Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 7 of 297
Found at i:2260529 original size:56 final size:56
Alignment explanation
Indices: 2260462--2260581 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
2260452 TATTAGTTTA
2260462 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
2260518 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
2260574 TTGCCCAT
1 TTGCCCAT
2260582 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:2262077 original size:47 final size:47
Alignment explanation
Indices: 2261882--2262144 Score: 258
Period size: 47 Copynumber: 5.7 Consensus size: 47
2261872 TTTGTGTGCT
* * * *
2261882 AGTGTAACACCATGTTTGGGACATGGCATCGGGA-TTGAGATGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC--GACTTGATA-GATGAGCC
* *
2261930 AGTGTAAGA-TATGTCTGGGACAT-GCATCGGCCTTG--AGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATAGATG--AGCC
* * *
2261976 AGTGTAAGA-AATGTCTGGGACAT-GCATCGAC-T-ATGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAT-AGATGAGCC
* * *
2262020 AATGTAAGACCATGTCTGGGACATGGCATTGACTTGATAGATGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATAGATGAGCC
2262067 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATAGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATAGATGAGCC
* * *
2262114 AGTGTAAGACCATGTCCGAGACATGCCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
2262145 GCATTATACC
Statistics
Matches: 185, Mismatches: 19, Indels: 23
0.81 0.08 0.10
Matches are distributed among these distances:
43 2 0.01
44 13 0.07
45 17 0.09
46 50 0.27
47 93 0.50
48 10 0.05
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATAGATGAGCC
Found at i:2264075 original size:40 final size:41
Alignment explanation
Indices: 2264020--2264327 Score: 383
Period size: 40 Copynumber: 7.5 Consensus size: 41
2264010 TATTCGGATG
*
2264020 ATATCTGGGCTAAGTCCCGAAGGCATTTGTG-TAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTTACT
* *
2264060 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA--AGTTACT
* *
2264103 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTTACT
* ** *
2264143 ATATCCGGGCTAAGTACCGAAGGCATTCATGCT-AGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTTACT
*
2264183 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTTACT
* * *
2264223 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA--AGTTACT
* * *
2264266 ATACCCGGGCAAAGTCCCGAAGGCATTTGTGCT-AGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTTACT
* *
2264306 ATATCCCGGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
2264328 ATACTTGGGT
Statistics
Matches: 232, Mismatches: 29, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
40 158 0.68
41 2 0.01
43 72 0.31
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTTACT
Found at i:2264268 original size:123 final size:122
Alignment explanation
Indices: 2264020--2264327 Score: 410
Period size: 123 Copynumber: 2.5 Consensus size: 122
2264010 TATTCGGATG
* * *
2264020 ATATCTGGGCTAAGTCCCGAAGGCATTTGTG-TAAGTTACTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACTATATCCGGGCTAAGACCCGAAGGC
*
2264084 ATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
65 ATTTGTGCGAG-AGTTACTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* **
2264143 ATATCCGGGCTAAGTACCGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
2264208 TTTGTGC-A-AGTTACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
66 TTTGTGCGAGAGTTACTATACCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
* * *
2264266 ATACCCGGGCAAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCCGGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGA-CCCGAAG
2264328 ATACTTGGGT
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
120 36 0.22
122 2 0.01
123 123 0.75
124 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (122 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGAGTTACTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:2264296 original size:163 final size:163
Alignment explanation
Indices: 2264020--2264327 Score: 544
Period size: 163 Copynumber: 1.9 Consensus size: 163
2264010 TATTCGGATG
* * *
2264020 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGTAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
* *
2264085 TTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCG
66 TTTGTGCGAGTAGTTGCTATACCCGGGCAAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCC
*
2264150 GGCTAAGTACCGAAGGCATTCATGCTAGTGACT
131 GGCTAAATACCGAAGGCATTCATGCTAGTGACT
*
2264183 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACTATATCTGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
2264248 TTTGTGCGAGTAGTTGCTATACCCGGGCAAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCC
66 TTTGTGCGAGTAGTTGCTATACCCGGGCAAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCC
*
2264313 GGCTAAATCCCGAAG
131 GGCTAAATACCGAAG
2264328 ATACTTGGGT
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
163 137 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (163 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTAGTTGCTATACCCGGGCAAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCC
GGCTAAATACCGAAGGCATTCATGCTAGTGACT
Found at i:2272722 original size:46 final size:45
Alignment explanation
Indices: 2272592--2272755 Score: 172
Period size: 46 Copynumber: 3.5 Consensus size: 45
2272582 GTGCCGACAC
* * * * *
2272592 CATGTCCCAGACACGATCTTACACTGGCTCACATCTCCT-GTCAATG
1 CATGTCCCAGACATG-TCTTACACTGGCTTAC-TCTCGTAGCCGATG
*
2272638 CCATGTCCCAGACATGGTCTTACACTGACTATTA-TCTCGTAGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGC--TTACTCTCGTAGCCGATG
*
2272686 CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCG-AGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTAC-TCTCGTA-GCCGATG
2272732 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
2272756 AGCACTCGTC
Statistics
Matches: 102, Mismatches: 8, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 47 0.46
47 43 0.42
48 6 0.06
49 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACTCTCGTAGCCGATG
Found at i:2272766 original size:46 final size:45
Alignment explanation
Indices: 2272639--2272784 Score: 138
Period size: 46 Copynumber: 3.1 Consensus size: 45
2272629 CTGTCAATGC
**
2272639 CATGTCCCAGACATGGTCTTACACTG-ACTATTATCTCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGCAC--TCGTCTCGTAGCCGATG
* *
2272686 CATGTCCCAGACATGTCTTACACTGGC-TTACGTCTCG-AGGCTGATG
1 CATGTCCCAGACATGTCTTACACT-GCACT-CGTCTCGTA-GCCGATG
*
2272732 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTC-AATGCCGATG
1 CATGTCCCAGACATGTCTTACACT-GCACTCGTCTCGTA-GCCGATG
2272778 CCATGTC
1 -CATGTC
2272785 TTGGACATGG
Statistics
Matches: 84, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
45 2 0.02
46 60 0.71
47 22 0.26
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGCACTCGTCTCGTAGCCGATG
Found at i:2272783 original size:93 final size:94
Alignment explanation
Indices: 2272591--2272784 Score: 211
Period size: 93 Copynumber: 2.1 Consensus size: 94
2272581 GGTGCCGACA
* *
2272591 CCATGTCCCAGACACGATCTTACACTGGCTCACATCTCCTGTCAATGCCATGTCCCAGACATGGT
1 CCATGTCCCAGACACGATCTTACACTGGCTCACATCTCCAGGCAATGCCATGTCCCAGACATGGT
* *
2272656 CTTACACTGACTATTATCTCGTAGCCGATG
66 CTTACACTGAC-ATCATCTCATAGCCGATG
* * * * *
2272686 -CATGTCCCAGACATG-TCTTACACTGGCTTACGTCTCGAGGCTGATG-CATGTCCCAGACAT-G
1 CCATGTCCCAGACACGATCTTACACTGGCTCACATCTCCAGGC-AATGCCATGTCCCAGACATGG
*
2272747 TCTTACACT-AGCACTCGTCTCA-ATGCCGATG
65 TCTTACACTGA-CA-TCATCTCATA-GCCGATG
2272778 CCATGTC
1 CCATGTC
2272785 TTGGACATGG
Statistics
Matches: 84, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
91 3 0.04
92 23 0.27
93 41 0.49
94 17 0.20
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (94 bp):
CCATGTCCCAGACACGATCTTACACTGGCTCACATCTCCAGGCAATGCCATGTCCCAGACATGGT
CTTACACTGACATCATCTCATAGCCGATG
Found at i:2287414 original size:6 final size:6
Alignment explanation
Indices: 2287392--2287437 Score: 67
Period size: 6 Copynumber: 7.7 Consensus size: 6
2287382 AATAAAAACA
*
2287392 TAAAA- TAAGAAT AAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAA
1 TAAAAT TAA-AAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAA
2287438 CATCATTATC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
5 3 0.08
6 32 0.86
7 2 0.05
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (6 bp):
TAAAAT
Found at i:2287434 original size:18 final size:18
Alignment explanation
Indices: 2287382--2287437 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
2287372 AGGTGAAATT
*
2287382 AATAAAAACATAAAA-TAA
1 AATAAAAA-TTAAAATTAA
2287400 GAATAAAAATTAAAATTAA
1 -AATAAAAATTAAAATTAA
*
2287419 AATTAAAATTAAAATTAA
1 AATAAAAATTAAAATTAA
2287437 A
1 A
2287438 CATCATTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 23 0.68
19 11 0.32
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (18 bp):
AATAAAAATTAAAATTAA
Found at i:2291939 original size:40 final size:40
Alignment explanation
Indices: 2291895--2292133 Score: 340
Period size: 40 Copynumber: 6.0 Consensus size: 40
2291885 AATTTAACCA
*
2291895 GATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGCCCG
1 GATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCG
** *
2291935 GATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGCCTG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
2291975 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* *
2292015 GATATAGTAACTCGCACAAATGCCTTCGGGGCTTAGCCCA
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
2292055 GA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCA
1 GATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
** *
2292095 GA-ATTAGTCTCTAGCACAAATGCCTTCGGGACTTAGCCC
1 GATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
2292134 CGTTATCATC
Statistics
Matches: 184, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 2 0.01
40 182 0.99
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
Found at i:2303479 original size:47 final size:48
Alignment explanation
Indices: 2303392--2303505 Score: 119
Period size: 47 Copynumber: 2.4 Consensus size: 48
2303382 GTAAGGTGCT
* ** *
2303392 GATGCCATGTCCCAGACACGGTCCTACACTGGCTTACATC-TCAAGTC
1 GATGCCATGTCCCAGACATGGTCCTACACTAACTTACATCTTCAAGCC
**
2303439 GATGCCATGTCCCAGACATGG-CCTTACACTAAC-TATCATCTTGTAGCC
1 GATGCCATGTCCCAGACATGGTCC-TACACTAACTTA-CATCTTCAAGCC
*
2303487 AATG-CATGTCCCAGACATG
1 GATGCCATGTCCCAGACATG
2303506 TCTTACATTG
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
46 4 0.07
47 46 0.81
48 7 0.12
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCCTACACTAACTTACATCTTCAAGCC
Found at i:2303580 original size:46 final size:47
Alignment explanation
Indices: 2303529--2303657 Score: 133
Period size: 47 Copynumber: 2.7 Consensus size: 47
2303519 TATGTCTCGA
*
2303529 GGCCGATGCATGTCCCAAACATGTCTTCCACTAGCACTCATC-TCAA-T
1 GGCCGATGCATGTCCCAAACATGTCTTACACTAGCACTC-TCAT-AAGT
*** *
2303576 -GCCGATGCCATGTCCTGGACGTGGTCTTACACT-G-ACTCTCATAATGT
1 GGCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCACTCTCATAA-GT
2303623 GGCCGATGCATGTCCCAAACATGTCTTACACTAGC
1 GGCCGATGCATGTCCCAAACATGTCTTACACTAGC
2303658 TTACGCAAGT
Statistics
Matches: 65, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
45 4 0.06
46 22 0.34
47 23 0.35
48 16 0.25
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (47 bp):
GGCCGATGCATGTCCCAAACATGTCTTACACTAGCACTCTCATAAGT
Found at i:2306231 original size:46 final size:46
Alignment explanation
Indices: 2306133--2306258 Score: 139
Period size: 46 Copynumber: 2.7 Consensus size: 46
2306123 TTTGTGTGCT
* * * *
2306133 AGTGTAAGACCATGT-TTGGTACATGGAATCGGGATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTCTTGG-ACAT-GCATCGGCATCGAGATGAGAGCC
*
2306181 AGTGTAAGACATGTCTTGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTTGGACATGCATCGGCATCGAGATG-AGAGCC
* *
2306227 AGTGTAAGACATGTCTGGGATATGCATCGGCA
1 AGTGTAAGACATGTCTTGGACATGCATCGGCA
2306259 CGTATAGAGG
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
46 45 0.66
47 10 0.15
48 13 0.19
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTTGGACATGCATCGGCATCGAGATGAGAGCC
Found at i:2306390 original size:47 final size:47
Alignment explanation
Indices: 2306318--2306447 Score: 206
Period size: 47 Copynumber: 2.8 Consensus size: 47
2306308 GGATATGTGA
* * *
2306318 GAGCTAGTGCAAGACCATGTCTGGGACATGGCATCAACTTGATAGAT
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAACTTGATAGAT
* *
2306365 GAGTCAGTGTAAGACCATGTTTGGGACATGGCATCGACTTGATAGAT
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAACTTGATAGAT
*
2306412 GAGCCAGTGTAAGACCATGTTCGGGACATGGCATCA
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCA
2306448 GCATTATATC
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 75 1.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAACTTGATAGAT
Found at i:2307740 original size:85 final size:85
Alignment explanation
Indices: 2307597--2307775 Score: 331
Period size: 85 Copynumber: 2.1 Consensus size: 85
2307587 GGCCGGCCAT
*
2307597 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTGATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
*
2307662 GTGAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
2307682 GAGCATGGGTGGACAAGCTGTGATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTGATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
2307747 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
2307767 GAGCATGGG
1 GAGCATGGG
2307776 CAATAAAATA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTGATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:2309027 original size:40 final size:39
Alignment explanation
Indices: 2308943--2309127 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
2308933 TCGAATGATG
* * * * *
2308943 TCCGGGCTAAGTCCCGAAGG-TTTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
2308983 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
2309023 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
2309062 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
2309103 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
2309128 AATGAGTAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:2309149 original size:79 final size:79
Alignment explanation
Indices: 2308996--2309160 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
2308986 GGACTAAGAT
* * **
2308996 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
*
2309061 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
2309075 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTGAATGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-C
* *
2309138 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
2309154 CCGAAGG
1 CCGAAGG
2309161 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.67
80 22 0.30
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:2311690 original size:7 final size:7
Alignment explanation
Indices: 2311680--2311704 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2311670 TGGATAAGGG
2311680 ATGATGA
1 ATGATGA
2311687 ATGATGA
1 ATGATGA
2311694 ATGATGA
1 ATGATGA
2311701 ATGA
1 ATGA
2311705 AGGAATGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (7 bp):
ATGATGA
Found at i:2326615 original size:29 final size:28
Alignment explanation
Indices: 2326573--2326628 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
2326563 ACTTTCATTT
** *
2326573 ATTTCACATTTTAACCACATATTTTGCAC
1 ATTTCACAAATTAACC-CATATTATGCAC
*
2326602 ATTTCACAAATTAATCCATATTATGCA
1 ATTTCACAAATTAACCCATATTATGCA
2326629 TTTTCATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.39
Consensus pattern (28 bp):
ATTTCACAAATTAACCCATATTATGCAC
Found at i:2327754 original size:23 final size:22
Alignment explanation
Indices: 2327709--2327750 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2327699 TTGCTATGTT
*
2327709 TTATTCTACAGAAATTAAATCC
1 TTATTCTAAAGAAATTAAATCC
2327731 TTATTACTAAAGAAA-TAAAT
1 TTATT-CTAAAGAAATTAAAT
2327751 TCCTAAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.36
Consensus pattern (22 bp):
TTATTCTAAAGAAATTAAATCC
Found at i:2335082 original size:79 final size:80
Alignment explanation
Indices: 2334919--2335097 Score: 204
Period size: 79 Copynumber: 2.2 Consensus size: 80
2334909 CATTCAAATG
* * * *
2334919 CCTTTGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATA
* **
2334983 GTAACTCGCACCAATG
65 GTAACTAGCACCAAAA
** *
2334999 CCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATG
1 CCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATA
*
2335062 GTCACTTAGCA-CAAAA
65 GTAAC-TAGCACCAAAA
2335078 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
2335098 CATCATTCGA
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
78 3 0.04
79 58 0.69
80 23 0.27
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAG
TAACTAGCACCAAAA
Found at i:2335097 original size:40 final size:40
Alignment explanation
Indices: 2334913--2335097 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
2334903 GCTACTCATT
* * *
2334913 CAAATGCCTTTGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
2334953 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
2334993 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
2335032 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
*
2335073 CAAA-ACCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
2335098 CATCATTCGA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:2336338 original size:41 final size:41
Alignment explanation
Indices: 2336293--2336423 Score: 92
Period size: 41 Copynumber: 3.1 Consensus size: 41
2336283 TTAATCCTTA
2336293 CATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGC
1 CATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGC
*** * ** *
2336334 CATAA--CATCTTGTCCACCCATGCTCTTTATGTTAT-TAATCCTTA-C
1 CATAATGCA-CTACCCCA-ACATG---TTTATGACATGT--T-TTTAGC
2336379 -ATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGC
1 CATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGC
2336419 CATAA
1 CATAA
2336424 CATCTTGTCC
Statistics
Matches: 63, Mismatches: 14, Indels: 26
0.61 0.14 0.25
Matches are distributed among these distances:
39 5 0.08
40 7 0.11
41 21 0.33
42 1 0.02
43 1 0.02
44 16 0.25
45 7 0.11
46 5 0.08
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (41 bp):
CATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGC
Found at i:2336394 original size:85 final size:85
Alignment explanation
Indices: 2336265--2336443 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
2336255 TATTTTATTG
*
2336265 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATGTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
2336330 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
2336350 CCCATGCTCTTTATGTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATGTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
2336415 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
2336435 CCCATGCTC
1 CCCATGCTC
2336444 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.27, G:0.09, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATGTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:2337663 original size:47 final size:48
Alignment explanation
Indices: 2337594--2337910 Score: 241
Period size: 47 Copynumber: 6.7 Consensus size: 48
2337584 ATATAATGCT
* *
2337594 GATGCCATGTCCCGAACATGGTCTTACACTGGCTCATCTATCAAGT-C
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCATCTATCAAGTCC
*
2337641 GATGCCATGTCCCAAACATGGTCTTACACT-GACTCATCTATCAAGT-T
1 GATGCCATGTCCCAAACATGGTCTTACACTAG-CTCATCTATCAAGTCC
* * *
2337688 GATGCCATGTCCCAGACATGGTCTTGCACTAGCTC-TCACATATC-CGTGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCAT--C-TATCAAGT-CC
** * * * * *
2337738 GATGCCATGTTTCAGACATGGTCTTACACTAACACCTCTAT-ACGTGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCATCTATCAAGT-CC
* * * * *
2337786 GATG-CATATCCCAGACAT-GTCTTACACTGGCTTACATC--TCGAGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGC-T-CATCTATCAAGTCC
*
2337832 GATG-CATGT-CCAAGACAT-GTCTTACACTAGCTC-TCATCTCAA-TCCC
1 GATGCCATGTCCCAA-ACATGGTCTTACACTAGCTCATC-TATCAAGT-CC
* *
2337878 GATTCCATGTACCAAACATGGTCTTACACTAGC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGC
2337911 ACACAAATGA
Statistics
Matches: 223, Mismatches: 27, Indels: 39
0.77 0.09 0.13
Matches are distributed among these distances:
43 2 0.01
44 1 0.00
45 4 0.02
46 48 0.22
47 95 0.43
48 37 0.17
49 5 0.02
50 30 0.13
51 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCATCTATCAAGTCC
Found at i:2337870 original size:46 final size:46
Alignment explanation
Indices: 2337783--2337910 Score: 143
Period size: 46 Copynumber: 2.7 Consensus size: 46
2337773 CTCTATACGT
* * * *
2337783 GCCGATGCATATCCCAGACATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCAAGACATGTCTTACACTAGCTTACATCTCAAG
*
2337829 GCCGATGCATGTCCAAGACATGTCTTACACTAGCTCT-CATCTCAAT
1 GCCGATGCATGTCCAAGACATGTCTTACACTAGCT-TACATCTCAAG
* *
2337875 CCCGATTCCATGTACCAA-ACATGGTCTTACACTAGC
1 GCCGA-TGCATGT-CCAAGACAT-GTCTTACACTAGC
2337911 ACACAAATGA
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
46 43 0.61
47 11 0.15
48 17 0.24
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCAAGACATGTCTTACACTAGCTTACATCTCAAG
Found at i:2340612 original size:47 final size:48
Alignment explanation
Indices: 2340520--2340648 Score: 124
Period size: 47 Copynumber: 2.8 Consensus size: 48
2340510 CCTCGAGACA
* * * *
2340520 TAAGCCAATGTAAGA-CATGTCTGGGACAT-GCATTGGCTACAAGATG
1 TAAGCCAGTGTAGGACCATGTCTGGGACATGGCATCGACTACAAGATG
** **
2340566 -ATAGTTAGTGTAAGG-CCATGTCTGGGACATGGCATCGACT-TGAGATG
1 TA-AGCCAGTGT-AGGACCATGTCTGGGACATGGCATCGACTACAAGATG
*
2340613 TAAGCCAGTGTAGGACCGTGTCTGGGACATGGCATC
1 TAAGCCAGTGTAGGACCATGTCTGGGACATGGCATC
2340649 AGCACCTTAC
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
45 1 0.02
46 9 0.14
47 48 0.73
48 8 0.12
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
TAAGCCAGTGTAGGACCATGTCTGGGACATGGCATCGACTACAAGATG
Found at i:2340639 original size:140 final size:141
Alignment explanation
Indices: 2340388--2340648 Score: 314
Period size: 140 Copynumber: 1.9 Consensus size: 141
2340378 CGTAAGCTAG
* **
2340388 TGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGATTCAGTGTAAGACCACGTCCAGGA
1 TGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGATTCAGTGTAAGACCACGTCCAGGA
* * * *
2340453 CATGGCATCGGCATTGAGATGAGTGCTAGTGGAAGACATGTTTGGGACAT-GCATCGGCCTCGAG
66 CATGGCATCGACATTGAGATGAGAGCCAGTGGAAGACATGTCTGGGACATGGCATCGGCCTCGAG
2340517 ACATAAGCCAA
131 ACATAAGCCAA
* * * * * **
2340528 TGTAAGACATGTCTGGGACATGCATTGGCTACAAGATGATAGTT-AGTGTAAGGCCATGTCTGGG
1 TGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGA-TTCAGTGTAAGACCACGTCCAGG
* * *
2340592 ACATGGCATCGAC-TTGAGATGTA-AGCCAGTGTAGGACCGTGTCTGGGACATGGCATC
65 ACATGGCATCGACATTGAGATG-AGAGCCAGTGGAAGA-CATGTCTGGGACATGGCATC
2340649 AGCACCTTAC
Statistics
Matches: 100, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
139 17 0.17
140 76 0.76
141 7 0.07
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (141 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGATTCAGTGTAAGACCACGTCCAGGA
CATGGCATCGACATTGAGATGAGAGCCAGTGGAAGACATGTCTGGGACATGGCATCGGCCTCGAG
ACATAAGCCAA
Found at i:2345547 original size:39 final size:40
Alignment explanation
Indices: 2345430--2345614 Score: 164
Period size: 40 Copynumber: 4.7 Consensus size: 40
2345420 GCTACTCGTT
* * * *
2345430 CAAATGCCTTCGGGACATAGCCCTG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAAT-TAGTAACTCGCA
*
2345470 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
* * * *
2345510 CCAATACCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
** * * *
2345549 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAAT-TAGTAAC-TCGCA
*
2345590 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
2345615 CATCATTCGA
Statistics
Matches: 122, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 74 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
Found at i:2345574 original size:79 final size:80
Alignment explanation
Indices: 2345430--2345614 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 80
2345420 GCTACTCGTT
* * *
2345430 CAAATGCCTTCGGGACATAGCCCTG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
2345494 GATTTAGTAAC-TCGCA
64 GATATAGTAACTTAGCA
* **
2345510 CCAATA-CCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 -CAA-AGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
2345572 GGATATGGTCACTTAGCA
63 GGATATAGTAACTTAGCA
2345590 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
2345615 CATCATTCGA
Statistics
Matches: 88, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
78 4 0.05
79 56 0.64
80 24 0.27
81 3 0.03
82 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCA
Found at i:2355745 original size:12 final size:12
Alignment explanation
Indices: 2355723--2355752 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2355713 TAATAAGGGG
2355723 ATTAG-GTGTTA
1 ATTAGAGTGTTA
2355734 ATTAGAGTGTTA
1 ATTAGAGTGTTA
2355746 ATTAGAG
1 ATTAGAG
2355753 AAAATTCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (12 bp):
ATTAGAGTGTTA
Found at i:2377224 original size:34 final size:34
Alignment explanation
Indices: 2377181--2377248 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
2377171 TTGGAGATAA
2377181 AGTATTCTTGAAAGTGTCTCCATGGAAAAAGGTT
1 AGTATTCTTGAAAGTGTCTCCATGGAAAAAGGTT
2377215 AGTATTCTTGAAAGTGTCTCCATGGAAAAAGGTT
1 AGTATTCTTGAAAGTGTCTCCATGGAAAAAGGTT
2377249 TTGAGATTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (34 bp):
AGTATTCTTGAAAGTGTCTCCATGGAAAAAGGTT
Found at i:2383662 original size:42 final size:43
Alignment explanation
Indices: 2383592--2383675 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 43
2383582 TATAAGGGTC
*
2383592 ACACGCCCGTGAGAACAGGCCATATGCCTCACACAGTCACCAG
1 ACACGCCCATGAGAACAGGCCATATGCCTCACACAGTCACCAG
** * *
2383635 ACACGCCCATGA-AACAGGCTGTGTGCCTCACACGGTCACCA
1 ACACGCCCATGAGAACAGGCCATATGCCTCACACAGTCACCA
2383676 AACATGTCTG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 25 0.69
43 11 0.31
ACGTcount: A:0.29, C:0.37, G:0.21, T:0.13
Consensus pattern (43 bp):
ACACGCCCATGAGAACAGGCCATATGCCTCACACAGTCACCAG
Found at i:2386579 original size:30 final size:30
Alignment explanation
Indices: 2386545--2386605 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
2386535 TCCTTAACTC
2386545 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
2386575 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
2386605 A
1 A
2386606 GGCTCGAGAA
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
Found at i:2389748 original size:27 final size:27
Alignment explanation
Indices: 2389718--2389895 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
2389708 ATATTGAGTC
* * * *
2389718 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
2389745 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
2389772 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
2389800 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
2389827 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
2389854 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
2389881 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
2389896 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:2389857 original size:82 final size:81
Alignment explanation
Indices: 2389739--2389894 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
2389729 TGCTATATAA
* *
2389739 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
2389804 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
2389821 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
2389885 CACTTAGTGC
65 CACTTAGTGC
2389895 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:2392107 original size:43 final size:43
Alignment explanation
Indices: 2392037--2392139 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
2392027 TATCATAGTT
*
2392037 GATGCCACTGTCCCAGACAGGGCCTTACACGA-AATCA-AATAAC
1 GATGCCAATGTCCCAGACAGGGCCTTACAC-ATAATCACAAT-AC
** * *
2392080 GATGCCAATGTCCTGGACATGGTCTTACACATAATCACAATAC
1 GATGCCAATGTCCCAGACAGGGCCTTACACATAATCACAATAC
*
2392123 AATGCCAATGTCCCAGA
1 GATGCCAATGTCCCAGA
2392140 ATGGTCTTGC
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 1 0.02
43 46 0.92
44 3 0.06
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.20
Consensus pattern (43 bp):
GATGCCAATGTCCCAGACAGGGCCTTACACATAATCACAATAC
Found at i:2395038 original size:53 final size:53
Alignment explanation
Indices: 2394856--2395163 Score: 351
Period size: 53 Copynumber: 5.8 Consensus size: 53
2394846 ATTAGGGTTT
2394856 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGC-ATTGGTAA-G-TTCATAAGGC
* * * * * * *
2394911 AAGGAAATCATGTAAGACTATGTCAAGACATGGCATTGATAAGTTACTATAAGGTA
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTT-C-ATAAGG-C
* *
2394967 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGC
*
2395019 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGC
* * * *
2395072 AAGGATACCATGTAAGACCATGTCAAGACATGGAAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCAT-AAGGC
* * *
2395121 AAGGATACCATGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAG
2395164 GTACCCACGT
Statistics
Matches: 222, Mismatches: 25, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
49 40 0.18
51 1 0.00
52 8 0.04
53 95 0.43
54 8 0.04
55 66 0.30
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGC
Found at i:2395376 original size:16 final size:16
Alignment explanation
Indices: 2395355--2395385 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2395345 ATAAATTTGA
2395355 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
2395371 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
2395386 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:2406188 original size:53 final size:55
Alignment explanation
Indices: 2406058--2406200 Score: 157
Period size: 53 Copynumber: 2.6 Consensus size: 55
2406048 AAGGAAATCG
* * * * *
2406058 TGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTGTTAGGAAAATGTCCCA
1 TGTAAGACCATGTCAAGACATGGCATTGGTAAGTTACTATAAGGAAAAGGTACCA
* * * * *
2406113 TGTAAGACTATGCCAAGGCATGGCATTGGTGAGTT-C-ATAAGG-CAAGGATACCA
1 TGTAAGACCATGTCAAGACATGGCATTGGTAAGTTACTATAAGGAAAAGG-TACCA
*
2406166 TGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 TGTAAGACCATGTCAAGACATGGCATTGGTAAGTT
2406201 TCAAAAGGAT
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
52 3 0.04
53 38 0.53
54 1 0.01
55 30 0.42
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (55 bp):
TGTAAGACCATGTCAAGACATGGCATTGGTAAGTTACTATAAGGAAAAGGTACCA
Found at i:2426301 original size:6 final size:6
Alignment explanation
Indices: 2426281--2426320 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
2426271 TAAAGAAGAT
* *
2426281 AAATAA AGATAA AAATGA AAATAA AAATAA TAAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA -AAATAA AAA
2426321 GTTCTTAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:2428020 original size:20 final size:21
Alignment explanation
Indices: 2427995--2428034 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2427985 CCAATTTAAA
2427995 TTTTCATTTTATT-TTCTAAT
1 TTTTCATTTTATTCTTCTAAT
*
2428015 TTTTCATTTTTTTCTTCTAA
1 TTTTCATTTTATTCTTCTAA
2428035 CAGGTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTCATTTTATTCTTCTAAT
Found at i:2443481 original size:40 final size:40
Alignment explanation
Indices: 2443419--2443730 Score: 382
Period size: 40 Copynumber: 7.8 Consensus size: 40
2443409 NNNNNNNNGG
* *
2443419 TATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGA
1 TATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
* * * *
2443459 TATATCAACTTGCATAATTGCCTTCGGGTCTTAACCCGGA
1 TATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
2443499 TATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
1 TATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
* * * *
2443539 TAAAATC-ACTAGCACAATTGCCTTCGGGTCTTAACCCGTG-
1 T-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCG-GA
* *
2443579 TATAGCAACTCGAACAAATGCCTTCGGGTC--AGCCCGGA
1 TATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
*
2443617 TATATCAACTCGCACAAATGCCTTCTGGTCTTAGCCCGGA
1 TATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
* * * *
2443657 TATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGA
1 TAT-ATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
* * *
2443697 TATAGCAACTCGCACGAATGCCTTCGGATCTTAG
1 TATATCAACTCGCACAAATGCCTTCGGGTCTTAG
2443731 TTCTTTTCTC
Statistics
Matches: 229, Mismatches: 35, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
37 1 0.00
38 32 0.14
39 5 0.02
40 183 0.80
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
TATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
Found at i:2443647 original size:118 final size:119
Alignment explanation
Indices: 2443430--2443723 Score: 421
Period size: 118 Copynumber: 2.5 Consensus size: 119
2443420 ATAGCAACTC
* * * * *
2443430 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAATTGCCTTCGGGTCTTAACC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC-TAACC
2443495 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTA
65 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTA
* * * *
2443550 GCACAATTGCCTTCGGGTCTTAACCCGTG-TATAGCAACTCGAACAAATGCCTTCGGGTC-AGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCG-GATATAGCAACTCGCACAAATGCCTTCGGGTCTAACC
* *
2443613 CGGATATATCAACTCGCACAAATGCCTTCTGGTCTTAGCCCGGATATAATCACTA
65 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTA
* * * *
2443668 GCATAAATGCCTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGCCTTCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGG
2443724 ATCTTAGTTC
Statistics
Matches: 154, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
117 1 0.01
118 103 0.67
120 49 0.32
121 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTAACCC
GGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTA
Found at i:2443841 original size:56 final size:56
Alignment explanation
Indices: 2443774--2444005 Score: 437
Period size: 56 Copynumber: 4.1 Consensus size: 56
2443764 TATTAGTTTA
*
2443774 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTGATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
2443830 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
2443886 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
2443942 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
2443998 TTGCCCAT
1 TTGCCCAT
2444006 CATCCCTTGT
Statistics
Matches: 173, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 173 1.00
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:2449392 original size:76 final size:76
Alignment explanation
Indices: 2449266--2449418 Score: 263
Period size: 76 Copynumber: 2.0 Consensus size: 76
2449256 CTCGATCACG
2449266 ACTCGAATCTTATTTCTCTTGATCTAAAAAAACAAATTTAGCTTATTTAATACTCACATTTATTA
1 ACTCGAATCTTATTTCTCTTGATCTAAAAAAACAAATTTAGCTTATTTAATACTCACATTTATTA
2449331 AAACAGTCCTT
66 AAACAGTCCTT
* * *
2449342 ACTCGAATCTT-GTTCTTCTTGATCTATAATAACAAATTTAGCTTATTTAATACTCACATTTATT
1 ACTCGAATCTTATTTC-TCTTGATCTAAAAAAACAAATTTAGCTTATTTAATACTCACATTTATT
2449406 AAAACAGTCCTT
65 AAAACAGTCCTT
2449418 A
1 A
2449419 ACTCAAACTT
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
75 3 0.04
76 70 0.96
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (76 bp):
ACTCGAATCTTATTTCTCTTGATCTAAAAAAACAAATTTAGCTTATTTAATACTCACATTTATTA
AAACAGTCCTT
Found at i:2456049 original size:40 final size:40
Alignment explanation
Indices: 2455837--2456042 Score: 353
Period size: 40 Copynumber: 5.2 Consensus size: 40
2455827 AACCCAAGTA
* *
2455837 CCTTCGGGATTTA-CCCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
2455876 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
2455916 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
2455956 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
2455996 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
2456036 CCTTCGG
1 CCTTCGG
2456043 ATCTTAGTCC
Statistics
Matches: 159, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
39 12 0.08
40 146 0.92
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:2457774 original size:58 final size:56
Alignment explanation
Indices: 2457699--2457806 Score: 139
Period size: 58 Copynumber: 1.9 Consensus size: 56
2457689 ATGTTCCTAT
** *
2457699 ATAATAAGCATTAAATAT-GACTGTTAATTATTTTCTTATGGCTCGGTTTCGTACACAC
1 ATAATAAGCATTAAATATGGA-AATTAATTA-TTT-TTATGACTCGGTTTCGTACACAC
2457757 ATAATAAGCA-TAGAATATGGAAATTAATTATTTTTATGACTCGGTTTCGT
1 ATAATAAGCATTA-AATATGGAAATTAATTATTTTTATGACTCGGTTTCGT
2457807 GGTCCCGAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
56 16 0.36
57 5 0.11
58 22 0.49
59 2 0.04
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (56 bp):
ATAATAAGCATTAAATATGGAAATTAATTATTTTTATGACTCGGTTTCGTACACAC
Found at i:2464271 original size:40 final size:40
Alignment explanation
Indices: 2464059--2464264 Score: 353
Period size: 40 Copynumber: 5.2 Consensus size: 40
2464049 AACCCAAGTA
* *
2464059 CCTTCGGGATTTA-CCCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
2464098 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
2464138 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
2464178 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
2464218 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
2464258 CCTTCGG
1 CCTTCGG
2464265 ATCTTAGTCC
Statistics
Matches: 159, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
39 12 0.08
40 147 0.92
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:2465712 original size:13 final size:13
Alignment explanation
Indices: 2465696--2465720 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2465686 TATTATTTTT
2465696 AACACAAAATATC
1 AACACAAAATATC
2465709 AACACAAAATAT
1 AACACAAAATAT
2465721 TTATAATATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.20, G:0.00, T:0.16
Consensus pattern (13 bp):
AACACAAAATATC
Found at i:2476826 original size:12 final size:13
Alignment explanation
Indices: 2476802--2476830 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2476792 GGGCTATAAC
2476802 TATTGCATTTATT
1 TATTGCATTTATT
2476815 TATTGC-TTTATT
1 TATTGCATTTATT
2476827 TATT
1 TATT
2476831 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:2487556 original size:79 final size:81
Alignment explanation
Indices: 2487447--2487629 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
2487437 TACTCGTTCA
* *
2487447 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
2487510 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
2487527 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
2487590 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
2487606 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
2487630 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:2487629 original size:40 final size:40
Alignment explanation
Indices: 2487426--2487629 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
2487416 CGGAATTTAA
** *
2487426 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
2487466 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
2487506 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
2487545 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
2487585 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
2487625 CCGGA
1 CCGGA
2487630 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:2491537 original size:12 final size:12
Alignment explanation
Indices: 2491520--2491545 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2491510 ACATGAATTA
2491520 AATTAATTATAG
1 AATTAATTATAG
2491532 AATTAATTATAG
1 AATTAATTATAG
2491544 AA
1 AA
2491546 GGGCAATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (12 bp):
AATTAATTATAG
Found at i:2495412 original size:17 final size:17
Alignment explanation
Indices: 2495381--2495414 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2495371 CTTGGCCCAT
* *
2495381 TGCAGTAATAGTAAACA
1 TGCAGTAACAATAAACA
2495398 TGCAGTAACAATAAACA
1 TGCAGTAACAATAAACA
2495415 ATATGCAAGT
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:0.50, C:0.15, G:0.15, T:0.21
Consensus pattern (17 bp):
TGCAGTAACAATAAACA
Found at i:2495940 original size:18 final size:18
Alignment explanation
Indices: 2495903--2495940 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
2495893 AATGTAGGCT
*
2495903 CATGTGGGCCCACACACC
1 CATGTGGGCCCACAAACC
2495921 CATGT-GGCCCACAAAGCC
1 CATGTGGGCCCACAAA-CC
2495939 CA
1 CA
2495941 AAAATAGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.26, C:0.42, G:0.21, T:0.11
Consensus pattern (18 bp):
CATGTGGGCCCACAAACC
Found at i:2508048 original size:18 final size:19
Alignment explanation
Indices: 2508025--2508079 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 19
2508015 CTTGGCCCAT
2508025 TGCAGTAACAGTAAAT-AG
1 TGCAGTAACAGTAAATCAG
* *
2508043 TGCAGTAAAAAT-AATCAG
1 TGCAGTAACAGTAAATCAG
2508061 TGCAGTAACAGTAAA-CAG
1 TGCAGTAACAGTAAATCAG
2508079 T
1 T
2508080 ATGCAAATCC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 3 0.10
18 26 0.84
19 2 0.06
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (19 bp):
TGCAGTAACAGTAAATCAG
Found at i:2508442 original size:27 final size:27
Alignment explanation
Indices: 2508404--2508683 Score: 296
Period size: 27 Copynumber: 10.4 Consensus size: 27
2508394 ACACAAACAT
*
2508404 CACATAGGGGCAAAA-CAGTCATTTTAC
1 CACATAAGGGCAAAATC-GTCATTTTAC
* * *
2508431 CTCATAAGGGCAAAACCGTCATGTTAC
1 CACATAAGGGCAAAATCGTCATTTTAC
* * *
2508458 CTCATAAGGGAAAAATCGTCATTTTAT
1 CACATAAGGGCAAAATCGTCATTTTAC
* * *
2508485 CACATAAGGACAAAATAGTCATTTTGC
1 CACATAAGGGCAAAATCGTCATTTTAC
* *
2508512 CACATAAGGG-AAAAACTATCATTTTAC
1 CACATAAGGGCAAAATC-GTCATTTTAC
* * *
2508539 CTCATAAAGGCAAAATCGTCATTTTAT
1 CACATAAGGGCAAAATCGTCATTTTAC
* *
2508566 CACATAAGGGCAAAACCGTCATTTTGC
1 CACATAAGGGCAAAATCGTCATTTTAC
* *
2508593 CACATAAGGGAAAAATCGTCATTTTAA
1 CACATAAGGGCAAAATCGTCATTTTAC
* *
2508620 CTCATAAGGGCAAAATCGTCATTTTAT
1 CACATAAGGGCAAAATCGTCATTTTAC
* *
2508647 CACATAAGGG-AAAAGCAGTCATTTTAT
1 CACATAAGGGCAAAATC-GTCATTTTAC
*
2508674 CTCATAAGGG
1 CACATAAGGG
2508684 TTCAGGTACA
Statistics
Matches: 211, Mismatches: 38, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.04
27 196 0.93
28 6 0.03
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (27 bp):
CACATAAGGGCAAAATCGTCATTTTAC
Found at i:2508539 original size:81 final size:81
Alignment explanation
Indices: 2508402--2508671 Score: 391
Period size: 81 Copynumber: 3.3 Consensus size: 81
2508392 ATACACAAAC
* * * * * *
2508402 ATCACATAGGGGCAAAACAGTCATTTTACCTCATAAGGGCAAAACCGTCATGTTACCTCATAAGG
1 ATCACATAAGGGCAAAACAGTCATTTTGCCACATAAGGGAAAAACTGTCATTTTACCTCATAAGG
*
2508467 GAAAAATCGTCATTTT
66 GCAAAATCGTCATTTT
* * * *
2508483 ATCACATAAGGACAAAATAGTCATTTTGCCACATAAGGGAAAAACTATCATTTTACCTCATAAAG
1 ATCACATAAGGGCAAAACAGTCATTTTGCCACATAAGGGAAAAACTGTCATTTTACCTCATAAGG
2508548 GCAAAATCGTCATTTT
66 GCAAAATCGTCATTTT
* *
2508564 ATCACATAAGGGCAAAACCGTCATTTTGCCACATAAGGGAAAAA-TCGTCATTTTAACTCATAAG
1 ATCACATAAGGGCAAAACAGTCATTTTGCCACATAAGGGAAAAACT-GTCATTTTACCTCATAAG
2508628 GGCAAAATCGTCATTTT
65 GGCAAAATCGTCATTTT
2508645 ATCACATAAGGG-AAAAGCAGTCATTTT
1 ATCACATAAGGGCAAAA-CAGTCATTTT
2508672 ATCTCATAAG
Statistics
Matches: 169, Mismatches: 18, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
80 5 0.03
81 164 0.97
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (81 bp):
ATCACATAAGGGCAAAACAGTCATTTTGCCACATAAGGGAAAAACTGTCATTTTACCTCATAAGG
GCAAAATCGTCATTTT
Found at i:2511908 original size:39 final size:39
Alignment explanation
Indices: 2511854--2511965 Score: 197
Period size: 39 Copynumber: 2.9 Consensus size: 39
2511844 TGCATGATAT
2511854 TGGGAATATATCCGGACATGAGGTCCGCAGGCTATATGC
1 TGGGAATATATCCGGACATGAGGTCCGCAGGCTATATGC
*
2511893 TGGGAATATACCCGGACATGAGGTCCGCAGGCTATATGC
1 TGGGAATATATCCGGACATGAGGTCCGCAGGCTATATGC
* *
2511932 TGGAAATATATCCGGACATGAGGTCCACAGGCTA
1 TGGGAATATATCCGGACATGAGGTCCGCAGGCTA
2511966 CGTGCTGAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.21
Consensus pattern (39 bp):
TGGGAATATATCCGGACATGAGGTCCGCAGGCTATATGC
Found at i:2513807 original size:39 final size:41
Alignment explanation
Indices: 2513704--2513887 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 41
2513694 TTGAATGCTG
*
2513704 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
* *
2513743 TCCGGACTAAGAT-CCAAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
*
2513783 TCCGGGCTAAG-CCCGAAGGCATTTGTACG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
2513822 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* * *
2513862 ACTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
2513888 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
39 51 0.42
40 59 0.49
41 11 0.09
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:2513909 original size:79 final size:79
Alignment explanation
Indices: 2513759--2513910 Score: 186
Period size: 79 Copynumber: 1.9 Consensus size: 79
2513749 CTAAGATCCA
* * *
2513759 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAATC
1 AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATC
2513824 CGGGTTAAGTCCCG
66 CGGGTTAAGTCCCG
* *
2513838 AAGGCATTTGTGCGA-ATTACT-ATAACTGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTA
1 AAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTA
*
2513900 TATCC-GGTTAA
62 AATCCGGGTTAA
2513911 ATTCTGAAGG
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
78 3 0.05
79 34 0.54
80 26 0.41
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATC
CGGGTTAAGTCCCG
Found at i:2517541 original size:6 final size:6
Alignment explanation
Indices: 2517530--2517557 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
2517520 TTTTTTTAAA
2517530 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
2517558 TCTAATAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:2523092 original size:15 final size:14
Alignment explanation
Indices: 2523068--2523097 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
2523058 TCTAATTTTC
2523068 AAAAAAAACAAAAT
1 AAAAAAAACAAAAT
2523082 AAAACAAAACAAAAT
1 AAAA-AAAACAAAAT
2523097 A
1 A
2523098 CTCTAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (14 bp):
AAAAAAAACAAAAT
Found at i:2527413 original size:44 final size:40
Alignment explanation
Indices: 2527348--2527499 Score: 115
Period size: 43 Copynumber: 3.6 Consensus size: 40
2527338 ATGTGTGTTT
* * * *
2527348 GTGTAAGACCACGTTTGGGACGCTGGCATCGACTTATGATTTAG
1 GTGTAAGACCATGTCTAGGACG-TGGCATCGA-TT-TGATTT-C
* *
2527392 GTGTAAGACCATGTCTAGGACGTTGACATCGTATTTGGTTTC
1 GTGTAAGACCATGTCTAGGACG-TGGCATCG-ATTTGATTTC
* * *
2527434 GTGTAAGACCCTTTCTAGGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCATGTCTAGGAC-GTGGCATCG--ATTTGATTTC
* * *
2527477 ATGTAAGACCACGTCTGGGACGT
1 GTGTAAGACCATGTCTAGGACGT
2527500 CGGTATTATA
Statistics
Matches: 88, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
42 28 0.32
43 31 0.35
44 28 0.32
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (40 bp):
GTGTAAGACCATGTCTAGGACGTGGCATCGATTTGATTTC
Found at i:2527484 original size:43 final size:42
Alignment explanation
Indices: 2527393--2527499 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 42
2527383 ATGATTTAGG
* * *
2527393 TGTAAGACCATGTCTAGGACGTTGACATCGTATTTGGTTTCG
1 TGTAAGACCATGTCTAGGACGTTGACATCGTATTTGATTACA
* * *
2527435 TGTAAGACCCTTTCTAGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTAGGAC-GTTGACATCG-TATTTGATTACA
* *
2527478 TGTAAGACCACGTCTGGGACGT
1 TGTAAGACCATGTCTAGGACGT
2527500 CGGTATTATA
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
42 26 0.50
43 26 0.50
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACGTTGACATCGTATTTGATTACA
Found at i:2537114 original size:27 final size:27
Alignment explanation
Indices: 2537083--2537260 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
2537073 TAAATTGTAC
2537083 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
2537110 TGCACTATGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
2537136 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
2537164 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
2537192 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
2537219 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
2537246 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
2537261 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:2537197 original size:82 final size:81
Alignment explanation
Indices: 2537084--2537239 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
2537074 AAATTGTACA
* * *
2537084 GCACTAAGTGTGCGATTTGACTATGTTGCACTATGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
2537148 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
2537165 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
2537230 TGCGAGTTGA
65 TGCGAATTGA
2537240 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:2537251 original size:82 final size:81
Alignment explanation
Indices: 2537080--2537260 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
2537070 GATTAAATTG
* * *
2537080 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTATGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
2537145 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
2537161 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
2537225 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
2537243 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
2537261 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:2546953 original size:17 final size:17
Alignment explanation
Indices: 2546931--2546965 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
2546921 TAATTAGACC
2546931 ATTAAAGAAAAGTATGT
1 ATTAAAGAAAAGTATGT
2546948 ATTAAAGAAAAGTATGT
1 ATTAAAGAAAAGTATGT
2546965 A
1 A
2546966 GACTTTTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (17 bp):
ATTAAAGAAAAGTATGT
Found at i:2568219 original size:40 final size:39
Alignment explanation
Indices: 2568188--2568397 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
2568178 GGACTAAGAT
* *
2568188 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
2568228 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
2568268 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
2568308 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
2568348 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
2568387 CCGAAGGCATT
1 CCGAAGGCATT
2568398 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:2568351 original size:120 final size:120
Alignment explanation
Indices: 2568135--2568397 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
2568125 TTGAATGCTG
* *
2568135 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
2568199 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
2568255 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
2568318 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
2568374 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
2568398 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:2568417 original size:79 final size:80
Alignment explanation
Indices: 2568136--2568432 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
2568126 TGAATGCTGT
* ** * * * **
2568136 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
2568199 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
2568216 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
2568280 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
2568296 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
2568360 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
2568375 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
2568433 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:2573844 original size:37 final size:37
Alignment explanation
Indices: 2573794--2573866 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
2573784 TATGGAAGTG
2573794 GGAAAGAGTAACAATGGACTTTGTGAGTGGGTTACCT
1 GGAAAGAGTAACAATGGACTTTGTGAGTGGGTTACCT
2573831 GGAAAGAGTAACAATGGACTTTGTGAGTGGGTTACC
1 GGAAAGAGTAACAATGGACTTTGTGAGTGGGTTACC
2573867 GTTGACACCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.11, G:0.33, T:0.26
Consensus pattern (37 bp):
GGAAAGAGTAACAATGGACTTTGTGAGTGGGTTACCT
Found at i:2575842 original size:24 final size:24
Alignment explanation
Indices: 2575810--2575960 Score: 176
Period size: 24 Copynumber: 6.0 Consensus size: 24
2575800 GGCATTGTGT
* *
2575810 TAAGTGAAATAAGACCATGACATC
1 TAAGTGAAATAAGTCCATGGCATC
2575834 TAAGTGAAATAAGTCCATGGCAATGTGC
1 TAAGTGAAATAAGTCCATGGC-A--T-C
*
2575862 TAAGTGAAATAAGACCATGGCATC
1 TAAGTGAAATAAGTCCATGGCATC
2575886 TAAGTGAAATAAGTCCATGGCAATGTGC
1 TAAGTGAAATAAGTCCATGGC-A--T-C
* *
2575914 TCAGTGAAATAAGTCCATGGCACC
1 TAAGTGAAATAAGTCCATGGCATC
*
2575938 TAAGTGAAACAAGTCCATGGCAT
1 TAAGTGAAATAAGTCCATGGCAT
2575961 GGTGCTAAGT
Statistics
Matches: 110, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
24 61 0.55
25 3 0.03
27 4 0.04
28 42 0.38
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (24 bp):
TAAGTGAAATAAGTCCATGGCATC
Found at i:2575867 original size:52 final size:52
Alignment explanation
Indices: 2575798--2575972 Score: 271
Period size: 52 Copynumber: 3.4 Consensus size: 52
2575788 TATCCAGGAT
* * *
2575798 ATGGCATTGTGTTAAGTGAAATAAGACCATGACATCTAAGTGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
2575850 ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
* * * *
2575902 ATGGCAATGTGCTCAGTGAAATAAGTCCATGGCACCTAAGTGAAACAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
2575954 ATGGC-ATGGTGCTAAGTGA
1 ATGGCAAT-GTGCTAAGTGA
2575973 GAAATTTCCC
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
51 2 0.02
52 112 0.98
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (52 bp):
ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
Found at i:2576056 original size:51 final size:50
Alignment explanation
Indices: 2575996--2576144 Score: 219
Period size: 51 Copynumber: 2.9 Consensus size: 50
2575986 TGAACCTTAG
2575996 GAATAAAATAGCTTTGGCCTCAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGG-CTCAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
2576047 GAATAAAATAGCTTTGGACACAAGTGTGGGACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGG-CTCAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
2576098 GAAGAAAATAGCTTTGGCTACAAGGGTGGTACTATGT-AAGGACCACT
1 GAATAAAATAGCTTTGGCT-CAAGTGTGGTACTATGTGAAGG-CCACT
2576145 GTAACATCCT
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
50 5 0.06
51 84 0.94
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.28
Consensus pattern (50 bp):
GAATAAAATAGCTTTGGCTCAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:2586704 original size:65 final size:66
Alignment explanation
Indices: 2586600--2586737 Score: 242
Period size: 65 Copynumber: 2.1 Consensus size: 66
2586590 GTTTCCAGAT
*
2586600 TTTTTTTACGGATCTTTCACGTTCTTTTCGTCCGCGCCTAGACTGTAGGCAAATTTTTTTTTTT-
1 TTTTTTTACGGATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGGCAAATTTTTTTTTTTG
2586664 A
66 A
* *
2586665 TTTTTTTACGGATCTTTCATGTTCTTTTCGTCCGTGCCTAGACCGTAGGCAAATTTTTTTTTTTG
1 TTTTTTTACGGATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGGCAAATTTTTTTTTTTG
2586730 A
66 A
2586731 TTTTTTT
1 TTTTTTT
2586738 TACAAAACCA
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
65 61 0.88
66 8 0.12
ACGTcount: A:0.14, C:0.18, G:0.15, T:0.52
Consensus pattern (66 bp):
TTTTTTTACGGATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGGCAAATTTTTTTTTTTG
A
Found at i:2587408 original size:45 final size:45
Alignment explanation
Indices: 2587359--2587546 Score: 313
Period size: 45 Copynumber: 4.2 Consensus size: 45
2587349 TCGGCCATGG
* * * *
2587359 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
* *
2587404 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
2587449 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
*
2587494 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
2587539 TGCTTCCT
1 TGCTTCCT
2587547 TAATTTCAGG
Statistics
Matches: 134, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 134 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
Found at i:2587910 original size:20 final size:20
Alignment explanation
Indices: 2587885--2587939 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
2587875 ACGAGTTAAA
* *
2587885 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
2587905 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
2587925 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
2587940 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:2590141 original size:5 final size:6
Alignment explanation
Indices: 2590112--2590177 Score: 53
Period size: 6 Copynumber: 10.5 Consensus size: 6
2590102 GACCTCACTC
** *
2590112 TCTTTT T-TTATT TCTTTT TCTTTT TCTTTT TCAATC TCTTTT TCATTTCTT
1 TCTTTT TCTT-TT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TC--TT-TT
*
2590163 TCATTT TCTTTT TCT
1 TCTTTT TCTTTT TCT
2590178 CGCTTGCACT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
5 2 0.04
6 36 0.77
7 3 0.06
8 2 0.04
9 4 0.09
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (6 bp):
TCTTTT
Found at i:2591329 original size:66 final size:66
Alignment explanation
Indices: 2591190--2591328 Score: 244
Period size: 66 Copynumber: 2.1 Consensus size: 66
2591180 TTCCAGACTC
* * *
2591190 TTTTTTTTACGGATCTTTCATGTTCTTTTCGTCTGCGCCTAGACCGTAGGCAAATTTTTTTTTTG
1 TTTTTTTTACGAATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGGCAAATTTTTTTTTTG
2591255 A
66 A
2591256 TTTTTTTTACGAATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGGC-AATTTTTTTTTTG
1 TTTTTTTTACGAATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGGCAAATTTTTTTTTTG
2591320 A
66 A
2591321 TTTTTTTT
1 TTTTTTTT
2591329 TTACAAAACC
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
65 22 0.31
66 48 0.69
ACGTcount: A:0.14, C:0.19, G:0.15, T:0.52
Consensus pattern (66 bp):
TTTTTTTTACGAATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGGCAAATTTTTTTTTTG
A
Found at i:2592263 original size:45 final size:45
Alignment explanation
Indices: 2591951--2592260 Score: 557
Period size: 45 Copynumber: 6.9 Consensus size: 45
2591941 TCGGCCATGG
* * * *
2591951 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
*
2591996 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
2592041 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
*
2592086 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
2592131 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
*
2592176 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
2592221 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGG
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGG
2592261 TCACCTCTTC
Statistics
Matches: 256, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 256 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.38
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
Found at i:2592394 original size:16 final size:16
Alignment explanation
Indices: 2592373--2592404 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2592363 CATTCTGCAT
2592373 TTAAACAACAGCAGCA
1 TTAAACAACAGCAGCA
2592389 TTAAACAACAGCAGCA
1 TTAAACAACAGCAGCA
2592405 AAACACATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.12, T:0.12
Consensus pattern (16 bp):
TTAAACAACAGCAGCA
Found at i:2603796 original size:6 final size:6
Alignment explanation
Indices: 2602969--2603777 Score: 1584
Period size: 6 Copynumber: 134.7 Consensus size: 6
2602959 AGTCAAAATG
*
2602969 AGAATC AGAATC AGAATC AGTATC AGGTAA-C AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
2603018 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
2603066 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
2603114 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
2603162 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
2603210 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
2603258 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
2603306 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
2603354 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
2603402 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
2603450 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
2603498 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
2603546 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
2603594 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
2603642 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
2603690 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
2603738 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAA
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAA
2603778 ATAGGTAACA
Statistics
Matches: 798, Mismatches: 2, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
5 2 0.00
6 792 0.99
7 3 0.00
8 1 0.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
AGAATC
Found at i:2604002 original size:27 final size:26
Alignment explanation
Indices: 2603946--2604026 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 26
2603936 AGCATGGCTG
* * *
2603946 CCAGAACAGATATTGTGACAGAGTCG
1 CCAGAACAGATATTGTGGCAGAGCCA
*
2603972 CCAGATACAGATATTGTGGCTGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
2603999 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGGCAGAGCCA
2604026 C
1 C
2604027 TTAACAAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
26 6 0.13
27 40 0.87
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:2604170 original size:78 final size:78
Alignment explanation
Indices: 2604048--2604202 Score: 256
Period size: 78 Copynumber: 2.0 Consensus size: 78
2604038 CGTGGCACAA
*
2604048 AGCCATCGATAACGGGTCTATAATCGGCACGAAGCCCACAATAACGGCACACAGCCTTCAGTAAC
1 AGCCATCGATAACGGGTCTATAATCGACACGAAGCCCACAATAACGGCACACAGCCTTCAGTAAC
*
2604113 ATGATCGGCACTT
66 ATGACCGGCACTT
* * * *
2604126 AGCCATTGATAACGGGTCTATAATCGACATGAAGCCCACAATAACGGCGCACAGCCTTCTGTAAC
1 AGCCATCGATAACGGGTCTATAATCGACACGAAGCCCACAATAACGGCACACAGCCTTCAGTAAC
2604191 ATGACCGGCACT
66 ATGACCGGCACT
2604203 CAAGCATCGA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.19
Consensus pattern (78 bp):
AGCCATCGATAACGGGTCTATAATCGACACGAAGCCCACAATAACGGCACACAGCCTTCAGTAAC
ATGACCGGCACTT
Found at i:2604315 original size:28 final size:28
Alignment explanation
Indices: 2604247--2604328 Score: 105
Period size: 28 Copynumber: 3.0 Consensus size: 28
2604237 GTCACCATAT
* *
2604247 ACAGATA-TTGTGGCAGAACCACCAG-A
1 ACAGATATTTGTGGCATAGCCACCAGAA
* * *
2604273 GCAAATATTTGTGGCATAGCCACTAGAA
1 ACAGATATTTGTGGCATAGCCACCAGAA
2604301 ACAGATATTTGTGGCATAGCCACCAGAA
1 ACAGATATTTGTGGCATAGCCACCAGAA
2604329 CGCTTCCTCC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 5 0.11
27 15 0.33
28 26 0.57
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (28 bp):
ACAGATATTTGTGGCATAGCCACCAGAA
Found at i:2604582 original size:27 final size:27
Alignment explanation
Indices: 2604552--2605154 Score: 758
Period size: 27 Copynumber: 22.3 Consensus size: 27
2604542 GGGGTAAAAT
* * * *
2604552 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
2604579 GGTAATTCTACCCTACAGGGGTACTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
2604606 AGTAATTCTACCCTACAGGGGTATTTTG
1 GGTAATTCTACCCTACAGGGGTA-TTTC
* * *
2604634 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
2604661 GGTAATTCTACCCTACA-GGATATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
** * * *
2604687 ACTAATTTTACCTTGTACAAGGGTATTTC
1 GGTAATTCTACC--CTACAGGGGTATTTC
* *
2604716 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
2604743 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
2604770 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
2604797 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
2604824 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
2604851 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
2604878 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
2604905 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
2604932 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
2604959 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
2604986 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
2605013 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
2605040 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
2605067 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
2605094 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* ** *
2605121 GGTATTTCTACCCTACAAAGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
2605148 GGTAATT
1 GGTAATT
2605155 TTGCAAATCG
Statistics
Matches: 504, Mismatches: 68, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
26 17 0.03
27 446 0.88
28 26 0.05
29 15 0.03
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:2605168 original size:27 final size:27
Alignment explanation
Indices: 2605138--2605398 Score: 163
Period size: 27 Copynumber: 9.7 Consensus size: 27
2605128 CTACCCTACA
*
2605138 AAGGTATTTTGGTAATTTTGCAAATCG
1 AAGGTATTTTGGTAATTTTACAAATCG
**** * * * *
2605165 AAGGTAAAACGATAATTCTATAAATTG
1 AAGGTATTTTGGTAATTTTACAAATCG
** * *
2605192 GGGGTACTTTGGTAATTTTACAAGTCG
1 AAGGTATTTTGGTAATTTTACAAATCG
* * **
2605219 AAGGTATTTTAGTAATTTTATAGGTCG
1 AAGGTATTTTGGTAATTTTACAAATCG
* * * * *
2605246 AGGGTGTTTTAGTAGTTTCACAAATC-
1 AAGGTATTTTGGTAATTTTACAAATCG
* *
2605272 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-AGGTATTTTGGTAATTTTACAAATCG
* *
2605299 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-AGGTATTTTGGTAATTTTACAAATCG
** *
2605326 AAGGGTATTTTGGTAATTTTGTAAA-CC
1 AA-GGTATTTTGGTAATTTTACAAATCG
*
2605353 AAGGGTATTTTGGTAATTTTACAAA-CC
1 AA-GGTATTTTGGTAATTTTACAAATCG
*
2605380 AGGGGTATTTTGGTAATTT
1 A-AGGTATTTTGGTAATTT
2605399 GGTAAACTAC
Statistics
Matches: 186, Mismatches: 44, Indels: 8
0.78 0.18 0.03
Matches are distributed among these distances:
26 2 0.01
27 184 0.99
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (27 bp):
AAGGTATTTTGGTAATTTTACAAATCG
Found at i:2605185 original size:81 final size:81
Alignment explanation
Indices: 2604556--2605146 Score: 976
Period size: 81 Copynumber: 7.3 Consensus size: 81
2604546 TAAAATGGTA
* * * * *
2604556 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTACTTC-AGTAATTCTACCC
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGA-TAATTCTATCC
*
2604619 TACAGGGGTATTTTGGGT
65 TACAGGGGTA-TTTCGGT
* * * * *
2604637 ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACA-GGATATTT-TACTAATTTTA-CC
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGA-TAATTCTATCC
*
2604699 TTGTACAAGGGTATTTCGGT
65 ---TACAGGGGTATTTCGGT
2604719 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTATCCT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTATCCT
2604784 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
2604800 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTATCCT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTATCCT
2604865 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
2604881 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTATCCT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTATCCT
2604946 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
2604962 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTATCCT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTATCCT
2605027 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
2605043 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTATCCT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTATCCT
2605108 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
*
2605124 ATTTCTACCCTACAAAGGTATTT
1 ATTTCTACCCTACAAGGGTATTT
2605147 TGGTAATTTT
Statistics
Matches: 486, Mismatches: 16, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
80 2 0.00
81 380 0.78
82 78 0.16
83 23 0.05
84 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTATCCT
ACAGGGGTATTTCGGT
Found at i:2605404 original size:54 final size:54
Alignment explanation
Indices: 2605193--2605405 Score: 212
Period size: 54 Copynumber: 3.9 Consensus size: 54
2605183 TATAAATTGG
* ** * * * *** *
2605193 GGGTACTTTGGTAATTTTACAAGTC-GAAGGTATTTTAGTAATTTTATAGGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTGGTAATTTTGTAAACCAA
* * * * * ** * *
2605247 GGGTGTTTTAGTAGTTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
* *
2605301 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
*
2605355 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAAC
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAC
2605406 TACAATATTC
Statistics
Matches: 129, Mismatches: 29, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
54 128 0.99
55 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
Found at i:2605405 original size:27 final size:27
Alignment explanation
Indices: 2605247--2605398 Score: 205
Period size: 27 Copynumber: 5.6 Consensus size: 27
2605237 TATAGGTCGA
* * * * *
2605247 GGGTGTTTTAGTAGTTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
2605274 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
2605301 GGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
2605328 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
2605355 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
2605382 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
2605399 GGTAAACTAC
Statistics
Matches: 112, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 112 1.00
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:2607444 original size:6 final size:6
Alignment explanation
Indices: 2607414--2607519 Score: 65
Period size: 6 Copynumber: 17.3 Consensus size: 6
2607404 ATTACAGACT
* * * *
2607414 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATTAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
** * * *
2607462 ATCAGA ATTTGGTA A-CAGA ATCAGA ATCAGT ATCAGGTA A-CAGA AACAAA
1 ATCAGA A-TCAG-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
2607512 ATCAGA AT
1 ATCAGA AT
2607520 GTGAATGCAA
Statistics
Matches: 76, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
5 5 0.07
6 62 0.82
7 6 0.08
8 3 0.04
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:2607487 original size:25 final size:25
Alignment explanation
Indices: 2607453--2607519 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
2607443 AATCAGAATT
**
2607453 AGAATCAGAATCAGAATTTGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
2607478 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
2607503 AGAAACAAAATCAGAAT
1 AGAATCAGAATCAGAAT
2607520 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:2607677 original size:27 final size:26
Alignment explanation
Indices: 2607637--2607702 Score: 96
Period size: 27 Copynumber: 2.5 Consensus size: 26
2607627 AGCATGGCTG
*
2607637 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
2607663 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
2607690 CCAGAATCAGATA
1 CCAGAA-CAGATA
2607703 ATATGGCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 6 0.17
27 30 0.83
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:2607709 original size:27 final size:27
Alignment explanation
Indices: 2607637--2607717 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
2607627 AGCATGGCTG
* *
2607637 CCAGAA-CAGATATTGTGACAGAGTCA
1 CCAGAATCAGATATTGTGGCAGAGCCA
2607663 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATATTGTGGCAGAGCCA
* * *
2607690 CCAGAATCAGATAATATGGCAAAGCCA
1 CCAGAATCAGATATTGTGGCAGAGCCA
2607717 C
1 C
2607718 TTAACAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
25 1 0.02
26 4 0.09
27 40 0.85
28 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGAATCAGATATTGTGGCAGAGCCA
Found at i:2607832 original size:78 final size:78
Alignment explanation
Indices: 2607739--2607904 Score: 244
Period size: 78 Copynumber: 2.1 Consensus size: 78
2607729 CGTGGCACAA
* ** *
2607739 AGCCATCGATAACGGGTCTATAATC-AGCACGAAGCCCACAATAATGGCACACAGCCTTCGGTAA
1 AGCCATCGATAACGGGTCTATAATCGA-CACAAAGCCCACAATAACAGCACACAACCTTCGGTAA
*
2607803 CATGATCGACACTC
65 CATGACCGACACTC
* *
2607817 AGCTATCGATAACGGGTCTATAATCGACACAAAGCCCATAATAACAGCACACAACCTTCGGTAAC
1 AGCCATCGATAACGGGTCTATAATCGACACAAAGCCCACAATAACAGCACACAACCTTCGGTAAC
*
2607882 ATGACCGGCACTC
66 ATGACCGACACTC
2607895 AGCCATCGAT
1 AGCCATCGAT
2607905 CGGTCAACAG
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 77 0.99
79 1 0.01
ACGTcount: A:0.34, C:0.30, G:0.18, T:0.18
Consensus pattern (78 bp):
AGCCATCGATAACGGGTCTATAATCGACACAAAGCCCACAATAACAGCACACAACCTTCGGTAAC
ATGACCGACACTC
Found at i:2607960 original size:27 final size:27
Alignment explanation
Indices: 2607910--2608020 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
2607900 TCGATCGGTC
* *
2607910 AACAGATA-TTGTGACAGAGTCACCAG
1 AACAGATATTTGTGGCAGAGCCACCAG
* *
2607936 ATACAGATA-TTGTGGTAGAACCACCAG
1 A-ACAGATATTTGTGGCAGAGCCACCAG
** *
2607963 AGGAGATATTTGTGGCATAGCCACCAG
1 AACAGATATTTGTGGCAGAGCCACCAG
2607990 AAACAGATATTTGTGGC-GTAGCCACCAG
1 -AACAGATATTTGTGGCAG-AGCCACCAG
2608018 AAC
1 AAC
2608021 GCTTCCTCCA
Statistics
Matches: 69, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
26 6 0.09
27 40 0.58
28 23 0.33
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (27 bp):
AACAGATATTTGTGGCAGAGCCACCAG
Found at i:2608274 original size:27 final size:27
Alignment explanation
Indices: 2608244--2608575 Score: 407
Period size: 27 Copynumber: 12.3 Consensus size: 27
2608234 GGGGTAAAAT
* * * *
2608244 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
2608271 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
2608298 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
2608325 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
2608352 GGTAATTCTACCCTACATGGGGTATTTT
1 GGTAATTCTACCCTACA-AGGGTATTTC
*
2608380 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
2608407 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
2608434 AGTATTTCTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
2608461 AGTAATTCTACCCTAC-AGGGTTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
** *
2608488 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
2608515 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
2608542 GGT-ATTCCTACCCTACAAGGGTATTTT
1 GGTAATT-CTACCCTACAAGGGTATTTC
2608569 GGTAATT
1 GGTAATT
2608576 TTGCAAATCG
Statistics
Matches: 267, Mismatches: 33, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
26 6 0.02
27 230 0.86
28 31 0.12
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:2608589 original size:27 final size:27
Alignment explanation
Indices: 2608559--2608783 Score: 188
Period size: 27 Copynumber: 8.4 Consensus size: 27
2608549 CTACCCTACA
*
2608559 AGGGTATTTTGGTAATTTTGCAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
**** * * **
2608586 AGGGTAAAACGATAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
2608613 AGGGTACTTTGGTAA-TTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
2608639 AGGGTATTTTAGTAATTTTACAAAT-T
1 AGGGTATTTTGGTAATTTTACAAATCG
*
2608665 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTTGGTAATTTTACAAATCG
* *
2608692 AGGGATATTTTGGTAATTTTACAAACCA
1 AGGG-TATTTTGGTAATTTTACAAATCG
* ** * *
2608720 AAGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
2608747 AGGGTATTCTGGTAATTTTACAAA-CC
1 AGGGTATTTTGGTAATTTTACAAATCG
2608773 AGGGGTATTTT
1 A-GGGTATTTT
2608784 TTATAATTTG
Statistics
Matches: 161, Mismatches: 31, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
26 26 0.16
27 131 0.81
28 4 0.02
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAATCG
Found at i:2608808 original size:54 final size:54
Alignment explanation
Indices: 2608697--2608810 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 54
2608687 AAACTAGGGA
* * * *
2608697 TATTTTGGTAATTTTACAAACCAAAGGTATTTTGGTAATTTTGTAAACCAAGGG
1 TATTCTGGTAATTTTACAAACCAAAGGTATTTTGATAATTTGGTAAACCAAGAG
** * *
2608751 TATTCTGGTAATTTTACAAACCAGGGGTATTTTTTATAATTTGGTAAACTAA-AG
1 TATTCTGGTAATTTTACAAACCAAAGGTA-TTTTGATAATTTGGTAAACCAAGAG
2608805 TATTCT
1 TATTCT
2608811 AAACAGGGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (54 bp):
TATTCTGGTAATTTTACAAACCAAAGGTATTTTGATAATTTGGTAAACCAAGAG
Found at i:2613099 original size:43 final size:42
Alignment explanation
Indices: 2613029--2613126 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 42
2613019 CATATACCAA
* * * *
2613029 ATATGGTCTTACATGTAATCTCGTATCGGTGCCAATAGCCTAG
1 ATATGGTCTTACATGTAATATCATATCGATGCC-ATAGCCCAG
* *
2613072 CTATGGTCTTACATG-AAGTATCATATCGATGCCATATCCCAG
1 ATATGGTCTTACATGTAA-TATCATATCGATGCCATAGCCCAG
2613114 ATATGGTCTTACA
1 ATATGGTCTTACA
2613127 CGTATTATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
42 21 0.45
43 26 0.55
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (42 bp):
ATATGGTCTTACATGTAATATCATATCGATGCCATAGCCCAG
Found at i:2613426 original size:16 final size:16
Alignment explanation
Indices: 2613405--2613444 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
2613395 CACAATTTAC
2613405 ATATTTTGGCAAAATT
1 ATATTTTGGCAAAATT
2613421 ATATTTTGGCAAAATT
1 ATATTTTGGCAAAATT
*
2613437 ACATTTTG
1 ATATTTTG
2613445 CCCCTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.45
Consensus pattern (16 bp):
ATATTTTGGCAAAATT
Found at i:2614573 original size:13 final size:13
Alignment explanation
Indices: 2614555--2614602 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
2614545 TTCTTCCTTC
2614555 TCTTCTCTTCTCT
1 TCTTCTCTTCTCT
* *
2614568 TCTTCTATTTTCT
1 TCTTCTCTTCTCT
* *
2614581 TTTTCTCCTTCTTT
1 TCTTCT-CTTCTCT
2614595 TCTTCTCT
1 TCTTCTCT
2614603 GGCCAAAACA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
13 18 0.67
14 9 0.33
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (13 bp):
TCTTCTCTTCTCT
Found at i:2615709 original size:26 final size:26
Alignment explanation
Indices: 2615657--2615718 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 26
2615647 ATTTATTAAA
2615657 ATACCCCTAAGTATGAAAATTAACATT
1 ATACCCCTAAG-ATGAAAATTAACATT
*
2615684 ATACCCCTAAG-TGCAAAATTAGCATT
1 ATACCCCTAAGATG-AAAATTAACATT
2615710 ATACCCCTA
1 ATACCCCTA
2615719 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 2 0.06
26 20 0.61
27 11 0.33
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.27
Consensus pattern (26 bp):
ATACCCCTAAGATGAAAATTAACATT
Found at i:2615862 original size:28 final size:27
Alignment explanation
Indices: 2615822--2615899 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 27
2615812 GGAGGACGCG
2615822 TTCTGGTGGCTCTGCCACAAATATCTAT
1 TTCTGGTGGCTCTGCCAC-AATATCTAT
2615850 TTCTGGTGGCTCTGCCACAATATCTAT
1 TTCTGGTGGCTCTGCCACAATATCTAT
* *
2615877 ATCTGGTGACTCT--CACAATATCT
1 TTCTGGTGGCTCTGCCACAATATCT
2615900 GTTCTGGCAG
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
25 10 0.21
27 20 0.42
28 18 0.38
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.36
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACAATATCTAT
Found at i:2616499 original size:18 final size:20
Alignment explanation
Indices: 2616473--2616516 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
2616463 AAGACAAAGC
*
2616473 TTCAGAAATGAA-AA-TGTT
1 TTCAAAAATGAACAAGTGTT
*
2616491 TTCAAAAATTAACAAGTGTT
1 TTCAAAAATGAACAAGTGTT
2616511 TTCAAA
1 TTCAAA
2616517 GGCTTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 2 0.09
20 10 0.45
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (20 bp):
TTCAAAAATGAACAAGTGTT
Found at i:2622935 original size:40 final size:40
Alignment explanation
Indices: 2622880--2623067 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
2622870 GAGCATTGGA
2622880 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
2622920 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
2622960 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
2623000 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
2623040 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
2623068 AGGTGTTTGC
Statistics
Matches: 137, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 137 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:2623520 original size:42 final size:42
Alignment explanation
Indices: 2623473--2623557 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
2623463 GATTCGGGAT
2623473 CAGCGAAGTCGAAGTCATCTACACTATCAAGCTCTTTTGGTA
1 CAGCGAAGTCGAAGTCATCTACACTATCAAGCTCTTTTGGTA
2623515 CAGCGAAGTCGAAGTCATCTACACTATCAAGCTCTTTTGGTA
1 CAGCGAAGTCGAAGTCATCTACACTATCAAGCTCTTTTGGTA
2623557 C
1 C
2623558 TCTTTTAGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (42 bp):
CAGCGAAGTCGAAGTCATCTACACTATCAAGCTCTTTTGGTA
Found at i:2632031 original size:40 final size:40
Alignment explanation
Indices: 2631976--2632158 Score: 285
Period size: 40 Copynumber: 4.6 Consensus size: 40
2631966 TGATGGAGTG
*
2631976 TCCGGGCTATGACCCGAAGGCAATTATGCGAGATGATATA
1 TCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATA
* * *
2632016 TCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATG
1 TCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATA
*
2632056 TCCGGGCTATGACCCGAAGGCAATTATGCGAGATGATATA
1 TCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATA
* * *
2632096 TCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTGATATG
1 TCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATA
*
2632136 TCCGGGTTAAGACCCGAAGGCAA
1 TCCGGGCTAAGACCCGAAGGCAA
2632159 AGGTGTTTGC
Statistics
Matches: 130, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 130 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATA
Found at i:2632107 original size:80 final size:80
Alignment explanation
Indices: 2631974--2632158 Score: 334
Period size: 80 Copynumber: 2.3 Consensus size: 80
2631964 GTTGATGGAG
2631974 TGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAA
1 TGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAA
*
2632039 TTATGCGAGTTAATA
66 TTATGCAAGTTAATA
2632054 TGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAA
1 TGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAA
*
2632119 TTATGCAAGTTGATA
66 TTATGCAAGTTAATA
* *
2632134 TGTCCGGGTTAAGACCCGAAGGCAA
1 TGTCCGGGCTATGACCCGAAGGCAA
2632159 AGGTGTTTGC
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 101 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (80 bp):
TGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTTAATA
Found at i:2634664 original size:18 final size:18
Alignment explanation
Indices: 2634643--2634682 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2634633 AAAGTTTTCA
* *
2634643 ATTTAAATTTAGTTTTTT
1 ATTTAAATTTACTTTTTG
*
2634661 ATTTAATTTTACTTTTTG
1 ATTTAAATTTACTTTTTG
2634679 ATTT
1 ATTT
2634683 TATAAAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (18 bp):
ATTTAAATTTACTTTTTG
Found at i:2635066 original size:16 final size:16
Alignment explanation
Indices: 2635045--2635079 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2635035 CTATCTTAAC
*
2635045 AACATGATGCCTAAAA
1 AACATGATGACTAAAA
*
2635061 AACATGATGATTAAAA
1 AACATGATGACTAAAA
2635077 AAC
1 AAC
2635080 CTATTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.20
Consensus pattern (16 bp):
AACATGATGACTAAAA
Found at i:2635390 original size:21 final size:21
Alignment explanation
Indices: 2635347--2635386 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2635337 GGAGAAAGCA
*
2635347 AGAAAACAATAAATGATAAAG
1 AGAAAACAATAAATAATAAAG
*
2635368 AGAAAATAATAAA-AATAAA
1 AGAAAACAATAAATAATAAA
2635387 AGAGGTATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.72, C:0.03, G:0.10, T:0.15
Consensus pattern (21 bp):
AGAAAACAATAAATAATAAAG
Found at i:2637195 original size:50 final size:50
Alignment explanation
Indices: 2637141--2637272 Score: 174
Period size: 50 Copynumber: 2.6 Consensus size: 50
2637131 AGATTTTATA
* *
2637141 TAAGACCATATTTGGGACATGACATTGACATTGATATATGTGATCCCATG
1 TAAGACCATATTTGGGACATGACATTGACATCGATATATGTGAACCCATG
* * * * *
2637191 TAAGACCATGTCTGGGACATGACATTGGCATCGATATGTGTGAACCTATG
1 TAAGACCATATTTGGGACATGACATTGACATCGATATATGTGAACCCATG
* * *
2637241 TAAGACCGTATTTGGGATATGGCATTGACATC
1 TAAGACCATATTTGGGACATGACATTGACATC
2637273 TTACTATGTG
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (50 bp):
TAAGACCATATTTGGGACATGACATTGACATCGATATATGTGAACCCATG
Found at i:2639248 original size:50 final size:50
Alignment explanation
Indices: 2639194--2639325 Score: 174
Period size: 50 Copynumber: 2.6 Consensus size: 50
2639184 AGATTTTATA
* *
2639194 TAAGACCATATTTGGGACATGACATTGACATTGATATATGTGATCCCATG
1 TAAGACCATATTTGGGACATGACATTGACATCGATATATGTGAACCCATG
* * * * *
2639244 TAAGACCATGTCTGGGACATGACATTGGCATCGATATGTGTGAACCTATG
1 TAAGACCATATTTGGGACATGACATTGACATCGATATATGTGAACCCATG
* * *
2639294 TAAGACCGTATTTGGGATATGGCATTGACATC
1 TAAGACCATATTTGGGACATGACATTGACATC
2639326 TTACTATGTG
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (50 bp):
TAAGACCATATTTGGGACATGACATTGACATCGATATATGTGAACCCATG
Found at i:2641260 original size:187 final size:188
Alignment explanation
Indices: 2640944--2641314 Score: 708
Period size: 187 Copynumber: 2.0 Consensus size: 188
2640934 GTCACAAGGG
2640944 GAATGTTACTAAAGAAGTTATGTTTTATCCAAAAATCTTTCTTAGGGTTTGAAGAATATTTTGTT
1 GAATGTTACTAAAGAAGTTATGTTTTATCCAAAAATCTTTCTTAGGGTTTGAAGAATATTTTGTT
*
2641009 TTAAGTTAAAGTGAACGGAAGCTGTGCACCAGGTAGGAAGCTAGAAAAGAGAAGGTGAGTCTGTT
66 TTAAGTTAAAGTGAACGGAAGCTGTGCACCAGGTAGGAAGCCAGAAAAGAGAAGGTGAGTCTGTT
2641074 GGACTGCTTAAGTACCAAGCTCTTCACGGATCCAATCCTAGACATGCACACATCTTGT
131 GGACTGCTTAAGTACCAAGCTCTTCACGGATCCAATCCTAGACATGCACACATCTTGT
2641132 GAATGTTACTAAAGAAGTTATGTTTTATCCAAAAATCTTTCTTAGGGTTTGAAGAATATTTT-TT
1 GAATGTTACTAAAGAAGTTATGTTTTATCCAAAAATCTTTCTTAGGGTTTGAAGAATATTTTGTT
* *
2641196 TTAAGTTAAAGTGAACGGAAGCTGTGCACTAGGTAGGAAGCCAGAAAAGAGGAGGTGAGTCTGTT
66 TTAAGTTAAAGTGAACGGAAGCTGTGCACCAGGTAGGAAGCCAGAAAAGAGAAGGTGAGTCTGTT
2641261 GGACTGCTTAAGTACCAAGCTCTTCACGGATCCAATCCTAGACATGCACACATC
131 GGACTGCTTAAGTACCAAGCTCTTCACGGATCCAATCCTAGACATGCACACATC
2641315 CATTGCCACA
Statistics
Matches: 180, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
187 118 0.66
188 62 0.34
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (188 bp):
GAATGTTACTAAAGAAGTTATGTTTTATCCAAAAATCTTTCTTAGGGTTTGAAGAATATTTTGTT
TTAAGTTAAAGTGAACGGAAGCTGTGCACCAGGTAGGAAGCCAGAAAAGAGAAGGTGAGTCTGTT
GGACTGCTTAAGTACCAAGCTCTTCACGGATCCAATCCTAGACATGCACACATCTTGT
Found at i:2642201 original size:27 final size:26
Alignment explanation
Indices: 2642145--2642201 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
2642135 CAACCTTAAC
* *
2642145 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTTTACA
* *
2642171 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTACA
2642198 CCTA
1 CCTA
2642202 TAAAGGTGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTACA
Done.