTACGACTTTATAAAAATTTACAATTTTTATATTACTATA-TATTT
17933139 T-TATATTTTTTA
1 TATA-ATTTTTTA
17933151 TAAATTTTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
52 7 0.12
53 38 0.68
54 2 0.04
55 9 0.16
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.60
Consensus pattern (54 bp):
TATAATTTTTTACGACTTTATAAAAATTTACAATTTTTATATTACTATATATTT
Found at i:17933364 original size:89 final size:88
Alignment explanation
Indices: 17933256--17933480 Score: 285
Period size: 89 Copynumber: 2.6 Consensus size: 88
17933246 AATTTTTAAT
* * *
17933256 AAAAGCAGTGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGT
1 AAAAGTAGAGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTAAAAGT
**
17933321 TCAAGTACCCAATTGAGTGCAAAA
66 TCAAGTACCCAAACGAGTG-AAAA
* * * *
17933345 AAAAGTAGGGGCTTGATTGCTTCTTTTGAAAAGGTTTGAGGGTC-TTTTGATGCATTTTAAAAGT
1 AAAAGTAGAGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTAAAAGT
17933409 TCAAGTACCCAAACGAGTGAAAA
66 TCAAGTACCCAAACGAGTGAAAA
* ** * *
17933432 AAAA-TAGAAGCTTAATTAATTTTTTCGAAAAAAATTTGAGGG-CTTTTTG
1 AAAAGTAGAGGCTTAATTGCTTTTTTTG-AAAAAGTTTGAGGGTCTTTTTG
17933481 CACTCTTAAG
Statistics
Matches: 117, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
86 17 0.15
87 25 0.21
88 36 0.31
89 39 0.33
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.35
Consensus pattern (88 bp):
AAAAGTAGAGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTAAAAGT
TCAAGTACCCAAACGAGTGAAAA
Found at i:17935261 original size:277 final size:274
Alignment explanation
Indices: 17934769--17935359 Score: 780
Period size: 277 Copynumber: 2.1 Consensus size: 274
17934759 CTCATAGCTC
*
17934769 ATTTCTTCATCATTTTCATTAAAAAGTTAATTTTAATCACACATTGTATAAGGAATACTCCCATA
1 ATTTCTTCATCATTTTCATTAAAAAGTTAATTTTAATC-CACATTGTATAAGCAATACTCCCATA
** * *
17934834 GGTCACTTCCTCACTATTTACATTAAAAATAATTTAATCCCTTACAATGTTAATTTTAATCCCAT
65 GCCCACTTCCTCACTATTTACATTAAAAATAATTTAATCCCTTACAAAGTTAATTTTAATCCCAC
* * * * * * **
17934899 ATTGGCTTGTGAACACTATCATGCTTACACTTACCTTGTAAATAAGTGATAGTTTCTTTATTATT
130 ATTGGCTAGAGAACACTATCATGCTCACACTTACCCTATAAATAAGTGATAATTTCTTTACCATT
* * ** * *
17934964 TTCATTAAAAAGTTAATTTTAATCCCTCTTTGAGC-GGAGAACACTC-CTATATCTTACATTTAC
195 TTCATTAAAAAGTTAATTTTAATCCCACATTGA-CTAAAAAACACTCTC-ATATCTCACATTTAC
17935027 CTTATAAATAAGTGACA
258 CTTATAAATAAGTGACA
*
17935044 ATTTCTTCATCATTTTCATTAAAAAGTTTATTTTAATCCTACATTG-ACT-AGACAATACTCCCA
1 ATTTCTTCATCATTTTCATTAAAAAGTTAATTTTAATCC-ACATTGTA-TAAG-CAATACTCCCA
* * *
17935107 TAGCCCATTTCTTCACTATTTTCATTAAAAATTAATTTTAATCCCTTA-ATAAGTTAATTTTAAT
63 TAGCCCACTTCCTCACTATTTACATTAAAAA-TAA-TTTAATCCCTTACA-AAGTTAATTTTAAT
* * * *
17935171 CTCACATTGGCTAGAGAATACTCTCATGCTCACACTTACCCTATAAATTAGTG-TCAATTTCTTT
125 CCCACATTGGCTAGAGAACACTATCATGCTCACACTTACCCTATAAATAAGTGAT-AATTTCTTT
*
17935235 ACCATTTTCATTGAAAAGTTAATTTTAATCCCACATTGACTAAAAAACACTCTCATATCTCACAT
189 ACCATTTTCATTAAAAAGTTAATTTTAATCCCACATTGACTAAAAAACACTCTCATATCTCACAT
*
17935300 TTACCTTGTAAATAAGTGACA
254 TTACCTTATAAATAAGTGACA
*
17935321 ATTTCTTCATCATTTTCATTAAAAGGTTAATTTTAATCC
1 ATTTCTTCATCATTTTCATTAAAAAGTTAATTTTAATCC
17935360 CATATTGAAT
Statistics
Matches: 276, Mismatches: 31, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
274 4 0.01
275 80 0.29
276 6 0.02
277 185 0.67
278 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (274 bp):
ATTTCTTCATCATTTTCATTAAAAAGTTAATTTTAATCCACATTGTATAAGCAATACTCCCATAG
CCCACTTCCTCACTATTTACATTAAAAATAATTTAATCCCTTACAAAGTTAATTTTAATCCCACA
TTGGCTAGAGAACACTATCATGCTCACACTTACCCTATAAATAAGTGATAATTTCTTTACCATTT
TCATTAAAAAGTTAATTTTAATCCCACATTGACTAAAAAACACTCTCATATCTCACATTTACCTT
ATAAATAAGTGACA
Found at i:17935360 original size:94 final size:93
Alignment explanation
Indices: 17934882--17935367 Score: 373
Period size: 94 Copynumber: 5.2 Consensus size: 93
17934872 CCCTTACAAT
* * * * * * * *
17934882 GTTAATTTTAATCCCATATTGGCTTGTGAACACTATCAT-GCTTACACTTACCTTGTAAATAAGT
1 GTTAATTTTAATCCCACATTGACTAGAGAACACTCTCATAGCTCACATTTACCTTATAAATAAGT
* * * *
17934946 GATAGTTTCTTTATTATTTTCATTAAAAA
66 GACAATTTCTTCATCATTTTCATT-AAAA
* * * * *
17934975 GTTAATTTTAATCCCTCTTTGAGC-GGAGAACACTC-CTATATCTTACATTTACCTTATAAATAA
1 GTTAATTTTAATCCCACATTGA-CTAGAGAACACTCTC-ATAGCTCACATTTACCTTATAAATAA
17935038 GTGACAATTTCTTCATCATTTTCATTAAAAA
64 GTGACAATTTCTTCATCATTTTCATT-AAAA
* * * * * ** *
17935069 GTTTATTTTAATCCTACATTGACTAGACAATACTCCCATAGC-C-CATTT--CTTCACTATTTTC
1 GTTAATTTTAATCCCACATTGACTAGAGAACACTCTCATAGCTCACATTTACCTT-A-TA-AATA
* * * ** * * * *
17935130 ATTAAAAATTAATT--TTA-ATCCCTTAATAA
63 AGTGACAATTTCTTCATCATTTTCATTAA-AA
* * * * * *
17935159 GTTAATTTTAATCTCACATTGGCTAGAGAATACTCTCAT-GCTCACACTTACCCTATAAATTAGT
1 GTTAATTTTAATCCCACATTGACTAGAGAACACTCTCATAGCTCACATTTACCTTATAAATAAGT
* * *
17935223 GTCAATTTCTTTACCATTTTCATTGAAAA
66 GACAATTTCTTCATCATTTTCATT-AAAA
* * * *
17935252 GTTAATTTTAATCCCACATTGACTAAAAAACACTCTCATATCTCACATTTACCTTGTAAATAAGT
1 GTTAATTTTAATCCCACATTGACTAGAGAACACTCTCATAGCTCACATTTACCTTATAAATAAGT
17935317 GACAATTTCTTCATCATTTTCATTAAAA
66 GACAATTTCTTCATCATTTTCATTAAAA
*
17935345 GGTTAATTTTAATCCCATATTGA
1 -GTTAATTTTAATCCCACATTGA
17935368 ATAGGGAATA
Statistics
Matches: 303, Mismatches: 71, Indels: 37
0.74 0.17 0.09
Matches are distributed among these distances:
89 4 0.01
90 52 0.17
91 9 0.03
92 10 0.03
93 85 0.28
94 142 0.47
95 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (93 bp):
GTTAATTTTAATCCCACATTGACTAGAGAACACTCTCATAGCTCACATTTACCTTATAAATAAGT
GACAATTTCTTCATCATTTTCATTAAAA
Found at i:17941146 original size:22 final size:22
Alignment explanation
Indices: 17941121--17941162 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
17941111 CTGTCACATG
17941121 AATTAAATTAATTATTAAATTA
1 AATTAAATTAATTATTAAATTA
* * *
17941143 AATTAATTTGATTGTTAAAT
1 AATTAAATTAATTATTAAAT
17941163 ATGAAATGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (22 bp):
AATTAAATTAATTATTAAATTA
Found at i:17946586 original size:24 final size:24
Alignment explanation
Indices: 17946558--17946606 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
17946548 ATTAAAAGTA
*
17946558 ATCTAATTTGGGTAAGAATTATTG
1 ATCTAATTTGGATAAGAATTATTG
*
17946582 ATCTAATTTGGATAAGACTTATTG
1 ATCTAATTTGGATAAGAATTATTG
17946606 A
1 A
17946607 GCTTCCGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (24 bp):
ATCTAATTTGGATAAGAATTATTG
Found at i:17957831 original size:40 final size:40
Alignment explanation
Indices: 17957775--17957982 Score: 267
Period size: 40 Copynumber: 5.2 Consensus size: 40
17957765 CATTTGAATG
*
17957775 ATATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
17957815 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
17957855 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
17957895 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * *
17957935 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
17957975 ATATCCGG
1 ATATCCGG
17957983 CTAAATTCCG
Statistics
Matches: 153, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 2 0.01
40 148 0.97
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:17966249 original size:40 final size:40
Alignment explanation
Indices: 17966187--17966397 Score: 250
Period size: 40 Copynumber: 5.3 Consensus size: 40
17966177 CATTTGAATG
* *
17966187 ATATCCGGG-TAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
17966226 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
17966266 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
17966306 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
17966346 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
17966386 ATATCC-GGCTAA
1 ATATCCGGGCTAA
17966398 ATTCCGAAGA
Statistics
Matches: 154, Mismatches: 14, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
39 15 0.10
40 136 0.88
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:17975384 original size:17 final size:17
Alignment explanation
Indices: 17975362--17975418 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
17975352 GTTTTGTGAA
17975362 CTGTGTTTGCATATAAG
1 CTGTGTTTGCATATAAG
* *
17975379 CTGTGTTTG-GT-GAA-
1 CTGTGTTTGCATATAAG
*
17975393 CTATGTTTGCATATAAG
1 CTGTGTTTGCATATAAG
17975410 CTGTGTTTG
1 CTGTGTTTG
17975419 GTAAACTATG
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 3 0.10
17 17 0.55
ACGTcount: A:0.19, C:0.11, G:0.26, T:0.44
Consensus pattern (17 bp):
CTGTGTTTGCATATAAG
Found at i:17975386 original size:31 final size:31
Alignment explanation
Indices: 17975351--17975430 Score: 133
Period size: 31 Copynumber: 2.6 Consensus size: 31
17975341 CAATAAGTTC
* *
17975351 TGTTTTGTGAACTGTGTTTGCATATAAGCTG
1 TGTTTGGTGAACTATGTTTGCATATAAGCTG
17975382 TGTTTGGTGAACTATGTTTGCATATAAGCTG
1 TGTTTGGTGAACTATGTTTGCATATAAGCTG
*
17975413 TGTTTGGTAAACTATGTT
1 TGTTTGGTGAACTATGTT
17975431 CGCAAGTTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.21, C:0.09, G:0.25, T:0.45
Consensus pattern (31 bp):
TGTTTGGTGAACTATGTTTGCATATAAGCTG
Found at i:17988914 original size:17 final size:17
Alignment explanation
Indices: 17988851--17988914 Score: 65
Period size: 17 Copynumber: 3.5 Consensus size: 17
17988841 ATGGGAAAAC
*
17988851 GTACCAAAATCCAGGAT
1 GTACCAACATCCAGGAT
*
17988868 GTACCAACATCTGCATCAAGAT
1 GTACCAACA--T-C--CAGGAT
17988890 GTACCAACATCCAGGAT
1 GTACCAACATCCAGGAT
17988907 GTACCAAC
1 GTACCAAC
17988915 TATAGTTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
17 21 0.54
19 2 0.05
20 2 0.05
22 14 0.36
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.19
Consensus pattern (17 bp):
GTACCAACATCCAGGAT
Found at i:17994887 original size:40 final size:40
Alignment explanation
Indices: 17994838--17994938 Score: 139
Period size: 40 Copynumber: 2.5 Consensus size: 40
17994828 ACTGAGCTTC
* * *
17994838 TTCAATAGATTCATTAGGTATGGCTCAAAAACACATACGT
1 TTCAGTAGATTCAGTAGGTATGGCTCAAAAACACATACAT
** *
17994878 TTCAGTAGATTCAGTAGGTATGGCTTGAAAACGCATACAT
1 TTCAGTAGATTCAGTAGGTATGGCTCAAAAACACATACAT
*
17994918 CTCAGTAGATTCAGTAGGTAT
1 TTCAGTAGATTCAGTAGGTAT
17994939 CGCTAGTTTG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (40 bp):
TTCAGTAGATTCAGTAGGTATGGCTCAAAAACACATACAT
Found at i:18013908 original size:23 final size:23
Alignment explanation
Indices: 18013878--18013924 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
18013868 GATCAAGATA
18013878 GATCTCGAATAGATTTAGATCAG
1 GATCTCGAATAGATTTAGATCAG
18013901 GATCTCGAATAGATTTAGATCAG
1 GATCTCGAATAGATTTAGATCAG
18013924 G
1 G
18013925 GAAAAGCGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (23 bp):
GATCTCGAATAGATTTAGATCAG
Found at i:18015851 original size:8 final size:8
Alignment explanation
Indices: 18015838--18015865 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
18015828 GATTTTTAAA
18015838 TATTATTT
1 TATTATTT
18015846 TATTATTT
1 TATTATTT
18015854 TATTATTT
1 TATTATTT
18015862 TATT
1 TATT
18015866 GTTTAGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TATTATTT
Found at i:18020265 original size:16 final size:15
Alignment explanation
Indices: 18020217--18020264 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
18020207 ATAACTTAAA
*
18020217 TTTAGCATTTAAATTT
1 TTTAACATTT-AATTT
* *
18020233 TTTAATACTT-ATTT
1 TTTAACATTTAATTT
18020247 TTTAACATTTAATTT
1 TTTAACATTTAATTT
18020262 TTT
1 TTT
18020265 TTATTTTTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
14 12 0.46
15 7 0.27
16 7 0.27
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (15 bp):
TTTAACATTTAATTT
Found at i:18021612 original size:10 final size:11
Alignment explanation
Indices: 18021586--18021611 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18021576 AAAAAAATAA
18021586 AAAAATATTTT
1 AAAAATATTTT
18021597 AAAAATATTTT
1 AAAAATATTTT
18021608 AAAA
1 AAAA
18021612 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:18021617 original size:29 final size:28
Alignment explanation
Indices: 18021545--18021621 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 28
18021535 GCCCATTTTT
18021545 TAATAAACATTAAAAAATTATTTTAAAAAA
1 TAATAAA-ATTAAAAAA-TATTTTAAAAAA
* *
18021575 TAAAAAAATAAAAAAATATTTTAAAAATA
1 TAATAAAATTAAAAAATATTTTAAAAA-A
**
18021604 TTTTAAAATTAAAAAATA
1 TAATAAAATTAAAAAATA
18021622 AAAATAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 11 0.28
29 23 0.57
30 6 0.15
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (28 bp):
TAATAAAATTAAAAAATATTTTAAAAAA
Found at i:18025578 original size:18 final size:18
Alignment explanation
Indices: 18025555--18025591 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
18025545 TGGTGTTCGG
18025555 TTGATTCATAATATCAAT
1 TTGATTCATAATATCAAT
18025573 TTGATTCATAATATCAAT
1 TTGATTCATAATATCAAT
18025591 T
1 T
18025592 AAGGCCCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (18 bp):
TTGATTCATAATATCAAT
Found at i:18028656 original size:21 final size:21
Alignment explanation
Indices: 18028630--18028677 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
18028620 TACTTCAATA
*
18028630 CCCCTGAATTGCACATATGTG
1 CCCCTGAATTGCACATACGTG
*
18028651 CCCCTGAATTGCACTTACGTG
1 CCCCTGAATTGCACATACGTG
18028672 CCCCTG
1 CCCCTG
18028678 TTTATACTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.35, G:0.19, T:0.27
Consensus pattern (21 bp):
CCCCTGAATTGCACATACGTG
Found at i:18030588 original size:26 final size:28
Alignment explanation
Indices: 18030553--18030604 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 28
18030543 GTTAATAAAA
*
18030553 TTCTCTTTGAGTTTTTTTTTA-AAGAAT
1 TTCTCTTTGAGTTTTCTTTTAGAAGAAT
18030580 TTCTC-TTGAGTTTTCTTTTAGAAGA
1 TTCTCTTTGAGTTTTCTTTTAGAAGA
18030605 GTTTTAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.21, C:0.10, G:0.13, T:0.56
Consensus pattern (28 bp):
TTCTCTTTGAGTTTTCTTTTAGAAGAAT
Found at i:18035297 original size:114 final size:114
Alignment explanation
Indices: 18035168--18035958 Score: 1303
Period size: 114 Copynumber: 6.9 Consensus size: 114
18035158 ATAGTGGCAG
* *
18035168 TAGCGGCGTTTGTTTGTAAGCGCCGCAAACAATGTTAAACAAAACGCAGCGTACAAGATTGAGAT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
* *
18035233 ATAGTAGAATTAGTGGCGTTTCTATAAAAACGCCGCTGAAGTGGATCAT
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
* *
18035282 TAGCGGTGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGATGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
* * *
18035347 ATAGTAGAATTGGTGGCGTTTCTGTAAAAATGCCGCTGAAGTGGATAAA
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
*
18035396 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGTGTACAAGATTGAGGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
* *
18035461 ATAGTAGAATTGGTAGCGTTTCTGTAAAAACGCCGCTGAAGTGTATCAT
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
* * *
18035510 TAGCGGCATTTGTTTGTAAGCGTCGCAAAAAATGTTAAACAAAACGCAGCGTACAGGATTGAGGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
* * *
18035575 ATAGTAGAATTGGTGGAGTTTCTGTCAAAACGCCGCTGAAGTGCATCAT
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
* * ** *
18035624 TAGCAGCGTTTGCTTGTAAGCATCGCAAAAAATGTTAAACAAAACACAGCGTACAAGATTGAGGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
* * *
18035689 ATAGTAGAATTAGTGGCGTTTTTGTAAAAACGCCGCTGAAGTGTATCAT
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
*
18035738 TAGCGGCGTTTGTTTGTAAGCACCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
* *
18035803 ATAGTTGAATTTGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
18035852 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGG
1 TAGCGGCGTTTGTTTGTAAGCGCCGC-AAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGG
*
18035917 TATAGTAGAATTGGTGGCGTTTCTATAAAAACGCCGCTGAAG
65 TATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAG
18035959 CACATTATTA
Statistics
Matches: 628, Mismatches: 48, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
114 551 0.88
115 77 0.12
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.26
Consensus pattern (114 bp):
TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
Found at i:18036751 original size:25 final size:26
Alignment explanation
Indices: 18036717--18036768 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
18036707 TTGTTTGTGG
* *
18036717 TTTACGGGTTTAATATTTATGGTTAA
1 TTTACGGGTTTAAGATCTATGGTTAA
18036743 TTTA-GGGTTTAAGATCTATGGTTAA
1 TTTACGGGTTTAAGATCTATGGTTAA
18036768 T
1 T
18036769 GTTTACGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.27, C:0.04, G:0.21, T:0.48
Consensus pattern (26 bp):
TTTACGGGTTTAAGATCTATGGTTAA
Found at i:18039672 original size:9 final size:9
Alignment explanation
Indices: 18039631--18039864 Score: 206
Period size: 9 Copynumber: 25.8 Consensus size: 9
18039621 TACAAGCTTA
*
18039631 TACATAAAT
1 TACATAACT
* *
18039640 TAAATTACT
1 TACATAACT
18039649 TACATAACT
1 TACATAACT
*
18039658 TGA-ATAAAT
1 T-ACATAACT
* *
18039667 TAAATAAGT
1 TACATAACT
18039676 TACATAACT
1 TACATAACT
*
18039685 TACATAACC
1 TACATAACT
*
18039694 TACATAAAT
1 TACATAACT
*
18039703 TAAATAACT
1 TACATAACT
18039712 TACATAACT
1 TACATAACT
*
18039721 TACATAAAT
1 TACATAACT
*
18039730 TA-AGTAACC
1 TACA-TAACT
*
18039739 TACATAACA
1 TACATAACT
18039748 TACATAAACT
1 TACAT-AACT
*
18039758 TGCATTAA-T
1 TACA-TAACT
*
18039767 TAAATAACT
1 TACATAACT
*
18039776 TACATAACC
1 TACATAACT
*
18039785 TACATAAAT
1 TACATAACT
*
18039794 TAAATAACT
1 TACATAACT
*
18039803 TCCATAACT
1 TACATAACT
*
18039812 TACATAAAT
1 TACATAACT
18039821 TA-AGTAACT
1 TACA-TAACT
18039830 TACATAACT
1 TACATAACT
18039839 TACATAAACT
1 TACAT-AACT
*
18039849 TGCATAACT
1 TACATAACT
18039858 TACATAA
1 TACATAA
18039865 AAATATATCA
Statistics
Matches: 179, Mismatches: 36, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
8 6 0.03
9 153 0.85
10 19 0.11
11 1 0.01
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.32
Consensus pattern (9 bp):
TACATAACT
Found at i:18039768 original size:37 final size:37
Alignment explanation
Indices: 18039706--18039865 Score: 114
Period size: 37 Copynumber: 4.4 Consensus size: 37
18039696 CATAAATTAA
* *
18039706 ATAACTTACAT-AACTTACATAAATTAAGTAACCTAC
1 ATAACATACATAAACTTACATAAATTAAATAACCTAC
* * *
18039742 ATAACATACATAAACTTGCATTAATTAAATAACTTAC
1 ATAACATACATAAACTTACATAAATTAAATAACCTAC
* * * ** *
18039779 ATAACCTACATAAA-TTAAATAACTTCCATAACTTAC
1 ATAACATACATAAACTTACATAAATTAAATAACCTAC
* * * *
18039815 ATAA-ATTA-AGT-AACTTACATAACTTACATAAACTTGC
1 ATAACA-TACA-TAAACTTACATAAATTAAAT-AACCTAC
*
18039852 ATAACTTACATAAA
1 ATAACATACATAAA
18039866 AATATATCAT
Statistics
Matches: 99, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
35 3 0.03
36 46 0.46
37 47 0.47
38 3 0.03
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.31
Consensus pattern (37 bp):
ATAACATACATAAACTTACATAAATTAAATAACCTAC
Found at i:18039794 original size:91 final size:91
Alignment explanation
Indices: 18039679--18039853 Score: 323
Period size: 91 Copynumber: 1.9 Consensus size: 91
18039669 AATAAGTTAC
18039679 ATAACTTACATAACCTACATAAATTAAATAACTTACATAACTTACATAAATTAAGTAACCTACAT
1 ATAACTTACATAACCTACATAAATTAAATAACTTACATAACTTACATAAATTAAGTAACCTACAT
18039744 AACATACATAAACTTGCATTAATTAA
66 AACATACATAAACTTGCATTAATTAA
* *
18039770 ATAACTTACATAACCTACATAAATTAAATAACTTCCATAACTTACATAAATTAAGTAACTTACAT
1 ATAACTTACATAACCTACATAAATTAAATAACTTACATAACTTACATAAATTAAGTAACCTACAT
*
18039835 AACTTACATAAACTTGCAT
66 AACATACATAAACTTGCAT
18039854 AACTTACATA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 81 1.00
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.31
Consensus pattern (91 bp):
ATAACTTACATAACCTACATAAATTAAATAACTTACATAACTTACATAAATTAAGTAACCTACAT
AACATACATAAACTTGCATTAATTAA
Found at i:18045801 original size:42 final size:42
Alignment explanation
Indices: 18045744--18046073 Score: 527
Period size: 42 Copynumber: 7.9 Consensus size: 42
18045734 TGTATAAAAA
* * *
18045744 CGCCGCTAAAAAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTCTAAG
* * * *
18045786 CGCTGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTGTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTCTAAG
* *
18045828 CGCCGCTAAAGAATATGGTCTTTAGCGGCGTTTTTTT-TAAG
1 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTCTAAG
*
18045869 CGCCGCTAAAGAACATGGTCTTTAGAGGCATTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTCTAAG
18045911 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTCTAAG
*
18045953 CGCCGCTAAAGAACATGGTCTTTAGAGGCGCTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTCTAAG
*
18045995 CGCCGCTAAAGAACATGGTCTTTAGAGGCGCTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTCTAAG
* *
18046037 CGCCGCTAAATAACATGGTCTTTAGCGGCGTTTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTT
18046074 TTGTAAACGC
Statistics
Matches: 269, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
41 38 0.14
42 231 0.86
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTCTAAG
Found at i:18045971 original size:125 final size:126
Alignment explanation
Indices: 18045744--18046073 Score: 527
Period size: 125 Copynumber: 2.6 Consensus size: 126
18045734 TGTATAAAAA
* * * *
18045744 CGCCGCTAAAAAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCTGCTAAAGAACATGGTCTTT
1 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
* * * * * *
18045809 AGTGGCATTTTTTTGTAAGCGCCGCTAAAGAATATGGTCTTTAGCGGCG-TTTTTTTTAAG
66 AGAGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGAGGCGCTTTTTTCTAAG
*
18045869 CGCCGCTAAAGAACATGGTCTTTAGAGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
1 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
18045934 AGAGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGAGGCGCTTTTTTCTAAG
66 AGAGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGAGGCGCTTTTTTCTAAG
* *
18045995 CGCCGCTAAAGAACATGGTCTTTAGAGGCGCTTTTTTCTAAGCGCCGCTAAATAACATGGTCTTT
1 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
*
18046060 AGCGGCGTTTTTTT
66 AGAGGCGTTTTTTT
18046074 TTGTAAACGC
Statistics
Matches: 189, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
125 104 0.55
126 85 0.45
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (126 bp):
CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
AGAGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGAGGCGCTTTTTTCTAAG
Found at i:18050614 original size:4 final size:4
Alignment explanation
Indices: 18050605--18050630 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
18050595 TTTGAGTAAT
18050605 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
18050631 TAACTTCTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:18050683 original size:3 final size:3
Alignment explanation
Indices: 18050677--18050706 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
18050667 TCTCCTCCCT
18050677 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
18050707 AAATCTCACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:18051841 original size:96 final size:95
Alignment explanation
Indices: 18051669--18051846 Score: 268
Period size: 96 Copynumber: 1.9 Consensus size: 95
18051659 TGGGTTTGTT
* *
18051669 GACCTAAGATCACGACTGAAATTATTAGGGTCCGCTGACATAAGATCTCGACCTATGTGGCTCGT
1 GACCTAAGATCACGACTGAAATTATTAGGGTCCGCTGACATAAGATCACGACCTATGTGGCTCAT
18051734 CAACCCTAGATCACAACACATGCAGCTTGCC
66 CAA-CCTAGATCACAACACATGCAGCTTGCC
* * * *
18051765 GACCTTAGATCATGACTGAAATTATTTGGGTTCGCTGACATAAGATCACGACCTATGTGGCTCAT
1 GACCTAAGATCACGACTGAAATTATTAGGGTCCGCTGACATAAGATCACGACCTATGTGGCTCAT
18051830 CGAA-CTAAGATCACAAC
66 C-AACCT-AGATCACAAC
18051847 CAAAATTATT
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
95 2 0.03
96 70 0.95
97 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (95 bp):
GACCTAAGATCACGACTGAAATTATTAGGGTCCGCTGACATAAGATCACGACCTATGTGGCTCAT
CAACCTAGATCACAACACATGCAGCTTGCC
Found at i:18051907 original size:132 final size:130
Alignment explanation
Indices: 18051743--18052087 Score: 407
Period size: 132 Copynumber: 2.7 Consensus size: 130
18051733 TCAACCCTAG
* * * * *
18051743 ATCACAACACATGCAGCTTGCCGACCTTAGATCATGACTGAAATTATTTGGGTTCGCTGACATAA
1 ATCACAACCCATACAGCTTG-CGACCTAAGATCACGACTGAAATTA-TTGGGTCCGCTGACATAA
18051808 GATCACGACCTATGTGGC-T-CATCGAACTAAGATCACAACCAAAATTATTCGGGTCCGCTCACC
64 GATCACGACCTATGTGGCTTGC-T-GAACTAAGATCACAACCAAAATTATTCGGGTCCGCTCACC
18051871 TAAA
127 TAAA
*
18051875 ATCACAACCCATACAGCTTGACGACCTAAGATCACGATTGAAATTATTCGGGTCCGCTGACATAA
1 ATCACAACCCATACAGCTTG-CGACCTAAGATCACGACTGAAATTATT-GGGTCCGCTGACATAA
* ** * ** * *
18051940 GATCACGACCTATGTGGCTTGCTGACCTAAGATCGTAGCCAAAATTATTCGGGTTTGTTGACCTA
64 GATCACGACCTATGTGGCTTGCTGAACTAAGATCACAACCAAAATTATTCGGGTCCGCTCACCTA
*
18052005 AG
129 AA
* * * *
18052007 ATCACAACCCATATAGCTCGCTTACCTAAGATCACGACTGAAATTA-----TCCGTTGACATAAG
1 ATCACAACCCATACAGCTTGC-GACCTAAGATCACGACTGAAATTATTGGGTCCGCTGACATAAG
18052067 ATCACGACCTATGTGGCTTGC
65 ATCACGACCTATGTGGCTTGC
18052088 ATACCTAAGA
Statistics
Matches: 188, Mismatches: 21, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
126 34 0.18
131 3 0.02
132 148 0.79
133 2 0.01
134 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (130 bp):
ATCACAACCCATACAGCTTGCGACCTAAGATCACGACTGAAATTATTGGGTCCGCTGACATAAGA
TCACGACCTATGTGGCTTGCTGAACTAAGATCACAACCAAAATTATTCGGGTCCGCTCACCTAAA
Found at i:18052051 original size:66 final size:66
Alignment explanation
Indices: 18051741--18052053 Score: 238
Period size: 66 Copynumber: 4.7 Consensus size: 66
18051731 CGTCAACCCT
* ** * * * * * *
18051741 AGATCACAACACATGCAGCTTGCCGACCTTAGATCATGACTGAAATTATTTGGGTTCGCTGACAT
1 AGATCACAACCCATATAGCTCGCTGACCTAAGATCACGACTGAAATTATTCGGGTCCGCTGACAT
18051806 A
66 A
* * * * * * * ** * *
18051807 AGATCACGACCTATGTGGCTC-ATCGAACTAAGATCACAACCAAAATTATTCGGGTCCGCTCACC
1 AGATCACAACCCATATAGCTCGCT-GACCTAAGATCACGACTGAAATTATTCGGGTCCGCTGACA
18051871 TA
65 TA
* * * *
18051873 AAATCACAACCCATACAGCTTGAC-GACCTAAGATCACGATTGAAATTATTCGGGTCCGCTGACA
1 AGATCACAACCCATATAGCTCG-CTGACCTAAGATCACGACTGAAATTATTCGGGTCCGCTGACA
18051937 TA
65 TA
* * * * * ** ** *
18051939 AGATCACGACCTATGTGGCTTGCTGACCTAAGAT--CGTAGCCAAAATTATTCGGGTTTGTTGAC
1 AGATCACAACCCATATAGCTCGCTGACCTAAGATCACG-A-CTGAAATTATTCGGGTCCGCTGAC
*
18052002 CTA
64 ATA
*
18052005 AGATCACAACCCATATAGCTCGCTTACCTAAGATCACGACTGAAATTAT
1 AGATCACAACCCATATAGCTCGCTGACCTAAGATCACGACTGAAATTAT
18052054 CCGTTGACAT
Statistics
Matches: 185, Mismatches: 54, Indels: 16
0.73 0.21 0.06
Matches are distributed among these distances:
64 2 0.01
65 2 0.01
66 178 0.96
67 1 0.01
68 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (66 bp):
AGATCACAACCCATATAGCTCGCTGACCTAAGATCACGACTGAAATTATTCGGGTCCGCTGACAT
A
Found at i:18055088 original size:13 final size:12
Alignment explanation
Indices: 18055057--18055139 Score: 58
Period size: 13 Copynumber: 6.3 Consensus size: 12
18055047 TCATACATTT
18055057 ATTTCCATATAACC
1 ATTT-CATATAA-C
*
18055071 ATTTCATGTAATC
1 ATTTCATATAA-C
18055084 ATTTCATATAACC
1 ATTTCATATAA-C
*
18055097 ATTTCATCTGAAC
1 ATTTCATAT-AAC
* *
18055110 ATTTCATTTTACC
1 ATTTCA-TATAAC
*
18055123 ATTTCATCTACAC
1 ATTTCATATA-AC
18055136 ATTT
1 ATTT
18055140 AACACATAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
12 3 0.05
13 46 0.81
14 8 0.14
ACGTcount: A:0.31, C:0.23, G:0.02, T:0.43
Consensus pattern (12 bp):
ATTTCATATAAC
Found at i:18055097 original size:26 final size:26
Alignment explanation
Indices: 18055057--18055139 Score: 98
Period size: 26 Copynumber: 3.2 Consensus size: 26
18055047 TCATACATTT
*
18055057 ATTTCCATATAACCATTTCATGT-AATC
1 ATTT-CATATAACCATTTCATCTGAA-C
18055084 ATTTCATATAACCATTTCATCTGAAC
1 ATTTCATATAACCATTTCATCTGAAC
* *
18055110 ATTTCATTTTACCATTTCATCT-ACAC
1 ATTTCATATAACCATTTCATCTGA-AC
18055136 ATTT
1 ATTT
18055140 AACACATAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
25 1 0.02
26 44 0.86
27 6 0.12
ACGTcount: A:0.31, C:0.23, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTTCATATAACCATTTCATCTGAAC
Found at i:18067799 original size:22 final size:21
Alignment explanation
Indices: 18067763--18067853 Score: 62
Period size: 22 Copynumber: 4.2 Consensus size: 21
18067753 GGGCCGGCCC
*
18067763 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA-AAAAA
18067785 ATTTATTTTAAAAATTAAAAAA
1 ATTTATTTTAAAAA-TAAAAAA
** *
18067807 AAGTATTTTAAAAATATTTTAAAA
1 ATTTATTTTAAAAATA---AAAAA
*
18067831 A--TATTTTAAAAGTAAAAAA
1 ATTTATTTTAAAAATAAAAAA
18067850 ATTT
1 ATTT
18067854 TAAAAAGTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
19 5 0.09
21 3 0.05
22 35 0.62
23 8 0.14
24 5 0.09
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
ATTTATTTTAAAAATAAAAAA
Found at i:18067819 original size:11 final size:11
Alignment explanation
Indices: 18067804--18067922 Score: 94
Period size: 11 Copynumber: 11.4 Consensus size: 11
18067794 AAAAATTAAA
18067804 AAAAAGTATTTT
1 AAAAA-TATTTT
18067816 AAAAATATTTT
1 AAAAATATTTT
18067827 AAAAATATTTT
1 AAAAATATTTT
*
18067838 AAAAGTA----
1 AAAAATATTTT
18067845 AAAAA-ATTTT
1 AAAAATATTTT
18067855 AAAAAGTATTTT
1 AAAAA-TATTTT
18067867 AAAAATA-TTT
1 AAAAATATTTT
* *
18067877 -GAAA-A-TTA
1 AAAAATATTTT
* **
18067885 AAAAATAATAA
1 AAAAATATTTT
18067896 AAAAAGTATTTT
1 AAAAA-TATTTT
18067908 AAAAATATTTT
1 AAAAATATTTT
18067919 AAAA
1 AAAA
18067923 TTAAAAAATT
Statistics
Matches: 88, Mismatches: 9, Indels: 21
0.75 0.08 0.18
Matches are distributed among these distances:
6 1 0.01
7 4 0.05
8 3 0.03
9 6 0.07
10 9 0.10
11 42 0.48
12 23 0.26
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:18067862 original size:18 final size:17
Alignment explanation
Indices: 18067826--18067858 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18067816 AAAAATATTT
*
18067826 TAAAAATATTTTAAAAG
1 TAAAAAAATTTTAAAAG
18067843 TAAAAAAATTTTAAAA
1 TAAAAAAATTTTAAAA
18067859 AGTATTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
TAAAAAAATTTTAAAAG
Found at i:18067865 original size:40 final size:39
Alignment explanation
Indices: 18067811--18067939 Score: 179
Period size: 40 Copynumber: 3.3 Consensus size: 39
18067801 AAAAAAAAGT
18067811 ATTTTAAAAA-TATTTTAAAAATATTTTAAAAGTAAAAAA
1 ATTTTAAAAAGTATTTTAAAAATATTTTAAAA-TAAAAAA
*
18067850 ATTTTAAAAAGTATTTTAAAAATATTTGAAAATTAAAAAA
1 ATTTTAAAAAGTATTTTAAAAATATTTTAAAA-TAAAAAA
* ** *
18067890 TAATAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAA
1 -ATTTTAAAAAGTATTTTAAAAATATTTTAAAATAAAAAA
18067930 ATTTTAAAAA
1 ATTTTAAAAA
18067940 ATAAATATAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 17 0.22
40 33 0.42
41 28 0.36
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (39 bp):
ATTTTAAAAAGTATTTTAAAAATATTTTAAAATAAAAAA
Found at i:18067889 original size:41 final size:40
Alignment explanation
Indices: 18067788--18067939 Score: 191
Period size: 41 Copynumber: 3.7 Consensus size: 40
18067778 ACCAAAAATT
18067788 TATTTTAAAAATTAAAAAAAAGTATTTTAAAAA-TATTTTAAAAA
1 TATTTT-AAAATT--AAAAAA--ATTTTAAAAAGTATTTTAAAAA
*
18067832 TATTTTAAAAGTAAAAAAATTTTAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTTTAAAAAGTATTTTAAAAA
* * **
18067872 TATTTGAAAATTAAAAAATAATAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAA-ATTTTAAAAAGTATTTTAAAAA
18067913 TATTTTAAAATT-AAAAAATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTTTAAAAA
18067940 ATAAATATAT
Statistics
Matches: 96, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
39 17 0.18
40 32 0.33
41 36 0.38
43 5 0.05
44 6 0.06
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATTTTAAAAAGTATTTTAAAAA
Found at i:18067939 original size:17 final size:17
Alignment explanation
Indices: 18067906--18067938 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
18067896 AAAAAGTATT
18067906 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
18067923 TTAAAAA-ATTTTAAAA
1 TTAAAAATATTTTAAAA
18067939 AATAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:18067944 original size:17 final size:17
Alignment explanation
Indices: 18067907--18067951 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
18067897 AAAAGTATTT
*
18067907 TAAAAATATTTTAAAAT
1 TAAAAATATTTTAAAAA
18067924 TAAAAA-ATTTTAAAAAA
1 TAAAAATATTTT-AAAAA
*
18067941 TAAATATATTT
1 TAAAAATATTT
18067952 ATTATATCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 5 0.21
17 15 0.62
18 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAAAATATTTTAAAAA
Found at i:18071359 original size:14 final size:15
Alignment explanation
Indices: 18071340--18071368 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18071330 AACATGCATA
18071340 AAATGACC-AATTTC
1 AAATGACCAAATTTC
18071354 AAATGACCAAATTTC
1 AAATGACCAAATTTC
18071369 CATTCAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.28
Consensus pattern (15 bp):
AAATGACCAAATTTC
Found at i:18080621 original size:25 final size:24
Alignment explanation
Indices: 18080520--18080642 Score: 83
Period size: 25 Copynumber: 5.0 Consensus size: 24
18080510 GTACATGTAT
*
18080520 GCTCATACGAGCTCTG-AATCGGTAT
1 GCTCATACGAG--CTGAAATCGGTAA
*
18080545 GCTCTTACGAGCTGTAAAT-GGTAA
1 GCTCATACGAGCTG-AAATCGGTAA
* * *
18080569 GCTCCT-CTGAGCT-AAATAACGATCA
1 GCTCATAC-GAGCTGAAAT--CGGTAA
* *
18080594 GCTCATGCGAGCTGAGTATCGGTAA
1 GCTCATACGAGCTGA-AATCGGTAA
*
18080619 GCTCATATGAGCTGAAATCGGTAA
1 GCTCATACGAGCTGAAATCGGTAA
18080643 CCCTAATGAC
Statistics
Matches: 77, Mismatches: 12, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
22 4 0.05
23 4 0.05
24 22 0.29
25 43 0.56
26 2 0.03
27 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
GCTCATACGAGCTGAAATCGGTAA
Found at i:18085444 original size:9 final size:9
Alignment explanation
Indices: 18085432--18085482 Score: 66
Period size: 9 Copynumber: 5.7 Consensus size: 9
18085422 TCAATTCGGA
*
18085432 TAATTTGGG
1 TAATTTGGT
* *
18085441 TAATTCGGG
1 TAATTTGGT
*
18085450 TAATTCGGT
1 TAATTTGGT
18085459 TAATTTGGT
1 TAATTTGGT
18085468 TAATTTGGT
1 TAATTTGGT
18085477 TAATTT
1 TAATTT
18085483 TTAACCAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.49
Consensus pattern (9 bp):
TAATTTGGT
Found at i:18085447 original size:18 final size:18
Alignment explanation
Indices: 18085424--18085481 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
18085414 GAAGTGATTC
*
18085424 AATTCGGATAATTTGGGT
1 AATTCGGATAATTTGGTT
* *
18085442 AATTCGGGTAATTCGGTT
1 AATTCGGATAATTTGGTT
* *
18085460 AATTTGGTTAATTTGGTT
1 AATTCGGATAATTTGGTT
18085478 AATT
1 AATT
18085482 TTTAACCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (18 bp):
AATTCGGATAATTTGGTT
Found at i:18085455 original size:27 final size:27
Alignment explanation
Indices: 18085424--18085481 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
18085414 GAAGTGATTC
18085424 AATTCGGATAATTTGGGTAATTCGGGT
1 AATTCGGATAATTTGGGTAATTCGGGT
* * * *
18085451 AATTCGGTTAATTTGGTTAATTTGGTT
1 AATTCGGATAATTTGGGTAATTCGGGT
18085478 AATT
1 AATT
18085482 TTTAACCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (27 bp):
AATTCGGATAATTTGGGTAATTCGGGT
Found at i:18087632 original size:17 final size:16
Alignment explanation
Indices: 18087593--18087632 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
18087583 GAACCCAGAA
*
18087593 CACAAATTTGTGAGCT
1 CACAAATGTGTGAGCT
18087609 CACCAAATGTGTGAGCT
1 CA-CAAATGTGTGAGCT
18087626 CTACAAA
1 C-ACAAA
18087633 ACCATGAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 18 0.86
18 1 0.05
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (16 bp):
CACAAATGTGTGAGCT
Found at i:18091839 original size:14 final size:14
Alignment explanation
Indices: 18091820--18091848 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18091810 CATCTGTAAC
18091820 AAGGACATACCAAA
1 AAGGACATACCAAA
18091834 AAGGACATACCAAA
1 AAGGACATACCAAA
18091848 A
1 A
18091849 CAGACTATTG
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:0.21, G:0.14, T:0.07
Consensus pattern (14 bp):
AAGGACATACCAAA
Found at i:18095100 original size:46 final size:45
Alignment explanation
Indices: 18095033--18095179 Score: 233
Period size: 46 Copynumber: 3.2 Consensus size: 45
18095023 ACTTCTGATC
*
18095033 AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGATAA
1 AGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGA-AA
*
18095079 AGTGATAAGTGGTAGAATTAGCTACACTTATCTGATCAAGTGACAA
1 AGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGA-AA
* *
18095125 AGTGATAAGTGGTAGCATTAGCTACACTTATCTGATC-AGGGACA
1 AGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAA
18095169 AGTGATAAGTG
1 AGTGATAAGTG
18095180 ATCACAAGTA
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
44 12 0.13
45 4 0.04
46 79 0.83
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (45 bp):
AGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAA
Found at i:18102328 original size:29 final size:30
Alignment explanation
Indices: 18102291--18102347 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
18102281 GGGTTGGGAG
*
18102291 GGGAGAGGAGTAAAAGTTTTGGGGGAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAGT
18102321 GGGA-AGGAGTAAAAGTTTTGAGGGAAA
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAA
18102348 AATAAAAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.37, C:0.00, G:0.44, T:0.19
Consensus pattern (30 bp):
GGGAGAGGAGTAAAAGTTTTGAGGGAAAGT
Found at i:18102716 original size:21 final size:20
Alignment explanation
Indices: 18102692--18102737 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
18102682 GCTTCAATCG
18102692 ATTTAATT-AATTTAATTAAAA
1 ATTTAATTAAATTT--TTAAAA
18102713 ATTT-ATTAAATTTTTAAAA
1 ATTTAATTAAATTTTTAAAA
*
18102732 AGTTAA
1 ATTTAA
18102738 AAATAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 9 0.41
20 4 0.18
21 9 0.41
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
ATTTAATTAAATTTTTAAAA
Found at i:18103573 original size:15 final size:15
Alignment explanation
Indices: 18103548--18103585 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
18103538 TAATATTAAA
18103548 TTATGAATTTATATAT
1 TTAT-AATTTATATAT
*
18103564 TTTTAATTTATATAT
1 TTATAATTTATATAT
18103579 TTATAAT
1 TTATAAT
18103586 ATTTTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 17 0.85
16 3 0.15
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
TTATAATTTATATAT
Found at i:18103574 original size:23 final size:24
Alignment explanation
Indices: 18103543--18103595 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
18103533 ATTCATAATA
18103543 TTAAATTATGA-ATTTAT-ATATTT
1 TTAAATTAT-ATATTTATAATATTT
*
18103566 TTAATTTATATATTTATAATATTT
1 TTAAATTATATATTTATAATATTT
*
18103590 TAAAAT
1 TTAAAT
18103596 AAAATGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 1 0.04
23 14 0.56
24 10 0.40
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
TTAAATTATATATTTATAATATTT
Found at i:18107846 original size:25 final size:25
Alignment explanation
Indices: 18107798--18107846 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
18107788 CATAATTGAA
* * *
18107798 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
18107823 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
18107847 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:18109271 original size:49 final size:49
Alignment explanation
Indices: 18109197--18109361 Score: 235
Period size: 49 Copynumber: 3.3 Consensus size: 49
18109187 GGATTACCGG
18109197 TCTCAGCTCGTATGAGCTTTACCGATTTCAGCTCGTGAGAGCTTACCGAT
1 TCTCAGCTCGTATGAGC-TTACCGATTTCAGCTCGTGAGAGCTTACCGAT
* * *
18109247 TCTCAACTCATATGAGCTTACCGATTTCAGCTCGTGAGAGCTTATCGA-
1 TCTCAGCTCGTATGAGCTTACCGATTTCAGCTCGTGAGAGCTTACCGAT
* * *
18109295 TCTCAGCTCGTATGAGCTTACCGATTTACAGTTCGTAAGAGCATACCGAT
1 TCTCAGCTCGTATGAGCTTACCGATTT-CAGCTCGTGAGAGCTTACCGAT
18109345 TCAT-AGCTCGTATGAGC
1 TC-TCAGCTCGTATGAGC
18109362 ATACATGTAC
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
48 25 0.24
49 47 0.46
50 30 0.29
51 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (49 bp):
TCTCAGCTCGTATGAGCTTACCGATTTCAGCTCGTGAGAGCTTACCGAT
Found at i:18109342 original size:73 final size:74
Alignment explanation
Indices: 18109199--18109361 Score: 183
Period size: 73 Copynumber: 2.2 Consensus size: 74
18109189 ATTACCGGTC
* *
18109199 TCAGCTCGTATGAGCTTTACCGATTTCAGCTCGTGAGAGCTTACCGATTCTCAACTCATATGAGC
1 TCAGCTCGTATGAGCTTTACCGATCTCAGCTCGTGAGAGCTTACCGATTCTCAACTCATAAGAGC
*
18109264 TTACCGATT
66 ATACCGATT
* ** *
18109273 TCAGCTCGTGA-GAGC-TTATCGATCTCAGCTCGT-ATGAGCTTACCGATT-TACAGTTCGTAAG
1 TCAGCTCGT-ATGAGCTTTACCGATCTCAGCTCGTGA-GAGCTTACCGATTCT-CAACTCATAAG
18109334 AGCATACCGA-T
63 AGCATACCGATT
18109345 TCATAGCTCGTATGAGC
1 TC--AGCTCGTATGAGC
18109362 ATACATGTAC
Statistics
Matches: 76, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
72 5 0.07
73 46 0.61
74 24 0.32
75 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (74 bp):
TCAGCTCGTATGAGCTTTACCGATCTCAGCTCGTGAGAGCTTACCGATTCTCAACTCATAAGAGC
ATACCGATT
Found at i:18109365 original size:25 final size:25
Alignment explanation
Indices: 18109197--18109361 Score: 182
Period size: 25 Copynumber: 6.7 Consensus size: 25
18109187 GGATTACCGG
18109197 TCTCAGCTCGTATGAGCTTTACCGAT
1 TCTCAGCTCGTATGAGC-TTACCGAT
18109223 T-TCAGCTCGTGA-GAGCTTACCGAT
1 TCTCAGCTCGT-ATGAGCTTACCGAT
* *
18109247 TCTCAACTCATATGAGCTTACCGAT
1 TCTCAGCTCGTATGAGCTTACCGAT
*
18109272 T-TCAGCTCGTGA-GAGCTTATCGA-
1 TCTCAGCTCGT-ATGAGCTTACCGAT
18109295 TCTCAGCTCGTATGAGCTTACCGAT
1 TCTCAGCTCGTATGAGCTTACCGAT
* * *
18109320 T-TACAGTTCGTAAGAGCATACCGAT
1 TCT-CAGCTCGTATGAGCTTACCGAT
18109345 TCAT-AGCTCGTATGAGC
1 TC-TCAGCTCGTATGAGC
18109362 ATACATGTAC
Statistics
Matches: 118, Mismatches: 11, Indels: 21
0.79 0.07 0.14
Matches are distributed among these distances:
23 2 0.02
24 47 0.40
25 66 0.56
26 2 0.02
27 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (25 bp):
TCTCAGCTCGTATGAGCTTACCGAT
Found at i:18111373 original size:43 final size:43
Alignment explanation
Indices: 18111304--18111432 Score: 177
Period size: 43 Copynumber: 3.0 Consensus size: 43
18111294 TATGTGATTG
* * *
18111304 ATATTGAAATGACAAAGATCAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGAAAAATATGAGAAATGAATATGAGATGAGAAA
* *
18111347 ATATTGAAATGAAAAATATGATAAATGAATATGAGATAAGAAA
1 ATATTGAAATGAAAAATATGAGAAATGAATATGAGATGAGAAA
* * * *
18111390 ATATTGAAATGGAAAATAGGAGAAATGATTACGAGATGAGAAA
1 ATATTGAAATGAAAAATATGAGAAATGAATATGAGATGAGAAA
18111433 TGAGATATGA
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 75 1.00
ACGTcount: A:0.54, C:0.02, G:0.21, T:0.22
Consensus pattern (43 bp):
ATATTGAAATGAAAAATATGAGAAATGAATATGAGATGAGAAA
Found at i:18112776 original size:49 final size:49
Alignment explanation
Indices: 18112694--18112790 Score: 133
Period size: 49 Copynumber: 2.0 Consensus size: 49
18112684 TCTAGAAGGG
* * * *
18112694 ATAAATAGTGATAAGAGTGTAGACAGTGAAAGACTAAATTTAGCAATGT
1 ATAAATACTGATAAGAGTGTAGACAATGAAAGACCAAATTTAGAAATGT
*
18112743 ATAAATACTGATAAGAGTGTAGACAAT-AGAAGACCAAGTTTAGAAATG
1 ATAAATACTGATAAGAGTGTAGACAATGA-AAGACCAAATTTAGAAATG
18112791 CATAGCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
48 1 0.02
49 41 0.98
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.25
Consensus pattern (49 bp):
ATAAATACTGATAAGAGTGTAGACAATGAAAGACCAAATTTAGAAATGT
Found at i:18119429 original size:18 final size:18
Alignment explanation
Indices: 18119406--18119446 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
18119396 GGATGAATGG
18119406 TTGTATTGAAACTCAATT
1 TTGTATTGAAACTCAATT
18119424 TTGTATTGAAACTCAATT
1 TTGTATTGAAACTCAATT
18119442 TTGTA
1 TTGTA
18119447 CTAGGAGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (18 bp):
TTGTATTGAAACTCAATT
Found at i:18137057 original size:15 final size:14
Alignment explanation
Indices: 18137036--18137071 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
18137026 ATAATCCTTA
*
18137036 ATAATTATCTTAAT
1 ATAATTATCCTAAT
18137050 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
18137065 ATAATTA
1 ATAATTA
18137072 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:18137955 original size:21 final size:21
Alignment explanation
Indices: 18137895--18137943 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
18137885 GCACTCTAAA
18137895 GAGAAAAAGCACAAGAAGGAG
1 GAGAAAAAGCACAAGAAGGAG
18137916 GAGAAAAAGCACAAGAAGGAG
1 GAGAAAAAGCACAAGAAGGAG
18137937 GAGAAAA
1 GAGAAAA
18137944 GGAGAAGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.59, C:0.08, G:0.33, T:0.00
Consensus pattern (21 bp):
GAGAAAAAGCACAAGAAGGAG
Found at i:18145481 original size:31 final size:31
Alignment explanation
Indices: 18145443--18145505 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
18145433 AACTTCAGCA
18145443 GTAGCAACAAATGCAAGATCCACCACCACGT
1 GTAGCAACAAATGCAAGATCCACCACCACGT
18145474 GTAGCAACAAATGCAAGATCCACCACCACGT
1 GTAGCAACAAATGCAAGATCCACCACCACGT
18145505 G
1 G
18145506 AAAATCTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.32, G:0.17, T:0.13
Consensus pattern (31 bp):
GTAGCAACAAATGCAAGATCCACCACCACGT
Found at i:18148774 original size:21 final size:20
Alignment explanation
Indices: 18148729--18148768 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
18148719 TACTAAACTA
18148729 AAAGGAAAAAACATTTATCT
1 AAAGGAAAAAACATTTATCT
18148749 AAAGGAAAAAA-A-TTATCT
1 AAAGGAAAAAACATTTATCT
18148767 AA
1 AA
18148769 GAAAGGGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 1 0.05
20 11 0.55
ACGTcount: A:0.60, C:0.07, G:0.10, T:0.23
Consensus pattern (20 bp):
AAAGGAAAAAACATTTATCT
Found at i:18155541 original size:14 final size:15
Alignment explanation
Indices: 18155522--18155559 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
18155512 AATCGCAACG
18155522 AACC-ATTTTGCTAA
1 AACCAATTTTGCTAA
18155536 AACCATATTTTGCTAA
1 AACCA-ATTTTGCTAA
18155552 AACTCAAT
1 AAC-CAAT
18155560 ATTTCGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 4 0.19
16 15 0.71
17 2 0.10
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.34
Consensus pattern (15 bp):
AACCAATTTTGCTAA
Found at i:18157382 original size:20 final size:20
Alignment explanation
Indices: 18157352--18157401 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
18157342 AAATGAAGAG
18157352 GAAATAGAAGAGAAAGGAGGA
1 GAAA-AGAAGAGAAAGGAGGA
* *
18157373 GAAAAGAAGATAAATGAGGA
1 GAAAAGAAGAGAAAGGAGGA
18157393 GCAAAAGAA
1 G-AAAAGAA
18157402 TGGTGGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.60, C:0.02, G:0.32, T:0.06
Consensus pattern (20 bp):
GAAAAGAAGAGAAAGGAGGA
Found at i:18160996 original size:14 final size:14
Alignment explanation
Indices: 18160979--18161007 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18160969 AGTCCTTCAA
18160979 TCCTAGACATAACC
1 TCCTAGACATAACC
18160993 TCCTAGACATAACC
1 TCCTAGACATAACC
18161007 T
1 T
18161008 TGATATGATA
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:0.34, C:0.34, G:0.07, T:0.24
Consensus pattern (14 bp):
TCCTAGACATAACC
Found at i:18167675 original size:30 final size:30
Alignment explanation
Indices: 18167639--18167722 Score: 125
Period size: 30 Copynumber: 2.8 Consensus size: 30
18167629 GTGTGCTAAA
*
18167639 TGATGGTCGAAACCAT-TCATTTTCTTTAAT
1 TGATGGTCGAAACCATCTC-TTTTCTTTAAC
18167669 TGATGGTCGAAACCATCTCTTTTCTTTAAC
1 TGATGGTCGAAACCATCTCTTTTCTTTAAC
* *
18167699 CGATGGTCGAAACCATCCCTTTTC
1 TGATGGTCGAAACCATCTCTTTTC
18167723 ATATTCGATG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
30 48 0.96
31 2 0.04
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (30 bp):
TGATGGTCGAAACCATCTCTTTTCTTTAAC
Found at i:18167743 original size:29 final size:28
Alignment explanation
Indices: 18167670--18167867 Score: 207
Period size: 29 Copynumber: 6.8 Consensus size: 28
18167660 TTCTTTAATT
* * **
18167670 GATGGTCGAAACCATCTCTTTTCTTTAACC
1 GATGGTC-AAACCATCCCTTTTC-ATATTC
18167700 GATGGTCGAAACCATCCCTTTTCATATTC
1 GATGGTC-AAACCATCCCTTTTCATATTC
*
18167729 GATGTTCAAAGCCATCCCTTTTCATATTC
1 GATGGTCAAA-CCATCCCTTTTCATATTC
* *
18167758 AATGGTCATCACCATCCCTTTTCATATTC
1 GATGGTCA-AACCATCCCTTTTCATATTC
* * *
18167787 GATGGTCATCACCTTCCCTTTTTATATTC
1 GATGGTCA-AACCATCCCTTTTCATATTC
* *
18167816 GATAGTCGAAACCATCCCTTTTCATATTG
1 GATGGTC-AAACCATCCCTTTTCATATTC
*
18167845 GATGGTCAAAACAATCCCTTTTC
1 GATGGTC-AAACCATCCCTTTTC
18167868 TTTAATCTAT
Statistics
Matches: 146, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
28 3 0.02
29 119 0.82
30 24 0.16
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (28 bp):
GATGGTCAAACCATCCCTTTTCATATTC
Found at i:18184631 original size:18 final size:19
Alignment explanation
Indices: 18184608--18184645 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
18184598 TATCAATAAA
* *
18184608 AAAATTTAATTTAAT-TAT
1 AAAATTAAATATAATATAT
18184626 AAAATTAAATATAATATAT
1 AAAATTAAATATAATATAT
18184645 A
1 A
18184646 TTTATTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATTAAATATAATATAT
Found at i:18188250 original size:26 final size:26
Alignment explanation
Indices: 18188196--18188278 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
18188186 CTCCAGATCA
* * * * *
18188196 CCAACCAACTAGCGAACTCCTGTTTG
1 CCAACCTACTGGCGAACCCCAGTTCG
* * *
18188222 CCAACCTATTGGTGGACTCCCA-TTCG
1 CCAACCTACTGGCGAAC-CCCAGTTCG
18188248 CCAAACCTACTGGCGAACCCCAGTTCG
1 CC-AACCTACTGGCGAACCCCAGTTCG
18188275 CCAA
1 CCAA
18188279 TCACACTAGT
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
26 23 0.53
27 20 0.47
ACGTcount: A:0.25, C:0.37, G:0.17, T:0.20
Consensus pattern (26 bp):
CCAACCTACTGGCGAACCCCAGTTCG
Found at i:18188422 original size:27 final size:27
Alignment explanation
Indices: 18188352--18188409 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
18188342 CTACAACTGC
18188352 TCGCCAAATCTTCTGGCTGATACATGT
1 TCGCCAAATCTTCTGGCTGATACATGT
18188379 TCGCCAAATCTTCTGGCTGATACATGT
1 TCGCCAAATCTTCTGGCTGATACATGT
18188406 TCGC
1 TCGC
18188410 TAATTCCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.33
Consensus pattern (27 bp):
TCGCCAAATCTTCTGGCTGATACATGT
Found at i:18192255 original size:14 final size:14
Alignment explanation
Indices: 18192218--18192268 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
18192208 AAGGTCCAGT
*
18192218 GTTTAGGGTTCAAG
1 GTTTAGGGTTGAAG
* *
18192232 GTCTAAGGTTGAAG
1 GTTTAGGGTTGAAG
*
18192246 GTTTAGGGTTTGGA-
1 GTTTAGGG-TTGAAG
18192260 GTTTAGGGT
1 GTTTAGGGT
18192269 CCAGGGTCTA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 1 0.03
14 25 0.83
15 4 0.13
ACGTcount: A:0.20, C:0.04, G:0.39, T:0.37
Consensus pattern (14 bp):
GTTTAGGGTTGAAG
Found at i:18192872 original size:24 final size:25
Alignment explanation
Indices: 18192824--18192880 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
18192814 TAATATTAAA
18192824 ATATAAAATTAAATATTATATAATT
1 ATATAAAATTAAATATTATATAATT
*
18192849 ATATAATATT-AATATTCATA-AATT
1 ATATAAAATTAAATATT-ATATAATT
*
18192873 ATACAAAA
1 ATATAAAA
18192881 CTTATCATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 16 0.57
25 12 0.43
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (25 bp):
ATATAAAATTAAATATTATATAATT
Found at i:18193463 original size:13 final size:13
Alignment explanation
Indices: 18193423--18193476 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
18193413 TCCATTGGGC
18193423 TTTGATTTTAC-TG
1 TTTGATTTT-CTTG
* * *
18193436 TTTGAATTGCATG
1 TTTGATTTTCTTG
18193449 TTTGATTTTCTTG
1 TTTGATTTTCTTG
*
18193462 TTTGATTTCCTTG
1 TTTGATTTTCTTG
18193475 TT
1 TT
18193477 AACCCCTTGG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 1 0.03
13 33 0.97
ACGTcount: A:0.13, C:0.09, G:0.17, T:0.61
Consensus pattern (13 bp):
TTTGATTTTCTTG
Found at i:18193476 original size:26 final size:26
Alignment explanation
Indices: 18193423--18193476 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
18193413 TCCATTGGGC
*
18193423 TTTGATTTTACTGTTTGAATTGCATG
1 TTTGATTTTACTGTTTGAATTCCATG
* *
18193449 TTTGATTTT-CTTGTTTGATTTCCTTG
1 TTTGATTTTAC-TGTTTGAATTCCATG
18193475 TT
1 TT
18193477 AACCCCTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.13, C:0.09, G:0.17, T:0.61
Consensus pattern (26 bp):
TTTGATTTTACTGTTTGAATTCCATG
Found at i:18193875 original size:37 final size:37
Alignment explanation
Indices: 18193825--18193908 Score: 159
Period size: 37 Copynumber: 2.2 Consensus size: 37
18193815 TTCCAATACA
18193825 TGGAAAAACTTGAAAATAAAATTGAATATACATGTGT
1 TGGAAAAACTTGAAAATAAAATTGAATATACATGTGT
18193862 TGGAAAAACTTGAAAATAAAATTGAATATACATGTGT
1 TGGAAAAACTTGAAAATAAAATTGAATATACATGTGT
18193899 TGGACAAAAC
1 TGGA-AAAAC
18193909 CATATCCAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 41 0.89
38 5 0.11
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.27
Consensus pattern (37 bp):
TGGAAAAACTTGAAAATAAAATTGAATATACATGTGT
Found at i:18195623 original size:24 final size:24
Alignment explanation
Indices: 18195585--18195631 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
18195575 ATCTTTATTT
18195585 TAAACTTAAACAATATAAA-TTTAA
1 TAAACTTAAACAATA-AAAGTTTAA
18195609 TAAACTTAATA-AATAAAAGTTTA
1 TAAACTTAA-ACAATAAAAGTTTA
18195632 TTGGCTAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 17 0.81
25 1 0.05
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.34
Consensus pattern (24 bp):
TAAACTTAAACAATAAAAGTTTAA
Found at i:18195740 original size:49 final size:49
Alignment explanation
Indices: 18195684--18195781 Score: 146
Period size: 49 Copynumber: 2.0 Consensus size: 49
18195674 TCATGTGTTA
* *
18195684 TAATTTTATACA-GTGTTGAGCTTTTGATTCATGATATTGAAATTA-ATTT
1 TAATTTTATA-AGGTGTTCACCTTTTGATTCATGATATT-AAATTATATTT
18195733 TAATTTTATAAGGTGTTCACCTTTTGATTCATGATATTAAATTATATTT
1 TAATTTTATAAGGTGTTCACCTTTTGATTCATGATATTAAATTATATTT
18195782 AATAATAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
48 7 0.16
49 38 0.84
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAGGTGTTCACCTTTTGATTCATGATATTAAATTATATTT
Found at i:18202308 original size:19 final size:19
Alignment explanation
Indices: 18202284--18202320 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
18202274 TTTGTCAAAA
18202284 TGTTCAGCAAGTCATTCAG
1 TGTTCAGCAAGTCATTCAG
18202303 TGTTCAGCAAGTCATTCA
1 TGTTCAGCAAGTCATTCA
18202321 AGCATCTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (19 bp):
TGTTCAGCAAGTCATTCAG
Found at i:18213984 original size:15 final size:16
Alignment explanation
Indices: 18213966--18213998 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
18213956 TGATAAAATT
18213966 TAATATATAA-TTATA
1 TAATATATAATTTATA
*
18213981 TAATTTATAATTTATA
1 TAATATATAATTTATA
18213997 TA
1 TA
18213999 TTAATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATATATAATTTATA
Found at i:18213992 original size:27 final size:28
Alignment explanation
Indices: 18213936--18214004 Score: 76
Period size: 27 Copynumber: 2.5 Consensus size: 28
18213926 GAATAAATAT
18213936 ATTTAATAT-T-ATTAATAATTTGATAAA
1 ATTTAATATATAATTAATAATTTGAT-AA
18213963 ATTTAATATATAATTATATAATTT-AT-A
1 ATTTAATATATAATTA-ATAATTTGATAA
18213990 ATTT-ATATATTAATT
1 ATTTAATATA-TAATT
18214005 TTTATCAACT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
26 5 0.13
27 19 0.50
28 1 0.03
29 6 0.16
30 7 0.18
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (28 bp):
ATTTAATATATAATTAATAATTTGATAA
Found at i:18226003 original size:32 final size:32
Alignment explanation
Indices: 18225962--18226023 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
18225952 TGAGGTCTGG
18225962 CATGTGTTGTGGATACTCCACAGATCGTGTTT
1 CATGTGTTGTGGATACTCCACAGATCGTGTTT
18225994 CATGTGTTGTGGATACTCCACAGATCGTGT
1 CATGTGTTGTGGATACTCCACAGATCGTGT
18226024 GAGCAGCATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.35
Consensus pattern (32 bp):
CATGTGTTGTGGATACTCCACAGATCGTGTTT
Found at i:18233874 original size:24 final size:25
Alignment explanation
Indices: 18233846--18233911 Score: 100
Period size: 24 Copynumber: 2.7 Consensus size: 25
18233836 TCCAACCCAT
18233846 AGCTCATGAGAGCATACCGA-TTAC
1 AGCTCATGAGAGCATACCGATTTAC
*
18233870 AGCTCGTGAGAGCATACCGATTTAC
1 AGCTCATGAGAGCATACCGATTTAC
18233895 AGCTCATGTA-AGCATAC
1 AGCTCATG-AGAGCATAC
18233912 ATGTATAGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
24 19 0.50
25 18 0.47
26 1 0.03
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (25 bp):
AGCTCATGAGAGCATACCGATTTAC
Found at i:18235080 original size:12 final size:12
Alignment explanation
Indices: 18235065--18235091 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18235055 TCAGGCTGTT
18235065 ACATGACCTACC
1 ACATGACCTACC
18235077 ACATGACCTACC
1 ACATGACCTACC
18235089 ACA
1 ACA
18235092 CGGCCTAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.41, G:0.07, T:0.15
Consensus pattern (12 bp):
ACATGACCTACC
Found at i:18235817 original size:14 final size:14
Alignment explanation
Indices: 18235798--18235826 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18235788 TTCGATGACG
18235798 ATAATAATTCTTCA
1 ATAATAATTCTTCA
18235812 ATAATAATTCTTCA
1 ATAATAATTCTTCA
18235826 A
1 A
18235827 GTAACTACAA
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:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATAATTCTTCA
Found at i:18239156 original size:69 final size:69
Alignment explanation
Indices: 18239032--18239171 Score: 185
Period size: 69 Copynumber: 2.0 Consensus size: 69
18239022 TTGAATTGTC
* *
18239032 CAAAACCTTAAATTCTTTTTTTCTAACAACGAAAAGACGATAAAGAAAGGAAAAAATTAGGAAAA
1 CAAAACCCTAAATTCTTTTCTTCTAACAACGAAAAGACGATAAAGAAAGGAAAAAATTAGGAAAA
18239097 TCAT
66 TCAT
* *
18239101 CAAAACCCTAAATTCTTTTCTTCTAAC-A-GTAAAGGGACGATGAGAGAAAGGAAAAAAAATTAG
1 CAAAACCCTAAATTCTTTTCTTCTAACAACG-AAA-AGACGAT-AAAGAAAGG--AAAAAATTAG
18239164 GAAAATCA
61 GAAAATCA
18239172 AATCTTCAAG
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
67 1 0.02
68 4 0.06
69 31 0.50
70 8 0.13
72 18 0.29
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.23
Consensus pattern (69 bp):
CAAAACCCTAAATTCTTTTCTTCTAACAACGAAAAGACGATAAAGAAAGGAAAAAATTAGGAAAA
TCAT
Found at i:18239578 original size:22 final size:21
Alignment explanation
Indices: 18239523--18239580 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 21
18239513 TGATTTTAAA
18239523 AATAATATT-TATATAATTACT
1 AATAATATTATATAT-ATTACT
*
18239544 AATAATATAATATATATTA-T
1 AATAATATTATATATATTACT
18239564 AATCAATTATTATATAT
1 AAT-AA-TATTATATAT
18239581 GGGCTAAGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 4 0.12
21 14 0.44
22 14 0.44
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
AATAATATTATATATATTACT
Found at i:18242382 original size:9 final size:9
Alignment explanation
Indices: 18242368--18242395 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
18242358 TTTTTTTTCG
18242368 AATTCGAAT
1 AATTCGAAT
18242377 AATTCGAAT
1 AATTCGAAT
18242386 AATTCGAAT
1 AATTCGAAT
18242395 A
1 A
18242396 TTAAACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:18244061 original size:17 final size:16
Alignment explanation
Indices: 18244038--18244079 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
18244028 GGCATTCCAC
18244038 TTAAAAAAATTTAAAA
1 TTAAAAAAATTTAAAA
18244054 -TATAAAAAATTTAAAA
1 TTA-AAAAAATTTAAAA
18244070 TTAATAAAAA
1 TTAA-AAAAA
18244080 CATATATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 2 0.09
16 14 0.61
17 7 0.30
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
TTAAAAAAATTTAAAA
Found at i:18246937 original size:61 final size:61
Alignment explanation
Indices: 18246872--18246990 Score: 148
Period size: 61 Copynumber: 2.0 Consensus size: 61
18246862 TACTAAATAT
* * * ** * *
18246872 AAAAAATCAACAAATTTAGCCCTCTATATTTATAATTTTTTTCATTTTAGTTCTAATTTTA
1 AAAAAATCAACAAATTTAGCCCTCAAAATTTACAAAATTTGTCAATTTAGTTCTAATTTTA
* * *
18246933 AAAAATTCAATAAATTTAGCTCTCAAAATTTACAAAATTTGTCAATTTAGTTCTAATT
1 AAAAAATCAACAAATTTAGCCCTCAAAATTTACAAAATTTGTCAATTTAGTTCTAATT
18246991 CTAAGAGTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.44
Consensus pattern (61 bp):
AAAAAATCAACAAATTTAGCCCTCAAAATTTACAAAATTTGTCAATTTAGTTCTAATTTTA
Found at i:18250650 original size:63 final size:63
Alignment explanation
Indices: 18250582--18250709 Score: 211
Period size: 63 Copynumber: 2.0 Consensus size: 63
18250572 CATCGCATCC
* *
18250582 TTAGTTGTTTACTTGTTCAGTTATATATTATTCATATAATCATTTTCATAATTTCCACTGCAT
1 TTAGTTGTTTACTTGTTCAGTTACATATTATTCATATAATCATTTTCATAATTGCCACTGCAT
* * *
18250645 TTAGTTGTTTACTTGTTCAGTTACATATTATTCATATACTCATTTTCTTAATTGCCATTGCAT
1 TTAGTTGTTTACTTGTTCAGTTACATATTATTCATATAATCATTTTCATAATTGCCACTGCAT
18250708 TT
1 TT
18250710 TTACTCTTGC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.25, C:0.15, G:0.09, T:0.52
Consensus pattern (63 bp):
TTAGTTGTTTACTTGTTCAGTTACATATTATTCATATAATCATTTTCATAATTGCCACTGCAT
Found at i:18264579 original size:51 final size:50
Alignment explanation
Indices: 18264515--18264801 Score: 323
Period size: 51 Copynumber: 5.7 Consensus size: 50
18264505 GTACGATGAA
* * *
18264515 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-TTGGT
* * * *
18264566 CACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGA-AAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA--TTTGGT
* * * * *
18264617 CACGTGTGTAGTACTGTTTGAAGGCTACTACGTGAATCGATAGA--TGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATTTGGT
* * *
18264665 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA--TTTGGT
* * *
18264716 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAT-AAATTTGGT
18264766 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
18264802 TCGAATGATA
Statistics
Matches: 196, Mismatches: 31, Indels: 19
0.80 0.13 0.08
Matches are distributed among these distances:
47 2 0.01
48 37 0.19
50 42 0.21
51 109 0.56
52 6 0.03
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATTTGGT
Found at i:18264700 original size:99 final size:100
Alignment explanation
Indices: 18264515--18264806 Score: 435
Period size: 99 Copynumber: 2.9 Consensus size: 100
18264505 GTACGATGAA
*
18264515 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGAT-AA-AATGGTCACATGTGTAGTAC
*
18264580 TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
64 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* *
18264617 CACGTGTGTAGTACTGTTTGAAGGCTACTACGTGAATCGAT-AGATGGTCACATGTGTAGTACTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAAATGGTCACATGTGTAGTACTA
18264681 AGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 AGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* * * *
18264716 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAAA--TGGTCACATGTGTAGTAC
* * *
18264780 TATGTGAAGGCTACTACGTGTATCGAA
64 TAAGTGAAGGCTACTATGTGTACCGAA
18264807 TGATAAAAGT
Statistics
Matches: 174, Mismatches: 13, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
98 1 0.01
99 93 0.53
100 1 0.01
101 40 0.23
102 39 0.22
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (100 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAAATGGTCACATGTGTAGTACTA
AGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
Found at i:18269979 original size:27 final size:27
Alignment explanation
Indices: 18269946--18270018 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
18269936 TGTCTTGAAT
18269946 TTGTTAGATATTGATTATGTTTTAAGC
1 TTGTTAGATATTGATTATGTTTTAAGC
*
18269973 TTTTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTTAAGC
*
18270005 TTGTTGGATATTGA
1 TTGTTAGATATTGA
18270019 AATTGTTGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
27 13 0.34
32 25 0.66
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.53
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTTAAGC
Found at i:18269998 original size:32 final size:32
Alignment explanation
Indices: 18269959--18270019 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
18269949 TTAGATATTG
*
18269959 ATTATGTTTTAAGCTTTTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
*
18269991 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTAGATATTGAA
18270020 ATTGTTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.52
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTAGATATTGAATTT
Found at i:18271309 original size:14 final size:14
Alignment explanation
Indices: 18271290--18271327 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
18271280 CCAGAAAAGT
18271290 AAATCATTTTTCAG
1 AAATCATTTTTCAG
*
18271304 AAATCATTTTTCGG
1 AAATCATTTTTCAG
*
18271318 AAAACATTTT
1 AAATCATTTT
18271328 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:18274859 original size:22 final size:22
Alignment explanation
Indices: 18274834--18274876 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
18274824 GATTGTGATG
* *
18274834 TGGTGGTGCTAAGGTGGTTGTA
1 TGGTAGTGATAAGGTGGTTGTA
*
18274856 TGGTAGTGATATGGTGGTTGT
1 TGGTAGTGATAAGGTGGTTGT
18274877 TAGGTGTTGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.02, G:0.44, T:0.40
Consensus pattern (22 bp):
TGGTAGTGATAAGGTGGTTGTA
Found at i:18288539 original size:50 final size:50
Alignment explanation
Indices: 18288437--18288677 Score: 218
Period size: 50 Copynumber: 4.7 Consensus size: 50
18288427 GAATGAGATT
*
18288437 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTA
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATC---GAG---ATGAGAGGTC
*
18288493 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGTC
** * * * * * **
18288543 CCCCGTAAGACCATGTCTAGGACACGGCATGGGCACCGATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGTC
* * * **
18288593 CCATGTAAGACCATATCTGGGATATGGCATTGGCAGTAC-AGA--AAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA-T-CGAGATGAGAGGTC
* * *
18288642 CCATGTAAGACTATGTCTGGGACATAGCTTTGGCAT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
18288678 GTTATTATCA
Statistics
Matches: 154, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 34 0.22
50 77 0.50
51 2 0.01
52 1 0.01
53 3 0.02
56 36 0.23
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGTC
Found at i:18297818 original size:13 final size:13
Alignment explanation
Indices: 18297796--18297829 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18297786 GTATTCAATT
18297796 CAATCCAATTACC
1 CAATCCAATTACC
*
18297809 CAATCTAATTACC
1 CAATCCAATTACC
*
18297822 CAACCCAA
1 CAATCCAA
18297830 CCCAATCATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (13 bp):
CAATCCAATTACC
Found at i:18297957 original size:9 final size:9
Alignment explanation
Indices: 18297945--18298004 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
18297935 TCAATTAAAT
18297945 TAATTCGAG
1 TAATTCGAG
* *
18297954 TAATTTGGG
1 TAATTCGAG
18297963 TAATTC-AG
1 TAATTCGAG
18297971 TTAATTC-AG
1 -TAATTCGAG
*
18297980 TTAATTCGGG
1 -TAATTCGAG
*
18297990 TAATTCGGG
1 TAATTCGAG
18297999 TAATTC
1 TAATTC
18298005 AGTTAATTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
8 1 0.02
9 42 0.95
10 1 0.02
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (9 bp):
TAATTCGAG
Found at i:18297974 original size:27 final size:27
Alignment explanation
Indices: 18297944--18298013 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
18297934 TTCAATTAAA
18297944 TTAATTCGAG-TAATTTGGGTAATTCAG
1 TTAATTC-AGTTAATTTGGGTAATTCAG
* *
18297971 TTAATTCAGTTAATTCGGGTAATTCGG
1 TTAATTCAGTTAATTTGGGTAATTCAG
*
18297998 GTAATTCAGTTAATTT
1 TTAATTCAGTTAATTT
18298014 ATAACCAGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 2 0.05
27 36 0.95
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.43
Consensus pattern (27 bp):
TTAATTCAGTTAATTTGGGTAATTCAG
Found at i:18297985 original size:36 final size:36
Alignment explanation
Indices: 18297944--18298012 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
18297934 TTCAATTAAA
*
18297944 TTAATTCGAGTAATTTGGGTAATTCAGTTAATTCAG
1 TTAATTCGAGTAATTCGGGTAATTCAGTTAATTCAG
*
18297980 TTAATTCGGGTAATTCGGGTAATTCAGTTAATT
1 TTAATTCGAGTAATTCGGGTAATTCAGTTAATT
18298013 TATAACCAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (36 bp):
TTAATTCGAGTAATTCGGGTAATTCAGTTAATTCAG
Found at i:18298011 original size:9 final size:9
Alignment explanation
Indices: 18297963--18298012 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
18297953 GTAATTTGGG
18297963 TAATTCAGT
1 TAATTCAGT
18297972 TAATTCAGT
1 TAATTCAGT
* *
18297981 TAATTCGGG
1 TAATTCAGT
* *
18297990 TAATTCGGG
1 TAATTCAGT
18297999 TAATTCAGT
1 TAATTCAGT
18298008 TAATT
1 TAATT
18298013 TATAACCAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (9 bp):
TAATTCAGT
Found at i:18298126 original size:28 final size:29
Alignment explanation
Indices: 18298067--18298126 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
18298057 GAATTAACCG
** *
18298067 AAAAAATTTCGGTTCGATTAATTTTTTTA
1 AAAAAATTTCGGTTCGATTAATTGGTTAA
* *
18298096 AAAAAATTTTGGTTCGGTTAA-TGGTTAA
1 AAAAAATTTCGGTTCGATTAATTGGTTAA
18298124 AAA
1 AAA
18298127 TTTTGAAAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (29 bp):
AAAAAATTTCGGTTCGATTAATTGGTTAA
Found at i:18298189 original size:1 final size:1
Alignment explanation
Indices: 18298183--18298217 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
18298173 TCCTATTTGC
18298183 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
18298218 CCTATCAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:18304152 original size:27 final size:27
Alignment explanation
Indices: 18304099--18304152 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
18304089 CCCCGAGGCG
18304099 GAAAATAAATTGCCAAATTCAAAAAATT
1 GAAAATAAATTG-CAAATTCAAAAAATT
18304127 GAAACATAAATTG-AAATT-AAATAAAT
1 GAAA-ATAAATTGCAAATTCAAA-AAAT
18304153 AAATTACCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 3 0.12
27 9 0.38
28 4 0.17
29 8 0.33
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (27 bp):
GAAAATAAATTGCAAATTCAAAAAATT
Found at i:18310179 original size:14 final size:14
Alignment explanation
Indices: 18310160--18310189 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18310150 TAAAAATGGT
18310160 GAAAGGAATAAAAA
1 GAAAGGAATAAAAA
*
18310174 GAAAGGACTAAAAA
1 GAAAGGAATAAAAA
18310188 GA
1 GA
18310190 TGGTAAATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.07
Consensus pattern (14 bp):
GAAAGGAATAAAAA
Found at i:18311369 original size:37 final size:37
Alignment explanation
Indices: 18311307--18311418 Score: 208
Period size: 37 Copynumber: 3.1 Consensus size: 37
18311297 TGGTTGAATA
18311307 GTAAATTTAAGA-TTTTTATTAATGTAATTGGCATAG
1 GTAAATTTAAGATTTTTTATTAATGTAATTGGCATAG
18311343 GTAAATTTAAGATTTTTTATTAATGTAATTGGCATAG
1 GTAAATTTAAGATTTTTTATTAATGTAATTGGCATAG
*
18311380 GTAAATTTAAGATTTTTTATTAATGTAATTGGCACAG
1 GTAAATTTAAGATTTTTTATTAATGTAATTGGCATAG
18311417 GT
1 GT
18311419 TCAAATCTTA
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
36 12 0.16
37 62 0.84
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.45
Consensus pattern (37 bp):
GTAAATTTAAGATTTTTTATTAATGTAATTGGCATAG
Found at i:18313309 original size:16 final size:16
Alignment explanation
Indices: 18313280--18313349 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
18313270 TTTGGTTCAC
* *
18313280 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
18313296 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
18313312 TGTAATGGATTAGAGG
1 TGTAATGGAATAGAGG
18313328 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
18313344 TGTAAT
1 TGTAAT
18313350 AACAAATCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.33, C:0.01, G:0.36, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:18313326 original size:32 final size:32
Alignment explanation
Indices: 18313280--18313349 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
18313270 TTTGGTTCAC
*
18313280 TGTATTGGATTAGAGGCGTAATGGAATAGAGG
1 TGTAATGGATTAGAGGCGTAATGGAATAGAGG
*
18313312 TGTAATGGATTAGAGGTGTAATGGAATAGAGG
1 TGTAATGGATTAGAGGCGTAATGGAATAGAGG
18313344 TGTAAT
1 TGTAAT
18313350 AACAAATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.33, C:0.01, G:0.36, T:0.30
Consensus pattern (32 bp):
TGTAATGGATTAGAGGCGTAATGGAATAGAGG
Done.