Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 81 of 362
Found at i:25432925 original size:22 final size:22
Alignment explanation
Indices: 25432873--25432937 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
25432863 TTAAAGCCTT
* * *
25432873 CTGATTATGGGTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
25432895 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
25432917 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
25432938 ATGTATTTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:25433126 original size:27 final size:27
Alignment explanation
Indices: 25433096--25433197 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
25433086 ATTCTGTTAA
* *
25433096 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
25433123 GTGGCTATGCCACAAACATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
25433150 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
25433177 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
25433198 ATAATTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 52 0.80
28 6 0.09
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:25433367 original size:19 final size:19
Alignment explanation
Indices: 25433345--25433402 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
25433335 TTCTGATTTT
25433345 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
25433364 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
25433376 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
25433395 TGATTCTG
1 TGATTCTG
25433403 ATTCTGTCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:25433372 original size:6 final size:6
Alignment explanation
Indices: 25433334--25433447 Score: 65
Period size: 6 Copynumber: 18.3 Consensus size: 6
25433324 TTGCATTCAC
* * *
25433334 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
25433384 -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTTTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
25433434 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
25433448 AATGTTTCTT
Statistics
Matches: 82, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
5 6 0.07
6 59 0.72
7 14 0.17
8 3 0.04
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:25433380 original size:31 final size:31
Alignment explanation
Indices: 25433334--25433405 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
25433324 TTGCATTCAC
25433334 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
25433366 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
25433397 ATTCTGATT
1 ATTCTGATT
25433406 CTGTCACCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 33 0.82
32 7 0.17
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:25433391 original size:25 final size:25
Alignment explanation
Indices: 25433363--25433433 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
25433353 TTACCTGATA
*
25433363 CTGATTCTGATTTTGATTCTGTTAC
1 CTGATTCTGATTTTGATTCTGTCAC
* *
25433388 CTGATACTGATTCTGATTCTGTCAC
1 CTGATTCTGATTTTGATTCTGTCAC
*
25433413 CTAATTCTGATTTTGATTCTG
1 CTGATTCTGATTTTGATTCTG
25433434 ATTCTAGTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTTTGATTCTGTCAC
Found at i:25435425 original size:27 final size:27
Alignment explanation
Indices: 25435395--25435468 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
25435385 TTAGTTTACC
*
25435395 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
25435422 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
25435449 AAATTACCGGAATACCCCTG
1 AAATTACCAAAATACCCCTG
25435469 TAAGGTAGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:25435463 original size:54 final size:55
Alignment explanation
Indices: 25435405--25435727 Score: 211
Period size: 54 Copynumber: 6.0 Consensus size: 55
25435395 AAATCACCAA
** **
25435405 AATACCCCTGGT-TTGTAAAATTATCAAAATACCCCTAGT-TTGTAAAATTACCGG
1 AATACCCCTGGTAAGGTAAAATTATCAAAATACCCCT-GTAGGGTAAAATTACCGG
* * * *
25435459 AATACCCCT-GTAAGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACTGG
1 AATACCCCTGGTAAGGTAAAATTATCAAAATACCCCTGTAGGGTAAAATTACCGG
* * * * * * * *
25435513 AATACCCCT-GT-AGAGTAGAATTACCGAAATACCCCTGGAAGGTAGAATTATCGC
1 AATACCCCTGGTAAG-GTAAAATTATCAAAATACCCCTGTAGGGTAAAATTACCGG
* * * * *
25435567 AATACCCCT-GT-AGGATAGAATTA-CTGAAATACCCCTGTAGGGTAGAATTACTGA
1 AATACCCCTGGTAAGG-TAAAATTATC-AAAATACCCCTGTAGGGTAAAATTACCGG
* * * * * * * *
25435621 AATACCCC-AGTAGGGTAGAATTA-CTGAAATACTCCTGCAGGGTAGAATTACCGA
1 AATACCCCTGGTAAGGTAAAATTATC-AAAATACCCCTGTAGGGTAAAATTACCGG
* * **
25435675 AATACCCAT-GTAAGGTAGAATTA-CTAAAATACCCCTGTAGGGTGGAATTACCG
1 AATACCCCTGGTAAGGTAAAATTATC-AAAATACCCCTGTAGGGTAAAATTACCG
25435728 AGATACCTTG
Statistics
Matches: 232, Mismatches: 29, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
53 8 0.03
54 222 0.96
55 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (55 bp):
AATACCCCTGGTAAGGTAAAATTATCAAAATACCCCTGTAGGGTAAAATTACCGG
Found at i:25435480 original size:27 final size:27
Alignment explanation
Indices: 25435450--25435734 Score: 331
Period size: 27 Copynumber: 10.6 Consensus size: 27
25435440 TAGTTTGTAA
*
25435450 AATTACCGGAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* *
25435477 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* *
25435504 AATTACTGGAATACCCCTGT-AGAGTAG
1 AATTACCGAAATACCCCTGTAAG-GTAG
*
25435531 AATTACCGAAATACCCCTGGAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* *
25435558 AATTATCGCAATACCCCTGT-AGGATAG
1 AATTACCGAAATACCCCTGTAAGG-TAG
* *
25435585 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* * *
25435612 AATTACTGAAATACCCCAGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* * * *
25435639 AATTACTGAAATACTCCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
*
25435666 AATTACCGAAATACCCATGTAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
** * *
25435693 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAAGGTAG
*
25435720 AATTACCGAGATACC
1 AATTACCGAAATACC
25435735 TTGTGGGGTA
Statistics
Matches: 220, Mismatches: 34, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
26 4 0.02
27 212 0.96
28 4 0.02
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAAGGTAG
Found at i:25435544 original size:81 final size:81
Alignment explanation
Indices: 25435450--25435734 Score: 367
Period size: 81 Copynumber: 3.5 Consensus size: 81
25435440 TAGTTTGTAA
* *
25435450 AATTACCGGAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACTGGAA
1 AATTACCGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACTGAAA
25435515 TACCCCTGTAGAGTAG
66 TACCCCTGTAGAGTAG
* * *
25435531 AATTACCGAAATACCCCTGGAAGGTAGAATTATCGCAATACCCCTGTAGGATAGAATTACTGAAA
1 AATTACCGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACTGAAA
*
25435596 TACCCCTGTAGGGTAG
66 TACCCCTGTAGAGTAG
* * * * * *
25435612 AATTACTGAAATACCCCAGTAGGGTAGAATTA-CTGAAATACTCCTGCAGGGTAGAATTACCGAA
1 AATTACCGAAATACCCCTGTAAGGTAGAATTATC-GAAATACCCCTGTAGGGTAGAATTACTGAA
*
25435676 ATACCCATGTA-AGGTAG
65 ATACCCCTGTAGA-GTAG
** * * * *
25435693 AATTACTAAAATACCCCTGTAGGGTGGAATTACCGAGATACC
1 AATTACCGAAATACCCCTGTAAGGTAGAATTATCGAAATACC
25435735 TTGTGGGGTA
Statistics
Matches: 179, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
80 1 0.01
81 177 0.99
82 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (81 bp):
AATTACCGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACTGAAA
TACCCCTGTAGAGTAG
Found at i:25435728 original size:54 final size:54
Alignment explanation
Indices: 25435450--25435734 Score: 369
Period size: 54 Copynumber: 5.3 Consensus size: 54
25435440 TAGTTTGTAA
*
25435450 AATTACCGGAATACCCCTGTAAGGTAGAATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAGAATTACT-GAAATACCCCTGTAGGGTAG
* * * * *
25435504 AATTACTGGAATACCCCTGT-AGAGTAGAATTACCGAAATACCCCTGGAAGGTAG
1 AATTACCGAAATACCCCTGTAAG-GTAGAATTACTGAAATACCCCTGTAGGGTAG
* *
25435558 AATTATCGCAATACCCCTGT-AGGATAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGG-TAGAATTACTGAAATACCCCTGTAGGGTAG
* * * * *
25435612 AATTACTGAAATACCCCAGTAGGGTAGAATTACTGAAATACTCCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * *
25435666 AATTACCGAAATACCCATGTAAGGTAGAATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
*
25435720 AATTACCGAGATACC
1 AATTACCGAAATACC
25435735 TTGTGGGGTA
Statistics
Matches: 201, Mismatches: 26, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
53 3 0.01
54 196 0.98
55 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (54 bp):
AATTACCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
Found at i:25446072 original size:31 final size:31
Alignment explanation
Indices: 25446034--25446096 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
25446024 GTGGAGAGTT
*
25446034 AGTGAGGATGTTGAATTCTGTGATATTTTGA
1 AGTGAGGATGTTGAATTATGTGATATTTTGA
25446065 AGTGAGGATGTTGAATTATGTGATATTTTGA
1 AGTGAGGATGTTGAATTATGTGATATTTTGA
25446096 A
1 A
25446097 TCAAAGATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.02, G:0.29, T:0.41
Consensus pattern (31 bp):
AGTGAGGATGTTGAATTATGTGATATTTTGA
Found at i:25450796 original size:20 final size:20
Alignment explanation
Indices: 25450771--25450812 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
25450761 TTGAAATTTG
* *
25450771 AATTACTGATTATATGATTA
1 AATTACTGATTACATGAATA
*
25450791 AATTACTGTTTACATGAATA
1 AATTACTGATTACATGAATA
25450811 AA
1 AA
25450813 AAGAGAAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (20 bp):
AATTACTGATTACATGAATA
Found at i:25451228 original size:69 final size:67
Alignment explanation
Indices: 25451094--25451309 Score: 220
Period size: 69 Copynumber: 3.1 Consensus size: 67
25451084 CAGCTCGTAT
* * * * ** * *
25451094 GAGCTTACCATATATCAACTCGTAAGAGCTTACTATTTCAGCTCATTGAAGCTTAATGTTTCAGC
1 GAGCTTACCAT-T-TCAGCTCATATGAGCTTACT-GTTCAGCTC-TAAAAGCTTACTATTTCAGC
25451159 TAATTA
62 TAATTA
* *
25451165 GAGCTTACCGTTTCAGCTCATATGAGCTTACTGTTCAGCTCGTAAAAGCTTACTATTATCAGCTC
1 GAGCTTACCATTTCAGCTCATATGAGCTTACTGTTCAGCTC-TAAAAGCTTACTATT-TCAGCTA
25451230 ATTA
64 ATTA
* *
25451234 GAGCCTACCATTTCAGCTCGTATGAGCTTACTGTTCAGCT-TAATAGAGCTTACTATTTCAGCTC
1 GAGCTTACCATTTCAGCTCATATGAGCTTACTGTTCAGCTCTAA-A-AGCTTACTATTTCAGCT-
25451298 AA-TA
63 AATTA
*
25451302 AAGCTTAC
1 GAGCTTAC
25451310 TATTCATAAG
Statistics
Matches: 124, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
67 3 0.02
68 34 0.27
69 76 0.61
70 1 0.01
71 10 0.08
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.34
Consensus pattern (67 bp):
GAGCTTACCATTTCAGCTCATATGAGCTTACTGTTCAGCTCTAAAAGCTTACTATTTCAGCTAAT
TA
Found at i:25451251 original size:92 final size:90
Alignment explanation
Indices: 25451084--25451313 Score: 225
Period size: 92 Copynumber: 2.5 Consensus size: 90
25451074 GGACTCACCA
* * * *
25451084 CAGCTCGTATGAGCTTACCATATATCAACTCGTAAGAGCTTACTATTTCAGCTCATTGAAGCTTA
1 CAGCTCATATGAGCTTA-C-TAT-TCAGCTCGTAAAAGCTTACTATTTCAGCTCATTGAAGCCTA
** *
25451149 ATGTTTCAGCTAAT-TAGAGCTTACCGTTT
63 ACATTTCAGCTAGTAT-GAGCTTACCG-TT
* *
25451178 CAGCTCATATGAGCTTACTGTTCAGCTCGTAAAAGCTTACTATTATCAGCTCATT-AGAGCCTAC
1 CAGCTCATATGAGCTTACTATTCAGCTCGTAAAAGCTTACTATT-TCAGCTCATTGA-AGCCTAA
* *
25451242 CATTTCAGCTCGTATGAGCTTACTGTT
64 CATTTCAGCTAGTATGAGCTTACCGTT
* *
25451269 CAGCTTA-ATAGAGCTTACTATTTCAGCTC-AATAAAGCTTACTATT
1 CAGCTCATAT-GAGCTTACTA-TTCAGCTCGTA-AAAGCTTACTATT
25451314 CATAAGTTCA
Statistics
Matches: 116, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
90 2 0.02
91 40 0.34
92 56 0.48
93 2 0.02
94 16 0.14
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (90 bp):
CAGCTCATATGAGCTTACTATTCAGCTCGTAAAAGCTTACTATTTCAGCTCATTGAAGCCTAACA
TTTCAGCTAGTATGAGCTTACCGTT
Found at i:25451307 original size:45 final size:44
Alignment explanation
Indices: 25451143--25451315 Score: 116
Period size: 45 Copynumber: 3.8 Consensus size: 44
25451133 AGCTCATTGA
* * * * * *
25451143 AGCTTAATGTTTCAGCTAATTAGAGCTTACCGTTTCAGC-TCATATG
1 AGCTTACTATTTCAGCTCA-TAAAGCTTACTG-TTCAGCTTAATA-G
* * * * *
25451189 AGCTTACT-GTTCAGCTCGTAAAAGCTTACTATTATCAGCTCATTAG
1 AGCTTACTATTTCAGCTCAT-AAAGCTTACT-GT-TCAGCTTAATAG
* * * *
25451235 AGCCTACCATTTCAGCTCGTATGAGCTTACTGTTCAGCTTAATAG
1 AGCTTACTATTTCAGCTCATA-AAGCTTACTGTTCAGCTTAATAG
*
25451280 AGCTTACTATTTCAGCTCAATAAAGCTTACTATTCA
1 AGCTTACTATTTCAGCTC-ATAAAGCTTACTGTTCA
25451316 TAAGTTCAGG
Statistics
Matches: 98, Mismatches: 22, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
44 1 0.01
45 54 0.55
46 23 0.23
47 20 0.20
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (44 bp):
AGCTTACTATTTCAGCTCATAAAGCTTACTGTTCAGCTTAATAG
Found at i:25451311 original size:23 final size:23
Alignment explanation
Indices: 25451118--25451313 Score: 156
Period size: 23 Copynumber: 8.6 Consensus size: 23
25451108 TCAACTCGTA
25451118 AGAGCTTACTATTTCAGCTC-AT
1 AGAGCTTACTATTTCAGCTCAAT
* * *
25451140 TGAAGCTTAATGTTTCAGCT-AATT
1 AG-AGCTTACTATTTCAGCTCAA-T
**
25451164 AGAGCTTACCGTTTCAGCTC-AT
1 AGAGCTTACTATTTCAGCTCAAT
*
25451186 ATGAGCTTACT-GTTCAGCTCGTAA-
1 A-GAGCTTACTATTTCAGCTC--AAT
*
25451210 A-AGCTTACTATTATCAGCTCATT
1 AGAGCTTACTATT-TCAGCTCAAT
* * *
25451233 AGAGCCTACCATTTCAGCTC-GT
1 AGAGCTTACTATTTCAGCTCAAT
* *
25451255 ATGAGCTTACT-GTTCAGCTTAAT
1 A-GAGCTTACTATTTCAGCTCAAT
25451278 AGAGCTTACTATTTCAGCTCAAT
1 AGAGCTTACTATTTCAGCTCAAT
*
25451301 AAAGCTTACTATT
1 AGAGCTTACTATT
25451314 CATAAGTTCA
Statistics
Matches: 138, Mismatches: 21, Indels: 29
0.73 0.11 0.15
Matches are distributed among these distances:
22 38 0.28
23 80 0.58
24 19 0.14
25 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (23 bp):
AGAGCTTACTATTTCAGCTCAAT
Found at i:25456060 original size:46 final size:46
Alignment explanation
Indices: 25455993--25456116 Score: 144
Period size: 46 Copynumber: 2.7 Consensus size: 46
25455983 TTATTGTTGA
*
25455993 CTAGTGTAAGACACGTTTGGGACATGCATCGGCCT-CAAGACGCA-AG
1 CTAGTGTAAGACATGTTTGGGACATGCATCGG-CTACAAGACG-ATAG
* * * *
25456039 CTAGTGTAAGACATGTCTGGGACATGCATCTGCTACGAGATGATAG
1 CTAGTGTAAGACATGTTTGGGACATGCATCGGCTACAAGACGATAG
*
25456085 TTAGTGTAAGACCATGTTTGGGACATGGCATC
1 CTAGTGTAAGA-CATGTTTGGGACAT-GCATC
25456117 AACACCTTAC
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
45 3 0.04
46 46 0.69
47 13 0.19
48 5 0.07
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
CTAGTGTAAGACATGTTTGGGACATGCATCGGCTACAAGACGATAG
Found at i:25467724 original size:55 final size:53
Alignment explanation
Indices: 25467594--25467848 Score: 155
Period size: 55 Copynumber: 4.8 Consensus size: 53
25467584 ATTAAGGTTT
* * * ** **
25467594 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTCATAAGGTTTC-TAAGGC
1 AAGGATACCAAGTAAGACCATGTCAAGACATGGC-ATTGGTAA-G-TTCATAAGAA
* * *
25467649 AAGGATATCC-TGTAACACCATGTCAAGACATGGCATTGATAAGTTACTATAAAGAA
1 AAGGATA-CCAAGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-AT-AAGAA
* * * * **
25467705 AAGG-TCCCAAGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 AAGGATACCAAGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGAA
* * * * *
25467757 AAGGATACTATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT--T--CAA
1 AAGGATACCAAGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGAA
** * * * *
25467806 AAGGATACCCCGTAAGATCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCAAGTAAGACCATGTCAAGACATGGCATTGGTAAG
25467849 GTACCCGTGT
Statistics
Matches: 160, Mismatches: 33, Indels: 20
0.75 0.15 0.09
Matches are distributed among these distances:
49 36 0.22
51 1 0.01
52 9 0.06
53 36 0.22
54 10 0.06
55 59 0.37
56 9 0.06
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCAAGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGAA
Found at i:25467800 original size:108 final size:110
Alignment explanation
Indices: 25467605--25467801 Score: 276
Period size: 108 Copynumber: 1.8 Consensus size: 110
25467595 AGGATACCAT
*
25467605 GTAAGACCATGCCAAGGCATGGCAATTCATAAGGTTTCTAAGGCAAGGATATCCTGTAACACCAT
1 GTAAGACCATGCCAAGGCATGGCAATTCATAAGGTTTCTAAGGCAAGGATATCATGTAACACCAT
*
25467670 GTCAAGACATGGCATTGATAAGTTACTATAAAGAAAAGGTCCCAA
66 GTCAAGACATGGCAATGATAAGTTACTATAAAGAAAAGGTCCCAA
** * *
25467715 GTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATA-CTATGTAAGACC
1 GTAAGACCATGCCAAGGCATGGCAATTCATAAGGTTTC-TAAGGCAAGGATATC-ATGTAACACC
* *
25467776 ATGTCGAGACATGGCAATGGTAAGTT
64 ATGTCAAGACATGGCAATGATAAGTT
25467802 TCAAAAGGAT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
107 4 0.05
108 45 0.58
109 5 0.06
110 23 0.30
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (110 bp):
GTAAGACCATGCCAAGGCATGGCAATTCATAAGGTTTCTAAGGCAAGGATATCATGTAACACCAT
GTCAAGACATGGCAATGATAAGTTACTATAAAGAAAAGGTCCCAA
Found at i:25469934 original size:13 final size:13
Alignment explanation
Indices: 25469916--25469948 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
25469906 GGTTGCTTAT
25469916 TAAACTAATTAAC
1 TAAACTAATTAAC
25469929 TAAACTAATTAAC
1 TAAACTAATTAAC
25469942 T-AACTAA
1 TAAACTAA
25469949 ACTAAAGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:25472886 original size:6 final size:6
Alignment explanation
Indices: 25472877--25472914 Score: 67
Period size: 6 Copynumber: 6.2 Consensus size: 6
25472867 TTGAAATGAA
25472877 AAAAAT AAAAAT AAAAAT AAAAATT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAA-T AAAAAT AAAAAT A
25472915 TAGGAGGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:25472904 original size:19 final size:19
Alignment explanation
Indices: 25472876--25472914 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
25472866 ATTGAAATGA
25472876 AAAAAATAAAAATAAAAAT
1 AAAAAATAAAAATAAAAAT
*
25472895 AAAAATTAAAAATAAAAAT
1 AAAAAATAAAAATAAAAAT
25472914 A
1 A
25472915 TAGGAGGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAAAATAAAAATAAAAAT
Found at i:25477730 original size:26 final size:27
Alignment explanation
Indices: 25477692--25477745 Score: 101
Period size: 26 Copynumber: 2.0 Consensus size: 27
25477682 CAAACTAAAC
25477692 AAACTGCTATATCATCTGAATAGTGTT
1 AAACTGCTATATCATCTGAATAGTGTT
25477719 AAACTG-TATATCATCTGAATAGTGTT
1 AAACTGCTATATCATCTGAATAGTGTT
25477745 A
1 A
25477746 GGTTTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (27 bp):
AAACTGCTATATCATCTGAATAGTGTT
Found at i:25478417 original size:13 final size:13
Alignment explanation
Indices: 25478399--25478431 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
25478389 GGTTGTTTAT
25478399 TAAACTAATTAAC
1 TAAACTAATTAAC
*
25478412 TAAACTAATTACC
1 TAAACTAATTAAC
25478425 T-AACTAA
1 TAAACTAA
25478432 AATAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:25487814 original size:79 final size:81
Alignment explanation
Indices: 25487678--25487860 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
25487668 TCGAATGATG
* *
25487678 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
25487742 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
25487757 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
25487819 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
25487837 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
25487861 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:25487876 original size:40 final size:40
Alignment explanation
Indices: 25487679--25487862 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
25487669 CGAATGATGT
* * * *
25487679 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
25487719 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
25487759 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
25487797 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
25487838 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
25487863 AACGAGTATC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:25487884 original size:79 final size:79
Alignment explanation
Indices: 25487731--25487895 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
25487721 GGACTAAGAT
* **
25487731 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
25487796 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
25487810 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TATC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
25487873 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
25487889 CCGAAGG
1 CCGAAGG
25487896 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:25491058 original size:89 final size:89
Alignment explanation
Indices: 25490903--25491066 Score: 274
Period size: 89 Copynumber: 1.8 Consensus size: 89
25490893 AGCGTGATTC
* * * * *
25490903 ACAACAGTGGAATTCATAGCCCAAAATATGGGTAAATGATATCCTCTCATTGGCATTACATGGTT
1 ACAACAGTAGAATTCATAGCCCAAAACATAGGTAAATGATATCCTCTCATTGACATTACATAGTT
25490968 GATGAAAAGTAAACGTGGTAACTT
66 GATGAAAAGTAAACGTGGTAACTT
*
25490992 ACAACAGTAGAATTCATAGCCGAAAACATAGGTAAATGATATCCTCTCATTGACATTACATAGTT
1 ACAACAGTAGAATTCATAGCCCAAAACATAGGTAAATGATATCCTCTCATTGACATTACATAGTT
25491057 GATGAAAAGT
66 GATGAAAAGT
25491067 CAATCACTAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.27
Consensus pattern (89 bp):
ACAACAGTAGAATTCATAGCCCAAAACATAGGTAAATGATATCCTCTCATTGACATTACATAGTT
GATGAAAAGTAAACGTGGTAACTT
Found at i:25491554 original size:6 final size:6
Alignment explanation
Indices: 25491545--25491595 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
25491535 CCAAAAAAGG
* *
25491545 AAATGG AAATGG AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA
25491593 AAA
1 AAA
25491596 CTTGCAATCC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.65, C:0.00, G:0.20, T:0.16
Consensus pattern (6 bp):
AAATGA
Found at i:25491783 original size:26 final size:25
Alignment explanation
Indices: 25491738--25491810 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 25
25491728 TATTTTCTTG
* **
25491738 AAATTTTACAAGGTGAAAAATTGTCA
1 AAATTTTACAAGG-GTAAAATCATCA
25491764 AAATTTTACAAAGGGTAAAATCATCA
1 AAATTTTAC-AAGGGTAAAATCATCA
* *
25491790 AATTTTTTCTAAGGGTAAAAT
1 AAATTTTAC-AAGGGTAAAAT
25491811 AAGGCTGAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
26 36 0.90
27 4 0.10
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (25 bp):
AAATTTTACAAGGGTAAAATCATCA
Found at i:25492517 original size:22 final size:21
Alignment explanation
Indices: 25492479--25492520 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
25492469 AACACAATCT
25492479 GCTAAGGATGTCATGACACAA
1 GCTAAGGATGTCATGACACAA
* *
25492500 GCTAGAGGGTGTCGTGACACA
1 GCTA-AGGATGTCATGACACA
25492521 GCCATAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.19
Consensus pattern (21 bp):
GCTAAGGATGTCATGACACAA
Found at i:25493292 original size:18 final size:18
Alignment explanation
Indices: 25493258--25493310 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
25493248 CCTATTTCAA
* *
25493258 TAACAGTAACCAGTGCAG
1 TAACAGTAATCAATGCAG
*
25493276 TAACCA-TGATCAATGCAG
1 TAA-CAGTAATCAATGCAG
25493294 TAACAGTAATCAATGCA
1 TAACAGTAATCAATGCA
25493311 ATATGCAAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.07
18 25 0.86
19 2 0.07
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (18 bp):
TAACAGTAATCAATGCAG
Found at i:25493598 original size:23 final size:23
Alignment explanation
Indices: 25493572--25493621 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
25493562 ACCCCATGCA
25493572 ATGCAACATA-ATATTATACATGG-
1 ATGCAACATACATA-TA-ACATGGC
25493595 ATGCAACATACATATAACATGGC
1 ATGCAACATACATATAACATGGC
25493618 ATGC
1 ATGC
25493622 TCAAATATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 16 0.64
24 3 0.12
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (23 bp):
ATGCAACATACATATAACATGGC
Found at i:25493714 original size:27 final size:27
Alignment explanation
Indices: 25493684--25493772 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
25493674 GGTATTACAG
**
25493684 TCATTTTACCCTACAAGGGTATTTTGA
1 TCATTTTACCCTATGAGGGTATTTTGA
* *
25493711 TCATTCTACCCTATGGGGGTATTTTGA
1 TCATTTTACCCTATGAGGGTATTTTGA
*
25493738 TCATTTTACCATATGAGGGTATTTTAGA
1 TCATTTTACCCTATGAGGGTATTTT-GA
25493766 -CATTTTA
1 TCATTTTA
25493773 TCAAATAAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 52 0.96
28 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGGTATTTTGA
Found at i:25493783 original size:27 final size:27
Alignment explanation
Indices: 25493684--25493783 Score: 85
Period size: 27 Copynumber: 3.7 Consensus size: 27
25493674 GGTATTACAG
** *
25493684 TCATTTTACCCTACAAGGGTATTTTGA
1 TCATTTTACCAAATAAGGGTATTTTGA
* ** **
25493711 TCATTCTACCCTATGGGGGTATTTTGA
1 TCATTTTACCAAATAAGGGTATTTTGA
* *
25493738 TCATTTTACCATATGAGGGTATTTTAGA
1 TCATTTTACCAAATAAGGGTATTTT-GA
*
25493766 -CATTTTATCAAATAAGGG
1 TCATTTTACCAAATAAGGG
25493784 CAAAATCGTT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
27 60 0.97
28 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (27 bp):
TCATTTTACCAAATAAGGGTATTTTGA
Found at i:25494077 original size:20 final size:20
Alignment explanation
Indices: 25494048--25494101 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
25494038 AGCTCGTGGG
25494048 GCCC-ACATGACCCA-TTCAA
1 GCCCAACATGACCCATTTC-A
*
25494067 GCCCAACATGACCCATTTCG
1 GCCCAACATGACCCATTTCA
*
25494087 GCCCAACATGGCCCA
1 GCCCAACATGACCCA
25494102 AATCGGCCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 4 0.13
20 24 0.77
21 3 0.10
ACGTcount: A:0.28, C:0.43, G:0.15, T:0.15
Consensus pattern (20 bp):
GCCCAACATGACCCATTTCA
Found at i:25494107 original size:20 final size:20
Alignment explanation
Indices: 25494067--25494109 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
25494057 ACCCATTCAA
**
25494067 GCCCAACATGACCCATTTCG
1 GCCCAACATGACCCAAATCG
*
25494087 GCCCAACATGGCCCAAATCG
1 GCCCAACATGACCCAAATCG
25494107 GCC
1 GCC
25494110 TTAGCCCATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.42, G:0.19, T:0.14
Consensus pattern (20 bp):
GCCCAACATGACCCAAATCG
Found at i:25497872 original size:46 final size:46
Alignment explanation
Indices: 25497692--25497872 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 46
25497682 TGTAACCCAC
* *
25497692 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * *
25497738 CCATAAGTGAACTCAGACTCAACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTC-G----GACTCAACTCAACGAGCTCGGA---C--GTTCGCAT
* *
25497793 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
25497836 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
25497873 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 12, Indels: 28
0.73 0.08 0.19
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 42 0.39
47 21 0.19
51 21 0.19
52 6 0.06
53 2 0.02
54 2 0.02
55 3 0.03
56 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:25500122 original size:27 final size:27
Alignment explanation
Indices: 25500076--25500192 Score: 123
Period size: 27 Copynumber: 4.3 Consensus size: 27
25500066 GAAAAAATCT
* * *
25500076 GTCATTTTATCTTATCGGGGTATTAT-A
1 GTCATTTTACCCTATAGGGGTATT-TCA
*
25500103 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCA
* *
25500130 GTCATTCTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCA
*
25500157 GTCATTTTACCCTAT-GAGGGCATTTCTA
1 GTCATTTTACCCTATAG-GGGTATTTC-A
25500185 -TCATTTTA
1 GTCATTTTA
25500193 TCAAATAAGG
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
26 2 0.03
27 75 0.96
28 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCA
Found at i:25504895 original size:13 final size:13
Alignment explanation
Indices: 25504874--25504903 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
25504864 TGATGATGGA
25504874 GGGACCCCACATC
1 GGGACCCCACATC
*
25504887 GGGATCCCACATC
1 GGGACCCCACATC
25504900 GGGA
1 GGGA
25504904 AGCTAACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.37, G:0.30, T:0.10
Consensus pattern (13 bp):
GGGACCCCACATC
Found at i:25505859 original size:27 final size:27
Alignment explanation
Indices: 25505380--25505972 Score: 725
Period size: 27 Copynumber: 22.0 Consensus size: 27
25505370 AAGTACTCCT
25505380 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
25505407 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
** *
25505434 GATTTTTAAAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
*
25505461 GATTTACAGAATTACCATTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
** * *
25505488 GATTTTTAAAATTACTGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
25505515 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
*
25505542 -AGTTTACAGAATTACTGTTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
*
25505569 GATTTACAGAATTATCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
** *
25505596 -AGTTTACAGAATTACTATTTTACCCTT
1 GA-TTTACAGAATTACCGTTTTACCCTC
25505623 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
* **
25505650 -AGTTTATAGAATTACTATTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
25505677 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
** * *
25505704 GATTTGTAAAATTACCGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTC
*
25505731 GATTTACAGAATTACTAG-TTTACCCTC
1 GATTTACAGAATTAC-CGTTTTACCCTC
* *
25505758 -AGTTTACAAAATTATCGTTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
*
25505785 GATTTACAAAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
***
25505812 -AGTTTACAGAATTATTATTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
25505839 GATTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTC
* ** * * * *
25505866 AATTTGTAAAATTATCATTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTC
*
25505893 GATTTACAGAATTACTAG-TTTACCCTC
1 GATTTACAGAATTAC-CGTTTTACCCTC
* *
25505920 -AGTTTACAAAATTATCGTTTTACCCTC
1 GA-TTTACAGAATTACCGTTTTACCCTC
25505947 GATTTACAGAATTACCGTTTTACCCT
1 GATTTACAGAATTACCGTTTTACCCT
25505973 TAATTGTGAA
Statistics
Matches: 478, Mismatches: 72, Indels: 32
0.82 0.12 0.05
Matches are distributed among these distances:
26 8 0.02
27 463 0.97
28 7 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
GATTTACAGAATTACCGTTTTACCCTC
Found at i:25506020 original size:27 final size:27
Alignment explanation
Indices: 25505990--25506148 Score: 219
Period size: 27 Copynumber: 5.9 Consensus size: 27
25505980 GAATTTACTA
**
25505990 AAATACCCCTGTAGGGTAGAATTTTCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
25506017 AAATACCCCTATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
25506044 AAATACCCTTATAGGATAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
25506071 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
25506098 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
25506125 AAATACCCCTGTAGGGTAGAATTA
1 AAATACCCCTGTAGGGTAGAATTA
25506149 GTGAGATACC
Statistics
Matches: 114, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:25506050 original size:54 final size:54
Alignment explanation
Indices: 25505984--25506177 Score: 248
Period size: 54 Copynumber: 3.6 Consensus size: 54
25505974 AATTGTGAAT
* * ** *
25505984 TTACTAAAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAGAA
1 TTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAA
* * *
25506038 TTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAGAA
1 TTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAA
*
25506092 TTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAA
1 TTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAA
* * *
25506146 TTAGTGAGATACCCTTGT-GAGGTAAAATTACC
1 TTACTGAAATACCCTTGTAG-GGTAGAATTACC
25506178 ATTTTGCCCC
Statistics
Matches: 122, Mismatches: 15, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
53 2 0.02
54 119 0.98
55 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (54 bp):
TTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAA
Found at i:25506157 original size:27 final size:27
Alignment explanation
Indices: 25505984--25506176 Score: 203
Period size: 27 Copynumber: 7.1 Consensus size: 27
25505974 AATTGTGAAT
*
25505984 TTACTAAAATACCCCTGTAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
* *
25506011 TT-TTCGAAATACCCCTATAGGGTAGAA
1 TTACT-GAAATACCCCTGTAGGGTAGAA
* * *
25506038 TTACTGAAATACCCTTATAGGATAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
**
25506065 TTACCAAAATACCCCTGTAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
*
25506092 TTA-TCGAAATACCCTTGTAGGGTAGAA
1 TTACT-GAAATACCCCTGTAGGGTAGAA
* *
25506119 ATACCGAAATACCCCTGTAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
* * * *
25506146 TTAGTGAGATACCCTTGT-GAGGTAAAA
1 TTACTGAAATACCCCTGTAG-GGTAGAA
25506173 TTAC
1 TTAC
25506177 CATTTTGCCC
Statistics
Matches: 137, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.01
27 134 0.98
28 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
TTACTGAAATACCCCTGTAGGGTAGAA
Found at i:25506175 original size:81 final size:81
Alignment explanation
Indices: 25505984--25506148 Score: 249
Period size: 81 Copynumber: 2.0 Consensus size: 81
25505974 AATTGTGAAT
* * * *
25505984 TTACTAAAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAGAATTACTGAAATA
1 TTACCAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAATA
*
25506049 CCCTTATAGGATAGAA
66 CCCCTATAGGATAGAA
* *
25506065 TTACCAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAATA
1 TTACCAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAATA
* *
25506130 CCCCTGTAGGGTAGAA
66 CCCCTATAGGATAGAA
25506146 TTA
1 TTA
25506149 GTGAGATACC
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (81 bp):
TTACCAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAATA
CCCCTATAGGATAGAA
Found at i:25506414 original size:27 final size:26
Alignment explanation
Indices: 25506376--25506458 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
25506366 CGGAGGAAGC
25506376 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
25506403 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * **
25506429 GTATCTGGTGACTCTATCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
25506456 GTT
1 GTT
25506459 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:25506578 original size:22 final size:22
Alignment explanation
Indices: 25506546--25506604 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
25506536 CCCGTTATTA
*
25506546 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
25506568 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
25506590 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
25506605 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:25506823 original size:27 final size:27
Alignment explanation
Indices: 25506769--25506842 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
25506759 TAGGTGGGTT
* * *
25506769 TGCCACATTATCTG-ATTCTAGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGACTC
25506796 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGACTC
* *
25506823 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
25506843 CAGCCATGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.12
27 35 0.85
28 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGACTC
Found at i:25506969 original size:6 final size:6
Alignment explanation
Indices: 25506960--25507108 Score: 132
Period size: 6 Copynumber: 24.8 Consensus size: 6
25506950 TTGTATTCAC
* *
25506960 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* *
25507008 ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACCT- AATCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
25507056 -TTACTA ATAT-TG ATTCTG ATTCTG ATTCT- ATTACTG ATTTTG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
25507104 ATTCT
1 ATTCT
25507109 CATTTTGGTT
Statistics
Matches: 117, Mismatches: 12, Indels: 28
0.75 0.08 0.18
Matches are distributed among these distances:
5 13 0.11
6 94 0.80
7 9 0.08
8 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:25510520 original size:19 final size:19
Alignment explanation
Indices: 25510469--25510530 Score: 72
Period size: 19 Copynumber: 3.1 Consensus size: 19
25510459 AAAAAAATTG
*
25510469 AAATGAAAATAAAAAGAAAAA
1 AAAT-AAAA-AAAAATAAAAA
25510490 GAAA-AAGAAAAAAATAAAAA
1 -AAATAA-AAAAAAATAAAAA
25510510 AAATAAAAAAAAATAAAAA
1 AAATAAAAAAAAATAAAAA
25510529 AA
1 AA
25510531 TTAGAATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
19 18 0.49
20 14 0.38
21 2 0.05
22 3 0.08
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.08
Consensus pattern (19 bp):
AAATAAAAAAAAATAAAAA
Found at i:25510527 original size:6 final size:6
Alignment explanation
Indices: 25510449--25510528 Score: 51
Period size: 6 Copynumber: 13.7 Consensus size: 6
25510439 TATGTCTTTT
* * * * * * *
25510449 AAAATA AAATAAA AAAATT GAAATG AAAATA AAAAGA AAAAGA AAAAGA
1 AAAATA AAA-ATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
25510498 AAAA-A ATAAA-A AAAAT- AAAA-A AAAATA AAAA
1 AAAATA A-AAATA AAAATA AAAATA AAAATA AAAA
25510529 AATTAGAATA
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
5 13 0.21
6 43 0.70
7 5 0.08
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.11
Consensus pattern (6 bp):
AAAATA
Found at i:25510541 original size:19 final size:19
Alignment explanation
Indices: 25510479--25510542 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
25510469 AAATGAAAAT
* *
25510479 AAAAAGAAAAAGAAAAAGAA
1 AAAAATAAAAA-AAATAGAA
*
25510499 AAAAATAAAAAAAATAAAA
1 AAAAATAAAAAAAATAGAA
*
25510518 AAAAATAAAAAAATTAGAA
1 AAAAATAAAAAAAATAGAA
25510537 TAAAAA
1 -AAAAA
25510543 GATAGGAGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
19 23 0.61
20 15 0.39
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.09
Consensus pattern (19 bp):
AAAAATAAAAAAAATAGAA
Found at i:25510542 original size:1 final size:1
Alignment explanation
Indices: 25510474--25510530 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
25510464 AATTGAAATG
* * * * * * *
25510474 AAAATAAAAAGAAAAAGAAAAAGAAAAAAATAAAAAAAATAAAAAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
25510531 TTAGAATAAA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.88, C:0.00, G:0.05, T:0.07
Consensus pattern (1 bp):
A
Found at i:25517909 original size:30 final size:30
Alignment explanation
Indices: 25517868--25518175 Score: 132
Period size: 30 Copynumber: 10.3 Consensus size: 30
25517858 TCATCGACTA
* *
25517868 ATGAAATGGGATAGGTTCGACTATCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
* * *
25517898 ATGAAAAGGGATAGCTTTGGCTGTCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
* * * *
25517928 CTGAAAACGGATAGCTTTGGCTATCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
* * * * *
25517958 AGGAAGAGGGAT-GGTGACGACCATCAACA--
1 ATGAAAAGGGATAGCT-TCGACTATCAA-ATT
* * * * * *
25517987 ATAAAAAGGGA-CGGTGAT-GACCATCGAACT
1 ATGAAAAGGGATAGCT--TCGACTATCAAATT
* * *
25518017 ATGAAAAGGGATAGCTT-TAGCTATCGAACT
1 ATGAAAAGGGATAGCTTCGA-CTATCAAATT
* * *
25518047 ATGAATAA-GAATAGCTTTGGCTATCAAATT
1 ATGAA-AAGGGATAGCTTCGACTATCAAATT
* * *
25518077 ATGAAAAGGGATAG-TGACGACCATC-AACT
1 ATGAAAAGGGATAGCT-TCGACTATCAAATT
* * * * *
25518106 ATGAAAAGGGAT-GGTGACAACCATCAAAAT
1 ATGAAAAGGGATAGCT-TCGACTATCAAATT
* * *
25518136 ATGAAAAGTGATAGCTTCGGCTATCGAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
25518166 ATGGAAAAGG
1 AT-GAAAAGG
25518176 ACGGTGACAA
Statistics
Matches: 212, Mismatches: 50, Indels: 31
0.72 0.17 0.11
Matches are distributed among these distances:
28 2 0.01
29 51 0.24
30 146 0.69
31 13 0.06
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGACTATCAAATT
Found at i:25517997 original size:29 final size:30
Alignment explanation
Indices: 25517964--25518028 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
25517954 AATTAGGAAG
25517964 AGGGATGGTGACGACCATC-AACAATAAAA
1 AGGGATGGTGACGACCATCGAACAATAAAA
* * * *
25517993 AGGGACGGTGATGACCATCGAACTATGAAA
1 AGGGATGGTGACGACCATCGAACAATAAAA
25518023 AGGGAT
1 AGGGAT
25518029 AGCTTTAGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (30 bp):
AGGGATGGTGACGACCATCGAACAATAAAA
Found at i:25518113 original size:119 final size:119
Alignment explanation
Indices: 25517890--25518173 Score: 372
Period size: 119 Copynumber: 2.4 Consensus size: 119
25517880 AGGTTCGACT
* * * * *
25517890 ATCAAATTATGAAAAGGGATAGCTTTGGCTGTCAAATTCTGAAAACGGATAGCTTTGGCTATCAA
1 ATCAAAATATGAAAAGGGATAGCTTTGGCTATCGAATTATGAAAACGAATAGCTTTGGCTATCAA
* * **
25517955 ATTAGGAAGAGGGATGGTGACGACCATCAACAATAAAAAGGGACGGTGATGACC
66 ATTAGGAAAAGGGATAGTGACGACCATCAACAATAAAAAGGGACGGTGACAACC
* * * *
25518009 ATCGAACTATGAAAAGGGATAGCTTTAGCTATCGAACTATGAATAA-GAATAGCTTTGGCTATCA
1 ATCAAAATATGAAAAGGGATAGCTTTGGCTATCGAATTATGAA-AACGAATAGCTTTGGCTATCA
* * * *
25518073 AATTATGAAAAGGGATAGTGACGACCATCAACTATGAAAAGGGATGGTGACAACC
65 AATTAGGAAAAGGGATAGTGACGACCATCAACAATAAAAAGGGACGGTGACAACC
* *
25518128 ATCAAAATATGAAAAGTGATAGCTTCGGCTATCGAATTATGGAAAA
1 ATCAAAATATGAAAAGGGATAGCTTTGGCTATCGAATTAT-GAAAA
25518174 GGACGGTGAC
Statistics
Matches: 141, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
119 136 0.96
120 5 0.04
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.24
Consensus pattern (119 bp):
ATCAAAATATGAAAAGGGATAGCTTTGGCTATCGAATTATGAAAACGAATAGCTTTGGCTATCAA
ATTAGGAAAAGGGATAGTGACGACCATCAACAATAAAAAGGGACGGTGACAACC
Found at i:25518183 original size:89 final size:89
Alignment explanation
Indices: 25517990--25518191 Score: 221
Period size: 89 Copynumber: 2.3 Consensus size: 89
25517980 ATCAACAATA
* ** * * * *
25517990 AAAAGGGACGGTGATGACCATCGAACTATGAAAAGGGATAGCTTTAGCTATCGAACTATGAATAA
1 AAAAGGGACGGTGACGACCATC-AACTATGAAAAGGGATAGCTACAACCATCAAAATATGAATAA
*
25518055 GAATAGCTTTGGCTATCAAATTATG
65 GAATAGCTTCGGCTATCAAATTATG
** *
25518080 AAAAGGGATAGTGACGACCATCAACTATGAAAAGGGAT-GGTGACAACCATCAAAATATGAA-AA
1 AAAAGGGACGGTGACGACCATCAACTATGAAAAGGGATAGCT-ACAACCATCAAAATATGAATAA
* *
25518143 GTGATAGCTTCGGCTATCGAATTATGG
65 G-AATAGCTTCGGCTATCAAATTAT-G
*
25518170 AAAA-GGACGGTGACAACCATCA
1 AAAAGGGACGGTGACGACCATCA
25518192 CGATTTTACT
Statistics
Matches: 93, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
88 5 0.05
89 64 0.69
90 24 0.26
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (89 bp):
AAAAGGGACGGTGACGACCATCAACTATGAAAAGGGATAGCTACAACCATCAAAATATGAATAAG
AATAGCTTCGGCTATCAAATTATG
Found at i:25522782 original size:29 final size:29
Alignment explanation
Indices: 25522747--25522816 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
25522737 TCATCGACCA
*
25522747 ATGAAAAGGGACAGCTTCGGCTATCGATT
1 ATGAAAAGGGACAGCTTCGACTATCGATT
* *
25522776 ATGAAAAAGGATAGCTTCGACTATCGATT
1 ATGAAAAGGGACAGCTTCGACTATCGATT
25522805 ATGAAAAGGGAC
1 ATGAAAAGGGAC
25522817 GATGACGACC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (29 bp):
ATGAAAAGGGACAGCTTCGACTATCGATT
Found at i:25522825 original size:29 final size:29
Alignment explanation
Indices: 25522793--25522916 Score: 113
Period size: 29 Copynumber: 4.2 Consensus size: 29
25522783 AGGATAGCTT
* *
25522793 CGACTATCGATTATGAAAAGGGACGATGA
1 CGACCATCAATTATGAAAAGGGACGATGA
* * * *
25522822 CGACCATCAACTATGAAAAAGGATGGTGA
1 CGACCATCAATTATGAAAAGGGACGATGA
* * * * **
25522851 CAACCATCAATTAATGAAAAGGTATGGTTT
1 CGACCATCAATT-ATGAAAAGGGACGATGA
* *
25522881 CGACCATCAAATATGAAAAGGGACGATTA
1 CGACCATCAATTATGAAAAGGGACGATGA
25522910 CGACCAT
1 CGACCAT
25522917 TGTTTAGTAC
Statistics
Matches: 76, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
29 53 0.70
30 23 0.30
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (29 bp):
CGACCATCAATTATGAAAAGGGACGATGA
Found at i:25527229 original size:11 final size:11
Alignment explanation
Indices: 25527213--25527237 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25527203 CTTATATATT
25527213 TAATAAAATAA
1 TAATAAAATAA
25527224 TAATAAAATAA
1 TAATAAAATAA
25527235 TAA
1 TAA
25527238 AATATCTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:25529357 original size:42 final size:42
Alignment explanation
Indices: 25529274--25529357 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
25529264 ATATTTTATT
* *
25529274 TTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATCTTCCC
1 TTATCTTTTAGTAGTTTATTAAAATAAGGAAACTATCTTCCC
* * *
25529316 TTATGTTTTAGTAGTTTATTAAAATAAGGAAATTATTTTCCC
1 TTATCTTTTAGTAGTTTATTAAAATAAGGAAACTATCTTCCC
25529358 AATTAGGATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (42 bp):
TTATCTTTTAGTAGTTTATTAAAATAAGGAAACTATCTTCCC
Found at i:25531810 original size:39 final size:40
Alignment explanation
Indices: 25531702--25531886 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
25531692 TCGAATGATG
* * *
25531702 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
25531741 ATCCGGACTAAGAT-CGGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
25531782 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
25531821 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
25531860 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
25531887 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:25531908 original size:79 final size:79
Alignment explanation
Indices: 25531757--25531909 Score: 204
Period size: 79 Copynumber: 1.9 Consensus size: 79
25531747 ACTAAGATCG
* **
25531757 GAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
25531822 CCGGGTTAAGTCCC
66 CCGGGTTAAGTCCC
* *
25531836 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 GAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTA
*
25531899 TATCC-GGTTAA
63 AATCCGGGTTAA
25531910 ATTCTGAAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.60
80 24 0.37
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
CCGGGTTAAGTCCC
Found at i:25536715 original size:58 final size:58
Alignment explanation
Indices: 25536647--25536766 Score: 231
Period size: 58 Copynumber: 2.1 Consensus size: 58
25536637 TATCACATAC
25536647 AAGGCCAGACATAGTTTTTGCAGTGAGCTTAGTGAGTCAATTTATGCACTCCCCAATG
1 AAGGCCAGACATAGTTTTTGCAGTGAGCTTAGTGAGTCAATTTATGCACTCCCCAATG
*
25536705 AAGGCTAGACATAGTTTTTGCAGTGAGCTTAGTGAGTCAATTTATGCACTCCCCAATG
1 AAGGCCAGACATAGTTTTTGCAGTGAGCTTAGTGAGTCAATTTATGCACTCCCCAATG
25536763 AAGG
1 AAGG
25536767 AACATGAAGA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (58 bp):
AAGGCCAGACATAGTTTTTGCAGTGAGCTTAGTGAGTCAATTTATGCACTCCCCAATG
Found at i:25538055 original size:16 final size:16
Alignment explanation
Indices: 25538036--25538066 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25538026 CTTCTTCACT
25538036 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
25538052 TACTTACTTACTTAA
1 TACTCACTTACTTAA
25538067 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:25538072 original size:20 final size:20
Alignment explanation
Indices: 25538033--25538072 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
25538023 AAACTTCTTC
* *
25538033 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
25538053 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
25538073 TTATTAATAC
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:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:25538439 original size:55 final size:54
Alignment explanation
Indices: 25538304--25538511 Score: 242
Period size: 55 Copynumber: 3.8 Consensus size: 54
25538294 ATCCTTTTGA
* * ** **
25538304 AACTTACCATTGCCATGTCTCAACATGGTCTTACATGGTATCCTTGTTTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
25538357 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG
* * *
25538411 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
*
25538465 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
25538512 AAACCCTAAT
Statistics
Matches: 131, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
52 2 0.02
53 42 0.32
54 8 0.06
55 77 0.59
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:25538450 original size:108 final size:110
Alignment explanation
Indices: 25538304--25538504 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
25538294 ATCCTTTTGA
* **
25538304 AACTTACCATTGCCATGTCTCAACATGGTCTTACATGGTATCCTTGTTTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTCACCAA
25538367 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
25538412 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
25538477 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
25538505 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.57
109 7 0.08
110 28 0.34
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:25540310 original size:19 final size:19
Alignment explanation
Indices: 25540264--25540311 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
25540254 GTATATATTT
25540264 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
25540282 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
25540301 TAAGTTTTATT
1 TAAATTTTATT
25540312 AATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:25540371 original size:42 final size:40
Alignment explanation
Indices: 25540321--25540413 Score: 96
Period size: 41 Copynumber: 2.2 Consensus size: 40
25540311 TAATATTCTA
** * *
25540321 GAAATATTTTATTTTATCTTTTAGTAATTTATTAGAATAAG
1 GAAATATTTTACCTTATCTTTTAGT-AGTTATTAAAATAAG
* *
25540362 GAAACTATTTTCCCTTATGTTTTAGTAGTTATTAAAATAAGG
1 GAAA-TATTTTACCTTATCTTTTAGTAGTTATTAAAATAA-G
*
25540404 GAATTATTTT
1 GAAATATTTT
25540414 CCCAATTAGG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
41 22 0.51
42 21 0.49
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.48
Consensus pattern (40 bp):
GAAATATTTTACCTTATCTTTTAGTAGTTATTAAAATAAG
Found at i:25540412 original size:41 final size:42
Alignment explanation
Indices: 25540334--25540416 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 42
25540324 ATATTTTATT
* *
25540334 TTATCTTTTAGTAATTTATTAGAATAAGGAAACTATTTTCCC
1 TTATCTTTTAGTAAGTTATTAAAATAAGGAAACTATTTTCCC
* * *
25540376 TTATGTTTTAGT-AGTTATTAAAATAAGGGAATTATTTTCCC
1 TTATCTTTTAGTAAGTTATTAAAATAAGGAAACTATTTTCCC
25540417 AATTAGGATT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 25 0.69
42 11 0.31
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.46
Consensus pattern (42 bp):
TTATCTTTTAGTAAGTTATTAAAATAAGGAAACTATTTTCCC
Found at i:25542957 original size:21 final size:21
Alignment explanation
Indices: 25542925--25542964 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
25542915 TTAAAATTTT
25542925 GTTGACAAGCTAATTCTATCC
1 GTTGACAAGCTAATTCTATCC
25542946 GTTGA-AATGCTAATTCTAT
1 GTTGACAA-GCTAATTCTAT
25542965 TCAAATCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
GTTGACAAGCTAATTCTATCC
Found at i:25556278 original size:50 final size:48
Alignment explanation
Indices: 25556203--25556423 Score: 196
Period size: 46 Copynumber: 4.7 Consensus size: 48
25556193 GAGGCTGACA
*
25556203 CCATGTCCCAGACATGGTCTTACACTAGCCCTCACATATCCGTACAGATG
1 CCATGTCCCAGACATGGTCTTACACTAG-CCTCACATAT-CGTACCGATG
* *
25556253 CCATGTCCCAGACATGGTCTTACACT-G--ACACATCTCGTAGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCCTCACATATCGTA-CCGATG
* * * * *
25556299 -CATGTCCCAGACAT-GTCTTGCACTAG-CTCTCATCTCAATGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCCTCACATATC-GTACCGATG
* * *
25556345 CCAT-TCCCAGACATGGTCTTACACT-GGCTCTCATAAT-GTGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCCTCACAT-ATCGT-ACCGATG
*
25556392 -CATGTCCCAAACAT-GTCTTACACTAGCC-CACA
1 CCATGTCCCAGACATGGTCTTACACTAGCCTCACA
25556424 AATAACCCGA
Statistics
Matches: 146, Mismatches: 14, Indels: 26
0.78 0.08 0.14
Matches are distributed among these distances:
44 9 0.06
45 19 0.13
46 52 0.36
47 38 0.26
48 1 0.01
49 1 0.01
50 26 0.18
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.25
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTAGCCTCACATATCGTACCGATG
Found at i:25556389 original size:47 final size:47
Alignment explanation
Indices: 25556050--25556418 Score: 221
Period size: 49 Copynumber: 7.8 Consensus size: 47
25556040 TAGAGTATGA
* * * *
25556050 TGCCAATGCCATGTCCTAGACATAGTCTTACACTGGCTCATCTATCAA-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TC-AT-AATG
* * *
25556099 T--CGATGCCATGTCCCAGACATGGTATTACACTATCTATCGA-AATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-ATAAT---G
** * * *
25556147 -GCCGACACCATGTCCCAGACATGGTCTTATACTAACTATCGA-AATTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-ATAA-TG
* * ** * *
25556194 AGGCTGACACCATGTCCCAGACATGGTCTTACACTAGCCCTCACATATCCG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-AT--G
* * * * *
25556245 TACAGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-CTCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-G
*
25556290 TAGCCGATG-CATGTCCCAGACAT-GTCTTGCACTAGCTCTCATCTCAA--
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA--T-AATG
*
25556337 TGCCGATGCCAT-TCCCAGACATGGTCTTACACTGGCTCTCATAATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATG
*
25556383 TGGCCGATG-CATGTCCCAAACAT-GTCTTACACTAGC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
25556419 CCACAAATAA
Statistics
Matches: 257, Mismatches: 37, Indels: 55
0.74 0.11 0.16
Matches are distributed among these distances:
44 13 0.05
45 19 0.07
46 45 0.18
47 66 0.26
48 6 0.02
49 76 0.30
50 31 0.12
51 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATG
Found at i:25556407 original size:93 final size:92
Alignment explanation
Indices: 25556204--25556418 Score: 245
Period size: 93 Copynumber: 2.3 Consensus size: 92
25556194 AGGCTGACAC
* * * ** * *
25556204 CATGTCCCAGACATGGTCTTACACTAGCCCTCACATATCCGTACAGATGCCATGTCCCAGACATG
1 CATGTCCCAAACAT-GTCTTACACTAG--CTCTCATCTCAATGCCGATGCCATGTCCCAGACATG
25556269 GTCTTACACTGACACATCTCGTAGCCGATG
63 GTCTTACACTGACACATCTCGTAGCCGATG
* *
25556299 CATGTCCCAGACATGTCTTGCACTAGCTCTCATCTCAATGCCGATGCCAT-TCCCAGACATGGTC
1 CATGTCCCAAACATGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCAGACATGGTC
* * * *
25556363 TTACACTGGCTC-TCATAATGTGGCCGATG
66 TTACACTGACACATC-T--CGTAGCCGATG
25556392 CATGTCCCAAACATGTCTTACACTAGC
1 CATGTCCCAAACATGTCTTACACTAGC
25556419 CCACAAATAA
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
90 2 0.02
91 25 0.24
92 18 0.17
93 34 0.33
94 11 0.11
95 14 0.13
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (92 bp):
CATGTCCCAAACATGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCAGACATGGTC
TTACACTGACACATCTCGTAGCCGATG
Found at i:25562622 original size:101 final size:104
Alignment explanation
Indices: 25562446--25562698 Score: 424
Period size: 101 Copynumber: 2.5 Consensus size: 104
25562436 TAACCGTTAT
* **
25562446 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
25562511 AATCAGCACATAGCAACCCCC-TTT-CATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATA
25562548 TGGTGGATATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
25562612 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTT-ACATTTCAAAGATA
*
25562652 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCAC
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCAC
25562699 ACACAACCCC
Statistics
Matches: 142, Mismatches: 4, Indels: 7
0.93 0.03 0.05
Matches are distributed among these distances:
101 53 0.37
102 32 0.23
104 42 0.30
105 15 0.11
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATA
Found at i:25569522 original size:26 final size:26
Alignment explanation
Indices: 25569492--25569543 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
25569482 CACCAATGAA
*
25569492 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
25569518 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
25569544 CTTTTCACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:25569550 original size:104 final size:104
Alignment explanation
Indices: 25569356--25569622 Score: 448
Period size: 104 Copynumber: 2.6 Consensus size: 104
25569346 TAACCGTTAT
* **
25569356 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
25569421 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
25569460 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
25569524 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
* **
25569564 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
25569623 TTATATACAA
Statistics
Matches: 155, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
103 25 0.16
104 129 0.83
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:25576704 original size:15 final size:13
Alignment explanation
Indices: 25576684--25576743 Score: 77
Period size: 13 Copynumber: 4.5 Consensus size: 13
25576674 CCGTATGCAA
25576684 TTTTTTTTTCAAAAT
1 TTTTTTTTTC--AAT
25576699 TTTTTTTTTCAAT
1 TTTTTTTTTCAAT
* *
25576712 TTTTTTTCTCGA-
1 TTTTTTTTTCAAT
25576724 TTTTTTTTTCAAT
1 TTTTTTTTTCAAT
25576737 TTTTTTT
1 TTTTTTT
25576744 GAATCTACAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
12 10 0.25
13 20 0.50
15 10 0.25
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (13 bp):
TTTTTTTTTCAAT
Found at i:25576726 original size:13 final size:12
Alignment explanation
Indices: 25576681--25576743 Score: 81
Period size: 12 Copynumber: 4.9 Consensus size: 12
25576671 AGACCGTATG
25576681 CAATTTTTTTTT
1 CAATTTTTTTTT
25576693 CAAAATTTTTTTTTT
1 C--AA-TTTTTTTTT
25576708 CAATTTTTTTTCT
1 CAATTTTTTTT-T
*
25576721 CGATTTTTTTTT
1 CAATTTTTTTTT
25576733 CAATTTTTTTT
1 CAATTTTTTTT
25576744 GAATCTACAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
12 20 0.44
13 13 0.29
14 2 0.04
15 10 0.22
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:25580001 original size:47 final size:47
Alignment explanation
Indices: 25579928--25580338 Score: 276
Period size: 47 Copynumber: 8.7 Consensus size: 47
25579918 GGTATGATGC
* *
25579928 CGATGCCATGTCTCAGACATGATCTTACACTGGCTCATCCATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGT
*
25579975 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGT
* * ** *
25580022 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCGAAATTGAGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC--CATCAAGT
** * * *
25580070 CTGACACCATGTCCCGGACATGGTCTTACACTAGCTC-TCACAT-ATCCGT
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCA--AGT
* * * * *
25580119 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTAT-AGGT
1 --CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGT
* * *
25580167 GCCGATGCCATGTCCTAGACATGGTCTTACACTGACACAT-C-TCATAG-
1 --CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCA-AGT
* * * * *
25580214 CTGATG-CATGACCCAGACAT-GTCTTATATTGGCTTACAT-C-TCGAGGC
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCCATC-AAGT
* * * *
25580261 CAATG-CATGTCCCAGGCAT-GTCTTACACTAGCTC-TCGTC-TCAGTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC--CATCA-AGT
*
25580307 CGATGCCATGTCCCAAACATGGTCTTACACTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG
25580339 ACTCTTATAA
Statistics
Matches: 293, Mismatches: 49, Indels: 43
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.00
44 11 0.04
45 15 0.05
46 48 0.16
47 92 0.31
48 59 0.20
49 32 0.11
50 32 0.11
51 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGT
Found at i:25580187 original size:48 final size:48
Alignment explanation
Indices: 25579925--25580382 Score: 253
Period size: 47 Copynumber: 9.7 Consensus size: 48
25579915 TAGGGTATGA
* * * * * *
25579925 TGCCGATGCCATGTCTCAGACATGATCTTACACTGGCTCATCCATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTAT-AGG
* * * * *
25579974 T--CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTAT-AGG
* * *
25580021 T--CGATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCGAAATTGAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC--TATAG-G
* ** * * * **
25580069 -GCTGACACCATGTCCCGGACATGGTCTTACACTAGCTCTCA-CATATCCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATC-TATAGG
*
25580118 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATAGG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATAGG
*
25580166 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGACACATCTCATA--
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCT-ATAGG
* * * * * **
25580213 -GCTGATG-CATGACCCAGACAT-GTCTTATATTGGCTTACATCTCGA-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTATAGG
* * * *
25580259 -GCCAATG-CATGTCCCAGGCAT-GTCTTACACT-AGCTC-TCGTCTCA-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACATC-TAT-AGG
* * * *
25580304 TGTCGATGCCATGTCCCAAACATGGTCTTACACTGACTC-T-TATAATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTAT-AGG
25580351 TGGCCGATG-CATGT-CCAGACAT-GTCTTACACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
25580383 AGCGCACAAA
Statistics
Matches: 332, Mismatches: 54, Indels: 50
0.76 0.12 0.11
Matches are distributed among these distances:
43 2 0.01
44 13 0.04
45 25 0.08
46 56 0.17
47 95 0.29
48 70 0.21
49 35 0.11
50 33 0.10
51 2 0.01
52 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATAGG
Found at i:25594587 original size:40 final size:40
Alignment explanation
Indices: 25594509--25594689 Score: 276
Period size: 40 Copynumber: 4.5 Consensus size: 40
25594499 ACCCAAGTAT
*
25594509 CTTCGGGATTTAG-CCGGATATAG-CAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTTGCACAAATGC
* * **
25594548 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTTGCACAAATGC
*
25594588 CTTCGGGACTTAGCTCGGATATAGTCACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTTGCACAAATGC
*
25594628 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTTGCACAAATGC
25594668 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
25594690 TATCCGAATA
Statistics
Matches: 128, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 11 0.09
40 116 0.91
41 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTTGCACAAATGC
Found at i:25601667 original size:44 final size:44
Alignment explanation
Indices: 25601604--25601694 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
25601594 TTATAACTCA
25601604 TAAGCCTCATAAACAAAAGCAAAAAACAACAAAATGTTCAGAAC
1 TAAGCCTCATAAACAAAAGCAAAAAACAACAAAATGTTCAGAAC
25601648 TAAGCCTCATAAACAAAAGCAAAAAACAACAAAATGTTCAGAAC
1 TAAGCCTCATAAACAAAAGCAAAAAACAACAAAATGTTCAGAAC
25601692 TAA
1 TAA
25601695 CATGGTTGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.57, C:0.20, G:0.09, T:0.14
Consensus pattern (44 bp):
TAAGCCTCATAAACAAAAGCAAAAAACAACAAAATGTTCAGAAC
Found at i:25604485 original size:27 final size:27
Alignment explanation
Indices: 25604432--25604486 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
25604422 TTAATGAATA
*
25604432 ATTATGTTAGTTATATCTTAAGTGATT
1 ATTATGTTAGTTATATCTTAAGAGATT
25604459 ATTATG-T-GTTATATGCTTAAAGAGATT
1 ATTATGTTAGTTATAT-CTT-AAGAGATT
25604486 A
1 A
25604487 AATAGTTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 7 0.28
26 4 0.16
27 14 0.56
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (27 bp):
ATTATGTTAGTTATATCTTAAGAGATT
Found at i:25606388 original size:43 final size:43
Alignment explanation
Indices: 25606324--25606579 Score: 223
Period size: 45 Copynumber: 5.8 Consensus size: 43
25606314 CGAATTCATC
*
25606324 CACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCCTATATCAT-T
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCTATAT-ATCT
*
25606365 GCACCGGCATTATAGCCTGCTAGGCTCGAATG-CCTGAATAGTATCT
1 -CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCT--ATA-TATCT
* * *
25606411 CACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCT
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCC-TAT-ATATCT
* * * *
25606456 CACCGGCATCATAGTCTGCTAGGCTCAAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCC-TATA-TATCT
** * * * *
25606501 CATTGGCATCATAGCCTGCTCGGCTCAAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCC-TATA-TATCT
* * *
25606546 CACCGGCATCATAACCTGCTAGGCTCAAAGGCCC
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCC
25606580 GAATAGTACC
Statistics
Matches: 188, Mismatches: 16, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
42 10 0.05
43 20 0.11
44 2 0.01
45 151 0.80
46 5 0.03
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.23
Consensus pattern (43 bp):
CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCTATATATCT
Found at i:25606430 original size:45 final size:45
Alignment explanation
Indices: 25606366--25606587 Score: 336
Period size: 45 Copynumber: 4.9 Consensus size: 45
25606356 TATATCATTG
* * * *
25606366 CACCGGCATTATAGCCTGCTAGGCTCGAATGCCTGAATAGTATCT
1 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
* * *
25606411 CACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCT
1 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
*
25606456 CACCGGCATCATAGTCTGCTAGGCTCAAAGGCCCGAATAGTATCT
1 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
** *
25606501 CATTGGCATCATAGCCTGCTCGGCTCAAAGGCCCGAATAGTATCT
1 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
*
25606546 CACCGGCATCATAACCTGCTAGGCTCAAAGGCCCGAATAGTA
1 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
25606588 CCGTACGATA
Statistics
Matches: 160, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 160 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (45 bp):
CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
Found at i:25610080 original size:46 final size:45
Alignment explanation
Indices: 25610027--25610246 Score: 168
Period size: 46 Copynumber: 4.8 Consensus size: 45
25610017 TCATTGGTGT
*
25610027 GAGCCAGTGTAATACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-GCCACATTATGA
*
25610073 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG--ACATTGA-GA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGCCACATT-ATGA
* * **
25610118 CGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACAT-A
1 -GA--GCCAGTGTAAGACATGTCTGGGACATGCATC-GCCAC-A-TTATGA
*
25610168 -AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTAC--TA-GAA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-GCCACATTATG-A
* * *
25610211 GTGTCAGTGTGAGACCATGTCTGGGACATGGCATCG
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
25610247 ACACCGATAT
Statistics
Matches: 143, Mismatches: 14, Indels: 35
0.74 0.07 0.18
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 10 0.07
45 22 0.15
46 60 0.42
47 28 0.20
48 17 0.12
49 1 0.01
50 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGCCACATTATGA
Found at i:25628863 original size:12 final size:12
Alignment explanation
Indices: 25628846--25628870 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25628836 TTATTAAATG
25628846 AATTAAAAGCCA
1 AATTAAAAGCCA
25628858 AATTAAAAGCCA
1 AATTAAAAGCCA
25628870 A
1 A
25628871 TTTTTGTCCA
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AATTAAAAGCCA
Found at i:25629802 original size:43 final size:42
Alignment explanation
Indices: 25629680--25629831 Score: 205
Period size: 42 Copynumber: 3.6 Consensus size: 42
25629670 TAAGACTCTG
* * *
25629680 TGTAAGACCATATCTGGGATATGGCATCTATATGAGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
* *
25629722 TGTAGGACCATATCTGGGATATGGCATCGATATGAGATTTCT
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
* * * *
25629764 TGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATTACA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTTCA
*
25629807 TGTAAGCCCATATCTGGGATATGGC
1 TGTAAGACCATATCTGGGATATGGC
25629832 GTTGGTATGG
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 60 0.62
43 36 0.38
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
Found at i:25630679 original size:28 final size:29
Alignment explanation
Indices: 25630643--25630707 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 29
25630633 AAAGTGATTT
* *
25630643 TTGACAAAAATGTCAATT-AGGGATTAAA
1 TTGAGAAAAATGTAAATTGAGGGATTAAA
*
25630671 TTGAGAAAAATGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAATTGAGGGATTAAA
*
25630700 TTGTGAAA
1 TTGAGAAA
25630708 TAAATGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.50
29 16 0.50
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.29
Consensus pattern (29 bp):
TTGAGAAAAATGTAAATTGAGGGATTAAA
Found at i:25631244 original size:43 final size:42
Alignment explanation
Indices: 25631192--25631354 Score: 141
Period size: 43 Copynumber: 3.8 Consensus size: 42
25631182 ATCGAGATGT
* * *
25631192 GATTCCATGTAATACCATGTCTGGGACATCGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACAT-GGCATCGTATTGA
* * * *
25631235 GATTACATGTAAGAACATGTCTGGCACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACA-TGGCATCG-TATTGA
* * * *
25631278 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACA-TGGCATCGTAT-TGA
* * *
25631321 GATAACATGTAAGACCATATCTGGGATATGGCAT
1 GATTACATGTAAGACCATGTCTGGGACATGGCAT
25631355 TGTACTAACT
Statistics
Matches: 95, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 83 0.87
44 4 0.04
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGGACATGGCATCGTATTGA
Found at i:25638972 original size:5 final size:5
Alignment explanation
Indices: 25638964--25638990 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
25638954 AACCGAAAAC
25638964 ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT AT
25638991 AATAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:25639125 original size:19 final size:18
Alignment explanation
Indices: 25639087--25639132 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
25639077 AATTTTTTAA
* *
25639087 TTATAATTTTTTAATTTT
1 TTATATTTTTTTAATATT
25639105 TTATATTTTTATTAATATT
1 TTATATTTTT-TTAATATT
25639124 TTATATTTT
1 TTATATTTT
25639133 AAAATATTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTATATTTTTTTAATATT
Found at i:25639140 original size:17 final size:19
Alignment explanation
Indices: 25639103--25639140 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25639093 TTTTTTAATT
*
25639103 TTTTATATTTTTATTAATA
1 TTTTATATTTTTATAAATA
25639122 TTTTATA-TTTTA-AAATA
1 TTTTATATTTTTATAAATA
25639139 TT
1 TT
25639141 ACTAAATGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 5 0.28
19 7 0.39
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTATATTTTTATAAATA
Found at i:25641382 original size:20 final size:20
Alignment explanation
Indices: 25641359--25641403 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
25641349 TTTAAAGCTG
25641359 ATTTTATATTT-TTATAATAT
1 ATTTTAT-TTTATTATAATAT
* *
25641379 ATTTTATTTTATTTTTATAT
1 ATTTTATTTTATTATAATAT
25641399 ATTTT
1 ATTTT
25641404 GTAGTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTATTTTATTATAATAT
Found at i:25642531 original size:14 final size:16
Alignment explanation
Indices: 25642504--25642535 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
25642494 TCTAAAGACT
25642504 AAAAATGATCAAATTA
1 AAAAATGATCAAATTA
25642520 AAAAAT-AT-AAATTA
1 AAAAATGATCAAATTA
25642534 AA
1 AA
25642536 TTTACAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (16 bp):
AAAAATGATCAAATTA
Found at i:25661382 original size:11 final size:11
Alignment explanation
Indices: 25661366--25661391 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
25661356 TTTATTTGGA
25661366 TATGAAAAATG
1 TATGAAAAATG
25661377 TATGAAAAATG
1 TATGAAAAATG
25661388 TATG
1 TATG
25661392 TTTGTTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (11 bp):
TATGAAAAATG
Found at i:25665810 original size:16 final size:16
Alignment explanation
Indices: 25665786--25665833 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
25665776 CTAGATCGGC
*
25665786 AAATGCCGAAAAGTCG
1 AAATGCCGAAAAGCCG
*
25665802 AAATACCGAAAAGCCG
1 AAATGCCGAAAAGCCG
25665818 AAATGCCGAAAAGCCG
1 AAATGCCGAAAAGCCG
25665834 GCATCTTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.08
Consensus pattern (16 bp):
AAATGCCGAAAAGCCG
Found at i:25665833 original size:8 final size:8
Alignment explanation
Indices: 25665790--25665833 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
25665780 ATCGGCAAAT
25665790 GCCGAAAA
1 GCCGAAAA
*
25665798 GTCGAAATA
1 GCCGAAA-A
25665807 -CCGAAAA
1 GCCGAAAA
*
25665814 GCCGAAAT
1 GCCGAAAA
25665822 GCCGAAAA
1 GCCGAAAA
25665830 GCCG
1 GCCG
25665834 GCATCTTGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
7 1 0.03
8 28 0.93
9 1 0.03
ACGTcount: A:0.43, C:0.25, G:0.25, T:0.07
Consensus pattern (8 bp):
GCCGAAAA
Found at i:25666111 original size:27 final size:27
Alignment explanation
Indices: 25666081--25666144 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
25666071 ATTTACTAAA
25666081 GTACCCCTAAGTATG-AAAATTACCACT
1 GTACCCCTAAG-ATGCAAAATTACCACT
* *
25666108 GTACCCCT-AGGTGCAAAATTACCATT
1 GTACCCCTAAGATGCAAAATTACCACT
*
25666134 ATACCCCTAAG
1 GTACCCCTAAG
25666145 GTTAGTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.06
26 20 0.62
27 10 0.31
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.25
Consensus pattern (27 bp):
GTACCCCTAAGATGCAAAATTACCACT
Found at i:25666284 original size:27 final size:27
Alignment explanation
Indices: 25666246--25666360 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 27
25666236 TAGAGGAAGC
* *
25666246 GTTCTAGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
25666273 GTTCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* * *
25666300 GTTATGGTGTCTCTACCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* * *
25666327 GTATCTGGTGACTTTGTCAC-AATATCT
1 GT-TCTGGTGGCTCTGCCACAAATATCT
25666354 GTTCTGG
1 GTTCTGG
25666361 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 5 0.06
27 60 0.78
28 12 0.16
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAAATATCT
Found at i:25688498 original size:46 final size:46
Alignment explanation
Indices: 25688335--25688508 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 46
25688325 TGTAACCCGC
* * * ** *
25688335 CCATAAGCGAACTCGGACTCAACTCAACAAGTTTGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
* * *
25688381 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GA--AC-A-TTCGCAT
* * *
25688431 -C-TCA-TGAACTTGGACTTAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
25688474 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
25688509 GATGCTCAAC
Statistics
Matches: 103, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 58 0.56
47 26 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
Found at i:25696606 original size:24 final size:24
Alignment explanation
Indices: 25696576--25696625 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
25696566 TTGATTGTGA
25696576 AATAGTGATTTGAGTTGGCATATG
1 AATAGTGATTTGAGTTGGCATATG
25696600 AATAGTGATTTGAGTTGGCATATG
1 AATAGTGATTTGAGTTGGCATATG
25696624 AA
1 AA
25696626 CAATGTGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.36
Consensus pattern (24 bp):
AATAGTGATTTGAGTTGGCATATG
Found at i:25698077 original size:6 final size:6
Alignment explanation
Indices: 25698060--25698215 Score: 135
Period size: 6 Copynumber: 25.8 Consensus size: 6
25698050 AACCAAAATG
* *
25698060 AGAATC ATAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
25698108 AGTAA-C AGAATC AGAATT AGAATC AGAATC AGTAA-C AGAATC AAAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* * * *
25698156 AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATT ACGTGA-C AGAATC
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
25698205 AGAATC AGAAT
1 AGAATC AGAAT
25698216 GTGAATGCAA
Statistics
Matches: 121, Mismatches: 16, Indels: 26
0.74 0.10 0.16
Matches are distributed among these distances:
5 10 0.08
6 101 0.83
7 8 0.07
8 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.15, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:25698094 original size:30 final size:30
Alignment explanation
Indices: 25698060--25698190 Score: 192
Period size: 30 Copynumber: 4.4 Consensus size: 30
25698050 AACCAAAATG
*
25698060 AGAATCATAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATC
*
25698090 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATCAGTAACAGAATC
*
25698120 AGAATTAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATC
* * *
25698150 AAAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATC
25698180 AGAATCAGAAT
1 AGAATCAGAAT
25698191 TACGTGACAG
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
29 1 0.01
30 88 0.98
31 1 0.01
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATCAGTAACAGAATC
Found at i:25698134 original size:60 final size:60
Alignment explanation
Indices: 25698060--25698190 Score: 226
Period size: 60 Copynumber: 2.2 Consensus size: 60
25698050 AACCAAAATG
* *
25698060 AGAATCATAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATCAAAATCAGAATCAATATTAGTAACAGAATC
* *
25698120 AGAATTAGAATCAGAATCAGTAACAGAATCAAAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATCAAAATCAGAATCAATATTAGTAACAGAATC
25698180 AGAATCAGAAT
1 AGAATCAGAAT
25698191 TACGTGACAG
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 66 1.00
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.21
Consensus pattern (60 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAAAATCAGAATCAATATTAGTAACAGAATC
Found at i:25698370 original size:27 final size:26
Alignment explanation
Indices: 25698334--25698404 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
25698324 AGCATGGCTG
*
25698334 CCAGAACAGAT-TTCGTGACAGAGTCA
1 CCAGAACAGATATT-GTGACAGAGCCA
*
25698360 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
*
25698387 CCAGAATCAGATAATGTG
1 CCAGAA-CAGATATTGTG
25698405 GCAAACCCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.15
27 31 0.79
28 2 0.05
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:25698414 original size:27 final size:27
Alignment explanation
Indices: 25698358--25698415 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
25698348 GTGACAGAGT
* * *
25698358 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
25698385 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
25698412 CACC
1 CACC
25698416 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:25698620 original size:22 final size:22
Alignment explanation
Indices: 25698572--25698630 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
25698562 GTAAATACGT
*
25698572 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
25698594 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
25698616 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
25698631 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:25698782 original size:27 final size:26
Alignment explanation
Indices: 25698705--25698785 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 26
25698695 CTGCACTTAG
* * *
25698705 CAGATATTGTGACAGAGTCACCAAATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
25698732 TAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
25698758 CAGATATTTGTGGCATAGCCACCAGAA
1 CAGATA-TTGTGGCAGAGCCACCAGAA
25698785 C
1 C
25698786 GCTTCCTCCG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.13
27 41 0.87
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:25699053 original size:27 final size:27
Alignment explanation
Indices: 25698984--25699142 Score: 216
Period size: 27 Copynumber: 6.0 Consensus size: 27
25698974 GGGCAAAATG
* * * * *
25698984 GTAATTTTACCCCACA-AGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
25699010 GTAATT-TACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
25699036 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
25699062 GATAATTCTACCCTACAGGGGTATTCCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
25699090 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
25699117 GTAATTCTACCCTACAAGGGTATTTC
1 GTAATTCTACCCTACAGGGGTATTTC
25699143 GATAATTTCA
Statistics
Matches: 121, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
25 8 0.07
26 20 0.17
27 92 0.76
28 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:25699162 original size:27 final size:27
Alignment explanation
Indices: 25699131--25699287 Score: 129
Period size: 27 Copynumber: 5.8 Consensus size: 27
25699121 TTCTACCCTA
*
25699131 CAAGGGTATTTCGATAATTTCACAAAT
1 CAAGGGTATTTCGATAATTTTACAAAT
* * *
25699158 TAAGGGTATTTTGATAATTTTACAAAC
1 CAAGGGTATTTCGATAATTTTACAAAT
* * * **
25699185 CAGGGGTATTTTGGTAATTTTACTGAT
1 CAAGGGTATTTCGATAATTTTACAAAT
* * *
25699212 CGAGGGTATCTC-AGTAATTTTGCAAAT
1 CAAGGGTATTTCGA-TAATTTTACAAAT
**
25699239 TGAGGGTATTTC-AGTAATTTTACAAAT
1 CAAGGGTATTTCGA-TAATTTTACAAAT
* * *
25699266 CAAGGATATTTGGGTAATTTTA
1 CAAGGGTATTTCGATAATTTTA
25699288 TAAACTGGGG
Statistics
Matches: 102, Mismatches: 26, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGATAATTTTACAAAT
Found at i:25699218 original size:54 final size:54
Alignment explanation
Indices: 25699134--25699317 Score: 156
Period size: 54 Copynumber: 3.4 Consensus size: 54
25699124 TACCCTACAA
* * * * *
25699134 GGGTATTTCGATAATTTCACAAATTAAGGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGATAATTTTACAAACTAG
** * * * * *
25699188 GGGTATTTTGGTAATTTTACTGATCGAGGGTA-TCTCAGTAATTTTGCAAA-TTG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGA-TAATTTTACAAACTAG
** * * * * *
25699241 AGGGTATTTCAGTAATTTTACAAATCAAGGATATTTGGGTAATTTTATAAACTGG
1 -GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGATAATTTTACAAACTAG
*
25699296 GGGTACTTTGGTAATTTTACAA
1 GGGTATTTTGGTAATTTTACAA
25699318 CTGAGGGTAT
Statistics
Matches: 98, Mismatches: 28, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
53 4 0.04
54 91 0.93
55 3 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGATAATTTTACAAACTAG
Found at i:25699300 original size:81 final size:81
Alignment explanation
Indices: 25699145--25699337 Score: 205
Period size: 81 Copynumber: 2.4 Consensus size: 81
25699135 GGTATTTCGA
* * * * * *
25699145 TAATTTCACAAATTAAGGGTATTT-TGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACT
1 TAATTTTACAAATTGAGGGTATTTCAG-TAATTTTACAAACCAAGGATATTTGGGTAATTTTACT
* *
25699209 GATCGAGGGTA-TCTCAG
65 AAACGAGGGTACT-TCAG
* *
25699226 TAATTTTGCAAATTGAGGGTATTTCAGTAATTTTACAAATCAAGGATATTTGGGTAATTTTA-TA
1 TAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAACCAAGGATATTTGGGTAATTTTACTA
* **
25699290 AACTGGGGGTACTTTGG
66 AAC-GAGGGTACTTCAG
*
25699307 TAATTTTAC-AACTGAGGGTATTTCAGTAATT
1 TAATTTTACAAATTGAGGGTATTTCAGTAATT
25699338 CGGTAAACTA
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
80 24 0.26
81 68 0.72
82 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (81 bp):
TAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAACCAAGGATATTTGGGTAATTTTACTA
AACGAGGGTACTTCAG
Found at i:25704795 original size:15 final size:15
Alignment explanation
Indices: 25704763--25704791 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
25704753 ATTTTCTATG
25704763 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
25704778 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
25704792 ATTTTCGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:25705044 original size:27 final size:27
Alignment explanation
Indices: 25704987--25705044 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
25704977 TGTTTTATAT
*
25704987 TATATAATAAAGGTTAAATAGGTAAAT
1 TATATAATAAAGGTTAAATAGGTAAAA
*
25705014 TATATAAT-AA-GTTAATATATGTTAAAA
1 TATATAATAAAGGTTAA-ATA-GGTAAAA
25705041 TATA
1 TATA
25705045 ACATAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 5 0.19
26 5 0.19
27 17 0.63
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (27 bp):
TATATAATAAAGGTTAAATAGGTAAAA
Found at i:25705330 original size:15 final size:15
Alignment explanation
Indices: 25705310--25705340 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25705300 AAATATGAAA
25705310 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
25705325 GATATGTTTTGTATT
1 GATATGTTTTGGATT
25705340 G
1 G
25705341 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:25706062 original size:44 final size:44
Alignment explanation
Indices: 25705903--25706144 Score: 155
Period size: 41 Copynumber: 5.6 Consensus size: 44
25705893 TGTGTTTGCT
** ** *
25705903 TGTAAGACCACATCTGGGATGTTGGCAT-AGATATATGTGGTTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCA-ATATATGTGATTA-G
* *
25705948 TGTAAGACCATGTCTGGGACA-T--CA-AAATCATATTTGATTCA-
1 TGTAAGACCATGTCTGGGACATTGGCATCAAT-ATATGTGATT-AG
* * * * *
25705989 TGTAAGACCACGTCTGAGACTTTGTCATCAATATATGTGGTTAG
1 TGTAAGACCATGTCTGGGACATTGGCATCAATATATGTGATTAG
* * *
25706033 TGTAAGACCATGTTTGGGAAATTGGCATC-ATAT-T-TGATTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCAATATATGTGATTAG
* * * * *
25706074 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATGAGGT-AGTA-
1 TGTAAGACCATGTCTGGGACATTGGCATCAATAT-ATGTGATTAG
* * *
25706117 TGGAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
25706145 TGTTCGATAT
Statistics
Matches: 153, Mismatches: 32, Indels: 26
0.73 0.15 0.12
Matches are distributed among these distances:
41 50 0.33
42 17 0.11
43 29 0.19
44 36 0.24
45 21 0.14
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACATTGGCATCAATATATGTGATTAG
Done.