Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 61 of 210
Found at i:21472819 original size:21 final size:21
Alignment explanation
Indices: 21472777--21472821 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
21472767 CTAATCGAAT
* * **
21472777 AAAATAAAAACAAAGATTAAA
1 AAAAGAAAAAAAAAGAAGAAA
21472798 AAAAGAAAAAAAAAGAAGAAA
1 AAAAGAAAAAAAAAGAAGAAA
21472819 AAA
1 AAA
21472822 GAACAGAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.82, C:0.02, G:0.09, T:0.07
Consensus pattern (21 bp):
AAAAGAAAAAAAAAGAAGAAA
Found at i:21474059 original size:3 final size:3
Alignment explanation
Indices: 21474051--21474087 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
21474041 ATGTTTCTAA
21474051 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
21474088 GAATCACATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21477921 original size:20 final size:20
Alignment explanation
Indices: 21477893--21477930 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21477883 AAACCCTTTA
*
21477893 AAATTTTTAAAATATTAATT
1 AAATATTTAAAATATTAATT
*
21477913 AAATATTTAAAATTTTAA
1 AAATATTTAAAATATTAA
21477931 AAATTTAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATATTTAAAATATTAATT
Found at i:21477921 original size:29 final size:29
Alignment explanation
Indices: 21477889--21477957 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
21477879 CATCAAACCC
* * *
21477889 TTTAAAATTTTTAAAATATT-AATTAAATA
1 TTTAAAATTTTAAAAAT-TTAAACTAAACA
21477918 TTTAAAATTTTAAAAATTTAAACTAAACA
1 TTTAAAATTTTAAAAATTTAAACTAAACA
21477947 TTCTAAAATTT
1 TT-TAAAATTT
21477958 AATGTCGGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 2 0.06
29 25 0.71
30 8 0.23
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (29 bp):
TTTAAAATTTTAAAAATTTAAACTAAACA
Found at i:21480044 original size:32 final size:32
Alignment explanation
Indices: 21480008--21480078 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
21479998 TATTTAATTA
*
21480008 TTGTTGTTGGGTTTTGAGTTTTAAATATGTTT
1 TTGTTGTTGGGTTTTGAGTTTTAAATATGTGT
21480040 TTGTTGTTGGGTTTTGAGTTTTAAATATGTGT
1 TTGTTGTTGGGTTTTGAGTTTTAAATATGTGT
21480072 TTGTTGT
1 TTGTTGT
21480079 ATAACCCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.14, C:0.00, G:0.27, T:0.59
Consensus pattern (32 bp):
TTGTTGTTGGGTTTTGAGTTTTAAATATGTGT
Found at i:21486565 original size:41 final size:41
Alignment explanation
Indices: 21486520--21486698 Score: 136
Period size: 41 Copynumber: 4.5 Consensus size: 41
21486510 ATTAAACTAT
* *
21486520 TTTTTTATAGAACTAATTTTTAACAGTGGAAATTGATAAAA
1 TTTTTAATAGAACTAATTTTTAACAGTAGAAATTGATAAAA
* * * * * * *
21486561 TTTTTAATAGAACTAATTTGCT--C-TTTGAACTAGCGTATAA
1 TTTTTAATAGAACTAATTT-TTAACAGTAGAAATTG-ATAAAA
** * * * * *
21486601 TAATGAATAGAACCAATTTTTAATATTAGAAATTGAT---T
1 TTTTTAATAGAACTAATTTTTAACAGTAGAAATTGATAAAA
* *
21486639 TTTTTTATAGAACTAATTTTTAACCGTAGAAATTGATAAAA
1 TTTTTAATAGAACTAATTTTTAACAGTAGAAATTGATAAAA
21486680 TTTTTAATAGAACTAATTT
1 TTTTTAATAGAACTAATTT
21486699 ATTCTTTGAT
Statistics
Matches: 101, Mismatches: 29, Indels: 16
0.69 0.20 0.11
Matches are distributed among these distances:
38 29 0.29
39 7 0.07
40 20 0.20
41 37 0.37
42 8 0.08
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (41 bp):
TTTTTAATAGAACTAATTTTTAACAGTAGAAATTGATAAAA
Found at i:21486657 original size:38 final size:39
Alignment explanation
Indices: 21486606--21486698 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 39
21486596 TATAATAATG
* * * *
21486606 AATAGAACCAATTTTTAATATTAGAAATTGAT-TTTTTT
1 AATAGAACTAATTTTTAACAGTAGAAATTGATAATTTTT
* *
21486644 TATAGAACTAATTTTTAACCGTAGAAATTGATAAAATTTTT
1 AATAGAACTAATTTTTAACAGTAGAAATTGAT--AATTTTT
21486685 AATAGAACTAATTT
1 AATAGAACTAATTT
21486699 ATTCTTTGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
38 27 0.60
41 18 0.40
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (39 bp):
AATAGAACTAATTTTTAACAGTAGAAATTGATAATTTTT
Found at i:21491667 original size:32 final size:32
Alignment explanation
Indices: 21491603--21491675 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
21491593 AAGGTCGCTC
*
21491603 ATATTATTTTTAATTTTTTTTAAAAAATATTT
1 ATATTATTTTTAATTTTATTTAAAAAATATTT
*
21491635 ATATTATTTTTAATTTAATATTT-AATAA-ATTT
1 ATATTATTTTTAATTT--TATTTAAAAAATATTT
21491667 ATATT-TTTT
1 ATATTATTTT
21491676 ATTTATTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
31 4 0.11
32 25 0.68
33 4 0.11
34 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (32 bp):
ATATTATTTTTAATTTTATTTAAAAAATATTT
Found at i:21494885 original size:16 final size:16
Alignment explanation
Indices: 21494866--21494898 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21494856 TTTAAATATG
*
21494866 AATAAGTTTGAGCTTA
1 AATAAATTTGAGCTTA
21494882 AATAAATTTGAGCTTA
1 AATAAATTTGAGCTTA
21494898 A
1 A
21494899 TCAAGTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.36
Consensus pattern (16 bp):
AATAAATTTGAGCTTA
Found at i:21495996 original size:12 final size:11
Alignment explanation
Indices: 21495964--21495998 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
21495954 TCAATTAAAT
*
21495964 TAATTTTTTTA
1 TAATTTTTTAA
21495975 TAATTTTTTAA
1 TAATTTTTTAA
21495986 TAATTTATTTAA
1 TAATTT-TTTAA
21495998 T
1 T
21495999 CAAATCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TAATTTTTTAA
Found at i:21503246 original size:3 final size:3
Alignment explanation
Indices: 21503238--21503294 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
21503228 TATAGTGTGG
21503238 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21503286 ATA ATA ATA
1 ATA ATA ATA
21503295 CATCAAAATT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:21503827 original size:3 final size:3
Alignment explanation
Indices: 21503819--21504183 Score: 730
Period size: 3 Copynumber: 121.7 Consensus size: 3
21503809 AAATTCAAAC
21503819 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21503867 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21503915 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21503963 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21504011 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21504059 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21504107 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21504155 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
21504184 TGTAATGACC
Statistics
Matches: 362, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 362 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:21505484 original size:17 final size:17
Alignment explanation
Indices: 21505462--21505495 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21505452 TCGTTGAGGT
21505462 CCCTATATAATTCTTTC
1 CCCTATATAATTCTTTC
* *
21505479 CCCTATTTATTTCTTTC
1 CCCTATATAATTCTTTC
21505496 TTCAACGCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.29, G:0.00, T:0.53
Consensus pattern (17 bp):
CCCTATATAATTCTTTC
Found at i:21508645 original size:21 final size:20
Alignment explanation
Indices: 21508595--21508646 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
21508585 TAATATTCCC
*
21508595 TTTTGTTTATTGAAATTGGA
1 TTTTGTTTTTTGAAATTGGA
*
21508615 TTTTGATTTTTGAAATCTGAGA
1 TTTTGTTTTTTGAAAT-TG-GA
21508637 -TTTGTTTTTT
1 TTTTGTTTTTT
21508647 TTTAGGTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.52
21 11 0.41
22 2 0.07
ACGTcount: A:0.21, C:0.02, G:0.17, T:0.60
Consensus pattern (20 bp):
TTTTGTTTTTTGAAATTGGA
Found at i:21512165 original size:19 final size:17
Alignment explanation
Indices: 21512123--21512167 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 17
21512113 TTTAGATATA
21512123 AAATAATCAATATAAAT
1 AAATAATCAATATAAAT
21512140 ATTAATAATCATATTATAAAT
1 A--AATAATCA-A-TATAAAT
21512161 AAATAAT
1 AAATAAT
21512168 ATAAACACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 1 0.04
19 14 0.58
20 1 0.04
21 8 0.33
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATAATCAATATAAAT
Found at i:21512522 original size:118 final size:118
Alignment explanation
Indices: 21512314--21512550 Score: 447
Period size: 118 Copynumber: 2.0 Consensus size: 118
21512304 GTTCATTTAC
21512314 AGCCCTAAAGTGATCGGTCCTTAAGCTGTGCAACGAACATTGGATCATCATTCTTGAATGGACTA
1 AGCCCTAAAGTGATCGGTCCTTAAGCTGTGCAACGAACATTGGATCATCATTCTTGAATGGACTA
21512379 AGCTTGCAAAGCCTTTCGAAGTATGATATTCTCAATCCCTTCTGCCTAGCAAT
66 AGCTTGCAAAGCCTTTCGAAGTATGATATTCTCAATCCCTTCTGCCTAGCAAT
*
21512432 AGCCCTAAAGTGATCGGTCCTTAAGCTGTGCAATGAACATTGGATCATCATTCTTGAATGGACTA
1 AGCCCTAAAGTGATCGGTCCTTAAGCTGTGCAACGAACATTGGATCATCATTCTTGAATGGACTA
* *
21512497 AGCTTGTAAAGCCTTTCGAAGTATGATATTCTCAATCCCTTTTGCCTAGCAAT
66 AGCTTGCAAAGCCTTTCGAAGTATGATATTCTCAATCCCTTCTGCCTAGCAAT
21512550 A
1 A
21512551 TCTGAACGGA
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (118 bp):
AGCCCTAAAGTGATCGGTCCTTAAGCTGTGCAACGAACATTGGATCATCATTCTTGAATGGACTA
AGCTTGCAAAGCCTTTCGAAGTATGATATTCTCAATCCCTTCTGCCTAGCAAT
Found at i:21516638 original size:31 final size:31
Alignment explanation
Indices: 21516583--21516643 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
21516573 GCACATATCT
* *
21516583 TTAAATTAAATTTAAATAAAAATGATATTAA
1 TTAAATAAAATTTAAATAAAAATGAAATTAA
*
21516614 TTAAATAATAATTTAAAT-AGAATGAAATTA
1 TTAAATAA-AATTTAAATAAAAATGAAATTA
21516644 GTCCAGTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (31 bp):
TTAAATAAAATTTAAATAAAAATGAAATTAA
Found at i:21523808 original size:6 final size:6
Alignment explanation
Indices: 21523797--21523826 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
21523787 CACTATGGGT
21523797 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA
21523827 ACTTTAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTAA
Found at i:21524927 original size:27 final size:27
Alignment explanation
Indices: 21524870--21524927 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
21524860 TATTTAAATG
* *
21524870 TGTACAATTGATCCACAATCTAATTTG
1 TGTACAATTGATCCACAATCAAATTTA
21524897 TGTACAATTGCA-CCA-AATCAAAGTTTA
1 TGTACAATTG-ATCCACAATCAAA-TTTA
21524924 TGTA
1 TGTA
21524928 TTTAATTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 6 0.22
27 20 0.74
28 1 0.04
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (27 bp):
TGTACAATTGATCCACAATCAAATTTA
Found at i:21527723 original size:59 final size:59
Alignment explanation
Indices: 21527652--21527771 Score: 240
Period size: 59 Copynumber: 2.0 Consensus size: 59
21527642 CTTAAGTATG
21527652 TACCAAGAGGGCATACCTTGCCTTAAGAAGCAAAAGAATAGTGAAAACTTCAAGACTAT
1 TACCAAGAGGGCATACCTTGCCTTAAGAAGCAAAAGAATAGTGAAAACTTCAAGACTAT
21527711 TACCAAGAGGGCATACCTTGCCTTAAGAAGCAAAAGAATAGTGAAAACTTCAAGACTAT
1 TACCAAGAGGGCATACCTTGCCTTAAGAAGCAAAAGAATAGTGAAAACTTCAAGACTAT
21527770 TA
1 TA
21527772 TAACCTCGAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.21
Consensus pattern (59 bp):
TACCAAGAGGGCATACCTTGCCTTAAGAAGCAAAAGAATAGTGAAAACTTCAAGACTAT
Found at i:21530637 original size:23 final size:23
Alignment explanation
Indices: 21530585--21530637 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
21530575 ATTCAAATCA
* *
21530585 AAATATTAAAATCCTGGATATTTT
1 AAAT-TTATAATCCTGGATATTTG
21530609 AAATTTATAATCCTAGGAT-TTTG
1 AAATTTATAATCCT-GGATATTTG
*
21530632 AGATTT
1 AAATTT
21530638 GAGTGAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (23 bp):
AAATTTATAATCCTGGATATTTG
Found at i:21532720 original size:19 final size:18
Alignment explanation
Indices: 21532691--21532732 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
21532681 ACTAAAAAGT
21532691 CATTTTAGTCTTCAATTTAA
1 CATTTTAGTC-TC-ATTTAA
*
21532711 -ATTTTCGTCTCATTTAA
1 CATTTTAGTCTCATTTAA
21532728 CATTT
1 CATTT
21532733 GAACTTACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 6 0.30
18 6 0.30
19 8 0.40
ACGTcount: A:0.26, C:0.17, G:0.05, T:0.52
Consensus pattern (18 bp):
CATTTTAGTCTCATTTAA
Found at i:21534143 original size:111 final size:112
Alignment explanation
Indices: 21534013--21534235 Score: 439
Period size: 111 Copynumber: 2.0 Consensus size: 112
21534003 ATAGTTTAAT
21534013 TAATTAATAATAATTTATGTTATAATTAATTACATTATAAAATTTTGCATTAGCTTTATAAAACG
1 TAATTAATAATAATTTATGTTATAATTAATTACATTATAAAATTTTGCATTAGCTTTATAAAACG
21534078 ACAAATTAAACTTCTTAAAATTTCAAAAGCATTCAATTTGATGTATA
66 ACAAATTAAACTTCTTAAAATTTCAAAAGCATTCAATTTGATGTATA
21534125 TAATTAATAA-AATTTATGTTATAATTAATTACATTATAAAATTTTGCATTAGCTTTATAAAACG
1 TAATTAATAATAATTTATGTTATAATTAATTACATTATAAAATTTTGCATTAGCTTTATAAAACG
21534189 ACAAATTAAACTTCTTAAAATTTCAAAAGCATTCAATTTGATGTATA
66 ACAAATTAAACTTCTTAAAATTTCAAAAGCATTCAATTTGATGTATA
21534236 AGTGAAACCT
Statistics
Matches: 111, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
111 101 0.91
112 10 0.09
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (112 bp):
TAATTAATAATAATTTATGTTATAATTAATTACATTATAAAATTTTGCATTAGCTTTATAAAACG
ACAAATTAAACTTCTTAAAATTTCAAAAGCATTCAATTTGATGTATA
Found at i:21534149 original size:21 final size:23
Alignment explanation
Indices: 21534112--21534153 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
21534102 AAAAGCATTC
21534112 AATTTGATGTATATAATTAATAA
1 AATTTGATGTATATAATTAATAA
21534135 AATTT-ATGT-TATAATTAAT
1 AATTTGATGTATATAATTAAT
21534154 TACATTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.53
22 4 0.21
23 5 0.26
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (23 bp):
AATTTGATGTATATAATTAATAA
Found at i:21539782 original size:51 final size:52
Alignment explanation
Indices: 21539714--21539816 Score: 133
Period size: 51 Copynumber: 2.0 Consensus size: 52
21539704 GAGCAGGCTG
21539714 CTGAATTAAGAAAAGAAGTTGGAA-TATCT-GAGAGAAGTTTGG-AGCAAGTCA
1 CTGAATTAAGAAAAGAAGTTGGAATTA-CTGGA-AGAAGTTTGGAAGCAAGTCA
* *
21539765 CTGAATCT-AGAAGAGAAGTTGGAATTACTGGAAGAAGTTTGGAATCAAGTCA
1 CTGAAT-TAAGAAAAGAAGTTGGAATTACTGGAAGAAGTTTGGAAGCAAGTCA
21539817 GTCGGCTGCT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
51 33 0.72
52 13 0.28
ACGTcount: A:0.40, C:0.09, G:0.27, T:0.24
Consensus pattern (52 bp):
CTGAATTAAGAAAAGAAGTTGGAATTACTGGAAGAAGTTTGGAAGCAAGTCA
Found at i:21539908 original size:111 final size:111
Alignment explanation
Indices: 21539709--21539911 Score: 257
Period size: 111 Copynumber: 1.8 Consensus size: 111
21539699 GGTCGGAGCA
* * * * *
21539709 GGCTGCTGAATTAAGAAAAGAAGTTGGAATATCTGAGAGAAGTTTGGAGCAAGTCACTGAATCTA
1 GGCTGCTGAATCAAGAAAAGAAGCTGGAATATCTGAGAGAACTTTGGAGCAAGGCACTGAATCGA
* *
21539774 GAAGAGAAGTTGGAATTACTGGAAGAAGTTTGGAATCAAGTCAGTC
66 GAAAAGAACTTGGAATTACTGGAAGAAGTTTGGAATCAAGTCAGTC
* * *
21539820 GGCTGCTGAATCAAGAAAAGAAGCTGGAATAGT-TGGGAGAACTTTGGAGC-AGGGAGCTGATTC
1 GGCTGCTGAATCAAGAAAAGAAGCTGGAATA-TCTGAGAGAACTTTGGAGCAAGGCA-CTGAATC
* **
21539883 GAGAAAAGAACTTGGTATTGTTGGAAGAA
64 GAGAAAAGAACTTGGAATTACTGGAAGAA
21539912 CAATGCCATT
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
110 3 0.04
111 73 0.95
112 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.31, T:0.23
Consensus pattern (111 bp):
GGCTGCTGAATCAAGAAAAGAAGCTGGAATATCTGAGAGAACTTTGGAGCAAGGCACTGAATCGA
GAAAAGAACTTGGAATTACTGGAAGAAGTTTGGAATCAAGTCAGTC
Found at i:21550525 original size:60 final size:59
Alignment explanation
Indices: 21550411--21550526 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 59
21550401 CACTAGAGCT
* **
21550411 TGAACCTTTTTTTATCCAAATTAATCTTTGAACTAGATAATTCTTCTTACATTGAGTCA
1 TGAACCTTTTTTTATCCAAATTAATCCTTGAACTAGATAATTCTTCCCACATTGAGTCA
* * * * *
21550470 TGAACCTTTTTTTTATCCAAATTAGTCCTTGAACTTGGTAATTTTTCCCATATTGAG
1 TGAACC-TTTTTTTATCCAAATTAATCCTTGAACTAGATAATTCTTCCCACATTGAG
21550527 ACTTGAGCTT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
59 6 0.12
60 42 0.88
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (59 bp):
TGAACCTTTTTTTATCCAAATTAATCCTTGAACTAGATAATTCTTCCCACATTGAGTCA
Found at i:21554228 original size:20 final size:19
Alignment explanation
Indices: 21554182--21554238 Score: 53
Period size: 21 Copynumber: 2.9 Consensus size: 19
21554172 AAAATTAAAT
*
21554182 ATTTAAATTAGTTTTAACTCG
1 ATTTAAA-TATTTTTAA-TCG
**
21554203 GCTTAAATAATTTTTAATCG
1 ATTTAAAT-ATTTTTAATCG
21554223 ATTT-AATATTTTTAAT
1 ATTTAAATATTTTTAAT
21554239 TCACTCTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
18 9 0.30
19 3 0.10
20 6 0.20
21 12 0.40
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (19 bp):
ATTTAAATATTTTTAATCG
Found at i:21566629 original size:16 final size:16
Alignment explanation
Indices: 21566608--21566641 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
21566598 GCTTGGCATT
*
21566608 CTCCCTTTATTCGGAA
1 CTCCCTTTATTCGAAA
21566624 CTCCCTTTATTCGAAA
1 CTCCCTTTATTCGAAA
21566640 CT
1 CT
21566642 AAGTAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.32, G:0.09, T:0.38
Consensus pattern (16 bp):
CTCCCTTTATTCGAAA
Found at i:21570277 original size:19 final size:19
Alignment explanation
Indices: 21570253--21570290 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
21570243 CCCTCTATAT
21570253 TTAATTAAAGAGCAAAGTA
1 TTAATTAAAGAGCAAAGTA
21570272 TTAATTAAAGAGCAAAGTA
1 TTAATTAAAGAGCAAAGTA
21570291 GACTTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.16, T:0.26
Consensus pattern (19 bp):
TTAATTAAAGAGCAAAGTA
Found at i:21570507 original size:23 final size:22
Alignment explanation
Indices: 21570481--21570527 Score: 85
Period size: 23 Copynumber: 2.1 Consensus size: 22
21570471 ATATCATGTA
21570481 AATGCCAATAAATAACAGTAGTC
1 AATGCCAATAAATAACAGT-GTC
21570504 AATGCCAATAAATAACAGTGTC
1 AATGCCAATAAATAACAGTGTC
21570526 AA
1 AA
21570528 AGCAACATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (22 bp):
AATGCCAATAAATAACAGTGTC
Found at i:21574582 original size:18 final size:18
Alignment explanation
Indices: 21574561--21574597 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
21574551 GCTCAATCAA
21574561 TTTGAATAAATTGAAAAT
1 TTTGAATAAATTGAAAAT
* *
21574579 TTTGTATAAATTGATAAT
1 TTTGAATAAATTGAAAAT
21574597 T
1 T
21574598 GATTGAGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (18 bp):
TTTGAATAAATTGAAAAT
Found at i:21577722 original size:78 final size:78
Alignment explanation
Indices: 21577563--21577707 Score: 229
Period size: 78 Copynumber: 1.9 Consensus size: 78
21577553 TACGCTTCCT
* *
21577563 CCCATCGACAGCTTCTGTAGAACCTTCTACTTCTGATTCTGGAGAAACTGCAATCTCATCAGCTA
1 CCCATCGACAGATTCAGTAGAACCTTCTACTTCTGATTCTGGAGAAACTGCAATCTCATCAGCTA
21577628 AGCTAGAATGTGG
66 AGCTAGAATGTGG
* * *
21577641 CCCATCGGCAGATTCAGTAGCAA-CTTCTGCTTCTGATTCTGGAGAAGCTGCAATCTCATCAGCT
1 CCCATCGACAGATTCAGTAG-AACCTTCTACTTCTGATTCTGGAGAAACTGCAATCTCATCAGCT
21577705 AAG
65 AAG
21577708 TCAGAAGTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
78 59 0.97
79 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (78 bp):
CCCATCGACAGATTCAGTAGAACCTTCTACTTCTGATTCTGGAGAAACTGCAATCTCATCAGCTA
AGCTAGAATGTGG
Found at i:21580502 original size:109 final size:109
Alignment explanation
Indices: 21580306--21580593 Score: 429
Period size: 109 Copynumber: 2.7 Consensus size: 109
21580296 ATTCAAGAGG
* * * * *
21580306 ATATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCTAGCACATTAGAGCACG-TTCCTCGAA
1 ATATTTGGCTATTTGGTTAAACGAGAAAAATCGAAACCCAACACATTAGGGCATGTTTTCTCGAA
* * **
21580368 TTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGGAAGA
66 TTTCCAAACACAAAACATTGCCTTATTTTGAAAATTTTAAAAGA
*
21580412 ATATTTGGCTATTTGGTTTAACGAGAAAAATCGAAACCCAACACATTAGGGCATGTTTTCTCGAA
1 ATATTTGGCTATTTGGTTAAACGAGAAAAATCGAAACCCAACACATTAGGGCATGTTTTCTCGAA
* *
21580477 TTTCCAAACACAAAACATTGTCTTATTTTGAAAATTTTAAAAGG
66 TTTCCAAACACAAAACATTGCCTTATTTTGAAAATTTTAAAAGA
* *
21580521 ATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTAGGGCATGTTTTCTCGAA
1 ATATTTGGCTATTTGGTTAAACGAGAAAAATCGAAACCCAACACATTAGGGCATGTTTTCTCGAA
21580586 TTTCCAAA
66 TTTCCAAA
21580594 TGCAAAGTAT
Statistics
Matches: 165, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
106 24 0.15
108 24 0.15
109 117 0.71
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (109 bp):
ATATTTGGCTATTTGGTTAAACGAGAAAAATCGAAACCCAACACATTAGGGCATGTTTTCTCGAA
TTTCCAAACACAAAACATTGCCTTATTTTGAAAATTTTAAAAGA
Found at i:21580687 original size:15 final size:15
Alignment explanation
Indices: 21580669--21580699 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21580659 AATAAATATG
21580669 ATAATATGAACAAAA
1 ATAATATGAACAAAA
*
21580684 ATAATATGAGCAAAA
1 ATAATATGAACAAAA
21580699 A
1 A
21580700 CGAATTAAAA
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:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (15 bp):
ATAATATGAACAAAA
Found at i:21581506 original size:219 final size:217
Alignment explanation
Indices: 21581178--21581592 Score: 631
Period size: 219 Copynumber: 1.9 Consensus size: 217
21581168 ATATGTACAA
* *
21581178 TAGTTTTAATAATAATATTAATAATAAAAATGGCACATATTAAAATAATGTAGACACATATATAT
1 TAGTTTTAATAATAATATTAATAATAAAAATAGCACATATTAAAATAACGTAGACACATATATAT
*
21581243 AAGATAAATGAATATATAAACAAAACAAAAATTAATAATTAAAGAAAAATAAAATAAAATAAAAT
66 AAGATAAATGAAAATATAAACAAAACAAAAATTAATAATTAAAGAAAAATAAAATAAAATAAAAT
21581308 AAAAAAACAGAAGGGATTAAATCGAAATAAGGGATAAATGTAAAGGCCCAAATCATAAAATGAAA
131 -AAAAAACAGAAGGGATTAAATCGAAATAAGGGATAAATGTAAAGGCCCAAATCAT-AAAT-AAA
21581373 AAAGAAAAAAAAAAGGGAATTATAT
193 AAAGAAAAAAAAAAGGGAATTATAT
*
21581398 TAGTTTTAATAATAATA-T-ATAATAAAAA-AGCACATATTAAAATAACGTATACACATATATAT
1 TAGTTTTAATAATAATATTAATAATAAAAATAGCACATATTAAAATAACGTAGACAC--ATATAT
* * *
21581460 ATAAGATAAATGAAAATATAAACAAAACAGAAAA-TAATAGTTAAAGAGAAATAAAATTAAATAA
64 ATAAGATAAATGAAAATATAAACAAAACA-AAAATTAATAATTAAAGAAAAATAAAATAAAATAA
* * * * * *
21581524 AATAAAAAACGGAAGGGATTAAATCGAAATCAGGGATAAATTTAAGGGCTCAAATTATAAATAAA
128 AATAAAAAACAGAAGGGATTAAATCGAAATAAGGGATAAATGTAAAGGCCCAAATCATAAATAAA
21581589 AAAG
193 AAAG
21581593 GGGTAATTAA
Statistics
Matches: 179, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
216 7 0.04
217 27 0.15
218 59 0.33
219 65 0.36
220 21 0.12
ACGTcount: A:0.59, C:0.06, G:0.11, T:0.24
Consensus pattern (217 bp):
TAGTTTTAATAATAATATTAATAATAAAAATAGCACATATTAAAATAACGTAGACACATATATAT
AAGATAAATGAAAATATAAACAAAACAAAAATTAATAATTAAAGAAAAATAAAATAAAATAAAAT
AAAAAACAGAAGGGATTAAATCGAAATAAGGGATAAATGTAAAGGCCCAAATCATAAATAAAAAA
GAAAAAAAAAAGGGAATTATAT
Found at i:21582814 original size:78 final size:78
Alignment explanation
Indices: 21582690--21582833 Score: 227
Period size: 78 Copynumber: 1.8 Consensus size: 78
21582680 CAAATTCAGA
* *
21582690 AGCAACTTCTACTTCTGATTCTGGAGAAACTGCAATCTCATTAGCTAAGCCAGGA-TGTGGCCCA
1 AGCAACTTCTACTTCTGATTCTGGAGAAACTGCAATCTCATCAGCTAAGCCAGAAGT-TGGCCCA
21582754 TCGACAGATTCAAT
65 TCGACAGATTCAAT
* * *
21582768 AGCAACTTCTACTTCTGATTTTGGAGAAGCTGCAATCTCATCAGCTAAGTCAGAAGTTGGCCCAT
1 AGCAACTTCTACTTCTGATTCTGGAGAAACTGCAATCTCATCAGCTAAGCCAGAAGTTGGCCCAT
21582833 C
66 C
21582834 CACACTCTAG
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
78 59 0.98
79 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (78 bp):
AGCAACTTCTACTTCTGATTCTGGAGAAACTGCAATCTCATCAGCTAAGCCAGAAGTTGGCCCAT
CGACAGATTCAAT
Found at i:21585055 original size:78 final size:78
Alignment explanation
Indices: 21584926--21585082 Score: 280
Period size: 78 Copynumber: 2.0 Consensus size: 78
21584916 TTCCTCCCCC
21584926 CGACAGATTCAGTAGCAACTTCTACTTCTGATTCTGGAGAAACTGCAATCTCATCAGCTAAGCCA
1 CGACAGATTCAGTAGCAACTTCTACTTCTGATTCTGGAGAAACTGCAATCTCATCAGCTAAGCCA
21584991 GAA-TGTGGCCCAT
66 GAAGT-TGGCCCAT
* *
21585004 CGACAGATTCAGTAGCAACTTCTACTTCTGATTCTGGAGAAGCTGCAATCTCATCAGCTAAGTCA
1 CGACAGATTCAGTAGCAACTTCTACTTCTGATTCTGGAGAAACTGCAATCTCATCAGCTAAGCCA
21585069 GAAGTTGGCCCAT
66 GAAGTTGGCCCAT
21585082 C
1 C
21585083 CACACTCTGG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
78 75 0.99
79 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (78 bp):
CGACAGATTCAGTAGCAACTTCTACTTCTGATTCTGGAGAAACTGCAATCTCATCAGCTAAGCCA
GAAGTTGGCCCAT
Found at i:21589923 original size:78 final size:78
Alignment explanation
Indices: 21589772--21589916 Score: 254
Period size: 78 Copynumber: 1.9 Consensus size: 78
21589762 TCCTCCCGCC
*
21589772 GACAGATTTAGTAGCAACTTCTACTTCTGATTCTGGAGAAACTGCAATCTCATCAGCTAAGCCAG
1 GACAGATTCAGTAGCAACTTCTACTTCTGATTCTGGAGAAACTGCAATCTCATCAGCTAAGCCAG
21589837 AATGTGGCCTATT
66 AATGTGGCCTATT
* * *
21589850 GACAGATTCAGTAGCAACTTCTACTTCTGATTCTGGAGAAGCTGCACTCTCATCAGCTAAGTCAG
1 GACAGATTCAGTAGCAACTTCTACTTCTGATTCTGGAGAAACTGCAATCTCATCAGCTAAGCCAG
21589915 AA
66 AA
21589917 GTTGGCCGAT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 63 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (78 bp):
GACAGATTCAGTAGCAACTTCTACTTCTGATTCTGGAGAAACTGCAATCTCATCAGCTAAGCCAG
AATGTGGCCTATT
Found at i:21594566 original size:78 final size:78
Alignment explanation
Indices: 21594437--21594591 Score: 224
Period size: 78 Copynumber: 2.0 Consensus size: 78
21594427 CCTCCCGCCT
* *
21594437 ACAGATTCAGTAGCGACTTCTACTTCTGATTCTGGAGAAACTGCAATCTCATCAGCTAAG-CTAG
1 ACAGATTCAGTAGCAACTTCTACTTCTAATTCTGGAGAAACTGCAATCTCATCAGCTAAGTC-AG
21594501 AA-TGTGGCCCATCG
65 AAGT-TGGCCCATCG
* * * *
21594515 ACAGATTCAGTAGCAAGTTCTATTTCTAATTCTGGTGAAGCTGCAATCTCATCAGCTAAGTCAGA
1 ACAGATTCAGTAGCAACTTCTACTTCTAATTCTGGAGAAACTGCAATCTCATCAGCTAAGTCAGA
21594580 AGTTGGCCCATC
66 AGTTGGCCCATC
21594592 CACACTCTGG
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
78 67 0.97
79 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (78 bp):
ACAGATTCAGTAGCAACTTCTACTTCTAATTCTGGAGAAACTGCAATCTCATCAGCTAAGTCAGA
AGTTGGCCCATCG
Found at i:21596945 original size:78 final size:78
Alignment explanation
Indices: 21596816--21596970 Score: 240
Period size: 78 Copynumber: 2.0 Consensus size: 78
21596806 TCCTCCCACC
* *
21596816 GACAGATTCAGTAGCAACTTCTACTTATGATTCTGGAGAAACTGCAATCTCATCAGCTAAGCCAG
1 GACAGATTCAGTAGCAACTTCTACTTATGATTCTGGAGAAACTGCAATCTCATCAACGAAGCCAG
21596881 AATG-TGGCCCATT
66 -ATGTTGGCCCATT
* * * *
21596894 GACAGATTCAGTAGCAACTTTTACTTCTGATTCTGGAGAAGCTGCAATCTCATCAACGAAGTCAG
1 GACAGATTCAGTAGCAACTTCTACTTATGATTCTGGAGAAACTGCAATCTCATCAACGAAGCCAG
21596959 ATGTTGGCCCAT
66 ATGTTGGCCCAT
21596971 CCACACTCTG
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
77 3 0.04
78 67 0.96
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (78 bp):
GACAGATTCAGTAGCAACTTCTACTTATGATTCTGGAGAAACTGCAATCTCATCAACGAAGCCAG
ATGTTGGCCCATT
Found at i:21599168 original size:78 final size:78
Alignment explanation
Indices: 21599038--21599199 Score: 238
Period size: 78 Copynumber: 2.1 Consensus size: 78
21599028 TACGCTTCCT
*
21599038 CCCATCGACAGATTCTGTAGCAACTTCTACTTCTGATTCAGGAGAAACTGCAATCTCATCAGCTA
1 CCCATCGACAGATTCAGTAGCAACTTCTACTTCTGATTCAGGAGAAACTGCAATCTCATCAGCTA
21599103 AG-CTAGAA-TGTGG
66 AGTC-AGAAGT-TGG
* * * **
21599116 CCCATCGGCAGATTCAGTAGCAGCTTCTACTTCTGATTCTGGAGAAGTTGCAATCTCATCAGCTA
1 CCCATCGACAGATTCAGTAGCAACTTCTACTTCTGATTCAGGAGAAACTGCAATCTCATCAGCTA
21599181 AGTCAGAAGTTGG
66 AGTCAGAAGTTGG
21599194 CCCATC
1 CCCATC
21599200 CACACTCTGG
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
78 74 0.97
79 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (78 bp):
CCCATCGACAGATTCAGTAGCAACTTCTACTTCTGATTCAGGAGAAACTGCAATCTCATCAGCTA
AGTCAGAAGTTGG
Found at i:21601559 original size:75 final size:75
Alignment explanation
Indices: 21601420--21601566 Score: 197
Period size: 75 Copynumber: 2.0 Consensus size: 75
21601410 TCCCGCCGAT
* * * *
21601420 AGATTTAGTAGCAACTTCTACTTCTAATTCTGGGGAAGCTGCAATCTCATCAACTAAGCCAGAAG
1 AGATTCAGTAGCAACTTCTACTTCTAATTCTGGAGAAGCTGCAATCTCATCAACGAAACCAGAAG
21601485 GTGGCCTCAC
66 GTGGCCTCAC
* * * *
21601495 AGATTCAGTAGCAACTTCTACTT-TCGATTCTGGAGAAGTTGCAATCTCATCAGCGAAACTAGAA
1 AGATTCAGTAGCAACTTCTACTTCT-AATTCTGGAGAAGCTGCAATCTCATCAACGAAACCAGAA
*
21601559 GTTGGCCT
65 GGTGGCCT
21601567 ATCCACACTC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
74 1 0.02
75 61 0.98
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (75 bp):
AGATTCAGTAGCAACTTCTACTTCTAATTCTGGAGAAGCTGCAATCTCATCAACGAAACCAGAAG
GTGGCCTCAC
Found at i:21614399 original size:31 final size:31
Alignment explanation
Indices: 21614351--21614446 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 31
21614341 TATGTTTTAT
21614351 GTTAATCTGTATCTAACATCAACTCAAATTC
1 GTTAATCTGTATCTAACATCAACTCAAATTC
* * * **
21614382 GTTAATCCGTATTTAACATCGACTCGGATTC
1 GTTAATCTGTATCTAACATCAACTCAAATTC
* * * *
21614413 GTTAATCTGTATCCAACGTCGACTCAGATTC
1 GTTAATCTGTATCTAACATCAACTCAAATTC
21614444 GTT
1 GTT
21614447 GAGAAGGAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 55 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (31 bp):
GTTAATCTGTATCTAACATCAACTCAAATTC
Found at i:21617874 original size:31 final size:31
Alignment explanation
Indices: 21617836--21617894 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
21617826 TTACTAGTTA
* *
21617836 TTTTAGACCATTTCTGTTTTAGTCACTTACG
1 TTTTAGACCATCTCTATTTTAGTCACTTACG
* *
21617867 TTTTAGACCGTCTCTATTTTGGTCACTT
1 TTTTAGACCATCTCTATTTTAGTCACTT
21617895 TCTGTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.17, C:0.20, G:0.14, T:0.49
Consensus pattern (31 bp):
TTTTAGACCATCTCTATTTTAGTCACTTACG
Found at i:21620370 original size:11 final size:11
Alignment explanation
Indices: 21620354--21620450 Score: 75
Period size: 11 Copynumber: 9.3 Consensus size: 11
21620344 CAAAAATTAA
21620354 AAAAATATTTT
1 AAAAATATTTT
21620365 AAAAATATTTT
1 AAAAATATTTT
21620376 --AAA-A--TT
1 AAAAATATTTT
* *
21620382 AAAAA-AATTA
1 AAAAATATTTT
21620392 AAAAAGTATTTT
1 AAAAA-TATTTT
*
21620404 AAAAA-AATTT
1 AAAAATATTTT
21620414 AAAAA-ATTTT
1 AAAAATATTTT
21620424 AAAAAAGTATTTT
1 -AAAAA-TATTTT
*
21620437 AAAAGTATTTT
1 AAAAATATTTT
21620448 AAA
1 AAA
21620451 TCGGGCCGGG
Statistics
Matches: 71, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
6 2 0.03
8 5 0.07
9 3 0.04
10 19 0.27
11 25 0.35
12 12 0.17
13 5 0.07
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:21620426 original size:33 final size:31
Alignment explanation
Indices: 21620376--21620440 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 31
21620366 AAAATATTTT
21620376 AAAATTAAAAAAATTAAAAAAGTATTTTAAA
1 AAAATTAAAAAAATTAAAAAAGTATTTTAAA
*
21620407 AAAATTTAAAAAATTTTAAAAAAGTATTTTAAA
1 AAAA-TTAAAAAA-ATTAAAAAAGTATTTTAAA
21620440 A
1 A
21620441 GTATTTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 4 0.13
32 8 0.26
33 19 0.61
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (31 bp):
AAAATTAAAAAAATTAAAAAAGTATTTTAAA
Found at i:21620619 original size:2 final size:2
Alignment explanation
Indices: 21620612--21620636 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21620602 CAAGTATCAA
21620612 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
21620637 CTCTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21623074 original size:127 final size:128
Alignment explanation
Indices: 21622805--21623359 Score: 339
Period size: 127 Copynumber: 4.4 Consensus size: 128
21622795 CTGCATGTTG
* * *
21622805 GCCACTGTATGACAGAAAGGTTTCCTTTATATTTTATAAGATTCTGAATCATATTGTAGTTTGAT
1 GCCATTGTATGACAGAAAAGATTCCTTTATATTTTATAAGATTCTGAATCATATTGTAGTTTGAT
** * * * * * *
21622870 TTGTCGAAATTCAGAGGTGTTTCATAGCTAATAATGGTGTTTGATAACGCTGGCTGCATGTCA
66 TCATAGAAATTCAGAAGTGCTTCATAGCTAATAATAGTGTTTGATAACACTGGCTGCATATCA
* * * * *
21622933 TCCGTT-TAAGGACAGAAAAGATTCCTTTCTATTTTAT-AGATT-TCGAATCATATTTTAGTTTG
1 GCCATTGT-ATGACAGAAAAGATTCCTTTATATTTTATAAGATTCT-GAATCATATTGTAGTTTG
** * * **
21622995 ATTCATAGAAATTTGGAAGTGCTTCATAGCTTATCATAGTGTTTGATGCCACT-GCTTGCATATC
64 ATTCATAGAAATTCAGAAGTGCTTCATAGCTAATAATAGTGTTTGATAACACTGGC-TGCATATC
*
21623059 C
128 A
* * * * * * * * *
21623060 GCCATTGTATGACAG-AAAGGTCTCTTTTATACTTCAT-AGATTTTGAATAATGTTGCAGTTAGA
1 GCCATTGTATGACAGAAAAGAT-TCCTTTATATTTTATAAGATTCTGAATCATATTGTAGTTTGA
* * * * * * * *
21623123 TTTATCGAAATTCAAATAGTGATTCATAGCTAATCATACTGTTTGAT-ACTGCTGCCTGCATATC
65 TTCATAGAAATTCAGA-AGTGCTTCATAGCTAATAATAGTGTTTGATAAC-ACTGGCTGCATATC
21623187 A
128 A
* * * * * * *
21623188 TG-CGTCGTCTGAAAG-AAAGATTTCCTTTATATTGTT-TAGGCTT-TGAATCACATTGTAGTTT
1 -GCCATTGTATGACAGAAAAGA-TTCCTTTATATT-TTATAAGATTCTGAATCATATTGTAGTTT
* * ** * ** * * * *
21623249 GATTTATCA-AAATTCGGAAGTATTTCATGGCTAATCGTAGTATTTGATACCGCTGCCTGCA-AT
63 GATTCAT-AGAAATTCAGAAGTGCTTCATAGCTAATAATAGTGTTTGATAACACTGGCTGCATAT
21623312 CA
127 CA
* * * * * *
21623314 TCCCTTGTATGACAG-AATGGTTTCTTTATATTTTTTAAGATT-TGAA
1 GCCATTGTATGACAGAAAAGATTCCTTTATATTTTATAAGATTCTGAA
21623360 ATTCCGGGGA
Statistics
Matches: 327, Mismatches: 83, Indels: 37
0.73 0.19 0.08
Matches are distributed among these distances:
124 2 0.01
125 20 0.06
126 24 0.07
127 156 0.48
128 118 0.36
129 7 0.02
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (128 bp):
GCCATTGTATGACAGAAAAGATTCCTTTATATTTTATAAGATTCTGAATCATATTGTAGTTTGAT
TCATAGAAATTCAGAAGTGCTTCATAGCTAATAATAGTGTTTGATAACACTGGCTGCATATCA
Found at i:21623215 original size:255 final size:254
Alignment explanation
Indices: 21622805--21623340 Score: 564
Period size: 255 Copynumber: 2.1 Consensus size: 254
21622795 CTGCATGTTG
* * * * * * *
21622805 GCCACTGTATGACAGAAAGGTTTCCTTTATATTTTATAAGATTCTGAATCATATTGTAGTTTGAT
1 GCCATTGTATGACAGAAAGGTTTCTTTTATACTTCATAAGATTCTGAATAATATTGCAGTTAGAT
* * * * ** * *
21622870 TTGTCGAAATTCAGAGGTGTTTCATAGCTAATAATGGTGTTTGATAACGCTGGCTGCATGTCATC
66 TTATCGAAATTCAAAAGTGATTCATAGCTAATAATACTGTTTGATAACGCTGCCTGCATATCATC
* * * * *
21622935 CGTTTAAGGACAGAAAAGATTCCTTTCTATT-TTATA-GATTTCGAATCATATTTTAGTTTGATT
131 CGTGTAAGGAAAGAAAAGATTCCTTTATATTGTT-TAGGATTT-GAATCACATTGTAGTTTGATT
* * * * * * *
21622998 CAT-AGAAATTTGGAAGTGCTTCATAGCTTATCATAGTGTTTGATGCCACTGCTTGCATATCC
194 CATCA-AAATTCGGAAGTACTTCATAGCTAATCATAGTATTTGATACCACTGCCTGCA-ATCA
* * *
21623060 GCCATTGTATGACAGAAAGGTCTCTTTTATACTTCAT-AGATTTTGAATAATGTTGCAGTTAGAT
1 GCCATTGTATGACAGAAAGGTTTCTTTTATACTTCATAAGATTCTGAATAATATTGCAGTTAGAT
*
21623124 TTATCGAAATTCAAATAGTGATTCATAGCTAATCATACTGTTTGAT-ACTGCTGCCTGCATATCA
66 TTATCGAAATTCAAA-AGTGATTCATAGCTAATAATACTGTTTGATAAC-GCTGCCTGCATATCA
* ** *
21623188 TGCGTCGT-CTGAAAG-AAAGATTTCCTTTATATTGTTTAGGCTTTGAATCACATTGTAGTTTGA
129 TCCGT-GTAAGGAAAGAAAAGA-TTCCTTTATATTGTTTAGGATTTGAATCACATTGTAGTTTGA
* * * * *
21623251 TTTATCAAAATTCGGAAGTATTTCATGGCTAATCGTAGTATTTGATACCGCTGCCTGCAATCA
192 TTCATCAAAATTCGGAAGTACTTCATAGCTAATCATAGTATTTGATACCACTGCCTGCAATCA
* * *
21623314 TCCCTTGTATGACAGAATGGTTTCTTT
1 GCCATTGTATGACAGAAAGGTTTCTTT
21623341 ATATTTTTTA
Statistics
Matches: 230, Mismatches: 44, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
254 68 0.30
255 154 0.67
256 8 0.03
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (254 bp):
GCCATTGTATGACAGAAAGGTTTCTTTTATACTTCATAAGATTCTGAATAATATTGCAGTTAGAT
TTATCGAAATTCAAAAGTGATTCATAGCTAATAATACTGTTTGATAACGCTGCCTGCATATCATC
CGTGTAAGGAAAGAAAAGATTCCTTTATATTGTTTAGGATTTGAATCACATTGTAGTTTGATTCA
TCAAAATTCGGAAGTACTTCATAGCTAATCATAGTATTTGATACCACTGCCTGCAATCA
Found at i:21627276 original size:18 final size:17
Alignment explanation
Indices: 21627229--21627276 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 17
21627219 TATATAAGCA
21627229 AATTTTT-TATATTTTT
1 AATTTTTATATATTTTT
21627245 AATATATTTAATATATTTCTT
1 AAT-T-TTT-ATATATTT-TT
21627266 AATTTTTATAT
1 AATTTTTATAT
21627277 GATACCTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
16 3 0.11
17 1 0.04
18 7 0.26
19 3 0.11
20 8 0.30
21 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
AATTTTTATATATTTTT
Found at i:21640092 original size:41 final size:41
Alignment explanation
Indices: 21640035--21640138 Score: 147
Period size: 41 Copynumber: 2.5 Consensus size: 41
21640025 GCCGGGCCTT
* * *
21640035 ATTTTTTTAAAATTTAAAATATTTTTTACATAC-TTTTTTA
1 ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTA
21640075 ATTTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 A-TTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTA
*
21640117 ATTTTTTAAAATTTTTAAAATA
1 ATTTTTTTAAA-TTTTAAAATA
21640139 AAAATGAGTC
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
40 1 0.02
41 38 0.67
42 18 0.32
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (41 bp):
ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:21640113 original size:31 final size:31
Alignment explanation
Indices: 21640077--21640138 Score: 97
Period size: 32 Copynumber: 2.0 Consensus size: 31
21640067 CTTTTTTAAT
21640077 TTTTTTTAAATTTTAAAATATTTTTAAAATAC
1 TTTTTTTAAATTTTAAAA-ATTTTTAAAATAC
* *
21640109 TTTTTTTAATTTTTTAAAATTTTTAAAATA
1 TTTTTTTAAATTTTAAAAATTTTTAAAATA
21640139 AAAATGAGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 12 0.43
32 16 0.57
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (31 bp):
TTTTTTTAAATTTTAAAAATTTTTAAAATAC
Found at i:21648010 original size:54 final size:54
Alignment explanation
Indices: 21647928--21648038 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
21647918 CTCAAATGAC
*
21647928 TCCGTAGATATTCTATAAGTAATAGTTACGAGTTGACATGACAGAAATTTGTGG
1 TCCGTAAATATTCTATAAGTAATAGTTACGAGTTGACATGACAGAAATTTGTGG
21647982 TCCGTAAATATTCTATAAGTAATAGTTACGAGTTGACATGACAGAAATTTGTGG
1 TCCGTAAATATTCTATAAGTAATAGTTACGAGTTGACATGACAGAAATTTGTGG
21648036 TCC
1 TCC
21648039 CAAAATCACT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (54 bp):
TCCGTAAATATTCTATAAGTAATAGTTACGAGTTGACATGACAGAAATTTGTGG
Found at i:21650419 original size:194 final size:194
Alignment explanation
Indices: 21650085--21650667 Score: 873
Period size: 194 Copynumber: 3.0 Consensus size: 194
21650075 TTAGATTACA
*
21650085 TTTTATTATTTATAAAAATATATAATTCAATCTCGACTCTTCAAAAAGTTG-AAAAAAACTATAT
1 TTTTCTTATTTAT-AAAATATATAATTCAATCTCGACTCTTCAAAAAGTTGAAAAAAAACTATAT
21650149 AAATACAAATATGGAATGAAGGGATATAAGTAAACAAACCAGTGAAAAGAAGCGCAAGGATGAAG
65 AAATACAAATATGGAATGAAGGGATATAAGTAAACAAACCAGTGAAAAGAAGCGCAAGGATGAAG
21650214 ACATGAGTGAGAGAAATTCTGCCCATGTTTTAAGGATTTAATTTGCCAGAAAAAAAATTGAAGTG
130 ACATGAGTGAGAGAAATTCTGCCCATGTTTTAAGGATTTAATTTGCCAGAAAAAAAATTGAAGTG
21650279 TTTTCTTATTTATAAAATATATAATTCAATCTCGACTCTTCAAAAAGTTGAAAAAAAACTATATA
1 TTTTCTTATTTATAAAATATATAATTCAATCTCGACTCTTCAAAAAGTTGAAAAAAAACTATATA
* * *
21650344 AATACAAATATGGAATAAAGGGATATAAGTAAACAAACCAGAGAAAAGTAGCGCAAGGATGAAGA
66 AATACAAATATGGAATGAAGGGATATAAGTAAACAAACCAGTGAAAAGAAGCGCAAGGATGAAGA
21650409 CATGAGTGAGAGAAATTCTGCCCATGTTTTAAGGATTTAATTTGCCAGAAAAAAAATTGAAGTG
131 CATGAGTGAGAGAAATTCTGCCCATGTTTTAAGGATTTAATTTGCCAGAAAAAAAATTGAAGTG
* * * **** * * * * * **
21650473 TTTTCTAAGTGTGAT--ACT-TGGCCTTCACATTTTTGAGCT-TT---ATA--T-ATATACTACT
1 TTTTCTTA-T-TTATAAAATATATAATTCA-A-TCTCGA-CTCTTCAAAAAGTTGAAAAAAAACT
21650528 ATATAAATACAAATATGGAATGAAGGGATATAAGTAAACAAACCAGTGAAAAGAAGCGCAAGGAT
61 ATATAAATACAAATATGGAATGAAGGGATATAAGTAAACAAACCAGTGAAAAGAAGCGCAAGGAT
21650593 GAAGACATGAGTGAGAGAAATTCTGCCCATGTTTTAAGGATTTAATTTGCCAGAAAAAAAATTGA
126 GAAGACATGAGTGAGAGAAATTCTGCCCATGTTTTAAGGATTTAATTTGCCAGAAAAAAAATTGA
21650658 AGTG
191 AGTG
21650662 TTTTCT
1 TTTTCT
21650668 AAGTGTGATA
Statistics
Matches: 362, Mismatches: 21, Indels: 17
0.90 0.05 0.04
Matches are distributed among these distances:
189 143 0.40
190 1 0.00
192 2 0.01
193 42 0.12
194 162 0.45
195 7 0.02
196 5 0.01
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (194 bp):
TTTTCTTATTTATAAAATATATAATTCAATCTCGACTCTTCAAAAAGTTGAAAAAAAACTATATA
AATACAAATATGGAATGAAGGGATATAAGTAAACAAACCAGTGAAAAGAAGCGCAAGGATGAAGA
CATGAGTGAGAGAAATTCTGCCCATGTTTTAAGGATTTAATTTGCCAGAAAAAAAATTGAAGTG
Found at i:21650619 original size:189 final size:189
Alignment explanation
Indices: 21650142--21650714 Score: 859
Period size: 189 Copynumber: 3.0 Consensus size: 189
21650132 GTTGAAAAAA
21650142 ACTATATAAATACAAATATGGAATGAAGGGATATAAGTAAACAAACCAGTGAAAAGAAGCGCAAG
1 ACTATATAAATACAAATATGGAATGAAGGGATATAAGTAAACAAACCAGTGAAAAGAAGCGCAAG
21650207 GATGAAGACATGAGTGAGAGAAATTCTGCCCATGTTTTAAGGATTTAATTTGCCAGAAAAAAAAT
66 GATGAAGACATGAGTGAGAGAAATTCTGCCCATGTTTTAAGGATTTAATTTGCCAGAAAAAAAAT
* * * **** * * *
21650272 TGAAGTGTTTTCTTA-T-TTATAAAATATATAATTCA-A-TCTCGA-CTCTTCAAAAAGTTGAAA
131 TGAAGTGTTTTCTAAGTGTGAT--ACT-TGGCCTTCACATTTTTGAGCT-TT---ATA--T-AAA
* **
21650332 AAAA
186 TACT
* * *
21650336 ACTATATAAATACAAATATGGAATAAAGGGATATAAGTAAACAAACCAGAGAAAAGTAGCGCAAG
1 ACTATATAAATACAAATATGGAATGAAGGGATATAAGTAAACAAACCAGTGAAAAGAAGCGCAAG
21650401 GATGAAGACATGAGTGAGAGAAATTCTGCCCATGTTTTAAGGATTTAATTTGCCAGAAAAAAAAT
66 GATGAAGACATGAGTGAGAGAAATTCTGCCCATGTTTTAAGGATTTAATTTGCCAGAAAAAAAAT
*
21650466 TGAAGTGTTTTCTAAGTGTGATACTTGGCCTTCACATTTTTGAGCTTTATATATATACT
131 TGAAGTGTTTTCTAAGTGTGATACTTGGCCTTCACATTTTTGAGCTTTATATAAATACT
21650525 ACTATATAAATACAAATATGGAATGAAGGGATATAAGTAAACAAACCAGTGAAAAGAAGCGCAAG
1 ACTATATAAATACAAATATGGAATGAAGGGATATAAGTAAACAAACCAGTGAAAAGAAGCGCAAG
21650590 GATGAAGACATGAGTGAGAGAAATTCTGCCCATGTTTTAAGGATTTAATTTGCCAGAAAAAAAAT
66 GATGAAGACATGAGTGAGAGAAATTCTGCCCATGTTTTAAGGATTTAATTTGCCAGAAAAAAAAT
*
21650655 TGAAGTGTTTTCTAAGTGTGATACTTGGCCTTCACATTTTTGAGCTTTATATACATACT
131 TGAAGTGTTTTCTAAGTGTGATACTTGGCCTTCACATTTTTGAGCTTTATATAAATACT
21650714 A
1 A
21650715 ATTGGAATCA
Statistics
Matches: 353, Mismatches: 21, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
189 189 0.54
190 1 0.00
192 2 0.01
193 5 0.01
194 144 0.41
195 7 0.02
196 5 0.01
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (189 bp):
ACTATATAAATACAAATATGGAATGAAGGGATATAAGTAAACAAACCAGTGAAAAGAAGCGCAAG
GATGAAGACATGAGTGAGAGAAATTCTGCCCATGTTTTAAGGATTTAATTTGCCAGAAAAAAAAT
TGAAGTGTTTTCTAAGTGTGATACTTGGCCTTCACATTTTTGAGCTTTATATAAATACT
Found at i:21657799 original size:37 final size:37
Alignment explanation
Indices: 21657740--21657829 Score: 94
Period size: 37 Copynumber: 2.5 Consensus size: 37
21657730 AATACACAAG
* **
21657740 TAATCAAACCAA-AACACACCAAACGCT-CATGAGAGC
1 TAATCCAACCAATAACATGCCAAACGCTCCA-GAGAGC
* * * *
21657776 TAATCTAACTAATAACATGCCAAATGCTCCAGGGAGC
1 TAATCCAACCAATAACATGCCAAACGCTCCAGAGAGC
21657813 TAATCCAACCAATAACA
1 TAATCCAACCAATAACA
21657830 CGCCTCAACA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
36 10 0.23
37 32 0.73
38 2 0.05
ACGTcount: A:0.44, C:0.28, G:0.11, T:0.17
Consensus pattern (37 bp):
TAATCCAACCAATAACATGCCAAACGCTCCAGAGAGC
Found at i:21663985 original size:9 final size:10
Alignment explanation
Indices: 21663960--21663988 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
21663950 CTGAATAGTC
21663960 TATATTTTTA
1 TATATTTTTA
21663970 TATATTTTTA
1 TATATTTTTA
21663980 TA-ATTTTTA
1 TATATTTTTA
21663989 AAAGATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.37
10 12 0.63
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TATATTTTTA
Found at i:21666873 original size:17 final size:18
Alignment explanation
Indices: 21666844--21666878 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
21666834 GAATTGATTT
21666844 TTAATTAAAAAAATTTAA
1 TTAATTAAAAAAATTTAA
21666862 TTAATT-AAAAAATTTAA
1 TTAATTAAAAAAATTTAA
21666879 ACCCTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAATTAAAAAAATTTAA
Found at i:21667901 original size:31 final size:29
Alignment explanation
Indices: 21667832--21667905 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
21667822 ACAAAATAAT
**
21667832 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATGACA
*
21667861 AACATAAGTGACTAAAATGTAACATGAGACA
1 AACATAAGTGACTAAAACGTAACAT--GACA
*
21667892 AACAAAAGTGACTA
1 AACATAAGTGACTA
21667906 TTTTTGTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.51, C:0.15, G:0.14, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGACA
Found at i:21668274 original size:89 final size:90
Alignment explanation
Indices: 21668120--21668286 Score: 225
Period size: 89 Copynumber: 1.8 Consensus size: 90
21668110 GGGACCTAAA
*
21668120 CACATTGAGGCTTGAACTTTTTTTTTTGTCTAAATTAGCCTCCGAACTTGACAATTGTTCCCATA
1 CACATTGAGGCATGAAC--TTTTTTTTGTCTAAATTAGCCTCCGAACTTGACAATTGTTCCCATA
21668185 -TAGGGGCCTTAACAAGGCAATAGTTCT
64 TTA-GGGCCTTAACAAGGCAATAGTTCT
* * *
21668212 CACATTGAGGCATGAAC-TTTTTTTGTC-AAAGTTAGTCCT-TGAACTTGTCAATTGTTTCCATA
1 CACATTGAGGCATGAACTTTTTTTTGTCTAAA-TTAG-CCTCCGAACTTGACAATTGTTCCCATA
21668274 TTAGGGCCTTAAC
64 TTAGGGCCTTAAC
21668287 TTTAGGGTTT
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
88 3 0.04
89 44 0.65
90 5 0.07
92 16 0.24
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (90 bp):
CACATTGAGGCATGAACTTTTTTTTGTCTAAATTAGCCTCCGAACTTGACAATTGTTCCCATATT
AGGGCCTTAACAAGGCAATAGTTCT
Found at i:21668425 original size:60 final size:58
Alignment explanation
Indices: 21668314--21668430 Score: 144
Period size: 60 Copynumber: 2.0 Consensus size: 58
21668304 AATATCAATG
* * * * *
21668314 ACTAACTTGGACAAAAAAAGTTCAGGTCCTAATGTGGAAACAACTGTCAAGTTCAAGA
1 ACTAACTTAGACAAAAAAAGTTCAGGCCCCAATGTGAAAACAACTGCCAAGTTCAAGA
* **
21668372 ACTAACTTAGACAAAAAAAAAGTTCAGGCCCCAATGTGAAAATAGTTGCCAAGTTCAAG
1 ACTAACTTAGAC--AAAAAAAGTTCAGGCCCCAATGTGAAAACAACTGCCAAGTTCAAG
21668431 CTCCAAACAA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 11 0.22
60 38 0.78
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (58 bp):
ACTAACTTAGACAAAAAAAGTTCAGGCCCCAATGTGAAAACAACTGCCAAGTTCAAGA
Found at i:21676345 original size:3 final size:3
Alignment explanation
Indices: 21676337--21676376 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
21676327 ACAAACAGAC
21676337 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
21676377 AAGAAACAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:21676685 original size:6 final size:6
Alignment explanation
Indices: 21676676--21676720 Score: 63
Period size: 6 Copynumber: 7.2 Consensus size: 6
21676666 AAGGAAAAAC
*
21676676 ACATAT ACATAT ACATAT ACATAT ACATAAAC ACATAT ACATAT A
1 ACATAT ACATAT ACATAT ACATAT ACAT--AT ACATAT ACATAT A
21676721 TATACTCTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 30 0.86
8 5 0.14
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (6 bp):
ACATAT
Found at i:21676699 original size:18 final size:19
Alignment explanation
Indices: 21676676--21676720 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
21676666 AAGGAAAAAC
*
21676676 ACATATACAT-ATACATAT
1 ACATATACATAACACATAT
21676694 ACATATACATAAACACATAT
1 ACATATACAT-AACACATAT
21676714 ACATATA
1 ACATATA
21676721 TATACTCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 10 0.42
20 14 0.58
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (19 bp):
ACATATACATAACACATAT
Found at i:21679304 original size:3 final size:3
Alignment explanation
Indices: 21679298--21679324 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
21679288 TTACAAAAAA
21679298 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
21679325 GTTTTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:21681317 original size:18 final size:18
Alignment explanation
Indices: 21681277--21681319 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
21681267 ATTCAATGTG
21681277 TAATTAATTTAAAATTTT
1 TAATTAATTTAAAATTTT
* *
21681295 CAATTAA-TTAAATTTGTT
1 TAATTAATTTAAAATT-TT
21681313 TAATTAA
1 TAATTAA
21681320 AAACCTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
TAATTAATTTAAAATTTT
Found at i:21689228 original size:123 final size:123
Alignment explanation
Indices: 21689004--21689374 Score: 679
Period size: 123 Copynumber: 3.0 Consensus size: 123
21688994 AGTCGCCGGC
* * *
21689004 GACGGTTTCTTTATAATTGGATTGACCCCGCCGCATTGTGAGCAAGTAAATTTCTCGGCATAGGC
1 GACGATTTCTTTATAATTGGATTGACCTCGCCGCATTGTGAGCAAGTAATTTTCTCGGCATAGGC
21689069 CTGCGCCGTTAGCTTTTGATGGCAACGGATGCACACGATTTTGATTATCATTTCATCG
66 CTGCGCCGTTAGCTTTTGATGGCAACGGATGCACACGATTTTGATTATCATTTCATCG
*
21689127 GACGATTTCTTTATAATTGGATTGACCTCGCCGCATTGTGAGCAAGTAATTTTCTGGGCATAGGC
1 GACGATTTCTTTATAATTGGATTGACCTCGCCGCATTGTGAGCAAGTAATTTTCTCGGCATAGGC
21689192 CTGCGCCGTTAGCTTTTGATGGCAACGGATGCACACGATTTTGATTATCATTTCATCG
66 CTGCGCCGTTAGCTTTTGATGGCAACGGATGCACACGATTTTGATTATCATTTCATCG
* *
21689250 GACGATTTCTTTATAATTGGATTGAGCTCGCCGCATTGTGGGCAAGTAATTTTCTCGGCATAGGC
1 GACGATTTCTTTATAATTGGATTGACCTCGCCGCATTGTGAGCAAGTAATTTTCTCGGCATAGGC
*
21689315 CGGCGCCGTTAGCTTTTGATGGCAACGGATGCACACGATTTTGATTATCATTTCATCG
66 CTGCGCCGTTAGCTTTTGATGGCAACGGATGCACACGATTTTGATTATCATTTCATCG
21689373 GA
1 GA
21689375 TAAAAGGTTA
Statistics
Matches: 240, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 240 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (123 bp):
GACGATTTCTTTATAATTGGATTGACCTCGCCGCATTGTGAGCAAGTAATTTTCTCGGCATAGGC
CTGCGCCGTTAGCTTTTGATGGCAACGGATGCACACGATTTTGATTATCATTTCATCG
Found at i:21690662 original size:2 final size:2
Alignment explanation
Indices: 21690655--21690682 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21690645 AAAGTTTAAG
21690655 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21690683 TTAACCAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21700043 original size:31 final size:31
Alignment explanation
Indices: 21700008--21700074 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
21699998 GTTATAAAAT
21700008 AGTCATTAAACTATTTGAAAATTTTCATTTA
1 AGTCATTAAACTATTTGAAAATTTTCATTTA
* ** *
21700039 AGTCATTGAACTATTTGAATTTTTTTATTTA
1 AGTCATTAAACTATTTGAAAATTTTCATTTA
21700070 AGTCA
1 AGTCA
21700075 CTGAGTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.48
Consensus pattern (31 bp):
AGTCATTAAACTATTTGAAAATTTTCATTTA
Found at i:21704418 original size:22 final size:20
Alignment explanation
Indices: 21704393--21704440 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
21704383 ATTTTCTTTC
* *
21704393 TAAAAAAATTAAAATTAATTTT
1 TAAAAAAA-TAAAA-AAAATTT
*
21704415 TAAAAGAATAAAAAAAATTT
1 TAAAAAAATAAAAAAAATTT
21704435 TAAAAA
1 TAAAAA
21704441 GTAAAATGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 10 0.45
21 5 0.23
22 7 0.32
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
TAAAAAAATAAAAAAAATTT
Found at i:21705711 original size:6 final size:6
Alignment explanation
Indices: 21705700--21705735 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
21705690 TCACTCAGCA
* *
21705700 GCTCCT GCTCCT GCTCCT GCTCCT ACTCCT ACTCCT
1 GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT
21705736 ACTACTCCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.06, C:0.50, G:0.11, T:0.33
Consensus pattern (6 bp):
GCTCCT
Found at i:21709719 original size:123 final size:119
Alignment explanation
Indices: 21709498--21709877 Score: 404
Period size: 123 Copynumber: 3.2 Consensus size: 119
21709488 ACGGCAATCT
* * ** *
21709498 AAACAAGATGAACAGAA-CTACAACAC-AATCAAAAAGGACTTGAACCTTTCAATTACTAACTCG
1 AAACAAGATGAACA-AAGCTAAAACACGAATCGAAAAGGACTTGAACCTTTCGCTTACTAACTCA
* *
21709561 AATGAGCTTTCCGTTTCAAACCCGAATTTCGTCAACAATCCAGGCAATCCATATGAGGAA
65 AATAAGCTTT-TGTTTCAAACCCGAATTTCGTCAACAATCCA-GCAAT-CA-ATGAGG-A
* *
21709621 AAACAAGATGAACAAAGCTAAAACACGAAT-GGAAAGGACTCGAACCTTTCGCTTACTAACTCAA
1 AAACAAGATGAACAAAGCTAAAACACGAATCGAAAAGGACTTGAACCTTTCGCTTACTAACTCAA
* *
21709685 ATAAGCTTTTAGTTTCAAACCCAAATTTCATCAACAATCCAG------ATGAGGCA
66 ATAAGCTTTT-GTTTCAAACCCGAATTTCGTCAACAATCCAGCAATCAATGAGG-A
* *
21709735 AAACAAGATGAACAAAGCTAAAACACG-ATCGAAAAAAGGACTTGGACCTTTCGAC-CACTAACT
1 AAACAAGATGAACAAAGCTAAAACACGAATCG--AAAAGGACTTGAACCTTTCG-CTTACTAACT
* *
21709798 CAAACAAGCTTTTGATTTCAAACCCGAATTTCGTCAACAATCCAAGCAATCAAGATGAGGC
63 CAAATAAGCTTTTG-TTTCAAACCCGAATTTCGTCAACAATCC-AGCAATC-A-ATGAGGA
*
21709859 AAACGAGATGAACAAAGCT
1 AAACAAGATGAACAAAGCT
21709878 CTCAAGCAAG
Statistics
Matches: 219, Mismatches: 21, Indels: 33
0.80 0.08 0.12
Matches are distributed among these distances:
113 2 0.01
114 35 0.16
115 1 0.00
116 62 0.28
117 3 0.01
122 3 0.01
123 86 0.39
124 21 0.10
125 6 0.03
ACGTcount: A:0.42, C:0.23, G:0.15, T:0.21
Consensus pattern (119 bp):
AAACAAGATGAACAAAGCTAAAACACGAATCGAAAAGGACTTGAACCTTTCGCTTACTAACTCAA
ATAAGCTTTTGTTTCAAACCCGAATTTCGTCAACAATCCAGCAATCAATGAGGA
Found at i:21709819 original size:116 final size:114
Alignment explanation
Indices: 21709605--21709841 Score: 327
Period size: 116 Copynumber: 2.1 Consensus size: 114
21709595 ACAATCCAGG
* *
21709605 CAATCCATATGAGGAAAAACAAGATGAACAAAGCTAAAACACGAATGGAAAGGACTCGAACCTTT
1 CAATCCAGATGAGGAAAAACAAGATGAACAAAGCTAAAACACGAATGAAAAGGACTCGAACCTTT
* *
21709670 CGCTTACTAACTCAAATAAGCTTTTAGTTTCAAACCCAAATTTCATCAA
66 CGCTCACTAACTCAAACAAGCTTTTAGTTTCAAACCCAAATTTCATCAA
* * *
21709719 CAATCCAGATGAGGCAAAACAAGATGAACAAAGCTAAAACACG-ATCGAAAAAAGGACTTGGACC
1 CAATCCAGATGAGGAAAAACAAGATGAACAAAGCTAAAACACGAAT-G--AAAAGGACTCGAACC
* *
21709783 TTTCGAC-CACTAACTCAAACAAGCTTTT-GATTTCAAACCCGAATTTCGTCAA
63 TTTCG-CTCACTAACTCAAACAAGCTTTTAG-TTTCAAACCCAAATTTCATCAA
21709835 CAATCCA
1 CAATCCA
21709842 AGCAATCAAG
Statistics
Matches: 109, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
113 2 0.02
114 42 0.39
115 1 0.01
116 63 0.58
117 1 0.01
ACGTcount: A:0.42, C:0.23, G:0.14, T:0.21
Consensus pattern (114 bp):
CAATCCAGATGAGGAAAAACAAGATGAACAAAGCTAAAACACGAATGAAAAGGACTCGAACCTTT
CGCTCACTAACTCAAACAAGCTTTTAGTTTCAAACCCAAATTTCATCAA
Found at i:21717492 original size:40 final size:41
Alignment explanation
Indices: 21717410--21717494 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
21717400 GTTTCTTACC
*
21717410 ATATGAGATATTTATCACAAGCATACAAATCTAAGTGTACT
1 ATATGAGATACTTATCACAAGCATACAAATCTAAGTGTACT
*
21717451 ATATGAGATACTTATCACAGGCATAC-AATCTAAGTGTACT
1 ATATGAGATACTTATCACAAGCATACAAATCTAAGTGTACT
21717491 ATAT
1 ATAT
21717495 ATATATATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
40 18 0.43
41 24 0.57
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (41 bp):
ATATGAGATACTTATCACAAGCATACAAATCTAAGTGTACT
Found at i:21717883 original size:31 final size:31
Alignment explanation
Indices: 21717846--21717914 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
21717836 ACTTAACAGC
*
21717846 TCAATAACTTAAAAT-ATAACCTTCAAATAAAT
1 TCAATAA-TTAAAATGAAAACCTTCAAAT-AAT
* *
21717878 T-AATAATTTAAATGAAAACCTTTAAATAAT
1 TCAATAATTAAAATGAAAACCTTCAAATAAT
21717908 TCAATAA
1 TCAATAA
21717915 AAATGTTGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
30 10 0.31
31 21 0.66
32 1 0.03
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.33
Consensus pattern (31 bp):
TCAATAATTAAAATGAAAACCTTCAAATAAT
Found at i:21720639 original size:78 final size:78
Alignment explanation
Indices: 21720509--21720743 Score: 371
Period size: 78 Copynumber: 3.0 Consensus size: 78
21720499 ACGGACATGC
* * * *
21720509 CGTCCAGAAAGCCGGTCCTTCCGACTCAGTAGCTTGATTAGGACGAGCCGAATTTGTTTTCTGAG
1 CGTCCAGAAAGCCGGTCCCTCTGACTCAGTAGCTTCATTAGGACGAGTCGAATTTGTTTTCTGAG
21720574 TCACACTAGTTGG
66 TCACACTAGTTGG
* *
21720587 TGTCCAGAAAGCCGGTCCCTCTGACTCAATAGCTTCATTAGGACGAGTCGAATTTGTTTTCTGAG
1 CGTCCAGAAAGCCGGTCCCTCTGACTCAGTAGCTTCATTAGGACGAGTCGAATTTGTTTTCTGAG
21720652 TCACACTAGTTGG
66 TCACACTAGTTGG
* * ** *
21720665 CGTCCAGAATGCCGGTCCCTCTGACTCAGTAGCTTCATCAGGACGAGTTAAATTGGTTTTCTGAG
1 CGTCCAGAAAGCCGGTCCCTCTGACTCAGTAGCTTCATTAGGACGAGTCGAATTTGTTTTCTGAG
21720730 TCACACTAGTTGG
66 TCACACTAGTTGG
21720743 C
1 C
21720744 TCTGCCCGAC
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 144 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.29
Consensus pattern (78 bp):
CGTCCAGAAAGCCGGTCCCTCTGACTCAGTAGCTTCATTAGGACGAGTCGAATTTGTTTTCTGAG
TCACACTAGTTGG
Found at i:21720917 original size:33 final size:33
Alignment explanation
Indices: 21720880--21720945 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
21720870 GTTCCTGGCT
*
21720880 GATTAACCTGGCTCGCCCGAATAGGCTCAGGCC
1 GATTAACCTGGCTAGCCCGAATAGGCTCAGGCC
* * * *
21720913 GATTAATCTGGCTAGGCCGTATAGGCTCCGGCC
1 GATTAACCTGGCTAGCCCGAATAGGCTCAGGCC
21720946 AACTAATATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.20, C:0.30, G:0.29, T:0.21
Consensus pattern (33 bp):
GATTAACCTGGCTAGCCCGAATAGGCTCAGGCC
Found at i:21722144 original size:82 final size:82
Alignment explanation
Indices: 21722045--21722197 Score: 252
Period size: 82 Copynumber: 1.9 Consensus size: 82
21722035 GCCAAGTGAC
* *
21722045 ATAACTCTTCAAGTTCTATTTTTCGTAATCGTTGGAATCGAATTATATTAATCAATTAAACAAGA
1 ATAACTCTTCAAGTTCTATTTTTCATAATCGTTGGAATCGAATTAGATTAATCAATTAAACAAGA
21722110 ACTAATAAATGAGTGGA
66 ACTAATAAATGAGTGGA
* * * *
21722127 ATAACTCTTCAAGTTCTATTTTTCATAGTCGTTGGAATCGAATTGGATTGATCGATTAAACAAGA
1 ATAACTCTTCAAGTTCTATTTTTCATAATCGTTGGAATCGAATTAGATTAATCAATTAAACAAGA
21722192 ACTAAT
66 ACTAAT
21722198 CGATATATGA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 65 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (82 bp):
ATAACTCTTCAAGTTCTATTTTTCATAATCGTTGGAATCGAATTAGATTAATCAATTAAACAAGA
ACTAATAAATGAGTGGA
Found at i:21729762 original size:22 final size:23
Alignment explanation
Indices: 21729722--21729767 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
21729712 CCACCTCAAA
* *
21729722 CTCAACTTTGAATCCTAAA-TTT
1 CTCAACTCTGAATCATAAAGTTT
*
21729744 CTCAACTCTGAGTCATAAAGTTT
1 CTCAACTCTGAATCATAAAGTTT
21729767 C
1 C
21729768 AAGCCAGCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (23 bp):
CTCAACTCTGAATCATAAAGTTT
Found at i:21740115 original size:16 final size:17
Alignment explanation
Indices: 21740084--21740116 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21740074 AAATAAAAAA
21740084 AATTTGAATAAAATTTT
1 AATTTGAATAAAATTTT
*
21740101 AATTTGGAT-AAATTTT
1 AATTTGAATAAAATTTT
21740117 GATATTAGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (17 bp):
AATTTGAATAAAATTTT
Found at i:21792200 original size:122 final size:121
Alignment explanation
Indices: 21791944--21792238 Score: 412
Period size: 121 Copynumber: 2.4 Consensus size: 121
21791934 ACCTCTATGC
* * * *
21791944 TCGGAATAGGAGGATTAATGCACAGCCTTTGAACAATCACGAGAACACATACCATTTTATTCTAC
1 TCGGATTAGGAGGAGTAATGCACAGCCTTTGAACAATCACGAGAACAGATACCATCTTATTCTAC
* * * *
21792009 CAACAACGGAAAAAAATGCAACTTCGGGTTACAATGCCTTCCTGCAATCCCTCTGT
66 CAACAACGGAAAAAAATGCAACTTCAGGTTACAAAGCCTCCCTGCAATCCCTCCGT
* * *
21792065 TCGGATTAGGAGGAGTAATGCAGAGCCTTTGAACAATCACGAGTACAGATACTATCTTATTCTAC
1 TCGGATTAGGAGGAGTAATGCACAGCCTTTGAACAATCACGAGAACAGATACCATCTTATTCTAC
* *
21792130 CAACAA-TGAAAAATATGCAAAACTTCAGGTTACAAAGCCTCCCTGCAATCCCTCCGT
66 CAACAACGGAAAAAAATGC--AACTTCAGGTTACAAAGCCTCCCTGCAATCCCTCCGT
* **
21792187 TCGGATTAAGAGGAGTAATGCACAAACTTTGAAACAATCACGAGAACAGATA
1 TCGGATTAGGAGGAGTAATGCACAGCCTTTG-AACAATCACGAGAACAGATA
21792239 TTATTTTGGG
Statistics
Matches: 153, Mismatches: 18, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
120 10 0.07
121 64 0.42
122 60 0.39
123 19 0.12
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.24
Consensus pattern (121 bp):
TCGGATTAGGAGGAGTAATGCACAGCCTTTGAACAATCACGAGAACAGATACCATCTTATTCTAC
CAACAACGGAAAAAAATGCAACTTCAGGTTACAAAGCCTCCCTGCAATCCCTCCGT
Found at i:21794300 original size:20 final size:19
Alignment explanation
Indices: 21794284--21794351 Score: 77
Period size: 19 Copynumber: 3.5 Consensus size: 19
21794274 ACAAAAAATT
21794284 TATTTTAAAAATTAAAAAAA
1 TATTTT-AAAATTAAAAAAA
21794304 TATTTTAAAATT-AAAAAA
1 TATTTTAAAATTAAAAAAA
**
21794322 -ATTAAAACAATTAAAAAAA
1 TATTTTAA-AATTAAAAAAA
21794341 GTATTTTAAAA
1 -TATTTTAAAA
21794352 ATATTTTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
17 5 0.12
18 10 0.25
19 12 0.30
20 8 0.20
21 5 0.12
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (19 bp):
TATTTTAAAATTAAAAAAA
Found at i:21794304 original size:9 final size:9
Alignment explanation
Indices: 21794290--21794340 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
21794280 AATTTATTTT
21794290 AAAAATTAA
1 AAAAATTAA
**
21794299 AAAAATATTT
1 AAAAAT-TAA
*
21794309 TAAAATTAA
1 AAAAATTAA
21794318 AAAAATTAA
1 AAAAATTAA
*
21794327 AACAATTAA
1 AAAAATTAA
21794336 AAAAA
1 AAAAA
21794341 GTATTTTAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (9 bp):
AAAAATTAA
Found at i:21799165 original size:59 final size:59
Alignment explanation
Indices: 21799073--21799190 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
21799063 GTGTATCGCA
21799073 TGAAACCATATGAAAAAAATAACATGAAATTGAAACATCTATTGTATAAACTTTTCTGG
1 TGAAACCATATGAAAAAAATAACATGAAATTGAAACATCTATTGTATAAACTTTTCTGG
21799132 TGAAACCATATGAAAAAAATAACATGAAATTGAAACATCTATTGTATAAACTTTTCTGG
1 TGAAACCATATGAAAAAAATAACATGAAATTGAAACATCTATTGTATAAACTTTTCTGG
21799191 AATGTTGGAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (59 bp):
TGAAACCATATGAAAAAAATAACATGAAATTGAAACATCTATTGTATAAACTTTTCTGG
Found at i:21801587 original size:30 final size:29
Alignment explanation
Indices: 21801547--21801742 Score: 164
Period size: 30 Copynumber: 7.0 Consensus size: 29
21801537 TAGAGGTTTA
* * * *
21801547 GTTATGGTTATTCACCTAGAGGTGGTAATG
1 GTTATAGTTATTCACCTAGCGGCGGT-GTG
*
21801577 GTTATAGTTATTCACC---CAGC-G-GTG
1 GTTATAGTTATTCACCTAGCGGCGGTGTG
* *
21801601 GTTATGGTTATTCACCCAGCGGCAGCG-GTG
1 GTTATAGTTATTCACCTAGCGGC-G-GTGTG
21801631 GTTATAGTTATTCATCC-A---GC-G-GTG
1 GTTATAGTTATTCA-CCTAGCGGCGGTGTG
21801655 GTTATAGTTATTCACCTAGCGGCGGTAGTG
1 GTTATAGTTATTCACCTAGCGGCGGT-GTG
* *
21801685 GTTATAGTTATTCACCTAGAGGCGGCGGTG
1 GTTATAGTTATTCACCTAGCGGCGG-TGTG
*
21801715 GTTATAGTTATTCACCTAGCGGTGGTGT
1 GTTATAGTTATTCACCTAGCGGCGGTGT
21801743 TTCGCCCAAC
Statistics
Matches: 138, Mismatches: 13, Indels: 31
0.76 0.07 0.17
Matches are distributed among these distances:
23 2 0.01
24 36 0.26
26 1 0.01
27 8 0.06
28 1 0.01
29 2 0.01
30 86 0.62
31 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.34
Consensus pattern (29 bp):
GTTATAGTTATTCACCTAGCGGCGGTGTG
Found at i:21801633 original size:54 final size:54
Alignment explanation
Indices: 21801575--21801736 Score: 198
Period size: 54 Copynumber: 2.9 Consensus size: 54
21801565 GAGGTGGTAA
* *
21801575 TGGTTATAGTTATTCACCCAGCGGTGGTTATGGTTATTCACCCAGCGGCAGCGG
1 TGGTTATAGTTATTCACCCAGCGGTGGTTATAGTTATTCACCCAGCGGCAGCAG
* * * *
21801629 TGGTTATAGTTATTCATCCAGCGGTGGTTATAGTTATTCACCTAGCGGCGGTAG
1 TGGTTATAGTTATTCACCCAGCGGTGGTTATAGTTATTCACCCAGCGGCAGCAG
* *
21801683 TGGTTATAGTTATTCACCTAGAGGCGGCGGTGGTTATAGTTATTCACCTAGCGG
1 TGGTTATAGTTATTCACC------CAGCGGTGGTTATAGTTATTCACCCAGCGG
21801737 TGGTGTTTCG
Statistics
Matches: 94, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
54 65 0.69
60 29 0.31
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.33
Consensus pattern (54 bp):
TGGTTATAGTTATTCACCCAGCGGTGGTTATAGTTATTCACCCAGCGGCAGCAG
Found at i:21801777 original size:78 final size:81
Alignment explanation
Indices: 21801595--21801808 Score: 256
Period size: 78 Copynumber: 2.6 Consensus size: 81
21801585 TATTCACCCA
* *
21801595 GCGGTGGTTATGGTTATTCACCCAGCGGCAGCGGTGGTTATAGTTATTCATCCAGCGGTGGTTAT
1 GCGGTGGTTATGGTTATTCACCTAGCGGCGGCGGTGGTTATAGTTATTCA-CCAGCGGTGG-T-T
* *
21801660 AGTTATTCACCTAGCGGCG
63 AGTTATTCACCCAACGGCG
** * *
21801679 GTAGTGGTTATAGTTATTCACCTAGAGGCGGCGGTGGTTATAGTTATTCACCTAGCGGTGG-T-G
1 GCGGTGGTTATGGTTATTCACCTAGCGGCGGCGGTGGTTATAGTTATTCACC-AGCGGTGGTTAG
*
21801742 -T-TTCGCCCAACGGCG
65 TTATTCACCCAACGGCG
* * *
21801757 GCGGTGGTTATGGTTATTCACCTAGCGACGGCAGTGGTTATGGTTATTCACC
1 GCGGTGGTTATGGTTATTCACCTAGCGGCGGCGGTGGTTATAGTTATTCACC
21801809 CTGATTAAAT
Statistics
Matches: 113, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 56 0.50
79 1 0.01
80 1 0.01
81 1 0.01
83 2 0.02
84 52 0.46
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (81 bp):
GCGGTGGTTATGGTTATTCACCTAGCGGCGGCGGTGGTTATAGTTATTCACCAGCGGTGGTTAGT
TATTCACCCAACGGCG
Found at i:21803215 original size:30 final size:27
Alignment explanation
Indices: 21803130--21803372 Score: 219
Period size: 27 Copynumber: 9.0 Consensus size: 27
21803120 ACACTCAGCG
* *
21803130 GTGGTAGTGGTTATGGTTATTCACCCA
1 GTGGTGGTGGTTATGGTAATTCACCCA
** *
21803157 ---ACGGTGCTTATGGTAATTCACCCA
1 GTGGTGGTGGTTATGGTAATTCACCCA
21803181 GTGGTGGTGGTTATGGTAATTCACCTAGCA
1 GTGGTGGTGGTTATGGTAATTCACC---CA
*
21803211 GTGGTGGTGGTTATGGTTATTCACCCA
1 GTGGTGGTGGTTATGGTAATTCACCCA
* *
21803238 GCGGTGGTAGTGGTTATGGTTATTCACCCA
1 ---GTGGTGGTGGTTATGGTAATTCACCCA
* *
21803268 ---ATGGTGCTTATGGTAATTCACCCA
1 GTGGTGGTGGTTATGGTAATTCACCCA
* ** * *
21803292 GCGACGGTGGTTAAGGTAATTCACCTA
1 GTGGTGGTGGTTATGGTAATTCACCCA
**
21803319 GTGGTGGCAGTTATGGTAATTCACCCA
1 GTGGTGGTGGTTATGGTAATTCACCCA
**
21803346 GCAGTGGTGGTTATGGTAATTCACCCA
1 GTGGTGGTGGTTATGGTAATTCACCCA
21803373 ACGACAGCGG
Statistics
Matches: 175, Mismatches: 29, Indels: 24
0.77 0.13 0.11
Matches are distributed among these distances:
24 39 0.22
27 84 0.48
30 52 0.30
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (27 bp):
GTGGTGGTGGTTATGGTAATTCACCCA
Found at i:21803319 original size:111 final size:108
Alignment explanation
Indices: 21803125--21803375 Score: 364
Period size: 111 Copynumber: 2.3 Consensus size: 108
21803115 CCATCACACT
* **
21803125 CAGCGGTGGTAGTGGTTATGGTTATTCACCCAACGGTGCTTATGGTAATTCACCCAGTGGTGGTG
1 CAGCGGTGGTAGTGGTTATGGTTATTCACCCAACGGTGCTTATGGTAATTCACCCAGCGACGGTG
* ** *
21803190 GTTATGGTAATTCACCTAGCAGTGGTGGTGGTTATGGTTATTCACC
66 GTTAAGGTAATTCACCT---AGTGGTGGCAGTTATGGTAATTCACC
*
21803236 CAGCGGTGGTAGTGGTTATGGTTATTCACCCAATGGTGCTTATGGTAATTCACCCAGCGACGGTG
1 CAGCGGTGGTAGTGGTTATGGTTATTCACCCAACGGTGCTTATGGTAATTCACCCAGCGACGGTG
21803301 GTTAAGGTAATTCACCTAGTGGTGGCAGTTATGGTAATTCACC
66 GTTAAGGTAATTCACCTAGTGGTGGCAGTTATGGTAATTCACC
* *
21803344 CAGCAGT-G--GTGGTTATGGTAATTCACCCAACG
1 CAGCGGTGGTAGTGGTTATGGTTATTCACCCAACG
21803376 ACAGCGGTGG
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
105 22 0.17
107 1 0.01
108 29 0.22
111 77 0.60
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (108 bp):
CAGCGGTGGTAGTGGTTATGGTTATTCACCCAACGGTGCTTATGGTAATTCACCCAGCGACGGTG
GTTAAGGTAATTCACCTAGTGGTGGCAGTTATGGTAATTCACC
Found at i:21812232 original size:9 final size:9
Alignment explanation
Indices: 21812215--21812251 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
21812205 TGAGTTTTCG
21812215 AATTCGAAT
1 AATTCGAAT
*
21812224 AACTCGAAT
1 AATTCGAAT
21812233 AATTCGAAT
1 AATTCGAAT
21812242 AATTCGAAT
1 AATTCGAAT
21812251 A
1 A
21812252 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:21812498 original size:30 final size:31
Alignment explanation
Indices: 21812464--21812523 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
21812454 AAACCTTTTA
*
21812464 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
21812494 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
21812524 TCCCATCCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:21813714 original size:12 final size:12
Alignment explanation
Indices: 21813697--21813721 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21813687 TCTTTTTTAT
21813697 TCATTATTATTA
1 TCATTATTATTA
21813709 TCATTATTATTA
1 TCATTATTATTA
21813721 T
1 T
21813722 TGTATTATCA
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:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTATTATTA
Found at i:21819354 original size:22 final size:22
Alignment explanation
Indices: 21819325--21819390 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
21819315 TGCACTAATG
21819325 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* *
21819347 TACAGAGAGCA-AAAATGTGCTA
1 AACAGAGAGCACTAAA-GTGCTA
* *
21819369 AACGGAGAGCACTAACGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
21819391 GTAATCAGAG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 3 0.08
22 31 0.86
23 2 0.06
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.15
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:21820304 original size:26 final size:27
Alignment explanation
Indices: 21820263--21820313 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
21820253 CCAAATTTTC
21820263 TTTCTTTCTTTCCTTCCCT-TTTTCTT
1 TTTCTTTCTTTCCTTCCCTGTTTTCTT
21820289 TTTCTTTCCTTT-CTTCCCTGTTTTC
1 TTTCTTT-CTTTCCTTCCCTGTTTTC
21820314 GTGTTGCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTCTTTCTTTCCTTCCCTGTTTTCTT
Found at i:21820416 original size:5 final size:5
Alignment explanation
Indices: 21820365--21820409 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
21820355 TTCTTTTATT
21820365 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
21820410 TAATATATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:21821461 original size:57 final size:57
Alignment explanation
Indices: 21821373--21821483 Score: 204
Period size: 57 Copynumber: 1.9 Consensus size: 57
21821363 TTGTTGCTCT
*
21821373 CAATCCAATTTGTGGTAGGACAAAACGAGGATGAGGCGACATCCCCAGAACTCGAAG
1 CAATCCAATTTGTGGTAGGACAAAACGAGGATGAGGCGACATCCCCAAAACTCGAAG
*
21821430 CAATCCAATTTGTGGTAGGACAAAACGAGGATGAGGCGGCATCCCCAAAACTCG
1 CAATCCAATTTGTGGTAGGACAAAACGAGGATGAGGCGACATCCCCAAAACTCG
21821484 TTATGTCCGA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.16
Consensus pattern (57 bp):
CAATCCAATTTGTGGTAGGACAAAACGAGGATGAGGCGACATCCCCAAAACTCGAAG
Found at i:21824154 original size:16 final size:17
Alignment explanation
Indices: 21824133--21824165 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
21824123 AGTATTACGA
21824133 TAACATTTCA-AACATT
1 TAACATTTCATAACATT
21824149 TAACATTTCATAACATT
1 TAACATTTCATAACATT
21824166 AAATAAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (17 bp):
TAACATTTCATAACATT
Found at i:21827126 original size:29 final size:30
Alignment explanation
Indices: 21827089--21827145 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
21827079 CATGGTCTGG
* *
21827089 CACATGGCCGTGTG-CCAGCCCATGTGGCT
1 CACAGGGCCATGTGTCCAGCCCATGTGGCT
*
21827118 CACAGGGCCATGTGTCCAGCCCGTGTGG
1 CACAGGGCCATGTGTCCAGCCCATGTGG
21827146 GAAAACCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.14, C:0.33, G:0.33, T:0.19
Consensus pattern (30 bp):
CACAGGGCCATGTGTCCAGCCCATGTGGCT
Found at i:21855183 original size:132 final size:132
Alignment explanation
Indices: 21854879--21855399 Score: 697
Period size: 132 Copynumber: 4.0 Consensus size: 132
21854869 ATTTTTTGAA
* * * * ** *
21854879 TAACAGATATATGCAGTACAAAGGCATCTGCAGTCTATGATTCTCAATACGAAACGGGACGAGCA
1 TAACCGATATAAGCAGTACAAAGACATCCGCAGTCTATGATTCTTGATACGAGACGGGACGAGCA
* *
21854944 AAATGATATGAGTTAGCAGTCAGGTCAAAGAA-ACATAAAACCAAGATTCGTGACATACAGATAT
66 AAATGATATGAGTTAGCAGTCAGGTAAAAGAACACATAAAACCCAGATTCGTGACATACAGATAT
21855008 AT
131 AT
* * * * * * *
21855010 TAACTGATATGAGCAGTACAAAGACATCCACAGTCTATGATTCTTGATATGAGATGGCATGAGCA
1 TAACCGATATAAGCAGTACAAAGACATCCGCAGTCTATGATTCTTGATACGAGACGGGACGAGCA
* * *
21855075 AAATGATACGAGTTAGCAGTCAGGTAAAAGAAACACATCAAACCCAGATT-GTGACATACAGGTA
66 AAATGATATGAGTTAGCAGTCAGGTAAAAG-AACACATAAAACCCAGATTCGTGACATACAGATA
21855139 TAT
130 TAT
* **
21855142 TAACCGATATAAGCAGTACAAAGGCATCCGTGGTCTATGATTCTTGATACGAGACGGGACGAGCA
1 TAACCGATATAAGCAGTACAAAGACATCCGCAGTCTATGATTCTTGATACGAGACGGGACGAGCA
* ** *
21855207 AAATTAT-TAGAGTTAGCAGTCAGGTAAAAGAACGGATAAAACCCAGATTCGTGACATACAGACA
66 AAATGATAT-GAGTTAGCAGTCAGGTAAAAGAACACATAAAACCCAGATTCGTGACATACAGATA
21855271 TAT
130 TAT
** * ** * *
21855274 TAACCGATATAAGCAGTACAAAGACATCCTAAGTCTATGATTCTTGATATGAGATAGGATGAGGA
1 TAACCGATATAAGCAGTACAAAGACATCCGCAGTCTATGATTCTTGATACGAGACGGGACGAGCA
*
21855339 AAATGATATGAGTTAGCAGTCAGGTAAAAGAACACATAAAACCCAAATTCGTGACATACAG
66 AAATGATATGAGTTAGCAGTCAGGTAAAAGAACACATAAAACCCAGATTCGTGACATACAG
21855400 GGAAAGCAAT
Statistics
Matches: 337, Mismatches: 48, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
131 96 0.28
132 226 0.67
133 15 0.04
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (132 bp):
TAACCGATATAAGCAGTACAAAGACATCCGCAGTCTATGATTCTTGATACGAGACGGGACGAGCA
AAATGATATGAGTTAGCAGTCAGGTAAAAGAACACATAAAACCCAGATTCGTGACATACAGATAT
AT
Found at i:21855360 original size:264 final size:263
Alignment explanation
Indices: 21854879--21855400 Score: 793
Period size: 264 Copynumber: 2.0 Consensus size: 263
21854869 ATTTTTTGAA
* *
21854879 TAACAGATATATGCAGTACAAAGGCATCTGCAGTCTATGATTCTCAATACGAAACGGGACGAGCA
1 TAACAGATATAAGCAGTACAAAGGCATCCGCAGTCTATGATTCTCAATACGAAACGGGACGAGCA
* *
21854944 AAATGATATGAGTTAGCAGTCAGGTCAAAGAAACATAAAACCAAGATTCGTGACATACAGATATA
66 AAATGATATGAGTTAGCAGTCAGGTAAAAGAAACATAAAACCAAGATTCGTGACATACAGACATA
* *
21855009 TTAACTGATATGAGCAGTACAAAGACATCCACAGTCTATGATTCTTGATATGAGATGGCATGAGC
131 TTAACCGATATAAGCAGTACAAAGACATCCACAGTCTATGATTCTTGATATGAGATGGCATGAGC
* *
21855074 AAAATGATACGAGTTAGCAGTCAGGTAAAAGAAACACATCAAACCCAGATT-GTGACATACAGGT
196 AAAATGATACGAGTTAGCAGTCAGGTAAAAG-AACACATAAAACCCAAATTCGTGACATACAGGT
21855138 ATAT
260 ATAT
* ** ** *
21855142 TAACCGATATAAGCAGTACAAAGGCATCCGTGGTCTATGATTCTTGATACGAGACGGGACGAGCA
1 TAACAGATATAAGCAGTACAAAGGCATCCGCAGTCTATGATTCTCAATACGAAACGGGACGAGCA
* *
21855207 AAATTAT-TAGAGTTAGCAGTCAGGTAAAAG-AACGGATAAAACCCAGATTCGTGACATACAGAC
66 AAATGATAT-GAGTTAGCAGTCAGGTAAAAGAAAC--ATAAAACCAAGATTCGTGACATACAGAC
21855270 ATATTAACCGATATAAGCAGTACAAAGACATCCTA-AGTCTATGATTCTTGATATGAGATAGG-A
128 ATATTAACCGATATAAGCAGTACAAAGACATCC-ACAGTCTATGATTCTTGATATGAGAT-GGCA
* *
21855333 TGAGGAAAATGATATGAGTTAGCAGTCAGGTAAAAGAACACATAAAACCCAAATTCGTGACATAC
191 TGAGCAAAATGATACGAGTTAGCAGTCAGGTAAAAGAACACATAAAACCCAAATTCGTGACATAC
21855398 AGG
256 AGG
21855401 GAAAGCAATT
Statistics
Matches: 235, Mismatches: 18, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
262 4 0.02
263 100 0.43
264 128 0.54
265 3 0.01
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (263 bp):
TAACAGATATAAGCAGTACAAAGGCATCCGCAGTCTATGATTCTCAATACGAAACGGGACGAGCA
AAATGATATGAGTTAGCAGTCAGGTAAAAGAAACATAAAACCAAGATTCGTGACATACAGACATA
TTAACCGATATAAGCAGTACAAAGACATCCACAGTCTATGATTCTTGATATGAGATGGCATGAGC
AAAATGATACGAGTTAGCAGTCAGGTAAAAGAACACATAAAACCCAAATTCGTGACATACAGGTA
TAT
Found at i:21859772 original size:2 final size:2
Alignment explanation
Indices: 21859765--21859791 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21859755 CATCAAATTA
21859765 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
21859792 AGTAATTCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21860166 original size:18 final size:18
Alignment explanation
Indices: 21860129--21860167 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
21860119 CATCATCTTA
21860129 AAAATTAAAAAATATTAAT
1 AAAATTAAAAAATA-TAAT
21860148 AAAATCTAAAAAATA-AAT
1 AAAAT-TAAAAAATATAAT
21860166 AA
1 AA
21860168 TATATAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 5 0.26
20 9 0.47
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAATTAAAAAATATAAT
Found at i:21860175 original size:18 final size:19
Alignment explanation
Indices: 21860129--21860175 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
21860119 CATCATCTTA
21860129 AAAAT-TAAAAAATATTAAT
1 AAAATATAAAAAATA-TAAT
*
21860148 AAAATCTAAAAAATA-AAT
1 AAAATATAAAAAATATAAT
*
21860166 AATATATAAA
1 AAAATATAAA
21860176 GAAGTATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 11 0.44
19 5 0.20
20 9 0.36
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAATATAAAAAATATAAT
Found at i:21868027 original size:18 final size:16
Alignment explanation
Indices: 21868003--21868051 Score: 66
Period size: 14 Copynumber: 3.1 Consensus size: 16
21867993 AATAAAATTA
21868003 ATAAAGGATAATTTAC
1 ATAAAGGATAATTTAC
21868019 ACCTAAAGGATAA-TTA-
1 A--TAAAGGATAATTTAC
21868035 ATAAAGGATAATTTAC
1 ATAAAGGATAATTTAC
21868051 A
1 A
21868052 ACCTTTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 10 0.34
15 3 0.10
16 3 0.10
17 3 0.10
18 10 0.34
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (16 bp):
ATAAAGGATAATTTAC
Found at i:21875682 original size:2 final size:2
Alignment explanation
Indices: 21875675--21875704 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21875665 ATAATAGATA
21875675 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21875705 GTACACAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21876973 original size:127 final size:127
Alignment explanation
Indices: 21876747--21877001 Score: 465
Period size: 127 Copynumber: 2.0 Consensus size: 127
21876737 GAGGATAAAA
*
21876747 GTTCGATTAGCTCCATCCGATACTCGAGACCTTTAAGGTAGTGTCCCAATAGCATACACGTTCAG
1 GTTCGATTAGCTCCATCCGATACTCGAGACCTTTAAGGTAGTGTCCCAATAGCATACACCTTCAG
* * *
21876812 AAAGAACTATGAACGTCAGAAGACATAGTTTCAATCAAATGTTTTGGCACATTTTTAAACAC
66 AAAGAAATATGAACATCAGAAGACATAGTTTCAATCAAATGTTTTGGCACAGTTTTAAACAC
21876874 GTTCGATTAGCTCCATCCGATACTCGAGACCTTTAAGGTAGTGTCCCAATAGCATACACCTTCAG
1 GTTCGATTAGCTCCATCCGATACTCGAGACCTTTAAGGTAGTGTCCCAATAGCATACACCTTCAG
*
21876939 AAAGAAATATGAACATCAGAAGACATAGTTTCAATCGAATGTTTTGGCACAGTTTTAAACAC
66 AAAGAAATATGAACATCAGAAGACATAGTTTCAATCAAATGTTTTGGCACAGTTTTAAACAC
21877001 G
1 G
21877002 CAACAAGGAC
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
127 123 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (127 bp):
GTTCGATTAGCTCCATCCGATACTCGAGACCTTTAAGGTAGTGTCCCAATAGCATACACCTTCAG
AAAGAAATATGAACATCAGAAGACATAGTTTCAATCAAATGTTTTGGCACAGTTTTAAACAC
Found at i:21881666 original size:2 final size:2
Alignment explanation
Indices: 21881659--21881683 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21881649 TTTTAAAGAT
21881659 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
21881684 TATACATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:21883768 original size:31 final size:31
Alignment explanation
Indices: 21883730--21883795 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
21883720 AACATCTCAG
* *
21883730 TAACTTAAATAAAAACTTTCTAATAGTTTAA
1 TAACTTAAATAAAAACTTTCTAATAATTCAA
* *
21883761 TAACTTAAATGAAAATTTTCTAATAATTCAA
1 TAACTTAAATAAAAACTTTCTAATAATTCAA
21883792 TAAC
1 TAAC
21883796 CATTTTTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (31 bp):
TAACTTAAATAAAAACTTTCTAATAATTCAA
Found at i:21886637 original size:16 final size:16
Alignment explanation
Indices: 21886618--21886648 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21886608 AAAAAAAAGT
21886618 TTTCAAATATATGTGA
1 TTTCAAATATATGTGA
*
21886634 TTTCAAATTTATGTG
1 TTTCAAATATATGTG
21886649 CTCTAACATT
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:0.32, C:0.06, G:0.13, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATGTGA
Found at i:21890980 original size:22 final size:22
Alignment explanation
Indices: 21890953--21890997 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
21890943 CCAAGCTCCT
*
21890953 ATAATAATTTAAAAGAAATAAA
1 ATAATAAATTAAAAGAAATAAA
* *
21890975 ATAATAAATTAAAATAATTAAA
1 ATAATAAATTAAAAGAAATAAA
21890997 A
1 A
21890998 ATCATAGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (22 bp):
ATAATAAATTAAAAGAAATAAA
Found at i:21896218 original size:13 final size:13
Alignment explanation
Indices: 21896200--21896233 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
21896190 GACTTTTTTA
21896200 ATTTGTTGTTCC-T
1 ATTTGTT-TTCCTT
21896213 ATTTGTTTTCCTT
1 ATTTGTTTTCCTT
21896226 ATTTGTTT
1 ATTTGTTT
21896234 GAATTTATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.09, C:0.12, G:0.12, T:0.68
Consensus pattern (13 bp):
ATTTGTTTTCCTT
Found at i:21899112 original size:29 final size:30
Alignment explanation
Indices: 21899048--21899118 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
21899038 ACAAAGTTGA
* *
21899048 ATAGTTGAAT-ACTCATTTTGTAACTTTTC
1 ATAGTTGGATGACTCATTTTCTAACTTTTC
*
21899077 ATGGTTGGATGAC-CATTTTCTAACTTCTT-
1 ATAGTTGGATGACTCATTTTCTAACTT-TTC
*
21899106 ATAGTTGGGTGAC
1 ATAGTTGGATGAC
21899119 AAATAAAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 31 0.89
30 4 0.11
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (30 bp):
ATAGTTGGATGACTCATTTTCTAACTTTTC
Found at i:21907146 original size:30 final size:30
Alignment explanation
Indices: 21907111--21907178 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
21907101 TCTCCTTTAT
21907111 CGCCGCCAATATTTCCGGTGGAAGCATTGC
1 CGCCGCCAATATTTCCGGTGGAAGCATTGC
21907141 CGCCGCCAATATTTCCGGTGGAAGCATTGC
1 CGCCGCCAATATTTCCGGTGGAAGCATTGC
21907171 CGCCGCCA
1 CGCCGCCA
21907179 CCGTCGCCGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.19, C:0.34, G:0.26, T:0.21
Consensus pattern (30 bp):
CGCCGCCAATATTTCCGGTGGAAGCATTGC
Found at i:21910875 original size:46 final size:46
Alignment explanation
Indices: 21910772--21910865 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
21910762 ACAATACTGT
**
21910772 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTAAGTTTCAC
*
21910818 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTAAGTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTAAGTTTCAC
21910864 AA
1 AA
21910866 TTTGCTATGG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTAAGTTTCAC
Found at i:21914814 original size:175 final size:172
Alignment explanation
Indices: 21914545--21914873 Score: 437
Period size: 175 Copynumber: 1.9 Consensus size: 172
21914535 TGTTGTTCTA
* *
21914545 TTTGCTTCTTTGATTTGATGTTAACCTTGTAGCTTCAAATTTGTCCGCATTTATCATGTTTGCCA
1 TTTGCTTCTTTGATTTGATGTTAACCTTGTAGCTTCAAATTTGTCCACATTTATCATATTTGCCA
* * ** *
21914610 TATTCATTTCCTTGTTTTGGCTATGGTGCTTTGCTTGAAT-CTGAAACCCAGGTAAATCCGAAAG
66 TATTCATTCCCGTGTCCTGGCTATGGTGCTTTGCTTGAATCCT-AAAACCAGGTAAATCCGAAAG
*
21914674 TACTCAAATCCCAAGGCTTCATTATATCCATTGTTTGTTTGTG
130 TACCCAAATCCCAAGGCTTCATTATATCCATTGTTTGTTTGTG
* * * * *
21914717 TTTGCTTCTTTGGTTTGATGTTGACCTT-TAGCTTCGAATTTGTCCACTTTTCTTTATTATATTT
1 TTTGCTTCTTTGATTTGATGTTAACCTTGTAGCTTCAAATTTGTCCAC----ATTTATCATATTT
* * * **
21914781 TCCATATTCCTTCCCGTGTCCTGGCTATGGTGCTTTGCTTGAATCCTAAAACCGGGTAAATCTTA
62 GCCATATTCATTCCCGTGTCCTGGCTATGGTGCTTTGCTTGAATCCTAAAACCAGGTAAATCCGA
21914846 AAGTACCCAAATCCCAAGGCTTCATTAT
127 AAGTACCCAAATCCCAAGGCTTCATTAT
21914874 GTTGTCGCAG
Statistics
Matches: 134, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
171 17 0.13
172 26 0.19
175 89 0.66
176 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (172 bp):
TTTGCTTCTTTGATTTGATGTTAACCTTGTAGCTTCAAATTTGTCCACATTTATCATATTTGCCA
TATTCATTCCCGTGTCCTGGCTATGGTGCTTTGCTTGAATCCTAAAACCAGGTAAATCCGAAAGT
ACCCAAATCCCAAGGCTTCATTATATCCATTGTTTGTTTGTG
Found at i:21915142 original size:192 final size:187
Alignment explanation
Indices: 21914733--21915168 Score: 434
Period size: 192 Copynumber: 2.3 Consensus size: 187
21914723 TCTTTGGTTT
* ** * * *
21914733 GATGTTGACCTTTAGCTTCGAATTT-GTCCACTT-TTCTTTATTATATTTTCCATATTCCTTCCC
1 GATGTTGACTTTTAGCTTCG-ATTTGGTCCA-TTGGACTTTATTATGTTTGCCATATTCATTCCC
* * * ** *
21914796 GTGTCCTGGCTATGGTGCTTTGCTTGAATCCTAAAACCGGGTAAATCTTAAAGTACCCAAATCCC
64 GTCTCCTGGCTATGGTGCTTTGCTTGAACCCGAAAACAAGGTAAATCTTAAACTACCCAAATCCC
* * * * ** * *
21914861 AAGGCTTCATTATGTTGTCGCAGTCGTTGTTGTTGTTGTTCCTTTTGCTTCTTTGATTT
129 AAGGCTTCATTATGTTGTCGCAGTCGTTGTTGTTGCTATTCCATTTGCTTCCTCAAGTC
* * *
21914920 AATATTGAGCTTTTAGCTTC-AGTTTGGTCCATTGGACTTGATTATGTTTGCCATATTCATTCCC
1 GATGTTGA-CTTTTAGCTTCGA-TTTGGTCCATTGGACTTTATTATGTTTGCCATATTCATTCCC
* ** *
21914984 TTCTTTTGGCTATGGTGCTTT-CTTGAACCCGAAAACAAGGT-AATCTCTGAAAACTACCTAAAT
64 GTCTCCTGGCTATGGTGCTTTGCTTGAACCCGAAAACAAGGTAAATCT-T--AAACTACCCAAAT
*
21915047 CCCAAGGCTTCATTATGTTGTCATTGCCG-CTGTTGTTGTTGCTATTCCATTTGCTTCCTCAAGT
126 CCCAAGGCTTCATTATGTTGTC---GCAGTC-GTTGTTGTTGCTATTCCATTTGCTTCCTCAAGT
21915111 C
187 C
* * * *
21915112 GATGTTGACATTTTAGCTTCGATTTGGTCCACTGGATTTTATTATGTTCGCTATATT
1 GATGTTGAC-TTTTAGCTTCGATTTGGTCCATTGGACTTTATTATGTTTGCCATATT
21915169 TGGTGCTTGC
Statistics
Matches: 201, Mismatches: 35, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
186 6 0.03
187 28 0.14
188 56 0.28
189 33 0.16
191 2 0.01
192 75 0.37
193 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.42
Consensus pattern (187 bp):
GATGTTGACTTTTAGCTTCGATTTGGTCCATTGGACTTTATTATGTTTGCCATATTCATTCCCGT
CTCCTGGCTATGGTGCTTTGCTTGAACCCGAAAACAAGGTAAATCTTAAACTACCCAAATCCCAA
GGCTTCATTATGTTGTCGCAGTCGTTGTTGTTGCTATTCCATTTGCTTCCTCAAGTC
Found at i:21915285 original size:166 final size:171
Alignment explanation
Indices: 21914996--21915307 Score: 413
Period size: 166 Copynumber: 1.8 Consensus size: 171
21914986 CTTTTGGCTA
* *
21914996 TGGTGCTTTCTTGAACCCGAAAACAAGGTAATCTCTGAAAACTACCTAAATCCCAAGGCTTCATT
1 TGGTGCTTGCTTGAACCCGAAAACAAGGTAATCTCTGAAAACTACCTAAATCCCAAGGCCTCATT
* ** *
21915061 ATGTTGTCATTGCCGCTGTTGTTGTTGCTATTCCATTTGCTTCCTCAAGTCGATGTTGA-CATTT
66 ATGTTGTCATT-CCGCTCTCATTGTTGC-ATGCCATTTGCTTCCTCAAGTCGATGTTGACCATTT
*
21915125 TAGCTTCGATTTGGTCCACTGGATTTTATTATGTTCGCTATATT
129 T-GCTTCAATTTGGTCCACTGGATTTTATTATGTTCGCTATATT
* * * *
21915169 TGGTGCTTGCTTGAATCC-AAAATCAGGGTAATCTCTG-AAAGTACCTAAATCCCGAGGCCTCAT
1 TGGTGCTTGCTTGAACCCGAAAA-CAAGGTAATCTCTGAAAACTACCTAAATCCCAAGGCCTCAT
* * *
21915232 T-TGTTGTCA-T-CGTTCTCATTGTTGC-TGCTATTTGCTTCCTCAAGTCTATGTTGACCATTTT
65 TATGTTGTCATTCCGCTCTCATTGTTGCATGCCATTTGCTTCCTCAAGTCGATGTTGACCATTTT
21915293 GCTTCAATTTGGTCC
130 GCTTCAATTTGGTCC
21915308 GGTGGCCGGA
Statistics
Matches: 123, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
166 40 0.33
167 6 0.05
168 11 0.09
170 1 0.01
171 8 0.07
172 28 0.23
173 29 0.24
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (171 bp):
TGGTGCTTGCTTGAACCCGAAAACAAGGTAATCTCTGAAAACTACCTAAATCCCAAGGCCTCATT
ATGTTGTCATTCCGCTCTCATTGTTGCATGCCATTTGCTTCCTCAAGTCGATGTTGACCATTTTG
CTTCAATTTGGTCCACTGGATTTTATTATGTTCGCTATATT
Found at i:21919560 original size:31 final size:31
Alignment explanation
Indices: 21919475--21919542 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
21919465 ACTTAACAAC
* * *
21919475 TCAATGACTTAAATAAAAACTTTTAAATAGT
1 TCAATGACTTATATGAAAATTTTTAAATAGT
21919506 TCAATGACTTATATGAAAATTTTTAAATAGT
1 TCAATGACTTATATGAAAATTTTTAAATAGT
21919537 TCAATG
1 TCAATG
21919543 GCCATTTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (31 bp):
TCAATGACTTATATGAAAATTTTTAAATAGT
Found at i:21922642 original size:19 final size:18
Alignment explanation
Indices: 21922610--21922650 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
21922600 CTTTATGTTA
*
21922610 ATTTTTTTTATTTTGAAT
1 ATTTTTTTGATTTTGAAT
*
21922628 ATTTTTTTGACTTTTTAAT
1 ATTTTTTTGA-TTTTGAAT
21922647 ATTT
1 ATTT
21922651 ATAATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (18 bp):
ATTTTTTTGATTTTGAAT
Done.