Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 70 of 143
Found at i:22728781 original size:29 final size:29
Alignment explanation
Indices: 22728726--22728782 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
22728716 CTTTTTATTT
*
22728726 AATTTAGCCTTTTATTTTCTATATTTTGC
1 AATTTAGCCTTTAATTTTCTATATTTTGC
* * *
22728755 AATTTAGGCTTTAAATTTTTTATTTTTT
1 AATTTAGCCTTT-AATTTTCTATATTTT
22728783 AATTCAATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 11 0.48
30 12 0.52
ACGTcount: A:0.23, C:0.09, G:0.07, T:0.61
Consensus pattern (29 bp):
AATTTAGCCTTTAATTTTCTATATTTTGC
Found at i:22728786 original size:28 final size:29
Alignment explanation
Indices: 22728723--22728786 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
22728713 ATCCTTTTTA
*
22728723 TTTAATTTAGCCTTTTATTTTCTATATTT
1 TTTAATTTAGCCTTTAATTTTCTATATTT
** *
22728752 TGCAATTTAGGCTTTAAATTTT-T-TATTT
1 TTTAATTTAGCCTTT-AATTTTCTATATTT
22728780 TTTAATT
1 TTTAATT
22728787 CAATCTAGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
28 10 0.36
29 13 0.46
30 5 0.18
ACGTcount: A:0.23, C:0.08, G:0.06, T:0.62
Consensus pattern (29 bp):
TTTAATTTAGCCTTTAATTTTCTATATTT
Found at i:22735879 original size:8 final size:8
Alignment explanation
Indices: 22735853--22735924 Score: 73
Period size: 8 Copynumber: 9.5 Consensus size: 8
22735843 GTATTTCACC
22735853 AAAAAA-A
1 AAAAAAGA
*
22735860 AAAGAAGAA
1 AAAAAAG-A
22735869 AAAAAAGA
1 AAAAAAGA
*
22735877 AAAAAGGA
1 AAAAAAGA
*
22735885 AAAAGAGA
1 AAAAAAGA
22735893 AAAAAAG-
1 AAAAAAGA
22735900 AAAAAAG-
1 AAAAAAGA
22735907 --AAAAGA
1 AAAAAAGA
22735913 AAAAAAGA
1 AAAAAAGA
22735921 AAAA
1 AAAA
22735925 GAGAGGTCGA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
5 5 0.09
7 12 0.22
8 30 0.56
9 7 0.13
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:22735898 original size:28 final size:28
Alignment explanation
Indices: 22735856--22735924 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
22735846 TTTCACCAAA
*
22735856 AAAAAAAGAAGAAAAA-AAAGAAA-AAAGG
1 AAAAAAAGAA-AAAAAGAAA-AAAGAAAAG
*
22735884 AAAAAGAGAAAAAAAGAAAAAAGAAAAG
1 AAAAAAAGAAAAAAAGAAAAAAGAAAAG
22735912 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
22735925 GAGAGGTCGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 8 0.22
28 28 0.78
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (28 bp):
AAAAAAAGAAAAAAAGAAAAAAGAAAAG
Found at i:22735911 original size:36 final size:36
Alignment explanation
Indices: 22735856--22735928 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 36
22735846 TTTCACCAAA
*
22735856 AAAAAAAGAAGAAAAAAAAGAAAAAAGGAAAAAGAG
1 AAAAAAAGAAGAAAAAAAAGAAAAAAAGAAAAAGAG
22735892 AAAAAAAGAA-AAAAGAAAAGAAAAAAAGAAAAAGAG
1 AAAAAAAGAAGAAAA-AAAAGAAAAAAAGAAAAAGAG
22735928 A
1 A
22735929 GGTCGAGATG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 4 0.11
36 31 0.89
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (36 bp):
AAAAAAAGAAGAAAAAAAAGAAAAAAAGAAAAAGAG
Found at i:22736842 original size:50 final size:50
Alignment explanation
Indices: 22736770--22736990 Score: 237
Period size: 50 Copynumber: 4.4 Consensus size: 50
22736760 GATCTCAAAC
* *
22736770 TCCCTGAAGTTGCAGTGAAATGAAGTAAAGTTACAACACCAAATTCTATA
1 TCCCTGAAGTTGCAGTGGAATGAAGTAAAGTTACAACACCAAATCCTATA
*
22736820 TCCCTGAAGTTGCAATGGAATGAAGTAAAGTTACAACACCAAATCCTATA
1 TCCCTGAAGTTGCAGTGGAATGAAGTAAAGTTACAACACCAAATCCTATA
** * * * * ** * * * * *
22736870 TCCCTGAAGTAACAGTGG-ATAGGATTAAAACTAACAGTAACGAGTCTCAATC
1 TCCCTGAAGTTGCAGTGGAAT-GAAGT-AAAGTTACAACACCAAATC-CTATA
* * *
22736922 TCCCTGAAGTTGTAGTGGAATGAAGTTAATTTACAACACCAAATCCTATA
1 TCCCTGAAGTTGCAGTGGAATGAAGTAAAGTTACAACACCAAATCCTATA
22736972 TCCCTGAAGTTGCAGTGGA
1 TCCCTGAAGTTGCAGTGGA
22736991 TTAGATTAAA
Statistics
Matches: 134, Mismatches: 33, Indels: 8
0.77 0.19 0.05
Matches are distributed among these distances:
49 2 0.01
50 86 0.64
51 23 0.17
52 21 0.16
53 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (50 bp):
TCCCTGAAGTTGCAGTGGAATGAAGTAAAGTTACAACACCAAATCCTATA
Found at i:22737084 original size:102 final size:102
Alignment explanation
Indices: 22736820--22737085 Score: 374
Period size: 102 Copynumber: 2.6 Consensus size: 102
22736810 AAATTCTATA
* *
22736820 TCCCTGAAGTTGCAATGGAATGAAGTAAAGTTACAACACCAAATCCTATATCCCTGAAGTAACAG
1 TCCCTGAAGTTGCAGTGGAATGAAGTAAAGTTACAACACCAAATCCTATATCCCTGAAGTTACAG
22736885 TGGATAGGATTAAAACTAACAGTAACGAGTCTCAATC
66 TGGATAGGATTAAAACTAACAGTAACGAGTCTCAATC
* * * *
22736922 TCCCTGAAGTTGTAGTGGAATGAAGTTAATTTACAACACCAAATCCTATATCCCTGAAGTTGCAG
1 TCCCTGAAGTTGCAGTGGAATGAAGTAAAGTTACAACACCAAATCCTATATCCCTGAAGTTACAG
*
22736987 TGGATTA-GATTAAAACTAACAGTAGCG-GATCTCAATC
66 TGGA-TAGGATTAAAACTAACAGTAACGAG-TCTCAATC
* * * * * * *
22737024 TCTCTGAAGTTGCAGTGGAATGGAGTCAAGTTACAACACAAAATACTATACCCCTAAAGTTA
1 TCCCTGAAGTTGCAGTGGAATGAAGTAAAGTTACAACACCAAATCCTATATCCCTGAAGTTA
22737086 TGTGGGTCAG
Statistics
Matches: 145, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
101 1 0.01
102 142 0.98
103 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (102 bp):
TCCCTGAAGTTGCAGTGGAATGAAGTAAAGTTACAACACCAAATCCTATATCCCTGAAGTTACAG
TGGATAGGATTAAAACTAACAGTAACGAGTCTCAATC
Found at i:22737181 original size:50 final size:50
Alignment explanation
Indices: 22737112--22737590 Score: 155
Period size: 50 Copynumber: 9.6 Consensus size: 50
22737102 GCTACAGAAG
* * *
22737112 CAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGTTACGACAT
1 CAAATCTTATATCCTTGAAGTTGCAGTGGAGCAAGATGAAGTTACGACAT
* * * * * * * *
22737162 CAAATCCTATATCCTTGAAGTTGTAG-GGATCGAA-TTAAAGCTAC-AGTAG
1 CAAATCTTATATCCTTGAAGTTGCAGTGGAGC-AAGATGAAGTTACGA-CAT
* ** * ** *
22737211 CAAACCTT-TATCACTATGAAGTTGTGGTAGAGCAAGATGAA-ACACCACAT
1 CAAATCTTATATC-CT-TGAAGTTGCAGTGGAGCAAGATGAAGTTACGACAT
* * *
22737261 CAAATCATATACCCTTGAAGTTGCAGTGG-GTC-AGATTGAAGTTACAGA-AG
1 CAAATCTTATATCCTTGAAGTTGCAGTGGAG-CAAGA-TGAAGTTAC-GACAT
* * * * **
22737311 CAAATATTATCTCATTGAAGATGCAGTGGAGCAAGATGAAGTTATAACAT
1 CAAATCTTATATCCTTGAAGTTGCAGTGGAGCAAGATGAAGTTACGACAT
* * * * * * * * * *
22737361 CAAGTCTTATATCCCTAAAGTTACA-AGGATC-GGATTAA--AACTACAGT
1 CAAATCTTATATCCTTGAAGTTGCAGTGGAGCAAGATGAAGTTACGACA-T
* * * * * * **
22737408 AGCAAATCTT-TATCTCTCTAAAGATACAATAGAGCAAGATGAAGCTATAACAT
1 --CAAATCTTATATC-CT-TGAAGTTGCAGTGGAGCAAGATGAAGTTACGACAT
* * * * * * *
22737461 CAAATCCTATACCCCTGAATTTGTAGTGG-GTC-GGATTGAAGTTAC-ATAAGT
1 CAAATCTTATATCCTTGAAGTTGCAGTGGAG-CAAGA-TGAAGTTACGA-CA-T
* * * * *
22737512 -AAATCTTATCTCCCTGAAGATGCATTGGAGCAAGATGAAGTTACGATAT
1 CAAATCTTATATCCTTGAAGTTGCAGTGGAGCAAGATGAAGTTACGACAT
* * *
22737561 CAAATCTTATATCCCTAAAGTTGTAGTGGA
1 CAAATCTTATATCCTTGAAGTTGCAGTGGA
22737591 TCAGATTGAG
Statistics
Matches: 301, Mismatches: 95, Indels: 66
0.65 0.21 0.14
Matches are distributed among these distances:
46 4 0.01
47 1 0.00
48 18 0.06
49 54 0.18
50 180 0.60
51 31 0.10
52 8 0.03
53 1 0.00
54 4 0.01
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (50 bp):
CAAATCTTATATCCTTGAAGTTGCAGTGGAGCAAGATGAAGTTACGACAT
Found at i:22737310 original size:199 final size:200
Alignment explanation
Indices: 22737070--22737592 Score: 665
Period size: 199 Copynumber: 2.6 Consensus size: 200
22737060 CACAAAATAC
* * *
22737070 TATACCCCTAAAGTT--ATGTGGGTCAGACTGAAGCTACAGAAGCAAATCTTATCTCCCTGAAGA
1 TATACCCCTGAAGTTGCA-GTGGGTCAGATTGAAGTTACAGAAGCAAATCTTATCTCCCTGAAGA
* * *
22737133 TGCAGTGGAGCAAGATGAAGTTACGACATCAAATCCTATATCCTTGAAGTTGTAGGGATCGAATT
65 TGCAGTGGAGCAAGATGAAGTTACGACATCAAATCTTATATCCCTAAAGTTGTAGGGATCGAATT
* * * **** *
22737198 AAAGCTACAGTAGCAAACCTTTATCACTATGAAGTTGTGGTAGAGCAAGATGAAAC-ACCACATC
130 AAAACTACAGTAGCAAACCTTTATCACTATAAAGATACAATAGAGCAAGATGAAACTACAACATC
22737262 AAATCA
195 AAATCA
* * **
22737268 TATACCCTTGAAGTTGCAGTGGGTCAGATTGAAGTTACAGAAGCAAATATTATCTCATTGAAGAT
1 TATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGTTACAGAAGCAAATCTTATCTCCCTGAAGAT
** * ** * *
22737333 GCAGTGGAGCAAGATGAAGTTATAACATCAAGTCTTATATCCCTAAAGTTACAAGGATCGGATTA
66 GCAGTGGAGCAAGATGAAGTTACGACATCAAATCTTATATCCCTAAAGTTGTAGGGATCGAATTA
* * * * *
22737398 AAACTACAGTAGCAAATCTTTATCTCTCTAAAGATACAATAGAGCAAGATGAAGCTATAACATCA
131 AAACTACAGTAGCAAACCTTTATCACTATAAAGATACAATAGAGCAAGATGAAACTACAACATCA
*
22737463 AATCC
196 AATCA
* * * * *
22737468 TATACCCCTGAATTTGTAGTGGGTCGGATTGAAGTTACATAAGTAAATCTTATCTCCCTGAAGAT
1 TATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGTTACAGAAGCAAATCTTATCTCCCTGAAGAT
* *
22737533 GCATTGGAGCAAGATGAAGTTACGATATCAAATCTTATATCCCTAAAGTTGTAGTGGATC
66 GCAGTGGAGCAAGATGAAGTTACGACATCAAATCTTATATCCCTAAAGTTGTAG-GGATC
22737593 AGATTGAGAC
Statistics
Matches: 273, Mismatches: 48, Indels: 5
0.84 0.15 0.02
Matches are distributed among these distances:
198 13 0.05
199 141 0.52
200 114 0.42
201 5 0.02
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (200 bp):
TATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGTTACAGAAGCAAATCTTATCTCCCTGAAGAT
GCAGTGGAGCAAGATGAAGTTACGACATCAAATCTTATATCCCTAAAGTTGTAGGGATCGAATTA
AAACTACAGTAGCAAACCTTTATCACTATAAAGATACAATAGAGCAAGATGAAACTACAACATCA
AATCA
Found at i:22737607 original size:100 final size:100
Alignment explanation
Indices: 22736847--22737641 Score: 492
Period size: 100 Copynumber: 7.9 Consensus size: 100
22736837 GAATGAAGTA
* * *** * *
22736847 AAGTTACAACACCAAATCCTATATCCCTGAAGTAACAGTGGAT-AGGATTAAAACTAACAGTAA-
1 AAGTTACAACATCAAATCCTATATCCCTAAAGTTGTAGTGGATCA-GATTGAAGCT-ACA-TAAG
* * * * * *
22736910 CGAGTCTCAATCTCCCTGAAGTTGTAGTGGAATG-AAG-TT
63 CAAATCT-TATCTCCCTGAAGATGCAGTGG-A-GCAAGATG
* * * * * * *
22736949 AATTTACAACACCAAATCCTATATCCCTGAAGTTGCAGTGGATTAGATTAAAACTAACAGT-AGC
1 AAGTTACAACATCAAATCCTATATCCCTAAAGTTGTAGTGGATCAGATTGAAGCT-ACA-TAAGC
** * * * * *
22737013 GGATCTCAATCTCTCTGAAGTTGCAGTGGA--ATGGAGTC
64 AAATCT-TATCTCCCTGAAGATGCAGTGGAGCA-AGA-TG
* * * * * *
22737051 AAGTTACAACA-CAAAATACTATACCCCTAAAGTTAT-GTGGGTCAGACTGAAGCTACAGAAGCA
1 AAGTTACAACATC-AAATCCTATATCCCTAAAGTTGTAGTGGATCAGATTGAAGCTACATAAGCA
22737114 AATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATG
65 AATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATG
* * * *
22737150 AAGTTACGACATCAAATCCTATATCCTTGAAGTTGTAG-GGATC-GAATTAAAGCTACAGT-AGC
1 AAGTTACAACATCAAATCCTATATCCCTAAAGTTGTAGTGGATCAG-ATTGAAGCTACA-TAAGC
* * ** * ** *
22737212 AAACCTTTATCACTATGAAGTTGTGGTAGAGCAAGATG
64 AAATC-TTATCTCCCTGAAGATGCAGTGGAGCAAGATG
** * * * * * * *
22737250 AA-ACACCACATCAAATCATATA-CCCTTGAAGTTGCAGTGGGTCAGATTGAAGTTACAGAAGCA
1 AAGTTACAACATCAAATCCTATATCCC-TAAAGTTGTAGTGGATCAGATTGAAGCTACATAAGCA
* **
22737313 AATATTATCTCATTGAAGATGCAGTGGAGCAAGATG
65 AATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATG
* * * ** * * * *
22737349 AAGTTATAACATCAAGTCTTATATCCCTAAAGTTACA-AGGATCGGATTAAAACTACAGT-AGCA
1 AAGTTACAACATCAAATCCTATATCCCTAAAGTTGTAGTGGATCAGATTGAAGCTACA-TAAGCA
* * * * *
22737412 AATCTTTATCTCTCTAAAGATACAATAGAGCAAGATG
65 AATC-TTATCTCCCTGAAGATGCAGTGGAGCAAGATG
* * * * * * * * *
22737449 AAGCTATAACATCAAATCCTATACCCCTGAATTTGTAGTGGGTCGGATTGAAGTTACATAAGTAA
1 AAGTTACAACATCAAATCCTATATCCCTAAAGTTGTAGTGGATCAGATTGAAGCTACATAAGCAA
*
22737514 ATCTTATCTCCCTGAAGATGCATTGGAGCAAGATG
66 ATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATG
* * *
22737549 AAGTTACGATATCAAATCTTATATCCCTAAAGTTGTAGTGGATCAGATTG-AGACTACATTAA-C
1 AAGTTACAACATCAAATCCTATATCCCTAAAGTTGTAGTGGATCAGATTGAAG-CTACA-TAAGC
** **
22737612 AAGCCTTATCTCCCCAAAGATGCAGTGGAG
64 AAATCTTATCTCCCTGAAGATGCAGTGGAG
22737642 TAGGATAAAG
Statistics
Matches: 544, Mismatches: 123, Indels: 54
0.75 0.17 0.07
Matches are distributed among these distances:
98 3 0.01
99 147 0.27
100 236 0.43
101 46 0.08
102 111 0.20
103 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (100 bp):
AAGTTACAACATCAAATCCTATATCCCTAAAGTTGTAGTGGATCAGATTGAAGCTACATAAGCAA
ATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATG
Found at i:22737666 original size:200 final size:196
Alignment explanation
Indices: 22737064--22737666 Score: 618
Period size: 200 Copynumber: 3.0 Consensus size: 196
22737054 TTACAACACA
* * * * *
22737064 AAATACTATACCCCTAAAGTTAT-GTGGGTCAGACTGAAGCTACAGAAGCAAATCTTATCTCCCT
1 AAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAGTTACAGAAGCAAATCTTATCTCCCT
* * *
22737128 GAAGATGCAGTGGAGCAAGATGAAGTTACGACATCAAATCCTATATCCTTGAAGTTGTAGGGATC
66 GAAGATGCAGTGGAGCAAGATGAAGTTACGACATCAAATCTTATATCCCTAAAGTTGTAGGGATC
* * ** * *
22737193 GAATTAAAGCTACAGTAGCAAACCTT-TATCACTATGAAGTTGTGGTAGAGCAAGATGAAA-CAC
131 G-ATTAAA-CTACAGTAGCAAACCTTATCTCACTA--AAGATGCAGTAGAGCAAGAT-AAAGTAA
*
22737256 CACATC
191 AACATC
* * * * **
22737262 AAATCATATACCCTTGAAGTTGCAGTGGGTCAGATTGAAGTTACAGAAGCAAATATTATCTCATT
1 AAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAGTTACAGAAGCAAATCTTATCTCCCT
** * ** *
22737327 GAAGATGCAGTGGAGCAAGATGAAGTTATAACATCAAGTCTTATATCCCTAAAGTTACAAGGATC
66 GAAGATGCAGTGGAGCAAGATGAAGTTACGACATCAAATCTTATATCCCTAAAGTTGTAGGGATC
* * * * * *
22737392 GGATTAAAACTACAGTAGCAAATCTTTATCTCTCTAAAGATACAATAGAGCAAGATGAAGCTATA
131 -GATT-AAACTACAGTAGCAAA-CCTTATCTCACTAAAGATGCAGTAGAGCAAGATAAAG-TAAA
22737457 ACATC
192 ACATC
* * * *
22737462 AAATCCTATACCCCTGAATTTGTAGTGGGTCGGATTGAAGTTACATAAGTAAATCTTATCTCCCT
1 AAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAGTTACAGAAGCAAATCTTATCTCCCT
* *
22737527 GAAGATGCATTGGAGCAAGATGAAGTTACGATATCAAATCTTATATCCCTAAAGTTGTAGTGGAT
66 GAAGATGCAGTGGAGCAAGATGAAGTTACGACATCAAATCTTATATCCCTAAAGTTGTAG-GGAT
* * * * * * * * *
22737592 CAGATTGAGACTACATTAACAAGCCTTATCTCCCCAAAGATGCAGTGGAGTAGGATAAAGTTAAA
130 C-GATT-AAACTACAGTAGCAAACCTTATCTCACTAAAGATGCAGTAGAGCAAGATAAAG-TAAA
**
22737657 ATGTC
192 ACATC
22737662 AAATC
1 AAATC
22737667 ATGTCTTCTT
Statistics
Matches: 328, Mismatches: 69, Indels: 14
0.80 0.17 0.03
Matches are distributed among these distances:
198 19 0.06
199 123 0.38
200 159 0.48
201 27 0.08
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (196 bp):
AAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAGTTACAGAAGCAAATCTTATCTCCCT
GAAGATGCAGTGGAGCAAGATGAAGTTACGACATCAAATCTTATATCCCTAAAGTTGTAGGGATC
GATTAAACTACAGTAGCAAACCTTATCTCACTAAAGATGCAGTAGAGCAAGATAAAGTAAAACAT
C
Found at i:22738061 original size:19 final size:17
Alignment explanation
Indices: 22738039--22738078 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
22738029 AAAACCAAAT
22738039 TTTAAAATTAAAAAGTCCA
1 TTTAAAATT--AAAGTCCA
*
22738058 TTTACAATTAAAGTCCA
1 TTTAAAATTAAAGTCCA
22738075 TTTA
1 TTTA
22738079 CAAAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 12 0.60
19 8 0.40
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (17 bp):
TTTAAAATTAAAGTCCA
Found at i:22738655 original size:16 final size:17
Alignment explanation
Indices: 22738634--22738665 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
22738624 AAATCGAAAT
22738634 GTTTTTATTTT-TTTTA
1 GTTTTTATTTTATTTTA
22738650 GTTTTTATTTTATTTT
1 GTTTTTATTTTATTTT
22738666 TGGGACTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.81
Consensus pattern (17 bp):
GTTTTTATTTTATTTTA
Found at i:22747794 original size:141 final size:140
Alignment explanation
Indices: 22747648--22748228 Score: 522
Period size: 142 Copynumber: 4.1 Consensus size: 140
22747638 AATCAAAAGT
* * * *
22747648 TTTCTTTTTAAAAAAATTACTACTTTTCTTAAAAATTAAAGTTTTTATTTTAAAATGGTTAAAAA
1 TTTCTTTTTAAAAAAATTATTACTTTTCTTAAAAATCAAAATTTTTATTTTAAAATAGTTAAAAA
* * * * *
22747713 A-TCAAATTTTGTTTAAAAATTTAATCTTTCTCTTTAAAATGACAAAAATAGATATTTATTTTTT
66 ATTAAAACTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATGACAAAAATAAATATTTA-TTTTT
*
22747777 AAAAACCTAAA
130 AAAAATCTAAA
* * * ** ***
22747788 GTTTCTTTTTTTAAAAAATAATTACTTTTGTTAAAAATCAAAGCTTTTATTCCGAAATAGTTAGA
1 -TTTC-TTTTTAAAAAAATTATTACTTTTCTTAAAAATCAAAATTTTTATTTTAAAATAGTTA-A
* * * * * *
22747853 AAAATCAGAA-TTT-TTTAAAAAAAATATAAACTTTTTCTTTTAAAATGATTAAAAACAAATTTT
63 AAAATTAAAACTTTGTTT---AAAAATTTAAACTTTTTC-TTTAAAATGA-CAAAAATAAATATT
*
22747916 TATTTTTAAAAATGTAAA
123 TATTTTTAAAAATCTAAA
* * ** *
22747934 -TT-TTTTT-AAAAAA-TATTATTTTTCTTAAAAATTAAAATTTTTATTTCGAAATATTTTAAAA
1 TTTCTTTTTAAAAAAATTATTACTTTTCTTAAAAATCAAAATTTTTATTTTAAAATA-GTT--AA
* * *
22747995 AAAATTAAAACTTTGTTTAAAAAATTTAAACATTTTCCTTTAAAATAACTAAAAAATAAATTTTT
63 AAAATTAAAACTTTGTTT-AAAAATTTAAAC-TTTTTCTTTAAAATGAC--AAAAATAAATATTT
22748060 ATTTTTAAAAATCT-AA
124 ATTTTTAAAAATCTAAA
* * * *
22748076 TTT-TTTTT-TAAAAATCATTACTTTTCTTAAAAATCAAAATTTTTATTTTGAAATAATTAAAAA
1 TTTCTTTTTAAAAAAATTATTACTTTTCTTAAAAATCAAAATTTTTATTTTAAAATAGTTAAAAA
* * * *
22748139 ATTAAAACTTTATTTAATAATTTAAATTTTTTTCTTTAAAATGGA-TAAAA-AAA-ATTTATTTT
66 ATTAAAACTTTGTTTAAAAATTTAAA-CTTTTTCTTTAAAAT-GACAAAAATAAATATTTATTTT
22748201 TAAAAATCTAAA
129 TAAAAATCTAAA
* *
22748213 CTTCCTTTTAAAAAAA
1 TTTCTTTTTAAAAAAA
22748229 ATCAAAACTT
Statistics
Matches: 363, Mismatches: 54, Indels: 48
0.78 0.12 0.10
Matches are distributed among these distances:
136 17 0.05
137 7 0.02
138 8 0.02
139 5 0.01
140 56 0.15
141 32 0.09
142 87 0.24
143 57 0.16
144 43 0.12
145 15 0.04
146 24 0.07
147 12 0.03
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (140 bp):
TTTCTTTTTAAAAAAATTATTACTTTTCTTAAAAATCAAAATTTTTATTTTAAAATAGTTAAAAA
ATTAAAACTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATGACAAAAATAAATATTTATTTTTA
AAAATCTAAA
Found at i:22747940 original size:19 final size:18
Alignment explanation
Indices: 22747918--22747975 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
22747908 CAAATTTTTA
22747918 TTTTTAAAAATGTAAA-TT
1 TTTTTAAAAAT-TAAATTT
* *
22747936 TTTTTAAAAAATATTATTT
1 TTTTTAAAAATTA-AATTT
*
22747955 TTCTTAAAAATTAAAATTT
1 TTTTTAAAAATT-AAATTT
22747974 TT
1 TT
22747976 ATTTCGAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 2 0.06
18 11 0.34
19 18 0.56
20 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (18 bp):
TTTTTAAAAATTAAATTT
Found at i:22747941 original size:18 final size:17
Alignment explanation
Indices: 22747918--22747975 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
22747908 CAAATTTTTA
22747918 TTTTTAAAAATGTAAATT
1 TTTTTAAAAAT-TAAATT
* *
22747936 TTTTTAAAAAATATTATT
1 TTTTTAAAAATTA-AATT
22747954 TTTCTTAAAAATTAAAATT
1 TTT-TTAAAAATT-AAATT
22747973 TTT
1 TTT
22747976 ATTTCGAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 2 0.06
18 16 0.48
19 14 0.42
20 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (17 bp):
TTTTTAAAAATTAAATT
Found at i:22748071 original size:20 final size:19
Alignment explanation
Indices: 22748046--22748124 Score: 65
Period size: 19 Copynumber: 4.0 Consensus size: 19
22748036 AAAATAACTA
22748046 AAAAAT-AAATTTTTATTTTT
1 AAAAATCAAA-TTTT-TTTTT
*
22748066 AAAAATCTAATTTTTTTTT
1 AAAAATCAAATTTTTTTTT
*
22748085 AAAAATC--ATTACTTTTCTT
1 AAAAATCAAATT--TTTTTTT
22748104 AAAAATCAAAATTTTTATTTT
1 AAAAATC-AAATTTTT-TTTT
22748125 GAAATAATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
17 3 0.06
19 25 0.51
20 13 0.27
21 5 0.10
22 3 0.06
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (19 bp):
AAAAATCAAATTTTTTTTT
Found at i:22754988 original size:16 final size:15
Alignment explanation
Indices: 22754966--22755011 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
22754956 CTGGAATGAG
22754966 AATAAATTTTTAATT
1 AATAAATTTTTAATT
22754981 AGATAAATTTAATTAATT
1 A-ATAAATTT--TTAATT
22754999 AA-AAA-TTTTAATT
1 AATAAATTTTTAATT
22755012 TAATTACAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 6 0.21
15 3 0.11
16 11 0.39
17 1 0.04
18 7 0.25
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
AATAAATTTTTAATT
Found at i:22754998 original size:18 final size:17
Alignment explanation
Indices: 22754966--22755017 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
22754956 CTGGAATGAG
22754966 AATAAATTT--TTAATT
1 AATAAATTTAATTAATT
22754981 AGATAAATTTAATTAATT
1 A-ATAAATTTAATTAATT
22754999 AA-AAATTTTAATTTAATT
1 AATAAA-TTTAA-TTAATT
22755017 A
1 A
22755018 CAATTGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.03
16 11 0.34
17 6 0.19
18 14 0.44
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
AATAAATTTAATTAATT
Found at i:22755376 original size:13 final size:13
Alignment explanation
Indices: 22755358--22755382 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22755348 CTTATGTATG
22755358 CGAAGTGTGTGTA
1 CGAAGTGTGTGTA
22755371 CGAAGTGTGTGT
1 CGAAGTGTGTGT
22755383 GCGTTATCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.08, G:0.40, T:0.32
Consensus pattern (13 bp):
CGAAGTGTGTGTA
Found at i:22757185 original size:21 final size:21
Alignment explanation
Indices: 22757167--22757213 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
22757157 AAATTATAGA
22757167 TTTTAATGAATTTTTTATACAC
1 TTTTAAT-AATTTTTTATACAC
* *
22757189 TTTTAGTAATTTTTTTTA-AC
1 TTTTAATAATTTTTTATACAC
22757209 TTTTA
1 TTTTA
22757214 TAAATTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
21 10 0.43
22 6 0.26
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTTAATAATTTTTTATACAC
Found at i:22757220 original size:20 final size:21
Alignment explanation
Indices: 22757175--22757213 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22757165 GATTTTAATG
22757175 AATTTTTTATACACTTTTAGT
1 AATTTTTTATACACTTTTAGT
*
22757196 AATTTTTTTTA-ACTTTTA
1 AATTTTTTATACACTTTTA
22757214 TAAATTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (21 bp):
AATTTTTTATACACTTTTAGT
Found at i:22759218 original size:15 final size:15
Alignment explanation
Indices: 22759200--22759233 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
22759190 GAGCTATTGT
*
22759200 AGTAAGAGCTGGTAG
1 AGTAAGAGATGGTAG
*
22759215 AGTAAGAGATGGTGG
1 AGTAAGAGATGGTAG
22759230 AGTA
1 AGTA
22759234 GGAGTTGTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.41, T:0.21
Consensus pattern (15 bp):
AGTAAGAGATGGTAG
Found at i:22761808 original size:52 final size:52
Alignment explanation
Indices: 22761727--22761966 Score: 374
Period size: 52 Copynumber: 4.6 Consensus size: 52
22761717 AAAAAGGGTT
* * *
22761727 CGATGACTAAGTGTCATTGTGAGTATATGAATCCTTTACGGATTATGAGGT-
1 CGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTC
* * *
22761778 CTAGTGACTATGTGTCAACGTGAGTATATGAATCCTTTACGGATTATGAGGTC
1 CGA-TGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTC
*
22761831 CGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATGAGGTC
1 CGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTC
*
22761883 CGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGGTC
1 CGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTC
* *
22761935 CGGTGGCTATGTGTCATCGTGAGTACATGAAT
1 CGATGGCTATGTGTCATCGTGAGTATATGAAT
22761967 GAAATGAAAT
Statistics
Matches: 175, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
51 2 0.01
52 171 0.98
53 2 0.01
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (52 bp):
CGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTC
Found at i:22773529 original size:52 final size:52
Alignment explanation
Indices: 22773449--22773635 Score: 288
Period size: 52 Copynumber: 3.6 Consensus size: 52
22773439 GTTTTATTTA
*
22773449 ATACTCACGATGACACTTAGTCATCGGACCTCATAATCTGTAAATGATTCAT
1 ATACTCACGATGACACTTAGTCATCGGACCTCATAATCAGTAAATGATTCAT
* * *
22773501 AAACTCATGATGACACTTAGTCATCGGACCTCATAATCAGTAAAGGATTCAT
1 ATACTCACGATGACACTTAGTCATCGGACCTCATAATCAGTAAATGATTCAT
22773553 ATACTCACGATGACACTTAGTCATCGGACCTCATAATCCA-T-AATAGATTCAT
1 ATACTCACGATGACACTTAGTCATCGGACCTCATAAT-CAGTAAAT-GATTCAT
* *
22773605 ATACTCACGATGACACTTAGTTATAGGACCT
1 ATACTCACGATGACACTTAGTCATCGGACCT
22773636 TTTCGTTTAT
Statistics
Matches: 124, Mismatches: 9, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
51 2 0.02
52 120 0.97
53 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (52 bp):
ATACTCACGATGACACTTAGTCATCGGACCTCATAATCAGTAAATGATTCAT
Found at i:22775053 original size:17 final size:17
Alignment explanation
Indices: 22775031--22775064 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22775021 CAAGGTGTAA
22775031 TCACATAGGAAGGATCC
1 TCACATAGGAAGGATCC
22775048 TCACATAGGAAGGATCC
1 TCACATAGGAAGGATCC
22775065 GATCTATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (17 bp):
TCACATAGGAAGGATCC
Found at i:22780738 original size:52 final size:52
Alignment explanation
Indices: 22780665--22780890 Score: 344
Period size: 52 Copynumber: 4.3 Consensus size: 52
22780655 GTTTCATTTA
* * * *
22780665 ATACTCACGATAACACTTAGTCATCAGACCTAATAATCTGTAAATGATTCAT
1 ATACTCACGATGACACTTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* * *
22780717 ATGCTCACGATGACACTTAGTCATTAGACCTCATAATCCGTAAAGGACTCAT
1 ATACTCACGATGACACTTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* *
22780769 ATACTCACGATGACACTTAGTAATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACTTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* * *
22780821 ATACTCACGATGACACTTAGTCATCGGACCTCATAATTCGTAAAGGATTAAT
1 ATACTCACGATGACACTTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
22780873 ATACTCACGATGACACTT
1 ATACTCACGATGACACTT
22780891 TGTTAACAAT
Statistics
Matches: 159, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 159 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (52 bp):
ATACTCACGATGACACTTAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
Found at i:22785445 original size:13 final size:14
Alignment explanation
Indices: 22785427--22785457 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
22785417 TCTAAATCTT
22785427 TTGATTCAA-AATC
1 TTGATTCAAGAATC
22785440 TTGATTCAAGAATC
1 TTGATTCAAGAATC
22785454 TTGA
1 TTGA
22785458 AAAATTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (14 bp):
TTGATTCAAGAATC
Found at i:22787871 original size:25 final size:25
Alignment explanation
Indices: 22787823--22787871 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
22787813 CTAGGTTAAT
* *
22787823 TAGAGTTTAAGTGGGAAACTAAAAA
1 TAGAGTTTAACTGGGAAACGAAAAA
22787848 TAGAGTTTAACTGGGAGAA-GAAAA
1 TAGAGTTTAACTGGGA-AACGAAAA
22787872 GGCAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.47, C:0.04, G:0.27, T:0.22
Consensus pattern (25 bp):
TAGAGTTTAACTGGGAAACGAAAAA
Found at i:22792979 original size:3 final size:3
Alignment explanation
Indices: 22792971--22793030 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
22792961 TAATAACCTT
22792971 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
22793019 AGA AGA AGA AGA
1 AGA AGA AGA AGA
22793031 TGATGATGAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:22793035 original size:3 final size:3
Alignment explanation
Indices: 22793029--22793104 Score: 143
Period size: 3 Copynumber: 25.3 Consensus size: 3
22793019 AGAAGAAGAA
22793029 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
22793077 GAT AAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
22793105 GAGAAATAGA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.34, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:22799166 original size:18 final size:17
Alignment explanation
Indices: 22799145--22799178 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22799135 ATGAATGTAA
22799145 TGACAAAATAAAATGCAG
1 TGACAAAA-AAAATGCAG
*
22799163 TGACAATAAAAATGCA
1 TGACAAAAAAAATGCA
22799179 ATAAAACTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.18
Consensus pattern (17 bp):
TGACAAAAAAAATGCAG
Found at i:22813447 original size:25 final size:25
Alignment explanation
Indices: 22813411--22813460 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
22813401 GTAAATCAAA
22813411 AAAATATATCTTTAGAG-ATTTTCT
1 AAAATATATCTTTAGAGAATTTTCT
*
22813435 AAAATAATCTCTTTAGAGAATTTTCT
1 AAAAT-ATATCTTTAGAGAATTTTCT
22813461 CTCTACAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.22
25 11 0.48
26 7 0.30
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (25 bp):
AAAATATATCTTTAGAGAATTTTCT
Found at i:22815025 original size:31 final size:31
Alignment explanation
Indices: 22814990--22815076 Score: 111
Period size: 31 Copynumber: 2.8 Consensus size: 31
22814980 ACTGTTAATC
* *
22814990 AGTGACTGTTTTGTCAGTTTTCAATAATGTT
1 AGTGACTGTTTTGTCAATTTTCAATAATATT
* ** *
22815021 AGTGACTGTTTTGTCACTTTTTGATGATATT
1 AGTGACTGTTTTGTCAATTTTCAATAATATT
22815052 AGTGACTGTTTTGTCACATTTTCAA
1 AGTGACTGTTTTGTCA-ATTTTCAA
22815077 AGTTGAGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 42 0.89
32 5 0.11
ACGTcount: A:0.22, C:0.11, G:0.18, T:0.48
Consensus pattern (31 bp):
AGTGACTGTTTTGTCAATTTTCAATAATATT
Found at i:22815088 original size:30 final size:30
Alignment explanation
Indices: 22814990--22815089 Score: 107
Period size: 31 Copynumber: 3.3 Consensus size: 30
22814980 ACTGTTAATC
*
22814990 AGTGACTGTTTTGTCA-GTTTTCAATAATGTT
1 AGTGACTGTTTTGTCACATTTTC-ATAA-GTT
* *
22815021 AGTGACTGTTTTGTCACTTTTTGATGATA-TT
1 AGTGACTGTTTTGTCACATTTTCAT-A-AGTT
22815052 AGTGACTGTTTTGTCACATTTTCA-AAGTT
1 AGTGACTGTTTTGTCACATTTTCATAAGTT
22815081 GAGTGACTG
1 -AGTGACTG
22815090 AAATGTAAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
28 1 0.02
29 3 0.05
30 8 0.13
31 42 0.70
32 5 0.08
33 1 0.02
ACGTcount: A:0.22, C:0.11, G:0.21, T:0.46
Consensus pattern (30 bp):
AGTGACTGTTTTGTCACATTTTCATAAGTT
Found at i:22815284 original size:11 final size:11
Alignment explanation
Indices: 22815268--22815343 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
22815258 GACAATCAAT
22815268 TTAATATTAAA
1 TTAATATTAAA
22815279 TTAATA--AAA
1 TTAATATTAAA
*
22815288 -TACTATTAAAA
1 TTAATATT-AAA
*
22815299 TAAATATTAAA
1 TTAATATTAAA
22815310 TTAA-ATTTAATA
1 TTAATA-TTAA-A
22815322 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
22815335 ATAATATTA
1 TTAATATTA
22815344 TTTTTGGAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 1 0.02
11 24 0.47
12 10 0.20
13 4 0.08
14 4 0.08
15 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:22819590 original size:20 final size:21
Alignment explanation
Indices: 22819557--22819596 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
22819547 AAAACCAGTA
22819557 TGAGTAGTTTTTTCTCTTAAT
1 TGAGTAGTTTTTTCTCTTAAT
22819578 TGAGTAG-TTTTTCTCTTAA
1 TGAGTAGTTTTTTCTCTTAA
22819597 CTATTGGGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.20, C:0.10, G:0.15, T:0.55
Consensus pattern (21 bp):
TGAGTAGTTTTTTCTCTTAAT
Found at i:22835304 original size:14 final size:14
Alignment explanation
Indices: 22835285--22835312 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22835275 AAATAAACTT
22835285 TTTTATTTATTTTA
1 TTTTATTTATTTTA
22835299 TTTTATTTATTTTA
1 TTTTATTTATTTTA
22835313 ATATTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:22836226 original size:21 final size:22
Alignment explanation
Indices: 22836201--22836242 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
22836191 GGGTTGTTCC
22836201 CTCTTTAATATT-GAATATATG
1 CTCTTTAATATTAGAATATATG
*
22836222 CTCTTTAATATTATAATATAT
1 CTCTTTAATATTAGAATATAT
22836243 AAGTATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.50
Consensus pattern (22 bp):
CTCTTTAATATTAGAATATATG
Found at i:22837256 original size:31 final size:31
Alignment explanation
Indices: 22837210--22837272 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
22837200 AAATTTAAAA
*
22837210 TTAATAAAAATAAAATTATATTTTAATTTTT
1 TTAATAAAAATAAAATTATAATTTAATTTTT
*
22837241 TTAA-AAATAATAAAATTTTAATTTAATTTTT
1 TTAATAAA-AATAAAATTATAATTTAATTTTT
22837272 T
1 T
22837273 ATAAGTACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (31 bp):
TTAATAAAAATAAAATTATAATTTAATTTTT
Found at i:22839731 original size:20 final size:20
Alignment explanation
Indices: 22839698--22839741 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
22839688 TCACATCAAC
*
22839698 AAATATTTACAAATTATAAA
1 AAATATTTACAAATAATAAA
*
22839718 AAATATTT-CAAAATAATAAG
1 AAATATTTAC-AAATAATAAA
22839738 AAAT
1 AAAT
22839742 TATTACAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (20 bp):
AAATATTTACAAATAATAAA
Found at i:22839849 original size:10 final size:10
Alignment explanation
Indices: 22839830--22839875 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
22839820 TTCTCAAATC
22839830 ATTATTAAAA
1 ATTATTAAAA
*
22839840 ATTATAAAAA
1 ATTATTAAAA
*
22839850 ATTATTTATAA
1 ATTA-TTAAAA
*
22839861 ATTATTAAGA
1 ATTATTAAAA
22839871 ATTAT
1 ATTAT
22839876 AAGATATTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (10 bp):
ATTATTAAAA
Found at i:22839864 original size:21 final size:21
Alignment explanation
Indices: 22839830--22839875 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
22839820 TTCTCAAATC
22839830 ATTA-TTAAAAATTATAAAAA
1 ATTATTTAAAAATTATAAAAA
* * *
22839850 ATTATTTATAAATTATTAAGA
1 ATTATTTAAAAATTATAAAAA
22839871 ATTAT
1 ATTAT
22839876 AAGATATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTATTTAAAAATTATAAAAA
Found at i:22840660 original size:20 final size:20
Alignment explanation
Indices: 22840635--22840703 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
22840625 TTTTAAAATA
*
22840635 TAAAATTATTGAAATTATTT
1 TAAAATTATTAAAATTATTT
22840655 TAAAATTAATTTTTAAAA-TA---
1 TAAAATT-A---TTAAAATTATTT
22840675 TAAAATTATTAAAATTATTT
1 TAAAATTATTAAAATTATTT
22840695 TAAAATTAT
1 TAAAATTAT
22840704 AATCATCATT
Statistics
Matches: 40, Mismatches: 1, Indels: 16
0.70 0.02 0.28
Matches are distributed among these distances:
16 6 0.15
17 2 0.05
19 1 0.03
20 23 0.57
21 1 0.03
23 2 0.05
24 5 0.12
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (20 bp):
TAAAATTATTAAAATTATTT
Found at i:22840662 original size:11 final size:11
Alignment explanation
Indices: 22840646--22840703 Score: 56
Period size: 11 Copynumber: 5.6 Consensus size: 11
22840636 AAAATTATTG
22840646 AAATTATTTTA
1 AAATTATTTTA
22840657 AAATTAATTTTTA
1 AAATT-A-TTTTA
22840670 AAA-TA---TA
1 AAATTATTTTA
22840677 AAATTA--TTA
1 AAATTATTTTA
22840686 AAATTATTTTA
1 AAATTATTTTA
22840697 AAATTAT
1 AAATTAT
22840704 AATCATCATT
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
7 5 0.12
8 2 0.05
9 8 0.20
11 16 0.39
12 2 0.05
13 8 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAATTATTTTA
Found at i:22840677 original size:40 final size:41
Alignment explanation
Indices: 22840604--22840702 Score: 159
Period size: 40 Copynumber: 2.5 Consensus size: 41
22840594 GCAAATGATT
*
22840604 TTAAAATTA--TTAAAATTACTTTTTTAAAATATAAAATTA
1 TTAAAATTATTTTAAAATTACATTTTTAAAATATAAAATTA
*
22840643 TTGAAATTATTTTAAAATTA-ATTTTTAAAATATAAAATTA
1 TTAAAATTATTTTAAAATTACATTTTTAAAATATAAAATTA
22840683 TTAAAATTATTTTAAAATTA
1 TTAAAATTATTTTAAAATTA
22840703 TAATCATCAT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
39 8 0.15
40 38 0.69
41 9 0.16
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (41 bp):
TTAAAATTATTTTAAAATTACATTTTTAAAATATAAAATTA
Found at i:22840752 original size:6 final size:6
Alignment explanation
Indices: 22840736--22840777 Score: 77
Period size: 6 Copynumber: 7.2 Consensus size: 6
22840726 AGATTTTTTT
22840736 CCCTT- CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC C
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC C
22840778 TTCGTTTGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.14
6 31 0.86
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
CCCTTC
Found at i:22841581 original size:6 final size:6
Alignment explanation
Indices: 22841560--22841593 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
22841550 GGAAAATAAA
*
22841560 GGGAAG GGG-AG GGGAAG TGGAAG GGGAAG GGGAA
1 GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGAA
22841594 AAAACCCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.32, C:0.00, G:0.65, T:0.03
Consensus pattern (6 bp):
GGGAAG
Found at i:22841647 original size:20 final size:20
Alignment explanation
Indices: 22841622--22841737 Score: 77
Period size: 20 Copynumber: 5.9 Consensus size: 20
22841612 GATGATGATT
22841622 ATAATTTTAAAATAATTTTA
1 ATAATTTTAAAATAATTTTA
22841642 ATAATTTT---AT-ATTTTAAAAA
1 ATAATTTTAAAATAATTTT----A
**
22841662 ATAATTTTAAAATTTTTTTA
1 ATAATTTTAAAATAATTTTA
**
22841682 AT--TTTTTTAATAATTTT-
1 ATAATTTTAAAATAATTTTA
22841699 AT-ATTTTAAAAAATAATTTTA
1 ATAATTTT--AAAATAATTTTA
*
22841720 ATAATTTTAAAATCATTT
1 ATAATTTTAAAATAATTT
22841738 GTTAACGTGG
Statistics
Matches: 75, Mismatches: 8, Indels: 26
0.69 0.07 0.24
Matches are distributed among these distances:
16 5 0.07
17 4 0.05
18 15 0.20
20 38 0.51
21 2 0.03
22 5 0.07
23 2 0.03
24 4 0.05
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAATTTTAAAATAATTTTA
Found at i:22841690 original size:40 final size:42
Alignment explanation
Indices: 22841622--22841729 Score: 106
Period size: 40 Copynumber: 2.7 Consensus size: 42
22841612 GATGATGATT
22841622 ATAATTTTAAAATAATTTTAATAATTTT-AT-ATTTTAAAAA
1 ATAATTTTAAAATAATTTTAATAATTTTAATAATTTTAAAAA
** **
22841662 ATAATTTTAAAATTTTTTTAATTTTTTTAATAATTTT-----
1 ATAATTTTAAAATAATTTTAATAATTTTAATAATTTTAAAAA
22841699 AT-ATTTTAAAAAATAATTTTAATAATTTTAA
1 ATAATTTT--AAAATAATTTTAATAATTTTAA
22841730 AATCATTTGT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
36 5 0.09
37 2 0.04
38 18 0.32
40 24 0.43
41 2 0.04
42 5 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (42 bp):
ATAATTTTAAAATAATTTTAATAATTTTAATAATTTTAAAAA
Found at i:22845496 original size:117 final size:117
Alignment explanation
Indices: 22845275--22845505 Score: 311
Period size: 117 Copynumber: 2.0 Consensus size: 117
22845265 ACAGATATCG
* * * *
22845275 TATCGATGGTTGAGGTACCGCATATGTTACGAGTCCTTGATAGCTCGTGTAAGCAACATCGTTAG
1 TATCGATGGCTGAGGTACCGCATATGTTACGAGTCCTCGACAGCTCGTGTAAGCAACATCGTTAA
* **
22845340 GGAATAGTTATATGCACAGATACCTTATCAATGGCTGAGGTACCACATACCT
66 GGAACAGTTATATGCACAGATACAATATCAATGGCTGAGGTACCACATACCT
* * * *
22845392 TATCGATGGCTGAGGTACTGCATATGTTGCGAGTCCTCGACAGCTTGTGTGAA-CAGCATCGTTA
1 TATCGATGGCTGAGGTACCGCATATGTTACGAGTCCTCGACAGCTCGTGT-AAGCAACATCGTTA
* * **
22845456 AGGAACAGTTATATGCATAGATACAATATCGATGTTTGAGGTACCACATA
65 AGGAACAGTTATATGCACAGATACAATATCAATGGCTGAGGTACCACATA
22845506 TATTACGAGT
Statistics
Matches: 98, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
117 96 0.98
118 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (117 bp):
TATCGATGGCTGAGGTACCGCATATGTTACGAGTCCTCGACAGCTCGTGTAAGCAACATCGTTAA
GGAACAGTTATATGCACAGATACAATATCAATGGCTGAGGTACCACATACCT
Found at i:22846470 original size:20 final size:21
Alignment explanation
Indices: 22846416--22846470 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
22846406 AATTGTATTG
*
22846416 TTATTTAATTTTATAATTAAT
1 TTATTTAATTATATAATTAAT
*
22846437 TT-TGTGT-ATGATAT-ATTAAT
1 TTAT-T-TAATTATATAATTAAT
22846457 TTATTTAATTATAT
1 TTATTTAATTATAT
22846471 TAAAATGAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 9
0.69 0.08 0.23
Matches are distributed among these distances:
19 1 0.04
20 16 0.59
21 9 0.33
22 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
TTATTTAATTATATAATTAAT
Found at i:22860254 original size:17 final size:19
Alignment explanation
Indices: 22860232--22860266 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
22860222 CTTTTATTAT
22860232 TTAATA-ATGAA-TAAAAA
1 TTAATAGATGAATTAAAAA
22860249 TTAATAGATGAATTAAAA
1 TTAATAGATGAATTAAAA
22860267 CTCATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (19 bp):
TTAATAGATGAATTAAAAA
Found at i:22861069 original size:25 final size:26
Alignment explanation
Indices: 22861036--22861084 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
22861026 TGTTGAGGGC
*
22861036 CAAATTTAATTAAAAGAAATAAATTT
1 CAAATTTAATAAAAAGAAATAAATTT
* *
22861062 CAAA-TTAATAAAAATATATAAAT
1 CAAATTTAATAAAAAGAAATAAAT
22861085 ATTAAGCGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (26 bp):
CAAATTTAATAAAAAGAAATAAATTT
Found at i:22868987 original size:18 final size:16
Alignment explanation
Indices: 22868962--22869011 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 16
22868952 TAGTTTTTTT
22868962 ATTAAATTATTTATGTA
1 ATTAAATTATTTAT-TA
22868979 ATATAAATTAATCTTA-TA
1 AT-TAAATT-AT-TTATTA
22868997 ATTAAATTATTTATT
1 ATTAAATTATTTATT
22869012 TGGATTAGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
15 3 0.10
16 3 0.10
17 8 0.28
18 10 0.34
19 2 0.07
20 3 0.10
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (16 bp):
ATTAAATTATTTATTA
Found at i:22871921 original size:52 final size:52
Alignment explanation
Indices: 22871831--22872017 Score: 239
Period size: 52 Copynumber: 3.6 Consensus size: 52
22871821 TAAATGAAAA
* * * * *
22871831 AGGTCCGATGACTCTGTGTCATCATGAGTATGTAAATCCTTTACGGTTTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
22871883 AGGTTCGATGACTATATGTCATCGTGAGTATATGAATCCTTTACAGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * * ** *
22871935 AGGTCTGATGACTATGTGTCATCGTGAGTGTATGATTCCTTTAAGGAACAAG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
22871987 AGGTCCGATGACTATGTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
22872018 TAAAGGAAAT
Statistics
Matches: 115, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 115 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.35
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:22882583 original size:21 final size:21
Alignment explanation
Indices: 22882550--22882589 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22882540 GAATCATCCC
*
22882550 TAAGACACATTAAACATGCAT
1 TAAGACACATTAAAAATGCAT
22882571 TAAGACA-ATTTAAAAATGC
1 TAAGACACA-TTAAAAATGC
22882590 TAATAAGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (21 bp):
TAAGACACATTAAAAATGCAT
Found at i:22882892 original size:51 final size:50
Alignment explanation
Indices: 22882828--22882946 Score: 157
Period size: 51 Copynumber: 2.4 Consensus size: 50
22882818 GATGAACAAA
* * * *
22882828 AGAGTTACTTAATGCATGACTTTATTTAAGATGCAAACTTTAACTATCATG
1 AGAGTTACATAATGCATGACATAATTTAAGATGCAAAC-TTAACTAACATG
* * * *
22882879 GGAGTTACATAATGCTTGTCATAATTTATGATGCAAACTTAACTAACATG
1 AGAGTTACATAATGCATGACATAATTTAAGATGCAAACTTAACTAACATG
22882929 AGAGTTACATAATGCATG
1 AGAGTTACATAATGCATG
22882947 TCATTATTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
50 27 0.47
51 31 0.53
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (50 bp):
AGAGTTACATAATGCATGACATAATTTAAGATGCAAACTTAACTAACATG
Found at i:22882942 original size:50 final size:51
Alignment explanation
Indices: 22882828--22882950 Score: 167
Period size: 50 Copynumber: 2.4 Consensus size: 51
22882818 GATGAACAAA
* * * * *
22882828 AGAGTTACTTAATGCATGACTTTATTTAAGATGCAAACTTTAACTATCATG
1 AGAGTTACATAATGCATGTCATAATTTAAGATGCAAACTTTAACTAACATG
* * *
22882879 GGAGTTACATAATGCTTGTCATAATTTATGATGCAAAC-TTAACTAACATG
1 AGAGTTACATAATGCATGTCATAATTTAAGATGCAAACTTTAACTAACATG
22882929 AGAGTTACATAATGCATGTCAT
1 AGAGTTACATAATGCATGTCAT
22882951 TATTAAATGT
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 31 0.50
51 31 0.50
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (51 bp):
AGAGTTACATAATGCATGTCATAATTTAAGATGCAAACTTTAACTAACATG
Found at i:22900895 original size:28 final size:27
Alignment explanation
Indices: 22900778--22900918 Score: 123
Period size: 26 Copynumber: 5.3 Consensus size: 27
22900768 AGAAATTTTG
22900778 TATTT-TGGCTCGAAAGAGCGATA-T-
1 TATTTCTGGCTCGAAAGAGCGATATTC
* **
22900802 TATGTTCTGGCTCGAAACAATGATATTC
1 TAT-TTCTGGCTCGAAAGAGCGATATTC
* *
22900830 TGTTT-TGGCTCGAAAGAGCAATATTC
1 TATTTCTGGCTCGAAAGAGCGATATTC
* *
22900856 T-GTTCTGGCTCGAAATGAGCGTTATTC
1 TATTTCTGGCTCGAAA-GAGCGATATTC
* **
22900883 TATTTCTGGCTCGAGAGGAGCCTTATTC
1 TATTTCTGGCTCGA-AAGAGCGATATTC
22900911 TA-TTCTGG
1 TATTTCTGG
22900919 GTTCTATGAG
Statistics
Matches: 95, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
24 3 0.03
25 4 0.04
26 43 0.45
27 19 0.20
28 25 0.26
29 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (27 bp):
TATTTCTGGCTCGAAAGAGCGATATTC
Found at i:22902111 original size:19 final size:19
Alignment explanation
Indices: 22902087--22902264 Score: 239
Period size: 19 Copynumber: 9.4 Consensus size: 19
22902077 GGGATGTTGG
* *
22902087 GAGCAATATTGGCTCGTGA
1 GAGCAATACTGGCTCGTAA
*
22902106 GAGCAATACTGGCTCGCAA
1 GAGCAATACTGGCTCGTAA
* * *
22902125 TAGCAATACTGGCTTGTGA
1 GAGCAATACTGGCTCGTAA
* *
22902144 GAGCAATATTGGCTCGCAA
1 GAGCAATACTGGCTCGTAA
* *
22902163 GAGCAATATTGGCTTGTAA
1 GAGCAATACTGGCTCGTAA
* *
22902182 GAGCAATATTGGCTCGCAA
1 GAGCAATACTGGCTCGTAA
*
22902201 GAGCAATACTGGCTCGTGA
1 GAGCAATACTGGCTCGTAA
22902220 GAGCAATACTGGCTCGTAA
1 GAGCAATACTGGCTCGTAA
22902239 GAGCAATACTGGCTCGTAA
1 GAGCAATACTGGCTCGTAA
22902258 GAGCAAT
1 GAGCAAT
22902265 TTATTGTACT
Statistics
Matches: 139, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 139 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (19 bp):
GAGCAATACTGGCTCGTAA
Found at i:22902144 original size:38 final size:38
Alignment explanation
Indices: 22902087--22902264 Score: 266
Period size: 38 Copynumber: 4.7 Consensus size: 38
22902077 GGGATGTTGG
*
22902087 GAGCAATATTGGCTCGTGAGAGCAATACTGGCTCGCAA
1 GAGCAATACTGGCTCGTGAGAGCAATACTGGCTCGCAA
* * *
22902125 TAGCAATACTGGCTTGTGAGAGCAATATTGGCTCGCAA
1 GAGCAATACTGGCTCGTGAGAGCAATACTGGCTCGCAA
* * * *
22902163 GAGCAATATTGGCTTGTAAGAGCAATATTGGCTCGCAA
1 GAGCAATACTGGCTCGTGAGAGCAATACTGGCTCGCAA
*
22902201 GAGCAATACTGGCTCGTGAGAGCAATACTGGCTCGTAA
1 GAGCAATACTGGCTCGTGAGAGCAATACTGGCTCGCAA
*
22902239 GAGCAATACTGGCTCGTAAGAGCAAT
1 GAGCAATACTGGCTCGTGAGAGCAAT
22902265 TTATTGTACT
Statistics
Matches: 127, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 127 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (38 bp):
GAGCAATACTGGCTCGTGAGAGCAATACTGGCTCGCAA
Found at i:22908765 original size:19 final size:19
Alignment explanation
Indices: 22908738--22908915 Score: 205
Period size: 19 Copynumber: 9.4 Consensus size: 19
22908728 AAAAGGAATC
*
22908738 AGCAATACTGGCTCGTGAG
1 AGCAATACTGGCTCGTAAG
* *
22908757 AGTAATACTGGCTCGCAAG
1 AGCAATACTGGCTCGTAAG
22908776 AGCAATACTGGCTCGTAAG
1 AGCAATACTGGCTCGTAAG
* *
22908795 AGCAATATTGGCTCGCAAG
1 AGCAATACTGGCTCGTAAG
*
22908814 AGTAATACTGGCTCGTAAG
1 AGCAATACTGGCTCGTAAG
** **
22908833 AGCAATACTAACTCAAAAG
1 AGCAATACTGGCTCGTAAG
* * *
22908852 TGCAGTACTGGCTCGTGAG
1 AGCAATACTGGCTCGTAAG
*
22908871 AGCAATATTGGCTC-TCAAG
1 AGCAATACTGGCTCGT-AAG
*
22908890 AGCAATAATGGCTCGTAAG
1 AGCAATACTGGCTCGTAAG
22908909 AGCAATA
1 AGCAATA
22908916 TACTATTTTG
Statistics
Matches: 130, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
18 1 0.01
19 128 0.98
20 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (19 bp):
AGCAATACTGGCTCGTAAG
Found at i:22908826 original size:57 final size:57
Alignment explanation
Indices: 22908738--22908915 Score: 230
Period size: 57 Copynumber: 3.1 Consensus size: 57
22908728 AAAAGGAATC
22908738 AGCAATACTGGCTCGTGAGAGTAATACTGGCTCGCAAGAGCAATACTGGCTCGTAAG
1 AGCAATACTGGCTCGTGAGAGTAATACTGGCTCGCAAGAGCAATACTGGCTCGTAAG
* ** * ** **
22908795 AGCAATATTGGCTCGCAAGAGTAATACTGGCTCGTAAGAGCAATACTAACTCAAAAG
1 AGCAATACTGGCTCGTGAGAGTAATACTGGCTCGCAAGAGCAATACTGGCTCGTAAG
* * * * * *
22908852 TGCAGTACTGGCTCGTGAGAGCAATATTGGCTCTCAAGAGCAATAATGGCTCGTAAG
1 AGCAATACTGGCTCGTGAGAGTAATACTGGCTCGCAAGAGCAATACTGGCTCGTAAG
22908909 AGCAATA
1 AGCAATA
22908916 TACTATTTTG
Statistics
Matches: 97, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
57 97 1.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (57 bp):
AGCAATACTGGCTCGTGAGAGTAATACTGGCTCGCAAGAGCAATACTGGCTCGTAAG
Found at i:22908916 original size:38 final size:38
Alignment explanation
Indices: 22908738--22908916 Score: 232
Period size: 38 Copynumber: 4.7 Consensus size: 38
22908728 AAAAGGAATC
* * *
22908738 AGCAATACTGGCTCGTGAGAGTAATACTGGCTCGCAAG
1 AGCAATACTGGCTCGTAAGAGCAATATTGGCTCGCAAG
22908776 AGCAATACTGGCTCGTAAGAGCAATATTGGCTCGCAAG
1 AGCAATACTGGCTCGTAAGAGCAATATTGGCTCGCAAG
* * ** **
22908814 AGTAATACTGGCTCGTAAGAGCAATACTAACTCAAAAG
1 AGCAATACTGGCTCGTAAGAGCAATATTGGCTCGCAAG
* * * *
22908852 TGCAGTACTGGCTCGTGAGAGCAATATTGGCTCTCAAG
1 AGCAATACTGGCTCGTAAGAGCAATATTGGCTCGCAAG
*
22908890 AGCAATAATGGCTCGTAAGAGCAATAT
1 AGCAATACTGGCTCGTAAGAGCAATAT
22908917 ACTATTTTGA
Statistics
Matches: 119, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 119 1.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (38 bp):
AGCAATACTGGCTCGTAAGAGCAATATTGGCTCGCAAG
Found at i:22910249 original size:38 final size:38
Alignment explanation
Indices: 22910165--22910249 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 38
22910155 ATGAGACTAT
* * *
22910165 TCAGAATTGCGCCCAGAATTGTCACTACATGAAAATGT
1 TCAGAATTGCGCCCAAAATTATCACTACATGAAAATGC
*
22910203 TCAAAATTGCGCCCAAAATTATCACTACAT-AAACATGC
1 TCAGAATTGCGCCCAAAATTATCACTACATGAAA-ATGC
22910241 -CTAGAATTG
1 TC-AGAATTG
22910250 TCGCTGCAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
37 4 0.10
38 36 0.90
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (38 bp):
TCAGAATTGCGCCCAAAATTATCACTACATGAAAATGC
Found at i:22923871 original size:19 final size:19
Alignment explanation
Indices: 22923840--22923887 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
22923830 TTTTATTGAT
*
22923840 TATATTTTA-ATATTTAAA
1 TATAATTTATATATTTAAA
*
22923858 TATAATTTATATATTTGAA
1 TATAATTTATATATTTAAA
22923877 TA-AATTT-TATA
1 TATAATTTATATA
22923888 AATAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 4 0.15
18 13 0.48
19 10 0.37
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TATAATTTATATATTTAAA
Found at i:22923887 original size:17 final size:17
Alignment explanation
Indices: 22923825--22923887 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 17
22923815 ATTATATATT
*
22923825 TAAATTTT-TA-TTGAT
1 TAAATTTTATATTTGAA
* *
22923840 TATATTTTAATATTTAAA
1 TAAATTTT-ATATTTGAA
22923858 TATAATTTATATATTTGAA
1 TA-AATTT-TATATTTGAA
22923877 TAAATTTTATA
1 TAAATTTTATA
22923888 AATAATTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
15 7 0.18
17 6 0.16
18 10 0.26
19 14 0.37
20 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TAAATTTTATATTTGAA
Found at i:22927331 original size:20 final size:21
Alignment explanation
Indices: 22927297--22927335 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22927287 TACAGAACTT
22927297 CTCAATTTCAGTTCTAAATAA
1 CTCAATTTCAGTTCTAAATAA
*
22927318 CTCATTTTCA-TTCTAAAT
1 CTCAATTTCAGTTCTAAAT
22927336 GTTTGCTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.44
Consensus pattern (21 bp):
CTCAATTTCAGTTCTAAATAA
Found at i:22930483 original size:17 final size:18
Alignment explanation
Indices: 22930463--22930496 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22930453 ATTTTTTTCC
*
22930463 TAAATTTTA-TTTTTATA
1 TAAATTATACTTTTTATA
22930480 TAAATTATACTTTTTAT
1 TAAATTATACTTTTTAT
22930497 TATTTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TAAATTATACTTTTTATA
Found at i:22941072 original size:43 final size:43
Alignment explanation
Indices: 22941009--22941314 Score: 341
Period size: 43 Copynumber: 7.1 Consensus size: 43
22940999 GAAAAAACAT
* * *
22941009 CGCTATAGAAAATGGTCTTTAGCGACGCTTATCTCACAAACGC
1 CGCTAAAGAACATGGTCTTTAGCGGCGCTTATCTCACAAACGC
* * * *
22941052 CACTAAAGAACATGATCTTTAGCGACGCTT-TC-CTACAAAAGC
1 CGCTAAAGAACATGGTCTTTAGCGGCGCTTATCTC-ACAAACGC
* * *
22941094 CGCTAAAGAACATAGTCTTTAGCGGAGCTTTTCTCACAAACGC
1 CGCTAAAGAACATGGTCTTTAGCGGCGCTTATCTCACAAACGC
* *
22941137 CGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGC
1 CGCTAAAGAACATGGTCTTTAGCGGCGCTTATCTCACAAACGC
* *
22941180 CGCTAAAGAACATGGTCTTTAGCGGCGC-TATTTCAACAAACAC
1 CGCTAAAGAACATGGTCTTTAGCGGCGCTTATCTC-ACAAACGC
* * * * *
22941223 CACTAAAGACCATGGTCTTTACCGGCGCTTATTTCACAAACAC
1 CGCTAAAGAACATGGTCTTTAGCGGCGCTTATCTCACAAACGC
* * * *
22941266 CGCTAAAGAACATGCTCTTTAGTGGTGCTTTTC-CTACAAACGC
1 CGCTAAAGAACATGGTCTTTAGCGGCGCTTATCTC-ACAAACGC
*
22941309 CACTAA
1 CGCTAA
22941315 TATTAACAAA
Statistics
Matches: 226, Mismatches: 31, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.00
42 38 0.17
43 180 0.80
44 7 0.03
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
CGCTAAAGAACATGGTCTTTAGCGGCGCTTATCTCACAAACGC
Found at i:22941287 original size:129 final size:128
Alignment explanation
Indices: 22941003--22941314 Score: 394
Period size: 129 Copynumber: 2.4 Consensus size: 128
22940993 TTATGAGAAA
* * * * * *
22941003 AAACATCGCTATAGAAAATGGTCTTTAGCGACGCTTATCTCACAAACGCCACTAAAGAACATGAT
1 AAACACCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGAACATGAT
* * *
22941068 CTTTAGCGACGCTTTCCTACAAAAGCCGCTAAAGAACATAGTCTTTAGCGGAGCTTTTCTCAC
66 CTTTAGCGACGCTTTCCAACAAAAGCCACTAAAGAACATAGTCTTTACCGGAGCTTTTCTCAC
* * *
22941131 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGGT
1 AAACACCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGAACATGAT
* * * * *
22941196 CTTTAGCGGCGCTATTTCAACAAACA-CCACTAAAGACCATGGTCTTTACCGGCGCTTATT-TCA
66 CTTTAGCGACGCT-TTCCAACAAA-AGCCACTAAAGAACATAGTCTTTACCGGAGCTT-TTCTCA
22941259 C
128 C
* * * *
22941260 AAACACCGCTAAAGAACATGCTCTTTAGTGGTGCTTTTCCTACAAACGCCACTAA
1 AAACACCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCACTAA
22941315 TATTAACAAA
Statistics
Matches: 158, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
128 68 0.43
129 87 0.55
130 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (128 bp):
AAACACCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGAACATGAT
CTTTAGCGACGCTTTCCAACAAAAGCCACTAAAGAACATAGTCTTTACCGGAGCTTTTCTCAC
Found at i:22946814 original size:41 final size:41
Alignment explanation
Indices: 22946752--22946958 Score: 236
Period size: 41 Copynumber: 5.0 Consensus size: 41
22946742 TTTAAATAAA
* * *
22946752 TTAGCGGCGTTTTTCCCATAAGCGCCGCTATTGCTTTGACCT
1 TTAGCGGCG-CTTGCCCATAAGCGCCGCTATTGCTCTGACCT
* * *
22946794 TTAGCGGCGCTTTCCTATAAGCGTCGCTATTGCTCTGACCT
1 TTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCT
* * *
22946835 TTAACGGTGCTTGCCCATAAGCGCCGCTATTGCTATGACCT
1 TTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCT
* * * * *
22946876 TTAGCGGCGCTTGGCCATAGGAGTCGCTATTACTCTGACCT
1 TTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCT
* * * *
22946917 TTAGCGGCGCCTGCCTATAAGCGCCACTATTACTCT-ACCT
1 TTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCT
22946957 TT
1 TT
22946959 TACGGCGTTT
Statistics
Matches: 140, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
40 6 0.04
41 125 0.89
42 9 0.06
ACGTcount: A:0.17, C:0.29, G:0.22, T:0.32
Consensus pattern (41 bp):
TTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCT
Found at i:22948601 original size:18 final size:17
Alignment explanation
Indices: 22948575--22948618 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
22948565 ATGCATTTTA
* *
22948575 TTTAGTTGTCATTACATT
1 TTTATTTGTCACTACA-T
*
22948593 TTTATTTGTCACTGCAT
1 TTTATTTGTCACTACAT
22948610 TTTATTTGT
1 TTTATTTGT
22948619 TAGTTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.18, C:0.11, G:0.11, T:0.59
Consensus pattern (17 bp):
TTTATTTGTCACTACAT
Found at i:22949248 original size:15 final size:13
Alignment explanation
Indices: 22949199--22949241 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
22949189 AGTCACTTTA
22949199 AAAAAAAGAAAAG
1 AAAAAAAGAAAAG
*
22949212 AAAAAGGAAGAAGAG
1 AAAAA--AAGAAAAG
22949227 AAAAAAAGAAAAG
1 AAAAAAAGAAAAG
22949240 AA
1 AA
22949242 GGAAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 14 0.54
15 12 0.46
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Found at i:22953033 original size:24 final size:24
Alignment explanation
Indices: 22953005--22953052 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
22952995 CTATTAAGTT
*
22953005 ATTTAAAAAGGTGGAGCCATGCGC
1 ATTTAAAAAGGTGGAACCATGCGC
22953029 ATTTAAAAAGGTGGAACCATGCGC
1 ATTTAAAAAGGTGGAACCATGCGC
22953053 TGATTCACGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (24 bp):
ATTTAAAAAGGTGGAACCATGCGC
Found at i:22956823 original size:18 final size:21
Alignment explanation
Indices: 22956785--22956824 Score: 59
Period size: 18 Copynumber: 2.0 Consensus size: 21
22956775 TGGTGGGAAT
22956785 ATGTATCTCTACATGTTGTAC
1 ATGTATCTCTACATGTTGTAC
22956806 ATGTAT-TCTA-AT-TTGTAC
1 ATGTATCTCTACATGTTGTAC
22956824 A
1 A
22956825 CTTCGGCGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 2 0.11
20 4 0.21
21 6 0.32
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (21 bp):
ATGTATCTCTACATGTTGTAC
Found at i:22958707 original size:57 final size:57
Alignment explanation
Indices: 22958619--22958733 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
22958609 CCTTGCGGTA
22958619 CGAAGGCGTGTAGTTGAATTGGTTACGAATATTGATAATTAAAACCAACATAATAGT
1 CGAAGGCGTGTAGTTGAATTGGTTACGAATATTGATAATTAAAACCAACATAATAGT
*
22958676 CGAAGGCGTGTAGTTGAATTGGTTACGAATATTGGTAATTAAAACCAACATAATAGT
1 CGAAGGCGTGTAGTTGAATTGGTTACGAATATTGATAATTAAAACCAACATAATAGT
22958733 C
1 C
22958734 CTTGGATTCG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (57 bp):
CGAAGGCGTGTAGTTGAATTGGTTACGAATATTGATAATTAAAACCAACATAATAGT
Found at i:22960647 original size:29 final size:30
Alignment explanation
Indices: 22960610--22960674 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
22960600 CATCATTACT
* *
22960610 GAACTCATCTCTTCAAAATTA-AATTTTCA
1 GAACCCATCTCGTCAAAATTATAATTTTCA
**
22960639 GAACCCATCTCGTCAAAATTATTTTTTTCA
1 GAACCCATCTCGTCAAAATTATAATTTTCA
22960669 GAACCC
1 GAACCC
22960675 TTGAACCCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.35
Consensus pattern (30 bp):
GAACCCATCTCGTCAAAATTATAATTTTCA
Found at i:22969840 original size:23 final size:22
Alignment explanation
Indices: 22969789--22969840 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
22969779 TAGGGGTCAA
*
22969789 AATT-AAATTATAATTTTTACG
1 AATTAAAAATATAATTTTTACG
* *
22969810 ATAGTAAAAATATAATTTTTAATG
1 A-ATTAAAAATATAATTTTT-ACG
22969834 AATTAAA
1 AATTAAA
22969841 TCAAAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 2 0.08
23 18 0.75
24 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (22 bp):
AATTAAAAATATAATTTTTACG
Found at i:22970588 original size:20 final size:22
Alignment explanation
Indices: 22970565--22970604 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22970555 AAAAATTTAA
22970565 TTTTT-AA-TTTTATATATTTT
1 TTTTTGAATTTTTATATATTTT
22970585 TTTTTGAATTTTTATATATT
1 TTTTTGAATTTTTATATATT
22970605 AAATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (22 bp):
TTTTTGAATTTTTATATATTTT
Found at i:22970611 original size:22 final size:22
Alignment explanation
Indices: 22970563--22970619 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
22970553 TCAAAAATTT
* *
22970563 AATTTTTAA-TTTTATATATTT
1 AATTTTAAATTTTTATATATTA
** *
22970584 TTTTTTGAATTTTTATATATTA
1 AATTTTAAATTTTTATATATTA
22970606 AATTTTAAATTTTT
1 AATTTTAAATTTTT
22970620 TTAAGGTTAT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
AATTTTAAATTTTTATATATTA
Found at i:22977161 original size:13 final size:12
Alignment explanation
Indices: 22977124--22977162 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
22977114 GCCAATTGAG
22977124 TTAGTTTTA-TT
1 TTAGTTTTATTT
22977135 TTAGTTTTTATTT
1 TTAG-TTTTATTT
22977148 TTAGTTTTAGTTT
1 TTAGTTTTA-TTT
22977161 TT
1 TT
22977163 CATGTATACC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.16
12 10 0.40
13 11 0.44
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.74
Consensus pattern (12 bp):
TTAGTTTTATTT
Found at i:22979010 original size:121 final size:121
Alignment explanation
Indices: 22978796--22979037 Score: 448
Period size: 121 Copynumber: 2.0 Consensus size: 121
22978786 TAATGCACTG
22978796 GTGATTAATGTTCATTTCAAGTTTGTATGGAAGTACACTTGATTTTTAGACTAAATGATATCTTA
1 GTGATTAATGTTCATTTCAAGTTTGTATGGAAGTACACTTGATTTTTAGACTAAATGATATCTTA
22978861 TTCAAGCTTGCTTTTACAGTTAAATCTTTAGGTTTGATTGTTTTAACCAAGGAAGT
66 TTCAAGCTTGCTTTTACAGTTAAATCTTTAGGTTTGATTGTTTTAACCAAGGAAGT
* *
22978917 GTGATTAATGTTCATTTCAAGTTTGTGTGGAAGTACTCTTGATTTTTAGACTAAATGATATCTTA
1 GTGATTAATGTTCATTTCAAGTTTGTATGGAAGTACACTTGATTTTTAGACTAAATGATATCTTA
* *
22978982 TTCAAGCTTGCTTTTACTGTTAAATCTTTAGGTTTGATTGTTTTGACCAAGGAAGT
66 TTCAAGCTTGCTTTTACAGTTAAATCTTTAGGTTTGATTGTTTTAACCAAGGAAGT
22979038 ATGACAAATT
Statistics
Matches: 117, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 117 1.00
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (121 bp):
GTGATTAATGTTCATTTCAAGTTTGTATGGAAGTACACTTGATTTTTAGACTAAATGATATCTTA
TTCAAGCTTGCTTTTACAGTTAAATCTTTAGGTTTGATTGTTTTAACCAAGGAAGT
Found at i:22979385 original size:101 final size:100
Alignment explanation
Indices: 22979202--22979746 Score: 779
Period size: 101 Copynumber: 5.4 Consensus size: 100
22979192 GTAAGATATT
* * * * *
22979202 CATTCCATTACAACTTCAATGGAGATTGAGATATG-TAGCTTGTTAGTTGAATCCGATCCACTAC
1 CATTCCACTACAACTTCAGTGGAGATTGAGATCTGCTA-CTTGTTAATTGAATCTGATCCACTAC
*
22979266 ATCTTTAGGGATATAGGATTTAGATGTGGCTTCACTC
65 AT-TTTAGGGATATAGGATTTGGATGTGGCTTCACTC
* * * * *
22979303 AATTTCACTACAACTTCAGTGGATATTGAGATATGCTGCTTGTTAATTGAATCTGATCCACTACA
1 CATTCCACTACAACTTCAGTGGAGATTGAGATCTGCTACTTGTTAATTGAATCTGATCCACTACA
22979368 TTTTCAAGGG-TATAGGATTTGGATGTGGCTTCACTC
66 TTTT--AGGGATATAGGATTTGGATGTGGCTTCACTC
* * *
22979404 CATTCCACTACAACTTCAGTAGAGATTAAGATCTGCTACTTGTTAATTGAATTTGATCCACTACA
1 CATTCCACTACAACTTCAGTGGAGATTGAGATCTGCTACTTGTTAATTGAATCTGATCCACTACA
22979469 TCTTTAGGGATATAGGATTTGGATGTGGCTTCACTC
66 T-TTTAGGGATATAGGATTTGGATGTGGCTTCACTC
* * * *
22979505 CATTCCACTACAACTTCAGTGGAGATTGAGATTTGCTACTTGTTAATTGAATCTAATCTACTGCA
1 CATTCCACTACAACTTCAGTGGAGATTGAGATCTGCTACTTGTTAATTGAATCTGATCCACTACA
22979570 TTTTTAGGGATATAGGATTTGGATGTGGCTTCACTC
66 -TTTTAGGGATATAGGATTTGGATGTGGCTTCACTC
* * * *
22979606 CATTCCACTGCAACTTCAGTGGAGATTGAGATCTGCTACTTGTTAATTGAATCCGATGCACTGCA
1 CATTCCACTACAACTTCAGTGGAGATTGAGATCTGCTACTTGTTAATTGAATCTGATCCACTACA
* * *
22979671 TCTTCAGGGATACAGGATTTGGATGTGGCTCCACTC
66 T-TTTAGGGATATAGGATTTGGATGTGGCTTCACTC
*
22979707 TATTCCACTACAACTTCAGTGGAGATTGAGATCTGCTACT
1 CATTCCACTACAACTTCAGTGGAGATTGAGATCTGCTACT
22979747 ACTTTGCTCC
Statistics
Matches: 402, Mismatches: 35, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
100 8 0.02
101 385 0.96
102 9 0.02
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (100 bp):
CATTCCACTACAACTTCAGTGGAGATTGAGATCTGCTACTTGTTAATTGAATCTGATCCACTACA
TTTTAGGGATATAGGATTTGGATGTGGCTTCACTC
Found at i:22985989 original size:52 final size:51
Alignment explanation
Indices: 22985906--22986098 Score: 208
Period size: 52 Copynumber: 3.7 Consensus size: 51
22985896 ATAAACGAAG
* * **
22985906 AGGTTCGATGATTATGAATCATCGTGAGTATATGAATCCTTTACGGATTAA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAA
* * *
22985957 ATGGTCCGATGACTAAGTGTCATCGTGAGTATATGGATCCTTCACGGATTAA
1 A-GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAA
* * * * * * *
22986009 GAGGTCCGATGACTTTGTGTCATTGTGAGTATACGAATCCCTTGCGAATTTTA
1 -AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGA-TTAA
*
22986062 AGGTCCGGT-AGCTATGTGTCATCGTGAGTATATGAAT
1 AGGTCCGATGA-CTATGTGTCATCGTGAGTATATGAAT
22986099 GAAGTGAAAT
Statistics
Matches: 117, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
51 2 0.02
52 111 0.95
53 4 0.03
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (51 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAA
Found at i:22997840 original size:193 final size:193
Alignment explanation
Indices: 22997484--22997920 Score: 497
Period size: 193 Copynumber: 2.3 Consensus size: 193
22997474 AACCGATGCA
* * * * * * * *
22997484 ATGGCTGAGGTATCGCATATGTTTTAAGTCCTCGACAGCTCGTTTGACCAGCATCGTGAGTCGTG
1 ATGGCTGGGGTACCGCATATGTTTCAAGTCCTAGACAGCTCGTGTGAGCAACATCGTGAGTCGTA
* * * *
22997549 AAATGAGAAATGAATCCAAGATTTGGATTACATGCCCTACAATGGCTGGTATTTATGCATAAGTG
66 AAAAGAGAAATGAATCCAAGA-TTGGATTACAGGCCCTACAATGGCTGGGATTTATGCATAAATG
* * *
22997614 CATATTCTCGACAGCTCGTGTGAGCAACATCGTTAGGGAATAGTTATATGCATAAATACCATA-T
130 CATATTCTCGACAGCTCGTGTGAGCAACATCGTTAGGGAACAGTTACA-G-ATAAACACCATACT
22997678 CG
193 -G
* * *
22997680 ATGGCTGGGGTACCGCATATGTTACGAGTCCTAGACAGCTCATGTGAGCAACATCGTGAGTCG-A
1 ATGGCTGGGGTACCGCATATGTTTCAAGTCCTAGACAGCTCGTGTGAGCAACATCGTGAGTCGTA
* * * * * *
22997744 AAAAGAGATATGAATCCTAA-A-TGGGTTATAGGCCCTACGATGGTTGGGATTTATGCTTAAATG
66 AAAAGAGAAATGAATCC-AAGATTGGATTACAGGCCCTACAATGGCTGGGATTTATGCATAAATG
* * * * * * *
22997807 CATATTCTTGATAGTTCGTGTGAGCAGCATCGTTAGGGGACAGTTACAGATAGACACCGTACTG
130 CATATTCTCGACAGCTCGTGTGAGCAACATCGTTAGGGAACAGTTACAGATAAACACCATACTG
*
22997871 ATGGCTGGGGTACCGCATACGTTTCAAGTCCTCA-ACAGCTCGTGTGAGCA
1 ATGGCTGGGGTACCGCATATGTTTCAAGTCCT-AGACAGCTCGTGTGAGCA
22997921 GCATTGGTAC
Statistics
Matches: 203, Mismatches: 35, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
191 54 0.27
192 3 0.01
193 75 0.37
195 16 0.08
196 55 0.27
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (193 bp):
ATGGCTGGGGTACCGCATATGTTTCAAGTCCTAGACAGCTCGTGTGAGCAACATCGTGAGTCGTA
AAAAGAGAAATGAATCCAAGATTGGATTACAGGCCCTACAATGGCTGGGATTTATGCATAAATGC
ATATTCTCGACAGCTCGTGTGAGCAACATCGTTAGGGAACAGTTACAGATAAACACCATACTG
Found at i:23000832 original size:21 final size:21
Alignment explanation
Indices: 23000803--23000842 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
23000793 GTGGGTATTG
23000803 AGGAAGAGAAAGA-AGAAGAGA
1 AGGAAGAGAAA-ATAGAAGAGA
*
23000824 AGGAGGAGAAAATAGAAGA
1 AGGAAGAGAAAATAGAAGA
23000843 AGGAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.60, C:0.00, G:0.38, T:0.03
Consensus pattern (21 bp):
AGGAAGAGAAAATAGAAGAGA
Found at i:23012511 original size:16 final size:16
Alignment explanation
Indices: 23012492--23012533 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
23012482 AAAGAAAAAG
*
23012492 AAAGAAAAAATTATTA
1 AAAGAAAAAATTATAA
* *
23012508 AAAGAAAAATTTGTAA
1 AAAGAAAAAATTATAA
23012524 AAAGAAAAAA
1 AAAGAAAAAA
23012534 GATTTAGGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (16 bp):
AAAGAAAAAATTATAA
Found at i:23015605 original size:13 final size:13
Alignment explanation
Indices: 23015587--23015616 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
23015577 AATTATAATA
*
23015587 ATTTTTATATTTT
1 ATTTTTATAATTT
23015600 ATTTTTATAATTT
1 ATTTTTATAATTT
23015613 ATTT
1 ATTT
23015617 ACTTTGAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
ATTTTTATAATTT
Found at i:23016425 original size:20 final size:19
Alignment explanation
Indices: 23016398--23016449 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
23016388 TCATTTTCAA
*
23016398 AATAAATTTTATATATATATT
1 AATAATTTTTATA-AT-TATT
*
23016419 TATAATTTCTTATAATTATT
1 AATAATTT-TTATAATTATT
23016439 AATAATTTTTA
1 AATAATTTTTA
23016450 AATAATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 3 0.11
20 11 0.41
21 8 0.30
22 5 0.19
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
AATAATTTTTATAATTATT
Found at i:23017931 original size:19 final size:21
Alignment explanation
Indices: 23017899--23017942 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
23017889 AAATTATGGA
**
23017899 TTTTCATAATTTTTTTAATTT
1 TTTTCATAATTTTTAGAATTT
23017920 TTTTCAT-A-TTTTAGAATTT
1 TTTTCATAATTTTTAGAATTT
23017939 TTTT
1 TTTT
23017943 GGGAATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.62
20 1 0.05
21 7 0.33
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTCATAATTTTTAGAATTT
Found at i:23028952 original size:25 final size:25
Alignment explanation
Indices: 23028911--23028969 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
23028901 GGTCAACGAG
23028911 TTTGGGTCACAAATTGGAT-TAAGGT
1 TTTGGGTCACAAATTGGATCT-AGGT
* * *
23028936 TTTGGGTCA-AAGCTTGGGTCTTGGT
1 TTTGGGTCACAA-ATTGGATCTAGGT
23028961 TTTGGGTCA
1 TTTGGGTCA
23028970 TGGTTTGAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 2 0.07
25 26 0.90
26 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.32, T:0.39
Consensus pattern (25 bp):
TTTGGGTCACAAATTGGATCTAGGT
Found at i:23045513 original size:19 final size:19
Alignment explanation
Indices: 23045491--23045528 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
23045481 TAACAGCTAA
23045491 AAATAATTT-TTTTTCATTT
1 AAATAATTTATTTTT-ATTT
*
23045510 AAATTATTTATTTTTATTT
1 AAATAATTTATTTTTATTT
23045529 TTTAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
AAATAATTTATTTTTATTT
Found at i:23046381 original size:26 final size:24
Alignment explanation
Indices: 23046323--23046382 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
23046313 ATTCATCTTC
* *
23046323 TAATTTTTAATTTATTTCATTTAT
1 TAATTTTTAATTTATTTAAATTAT
*
23046347 TAACTTTTTAATTTAATTTAAATTGT
1 TAA-TTTTTAATTT-ATTTAAATTAT
23046373 TAATATTTTA
1 TAAT-TTTTA
23046383 TACTAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 3 0.10
25 11 0.37
26 16 0.53
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (24 bp):
TAATTTTTAATTTATTTAAATTAT
Found at i:23048746 original size:24 final size:27
Alignment explanation
Indices: 23048646--23048756 Score: 97
Period size: 28 Copynumber: 4.1 Consensus size: 27
23048636 TATTAGCGCA
* *
23048646 CTTATCG-TATTATTTTGCACTTCGATG
1 CTTATCGTTA-TATTTTGCACTTTGGTG
* ** *
23048673 CTTATCGTTGTAAAAATTGCACTTCGGTG
1 CTTATCG-T-TATATTTTGCACTTTGGTG
23048702 CTTATCGTTACTATTTTGCACTTTGGTG
1 CTTATCGTTA-TATTTTGCACTTTGGTG
23048730 CTTATC-TT-TA-TTTGCACTTT-GTG
1 CTTATCGTTATATTTTGCACTTTGGTG
23048753 CTTA
1 CTTA
23048757 GTGATATATG
Statistics
Matches: 72, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
23 7 0.10
24 10 0.14
25 2 0.03
27 11 0.15
28 20 0.28
29 20 0.28
30 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (27 bp):
CTTATCGTTATATTTTGCACTTTGGTG
Found at i:23053686 original size:64 final size:64
Alignment explanation
Indices: 23053610--23053733 Score: 230
Period size: 64 Copynumber: 1.9 Consensus size: 64
23053600 TTAAAATATA
23053610 TTTATTTAGGTGACTGTTCTACTTTGCCTATGATTATTTCAGCAGAACTGACGAAAGATCTATG
1 TTTATTTAGGTGACTGTTCTACTTTGCCTATGATTATTTCAGCAGAACTGACGAAAGATCTATG
* *
23053674 TTTATTTTGGTGACTGTTCTACTTTGCCTGTGATTATTTCAGCAGAACTGACGAAAGATC
1 TTTATTTAGGTGACTGTTCTACTTTGCCTATGATTATTTCAGCAGAACTGACGAAAGATC
23053734 AAGAGGAGCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (64 bp):
TTTATTTAGGTGACTGTTCTACTTTGCCTATGATTATTTCAGCAGAACTGACGAAAGATCTATG
Found at i:23073740 original size:52 final size:51
Alignment explanation
Indices: 23073657--23073849 Score: 208
Period size: 52 Copynumber: 3.7 Consensus size: 51
23073647 ATAAACGAAG
* * **
23073657 AGGTTCGATGATTATGAATCATCGTGAGTATATGAATCCTTTACGGATTAA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAA
* * * *
23073708 ATGGTCCGATGAATAAGTGTCATCGTGAGTATATGGATCCTTCACGGATTAA
1 A-GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAA
* * * * * *
23073760 GAGGTCCGATGACTTTGTGTCATCGTGAGTATACGAATCCCTTGCGAATTTTA
1 -AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGA-TTAA
*
23073813 AGGTCCGGT-AGCTATGTGTCATCGTGAGTATATGAAT
1 AGGTCCGATGA-CTATGTGTCATCGTGAGTATATGAAT
23073850 GAAGTGAAAT
Statistics
Matches: 118, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
51 2 0.02
52 112 0.95
53 4 0.03
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (51 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAA
Found at i:23082421 original size:62 final size:62
Alignment explanation
Indices: 23082296--23082411 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 62
23082286 TGAGTATACG
* * * ** *
23082296 AATCCCTTACGGATTATAAGGCCCGGTGGCTATGTGTCATTGTGAGTATATGAATGAAGTGA
1 AATCCATTACGGATTATAAGGCCCGATGACTATGTGTCATCATGAGTATATAAATGAAGTGA
* *
23082358 AATCCATTACGGATTA-AAGGTCCGATGACTTTGTGTCATCATGAGTAT-TAAATG
1 AATCCATTACGGATTATAAGGCCCGATGACTATGTGTCATCATGAGTATATAAATG
23082412 CAAATTGAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
60 5 0.11
61 26 0.57
62 15 0.33
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (62 bp):
AATCCATTACGGATTATAAGGCCCGATGACTATGTGTCATCATGAGTATATAAATGAAGTGA
Found at i:23084825 original size:26 final size:24
Alignment explanation
Indices: 23084787--23084834 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 24
23084777 ATAAAGTTTG
23084787 TGTTATTTCATATTATT-ATGAGAT
1 TGTTATTTCATATT-TTGATGAGAT
23084811 TGTTATTCTCTATATTTTGATGAG
1 TGTTATT-TC-ATATTTTGATGAG
23084835 CTAGTAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 7 0.33
25 4 0.19
26 10 0.48
ACGTcount: A:0.25, C:0.06, G:0.15, T:0.54
Consensus pattern (24 bp):
TGTTATTTCATATTTTGATGAGAT
Found at i:23096389 original size:62 final size:62
Alignment explanation
Indices: 23096264--23096379 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 62
23096254 TGAGTATACG
* * * ** *
23096264 AATCCCTTACGGATTATAAGGCCCGGTGGCTATGTGTCATTGTGAGTATATGAATGAAGTGA
1 AATCCATTACGGATTATAAGGCCCGATGACTATGTGTCATCATGAGTATATAAATGAAGTGA
* *
23096326 AATCCATTACGGATTA-AAGGTCCGATGACTTTGTGTCATCATGAGTAT-TAAATG
1 AATCCATTACGGATTATAAGGCCCGATGACTATGTGTCATCATGAGTATATAAATG
23096380 CAAATTGAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
60 5 0.11
61 26 0.57
62 15 0.33
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (62 bp):
AATCCATTACGGATTATAAGGCCCGATGACTATGTGTCATCATGAGTATATAAATGAAGTGA
Found at i:23098793 original size:26 final size:24
Alignment explanation
Indices: 23098755--23098802 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
23098745 ATAAAGTTTG
23098755 TGTTATTTCATATTATTATGAGAT
1 TGTTATTTCATATTATTATGAGAT
*
23098779 TGTTATTCTCTATATTTTTATGAG
1 TGTTATT-TC-ATATTATTATGAG
23098803 CTAGTAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 2 0.10
26 12 0.57
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.56
Consensus pattern (24 bp):
TGTTATTTCATATTATTATGAGAT
Found at i:23099938 original size:193 final size:193
Alignment explanation
Indices: 23099582--23100015 Score: 536
Period size: 193 Copynumber: 2.2 Consensus size: 193
23099572 AACTGACGCA
* * * * * *
23099582 ATGGCTGAGGTATCGCATATGTTATAAGTCCTCGACAGCTCGTGTGACCAGCATCGTGAGTCGTG
1 ATGGCTGGGGTACCGCATATGTTACAAGTCCTAGACAGCTCGTGTGACCAGCATCATGAGTCGTA
* * * *
23099647 AAATGAGAAATGAATCCAAGATTTGGATTACATGCCCTACGATGGCTGGTATTTATGCATAAGTG
66 AAAAGAGAAATGAATCCAAGA-TTGGATTACAGGCCCTACGATGGCTGGGATTTATGCATAAATG
* * *
23099712 CATATTCTCGACAGCTCGTGTGAGCAACATCGTTAGGGAATAGTTATATGCATAAATACCATA-T
130 CATATTCTCGACAGCTCGTGTGAGCAACATCGTTAGGGAACAGTTACA-G-ATAAACACCATACT
23099776 CG
193 -G
* *
23099778 ATGGCTGGGGTACCGCATATGTTACGAGTCCTAGACAGCTCATGTGACCAGCATCATGAGTCG-A
1 ATGGCTGGGGTACCGCATATGTTACAAGTCCTAGACAGCTCGTGTGACCAGCATCATGAGTCGTA
* * * * *
23099842 AAAAGAGATATGAATCCTAA-A-TGGGTTATAGGCCCTACGATGGTTGGGATTTATGCTTAAATG
66 AAAAGAGAAATGAATCC-AAGATTGGATTACAGGCCCTACGATGGCTGGGATTTATGCATAAATG
* * * * * *
23099905 CATATTCTTGACAGTTCGTGTGAGCATCATCGTTAGGGGACAGTTACAGATAGACACCGTACTG
130 CATATTCTCGACAGCTCGTGTGAGCAACATCGTTAGGGAACAGTTACAGATAAACACCATACTG
*
23099969 ATGGCTGGGGTACCGCATATGTTTCAAGTCCTCA-ACAGCTCGTGTGA
1 ATGGCTGGGGTACCGCATATGTTACAAGTCCT-AGACAGCTCGTGTGA
23100016 GTAGCATTGG
Statistics
Matches: 206, Mismatches: 29, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
191 52 0.25
192 3 0.01
193 77 0.37
195 16 0.08
196 58 0.28
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (193 bp):
ATGGCTGGGGTACCGCATATGTTACAAGTCCTAGACAGCTCGTGTGACCAGCATCATGAGTCGTA
AAAAGAGAAATGAATCCAAGATTGGATTACAGGCCCTACGATGGCTGGGATTTATGCATAAATGC
ATATTCTCGACAGCTCGTGTGAGCAACATCGTTAGGGAACAGTTACAGATAAACACCATACTG
Found at i:23102930 original size:21 final size:21
Alignment explanation
Indices: 23102901--23102940 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
23102891 GTGGGTATTG
23102901 AGGAAGAGAAAGA-AGAAGAGA
1 AGGAAGAGAAA-ATAGAAGAGA
*
23102922 AGGAGGAGAAAATAGAAGA
1 AGGAAGAGAAAATAGAAGA
23102941 AGGAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.60, C:0.00, G:0.38, T:0.03
Consensus pattern (21 bp):
AGGAAGAGAAAATAGAAGAGA
Found at i:23103352 original size:401 final size:401
Alignment explanation
Indices: 23102603--23103403 Score: 1503
Period size: 401 Copynumber: 2.0 Consensus size: 401
23102593 CACATTACAC
*
23102603 AACATTAGCAAGCATCCTCTGCTAGAATTCCCAATGTTTCCTCCTATCATCAGGGAAGCAACATC
1 AACATTAGCAAGCATCCTCTGCTAGAATTCCCAATGTTTCCTCCTATCATCAAGGAAGCAACATC
* *
23102668 ATCAACTGAAAGAACTGCTTCGGAATGGAAGGACTAATCTGCTGCTTCTCCGTAAATGGTTCATA
66 ATCAACTGAAAGAACTGCTTCGGAAGGGAAGGACTAATCTGCTGCTTCTCCGCAAATGGTTCATA
23102733 TATCTGATGATGAAAACTAGGACATGAATTCAAAGGATGTTGAAGATTGCTTTCGTAACATTGCC
131 TATCTGATGATGAAAACTAGGACATGAATTCAAAGGATGTTGAAGATTGCTTTCGTAACATTGCC
23102798 AACCTTTTTGAAAATGAATTTTCCAACAGTCTAGGAGAAAATATGCCTAAAAAGGAAGCCAATGC
196 AACCTTTTTGAAAATGAATTTTCCAACAGTCTAGGAGAAAATATGCCTAAAAAGGAAGCCAATGC
23102863 TGATGAGGAACACACGACCATGGAATCTGTGGGTATTGAGGAAGAGAAAGAAGAAGAGAAGGAGG
261 TGATGAGGAACACACGACCATGGAATCTGTGGGTATTGAGGAAGAGAAAGAAGAAGAGAAGGAGG
23102928 AGAAAATAGAAGAAGGAAAAGAATGAGAGAAGGAAGAAATTTTTTTCGCGATAGATTTGCCCGAA
326 AGAAAATAGAAGAAGGAAAAGAATGAGAGAAGGAAGAAATTTTTTTCGCGATAGATTTGCCCGAA
23102993 GAATTTGTCGT
391 GAATTTGTCGT
*
23103004 AACATTAGCAAGCATCCTCTGCTAGAATTCCCAATGTTTCCTCCTATCATCAAGGAGGCAACATC
1 AACATTAGCAAGCATCCTCTGCTAGAATTCCCAATGTTTCCTCCTATCATCAAGGAAGCAACATC
*
23103069 ATCAACTTAAAGAACTGCTTCGGAAGGGAAGGACTAATCTGCTGCTTCTCCGCAAATGGTTCATA
66 ATCAACTGAAAGAACTGCTTCGGAAGGGAAGGACTAATCTGCTGCTTCTCCGCAAATGGTTCATA
*
23103134 TATCTGATGATGAAAACTAGGACATGAATTCAAAGGATGTTGAAGTTTGCTTTCGTAACATTGCC
131 TATCTGATGATGAAAACTAGGACATGAATTCAAAGGATGTTGAAGATTGCTTTCGTAACATTGCC
*
23103199 AACCTTTTTGAAAATGAATTTTCCAACAGTCTAGGAGCAAATATGCCTAAAAAGGAAGCCAATGC
196 AACCTTTTTGAAAATGAATTTTCCAACAGTCTAGGAGAAAATATGCCTAAAAAGGAAGCCAATGC
* *
23103264 TGATGAGGAACACATGACTATGGAATCTGTGGGTATTGAGGAAGAGAAAGAAGAAGAGAAGGAGG
261 TGATGAGGAACACACGACCATGGAATCTGTGGGTATTGAGGAAGAGAAAGAAGAAGAGAAGGAGG
* *
23103329 AGAAAATAGAATAAGGGAAAGAATGAGAGAAGGAAGAAATTTTTTTCGCGATAGATTTGCCCGAA
326 AGAAAATAGAAGAAGGAAAAGAATGAGAGAAGGAAGAAATTTTTTTCGCGATAGATTTGCCCGAA
23103394 GAATTTGTCG
391 GAATTTGTCG
23103404 CTGCATCCAA
Statistics
Matches: 389, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
401 389 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (401 bp):
AACATTAGCAAGCATCCTCTGCTAGAATTCCCAATGTTTCCTCCTATCATCAAGGAAGCAACATC
ATCAACTGAAAGAACTGCTTCGGAAGGGAAGGACTAATCTGCTGCTTCTCCGCAAATGGTTCATA
TATCTGATGATGAAAACTAGGACATGAATTCAAAGGATGTTGAAGATTGCTTTCGTAACATTGCC
AACCTTTTTGAAAATGAATTTTCCAACAGTCTAGGAGAAAATATGCCTAAAAAGGAAGCCAATGC
TGATGAGGAACACACGACCATGGAATCTGTGGGTATTGAGGAAGAGAAAGAAGAAGAGAAGGAGG
AGAAAATAGAAGAAGGAAAAGAATGAGAGAAGGAAGAAATTTTTTTCGCGATAGATTTGCCCGAA
GAATTTGTCGT
Found at i:23118091 original size:14 final size:14
Alignment explanation
Indices: 23118072--23118101 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23118062 ATTATAATAA
*
23118072 TTTTTATATTTTAT
1 TTTTTATAATTTAT
23118086 TTTTTATAATTTAT
1 TTTTTATAATTTAT
23118100 TT
1 TT
23118102 ACTTTGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTATAATTTAT
Found at i:23120654 original size:20 final size:19
Alignment explanation
Indices: 23120626--23120687 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 19
23120616 GTGGGTATTG
23120626 AGGAAGAGAAAGA-AGAAAGA
1 AGGAAGAGAAA-ATAG-AAGA
*
23120646 AGGAGGAGAAAATAGAAGA
1 AGGAAGAGAAAATAGAAGA
*
23120665 AGGAA-A-AGAAT-GAAGA
1 AGGAAGAGAAAATAGAAGA
23120681 AGGAAGA
1 AGGAAGA
23120688 AATTTTTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.27
17 5 0.14
18 1 0.03
19 9 0.24
20 12 0.32
ACGTcount: A:0.61, C:0.00, G:0.35, T:0.03
Consensus pattern (19 bp):
AGGAAGAGAAAATAGAAGA
Found at i:23120655 original size:16 final size:16
Alignment explanation
Indices: 23120636--23120684 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
23120626 AGGAAGAGAA
*
23120636 AGAAGAAAGAAGGAGG
1 AGAAGAAAGAAGAAGG
23120652 AGAA-AATAGAAGAAGG
1 AGAAGAA-AGAAGAAGG
* *
23120668 AAAAGAATGAAGAAGG
1 AGAAGAAAGAAGAAGG
23120684 A
1 A
23120685 AGAAATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 2 0.07
16 24 0.86
17 2 0.07
ACGTcount: A:0.61, C:0.00, G:0.35, T:0.04
Consensus pattern (16 bp):
AGAAGAAAGAAGAAGG
Found at i:23135806 original size:14 final size:14
Alignment explanation
Indices: 23135787--23135816 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23135777 ATTATAATAA
*
23135787 TTTTTATATTTTAT
1 TTTTTATAATTTAT
23135801 TTTTTATAATTTAT
1 TTTTTATAATTTAT
23135815 TT
1 TT
23135817 ACTTTGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTATAATTTAT
Found at i:23137127 original size:17 final size:17
Alignment explanation
Indices: 23137095--23137139 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
23137085 TAAAAAAAAC
* * *
23137095 TTATTTTTTCATAATTT
1 TTATTTTTTAAAAATTA
23137112 TTATTTTTTAAAAATTA
1 TTATTTTTTAAAAATTA
*
23137129 TAATTTTTTAA
1 TTATTTTTTAA
23137140 TTTTTATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTTTTTAAAAATTA
Found at i:23138144 original size:19 final size:20
Alignment explanation
Indices: 23138114--23138156 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
23138104 AAATTATGGA
**
23138114 TTTTCATAATTTTTTAATTT
1 TTTTCATAATTTTAGAATTT
23138134 TTTTCAT-ATTTTAGAATTT
1 TTTTCATAATTTTAGAATTT
23138153 TTTT
1 TTTT
23138157 GGGAATTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTCATAATTTTAGAATTT
Found at i:23146039 original size:23 final size:25
Alignment explanation
Indices: 23146013--23146058 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23146003 CCAATTATGA
23146013 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
23146036 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
23146059 TGGATCTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:23147169 original size:12 final size:13
Alignment explanation
Indices: 23147152--23147181 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
23147142 ATATTTTTTG
23147152 TTTTTA-ATTTAA
1 TTTTTACATTTAA
23147164 TTTTTACATTTAA
1 TTTTTACATTTAA
23147177 TTTTT
1 TTTTT
23147182 TTATTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTTACATTTAA
Found at i:23149351 original size:6 final size:6
Alignment explanation
Indices: 23149340--23149447 Score: 62
Period size: 6 Copynumber: 18.3 Consensus size: 6
23149330 AATTAGTACA
* * * *
23149340 TTTATT TTTATT TTTA-T TTTATT TTTATT TTCATT TTCAGT TTCATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * * * * * * *
23149387 TTCATT TTCAGT TTCATT TTCA-T TTTAGTT TTTA-A TTTAAT TTAATT
1 TTTATT TTTATT TTTATT TTTATT TTTA-TT TTTATT TTTATT TTTATT
23149434 TTT-TAT TTTATT TT
1 TTTAT-T TTTATT TT
23149448 ATTATGCATT
Statistics
Matches: 85, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
5 14 0.16
6 65 0.76
7 6 0.07
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.71
Consensus pattern (6 bp):
TTTATT
Found at i:23149357 original size:12 final size:12
Alignment explanation
Indices: 23149340--23149412 Score: 85
Period size: 12 Copynumber: 6.2 Consensus size: 12
23149330 AATTAGTACA
*
23149340 TTTATTTTTATT
1 TTTATTTTCATT
23149352 TTTATTTT-ATT
1 TTTATTTTCATT
23149363 TTTATTTTCATT
1 TTTATTTTCATT
* *
23149375 TTCAGTTTCATT
1 TTTATTTTCATT
* *
23149387 TTCATTTTCAGT
1 TTTATTTTCATT
*
23149399 TTCATTTTCATT
1 TTTATTTTCATT
23149411 TT
1 TT
23149413 AGTTTTTAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
11 11 0.20
12 44 0.80
ACGTcount: A:0.16, C:0.10, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTATTTTCATT
Found at i:23149389 original size:18 final size:18
Alignment explanation
Indices: 23149366--23149417 Score: 97
Period size: 18 Copynumber: 2.9 Consensus size: 18
23149356 TTTTATTTTT
23149366 ATTTTCATTTTCAGTTTC
1 ATTTTCATTTTCAGTTTC
23149384 ATTTTCATTTTCAGTTTC
1 ATTTTCATTTTCAGTTTC
23149402 ATTTTCATTTT-AGTTT
1 ATTTTCATTTTCAGTTT
23149418 TTAATTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 5 0.15
18 29 0.85
ACGTcount: A:0.17, C:0.13, G:0.06, T:0.63
Consensus pattern (18 bp):
ATTTTCATTTTCAGTTTC
Found at i:23149418 original size:12 final size:11
Alignment explanation
Indices: 23149340--23149450 Score: 73
Period size: 12 Copynumber: 9.5 Consensus size: 11
23149330 AATTAGTACA
*
23149340 TTTATTTTTATT
1 TTTATTTTCA-T
23149352 TTTATTTT-ATT
1 TTTATTTTCA-T
23149363 TTTATTTTCAT
1 TTTATTTTCAT
*
23149374 TTTCAGTTTCAT
1 TTT-ATTTTCAT
23149386 TTTCATTTTCAGT
1 TTT-ATTTTCA-T
*
23149399 TTCATTTTCAT
1 TTTATTTTCAT
* *
23149410 TTTAGTTTTTAA
1 TTTA-TTTTCAT
* *
23149422 TTTAATTTAATTT
1 TTTATTTTCA--T
23149435 TTTATTTT-AT
1 TTTATTTTCAT
23149445 TTTATT
1 TTTATT
23149451 ATGCATTTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
10 7 0.08
11 23 0.28
12 43 0.52
13 10 0.12
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.71
Consensus pattern (11 bp):
TTTATTTTCAT
Found at i:23150170 original size:180 final size:180
Alignment explanation
Indices: 23149855--23150221 Score: 596
Period size: 180 Copynumber: 2.0 Consensus size: 180
23149845 GTATTGGGTT
* * *
23149855 TAATCTTTGAGATATGAGAGAGTCAAGCATGATAAGTTGTCTTTAGAATTAAATATTTTAGATTG
1 TAATTTTTAAGATATGAGAGAGTCAAGCATGATAAGTTGTCTTCAGAATTAAATATTTTAGATTG
* *
23149920 TCTCCTTGAATTGAAATATTATCTTCAAATTTTGATAATGCAGAATTGACATCAAAACCATAATT
66 TCTCCCTGAATTGAAATATTATCTTCAAATTTTGATAATGCAGAATTGACATCAAAACCATAAAT
* *
23149985 TTTGTGAGCTTTTGAGCCTATAGAGCATATATTTTATTTCGTGTTCATAC
131 TTTGTGAGCTTTTGAGCCTATAGAGCATATATTTTATTTCATGCTCATAC
*
23150035 TAATTTTTAAGATATGAGAGAGTCAAGTATGATAAGTTGTCTTCAGAATTAAATATTTTAGATTG
1 TAATTTTTAAGATATGAGAGAGTCAAGCATGATAAGTTGTCTTCAGAATTAAATATTTTAGATTG
* *
23150100 TCTCCCTGAATTGAAATATTATCTTCAAATTTTGA-AATTGCA-AGTTTGACATTAAAACCATAA
66 TCTCCCTGAATTGAAATATTATCTTCAAATTTTGATAA-TGCAGA-ATTGACATCAAAACCATAA
*
23150163 ATTTTGTGAGCTTTTGAGCCTATAGAGCATATATTTTATTTCATGCTCATGC
129 ATTTTGTGAGCTTTTGAGCCTATAGAGCATATATTTTATTTCATGCTCATAC
23150215 T-ATTTTT
1 TAATTTTT
23150222 GGTTGTGTGT
Statistics
Matches: 174, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
179 9 0.05
180 165 0.95
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (180 bp):
TAATTTTTAAGATATGAGAGAGTCAAGCATGATAAGTTGTCTTCAGAATTAAATATTTTAGATTG
TCTCCCTGAATTGAAATATTATCTTCAAATTTTGATAATGCAGAATTGACATCAAAACCATAAAT
TTTGTGAGCTTTTGAGCCTATAGAGCATATATTTTATTTCATGCTCATAC
Found at i:23150591 original size:26 final size:27
Alignment explanation
Indices: 23150553--23150606 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
23150543 TATTTAGAAA
23150553 AAAATTGAAAAAAAGAA-AAAAAAAAG
1 AAAATTGAAAAAAAGAAGAAAAAAAAG
** *
23150579 AAAATTGGGAAAAAGAAGAAGAAAAAG
1 AAAATTGAAAAAAAGAAGAAAAAAAAG
23150606 A
1 A
23150607 TAAAAATGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (27 bp):
AAAATTGAAAAAAAGAAGAAAAAAAAG
Found at i:23151547 original size:3 final size:3
Alignment explanation
Indices: 23151539--23151567 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
23151529 AATAGTTAGG
23151539 ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
23151568 TATATTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Done.