Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 207 of 255
Found at i:69229422 original size:131 final size:130
Alignment explanation
Indices: 69229084--69229427 Score: 309
Period size: 131 Copynumber: 2.6 Consensus size: 130
69229074 TTAAGGTTGG
** * *
69229084 CTGATTTAATATCACAACCTAAGTTCATTTCATTTAAGATAATGAACAATTTTATTTGAGTAAGT
1 CTGATTTAATATCGTAA-CTAAGTTCATTTAATTTAAGATAATGAACAATTTTATTTGAGTTAG-
* * * * * *
69229149 TCATTTGATTTAAGATAATGAACAATTTTATTTGAGTTGGCTGATTTAATATTGTAACTCCGAAC
64 -C---TGATTTAAGATCATGAACAAGTTTATTTGAGTTAGCTGATTTAAGATCGCAACTCCGAAC
*
69229214 AACTCA
125 AAATCA
* * * * * * * * ** *
69229220 CTGATTTAATATTGTAGCTGA-TATCA-TTAAGGTT-AGTTAATTTAA-GATCTTAACCTAAGTT
1 CTGATTTAATATCGTAACTAAGT-TCATTTAA-TTTAAGATAA-TGAACAAT-TTTATTTGAGTT
**
69229281 CATTTGATTTAAGATCATGAACAAGTTTATTTGAGTTAGCTGATTTAAGATCGCAACTCCGAACA
62 -AGCTGATTTAAGATCATGAACAAGTTTATTTGAGTTAGCTGATTTAAGATCGCAACTCCGAACA
69229346 AATCA
126 AATCA
* *
69229351 CTGATTTAATATCGTAACATAAGTTCATTTGATTTAAGATCATGAACAATTTTATTTGAGTTAGC
1 CTGATTTAATATCGTAAC-TAAGTTCATTTAATTTAAGATAATGAACAATTTTATTTGAGTTAGC
*
69229416 TAATTTAAGATC
65 TGATTTAAGATC
69229428 GTAGTTCCGC
Statistics
Matches: 158, Mismatches: 40, Indels: 25
0.71 0.18 0.11
Matches are distributed among these distances:
131 87 0.55
132 18 0.11
133 10 0.06
134 11 0.07
135 18 0.11
136 14 0.09
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (130 bp):
CTGATTTAATATCGTAACTAAGTTCATTTAATTTAAGATAATGAACAATTTTATTTGAGTTAGCT
GATTTAAGATCATGAACAAGTTTATTTGAGTTAGCTGATTTAAGATCGCAACTCCGAACAAATCA
Found at i:69229537 original size:225 final size:226
Alignment explanation
Indices: 69229144--69229561 Score: 590
Period size: 225 Copynumber: 1.9 Consensus size: 226
69229134 TTTATTTGAG
* * * *
69229144 TAAGTTCATTTGATTTAAGATAATGAACAATTTTATTTGAGTTGGCTGATTTAATATTGTAACTC
1 TAAGTTCATTTGATTTAAGATAATGAACAATTTTATTTGAGTTAGCTAATTTAAGATCGTAACTC
*** * ** *
69229209 CGAACAACTCACTGATTTAATATTGTAGCTGATATCATTAAGGTTAGTTAATTTAAGATCTTAAC
66 CGAACAACTCACTGATTTAATATCACAGCTGATATCATTAAGGCTAACTAATTTAAGATCTCAAC
* * *
69229274 CTAAGTTCATTTGATTTAAGATCATGAACAAGTTTATTTGAGTTAGCTGATTTAAGATCGCAACT
131 CTAAGTTCATTTAATTTAACATCATGAACAAGTTTATTTGAGCTAGCTGATTTAAGATCGCAACT
69229339 CCGAACAAATCACTGATTTAATATCGTAACA
196 CCGAACAAATCACTGATTTAATATCGTAACA
* **
69229370 TAAGTTCATTTGATTTAAGATCATGAACAATTTTATTTGAGTTAGCTAATTTAAGATCGTAGTTC
1 TAAGTTCATTTGATTTAAGATAATGAACAATTTTATTTGAGTTAGCTAATTTAAGATCGTAACTC
* *
69229435 CGCAA-AGCTCGC-GATTTAATATCACAGCTGATATCATTAAGGCTAACTAATTTAAGAT-TGCA
66 CG-AACAACTCACTGATTTAATATCACAGCTGATATCATTAAGGCTAACTAATTTAAGATCT-CA
* * * *
69229497 ACCTAAGTTTATTTAATTTAACATCATGAACAATTTTATTTGAGCTAGTTGATTTAAGATTGCAA
129 ACCTAAGTTCATTTAATTTAACATCATGAACAAGTTTATTTGAGCTAGCTGATTTAAGATCGCAA
69229562 ATGATATTAT
Statistics
Matches: 167, Mismatches: 23, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
224 1 0.01
225 99 0.59
226 65 0.39
227 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (226 bp):
TAAGTTCATTTGATTTAAGATAATGAACAATTTTATTTGAGTTAGCTAATTTAAGATCGTAACTC
CGAACAACTCACTGATTTAATATCACAGCTGATATCATTAAGGCTAACTAATTTAAGATCTCAAC
CTAAGTTCATTTAATTTAACATCATGAACAAGTTTATTTGAGCTAGCTGATTTAAGATCGCAACT
CCGAACAAATCACTGATTTAATATCGTAACA
Found at i:69232921 original size:13 final size:13
Alignment explanation
Indices: 69232902--69232935 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
69232892 TCAGTAAAGC
69232902 AAATAAAGAAAAA
1 AAATAAAGAAAAA
* *
69232915 AAGTAAAAAAAAA
1 AAATAAAGAAAAA
69232928 AAATAAAG
1 AAATAAAG
69232936 TCGATATCTA
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (13 bp):
AAATAAAGAAAAA
Found at i:69233402 original size:7 final size:7
Alignment explanation
Indices: 69233390--69233415 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
69233380 TAAGGCGTTT
69233390 TATAAAA
1 TATAAAA
69233397 TATAAAA
1 TATAAAA
69233404 TATAAAA
1 TATAAAA
69233411 TATAA
1 TATAA
69233416 TATTTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TATAAAA
Found at i:69233944 original size:19 final size:20
Alignment explanation
Indices: 69233907--69233945 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
69233897 TTTTTCTCTA
*
69233907 TTTTAATAATTTTTAAATTT
1 TTTTAATAATTTATAAATTT
*
69233927 TTTTAA-AATTTATGAATTT
1 TTTTAATAATTTATAAATTT
69233946 AAAAAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTAATAATTTATAAATTT
Found at i:69234359 original size:7 final size:7
Alignment explanation
Indices: 69234347--69234392 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
69234337 ATATAAATAA
69234347 ATATTTT
1 ATATTTT
69234354 ATA-TTT
1 ATATTTT
69234360 -TATTTT
1 ATATTTT
*
69234366 ATATATT
1 ATATTTT
*
69234373 ATATATT
1 ATATTTT
*
69234380 ATATATT
1 ATATTTT
69234387 ATATTT
1 ATATTT
69234393 ATAAATAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 2 0.06
6 6 0.17
7 27 0.77
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (7 bp):
ATATTTT
Found at i:69234365 original size:12 final size:12
Alignment explanation
Indices: 69234348--69234395 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
69234338 TATAAATAAA
69234348 TATTTTATATTT
1 TATTTTATATTT
69234360 TATTTTATATATT
1 TATTTTATAT-TT
* *
69234373 ATATATTATATAT
1 -TATTTTATATTT
69234386 TATATTTATA
1 TAT-TTTATA
69234396 AATAATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 13 0.43
13 8 0.27
14 9 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TATTTTATATTT
Found at i:69234372 original size:14 final size:14
Alignment explanation
Indices: 69234347--69234410 Score: 71
Period size: 14 Copynumber: 4.8 Consensus size: 14
69234337 ATATAAATAA
69234347 ATATTTTATAT-TT
1 ATATTTTATATATT
69234360 -TATTTTATATATT
1 ATATTTTATATATT
*
69234373 ATATATTATATATT
1 ATATTTTATATATT
* *
69234387 ATA-TTTATAAATA
1 ATATTTTATATATT
*
69234400 ATATTATATAT
1 ATATTTTATAT
69234411 TTAACATTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
12 10 0.24
13 12 0.29
14 20 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATATTTTATATATT
Found at i:69234403 original size:20 final size:19
Alignment explanation
Indices: 69234363--69234413 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
69234353 TATATTTTAT
* *
69234363 TTTATATATTATATATTATA
1 TTTATAT-TTATAAATAATA
69234383 TATTATATTTATAAATAATA
1 T-TTATATTTATAAATAATA
69234403 TTATATATTTA
1 TT-TATATTTA
69234414 ACATTTATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 20 0.74
21 6 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTATATTTATAAATAATA
Found at i:69234421 original size:27 final size:25
Alignment explanation
Indices: 69234338--69234414 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 25
69234328 CCAACTCGAA
* *
69234338 TATAAATAAATATTTTATATTTTATTT
1 TATAAAT-AATATTATATA-TTTAATT
*
69234365 TATATATTATATATTATATA-TTATATT
1 TATA-AATA-ATATTATATATTTA-ATT
69234392 TATAAATAATATTATATATTTAA
1 TATAAATAATATTATATATTTAA
69234415 CATTTATTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
25 11 0.26
26 9 0.21
27 11 0.26
28 11 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATAAATAATATTATATATTTAATT
Found at i:69242545 original size:44 final size:44
Alignment explanation
Indices: 69242497--69242866 Score: 551
Period size: 44 Copynumber: 8.4 Consensus size: 44
69242487 GCTCTTTGTA
* *
69242497 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGCC
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCC
* * * *
69242541 AATACAGAGATGCCTAATCTGCTATCTTCAATCTACTCTCTGCC
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCC
* * * *
69242585 AATACAGAGATGCCAAATCTGCTATTTTCGACCTGTTCTCTGCC
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCC
* *
69242629 AATACAGAGATGCCAAATCTGCGACCTTCGATCTGCTCTCCGCC
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCC
* * * *
69242673 AATAAAGAAATGCCAAATCTGCGACCTTCGATCTGCTCTCCGCC
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCC
* *
69242717 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGTTCTCCGCT
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCC
*
69242761 AATACAGAGATGTCAAATCTGCTATCTTCGATCTGCTCTCCGCC
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCC
*
69242805 AATACAAAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCC
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCC
*
69242849 AATACAGAGACGCCAAAT
1 AATACAGAGATGCCAAAT
69242867 TTACAGGATT
Statistics
Matches: 295, Mismatches: 31, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 295 1.00
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.27
Consensus pattern (44 bp):
AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCC
Found at i:69243686 original size:3 final size:3
Alignment explanation
Indices: 69243678--69243724 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
69243668 TTGGCCTCTC
*
69243678 CTT CTT CTT CTT CTT CTT CTT CTT CTT -TT TTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
69243725 TTTCAGAGTG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
CTT
Found at i:69258125 original size:17 final size:19
Alignment explanation
Indices: 69258093--69258127 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
69258083 TTATAGAATA
69258093 TGAACTTGATAAATGATAT
1 TGAACTTGATAAATGATAT
69258112 TGAA-TTGA-AAATGATA
1 TGAACTTGATAAATGATA
69258128 GTATGAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 4 0.25
19 4 0.25
ACGTcount: A:0.46, C:0.03, G:0.17, T:0.34
Consensus pattern (19 bp):
TGAACTTGATAAATGATAT
Found at i:69258279 original size:21 final size:22
Alignment explanation
Indices: 69258254--69258295 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
69258244 AAATGATTCG
69258254 AGATAGTGT-GAAT-AAAAGAAT
1 AGATAG-GTAGAATGAAAAGAAT
69258275 AGATAGGTAGAATGAAAAGAA
1 AGATAGGTAGAATGAAAAGAA
69258296 ATAATATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 10 0.53
22 7 0.37
ACGTcount: A:0.55, C:0.00, G:0.26, T:0.19
Consensus pattern (22 bp):
AGATAGGTAGAATGAAAAGAAT
Found at i:69259276 original size:19 final size:20
Alignment explanation
Indices: 69259252--69259302 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
69259242 AATAAAAATC
*
69259252 GTATCGATACTCT-TATAAA
1 GTATCGATACTATATATAAA
69259271 GTATCGATACTATAATATAAA
1 GTATCGATACTAT-ATATAAA
*
69259292 GTATCAATACT
1 GTATCGATACT
69259303 TAAGTCTGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.43
21 16 0.57
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (20 bp):
GTATCGATACTATATATAAA
Found at i:69259616 original size:32 final size:32
Alignment explanation
Indices: 69259579--69259643 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
69259569 GAAGTATACA
*
69259579 TACACATATATTTATTCATCACCCTCAATCAT
1 TACACATACATTTATTCATCACCCTCAATCAT
69259611 TACACATACATTTATTCATCACCCTCAATCAT
1 TACACATACATTTATTCATCACCCTCAATCAT
69259643 T
1 T
69259644 CAACCTTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (32 bp):
TACACATACATTTATTCATCACCCTCAATCAT
Found at i:69265627 original size:47 final size:45
Alignment explanation
Indices: 69265557--69265826 Score: 238
Period size: 47 Copynumber: 5.8 Consensus size: 45
69265547 GATAAGGTGT
* *
69265557 CGATGCCATGTCCCAGACCTGGTCTTACACTGGCTCATATCTCAAGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATATCTCAAGC
* * *
69265604 CGATGCCATGTCCCAGATATGGTCTTACACTGACT-ATCATCTCTTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCAT-ATCTC-AAGC
* * *
69265652 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCATATCTC-AAGC
* * * *
69265698 CGATGCATGTTCCAGACATGTCTTACACTAGCTC-TCGTCTTAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCAT-ATCTCAA-GC
** * * * *
69265744 TAATGTCATGTCCTAGACATGGTCTTACACTGGCTCTTATAATCTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATAT-CTCAAGC
* *
69265792 CGATGCATGTCCCAGACATGCCTTACACTAGCTCA
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCA
69265827 CACACAAATG
Statistics
Matches: 181, Mismatches: 33, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 74 0.41
47 76 0.42
48 27 0.15
49 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCATATCTCAAGC
Found at i:69265794 original size:94 final size:92
Alignment explanation
Indices: 69265563--69265825 Score: 275
Period size: 94 Copynumber: 2.8 Consensus size: 92
69265553 GTGTCGATGC
* * * * * *
69265563 CATGTCCCAGACCTGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAGATATGGTC
1 CATGTCCCAGACATGGTCTTACACTGGCTCTTATATCTAGCCGATG-CATGTCCCAGACAT-GTC
* * *
69265628 TTACACT-GACTATCATCTCTTAGCCGATG
64 TTACACTAG-CTCTCATCTCTAAGCCAATG
* *
69265657 CATGTCCCAGACAT-GTCTTACACTGG--CTTACATCTCGAGGCCGATGCATGTTCCAGACATGT
1 CATGTCCCAGACATGGTCTTACACTGGCTCTTATATCT--A-GCCGATGCATGTCCCAGACATGT
* *
69265719 CTTACACTAGCTCTCGTCT-TAATGCTAATG
63 CTTACACTAGCTCTCATCTCTAA-GCCAATG
* *
69265749 TCATGTCCTAGACATGGTCTTACACTGGCTCTTATAATCTAGCCGATGCATGTCCCAGACATGCC
1 -CATGTCCCAGACATGGTCTTACACTGGCTCTTAT-ATCTAGCCGATGCATGTCCCAGACATGTC
69265814 TTACACTAGCTC
64 TTACACTAGCTC
69265826 ACACACAAAT
Statistics
Matches: 142, Mismatches: 17, Indels: 20
0.79 0.09 0.11
Matches are distributed among these distances:
91 7 0.05
92 22 0.15
93 39 0.27
94 65 0.46
95 1 0.01
96 4 0.03
97 4 0.03
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (92 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTTATATCTAGCCGATGCATGTCCCAGACATGTCTT
ACACTAGCTCTCATCTCTAAGCCAATG
Found at i:69270298 original size:46 final size:46
Alignment explanation
Indices: 69270245--69270452 Score: 228
Period size: 46 Copynumber: 4.5 Consensus size: 46
69270235 ATCCGAACTC
*
69270245 GTTGAGTCTGAGTTTACTTATGGATGCGAATGTCCGAACTCGTTGA
1 GTTGAGTCCGAGTTTACTTATGGATGCGAATGTCCGAACTCGTTGA
69270291 GTTGAGTCCGAGTTTACTTATGGATGCGAATGTCCGAACTCGTTGA
1 GTTGAGTCCGAGTTTACTTATGGATGCGAATGTCCGAACTCGTTGA
* * * * *
69270337 GTTGAGTCCGAG-TT-C-GA-GAGATG-TAACTAGGCATCTGAGCTTGTTGA
1 GTTGAGTCCGAGTTTACTTATG-GATGCGAA-T--G--TCCGAACTCGTTGA
* * * *
69270384 GTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGA
1 GTTGAGTCCGAGTTTACTTATGGATGCGAATGTCCGAACTCGTTGA
*
69270430 GTTGAGTCCGAGTTCACTTATGG
1 GTTGAGTCCGAGTTTACTTATGG
69270453 GCGGGTTACA
Statistics
Matches: 138, Mismatches: 13, Indels: 22
0.80 0.08 0.13
Matches are distributed among these distances:
42 3 0.02
43 6 0.04
44 1 0.01
45 3 0.02
46 91 0.66
47 23 0.17
48 2 0.01
49 1 0.01
50 5 0.04
51 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (46 bp):
GTTGAGTCCGAGTTTACTTATGGATGCGAATGTCCGAACTCGTTGA
Found at i:69274655 original size:59 final size:58
Alignment explanation
Indices: 69274554--69274665 Score: 152
Period size: 59 Copynumber: 1.9 Consensus size: 58
69274544 GTACATAGCA
** * * *
69274554 TAAGACCATGGATGAAAGATGCCATGGCGGCATGGTACAAGGTAAAAGGGTATATGGCG
1 TAAGACCATGGATGAAAGACACCATGACGACACGGTACAAGGTAAAA-GGTATATGGCG
* *
69274613 TAAGACCATGGATGAAAGACATCATGACGACACGGTATAAGGTAAAAGGTATA
1 TAAGACCATGGATGAAAGACACCATGACGACACGGTACAAGGTAAAAGGTATA
69274666 AGATATACAT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
58 6 0.13
59 40 0.87
ACGTcount: A:0.38, C:0.13, G:0.29, T:0.19
Consensus pattern (58 bp):
TAAGACCATGGATGAAAGACACCATGACGACACGGTACAAGGTAAAAGGTATATGGCG
Found at i:69277942 original size:20 final size:21
Alignment explanation
Indices: 69277905--69277946 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
69277895 ATTATGTAAA
69277905 TATATATATATACGTATATTT
1 TATATATATATACGTATATTT
*
69277926 TATATAT-TATGCGTATATTT
1 TATATATATATACGTATATTT
69277946 T
1 T
69277947 GTTTTGTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (21 bp):
TATATATATATACGTATATTT
Found at i:69278373 original size:14 final size:12
Alignment explanation
Indices: 69278346--69278371 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
69278336 TTGTACTTGG
69278346 TAACATTTTTTA
1 TAACATTTTTTA
69278358 TAACATTTTTTA
1 TAACATTTTTTA
69278370 TA
1 TA
69278372 TATTGTATTT
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:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (12 bp):
TAACATTTTTTA
Found at i:69285617 original size:8 final size:8
Alignment explanation
Indices: 69285604--69285634 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
69285594 TCCGTGCAAA
69285604 TATTCTTT
1 TATTCTTT
69285612 TATTCTTT
1 TATTCTTT
69285620 TATTCTTT
1 TATTCTTT
69285628 TATTCTT
1 TATTCTT
69285635 CCTTCACACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (8 bp):
TATTCTTT
Found at i:69290418 original size:42 final size:42
Alignment explanation
Indices: 69290366--69290493 Score: 204
Period size: 41 Copynumber: 3.1 Consensus size: 42
69290356 GAGCAGCTAA
* *
69290366 AAGCCACAGCAGATCTCCTAGAAGTTTCAGTGGAATTGATCG
1 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
* *
69290408 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGG-ATTAAGCG
1 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
*
69290449 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATTG
1 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
69290491 AAG
1 AAG
69290494 TCACGTGTCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
41 39 0.50
42 39 0.50
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (42 bp):
AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
Found at i:69292165 original size:19 final size:20
Alignment explanation
Indices: 69292141--69292179 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
69292131 TATTATGTAA
69292141 ATATA-TATACGTATATTTT
1 ATATATTATACGTATATTTT
*
69292160 ATATATTATGCGTATATTTT
1 ATATATTATACGTATATTTT
69292180 GTTTTGTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (20 bp):
ATATATTATACGTATATTTT
Found at i:69292606 original size:14 final size:12
Alignment explanation
Indices: 69292579--69292604 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
69292569 TTGTATTTGG
69292579 TAACATTTTTTA
1 TAACATTTTTTA
69292591 TAACATTTTTTA
1 TAACATTTTTTA
69292603 TA
1 TA
69292605 TATTGTATTT
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:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (12 bp):
TAACATTTTTTA
Found at i:69294872 original size:46 final size:46
Alignment explanation
Indices: 69294804--69294999 Score: 195
Period size: 46 Copynumber: 4.2 Consensus size: 46
69294794 TCGATGCATG
* * *
69294804 GTCTTACACTGACTATCATCTCGTA-GACGATGTATGTCCCAGACAT
1 GTCTTACACTGGCT-TCATCTCGTAGGCCGATGCATGTCCCAGACAT
*
69294850 GTCTTACACTGGCTTACGTCTCG-AGGCCGATGCATGTCCCAGACAT
1 GTCTTACACTGGCTT-CATCTCGTAGGCCGATGCATGTCCCAGACAT
* * * * *
69294896 GTCTTACACTAGCCCTCGTCTC-AATGCCGATGCCATGTCCCAGACAT
1 GTCTTACACT-GGCTTCATCTCGTAGGCCGATG-CATGTCCCAGACAT
* *
69294943 GGTCTTACACTGGCTCTCATAAT-GT-GGTCGATGCATGTCCCAGACAT
1 -GTCTTACACTGGCT-TCAT-CTCGTAGGCCGATGCATGTCCCAGACAT
69294990 GTCTTACACT
1 GTCTTACACT
69295000 AGCTCACACA
Statistics
Matches: 127, Mismatches: 14, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
45 2 0.02
46 72 0.57
47 33 0.26
48 19 0.15
49 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.29
Consensus pattern (46 bp):
GTCTTACACTGGCTTCATCTCGTAGGCCGATGCATGTCCCAGACAT
Found at i:69298591 original size:88 final size:89
Alignment explanation
Indices: 69298442--69298618 Score: 338
Period size: 88 Copynumber: 2.0 Consensus size: 89
69298432 CTTAATCCCT
*
69298442 GTAAATTGAAAAACGTTATTTTAGACTTAATTGAATTTACAAAATTGGAATGAAACAAGAC-AAA
1 GTAAATTGAAAAACGTTATTTTAGACTTAATTGAATTTACAAAATTAGAATGAAACAAGACAAAA
69298506 AAAAGTTTGATGATCAATTAAGAC
66 AAAAGTTTGATGATCAATTAAGAC
69298530 GTAAATTGAAAAACGTTATTTTAGACTTAATTGAATTTACAAAATTAGAATGAAACAAGACAAAA
1 GTAAATTGAAAAACGTTATTTTAGACTTAATTGAATTTACAAAATTAGAATGAAACAAGACAAAA
69298595 AAAAGTTTGATGATCAATTAAGAC
66 AAAAGTTTGATGATCAATTAAGAC
69298619 ATTAAAACAA
Statistics
Matches: 87, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
88 60 0.69
89 27 0.31
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (89 bp):
GTAAATTGAAAAACGTTATTTTAGACTTAATTGAATTTACAAAATTAGAATGAAACAAGACAAAA
AAAAGTTTGATGATCAATTAAGAC
Found at i:69306176 original size:22 final size:22
Alignment explanation
Indices: 69306145--69306186 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
69306135 TTGAAAGAGA
* *
69306145 AAAGATATTAGAATAATCCTGG
1 AAAGAGATTAGAACAATCCTGG
69306167 AAAGAGATTAGAACAATCCT
1 AAAGAGATTAGAACAATCCT
69306187 AGATTTTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.24
Consensus pattern (22 bp):
AAAGAGATTAGAACAATCCTGG
Found at i:69306970 original size:10 final size:10
Alignment explanation
Indices: 69306949--69306977 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
69306939 TGTCCTCAAG
69306949 CAAACT-AAA
1 CAAACTAAAA
69306958 CAAACTAAAA
1 CAAACTAAAA
69306968 CAAACTAAAA
1 CAAACTAAAA
69306978 ATAGAGGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.32
10 13 0.68
ACGTcount: A:0.69, C:0.21, G:0.00, T:0.10
Consensus pattern (10 bp):
CAAACTAAAA
Found at i:69308552 original size:19 final size:21
Alignment explanation
Indices: 69308530--69308573 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
69308520 TAAAATGTCC
69308530 AAATTTAAA-TAAAAT-TTTA
1 AAATTTAAATTAAAATGTTTA
*
69308549 AAA-TTAAATTAAATTGTTTA
1 AAATTTAAATTAAAATGTTTA
69308569 AAATT
1 AAATT
69308574 ATTCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 7 0.33
21 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
AAATTTAAATTAAAATGTTTA
Found at i:69308557 original size:18 final size:20
Alignment explanation
Indices: 69308515--69308574 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
69308505 TAAATAAGAA
* ** *
69308515 TAAAATAAAATGTCCAAATT
1 TAAATTAAAATGTTTAAAAT
69308535 TAAA-TAAAAT-TTTAAAAT
1 TAAATTAAAATGTTTAAAAT
*
69308553 TAAATTAAATTGTTTAAAAT
1 TAAATTAAAATGTTTAAAAT
69308573 TA
1 TA
69308575 TTCTAAATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 9 0.26
19 11 0.32
20 14 0.41
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
TAAATTAAAATGTTTAAAAT
Found at i:69310080 original size:14 final size:14
Alignment explanation
Indices: 69310057--69310087 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
69310047 ATTTAATAAA
69310057 TAAAAATAAAAATC
1 TAAAAATAAAAATC
*
69310071 TAAAAGTAAAAATC
1 TAAAAATAAAAATC
69310085 TAA
1 TAA
69310088 TAAAACTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.23
Consensus pattern (14 bp):
TAAAAATAAAAATC
Found at i:69310262 original size:7 final size:7
Alignment explanation
Indices: 69310250--69310277 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
69310240 TATCATAGCT
69310250 GCTGGAG
1 GCTGGAG
69310257 GCTGGAG
1 GCTGGAG
69310264 GCTGGAG
1 GCTGGAG
69310271 GCTGGAG
1 GCTGGAG
69310278 CTACGGCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.57, T:0.14
Consensus pattern (7 bp):
GCTGGAG
Found at i:69329380 original size:4 final size:4
Alignment explanation
Indices: 69329371--69329614 Score: 461
Period size: 4 Copynumber: 60.8 Consensus size: 4
69329361 TTACTACTAA
69329371 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
69329419 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
69329467 TATG TATA TGTG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
69329515 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
69329563 TATG TATG TATG TATG TATG TATG TATG TATG TATTG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TA-TG TATG TATG TATG
69329612 TAT
1 TAT
69329615 TTTTTTTTAA
Statistics
Matches: 235, Mismatches: 4, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
4 231 0.98
5 4 0.02
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:69337991 original size:39 final size:39
Alignment explanation
Indices: 69337936--69338118 Score: 321
Period size: 39 Copynumber: 4.7 Consensus size: 39
69337926 CCAACATAAT
*
69337936 TGCCTTCGGGACTTAGCCTGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* *
69337975 TGCCTTCGGGATTTAGCCCGGATATAACACCAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
69338014 TGCCTTCGGGACATAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
69338053 TGCCTTCGAGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
69338092 TGCCTTCGGGACTTAGCCCGGATATAA
1 TGCCTTCGGGACTTAGCCCGGATATAA
69338119 TCTCACACAG
Statistics
Matches: 135, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 135 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:69344313 original size:23 final size:22
Alignment explanation
Indices: 69344261--69344335 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
69344251 CCTGATCAGT
** *
69344261 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
*
69344282 AAACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
69344303 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
69344326 ATACGACACA
1 ATACGACACA
69344336 TAAAGTACCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 36 0.78
23 10 0.22
ACGTcount: A:0.39, C:0.27, G:0.21, T:0.13
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:69344346 original size:23 final size:23
Alignment explanation
Indices: 69344261--69344347 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
69344251 CCTGATCAGT
*
69344261 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
69344283 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
69344303 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
* *
69344326 ATACGACACATAAAGTACCTGA
1 ATACGACACACAAAGTGCCTGA
69344348 TCAGTAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.63
22 1 0.02
23 18 0.33
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:69344743 original size:15 final size:15
Alignment explanation
Indices: 69344718--69344775 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
69344708 TCATATATAT
69344718 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
69344734 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
69344749 AATAATTTCAATCAA
1 TATAAATTCAATCAA
69344764 TATAAATTCAAT
1 TATAAATTCAAT
69344776 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:69345159 original size:8 final size:8
Alignment explanation
Indices: 69345146--69345174 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
69345136 TATTTTTATT
69345146 ATATAATA
1 ATATAATA
69345154 ATATAATA
1 ATATAATA
69345162 ATATAATA
1 ATATAATA
69345170 ATATA
1 ATATA
69345175 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:69347987 original size:20 final size:20
Alignment explanation
Indices: 69347948--69347987 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
69347938 AATTTTGAAT
* *
69347948 TATTTTATTATACTTTTTAA
1 TATTTTATTATAATTATTAA
*
69347968 TATTTTTTTATAATTATTAA
1 TATTTTATTATAATTATTAA
69347988 ACAATTTGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTTTATTATAATTATTAA
Found at i:69360423 original size:96 final size:96
Alignment explanation
Indices: 69360284--69360466 Score: 269
Period size: 96 Copynumber: 1.9 Consensus size: 96
69360274 AGAAAATCTA
* * * * *
69360284 TCATCGAAAGGAATGATGGAGTAGACAATGAGCTCAAGAAGCTTGGTTCGAGCAAGGGAAAAGCC
1 TCATCGAAAGGAACGATAGAATAGACAAAGAGCTCAAGAAGCTTAGTTCGAGCAAGGGAAAAGCC
* * *
69360349 GAAGCTAAGAGGGTAAAGAGGAAGAAGTCTG
66 GAAGCCAAGAGGGCAAAAAGGAAGAAGTCTG
*
69360380 TCATCGAAGGGAACGATAGAATAGACAAAGAGC-CTAAGAAGCTTAGTTCGAGCAAGGGAAAAGC
1 TCATCGAAAGGAACGATAGAATAGACAAAGAGCTC-AAGAAGCTTAGTTCGAGCAAGGGAAAAGC
69360444 CGAAGCCAAGAGGGCAAAAAGGA
65 CGAAGCCAAGAGGGCAAAAAGGA
69360467 GCAAAAAAAG
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
95 1 0.01
96 76 0.99
ACGTcount: A:0.41, C:0.14, G:0.32, T:0.13
Consensus pattern (96 bp):
TCATCGAAAGGAACGATAGAATAGACAAAGAGCTCAAGAAGCTTAGTTCGAGCAAGGGAAAAGCC
GAAGCCAAGAGGGCAAAAAGGAAGAAGTCTG
Found at i:69383413 original size:42 final size:42
Alignment explanation
Indices: 69383351--69383433 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
69383341 CTGAACTTTA
69383351 CCGAGAGATAACAGTCGCTGGATTTTGTGACCACATTCAACG
1 CCGAGAGATAACAGTCGCTGGATTTTGTGACCACATTCAACG
* * * * *
69383393 CCGAGAGATACCATTTGCTGGATTTTGTGGCTACATTCAAC
1 CCGAGAGATAACAGTCGCTGGATTTTGTGACCACATTCAAC
69383434 AATGACAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (42 bp):
CCGAGAGATAACAGTCGCTGGATTTTGTGACCACATTCAACG
Found at i:69392777 original size:24 final size:23
Alignment explanation
Indices: 69392729--69392777 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
69392719 TATGGGAAGC
* **
69392729 AAAAAAATTATTTTGAAAAGTTA
1 AAAAAAATTATTTTAAAAAAATA
69392752 AAAATAAATTATTTTAAAAAAATA
1 AAAA-AAATTATTTTAAAAAAATA
69392776 AA
1 AA
69392778 TTTAATTGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAAAAATTATTTTAAAAAAATA
Found at i:69393272 original size:16 final size:17
Alignment explanation
Indices: 69393239--69393273 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
69393229 ATTACTTTTA
*
69393239 AAAAGTATTTCTTAAAC
1 AAAAGTATTTCCTAAAC
69393256 AAAAGTA-TTCCTAAAC
1 AAAAGTATTTCCTAAAC
69393272 AA
1 AA
69393274 TCTACTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (17 bp):
AAAAGTATTTCCTAAAC
Found at i:69395004 original size:26 final size:26
Alignment explanation
Indices: 69394970--69395058 Score: 83
Period size: 26 Copynumber: 3.3 Consensus size: 26
69394960 AAATTAAATT
69394970 ATATTTTAATTCAAGTAAAAATCAAA
1 ATATTTTAATTCAAGTAAAAATCAAA
* ** *
69394996 ATATTTTAAATT-TA-TATTTAATTAAA
1 ATATTTT-AATTCAAGTA-AAAATCAAA
*
69395022 TTATATTTTAATTCAAGTAAAACTCAAA
1 --ATATTTTAATTCAAGTAAAAATCAAA
69395050 ATATTTTAA
1 ATATTTTAA
69395059 ATTTATATTT
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
25 2 0.04
26 23 0.48
27 8 0.17
28 13 0.27
29 2 0.04
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (26 bp):
ATATTTTAATTCAAGTAAAAATCAAA
Found at i:69395022 original size:16 final size:16
Alignment explanation
Indices: 69395001--69395034 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
69394991 TCAAAATATT
69395001 TTAAATT-TATATTTAA
1 TTAAATTATAT-TTTAA
69395017 TTAAATTATATTTTAA
1 TTAAATTATATTTTAA
69395033 TT
1 TT
69395035 CAAGTAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAAATTATATTTTAA
Found at i:69395067 original size:54 final size:54
Alignment explanation
Indices: 69394943--69395081 Score: 215
Period size: 54 Copynumber: 2.6 Consensus size: 54
69394933 ACTGAAGATT
* * **
69394943 TATTTTTAGTTTATATAAAATTAAATTATATTTTAATTCAAGTAAAAATCAAAA
1 TATTTTAAATTTATATTTAATTAAATTATATTTTAATTCAAGTAAAAATCAAAA
*
69394997 TATTTTAAATTTATATTTAATTAAATTATATTTTAATTCAAGTAAAACTCAAAA
1 TATTTTAAATTTATATTTAATTAAATTATATTTTAATTCAAGTAAAAATCAAAA
* *
69395051 TATTTTAAATTTATATTTAATTTATTTATAT
1 TATTTTAAATTTATATTTAATTAAATTATAT
69395082 ATTATATCTT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 78 1.00
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.50
Consensus pattern (54 bp):
TATTTTAAATTTATATTTAATTAAATTATATTTTAATTCAAGTAAAAATCAAAA
Found at i:69396448 original size:20 final size:20
Alignment explanation
Indices: 69396423--69396467 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
69396413 TAATTTATTT
*
69396423 TATTT-ATTCAATTTTCATTA
1 TATTTAATTAAATTTTCA-TA
*
69396443 TATTTAATTAAATTTTTATA
1 TATTTAATTAAATTTTCATA
69396463 TATTT
1 TATTT
69396468 TAGTTTAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTAATTAAATTTTCATA
Found at i:69396580 original size:5 final size:5
Alignment explanation
Indices: 69396570--69396612 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
69396560 TTTACATTAG
69396570 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AAT
69396613 TTAAAACAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:69400999 original size:19 final size:18
Alignment explanation
Indices: 69400948--69401003 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
69400938 TGAAAATAAA
69400948 TATAATTG-TAATAATTT
1 TATAATTGTTAATAATTT
*
69400965 T-TAATCAT-TTATTAATTT
1 TATAAT--TGTTAATAATTT
69400983 TATAATTGTTAAATAATTT
1 TATAATTGTT-AATAATTT
69401002 TA
1 TA
69401004 AAAATTTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
16 4 0.13
17 2 0.06
18 12 0.39
19 13 0.42
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (18 bp):
TATAATTGTTAATAATTT
Found at i:69401150 original size:21 final size:21
Alignment explanation
Indices: 69401117--69401168 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
69401107 TGCTGTTTCT
** *
69401117 AATCTCATTGCTACAATACCC
1 AATCTCACCGCTACAATAACC
* *
69401138 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
69401159 AATCTCACCG
1 AATCTCACCG
69401169 TCACCGCTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.35, G:0.08, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:69434068 original size:20 final size:20
Alignment explanation
Indices: 69434036--69434073 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
69434026 TGTTTCACAT
69434036 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
69434056 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
69434074 ACTTAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:69434585 original size:18 final size:18
Alignment explanation
Indices: 69434562--69434600 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
69434552 TACTTTTCTC
69434562 TTTCTA-TCACAATTCCAA
1 TTTCTATTCACAATT-CAA
*
69434580 TTTCTATTCATAATTCAA
1 TTTCTATTCACAATTCAA
69434598 TTT
1 TTT
69434601 TTTTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCTATTCACAATTCAA
Found at i:69435747 original size:12 final size:12
Alignment explanation
Indices: 69435730--69435754 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69435720 AATCCTTAGT
69435730 TTTCTCTTTTTC
1 TTTCTCTTTTTC
69435742 TTTCTCTTTTTC
1 TTTCTCTTTTTC
69435754 T
1 T
69435755 CCCCTGCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTCTCTTTTTC
Found at i:69439251 original size:105 final size:105
Alignment explanation
Indices: 69439074--69439270 Score: 263
Period size: 105 Copynumber: 1.9 Consensus size: 105
69439064 AATGTTTAAA
* * * *
69439074 TGTAAGACCATAGCTGGGCTATGGCATTTTAGTGAAAAGACCATAACTGGGTTATGGCACCATGA
1 TGTAAGACCATAGCTAGGCTATGGCATCTGAGTGAAAAGACCATAACTGGGTTATGGCACCATCA
* *
69439139 ACATAAGACCATGGTTGGACTATGGCAGTATATCTATGTG
66 ACATAAGACCATGGTAGGACCATGGCAGTATATCTATGTG
* **
69439179 TGTAAGACCATAGCTAGGCTATGGCATCCTGA-TGATAAGACCATAACTGGGTTATGGCATTA-C
1 TGTAAGACCATAGCTAGGCTATGGCAT-CTGAGTGAAAAGACCATAACTGGGTTATGGCACCATC
**
69439242 AAGTGTAAGACCATGGTAGGACCATGGCA
65 AA-CATAAGACCATGGTAGGACCATGGCA
69439271 ATTGTGTAAG
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
104 2 0.03
105 75 0.95
106 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (105 bp):
TGTAAGACCATAGCTAGGCTATGGCATCTGAGTGAAAAGACCATAACTGGGTTATGGCACCATCA
ACATAAGACCATGGTAGGACCATGGCAGTATATCTATGTG
Found at i:69439280 original size:30 final size:30
Alignment explanation
Indices: 69439244--69439300 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
69439234 GGCATTACAA
*
69439244 GTGTAAGACCATGGTAGGACCATGGCAATT
1 GTGTAAGACCATAGTAGGACCATGGCAATT
* *
69439274 GTGTAAGACCATAGTTGGACTATGGCA
1 GTGTAAGACCATAGTAGGACCATGGCA
69439301 TCAAGAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (30 bp):
GTGTAAGACCATAGTAGGACCATGGCAATT
Found at i:69447759 original size:22 final size:22
Alignment explanation
Indices: 69447730--69447774 Score: 63
Period size: 25 Copynumber: 1.9 Consensus size: 22
69447720 AATTTACAGA
69447730 AGAAGAAGATAGAAAGAAAGAAAGG
1 AGAAGAAGA-A-AAA-AAAGAAAGG
69447755 AGAAGAAGAAAAAAAAGAAA
1 AGAAGAAGAAAAAAAAGAAA
69447775 AGGTAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 3 0.15
24 1 0.05
25 9 0.45
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (22 bp):
AGAAGAAGAAAAAAAAGAAAGG
Found at i:69449710 original size:79 final size:81
Alignment explanation
Indices: 69449609--69449793 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
69449599 GCTACTCGTT
* * *
69449609 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
69449672 GAATTTAGTAAC-TCGCA
64 GAATATAGTAACTTAGCA
* ** *
69449689 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGA
* *
69449753 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
69449769 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69449794 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGA
ATATAGTAACTTAGCA
Found at i:69449793 original size:40 final size:40
Alignment explanation
Indices: 69449590--69449793 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
69449580 CGGAATTTAA
** *
69449590 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
69449630 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
69449670 CCGAATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
69449709 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
69449749 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
69449789 CCGGA
1 CCGGA
69449794 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 91 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:69451760 original size:22 final size:25
Alignment explanation
Indices: 69451734--69451778 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
69451724 TAAATTACCT
69451734 TTTCTTT-TTT-T-TCTTCTTCTCC
1 TTTCTTTCTTTCTATCTTCTTCTCC
69451756 TTTCTTTCTTTCTATCTTCTTCT
1 TTTCTTTCTTTCTATCTTCTTCT
69451779 TCTGTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 3 0.15
24 1 0.05
25 9 0.45
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTCTTTCTTTCTATCTTCTTCTCC
Found at i:69451896 original size:27 final size:27
Alignment explanation
Indices: 69451866--69451924 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
69451856 GAGAAAGGCA
69451866 CCACCGGTGCCGCCTGTGGGGTACCCT
1 CCACCGGTGCCGCCTGTGGGGTACCCT
*
69451893 CCACTGGTGCCGCCTGTGGGGTACCCT
1 CCACCGGTGCCGCCTGTGGGGTACCCT
*
69451920 TCACC
1 CCACC
69451925 CCTATTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.08, C:0.41, G:0.31, T:0.20
Consensus pattern (27 bp):
CCACCGGTGCCGCCTGTGGGGTACCCT
Found at i:69453931 original size:26 final size:26
Alignment explanation
Indices: 69453901--69453950 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
69453891 TTTTTTTTCG
69453901 TTTAAAAATTATTATT-ATATATATTT
1 TTTAAAAATTA-TATTAATATATATTT
* *
69453927 TTTAATATTTATATTAATATATAT
1 TTTAAAAATTATATTAATATATAT
69453951 GTAAAAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TTTAAAAATTATATTAATATATATTT
Found at i:69454218 original size:13 final size:12
Alignment explanation
Indices: 69454206--69454244 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
69454196 AAAGGAGAGA
*
69454206 AAGGAGAAGGAG
1 AAGGAGAAGAAG
*
69454218 AAGAAGAAGAAG
1 AAGGAGAAGAAG
69454230 AAGGAAGAAGAAG
1 AAGG-AGAAGAAG
69454243 AA
1 AA
69454245 AAAAAAGGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (12 bp):
AAGGAGAAGAAG
Found at i:69454224 original size:3 final size:3
Alignment explanation
Indices: 69454210--69454244 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
69454200 GAGAGAAAGG
*
69454210 AGA AGG AGA AGA AGA AGA AGA AGGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA A-GA AGA AGA AGA A
69454245 AAAAAAGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:69454252 original size:19 final size:18
Alignment explanation
Indices: 69454212--69454252 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
69454202 GAGAAAGGAG
* *
69454212 AAGGAGAAGAAGAAGAAG
1 AAGGAGAAGAAGAAAAAA
69454230 AAGGAAGAAGAAGAAAAAA
1 AAGG-AGAAGAAGAAAAAA
69454249 AAGG
1 AAGG
69454253 TAATGTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (18 bp):
AAGGAGAAGAAGAAAAAA
Found at i:69454855 original size:114 final size:114
Alignment explanation
Indices: 69454510--69454949 Score: 692
Period size: 114 Copynumber: 3.9 Consensus size: 114
69454500 AATTATAGTT
* * *
69454510 GATTTGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGA-TTTTTTAG
1 GATTAGGTTATATAAATTATTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
*
69454574 TAATAAATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
66 TAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
* * * *
69454623 GATTAGGTTATATAAATTATTAGTGTTTAGTGGTTTA--GTATTAGCGTATTATAATTTTTTTAA
1 GATTAGGTTATATAAATTATTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
*
69454686 TAATATATTTTAAAAAAATATTTTTATAGCTATTTTATTAGTAATTTAA
66 TAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
69454735 GATTAGGTTATATAAATTATTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
1 GATTAGGTTATATAAATTATTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
*
69454800 TAATATATTTTAAAAAAATATTTTTATAGCTATTTTATTAGTAATTTAA
66 TAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
* * *
69454849 GATTAGGTTATATATATTGTTAGTGTTTAGTGGTTTAGTGTGTATTAATGTATTGTGATTTTTTT
1 GATTAGGTTATATAAATTATTAGTGTTTAGTGGTTTA--GTGTATTAGTGTATTGTGATTTTTTT
* *
69454914 AGTAATGTA-TTT-AAAAAATAATTTTATAGTTATTTT
64 AGTAATATATTTTAAAAAAATAATTTTATAGCTATTTT
69454950 GTGTTAGTAT
Statistics
Matches: 303, Mismatches: 19, Indels: 9
0.92 0.06 0.03
Matches are distributed among these distances:
111 14 0.05
112 91 0.30
113 34 0.11
114 128 0.42
115 3 0.01
116 33 0.11
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.52
Consensus pattern (114 bp):
GATTAGGTTATATAAATTATTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
TAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
Found at i:69454874 original size:226 final size:224
Alignment explanation
Indices: 69454510--69454949 Score: 684
Period size: 226 Copynumber: 1.9 Consensus size: 224
69454500 AATTATAGTT
* *
69454510 GATTTGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTAGT
1 GATTAGGTTATATAAATTATTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTAGT
69454575 AATAAATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATATAAAT
66 AATAAATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATATAAAT
*
69454640 TATTAGTGTTTAGTGGTTTA-GTATTAGCGTATTATAATTTTTTTAATAATATATTTTAAAAAAA
131 TATTAGTGTTTAGTGGTTTAGGTATTAACGTATTATAATTTTTTTAATAATATA-TTT-AAAAAA
*
69454704 TATTTTTATAGCTATTTTATTAGTAATTTAA
194 TAATTTTATAGCTATTTTATTAGTAATTTAA
*
69454735 GATTAGGTTATATAAATTATTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
1 GATTAGGTTATATAAATTATTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGA-TTTTTTAG
* * *
69454800 TAATATATTTTAAAAAAATATTTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATATATA
65 TAATAAATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATATAAA
* * * * * *
69454865 TTGTTAGTGTTTAGTGGTTTAGTGTGTATTAATGTATTGTGATTTTTTTAGTAATGTATTTAAAA
130 TTATTAGTGTTTAGTGGTTTA--G-GTATTAACGTATTATAATTTTTTTAATAATATATTTAAAA
*
69454930 AATAATTTTATAGTTATTTT
192 AATAATTTTATAGCTATTTT
69454950 GTGTTAGTAT
Statistics
Matches: 195, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
225 53 0.27
226 90 0.46
228 22 0.11
229 3 0.02
230 27 0.14
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.52
Consensus pattern (224 bp):
GATTAGGTTATATAAATTATTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTAGT
AATAAATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATATAAAT
TATTAGTGTTTAGTGGTTTAGGTATTAACGTATTATAATTTTTTTAATAATATATTTAAAAAATA
ATTTTATAGCTATTTTATTAGTAATTTAA
Found at i:69455036 original size:15 final size:16
Alignment explanation
Indices: 69455007--69455038 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
69454997 TGTGATTTTT
69455007 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
69455023 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
69455038 T
1 T
69455039 TATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:69457194 original size:33 final size:33
Alignment explanation
Indices: 69457121--69457199 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
69457111 TCCACTTATG
* * *
69457121 TACTCAACTCCTCCAGAGCCGTATCCACCGCCG
1 TACTCTACTCCTCCAGAGCCATATCCACCGCCA
* * *
69457154 TACTCTACTCCTCCCGGGCCATATCCACCTCCA
1 TACTCTACTCCTCCAGAGCCATATCCACCGCCA
*
69457187 TATTCTACTCCTC
1 TACTCTACTCCTC
69457200 TCAGCTCAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.19, C:0.46, G:0.10, T:0.25
Consensus pattern (33 bp):
TACTCTACTCCTCCAGAGCCATATCCACCGCCA
Found at i:69459368 original size:26 final size:27
Alignment explanation
Indices: 69459339--69459399 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
69459329 AGGTATTTCG
* *
69459339 GTAATTTTGC-ACCTAGGGGTATAACA
1 GTAATTTTCCAACATAGGGGTATAACA
* *
69459365 GTAATTTTCCATACATAGGGGTATTATA
1 GTAATTTTCCA-ACATAGGGGTATAACA
69459393 GTAATTT
1 GTAATTT
69459400 AGCTACTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 9 0.31
28 20 0.69
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
GTAATTTTCCAACATAGGGGTATAACA
Found at i:69460878 original size:26 final size:26
Alignment explanation
Indices: 69460844--69460951 Score: 146
Period size: 26 Copynumber: 4.2 Consensus size: 26
69460834 TGAAATTCCC
*
69460844 ATCATGGAACATTTACTTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
69460870 ATCACGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
69460896 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
69460922 ATCATGGAATATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
69460948 ATCA
1 ATCA
69460952 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
25 2 0.03
26 72 0.97
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:69460921 original size:52 final size:52
Alignment explanation
Indices: 69460844--69460951 Score: 162
Period size: 52 Copynumber: 2.1 Consensus size: 52
69460834 TGAAATTCCC
*
69460844 ATCATGGAACATTTACTTAAACCATTATCACGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCACGGAACATTTACCTAACCCATT
* * * * *
69460896 ATCATGGAATATTTACCTAATCCATTATCATGGAATATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAAACCATTATCACGGAACATTTACCTAACCCATT
69460948 ATCA
1 ATCA
69460952 ATTTGTATCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCACGGAACATTTACCTAACCCATT
Found at i:69463632 original size:17 final size:16
Alignment explanation
Indices: 69463610--69463641 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
69463600 TATTCAGAAG
69463610 CTAACAAAATTATTAAT
1 CTAACAAAATT-TTAAT
69463627 CTAACAAAATTTTAA
1 CTAACAAAATTTTAA
69463642 ATAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (16 bp):
CTAACAAAATTTTAAT
Found at i:69463885 original size:27 final size:27
Alignment explanation
Indices: 69463855--69463917 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
69463845 CCTACCAAGA
* *
69463855 AGGCACAACTAGTCGTGCCTGTTAGAT
1 AGGCACAACTAGTCGAGCCTGTCAGAT
* * *
69463882 AGGCTCAACTAGTTGAGCCTGTCAGGT
1 AGGCACAACTAGTCGAGCCTGTCAGAT
69463909 AGGCACAAC
1 AGGCACAAC
69463918 ATGTATGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (27 bp):
AGGCACAACTAGTCGAGCCTGTCAGAT
Found at i:69478522 original size:25 final size:24
Alignment explanation
Indices: 69478469--69478523 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
69478459 ATTAGATAAA
* *
69478469 AAATAATTTAACTTATATTATATTT
1 AAATAATTTAAC-TATATTATAATG
69478494 AAATAATTTAA-TATATTAATAGATG
1 AAATAATTTAACTATATT-ATA-ATG
69478519 AAATA
1 AAATA
69478524 TAGAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 6 0.23
24 3 0.12
25 17 0.65
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (24 bp):
AAATAATTTAACTATATTATAATG
Found at i:69483121 original size:94 final size:94
Alignment explanation
Indices: 69482956--69483227 Score: 253
Period size: 94 Copynumber: 2.9 Consensus size: 94
69482946 CTACTTCAAA
* ** * *
69482956 GAGATAAGATTTGTTATGGTAGCTTCTTTCCAACCCACTACAACTTTAGGAGTATAGGATTTGTA
1 GAGATAAGATTCGTTATGGTAGCTTCAATCCAACCCACTACAACTTAAGGAGTATAGGATTTATA
*
69483021 GTTTCATCTTACTCCACTACAACTTTAGG
66 GCTTCATCTTACTCCACTACAACTTTAGG
* * ** *
69483050 GAGATAAGATTCGTTATGGTAGCTTCAATCCGACTCACTGTAACTTAAAGG-GTATATGATTTAT
1 GAGATAAGATTCGTTATGGTAGCTTCAATCCAACCCACTACAACTT-AAGGAGTATAGGATTTAT
** * * **
69483114 AGCTTCATCTTGTTCCATTGCATTTTTAGG
65 AGCTTCATCTTACTCCACTACAACTTTAGG
* * * * ** ** * * *
69483144 GAGATAAGATTTGATAT-ATAACTTTGATCTGATCCACTACAACTCAGGGA-TATAGGATTTATA
1 GAGATAAGATTCGTTATGGTAGCTTCAATCCAACCCACTACAACTTAAGGAGTATAGGATTTATA
*
69483207 GCTTCATCTTGCTCCACTACA
66 GCTTCATCTTACTCCACTACA
69483228 TCTCCAAGGA
Statistics
Matches: 142, Mismatches: 34, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
92 33 0.23
93 18 0.13
94 88 0.62
95 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (94 bp):
GAGATAAGATTCGTTATGGTAGCTTCAATCCAACCCACTACAACTTAAGGAGTATAGGATTTATA
GCTTCATCTTACTCCACTACAACTTTAGG
Found at i:69483309 original size:93 final size:94
Alignment explanation
Indices: 69482990--69483378 Score: 394
Period size: 93 Copynumber: 4.2 Consensus size: 94
69482980 TCTTTCCAAC
* * * * * * * *
69482990 CCACTACAACTTTA-GGAGTATAGGATTTGTAGTTTCATCTTACTCCACTACAACTTTAGGGAGA
1 CCACTGCAACTTCAGGGA-TATAGGATTTATAGCTTCATCTTGCTCCACTGCATCTTCAGGGAGA
* * ** * ** *
69483054 TAAGATTCGTTATGGTAGCTTCAATCCGA-
65 TAAGATTTGATATTATAACTTTGATCTGAT
* * * * * * *
69483083 CTCACTGTAACTTAAAGGG-TATATGATTTATAGCTTCATCTTGTTCCATTGCATTTTTAGGGAG
1 C-CACTGCAACTT-CAGGGATATAGGATTTATAGCTTCATCTTGCTCCACTGCATCTTCAGGGAG
69483147 ATAAGATTTGATA-TATAACTTTGATCTGAT
64 ATAAGATTTGATATTATAACTTTGATCTGAT
* * * * *
69483177 CCACTACAAC-TCAGGGATATAGGATTTATAGCTTCATCTTGCTCCACTACATCTCCAAGGAGAG
1 CCACTGCAACTTCAGGGATATAGGATTTATAGCTTCATCTTGCTCCACTGCATCTTCAGGGAGAT
* *
69483241 AAAATTAGATATTATAACTTTGATC-GAT
66 AAGATTTGATATTATAACTTTGATCTGAT
* *
69483269 CCACTGCAACTTCAGGGATATAGGATTTATCGCTTCATCTTGCTCTACTGCATCTTCAGGGAGAT
1 CCACTGCAACTTCAGGGATATAGGATTTATAGCTTCATCTTGCTCCACTGCATCTTCAGGGAGAT
* *
69483334 AAGATTTGATATTATAACTTTAATCTTAT
66 AAGATTTGATATTATAACTTTGATCTGAT
*
69483363 CCACTGCAATTTCAGG
1 CCACTGCAACTTCAGG
69483379 TAGATAAGAT
Statistics
Matches: 242, Mismatches: 46, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
91 4 0.02
92 60 0.25
93 101 0.42
94 74 0.31
95 1 0.00
96 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (94 bp):
CCACTGCAACTTCAGGGATATAGGATTTATAGCTTCATCTTGCTCCACTGCATCTTCAGGGAGAT
AAGATTTGATATTATAACTTTGATCTGAT
Found at i:69483510 original size:94 final size:93
Alignment explanation
Indices: 69483380--69483723 Score: 307
Period size: 94 Copynumber: 3.7 Consensus size: 93
69483370 AATTTCAGGT
* * * *
69483380 AGATAAGATTCACCATTGTAGTTCCATTCCGACCCACTGCAACTTTAGAGGTATAGGACTTGTAC
1 AGATAAGATTCACCATTGTAGTTTCAATCTGACCCACTGCAACTTTAG-GGTATAGGATTTGTAC
** * *
69483445 TTTCATCTTGCTTTATTAAAACTTTAGAG
65 TTTCATCTTGCTCAACTATAACTTTAGAG
** * * * * *
69483474 AGATAAGATTCGTCATTGTAGTTTTAATCTGACCCACTACAACTTCACGGGTATAGAATTTGTTG
1 AGATAAGATTCACCATTGTAGTTTCAATCTGACCCACTGCAACTTTA-GGGTATAGGATTTG-TA
* *
69483539 C-TTCATCTTACTCAACTATAACTTCAGAG
64 CTTTCATCTTGCTCAACTATAACTTTAGAG
* * * * *
69483568 AGATAAGATTCACCACTGTAGATTCAATTTGACCCACTGTAACTTTAGGGGTATAGGATTTGTAG
1 AGATAAGATTCACCATTGTAGTTTCAATCTGACCCACTGCAACTTTA-GGGTATAGGATTTGTAC
* * *
69483633 TTTCAAT-TTGGTCCACTGTAACTTTAGAG
65 TTTC-ATCTTGCTCAACTATAACTTTAGAG
* ** * * ** *
69483662 AGATAAGATTCACTACGGTAACTTT-AATCTGACCCAATATAACTTCAAGGGTATAGGATTTG
1 AGATAAGATTCACCATTGT-AGTTTCAATCTGACCCACTGCAACTT-TAGGGTATAGGATTTG
69483724 AAGCTTCAAT
Statistics
Matches: 201, Mismatches: 43, Indels: 12
0.79 0.17 0.05
Matches are distributed among these distances:
93 1 0.00
94 191 0.95
95 9 0.04
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (93 bp):
AGATAAGATTCACCATTGTAGTTTCAATCTGACCCACTGCAACTTTAGGGTATAGGATTTGTACT
TTCATCTTGCTCAACTATAACTTTAGAG
Found at i:69483697 original size:188 final size:188
Alignment explanation
Indices: 69483380--69483750 Score: 444
Period size: 188 Copynumber: 2.0 Consensus size: 188
69483370 AATTTCAGGT
* *
69483380 AGATAAGATTCACCATTGTAGTTCCATTCCGACCCACTGCAACTTTAGAGGTATAGGACTTGTAC
1 AGATAAGATTCACCACTGTAGTTCAATTCCGACCCACTGCAACTTTAGAGGTATAGGACTTGTAC
** * * ** **
69483445 TTTCATCTTGCTTTATTAAAACTTTAGAGAGATAAGATTCGTCATTGTAGTTTTAATCTGACCCA
66 TTTCATCTTGCTCCACTAAAACTTTAGAGAGATAAGATTCCTCACGGTAACTTTAATCTGACCCA
* * **
69483510 CTACAACTTCACGGGTATAGAATTTGTTGCTTC-ATCTTACTCAACTATAACTTCAGAG
131 ATACAACTTCAAGGGTATAGAATTTGAAGCTTCAATC-TACTCAACTATAACTTCAGAG
* * * *
69483568 AGATAAGATTCACCACTGTAGATTCAATT-TGACCCACTGTAACTTTAGGGGTATAGGATTTGTA
1 AGATAAGATTCACCACTGTAG-TTCAATTCCGACCCACTGCAACTTTAGAGGTATAGGACTTGTA
* * **
69483632 GTTTCAAT-TTGGTCCACTGTAACTTTAGAGAGATAAGATTCACT-ACGGTAACTTTAATCTGAC
65 CTTTC-ATCTTGCTCCACTAAAACTTTAGAGAGATAAGATTC-CTCACGGTAACTTTAATCTGAC
* * * *
69483695 CCAATATAACTTCAAGGGTATAGGATTTGAAGCTTCAATCTACTCCACTGTAACTT
128 CCAATACAACTTCAAGGGTATAGAATTTGAAGCTTCAATCTACTCAACTATAACTT
69483751 TAAGGCTATA
Statistics
Matches: 153, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
188 141 0.92
189 12 0.08
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (188 bp):
AGATAAGATTCACCACTGTAGTTCAATTCCGACCCACTGCAACTTTAGAGGTATAGGACTTGTAC
TTTCATCTTGCTCCACTAAAACTTTAGAGAGATAAGATTCCTCACGGTAACTTTAATCTGACCCA
ATACAACTTCAAGGGTATAGAATTTGAAGCTTCAATCTACTCAACTATAACTTCAGAG
Found at i:69483732 original size:94 final size:93
Alignment explanation
Indices: 69483464--69483752 Score: 312
Period size: 94 Copynumber: 3.1 Consensus size: 93
69483454 GCTTTATTAA
* * * * *
69483464 AACTTTAGAGAGATAAGATTC-GTCATTGTAGTTTTAATCTGACCCACTACAACTTCACGGGTAT
1 AACTTTAGAGAGATAAGATTCACT-ACTGTA-ATTTAATCTGACCCACTATAACTTCAAGGGTAT
* * * *
69483528 AGAATTTGTTGCTTC-ATCTTACTCAACTAT
64 AGGATTTGTAGCTTCAAT-TTACTCCACTGT
* * * * * * *
69483558 AACTTCAGAGAGATAAGATTCACCACTGTAGATTCAATTTGACCCACTGTAACTTTAGGGGTATA
1 AACTTTAGAGAGATAAGATTCACTACTGTA-ATTTAATCTGACCCACTATAACTTCAAGGGTATA
* **
69483623 GGATTTGTAGTTTCAATTTGGTCCACTGT
65 GGATTTGTAGCTTCAATTTACTCCACTGT
* *
69483652 AACTTTAGAGAGATAAGATTCACTACGGTAACTTTAATCTGACCCAATATAACTTCAAGGGTATA
1 AACTTTAGAGAGATAAGATTCACTACTGTAA-TTTAATCTGACCCACTATAACTTCAAGGGTATA
* *
69483717 GGATTTGAAGCTTCAATCTACTCCACTGT
65 GGATTTGTAGCTTCAATTTACTCCACTGT
69483746 AACTTTA
1 AACTTTA
69483753 AGGCTATAGG
Statistics
Matches: 160, Mismatches: 32, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
93 1 0.01
94 157 0.98
95 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (93 bp):
AACTTTAGAGAGATAAGATTCACTACTGTAATTTAATCTGACCCACTATAACTTCAAGGGTATAG
GATTTGTAGCTTCAATTTACTCCACTGT
Found at i:69483765 original size:138 final size:138
Alignment explanation
Indices: 69483601--69483893 Score: 349
Period size: 138 Copynumber: 2.1 Consensus size: 138
69483591 TCAATTTGAC
* * * * ** *
69483601 CCACTGTAACTTTAGGGGTATAGGATTTGTAGTTTCAATTTGGTCCACTGTAACTTT-AGAGAGA
1 CCACTGTAACTTTAAGGCTATAGGATTTGTAGCTTCAATCTACTCCACTGCAA-TTTCAGAGAGA
* * * *
69483665 TAAGATTCA-CTACGGTA-ACTTTAATCTGACCCAATATAACTTCAAGGGTATAGGATTTGAAGC
65 TAAGATT-AGCTACGGTAGA-TTCAATCGGACCCAATACAACTTCAAGGGTATAGGAGTTGAAGC
69483728 TTCAATCTACT
128 TTCAATCTACT
*
69483739 CCACTGTAACTTTAAGGCTATAGGATTTGTAGCTTCAATCTACTCCACTGCAATTTCAGGGAGAT
1 CCACTGTAACTTTAAGGCTATAGGATTTGTAGCTTCAATCTACTCCACTGCAATTTCAGAGAGAT
* * * ** *
69483804 AAGATTAGCTATGGTAGATTCAATCGGACCCATTACAACTTCAGGGGTATAGGAGTTGTGGCTTT
66 AAGATTAGCTACGGTAGATTCAATCGGACCCAATACAACTTCAAGGGTATAGGAGTTGAAGCTTC
*
69483869 AATCTGCT
131 AATCTACT
* *
69483877 CCACTGCAACTTCAAGG
1 CCACTGTAACTTTAAGG
69483894 AGATAAGATT
Statistics
Matches: 131, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
137 4 0.03
138 126 0.96
139 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (138 bp):
CCACTGTAACTTTAAGGCTATAGGATTTGTAGCTTCAATCTACTCCACTGCAATTTCAGAGAGAT
AAGATTAGCTACGGTAGATTCAATCGGACCCAATACAACTTCAAGGGTATAGGAGTTGAAGCTTC
AATCTACT
Found at i:69483896 original size:94 final size:94
Alignment explanation
Indices: 69483728--69484520 Score: 995
Period size: 94 Copynumber: 8.4 Consensus size: 94
69483718 GATTTGAAGC
* * * * *
69483728 TTCAATCT-ACTCCACTGTAACTTTAAGGCTATAGGATTTGTAGCTTCAATCTACTCCACTGCAA
1 TTCAATCTGAC-CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAA
* * *
69483792 TTTCAGGGAGATAAGATTAGCTATGGTAGA
65 CTTCAAGGAGATAAGATTCGCTATGGTAGA
* * * * * *
69483822 TTCAATCGGACCCATTACAACTTCAGGGGTATAGGAGTTGTGGCTTTAATCTGCTCCACTGCAAC
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAAC
69483887 TTCAAGGAGATAAGATTCGCTATGGTAGA
66 TTCAAGGAGATAAGATTCGCTATGGTAGA
* * *
69483916 TTCAGTCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCCTACTCCACTGAAA
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAAT-CTGCTCCACTGCAA
*
69483981 CTTC-AGGAAGATAAGATTTGCTATGGTAGA
65 CTTCAAGG-AGATAAGATTCGCTATGGTAGA
* * * * * *
69484011 TTTATTCTGACCCACTGCAACTTCAGCGGTATAGGATTTGTAGCTTCAATATGCTCTATTGCAAC
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* *
69484076 TTCAGGGAGATAAGATTCGCTATGGAAGA
66 TTCAAGGAGATAAGATTCGCTATGGTAGA
* * *
69484105 TTCAATAC-GACCCACTGCAACTTCAGGGGTATAGGATTTATAGCTTCAACCTACTCCACTGCAA
1 TTCAAT-CTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAA
* *
69484169 CTTCAGGGAGATAAGATTCGCTATAGTAGA
65 CTTCAAGGAGATAAGATTCGCTATGGTAGA
* ** * * * *
69484199 TTCAAT-TCGACCCATTAAAACTTCAAGGGTATATGATTTGTAGCTTCAATTTGCTCCACTACAA
1 TTCAATCT-GACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAA
**
69484263 -TTTTAGAGAGATAAGATTCGCTATGGTAGA
65 CTTCAAG-GAGATAAGATTCGCTATGGTAGA
* * *
69484293 TTCAATCTGACCTACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCTACTACAAC
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAAC
*
69484358 TTGAAGGAGATAAGATTCGCTATGGTAGA
66 TTCAAGGAGATAAGATTCGCTATGGTAGA
* * * *
69484387 TTTAATTTGACCCACTGCAACTTCA-GGGTATAGGATTTGTAGCTTAAATATGCTCCACTGCAAC
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* ** *
69484451 TTCAAGGAGATAAGATCCATTATGGTAAA
66 TTCAAGGAGATAAGATTCGCTATGGTAGA
* * *
69484480 TTCAATCGGACCCACTACAACTTTAGGGGTATAGGATTTGT
1 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGT
69484521 GTTTCACTAA
Statistics
Matches: 601, Mismatches: 87, Indels: 22
0.85 0.12 0.03
Matches are distributed among these distances:
93 82 0.14
94 425 0.71
95 94 0.16
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (94 bp):
TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAAC
TTCAAGGAGATAAGATTCGCTATGGTAGA
Found at i:69484033 original size:50 final size:49
Alignment explanation
Indices: 69483783--69484413 Score: 192
Period size: 50 Copynumber: 13.3 Consensus size: 49
69483773 TCAATCTACT
* * *
69483783 CCACTGCAATTTCAGGGAGATAAGATTAGCTATGGTAGATTCAA-TCGGAC
1 CCACTGCAACTTCA-GGAGATAAGATTTGCTATGGTAGATT-AATTCTGAC
* * * * *
69483833 CCATTACAACTTCAGGGGTATAGGAGTTG---TGGCT---TTAA-TCTG-C
1 CCACTGCAACTTCAGGAG-ATAAGATTTGCTATGG-TAGATTAATTCTGAC
* * *
69483876 TCCACTGCAACTTCAAGGAGATAAGATTCGCTATGGTAGATTCAGTCTGAC
1 -CCACTGCAACTTC-AGGAGATAAGATTTGCTATGGTAGATTAATTCTGAC
* * * * *
69483927 CCACTGCAACTTCAGGGGTATAGGATTTG-TA-GCT---TCAATCCT-AC
1 CCACTGCAACTTCAGGAG-ATAAGATTTGCTATGGTAGATTAATTCTGAC
* *
69483971 TCCACTGAAACTTCAGGAAGATAAGATTTGCTATGGTAGATTTATTCTGAC
1 -CCACTGCAACTTCAGG-AGATAAGATTTGCTATGGTAGATTAATTCTGAC
* * * *
69484022 CCACTGCAACTTCAGCG-GTATAGGATTTG-TA-GCT---TCAA-TATG-C
1 CCACTGCAACTTCAG-GAG-ATAAGATTTGCTATGGTAGATTAATTCTGAC
* * * * *
69484065 TCTATTGCAACTTCAGGGAGATAAGATTCGCTATGGAAGATTCAATAC-GAC
1 -CCACTGCAACTTCA-GGAGATAAGATTTGCTATGGTAGATT-AATTCTGAC
* * * *
69484116 CCACTGCAACTTCAGGGGTATAGGA-TT--TA---TAGCTTCAA-CCT-AC
1 CCACTGCAACTTCAGGAG-ATAAGATTTGCTATGGTAGATT-AATTCTGAC
* *
69484159 TCCACTGCAACTTCAGGGAGATAAGATTCGCTATAGTAGATTCAATTC-GAC
1 -CCACTGCAACTTCA-GGAGATAAGATTTGCTATGGTAGATT-AATTCTGAC
* ** * * *
69484210 CCATTAAAACTTCAAGG-GTATATGATTTG-TA-GCT---TCAATT-TG-C
1 CCACTGCAACTTC-AGGAG-ATAAGATTTGCTATGGTAGATTAATTCTGAC
* * * *
69484253 TCCACTACAATTTTAGAGAGATAAGATTCGCTATGGTAGATTCAA-TCTGAC
1 -CCACTGCAACTTCAG-GAGATAAGATTTGCTATGGTAGATT-AATTCTGAC
* * * * *
69484304 CTACTGCAACTTCAGGGGTATAGGATTTG-TA-GCT---TCAA-TCTG-C
1 CCACTGCAACTTCAGGAG-ATAAGATTTGCTATGGTAGATTAATTCTGAC
* * * *
69484347 TCTACTACAACTTGAAGGAGATAAGATTCGCTATGGTAGATTTAATT-TGAC
1 -CCACTGCAACTT-CAGGAGATAAGATTTGCTATGGTAGA-TTAATTCTGAC
69484398 CCACTGCAACTTCAGG
1 CCACTGCAACTTCAGG
69484414 GTATAGGATT
Statistics
Matches: 417, Mismatches: 93, Indels: 143
0.64 0.14 0.22
Matches are distributed among these distances:
43 9 0.02
44 123 0.29
45 55 0.13
46 9 0.02
47 12 0.03
48 8 0.02
49 32 0.08
50 157 0.38
51 12 0.03
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (49 bp):
CCACTGCAACTTCAGGAGATAAGATTTGCTATGGTAGATTAATTCTGAC
Found at i:69484168 original size:44 final size:44
Alignment explanation
Indices: 69483702--69484454 Score: 242
Period size: 44 Copynumber: 16.2 Consensus size: 44
69483692 GACCCAATAT
* *
69483702 AACTTCAAGGGTATAGGATTTGA-AGCTTCAATCTACTCCACTGT
1 AACTTCAGGGGTATAGGATTT-ATAGCTTCAATCTACTCCACTGC
* * * *
69483746 AACTTTAAGGCTATAGGATTTGTAGCTTCAATCTACTCCACTGC
1 AACTTCAGGGGTATAGGATTTATAGCTTCAATCTACTCCACTGC
* * * * * *
69483790 AATTTCAGGGAG-ATAAGATTAGCTATGGTAGATTCAATCGGAC-CCATTAC
1 AACTTCAGGG-GTATAGGATT---TA---TAGCTTCAATC-TACTCCACTGC
* * * * *
69483840 AACTTCAGGGGTATAGGAGTTGTGGCTTTAATCTGCTCCACTGC
1 AACTTCAGGGGTATAGGATTTATAGCTTCAATCTACTCCACTGC
* * * *
69483884 AACTTCAAGGAG-ATAAGATTCGCTATGGTAGATTCAGTCTGAC-CCACTGC
1 AACTTC-AGGGGTATAGGATT---TA---TAGCTTCAATCT-ACTCCACTGC
* *
69483934 AACTTCAGGGGTATAGGATTTGTAGCTTCAATCCTACTCCACTGA
1 AACTTCAGGGGTATAGGATTTATAGCTTCAAT-CTACTCCACTGC
* * * * *
69483979 AACTTCAGGAAG-ATAAGATTTGCTATGGTAGATTTATTCTGAC-CCACTGC
1 AACTTCAGG-GGTATAGGA-TT--TA---TAGCTTCAATCT-ACTCCACTGC
* * * * * *
69484029 AACTTCAGCGGTATAGGATTTGTAGCTTCAATATGCTCTATTGC
1 AACTTCAGGGGTATAGGATTTATAGCTTCAATCTACTCCACTGC
* * *
69484073 AACTTCAGGGAG-ATAAGATTCGCTATGGAAGATTCAATACGAC-CCACTGC
1 AACTTCAGGG-GTATAGGATT---TAT---AGCTTCAAT-CTACTCCACTGC
*
69484123 AACTTCAGGGGTATAGGATTTATAGCTTCAACCTACTCCACTGC
1 AACTTCAGGGGTATAGGATTTATAGCTTCAATCTACTCCACTGC
* * * * **
69484167 AACTTCAGGGAG-ATAAGATTCGCTATAGTAGATTCAATTCGAC-CCATTAA
1 AACTTCAGGG-GTATAGGA-T---T-TA-TAGCTTCAA-TCTACTCCACTGC
* * * * * *
69484217 AACTTCAAGGGTATATGATTTGTAGCTTCAATTTGCTCCACTAC
1 AACTTCAGGGGTATAGGATTTATAGCTTCAATCTACTCCACTGC
* * * * * *
69484261 AATTTTAGAGAG-ATAAGATTCGCTATGGTAGATTCAATCTGAC-CTACTGC
1 AACTTCAG-GGGTATAGGATT---TA---TAGCTTCAATCT-ACTCCACTGC
* * * *
69484311 AACTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCTACTAC
1 AACTTCAGGGGTATAGGATTTATAGCTTCAATCTACTCCACTGC
* * * * * *
69484355 AACTTGAAGGAG-ATAAGATTCGCTATGGTAGATTTAATTTGAC-CCACTGC
1 AACTT-CAGGGGTATAGGATT---TA---TAGCTTCAATCT-ACTCCACTGC
* * * *
69484405 AACTTCA-GGGTATAGGATTTGTAGCTTAAATATGCTCCACTGC
1 AACTTCAGGGGTATAGGATTTATAGCTTCAATCTACTCCACTGC
69484448 AACTTCA
1 AACTTCA
69484455 AGGAGATAAG
Statistics
Matches: 513, Mismatches: 124, Indels: 145
0.66 0.16 0.19
Matches are distributed among these distances:
42 1 0.00
43 31 0.06
44 200 0.39
45 36 0.07
46 5 0.01
47 13 0.03
48 4 0.01
49 23 0.04
50 182 0.35
51 18 0.04
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (44 bp):
AACTTCAGGGGTATAGGATTTATAGCTTCAATCTACTCCACTGC
Found at i:69492698 original size:17 final size:15
Alignment explanation
Indices: 69492665--69492693 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
69492655 AAGGTTTTAA
69492665 TGTTTTTTTTTTGTT
1 TGTTTTTTTTTTGTT
69492680 TGTTTTTTTTTTGT
1 TGTTTTTTTTTTGT
69492694 ATTTGGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (15 bp):
TGTTTTTTTTTTGTT
Found at i:69496372 original size:29 final size:29
Alignment explanation
Indices: 69496330--69496388 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
69496320 AGCCGAGGGG
69496330 ATGACTTCCTCCTTCAATCGAACCCTCTT
1 ATGACTTCCTCCTTCAATCGAACCCTCTT
*
69496359 ATGAGTTCCTCCTTCAATCGAACCCTCTT
1 ATGACTTCCTCCTTCAATCGAACCCTCTT
69496388 A
1 A
69496389 CTCTTGCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.22, C:0.36, G:0.08, T:0.34
Consensus pattern (29 bp):
ATGACTTCCTCCTTCAATCGAACCCTCTT
Found at i:69498373 original size:21 final size:21
Alignment explanation
Indices: 69498349--69498388 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
69498339 TCCTAAGATG
*
69498349 TGAATTGGATTCAATTGAGTA
1 TGAATTGGATTAAATTGAGTA
*
69498370 TGAATTGTATTAAATTGAG
1 TGAATTGGATTAAATTGAG
69498389 CTAAATTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.40
Consensus pattern (21 bp):
TGAATTGGATTAAATTGAGTA
Found at i:69498976 original size:25 final size:25
Alignment explanation
Indices: 69498898--69498999 Score: 70
Period size: 25 Copynumber: 4.2 Consensus size: 25
69498888 GTTTTTTGTC
* * *
69498898 AGCTTCTTGATTAATGGCTCTCCAG
1 AGCTTCCTGATTAATGGCTATTCAG
* * *
69498923 AGCTACCCGA-T-ATGGCTCACTTTA-
1 AGCTTCCTGATTAATGGCT-A-TTCAG
*
69498947 A-CTTCCTGA-TATATGGCTATTCAT
1 AGCTTCCTGATTA-ATGGCTATTCAG
*
69498971 AGCTTCCTGATTAATGGCTCTTCAG
1 AGCTTCCTGATTAATGGCTATTCAG
69498996 AGCT
1 AGCT
69499000 GGCTCGCATG
Statistics
Matches: 59, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
23 16 0.27
24 4 0.07
25 37 0.63
26 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (25 bp):
AGCTTCCTGATTAATGGCTATTCAG
Found at i:69500464 original size:21 final size:21
Alignment explanation
Indices: 69500438--69500480 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
69500428 TGGGCCTCGA
69500438 GGGCTCATATAAGGGACTTAT
1 GGGCTCATATAAGGGACTTAT
69500459 GGGCTCATATAAGGGACTTAT
1 GGGCTCATATAAGGGACTTAT
69500480 G
1 G
69500481 AATAATATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (21 bp):
GGGCTCATATAAGGGACTTAT
Found at i:69512275 original size:26 final size:26
Alignment explanation
Indices: 69512237--69512356 Score: 81
Period size: 26 Copynumber: 4.8 Consensus size: 26
69512227 ACAGCTCTTA
* * *
69512237 TGAGCGTCTCGATATATGGCTCTTTG
1 TGAGCTTCCCGATATATGGCTCTCTG
* * *
69512263 TGAGCTTCCCGAT-TAAAGGCTTTTTG
1 TGAGCTTCCCGATAT-ATGGCTCTCTG
* *
69512289 TGAGCTTCCTGAT-TAATGGCTCTCCG
1 TGAGCTTCCCGATAT-ATGGCTCTCTG
*
69512315 -GAGCTTCCC-A-ATATGGCTCACT-
1 TGAGCTTCCCGATATATGGCTCTCTG
* *
69512337 TGAACTTCCCAATATATGGC
1 TGAGCTTCCCGATATATGGC
69512357 GATCCGAAGC
Statistics
Matches: 76, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
23 16 0.21
24 3 0.04
25 16 0.21
26 41 0.54
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (26 bp):
TGAGCTTCCCGATATATGGCTCTCTG
Found at i:69512417 original size:25 final size:25
Alignment explanation
Indices: 69512352--69512411 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
69512342 TTCCCAATAT
* *
69512352 ATGGCGATCCGAAGCTTTCTGATTA
1 ATGGCTATTCGAAGCTTTCTGATTA
69512377 ATGGCTATTCGAAGCTTTCTGATTA
1 ATGGCTATTCGAAGCTTTCTGATTA
69512402 ATGGCTATTC
1 ATGGCTATTC
69512412 AGAGCTACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (25 bp):
ATGGCTATTCGAAGCTTTCTGATTA
Found at i:69515916 original size:20 final size:19
Alignment explanation
Indices: 69515870--69515916 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
69515860 AGTCCTTTTT
*
69515870 CCTAATTTCTCCTAATTAAG
1 CCTAA-TTCACCTAATTAAG
69515890 -CTAAATTCACCTAATTAAAG
1 CCT-AATTCACCTAATT-AAG
69515910 CCTAATT
1 CCTAATT
69515917 AAACACACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 12 0.52
20 9 0.39
21 2 0.09
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.36
Consensus pattern (19 bp):
CCTAATTCACCTAATTAAG
Found at i:69518723 original size:23 final size:20
Alignment explanation
Indices: 69518664--69518753 Score: 69
Period size: 21 Copynumber: 4.2 Consensus size: 20
69518654 TATTTTTGAA
69518664 TTTTT-TTTCTTTT-TTTTCC
1 TTTTTCTTTCTTTTGTTTT-C
*
69518683 TTTTTTCTTT-TTCATGTTCTTC
1 -TTTTTCTTTCTT-TTGTT-TTC
69518705 TTTTTCATTTCCTTTTGTTTTGC
1 TTTTTC-TTT-CTTTTGTTTT-C
*
69518728 TTTTTCTTTCTTTTTTTGTTC
1 TTTTTCTTTCTTTTGTT-TTC
69518749 TTTTT
1 TTTTT
69518754 TGAAAATGGT
Statistics
Matches: 58, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
20 7 0.12
21 23 0.40
22 13 0.22
23 13 0.22
24 2 0.03
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTTCTTTCTTTTGTTTTC
Found at i:69523359 original size:21 final size:21
Alignment explanation
Indices: 69523330--69523370 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
69523320 ATAGGATATG
*
69523330 TGATGTGGCCTGTTAACTAGT
1 TGATATGGCCTGTTAACTAGT
*
69523351 TGATATGGCTTGTTAACTAG
1 TGATATGGCCTGTTAACTAG
69523371 CCATATTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.12, G:0.27, T:0.39
Consensus pattern (21 bp):
TGATATGGCCTGTTAACTAGT
Found at i:69537037 original size:3 final size:3
Alignment explanation
Indices: 69537029--69537058 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
69537019 AGCCATCCTT
69537029 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
69537059 ATGTAAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:69560113 original size:19 final size:20
Alignment explanation
Indices: 69560073--69560116 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
69560063 GTCTCTTTAG
* *
69560073 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
69560092 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
69560111 GCATTA
1 GCATTA
69560117 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:69564494 original size:44 final size:44
Alignment explanation
Indices: 69564444--69564670 Score: 174
Period size: 44 Copynumber: 5.2 Consensus size: 44
69564434 GACAAAAGAT
69564444 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * ** ** * * * * *
69564488 CTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTCCTAC-ATTGACAGCGAAGCAGATCGAAGACACAA-AC
69564532 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * ** ** * * * * *
69564576 CTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTCCTAC-ATTGACAGCGAAGCAGATCGAAGACACAA-AC
69564620 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAAC
69564664 CTTGCCT
1 CTTGCCT
69564671 CTTTCGGTTG
Statistics
Matches: 127, Mismatches: 48, Indels: 16
0.66 0.25 0.08
Matches are distributed among these distances:
43 36 0.28
44 55 0.43
45 36 0.28
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.24
Consensus pattern (44 bp):
CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAAC
Found at i:69564579 original size:88 final size:88
Alignment explanation
Indices: 69564430--69564746 Score: 607
Period size: 88 Copynumber: 3.6 Consensus size: 88
69564420 GACAGATCAA
69564430 TGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
69564495 CTTTCGGTTGTGATAGAGCTGGT
66 CTTTCGGTTGTGATAGAGCTGGT
69564518 TGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
69564583 CTTTCGGTTGTGATAGAGCTGGT
66 CTTTCGGTTGTGATAGAGCTGGT
69564606 TGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
69564671 CTTTCGGTTGTGATAGAGCTGGT
66 CTTTCGGTTGTGATAGAGCTGGT
* * *
69564694 TGAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACA
1 TGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACA
69564747 AAGCCTCGCC
Statistics
Matches: 226, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 226 1.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (88 bp):
TGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
CTTTCGGTTGTGATAGAGCTGGT
Found at i:69564712 original size:44 final size:44
Alignment explanation
Indices: 69564488--69564714 Score: 174
Period size: 44 Copynumber: 5.2 Consensus size: 44
69564478 AGACACAAAC
69564488 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
* * * ** ** * * * * *
69564532 CTTGCCTTCCTAC-ATTGACAGCGAAGCAGATCGAAGACACAA-AC
1 CTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTTGAAGACAAAAGAT
69564576 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
* * * ** ** * * * * *
69564620 CTTGCCTTCCTAC-ATTGACAGCGAAGCAGATCGAAGACACAA-AC
1 CTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTTGAAGACAAAAGAT
69564664 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
69564708 CTTGCCT
1 CTTGCCT
69564715 TCCTGCATTA
Statistics
Matches: 127, Mismatches: 48, Indels: 16
0.66 0.25 0.08
Matches are distributed among these distances:
43 36 0.28
44 55 0.43
45 36 0.28
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (44 bp):
CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
Found at i:69564897 original size:44 final size:43
Alignment explanation
Indices: 69564839--69565075 Score: 122
Period size: 44 Copynumber: 5.4 Consensus size: 43
69564829 GACACTATCC
* * *
69564839 TATCTCCCTAAAGTTACAGTGGAGTGGATTAAAATAAAAGATCT
1 TATCTCTCTGAAGTTACAGTGGAGTAGA-TAAAATAAAAGATCT
** *** * *
69564883 TATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT--CAGGTCT
1 TATCTCTCTGAAGTTACAGTGGAGTAGATAAAATAAAAGATCT
* * * ***
69564924 TATCTC-CTTGAGGTTACCGTGGAGTAGACCGAAGAATTTCAGATCT
1 TATCTCTC-TGAAGTTACAGTGGAGTAGA--TAA-AATAAAAGATCT
* * ** * * ** *
69564970 TATCTCTCTG-AGATTACAGCGGAGCAGATCGAAGACACTATCC
1 TATCTCTCTGAAG-TTACAGTGGAGTAGATAAAATAAAAGATCT
* * *
69565013 TATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCT
1 TATCTCTCTGAAGTTACAGTGGAGTAGA-TAAAATAAAAGATCT
*
69565057 TATCTCTCTGAGGTTACAG
1 TATCTCTCTGAAGTTACAG
69565076 CAGAGTAGGT
Statistics
Matches: 137, Mismatches: 46, Indels: 20
0.67 0.23 0.10
Matches are distributed among these distances:
40 1 0.01
41 27 0.20
43 29 0.21
44 52 0.38
45 1 0.01
46 26 0.19
47 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (43 bp):
TATCTCTCTGAAGTTACAGTGGAGTAGATAAAATAAAAGATCT
Found at i:69564989 original size:87 final size:84
Alignment explanation
Indices: 69564839--69565125 Score: 263
Period size: 87 Copynumber: 3.3 Consensus size: 84
69564829 GACACTATCC
* * **
69564839 TATCTCCCTAAAGTTACAGTGGAGTGGATTAAAATAAAAGATCTTATCTCTCTGA-AGTTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGTAGACGAAAAT-AAAGATCTTATCTCTCTGAGA-TTACAGC
*
69564903 AGAGTAGATCGCATCAGGTCT
64 AGAGTAGATCGCATCAAGTCT
* * * **
69564924 TATCTCCTTGAGGTTACCGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCTCTGAGATTACAG
1 TATCTCCCTGAAGTTACAGTGGAGTAGA-CGAA-AA-TAAAGATCTTATCTCTCTGAGATTACAG
* * * * *
69564989 CGGAGCAGATCGAAGACACTA-TCC
63 CAGAGTAGATCGCA-TCA--AGTCT
* ** *
69565013 TATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCA
1 TATCTCCCTGAAGTTACAGTGGAGTAGACGAAAATAAA-GATCTTATCTCTCTGAGATTACAGCA
*
69565078 GAGTAGGTCGCATCAAGTCT
65 GAGTAGATCGCATCAAGTCT
* * * *
69565098 TATTTCCCTGAAGATGCAGTGGAATAGA
1 TATCTCCCTGAAGTTACAGTGGAGTAGA
69565126 TTGAAAACAA
Statistics
Matches: 158, Mismatches: 35, Indels: 18
0.75 0.17 0.09
Matches are distributed among these distances:
84 1 0.01
85 48 0.30
86 6 0.04
87 71 0.45
88 6 0.04
89 26 0.16
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (84 bp):
TATCTCCCTGAAGTTACAGTGGAGTAGACGAAAATAAAGATCTTATCTCTCTGAGATTACAGCAG
AGTAGATCGCATCAAGTCT
Found at i:69565003 original size:46 final size:44
Alignment explanation
Indices: 69564877--69565083 Score: 119
Period size: 46 Copynumber: 4.8 Consensus size: 44
69564867 TTAAAATAAA
* *
69564877 AGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATC---GCATC
1 AGATCTTATCTCTCTGAGA-TTACAGCGGAGTAGATCGAAGAATC
* * * * *
69564918 AGGTCTTATCTC-CTTGAGGTTACCGTGGAGTAGACCGAAGAATTTC
1 AGATCTTATCTCTC-TGAGATTACAGCGGAGTAGATCGAAGAA--TC
*
69564964 AGATCTTATCTCTCTGAGATTACAGCGGAGCAGATCGAAG-A-C
1 AGATCTTATCTCTCTGAGATTACAGCGGAGTAGATCGAAGAATC
* * * * * * *
69565006 ACTATCCTATCTCCCTGA-AGTTACAGTGGAGTGGAT-TAA-AATAA
1 A-GATCTTATCTCTCTGAGA-TTACAGCGGAGTAGATCGAAGAAT-C
* *
69565050 AGGATCTTATCTCTCTGAGGTTACAGCAGAGTAG
1 A-GATCTTATCTCTCTGAGATTACAGCGGAGTAG
69565084 GTCGCATCAA
Statistics
Matches: 123, Mismatches: 29, Indels: 25
0.69 0.16 0.14
Matches are distributed among these distances:
40 1 0.01
41 27 0.22
42 6 0.05
43 26 0.21
44 27 0.22
45 1 0.01
46 34 0.28
47 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
AGATCTTATCTCTCTGAGATTACAGCGGAGTAGATCGAAGAATC
Found at i:69565201 original size:174 final size:174
Alignment explanation
Indices: 69564813--69565153 Score: 452
Period size: 174 Copynumber: 2.0 Consensus size: 174
69564803 CCTAAGCCGT
** * *
69564813 AGCGGAGCAGATTAAAGACACTATCCTATCTCCCTAAAGTTACAGTGGAGTGGATTAAAATAAAA
1 AGCGGAGCAGATCGAAGACACTATCCGATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAAA
* * * * *
69564878 GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCTTGAGGTTACCG
66 GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAGTCTTATCTCCCTGAAGATACAG
* *** * *
69564943 TGGAGTAGACCGAAGAATTTCAGATCTTATCTCTCTGAGATTAC
131 TGGAATAGACCGAAGAACAACAGATCTTATCCCCCTGAGATTAC
* *
69564987 AGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAAG
1 AGCGGAGCAGATCGAAGACACTATCCGATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAAA
* * * *
69565052 GATCTTATCTCTCTGAGGTTACAGCAGAGTAGGTCGCATCAAGTCTTATTTCCCTGAAGATGCAG
66 GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAGTCTTATCTCCCTGAAGATACAG
**
69565117 TGGAATAGATTGAA-AACAAC-GAATCTTATCCCCCTGA
131 TGGAATAGACCGAAGAACAACAG-ATCTTATCCCCCTGA
69565154 AGTTGTAGTG
Statistics
Matches: 145, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
172 1 0.01
173 16 0.11
174 128 0.88
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (174 bp):
AGCGGAGCAGATCGAAGACACTATCCGATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAAA
GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAGTCTTATCTCCCTGAAGATACAG
TGGAATAGACCGAAGAACAACAGATCTTATCCCCCTGAGATTAC
Found at i:69566767 original size:39 final size:40
Alignment explanation
Indices: 69566696--69566775 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
69566686 CTATTAGTAA
69566696 TATTATTATTATCCTTATTTCATTTATGTTTTCTTTCATTTT
1 TATTATTATTAT-CTTATTTCATTTATGTTTTCTTTC-TTTT
*
69566738 TATTTTTATTAT-TTATTT-ATTTTAT-TTTTCTTTCTTTT
1 TATTATTATTATCTTATTTCA-TTTATGTTTTCTTTCTTTT
69566776 CTAAAGTTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
38 4 0.11
39 10 0.28
40 11 0.31
42 11 0.31
ACGTcount: A:0.17, C:0.09, G:0.01, T:0.72
Consensus pattern (40 bp):
TATTATTATTATCTTATTTCATTTATGTTTTCTTTCTTTT
Found at i:69574413 original size:9 final size:9
Alignment explanation
Indices: 69574399--69574435 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
69574389 TTTAAAATAT
69574399 TATGATAAA
1 TATGATAAA
69574408 TATGATAAA
1 TATGATAAA
69574417 TAT-A-AAA
1 TATGATAAA
*
69574424 TATTATAAA
1 TATGATAAA
69574433 TAT
1 TAT
69574436 TTTAGAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 6 0.23
8 2 0.08
9 18 0.69
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (9 bp):
TATGATAAA
Found at i:69574426 original size:16 final size:16
Alignment explanation
Indices: 69574405--69574435 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
69574395 ATATTATGAT
69574405 AAATATGATAAATATA
1 AAATATGATAAATATA
*
69574421 AAATATTATAAATAT
1 AAATATGATAAATAT
69574436 TTTAGAGTTT
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:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
AAATATGATAAATATA
Found at i:69578000 original size:17 final size:19
Alignment explanation
Indices: 69577978--69578021 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
69577968 ACTGTTGGAG
69577978 TAGG-AATAT-CGATACCT
1 TAGGAAATATACGATACCT
69577995 TAGGAAATATAACGATACCT
1 TAGGAAATAT-ACGATACCT
*
69578015 TAAGAAA
1 TAGGAAA
69578022 AGTATCGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
20 14 0.61
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (19 bp):
TAGGAAATATACGATACCT
Found at i:69578030 original size:20 final size:20
Alignment explanation
Indices: 69577983--69578032 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
69577973 TGGAGTAGGA
*
69577983 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
*
69578003 ATAACGATACCTTAAGAAA-
1 ATATCGATACCTTAAGAAAT
69578022 AGTATCGATAC
1 A-TATCGATAC
69578033 TAGATCGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:69578409 original size:33 final size:33
Alignment explanation
Indices: 69578372--69578438 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
69578362 TGAATAGATT
*
69578372 GCTCCCTCTTA-ATAAAAGTCATTTTCAATTTAA
1 GCTCCCT-TTATATAAAAATCATTTTCAATTTAA
*
69578405 GCTCCCTTTATATAAAAATCATTTTTAATTTAA
1 GCTCCCTTTATATAAAAATCATTTTCAATTTAA
69578438 G
1 G
69578439 GCATAAAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 28 0.90
ACGTcount: A:0.34, C:0.18, G:0.06, T:0.42
Consensus pattern (33 bp):
GCTCCCTTTATATAAAAATCATTTTCAATTTAA
Found at i:69586048 original size:51 final size:51
Alignment explanation
Indices: 69585985--69586084 Score: 182
Period size: 51 Copynumber: 2.0 Consensus size: 51
69585975 ATTGGGTAAA
69585985 CTATCAAAATAGTCACTCTTGTTTGCCTTAGATATCATTTTATCACTTAAG
1 CTATCAAAATAGTCACTCTTGTTTGCCTTAGATATCATTTTATCACTTAAG
* *
69586036 CTATCTAAATAGTCACTTTTGTTTGCCTTAGATATCATTTTATCACTTA
1 CTATCAAAATAGTCACTCTTGTTTGCCTTAGATATCATTTTATCACTTA
69586085 TGTTTGAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (51 bp):
CTATCAAAATAGTCACTCTTGTTTGCCTTAGATATCATTTTATCACTTAAG
Found at i:69588997 original size:32 final size:32
Alignment explanation
Indices: 69588919--69589012 Score: 97
Period size: 32 Copynumber: 3.0 Consensus size: 32
69588909 TTGCCATAAA
* *
69588919 ATATAGTACTTACCATAAAGGCTTT-CTTGTCC
1 ATATAGTACTTACCACAAAGGCTTTCCTT-TTC
* * *
69588951 A-A-AGT-TTTGCCACAAAAGCTTTCCTTTTC
1 ATATAGTACTTACCACAAAGGCTTTCCTTTTC
*
69588980 ATATAGTACTTACCACAAAGGCTTTCCTGTTC
1 ATATAGTACTTACCACAAAGGCTTTCCTTTTC
69589012 A
1 A
69589013 GATTTTTGCC
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
29 16 0.33
30 7 0.14
31 4 0.08
32 22 0.45
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (32 bp):
ATATAGTACTTACCACAAAGGCTTTCCTTTTC
Found at i:69589036 original size:61 final size:61
Alignment explanation
Indices: 69588919--69589036 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
69588909 TTGCCATAAA
* * *
69588919 ATATAGTACTTACCATAAAGGCTTTCTTGTCCAAAGTTTTGCCACAAAAGCTTTCCTTTTC
1 ATATAGTACTTACCACAAAGGCTTTCCTGTCCAAAGTTTTGCCACAAAAGCCTTCCTTTTC
* * * **
69588980 ATATAGTACTTACCACAAAGGCTTTCCTGTTCAGATTTTTGCCACAAGGGCCTTCCT
1 ATATAGTACTTACCACAAAGGCTTTCCTGTCCAAAGTTTTGCCACAAAAGCCTTCCT
69589037 CGCACGGAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.36
Consensus pattern (61 bp):
ATATAGTACTTACCACAAAGGCTTTCCTGTCCAAAGTTTTGCCACAAAAGCCTTCCTTTTC
Found at i:69592560 original size:27 final size:28
Alignment explanation
Indices: 69592530--69592992 Score: 124
Period size: 27 Copynumber: 17.1 Consensus size: 28
69592520 TTTAGTTTAC
69592530 TAAAATTA-TCGAAATACCCTTAG-TTTG
1 TAAAATTACT-GAAATACCCTTAGATTTG
*
69592557 TAAAAATACTGAAATACCC-TAGATTTG
1 TAAAATTACTGAAATACCCTTAGATTTG
* *
69592584 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACTGAAATACCCTTAGATTTG
* * *
69592611 TAAAATTAC-CAAAGTACCC-TCGATTTA
1 TAAAATTACTGAAA-TACCCTTAGATTTG
* * * *** ** *
69592638 CATAATTATTGTTTTACCC-CCGATTTA
1 TAAAATTACTGAAATACCCTTAGATTTG
* * * *** * *
69592665 CATAATTACCGTTTTACCC-TCGATTTA
1 TAAAATTACTGAAATACCCTTAGATTTG
* *** * *
69592692 TAGAATTA-TCGTTTTACCC-TCGATTTA
1 TAAAATTACT-GAAATACCCTTAGATTTG
* *** *
69592719 TAGAATTACTGTTTTACCCTT-GATTTA
1 TAAAATTACTGAAATACCCTTAGATTTG
* ** * *
69592746 TAGAATTACT-ATTTTACCC-TCGATTTA
1 TAAAATTACTGA-AATACCCTTAGATTTG
* * * *
69592773 CAAAATTACTAAAATACCCTT-GGTTTC
1 TAAAATTACTGAAATACCCTTAGATTTG
** *
69592800 TAAAATTACCAAAATACCCCTAG-TTTG
1 TAAAATTACTGAAATACCCTTAGATTTG
** *
69592827 TAAAATTACCAAAATACCCTT-GGTTTG
1 TAAAATTACTGAAATACCCTTAGATTTG
* * *
69592854 TGAAATTACCGAAATACCCTCA-ATTTG
1 TAAAATTACTGAAATACCCTTAGATTTG
** * *
69592881 TAAAATTACCAAAATACCCCT-GATTTA
1 TAAAATTACTGAAATACCCTTAGATTTG
* * * *
69592908 CAAAGTTACAGAAATACCCTT-GACTTTT
1 TAAAATTACTGAAATACCCTTAGA-TTTG
* * *
69592936 TAAAAATTA-TGGAAATACCATT-GGTTTA
1 T-AAAATTACT-GAAATACCCTTAGATTTG
* *
69592964 CAAAATTACTGAAATACCCTT-GGTTTG
1 TAAAATTACTGAAATACCCTTAGATTTG
69592991 TA
1 TA
69592993 GATTTACCAA
Statistics
Matches: 357, Mismatches: 58, Indels: 42
0.78 0.13 0.09
Matches are distributed among these distances:
26 10 0.03
27 315 0.88
28 15 0.04
29 17 0.05
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (28 bp):
TAAAATTACTGAAATACCCTTAGATTTG
Found at i:69592672 original size:54 final size:54
Alignment explanation
Indices: 69592612--69592792 Score: 182
Period size: 54 Copynumber: 3.4 Consensus size: 54
69592602 TTCGACTTGT
* * * *
69592612 AAAATTACCAAAGTACCCTCGATTTACATAATTATTGTTTTACCCCCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTATAGAATTATTGTTTTACCCTCGATTTAC
* *** * *
69592666 ATAATTACCGTTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTAT
1 AAAATTACCAAATTACCCTCGATTTATAGAATTATTGTTTTACCCTCGATTTAC
* **** * * *
69592720 AGAATTACTGTTTTACCCTTGATTTATAGAATTACTATTTTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTATAGAATTATTGTTTTACCCTCGATTTAC
* *
69592774 AAAATTACTAAAATACCCT
1 AAAATTACCAAATTACCCT
69592793 TGGTTTCTAA
Statistics
Matches: 105, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 105 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (54 bp):
AAAATTACCAAATTACCCTCGATTTATAGAATTATTGTTTTACCCTCGATTTAC
Found at i:69592780 original size:81 final size:81
Alignment explanation
Indices: 69592625--69592780 Score: 213
Period size: 81 Copynumber: 1.9 Consensus size: 81
69592615 ATTACCAAAG
* * * *
69592625 TACCCTCGATTTACATAATTATTGTTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCCCGATTTACAGAATTACCATTTTACCCTCGATT
* *
69592690 TATAGAATTATCGTTT
66 TACAAAATTATCGTTT
* ** * *
69592706 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTATAGAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCCCGATTTACAGAATTACCATTTTACCCTCGATT
69592771 TACAAAATTA
66 TACAAAATTA
69592781 CTAAAATACC
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 64 1.00
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.43
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACTGTTTTACCCCCGATTTACAGAATTACCATTTTACCCTCGATT
TACAAAATTATCGTTT
Found at i:69592791 original size:81 final size:81
Alignment explanation
Indices: 69592612--69592792 Score: 195
Period size: 81 Copynumber: 2.2 Consensus size: 81
69592602 TTCGACTTGT
* * * * * *
69592612 AAAATTACCAAAGTACCCTCGATTTACATAATTATTGTTTTACCCCCGATTTACATAATTACCGT
1 AAAATTACTAAAATACCCTCGATTTACAGAATTACTGTTTTACCCCCGATTTACAGAATTACCAT
*
69592677 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* ** * ** * *
69592693 AGAATTATCGT--TTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTATAGAATTACT
1 AAAATTA-C-TAAAATACCCTCGATTTACAGAATTACTGTTTTACCCCCGATTTACAGAATTACC
69592756 ATTTTACCCTCGATTTAC
64 ATTTTACCCTCGATTTAC
69592774 AAAATTACTAAAATACCCT
1 AAAATTACTAAAATACCCT
69592793 TGGTTTCTAA
Statistics
Matches: 79, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
79 1 0.01
80 1 0.01
81 76 0.96
82 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTCGATTTACAGAATTACTGTTTTACCCCCGATTTACAGAATTACCAT
TTTACCCTCGATTTAC
Found at i:69592807 original size:54 final size:54
Alignment explanation
Indices: 69592679--69592899 Score: 158
Period size: 54 Copynumber: 4.1 Consensus size: 54
69592669 ATTACCGTTT
* * * * * * ****
69592679 TACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTTGGTTTATAAAATTACCATTTTACCCTCGATTTATAAAATTACTAAAA
* * * *
69592733 TACCCTTGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCATTTTACCCTCGATTTATAAAATTACTAAAA
* *** * * *
69592787 TACCCTTGGTTTCTAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCATTTTACCCTCGA-TTTATAAAATTACTAAAA
* * ** * * *
69592841 TACCCTTGGTTTGTGAAATTACCGA-AATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACC-ATTTTACCCTCGATTTATAAAATTACTAAAA
69592895 TACCC
1 TACCC
69592900 CTGATTTACA
Statistics
Matches: 140, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
53 2 0.01
54 135 0.96
55 3 0.02
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (54 bp):
TACCCTTGGTTTATAAAATTACCATTTTACCCTCGATTTATAAAATTACTAAAA
Found at i:69592922 original size:54 final size:52
Alignment explanation
Indices: 69592760--69592983 Score: 173
Period size: 54 Copynumber: 4.1 Consensus size: 52
69592750 ATTACTATTT
* ** *
69592760 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTCTAAAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTC--AAATTA-CAGAAA
* * *
69592814 TACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTGG-TT-TCAAATTACAGAAA
* *
69592868 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTT-CAAA-TTACAGAAA
* * * *** * *
69592922 TACCCTTGACTTTTTAAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCC-TCAATTTGT-AAAATTACCAAAATACCCTTGGTTT-C-AAATTACAGAAA
69592978 TACCCT
1 TACCCT
69592984 TGGTTTGTAG
Statistics
Matches: 138, Mismatches: 22, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
52 1 0.01
53 7 0.05
54 82 0.59
55 10 0.07
56 35 0.25
57 3 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (52 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTCAAATTACAGAAA
Found at i:69593073 original size:27 final size:27
Alignment explanation
Indices: 69593043--69593129 Score: 131
Period size: 27 Copynumber: 3.2 Consensus size: 27
69593033 ACCCCTATTA
*
69593043 GGTAAAGAGACCGTAAAGTCCCTGTAG
1 GGTAAAGAGACCGTAAAGCCCCTGTAG
69593070 GGTAAAGAGACCGTAAAGCCCCTGTAG
1 GGTAAAGAGACCGTAAAGCCCCTGTAG
* *
69593097 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAGAGACCGTAA-AGCCCCTGTAG
69593124 GGTAAA
1 GGTAAA
69593130 ATGACGAATA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (27 bp):
GGTAAAGAGACCGTAAAGCCCCTGTAG
Done.