Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 76 of 193
Found at i:24540576 original size:7 final size:7
Alignment explanation
Indices: 24540443--24540578 Score: 87
Period size: 7 Copynumber: 19.3 Consensus size: 7
24540433 TTTGTATTTT
*
24540443 GGTTTAA
1 GGTTTAG
*
24540450 GGTTTAA
1 GGTTTAG
24540457 GGTTTAAG
1 GGTTT-AG
*
24540465 GTGTATAG
1 G-GTTTAG
*
24540473 GGTTTAA
1 GGTTTAG
*
24540480 GGTTTTG
1 GGTTTAG
*
24540487 GGTTGAG
1 GGTTTAG
*
24540494 AGTTT-G
1 GGTTTAG
* *
24540500 GGGTTAA
1 GGTTTAG
*
24540507 AGTTTAG
1 GGTTTAG
24540514 GGTTTTA-
1 GG-TTTAG
*
24540521 GGTTTAA
1 GGTTTAG
*
24540528 GGTTGAG
1 GGTTTAG
* *
24540535 GATTTTG
1 GGTTTAG
*
24540542 GGTTTAA
1 GGTTTAG
24540549 GGTTTAG
1 GGTTTAG
*
24540556 AGTTTAG
1 GGTTTAG
24540563 GGTTTAG
1 GGTTTAG
24540570 GGTTTAG
1 GGTTTAG
24540577 GG
1 GG
24540579 AATCAAAAAC
Statistics
Matches: 96, Mismatches: 28, Indels: 10
0.72 0.21 0.07
Matches are distributed among these distances:
6 8 0.08
7 76 0.79
8 9 0.09
9 3 0.03
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:24540995 original size:6 final size:6
Alignment explanation
Indices: 24540985--24541042 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
24540975 TATCCAATGC
* * * *
24540985 CTCTTC CTCTT- CTTCTTG CTCGTG CTCTTG CTCTTG CTCTAG CTCTGG
1 CTCTTG CTCTTG C-TCTTG CTCTTG CTCTTG CTCTTG CTCTTG CTCTTG
*
24541033 CTCTAG CTCT
1 CTCTTG CTCT
24541043 AGCTTTGGGG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
5 1 0.02
6 43 0.96
7 1 0.02
ACGTcount: A:0.03, C:0.36, G:0.16, T:0.45
Consensus pattern (6 bp):
CTCTTG
Found at i:24541019 original size:18 final size:18
Alignment explanation
Indices: 24540998--24541046 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
24540988 TTCCTCTTCT
*
24540998 TCTTGCTCGT-GCTCTTGC
1 TCTTGCTC-TAGCTCTGGC
24541016 TCTTGCTCTAGCTCTGGC
1 TCTTGCTCTAGCTCTGGC
*
24541034 TCTAGCTCTAGCT
1 TCTTGCTCTAGCT
24541047 TTGGGGCAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 1 0.04
18 27 0.96
ACGTcount: A:0.06, C:0.33, G:0.20, T:0.41
Consensus pattern (18 bp):
TCTTGCTCTAGCTCTGGC
Found at i:24541043 original size:6 final size:6
Alignment explanation
Indices: 24541008--24541046 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
24540998 TCTTGCTCGT
* * *
24541008 GCTCTT GCTCTT GCTCTA GCTCTG GCTCTA GCTCTA GCT
1 GCTCTA GCTCTA GCTCTA GCTCTA GCTCTA GCTCTA GCT
24541047 TTGGGGCAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.08, C:0.33, G:0.21, T:0.38
Consensus pattern (6 bp):
GCTCTA
Found at i:24542952 original size:37 final size:36
Alignment explanation
Indices: 24542891--24542973 Score: 132
Period size: 37 Copynumber: 2.3 Consensus size: 36
24542881 ATTAATTTAT
*
24542891 ATTACTTACT-TACTTACTACTACTAACAAAACAAA
1 ATTACTTACTATACTAACTACTACTAACAAAACAAA
*
24542926 ATTACTTACTACTACTAACTACTACTAACAAAATAAA
1 ATTACTTACTA-TACTAACTACTACTAACAAAACAAA
24542963 ATTACTTACTA
1 ATTACTTACTA
24542974 ACAAATTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
35 10 0.23
37 34 0.77
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.33
Consensus pattern (36 bp):
ATTACTTACTATACTAACTACTACTAACAAAACAAA
Found at i:24543089 original size:12 final size:12
Alignment explanation
Indices: 24543049--24543092 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
24543039 TTTACTCAAC
*
24543049 TAAATAAAAAAT
1 TAAATTAAAAAT
24543061 TAAA-TAACAAAT
1 TAAATTAA-AAAT
24543073 T-AATTAAAAAT
1 TAAATTAAAAAT
24543084 TAAATTAAA
1 TAAATTAAA
24543093 CAAAACAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 9 0.32
12 19 0.68
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (12 bp):
TAAATTAAAAAT
Found at i:24545977 original size:13 final size:14
Alignment explanation
Indices: 24545959--24545988 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24545949 ATCAACGCAA
24545959 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
24545972 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
24545986 TCA
1 TCA
24545989 ATGTACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:24548290 original size:17 final size:17
Alignment explanation
Indices: 24548251--24548308 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
24548241 ATATATATGG
**
24548251 AAATGCAACGACAATGT
1 AAATGCAACGACAATAA
*
24548268 AGATGCAACGACAATAA
1 AAATGCAACGACAATAA
* *
24548285 AAATGCAATGACATTAA
1 AAATGCAACGACAATAA
*
24548302 TAATGCA
1 AAATGCA
24548309 GGGAGAATTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.19
Consensus pattern (17 bp):
AAATGCAACGACAATAA
Found at i:24560164 original size:14 final size:14
Alignment explanation
Indices: 24560128--24560164 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
24560118 AAACAAATAA
24560128 ATTT-TTTTATTTT
1 ATTTATTTTATTTT
24560141 ATGTTA-TTTATTTT
1 AT-TTATTTTATTTT
24560155 ATTTATTTTA
1 ATTTATTTTA
24560165 AATTTTGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (14 bp):
ATTTATTTTATTTT
Found at i:24566445 original size:83 final size:83
Alignment explanation
Indices: 24566349--24566506 Score: 307
Period size: 83 Copynumber: 1.9 Consensus size: 83
24566339 ATGTTGTTGG
*
24566349 GAAAGAAGTCCTAGAATCTTGTTTGGGTGTTTTGAATGAGGGTGAAATCTTGAGCCTATGAATGC
1 GAAAGAAGTCCTAGAATCTTATTTGGGTGTTTTGAATGAGGGTGAAATCTTGAGCCTATGAATGC
24566414 TACTAATATTGTTTGGGT
66 TACTAATATTGTTTGGGT
24566432 GAAAGAAGTCCTAGAATCTTATTTGGGTGTTTTGAATGAGGGTGAAATCTTGAGCCTATGAATGC
1 GAAAGAAGTCCTAGAATCTTATTTGGGTGTTTTGAATGAGGGTGAAATCTTGAGCCTATGAATGC
24566497 TACTAATATT
66 TACTAATATT
24566507 ATCCTTCTTC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 74 1.00
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.35
Consensus pattern (83 bp):
GAAAGAAGTCCTAGAATCTTATTTGGGTGTTTTGAATGAGGGTGAAATCTTGAGCCTATGAATGC
TACTAATATTGTTTGGGT
Found at i:24572275 original size:87 final size:87
Alignment explanation
Indices: 24572129--24572304 Score: 325
Period size: 87 Copynumber: 2.0 Consensus size: 87
24572119 TATCTACTTA
* * *
24572129 TCTACAAGTTTATCAATCTCTCTAATCAAAAAGTTCATGCGACCTTTATTGTCTCTATACCTCTT
1 TCTACAAGTTTATAAATCTCTCTAATAAAAAAGTTCATGCAACCTTTATTGTCTCTATACCTCTT
24572194 TCGTTGCCAATGCCCAAGCGCC
66 TCGTTGCCAATGCCCAAGCGCC
24572216 TCTACAAGTTTATAAATCTCTCTAATAAAAAAGTTCATGCAACCTTTATTGTCTCTATACCTCTT
1 TCTACAAGTTTATAAATCTCTCTAATAAAAAAGTTCATGCAACCTTTATTGTCTCTATACCTCTT
24572281 TCGTTGCCAATGCCCAAGCGCC
66 TCGTTGCCAATGCCCAAGCGCC
24572303 TC
1 TC
24572305 ACGGGTAGCC
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.35
Consensus pattern (87 bp):
TCTACAAGTTTATAAATCTCTCTAATAAAAAAGTTCATGCAACCTTTATTGTCTCTATACCTCTT
TCGTTGCCAATGCCCAAGCGCC
Found at i:24575338 original size:26 final size:26
Alignment explanation
Indices: 24575290--24575347 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
24575280 ATATTTAAAT
*
24575290 TTTTAAAATATTTTATATATAATTAA
1 TTTTAAAATAATTTATATATAATTAA
24575316 TTTTACAAATAATTTATAT-TAATT-A
1 TTTTA-AAATAATTTATATATAATTAA
24575341 -TTTAAAA
1 TTTTAAAA
24575348 GATATTTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 3 0.10
24 4 0.13
25 1 0.03
26 10 0.33
27 12 0.40
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TTTTAAAATAATTTATATATAATTAA
Found at i:24581859 original size:14 final size:15
Alignment explanation
Indices: 24581830--24581868 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
24581820 TTTCCTCAAG
24581830 CAAACTAAACAAAAA
1 CAAACTAAACAAAAA
*
24581845 CAAAATAAA-AAAAA
1 CAAACTAAACAAAAA
24581859 CAAACTAAAC
1 CAAACTAAAC
24581869 TGAAAAGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.74, C:0.18, G:0.00, T:0.08
Consensus pattern (15 bp):
CAAACTAAACAAAAA
Found at i:24586259 original size:22 final size:23
Alignment explanation
Indices: 24586214--24586259 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
24586204 TTTAATAATA
24586214 TGTTTTGATATAACAAATTAAAG
1 TGTTTTGATATAACAAATTAAAG
*
24586237 TGTTATTGA-ATAA-AAGTTAAAG
1 TGTT-TTGATATAACAAATTAAAG
24586259 T
1 T
24586260 TGAACAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 8 0.38
24 4 0.19
ACGTcount: A:0.43, C:0.02, G:0.15, T:0.39
Consensus pattern (23 bp):
TGTTTTGATATAACAAATTAAAG
Found at i:24588817 original size:56 final size:56
Alignment explanation
Indices: 24588700--24588813 Score: 146
Period size: 56 Copynumber: 2.1 Consensus size: 56
24588690 TTTTGTGGAA
* * * *
24588700 TTATTTCTTTACAATTTGGTTTTTATTTTATTTCTAACTTTACTAATTTATTCTTT
1 TTATTTCTTTACAATTGGGTTTTCAATTTATTTCTAACTTTACTAATTTATTCTAT
* *
24588756 TTATTTCTTTACAATTGGGTTTTCAATTTATTT-T-A-TTTATTAATCTATT-TAT
1 TTATTTCTTTACAATTGGGTTTTCAATTTATTTCTAACTTTACTAATTTATTCTAT
24588808 TTATTT
1 TTATTT
24588814 ATTTTATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
52 8 0.15
53 12 0.23
54 1 0.02
55 1 0.02
56 30 0.58
ACGTcount: A:0.23, C:0.09, G:0.04, T:0.64
Consensus pattern (56 bp):
TTATTTCTTTACAATTGGGTTTTCAATTTATTTCTAACTTTACTAATTTATTCTAT
Found at i:24604464 original size:20 final size:18
Alignment explanation
Indices: 24604439--24604477 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
24604429 TTTAGTTTAG
24604439 TCAAAAAAAATAGAGAAAAA
1 TCAAAAAAAA-A-AGAAAAA
*
24604459 TCAAAAAGAAAAGAAAAA
1 TCAAAAAAAAAAGAAAAA
24604477 T
1 T
24604478 GAGTAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 1 0.06
20 9 0.50
ACGTcount: A:0.74, C:0.05, G:0.10, T:0.10
Consensus pattern (18 bp):
TCAAAAAAAAAAGAAAAA
Found at i:24617140 original size:16 final size:16
Alignment explanation
Indices: 24617116--24617147 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24617106 TCCTTACAAA
*
24617116 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
24617132 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
24617148 AAAAATTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:24623028 original size:27 final size:28
Alignment explanation
Indices: 24622986--24623061 Score: 113
Period size: 27 Copynumber: 2.8 Consensus size: 28
24622976 TTCATTCTAT
*
24622986 TCTC-TGATATGAAAAGCCCATGACGAA
1 TCTCTTGATATGGAAAGCCCATGACGAA
24623013 TCT-TTGATATGGAAAGCCCATGACGAA
1 TCTCTTGATATGGAAAGCCCATGACGAA
*
24623040 TCTCTT-ATATTGAAAGCCCATG
1 TCTCTTGATATGGAAAGCCCATG
24623062 GCCATGGCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 43 0.96
28 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (28 bp):
TCTCTTGATATGGAAAGCCCATGACGAA
Found at i:24625800 original size:2 final size:2
Alignment explanation
Indices: 24625793--24625835 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
24625783 AAATTACATA
24625793 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24625835 A
1 A
24625836 AATAACATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24631871 original size:9 final size:9
Alignment explanation
Indices: 24631859--24631917 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
24631849 GTGAAATAAG
*
24631859 TTTTATATT
1 TTTTATATA
24631868 TTTTATA-A
1 TTTTATATA
24631876 TATTTATATAA
1 T-TTTATAT-A
*
24631887 TTTTAAATA
1 TTTTATATA
*
24631896 TTTTAAATA
1 TTTTATATA
*
24631905 TTATATAT-
1 TTTTATATA
24631913 TTTTA
1 TTTTA
24631918 ATTTCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
8 5 0.12
9 29 0.69
10 6 0.14
11 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTATATA
Found at i:24631916 original size:26 final size:28
Alignment explanation
Indices: 24631854--24631918 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 28
24631844 TAGAAGTGAA
* *
24631854 ATAAGTTTTATATTTTTTATAATATTTAT
1 ATAA-TTTTAAATATTTTATAATATTTAT
24631883 ATAATTTTAAATATTTTA-AATA-TTAT
1 ATAATTTTAAATATTTTATAATATTTAT
*
24631909 ATATTTTTAA
1 ATAATTTTAA
24631919 TTTCAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.39
27 4 0.12
28 12 0.36
29 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (28 bp):
ATAATTTTAAATATTTTATAATATTTAT
Found at i:24649819 original size:18 final size:18
Alignment explanation
Indices: 24649796--24649834 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
24649786 ATTAAACATA
24649796 AACCCTTTAGACATTATC
1 AACCCTTTAGACATTATC
*
24649814 AACCCTTTAGACTTTATC
1 AACCCTTTAGACATTATC
24649832 AAC
1 AAC
24649835 TTACTTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.33
Consensus pattern (18 bp):
AACCCTTTAGACATTATC
Found at i:24651004 original size:30 final size:31
Alignment explanation
Indices: 24650966--24651032 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
24650956 ATTAATAATT
*
24650966 TGTA-AAAATAAAATAAAATTAAAATTT-TA
1 TGTATAAAATAAAACAAAATTAAAATTTATA
* * *
24650995 TGTATAAAATTACACAGAATTAAAATTTATA
1 TGTATAAAATAAAACAAAATTAAAATTTATA
*
24651026 TATATAA
1 TGTATAA
24651033 TTAAAAATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 4 0.13
30 19 0.61
31 8 0.26
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (31 bp):
TGTATAAAATAAAACAAAATTAAAATTTATA
Found at i:24658006 original size:7 final size:7
Alignment explanation
Indices: 24657994--24658023 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
24657984 AAATATCGCC
24657994 ACAACTG
1 ACAACTG
24658001 ACAACTG
1 ACAACTG
24658008 ACAACTG
1 ACAACTG
24658015 ACAACTG
1 ACAACTG
24658022 AC
1 AC
24658024 TGATGAACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.30, G:0.13, T:0.13
Consensus pattern (7 bp):
ACAACTG
Found at i:24675359 original size:43 final size:43
Alignment explanation
Indices: 24675293--24675375 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
24675283 ATGGGCTGGC
* * * * *
24675293 CACACTGGCTTGTGTCAAACCGTGTGTGTATACTGTTTTGGGG
1 CACACGGGCGTGTGCCAAACCGTGTGTGCATACTATTTTGGGG
*
24675336 CACACGGGCGTGTGCCAGACCGTGTGTGCATACTATTTTG
1 CACACGGGCGTGTGCCAAACCGTGTGTGCATACTATTTTG
24675376 TGAATTAAGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.17, C:0.22, G:0.30, T:0.31
Consensus pattern (43 bp):
CACACGGGCGTGTGCCAAACCGTGTGTGCATACTATTTTGGGG
Found at i:24677232 original size:30 final size:31
Alignment explanation
Indices: 24677198--24677267 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
24677188 AAAGTTAAAG
*
24677198 TACCAACTTAAG-AAAAGTGTCAAGTTT-AGA
1 TACCAAATTAAGAAAAAGTGTCAAGTTTGA-A
*
24677228 TACCAAATTAGGAAAAAGTGTCAAGTTTGAA
1 TACCAAATTAAGAAAAAGTGTCAAGTTTGAA
24677259 TACCAAATT
1 TACCAAATT
24677268 GGATAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 10 0.28
31 25 0.69
32 1 0.03
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (31 bp):
TACCAAATTAAGAAAAAGTGTCAAGTTTGAA
Found at i:24677248 original size:31 final size:31
Alignment explanation
Indices: 24677210--24677275 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 31
24677200 CCAACTTAAG
24677210 AAAAGTGTCAAGTTT-AGATACCAAATTAGGA-
1 AAAAGTGTCAAGTTTGA-ATACCAAATT-GGAT
24677241 AAAAGTGTCAAGTTTGAATACCAAATTGGAT
1 AAAAGTGTCAAGTTTGAATACCAAATTGGAT
24677272 AAAA
1 AAAA
24677276 AAATTATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
30 3 0.09
31 29 0.88
32 1 0.03
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.26
Consensus pattern (31 bp):
AAAAGTGTCAAGTTTGAATACCAAATTGGAT
Found at i:24684974 original size:18 final size:19
Alignment explanation
Indices: 24684938--24684980 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
24684928 TGGCCATTAT
*
24684938 TTTAAATTAGTTTTCAAAC
1 TTTAAATTAGTTCTCAAAC
24684957 TTTAAATTA-TTCTCAAAC
1 TTTAAATTAGTTCTCAAAC
24684975 TATTAA
1 T-TTAA
24684981 TGTTATATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.47
Consensus pattern (19 bp):
TTTAAATTAGTTCTCAAAC
Found at i:24686915 original size:8 final size:8
Alignment explanation
Indices: 24686902--24686926 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24686892 ATATTAAAGG
24686902 TTATATGA
1 TTATATGA
24686910 TTATATGA
1 TTATATGA
24686918 TTATATGA
1 TTATATGA
24686926 T
1 T
24686927 CGGATCCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (8 bp):
TTATATGA
Found at i:24688217 original size:23 final size:23
Alignment explanation
Indices: 24688190--24688234 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
24688180 AAGTCAACTG
24688190 TCGATCAAAGTCAACGGTTTGGT
1 TCGATCAAAGTCAACGGTTTGGT
24688213 TCGATCAAAGTCAACGGTTTGG
1 TCGATCAAAGTCAACGGTTTGG
24688235 GTTGGGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (23 bp):
TCGATCAAAGTCAACGGTTTGGT
Found at i:24695427 original size:23 final size:23
Alignment explanation
Indices: 24695363--24695427 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
24695353 TCAATGATCA
* *
24695363 ATCAAAGTCAACGGTTCAATTAG
1 ATCAAAGTCAACGATTCAGTTAG
*
24695386 ATCAAAGTCAACGATTCAGTTTG
1 ATCAAAGTCAACGATTCAGTTAG
24695409 ATCAAAGTCAACGATTCAG
1 ATCAAAGTCAACGATTCAG
24695428 GTTGGGTCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.26
Consensus pattern (23 bp):
ATCAAAGTCAACGATTCAGTTAG
Found at i:24700946 original size:16 final size:17
Alignment explanation
Indices: 24700920--24700964 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
24700910 TTGCTTCTAA
24700920 AAAATATATTTTGAAAT
1 AAAATATATTTTGAAAT
*
24700937 AAAA-ATATTTTTAAAT
1 AAAATATATTTTGAAAT
*
24700953 AAACTAT-TTTTG
1 AAAATATATTTTG
24700965 GGATAAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (17 bp):
AAAATATATTTTGAAAT
Found at i:24700963 original size:15 final size:16
Alignment explanation
Indices: 24700919--24700955 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
24700909 ATTGCTTCTA
24700919 AAAAATATATTTTGAAAT
1 AAAAATAT-TTTT-AAAT
24700937 AAAAATATTTTTAAAT
1 AAAAATATTTTTAAAT
24700953 AAA
1 AAA
24700956 CTATTTTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 4 0.21
18 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
AAAAATATTTTTAAAT
Found at i:24705431 original size:358 final size:360
Alignment explanation
Indices: 24704876--24705589 Score: 1353
Period size: 358 Copynumber: 2.0 Consensus size: 360
24704866 TTAAAATATT
24704876 AAATAAAAGTATAATATTAATTTAAAATTAATAAAATTTTATAGTATTTTTTTTTAAAATGAGCT
1 AAATAAAAGTATAATATTAATTTAAAATTAATAAAATTTTATAGTATTTTTTTTTAAAATGAGCT
24704941 TTAGATATACTAATGTTGTTCATTTATTAATTATAAAACATTATATAATAATATTTAATTTATTT
66 TTAGATATACTAATGTTGTTCATTTATTAATTATAAAACATTATATAATAATATTTAATTTATTT
*
24705006 TCGTGTGATTATGAATGTACAATTTTAAATAAGGTTTTGTACAGATTAAACTTTAATACACAATG
131 TCGTGTGATTATGAATGTACAATTTTAAATAAGGTTTTGTACAAATTAAACTTTAATACACAATG
24705071 TTAAAATAATATTAATATTTATTATTTGTTCTAATTAACGTTACGTATTAAAAAACTACTTAATT
196 TTAAAATAATATTAATATTTATTATTTGTTCTAATTAACGTTACGTATTAAAAAACTACTTAATT
*
24705136 AATTTATTAAAATTAAAAAATATATTTTTAATATGTATTACTTAAATTTTAATTTAATTTACACG
261 AATTTATTAAAATAAAAAAATATATTTTTAATATGTATTACTTAAATTTTAATTTAATTTACACG
24705201 TG-ATAATGTGAATGTAGTTTCTATATATTAATTTA
326 TGAATAATGTGAATGTAGTTT-TATATATTAATTTA
24705236 AAATAAAAGTATAATATTAATTTAAAATTAATAAAATTTTATAGTA-TTTTTTTT-AAATGAGCT
1 AAATAAAAGTATAATATTAATTTAAAATTAATAAAATTTTATAGTATTTTTTTTTAAAATGAGCT
24705299 TTAGATATACTAATGTTGTTCATTTATTAATTATAAAACATTATATAATAATATTTAATTTATTT
66 TTAGATATACTAATGTTGTTCATTTATTAATTATAAAACATTATATAATAATATTTAATTTATTT
*
24705364 TCGTGTGATTATGAATGTACAATTTTAAATAAGGTTTTGTACAAATTATACTTTAATACACAATG
131 TCGTGTGATTATGAATGTACAATTTTAAATAAGGTTTTGTACAAATTAAACTTTAATACACAATG
24705429 TTAAAATAATATTAATATTTATTATTTGTTCTAATTAACGTTACGTATTAAAAAACTACTTAATT
196 TTAAAATAATATTAATATTTATTATTTGTTCTAATTAACGTTACGTATTAAAAAACTACTTAATT
24705494 AATTTATTAAAATAAAAAAATATATTTTTAATATGTATTACTTAAATTTTAATTTAATTTACACG
261 AATTTATTAAAATAAAAAAATATATTTTTAATATGTATTACTTAAATTTTAATTTAATTTACACG
24705559 TGATAATAATGTGAATGTAGTTTTATATATT
326 TG--AATAATGTGAATGTAGTTTTATATATT
24705590 TTAGTTAAAA
Statistics
Matches: 348, Mismatches: 3, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
358 268 0.77
359 8 0.02
360 54 0.16
361 18 0.05
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (360 bp):
AAATAAAAGTATAATATTAATTTAAAATTAATAAAATTTTATAGTATTTTTTTTTAAAATGAGCT
TTAGATATACTAATGTTGTTCATTTATTAATTATAAAACATTATATAATAATATTTAATTTATTT
TCGTGTGATTATGAATGTACAATTTTAAATAAGGTTTTGTACAAATTAAACTTTAATACACAATG
TTAAAATAATATTAATATTTATTATTTGTTCTAATTAACGTTACGTATTAAAAAACTACTTAATT
AATTTATTAAAATAAAAAAATATATTTTTAATATGTATTACTTAAATTTTAATTTAATTTACACG
TGAATAATGTGAATGTAGTTTTATATATTAATTTA
Found at i:24706341 original size:31 final size:29
Alignment explanation
Indices: 24706288--24706355 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 29
24706278 AAATTTTAAA
24706288 TTAATAAA-AATAAAATTATATTTTAATCCTC
1 TTAA-AAATAATAAAATTATA-TTTAAT-CTC
* * *
24706319 TTAAAAATAATAAATTTTTATTTAATCTT
1 TTAAAAATAATAAAATTATATTTAATCTC
24706348 TTAAAAAT
1 TTAAAAAT
24706356 TACAATTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 10 0.30
30 9 0.27
31 14 0.42
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (29 bp):
TTAAAAATAATAAAATTATATTTAATCTC
Found at i:24708110 original size:12 final size:12
Alignment explanation
Indices: 24708090--24708119 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
24708080 AACAAATTAA
24708090 ATATTTTTTTTT
1 ATATTTTTTTTT
24708102 -TATTTTTTTTT
1 ATATTTTTTTTT
24708113 ATATTTT
1 ATATTTT
24708120 GAAAACTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (12 bp):
ATATTTTTTTTT
Found at i:24710695 original size:20 final size:20
Alignment explanation
Indices: 24710645--24710686 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
24710635 TGAATTACAG
24710645 AAAAAGAAAGGTACAAAGAA
1 AAAAAGAAAGGTACAAAGAA
*
24710665 AAAAAGAAAGGTACAAGGAA
1 AAAAAGAAAGGTACAAAGAA
24710685 AA
1 AA
24710687 GTAAAAAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.69, C:0.05, G:0.21, T:0.05
Consensus pattern (20 bp):
AAAAAGAAAGGTACAAAGAA
Found at i:24712940 original size:20 final size:20
Alignment explanation
Indices: 24712902--24712940 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24712892 TAAAAAGAAC
*
24712902 TTTTCCCTAAAAAAGTGCTT
1 TTTTCCCTAAAAAACTGCTT
* *
24712922 TTTTCCTTAAAACACTGCT
1 TTTTCCCTAAAAAACTGCT
24712941 AAACAAATTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (20 bp):
TTTTCCCTAAAAAACTGCTT
Found at i:24715821 original size:13 final size:13
Alignment explanation
Indices: 24715803--24715855 Score: 72
Period size: 13 Copynumber: 4.1 Consensus size: 13
24715793 GTTAAACTAA
24715803 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
**
24715816 ACTTTTCCACTA-C
1 ACTTTT-CAAAAGC
24715829 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
24715842 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
24715855 A
1 A
24715856 ATGCTAAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
12 3 0.09
13 28 0.82
14 3 0.09
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:24715834 original size:26 final size:26
Alignment explanation
Indices: 24715798--24715848 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
24715788 CAAATGTTAA
24715798 ACTAAACTTTTCAAAAGCACTTTTCC
1 ACTAAACTTTTCAAAAGCACTTTTCC
*
24715824 ACTACACTTTTCAAAAGCACTTTTC
1 ACTAAACTTTTCAAAAGCACTTTTC
24715849 AAAAGCAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.35
Consensus pattern (26 bp):
ACTAAACTTTTCAAAAGCACTTTTCC
Found at i:24724734 original size:36 final size:35
Alignment explanation
Indices: 24724694--24724863 Score: 205
Period size: 36 Copynumber: 4.7 Consensus size: 35
24724684 CAGGCATGGC
24724694 CTTCGGGTCAACAGGGAGTAAAATGAGCATCATGA
1 CTTCGGGTCAACAGGGAGTAAAATGAGCATCATGA
* *
24724729 TCTTCGGGCCAACAGGGAGTAAACTGAGCATCATGA
1 -CTTCGGGTCAACAGGGAGTAAAATGAGCATCATGA
* *
24724765 TCTTCGGGTAAACAGGGAGTAAAATAAGCATCATGA
1 -CTTCGGGTCAACAGGGAGTAAAATGAGCATCATGA
* * *
24724801 CCTCAGGGTCAAGAGGGAGTAAAATAAGCATCATGA
1 CTTC-GGGTCAACAGGGAGTAAAATGAGCATCATGA
* * * *
24724837 CCTCAGGGTCAATAGGGAATAGAATGA
1 CTTC-GGGTCAACAGGGAGTAAAATGA
24724864 ATAACGATCA
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
35 3 0.03
36 117 0.98
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (35 bp):
CTTCGGGTCAACAGGGAGTAAAATGAGCATCATGA
Found at i:24737471 original size:15 final size:15
Alignment explanation
Indices: 24737447--24737481 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24737437 GCATAAAATT
*
24737447 TAAAAATGAAACAAG
1 TAAAAATGAAACAAA
*
24737462 TAAAACTGAAACAAA
1 TAAAAATGAAACAAA
24737477 TAAAA
1 TAAAA
24737482 GAAAATGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.14
Consensus pattern (15 bp):
TAAAAATGAAACAAA
Found at i:24747001 original size:526 final size:525
Alignment explanation
Indices: 24745811--24747391 Score: 2865
Period size: 525 Copynumber: 3.0 Consensus size: 525
24745801 GATCTCATAC
* *
24745811 GCCCAATAAACCGCGGACTCAGCTTGCCTTTTCTACCAAACTGTAACACCTTCTTCCAAGGTGAA
1 GCCCTATAAACTGCGGACTCAGCTTGCCTTTTCTACCAAACTGTAACACCTTCTTCCAAGGTGAA
* *
24745876 ACTCTCAGGAAGACTCGATCCCCGATGAAAAACTCTATAACCTTCCTCTTTAGATCTACGTAAGA
66 ACTCTCAGGAAGACTCGATCCCCGATGACAAACTCTATAACCTTCCTCTTTAGATCTACGTAGGA
* * *
24745941 CTTCTGTCGATTTGATGTTGCTTTCAAACAATCACGGATTACTCAAACTTTGTCTTCCGTCTCAT
131 CTTCTGTCGATCTGACGTTGCTTTCAAACAATCACGGATTACTCGAACTTTGTCTTCCGTCTCAT
*
24746006 GTATCAAGTCAGACCCAACTAGCTTAAGCTCGCTTAACTCTAACCAATACAAAGGTATTCTACAT
196 GTATCAAGTCAGACCCAACTAGCTTAAGCTCGCTTAACTCTAACCAATACAAAGGTGTTCTACAT
24746071 TTTCTATCGTATAGTGCCTCAAACGGTGCCATTTTAATACTGGACTAATAGCTGTTATTATAAGC
261 TTTCTATCGTATAGTGCCTCAAACGGTGCCATTTTAATACTGGACTAATAGCTGTTATTATAAGC
*
24746136 AAACTTTACCAACGATAGGTATTTCTCCTAGCTACCTTCAAACTTGATATGCAACATCGCAACTG
326 AAACTTTACCAACGATAGGTATTTCTCCTAGCTACCTTCAAACTCGATATGCAACATCGCAACTG
* *
24746201 ATAGTGCTAGAAAAACCACTGTTTTCTCCCTACTTTTTGGTTAAGTTGTTCCTATTTAGTCATTC
391 ATAGTGCTAGAAAAACCATTGTTTTCTCCCTACTTTTTGGTTAAGTTGTTCCTATTTAGTCATCC
*
24746266 TTAGCACATATTTTAGCATTTTTTAATTTAGTTAATTGCATTTTCTAACTCAATGAACCTTAACC
456 TTAGCACATATTTTAGCATTTTTTAATTTAGTTAATTGCATTTTCTAACTCAATGAACCTTAGCC
24746331 TAGTT
521 TAGTT
* *
24746336 GCCCTATAAACTGCGAACTCAGCTTGCCTTTTCTACCAAACTGTAATACCTTCTTCCAAGGTGAA
1 GCCCTATAAACTGCGGACTCAGCTTGCCTTTTCTACCAAACTGTAACACCTTCTTCCAAGGTGAA
* * *
24746401 ACTCTTAGGAAGACTCGATCCTCGATGACAAACTCTATAACCTTCCTCTTTAGATTTACGTAGGA
66 ACTCTCAGGAAGACTCGATCCCCGATGACAAACTCTATAACCTTCCTCTTTAGATCTACGTAGGA
*
24746466 CTTCTGTCGATCTGACGTTGCTTTCAAACAATCACGGATTACTCGAACTTTATCTTCCGTCTCAT
131 CTTCTGTCGATCTGACGTTGCTTTCAAACAATCACGGATTACTCGAACTTTGTCTTCCGTCTCAT
*
24746531 ATATCAAGTCAGACCCAACTAGCTTAAGCTCGCTTAACTCTAACCAATACAAAGGTGTTCTACAT
196 GTATCAAGTCAGACCCAACTAGCTTAAGCTCGCTTAACTCTAACCAATACAAAGGTGTTCTACAT
* *
24746596 TTTCTATCGTATAGTGCCTTAAACGGTGCCATTTCAATACTGGACTAATAGCTGTTATTATAAGC
261 TTTCTATCGTATAGTGCCTCAAACGGTGCCATTTTAATACTGGACTAATAGCTGTTATTATAAGC
24746661 AAACTTTACCAACGATAGGTATTTCTCCTAGCTACCTTCAAACTCGATATGCAACATCGCAACTG
326 AAACTTTACCAACGATAGGTATTTCTCCTAGCTACCTTCAAACTCGATATGCAACATCGCAACTG
*
24746726 ATAGTGCTAGAAAAAACCATTATTTTCTCCCTACTTTTTGGTTAAGTTGTTCCTATTTAGTCATC
391 ATAGTGCTAG-AAAAACCATTGTTTTCTCCCTACTTTTTGGTTAAGTTGTTCCTATTTAGTCATC
*
24746791 CTTAGCACATATTTTAGCATTTTTTAATTTAGTTAATTGCATTTTTTAACTCAATGAACCTTAGC
455 CTTAGCACATATTTTAGCATTTTTTAATTTAGTTAATTGCATTTTCTAACTCAATGAACCTTAGC
24746856 CTAGTT
520 CTAGTT
* *
24746862 GCCCTATAAACTGTGGACTTAGCTTGCCTTTTCTACCAAACTGTAACACCTTCTTCCAAGGTGAA
1 GCCCTATAAACTGCGGACTCAGCTTGCCTTTTCTACCAAACTGTAACACCTTCTTCCAAGGTGAA
*
24746927 ACTCTCAGGAAGACTCGATCCCCGATGACAAACTCTATAACTTTCCTCTTTAGATCTACGTAGGA
66 ACTCTCAGGAAGACTCGATCCCCGATGACAAACTCTATAACCTTCCTCTTTAGATCTACGTAGGA
*
24746992 CTTCTGTCGATCTGACGTTGCTTTCAAACAATCACGGATTACTCGAACTTTGTCTTCCGTCTCTT
131 CTTCTGTCGATCTGACGTTGCTTTCAAACAATCACGGATTACTCGAACTTTGTCTTCCGTCTCAT
*
24747057 GTATCAAGTTAGACCCAACTAGCTTAAGCTCGCTTAACTCTAACCAATACAAAGGTGTTCTACAT
196 GTATCAAGTCAGACCCAACTAGCTTAAGCTCGCTTAACTCTAACCAATACAAAGGTGTTCTACAT
* *
24747122 TTTCTATCGTATAGTGCCTCAAACGGTGACATTTTAATACTGGACTAATAGCTGTTATTATAAGA
261 TTTCTATCGTATAGTGCCTCAAACGGTGCCATTTTAATACTGGACTAATAGCTGTTATTATAAGC
*
24747187 AAACTTTACCAACGATAGGTATTTCTCCTAGCTACCTTCAAACTCGTTATGCAACATCGCAACTG
326 AAACTTTACCAACGATAGGTATTTCTCCTAGCTACCTTCAAACTCGATATGCAACATCGCAACTG
24747252 ATAGTGCTAGAAAAACCATTGTTTTCTCCCTACTTTTTGGTTAAGTTGTTCCTATTTAGTCATCC
391 ATAGTGCTAGAAAAACCATTGTTTTCTCCCTACTTTTTGGTTAAGTTGTTCCTATTTAGTCATCC
*
24747317 TTAGCACATATTTTAGCATTTTTTAATTTAGTTAATTGCATTTTCTAGCTCAATGAACCTTAGCC
456 TTAGCACATATTTTAGCATTTTTTAATTTAGTTAATTGCATTTTCTAACTCAATGAACCTTAGCC
24747382 TAGTT
521 TAGTT
24747387 GCCCT
1 GCCCT
24747392 TAGTTGTCAT
Statistics
Matches: 1012, Mismatches: 43, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
525 509 0.50
526 503 0.50
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (525 bp):
GCCCTATAAACTGCGGACTCAGCTTGCCTTTTCTACCAAACTGTAACACCTTCTTCCAAGGTGAA
ACTCTCAGGAAGACTCGATCCCCGATGACAAACTCTATAACCTTCCTCTTTAGATCTACGTAGGA
CTTCTGTCGATCTGACGTTGCTTTCAAACAATCACGGATTACTCGAACTTTGTCTTCCGTCTCAT
GTATCAAGTCAGACCCAACTAGCTTAAGCTCGCTTAACTCTAACCAATACAAAGGTGTTCTACAT
TTTCTATCGTATAGTGCCTCAAACGGTGCCATTTTAATACTGGACTAATAGCTGTTATTATAAGC
AAACTTTACCAACGATAGGTATTTCTCCTAGCTACCTTCAAACTCGATATGCAACATCGCAACTG
ATAGTGCTAGAAAAACCATTGTTTTCTCCCTACTTTTTGGTTAAGTTGTTCCTATTTAGTCATCC
TTAGCACATATTTTAGCATTTTTTAATTTAGTTAATTGCATTTTCTAACTCAATGAACCTTAGCC
TAGTT
Found at i:24751072 original size:14 final size:14
Alignment explanation
Indices: 24751055--24751081 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24751045 AACAGAACGG
24751055 CTCCAATTTTTAAC
1 CTCCAATTTTTAAC
24751069 CTCCAATTTTTAA
1 CTCCAATTTTTAA
24751082 GCCATCTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (14 bp):
CTCCAATTTTTAAC
Found at i:24754070 original size:17 final size:17
Alignment explanation
Indices: 24754048--24754089 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
24754038 TATTACGTAA
24754048 TTTTATTTT-ATTTTATT
1 TTTTATTTTGA-TTTATT
24754065 TTTTATTTTGATTTATT
1 TTTTATTTTGATTTATT
*
24754082 TCTTATTT
1 TTTTATTT
24754090 GTTTTTTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 22 0.96
18 1 0.04
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTATTTTGATTTATT
Found at i:24767803 original size:17 final size:17
Alignment explanation
Indices: 24767781--24767813 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24767771 TGTTAGTGCA
24767781 CATTGTCATTGCATTTC
1 CATTGTCATTGCATTTC
*
24767798 CATTGTCATTGTATTT
1 CATTGTCATTGCATTT
24767814 TACTGTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.52
Consensus pattern (17 bp):
CATTGTCATTGCATTTC
Found at i:24774189 original size:20 final size:21
Alignment explanation
Indices: 24774152--24774190 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24774142 AAATCGAGCA
*
24774152 TCATTGAGTTAGAAAATGCAG
1 TCATTAAGTTAGAAAATGCAG
24774173 TCATTAAGTTA-AAAATGC
1 TCATTAAGTTAGAAAATGC
24774191 TAAAAAATGA
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:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (21 bp):
TCATTAAGTTAGAAAATGCAG
Found at i:24778599 original size:26 final size:26
Alignment explanation
Indices: 24778570--24778640 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
24778560 CAGTTATCAG
*
24778570 ATGCAGTGACAATTCTGGACACATTC
1 ATGCAGCGACAATTCTGGACACATTC
* **
24778596 ATGCAGCGACAATTCTGTACATGTTC
1 ATGCAGCGACAATTCTGGACACATTC
24778622 ATGCAGCGAC-ATTCCTGGA
1 ATGCAGCGACAATT-CTGGA
24778641 TGCAATTGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 3 0.08
26 36 0.92
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (26 bp):
ATGCAGCGACAATTCTGGACACATTC
Found at i:24778664 original size:37 final size:38
Alignment explanation
Indices: 24778622--24778709 Score: 108
Period size: 38 Copynumber: 2.3 Consensus size: 38
24778612 GTACATGTTC
* *
24778622 ATGCAGCGACA-TTCCTGGATGCAA-TTGAAGAATACTT
1 ATGCAGCGACAGTTCC-AGATGCAATTTGAAGAACACTT
* * *
24778659 ATGCAGCGATAGTTTCAGATGCAATTTGAAGAACATTT
1 ATGCAGCGACAGTTCCAGATGCAATTTGAAGAACACTT
24778697 ATGCAGCGACAGT
1 ATGCAGCGACAGT
24778710 CTTGGGTGCA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
37 17 0.40
38 26 0.60
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (38 bp):
ATGCAGCGACAGTTCCAGATGCAATTTGAAGAACACTT
Found at i:24779966 original size:17 final size:17
Alignment explanation
Indices: 24779946--24779984 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
24779936 ATGACAATGT
24779946 AAATGCAGCAAT-AATAA
1 AAATGCA-CAATCAATAA
*
24779963 AAATGCACTATCAATAA
1 AAATGCACAATCAATAA
24779980 AAATG
1 AAATG
24779985 TAGGGATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.56, C:0.13, G:0.10, T:0.21
Consensus pattern (17 bp):
AAATGCACAATCAATAA
Found at i:24781797 original size:198 final size:198
Alignment explanation
Indices: 24781453--24781849 Score: 758
Period size: 198 Copynumber: 2.0 Consensus size: 198
24781443 ATTGATGAAA
*
24781453 ATTTTGATGCTTCGTCTTGCTAGGTATTTTGCCTTGACAAGAGTTTATCATAATTGGGCAGTGTC
1 ATTTTGATGCTTCGTCTTGCTAGGTATTTTGCCTTGACAAGAGTTGATCATAATTGGGCAGTGTC
*
24781518 CACTCGGATCTAACATCGTTGTTTATACTTCCAGGGTCTTGATTGTTCCAACAAAAATTTGGATG
66 CACTCGGATCTAACATCATTGTTTATACTTCCAGGGTCTTGATTGTTCCAACAAAAATTTGGATG
24781583 TTGCTCCCACTCTGGCGTGTAGGTGTTGGAGTATAGATTTTCAATTTGACCAAAATTCCCCATGT
131 TTGCTCCCACTCTGGCGTGTAGGTGTTGGAGTATAGATTTTCAATTTGACCAAAATTCCCCATGT
24781648 GGT
196 GGT
24781651 ATTTTGATGCTTCGTCTTGCTAGGTATTTTGCCTTGACAAGAGTTGATCATAATTGGGCAGTGTC
1 ATTTTGATGCTTCGTCTTGCTAGGTATTTTGCCTTGACAAGAGTTGATCATAATTGGGCAGTGTC
24781716 CACTCGGATCTAACATCATTGTTTATACTTCCAGGGTCTTGATTGTTCCAACAAAAATTTGGATG
66 CACTCGGATCTAACATCATTGTTTATACTTCCAGGGTCTTGATTGTTCCAACAAAAATTTGGATG
* *
24781781 TTGCTCCCAGTCTGGCGTGTAGGTGTTGGAGTATAGATTTTCATTTTGACCAAAATTCCCCATGT
131 TTGCTCCCACTCTGGCGTGTAGGTGTTGGAGTATAGATTTTCAATTTGACCAAAATTCCCCATGT
24781846 GGT
196 GGT
24781849 A
1 A
24781850 GACATTTGCT
Statistics
Matches: 195, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
198 195 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (198 bp):
ATTTTGATGCTTCGTCTTGCTAGGTATTTTGCCTTGACAAGAGTTGATCATAATTGGGCAGTGTC
CACTCGGATCTAACATCATTGTTTATACTTCCAGGGTCTTGATTGTTCCAACAAAAATTTGGATG
TTGCTCCCACTCTGGCGTGTAGGTGTTGGAGTATAGATTTTCAATTTGACCAAAATTCCCCATGT
GGT
Found at i:24787831 original size:9 final size:9
Alignment explanation
Indices: 24787817--24787849 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
24787807 TTAGTCACAT
24787817 AAAAAAAAG
1 AAAAAAAAG
24787826 AAAAAAAAG
1 AAAAAAAAG
24787835 --AAAAAAG
1 AAAAAAAAG
24787842 AAAAAAAA
1 AAAAAAAA
24787850 ATATGTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.32
9 15 0.68
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:24787840 original size:16 final size:16
Alignment explanation
Indices: 24787819--24787849 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
24787809 AGTCACATAA
24787819 AAAAAAGAAAAAAAAG
1 AAAAAAGAAAAAAAAG
24787835 AAAAAAGAAAAAAAA
1 AAAAAAGAAAAAAAA
24787850 ATATGTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAAAAG
Found at i:24788167 original size:38 final size:38
Alignment explanation
Indices: 24788116--24788191 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
24788106 AAGTTTGGGG
*
24788116 GTGTGATAGCATTAGAAAGAACCATTGATTTCTCCTTA
1 GTGTGATAGCATTAGAAAGAACCATTGATTTCCCCTTA
24788154 GTGTGATAGCATTAGAAAGAACCATTGATTTCCCCTTA
1 GTGTGATAGCATTAGAAAGAACCATTGATTTCCCCTTA
24788192 CTTATAGTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (38 bp):
GTGTGATAGCATTAGAAAGAACCATTGATTTCCCCTTA
Found at i:24795553 original size:19 final size:21
Alignment explanation
Indices: 24795529--24795573 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
24795519 GCAATATATT
24795529 TCTTTTATTCTT-TTT-TTTC
1 TCTTTTATTCTTCTTTCTTTC
* *
24795548 TCTTTTCTTCTTCTTTCTTTT
1 TCTTTTATTCTTCTTTCTTTC
24795569 TCTTT
1 TCTTT
24795574 CTTTTTGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 3 0.14
21 8 0.36
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (21 bp):
TCTTTTATTCTTCTTTCTTTC
Found at i:24795579 original size:10 final size:10
Alignment explanation
Indices: 24795536--24795579 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
24795526 ATTTCTTTTA
*
24795536 TTCTTTTTTT
1 TTCTTTCTTT
*
24795546 TCTCTTTTCTTC
1 T-TC-TTTCTTT
24795558 TTCTTTCTTT
1 TTCTTTCTTT
24795568 TTCTTTCTTT
1 TTCTTTCTTT
24795578 TT
1 TT
24795580 GTGAATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 19 0.66
11 4 0.14
12 6 0.21
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TTCTTTCTTT
Found at i:24802350 original size:14 final size:14
Alignment explanation
Indices: 24802327--24802358 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
24802317 TGCAATTCCT
24802327 AAAG-AAATAAGAG
1 AAAGTAAATAAGAG
24802340 AAAGTAAATAAGAG
1 AAAGTAAATAAGAG
24802354 AAAGT
1 AAAGT
24802359 TAAACAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.66, C:0.00, G:0.22, T:0.12
Consensus pattern (14 bp):
AAAGTAAATAAGAG
Found at i:24818018 original size:18 final size:20
Alignment explanation
Indices: 24817985--24818024 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
24817975 CTCCTCAACA
24817985 TCAGGTTGCAGGTGACAAAT
1 TCAGGTTGCAGGTGACAAAT
24818005 TCAGG-TGC-GGTGACAAAT
1 TCAGGTTGCAGGTGACAAAT
24818023 TC
1 TC
24818025 CTTAGCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 12 0.60
19 3 0.15
20 5 0.25
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (20 bp):
TCAGGTTGCAGGTGACAAAT
Found at i:24820999 original size:38 final size:37
Alignment explanation
Indices: 24820925--24821022 Score: 108
Period size: 38 Copynumber: 2.6 Consensus size: 37
24820915 CAGTGACATC
* * *
24820925 CTTGGGTGCAATTGAAGAATACTTATGCAGCAATAGT
1 CTTGGATGCATTTGAAGAATATTTATGCAGCAATAGT
* **
24820962 TTTGGATGCAGTTTGAAGAATATTTATGCAGTGATAGT
1 CTTGGATGCA-TTTGAAGAATATTTATGCAGCAATAGT
*
24821000 CTTGGGTGCATTTCGAA-AATATT
1 CTTGGATGCATTT-GAAGAATATT
24821023 CTTGGGGCGT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
37 17 0.33
38 34 0.67
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.36
Consensus pattern (37 bp):
CTTGGATGCATTTGAAGAATATTTATGCAGCAATAGT
Found at i:24823161 original size:22 final size:22
Alignment explanation
Indices: 24823133--24823182 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
24823123 GCCACGCTAC
*
24823133 TGCTGCTGCAACCCACGCTTGT
1 TGCTGCTACAACCCACGCTTGT
* *
24823155 TGCTGCTACAGCCCATGCTTGT
1 TGCTGCTACAACCCACGCTTGT
24823177 TGCTGC
1 TGCTGC
24823183 CCTTGTGCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.12, C:0.34, G:0.24, T:0.30
Consensus pattern (22 bp):
TGCTGCTACAACCCACGCTTGT
Found at i:24823380 original size:24 final size:23
Alignment explanation
Indices: 24823348--24823392 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
24823338 TATTTTCTAA
24823348 TTTTCAATTTATTTAATTTATTAAC
1 TTTTCAATTTATTT--TTTATTAAC
24823373 TTTT-AATTTATTTTTTATTA
1 TTTTCAATTTATTTTTTATTA
24823393 GGTTAAGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
24 9 0.45
25 4 0.20
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTCAATTTATTTTTTATTAAC
Found at i:24850225 original size:448 final size:448
Alignment explanation
Indices: 24849390--24850287 Score: 1733
Period size: 448 Copynumber: 2.0 Consensus size: 448
24849380 TTAATGTTAT
24849390 ATCATTTTGATTCTTATTTTACACTGCATATCTGTTTATTCTTGGATTTAATCGTTTTAAGCACA
1 ATCATTTTGATTCTTATTTTACACTGCATATCTGTTTATTCTTGGATTTAATCGTTTTAAGCACA
24849455 AGAGTGAAATTGTAGTACATCGATATCGAGAGATATGATGACAGGTTAGGTTAACAAGTAGGTTA
66 AGAGTGAAATTGTAGTACATCGATATCGAGAGATATGATGACAGGTTAGGTTAACAAGTAGGTTA
*
24849520 GGTGAGAGCTTCTCAGGACTGGGATAAGAACCGTTTACTTATTCTTGGATACACAGAATTGCTCA
131 GGCGAGAGCTTCTCAGGACTGGGATAAGAACCGTTTACTTATTCTTGGATACACAGAATTGCTCA
24849585 CACCGAGAGGTTGAGTGATTGTGGGTATTTAAGTCGAGATTAAGTAGGGAGCTGTTGTTGGTAAG
196 CACCGAGAGGTTGAGTGATTGTGGGTATTTAAGTCGAGATTAAGTAGGGAGCTGTTGTTGGTAAG
24849650 AACTCAAAAGGACTTCATTGCAGTGACAATTTTTCTATACTCTACCTTGTCGATGCATCTAGCGT
261 AACTCAAAAGGACTTCATTGCAGTGACAATTTTTCTATACTCTACCTTGTCGATGCATCTAGCGT
24849715 TGCAACTTAGCAGAATTAATAAACCATTTATACCCTTTACACTTGATCACTTTTACATTTTACAC
326 TGCAACTTAGCAGAATTAATAAACCATTTATACCCTTTACACTTGATCACTTTTACATTTTACAC
24849780 GATTTAAATATTTAGCATTCAACACTCAACACATTTTATTTACTTTTACTACATTAAC
391 GATTTAAATATTTAGCATTCAACACTCAACACATTTTATTTACTTTTACTACATTAAC
24849838 ATCATTTTGATTCTTATTTTACACTGCATATCTGTTTATTCTTGGATTTAATCGTTTTAAGCACA
1 ATCATTTTGATTCTTATTTTACACTGCATATCTGTTTATTCTTGGATTTAATCGTTTTAAGCACA
24849903 AGAGTGAAATTGTAGTACATCGATATCGAGAGATATGATGACAGGTTAGGTTAACAAGTAGGTTA
66 AGAGTGAAATTGTAGTACATCGATATCGAGAGATATGATGACAGGTTAGGTTAACAAGTAGGTTA
* *
24849968 GGCGAGAGCTTCTCAGGACTGGGATAAGAACCGTTTACTTATTCTTGGATACACATAATTGCTCG
131 GGCGAGAGCTTCTCAGGACTGGGATAAGAACCGTTTACTTATTCTTGGATACACAGAATTGCTCA
*
24850033 CACCGAGTGGTTGAGTGATTGTGGGTATTTAAGTCGAGATTAAGTAGGGAGCTGTTGTTGGTAAG
196 CACCGAGAGGTTGAGTGATTGTGGGTATTTAAGTCGAGATTAAGTAGGGAGCTGTTGTTGGTAAG
*
24850098 AACTCAAAGGGACTTCATTGCAGTGACAATTTTTCTATACTCTACCTTGTCGATGCATCTAGCGT
261 AACTCAAAAGGACTTCATTGCAGTGACAATTTTTCTATACTCTACCTTGTCGATGCATCTAGCGT
*
24850163 TGCAACTTAGCAGAATTAATAAACCATTTATATCCTTTACACTTGATCACTTTTACATTTTACAC
326 TGCAACTTAGCAGAATTAATAAACCATTTATACCCTTTACACTTGATCACTTTTACATTTTACAC
*
24850228 GATTTAAATATTTAGCATTCAACACTCAACACATTTTATTTACTTTTACTACATTGAC
391 GATTTAAATATTTAGCATTCAACACTCAACACATTTTATTTACTTTTACTACATTAAC
24850286 AT
1 AT
24850288 TTACACCTGA
Statistics
Matches: 443, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
448 443 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (448 bp):
ATCATTTTGATTCTTATTTTACACTGCATATCTGTTTATTCTTGGATTTAATCGTTTTAAGCACA
AGAGTGAAATTGTAGTACATCGATATCGAGAGATATGATGACAGGTTAGGTTAACAAGTAGGTTA
GGCGAGAGCTTCTCAGGACTGGGATAAGAACCGTTTACTTATTCTTGGATACACAGAATTGCTCA
CACCGAGAGGTTGAGTGATTGTGGGTATTTAAGTCGAGATTAAGTAGGGAGCTGTTGTTGGTAAG
AACTCAAAAGGACTTCATTGCAGTGACAATTTTTCTATACTCTACCTTGTCGATGCATCTAGCGT
TGCAACTTAGCAGAATTAATAAACCATTTATACCCTTTACACTTGATCACTTTTACATTTTACAC
GATTTAAATATTTAGCATTCAACACTCAACACATTTTATTTACTTTTACTACATTAAC
Found at i:24854851 original size:92 final size:92
Alignment explanation
Indices: 24854692--24854873 Score: 274
Period size: 92 Copynumber: 2.0 Consensus size: 92
24854682 GCAAACCATC
* * * *
24854692 TGTCTCGACTAGAAGTTGGCAATGAAGATGGAAACATACTTCAAATTGTCGACGCATTCCTAGAT
1 TGTCTAGACTAGAAGTTGGCAATGAAGATGGAAACATACTTCAAATTATCGACGCATTCCCAAAT
* *
24854757 GAGAATTTATTTACTGTAGATGCAATA
66 GAGAAGTTATTTACTATAGATGCAATA
* * *
24854784 TGTCTAGACTAGAAGTTGGCAGTGAAGATGGAAACATACTTCAAATTATCGATGTATTCCCAAAT
1 TGTCTAGACTAGAAGTTGGCAATGAAGATGGAAACATACTTCAAATTATCGACGCATTCCCAAAT
*
24854849 GAGAAGTTATTTGCTATAGATGCAA
66 GAGAAGTTATTTACTATAGATGCAA
24854874 CTCCATGGTA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 80 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (92 bp):
TGTCTAGACTAGAAGTTGGCAATGAAGATGGAAACATACTTCAAATTATCGACGCATTCCCAAAT
GAGAAGTTATTTACTATAGATGCAATA
Found at i:24865775 original size:15 final size:15
Alignment explanation
Indices: 24865756--24865795 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
24865746 ATGACTTCTC
*
24865756 TTATGATGATGA-TA
1 TTATGAAGATGAGTA
24865770 TCTATGAAGATGAGTA
1 T-TATGAAGATGAGTA
24865786 TTATGAAGAT
1 TTATGAAGAT
24865796 TGGGAGATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 19 0.83
16 3 0.13
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.38
Consensus pattern (15 bp):
TTATGAAGATGAGTA
Found at i:24883109 original size:23 final size:23
Alignment explanation
Indices: 24883075--24883131 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
24883065 AACAATCAAT
*
24883075 ACATCTTTTATTA-ATTTACTCTG
1 ACAT-TTTTATTACATTTACACTG
*
24883098 ACATTTTATATTACATTTGCACTG
1 ACATTTT-TATTACATTTACACTG
24883122 ACAGTTTTTA
1 ACA-TTTTTA
24883132 CTTTTAACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 3 0.10
23 9 0.31
24 13 0.45
25 4 0.14
ACGTcount: A:0.28, C:0.16, G:0.07, T:0.49
Consensus pattern (23 bp):
ACATTTTTATTACATTTACACTG
Found at i:24892635 original size:9 final size:9
Alignment explanation
Indices: 24892618--24892663 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
24892608 GAGAAGGATC
*
24892618 AAGACAAAG
1 AAGAGAAAG
24892627 AAGAGAAAG
1 AAGAGAAAG
*
24892636 AAGA-AGAG
1 AAGAGAAAG
24892644 AAG-G-AAG
1 AAGAGAAAG
24892651 AAGAGAAAG
1 AAGAGAAAG
24892660 AAGA
1 AAGA
24892664 AGAAGAACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
7 5 0.16
8 7 0.23
9 19 0.61
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (9 bp):
AAGAGAAAG
Found at i:24892641 original size:12 final size:12
Alignment explanation
Indices: 24892624--24892666 Score: 77
Period size: 12 Copynumber: 3.6 Consensus size: 12
24892614 GATCAAGACA
24892624 AAGAAGAGAAAG
1 AAGAAGAGAAAG
*
24892636 AAGAAGAGAAGG
1 AAGAAGAGAAAG
24892648 AAGAAGAGAAAG
1 AAGAAGAGAAAG
24892660 AAGAAGA
1 AAGAAGA
24892667 AGAACCTGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (12 bp):
AAGAAGAGAAAG
Found at i:24893105 original size:17 final size:18
Alignment explanation
Indices: 24893083--24893123 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
24893073 TTAGTTTTCC
24893083 TGCATTCTT-ATTGTGC-T
1 TGCATTCTTAATTGT-CAT
24893100 TGCATT-TTAATTGTCAT
1 TGCATTCTTAATTGTCAT
24893117 TGCATTC
1 TGCATTC
24893124 ATTTTAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.51
Consensus pattern (18 bp):
TGCATTCTTAATTGTCAT
Found at i:24899614 original size:26 final size:27
Alignment explanation
Indices: 24899585--24899645 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 27
24899575 AATAAATCAC
24899585 AAATTT-TCGATGCATTTCTAGATGAG
1 AAATTTGTCGATGCATTTCTAGATGAG
*
24899611 AAATTAATTGTGGATGCATTTCTAGATGAG
1 AAA-T--TTGTCGATGCATTTCTAGATGAG
24899641 AAATT
1 AAATT
24899646 ATTCTTTGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
26 3 0.10
27 2 0.07
29 3 0.10
30 22 0.73
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (27 bp):
AAATTTGTCGATGCATTTCTAGATGAG
Found at i:24905609 original size:17 final size:17
Alignment explanation
Indices: 24905578--24905635 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
24905568 TAATTGTTCC
* *
24905578 TGCATTATTAATGTCAT
1 TGCATTTTTATTGTCAT
**
24905595 TGCATTTTTATTGTCGC
1 TGCATTTTTATTGTCAT
* **
24905612 TGCATCTACATTGTCAT
1 TGCATTTTTATTGTCAT
24905629 TGCATTT
1 TGCATTT
24905636 CCATATATAT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (17 bp):
TGCATTTTTATTGTCAT
Found at i:24913607 original size:17 final size:17
Alignment explanation
Indices: 24913572--24913634 Score: 58
Period size: 17 Copynumber: 3.7 Consensus size: 17
24913562 TACAAATAAT
*
24913572 AATGGAAATGCA-ACGAC
1 AATGAAAATGCAGA-GAC
*
24913589 AATGCAAATGCTAGA-AC
1 AATGAAAATGC-AGAGAC
*
24913606 AAAGAAAATGCAGAGAC
1 AATGAAAATGCAGAGAC
*
24913623 AATAAAAATGCA
1 AATGAAAATGCA
24913635 ATGACAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 3 0.08
17 33 0.87
18 1 0.03
19 1 0.03
ACGTcount: A:0.54, C:0.14, G:0.19, T:0.13
Consensus pattern (17 bp):
AATGAAAATGCAGAGAC
Found at i:24913640 original size:17 final size:18
Alignment explanation
Indices: 24913610--24913652 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
24913600 TAGAACAAAG
*
24913610 AAAATGCAGAGAC-AATA
1 AAAATGCAGAGACAAAAA
24913627 AAAATGCA-ATGACAAAAA
1 AAAATGCAGA-GACAAAAA
24913645 AAAATGCA
1 AAAATGCA
24913653 TGCAACTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 11 0.48
18 11 0.48
ACGTcount: A:0.63, C:0.12, G:0.14, T:0.12
Consensus pattern (18 bp):
AAAATGCAGAGACAAAAA
Found at i:24925609 original size:26 final size:26
Alignment explanation
Indices: 24925542--24925601 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
24925532 TTGGACATCC
*
24925542 TCATGCAGCGACAATTCTATACATGT
1 TCATGCAGCGACAATTCTAGACATGT
24925568 TCATGCAGCGACAATTCTAGACATGT
1 TCATGCAGCGACAATTCTAGACATGT
24925594 TCATGCAG
1 TCATGCAG
24925602 AGATAATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (26 bp):
TCATGCAGCGACAATTCTAGACATGT
Found at i:24925616 original size:26 final size:26
Alignment explanation
Indices: 24925535--24925623 Score: 106
Period size: 26 Copynumber: 3.4 Consensus size: 26
24925525 CGCAATTTTG
*
24925535 GACATCCTCATGCAGCGACAATTCTA
1 GACATGCTCATGCAGCGACAATTCTA
* *
24925561 TACATGTTCATGCAGCGACAATTCTA
1 GACATGCTCATGCAGCGACAATTCTA
* * * * *
24925587 GACATGTTCATGCAGAGATAATTTTG
1 GACATGCTCATGCAGCGACAATTCTA
24925613 GACATGCTCAT
1 GACATGCTCAT
24925624 AGAATGACAT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (26 bp):
GACATGCTCATGCAGCGACAATTCTA
Found at i:24937643 original size:26 final size:26
Alignment explanation
Indices: 24937607--24937712 Score: 140
Period size: 26 Copynumber: 4.1 Consensus size: 26
24937597 ATTCTAGATG
*
24937607 CAATTCTGGACGTGTTCATGCAGCGA
1 CAATTCTGGACATGTTCATGCAGCGA
*
24937633 CAATTTTGGACATGTTCATGCAGCGA
1 CAATTCTGGACATGTTCATGCAGCGA
* *
24937659 CAATTCTGTATATGTTCATGCAGCGA
1 CAATTCTGGACATGTTCATGCAGCGA
* * * *
24937685 CAATTTTAGACATGCTCATACAGCGA
1 CAATTCTGGACATGTTCATGCAGCGA
24937711 CA
1 CA
24937713 TTAGTAGTAA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 69 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (26 bp):
CAATTCTGGACATGTTCATGCAGCGA
Found at i:24939021 original size:22 final size:23
Alignment explanation
Indices: 24938983--24939026 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
24938973 AGTGAAAAGA
*
24938983 ACAAAATGAAATAAGT-AGAAAT
1 ACAAAAAGAAATAAGTAAGAAAT
24939005 ACAAAAAGAAA-AGAGTAAGAAA
1 ACAAAAAGAAATA-AGTAAGAAA
24939027 AAGTGTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 1 0.05
22 13 0.68
23 5 0.26
ACGTcount: A:0.68, C:0.05, G:0.16, T:0.11
Consensus pattern (23 bp):
ACAAAAAGAAATAAGTAAGAAAT
Found at i:24940666 original size:14 final size:14
Alignment explanation
Indices: 24940647--24940688 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
24940637 TAGAAAATGT
24940647 AAATGCTAATTATG
1 AAATGCTAATTATG
*
24940661 AAATGCTAATAATG
1 AAATGCTAATTATG
* *
24940675 -CATGCTAAATATG
1 AAATGCTAATTATG
24940688 A
1 A
24940689 TTCAAAAGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (14 bp):
AAATGCTAATTATG
Found at i:24960683 original size:20 final size:19
Alignment explanation
Indices: 24960646--24960691 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
24960636 TATTTTTGTT
24960646 ATTTATATATTTTTTATAG
1 ATTTATATATTTTTTATAG
* *
24960665 ATTT-TATATTCTTTATAT
1 ATTTATATATTTTTTATAG
*
24960683 ATATATATA
1 ATTTATATA
24960692 CTGATAGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTTATATATTTTTTATAG
Found at i:24968184 original size:17 final size:17
Alignment explanation
Indices: 24968162--24968195 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24968152 CACTAACACT
*
24968162 AAAATGCAAGGACAATG
1 AAAATGCAACGACAATG
24968179 AAAATGCAACGACAATG
1 AAAATGCAACGACAATG
24968196 CTTACTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.15, G:0.21, T:0.12
Consensus pattern (17 bp):
AAAATGCAACGACAATG
Found at i:24969825 original size:43 final size:43
Alignment explanation
Indices: 24969773--24969861 Score: 133
Period size: 43 Copynumber: 2.1 Consensus size: 43
24969763 GCTCACAAGG
* * *
24969773 TGTAAAATACTATGTAACTGTCGCTACAAATAAGCACAATGAA
1 TGTAAAATACTAGGTAACTGTAGCTACAAATAAGCAAAATGAA
* *
24969816 TGTAAAATACTAGGTAATTGTAGCTGCAAATAAGCAAAATGAA
1 TGTAAAATACTAGGTAACTGTAGCTACAAATAAGCAAAATGAA
24969859 TGT
1 TGT
24969862 CTTACAAAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (43 bp):
TGTAAAATACTAGGTAACTGTAGCTACAAATAAGCAAAATGAA
Found at i:24971811 original size:20 final size:20
Alignment explanation
Indices: 24971778--24971816 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24971768 TATAGATTCA
*
24971778 ATTTTATTCCTTTTTATTTC
1 ATTTTATTCCTTTTAATTTC
**
24971798 ATTTTATTTGTTTTAATTT
1 ATTTTATTCCTTTTAATTT
24971817 TAGTTTATGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.72
Consensus pattern (20 bp):
ATTTTATTCCTTTTAATTTC
Found at i:24976857 original size:55 final size:55
Alignment explanation
Indices: 24976773--24976882 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
24976763 GACACATTAA
24976773 GGTGGAGGTTGCAAAATAAAGAGTGAAATAGGAAAATCAATATATAATATGAACT
1 GGTGGAGGTTGCAAAATAAAGAGTGAAATAGGAAAATCAATATATAATATGAACT
24976828 GGTGGAGGTTGCAAAATAAAGAGTGAAATAGGAAAATCAATATATAATATGAACT
1 GGTGGAGGTTGCAAAATAAAGAGTGAAATAGGAAAATCAATATATAATATGAACT
24976883 TTAGTACAGC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.47, C:0.05, G:0.24, T:0.24
Consensus pattern (55 bp):
GGTGGAGGTTGCAAAATAAAGAGTGAAATAGGAAAATCAATATATAATATGAACT
Found at i:24980928 original size:79 final size:80
Alignment explanation
Indices: 24980744--24980951 Score: 285
Period size: 80 Copynumber: 2.6 Consensus size: 80
24980734 AGTTTAACTG
* * ** * ** *
24980744 ACTAGTGCTGGGCACACAATTGCGGTTTATCCGCTAGGCACTAGGTGTTAGGATTTGATGGATAT
1 ACTAGAGCTGGGCTCACTTTTGTGGTTTATCCGCTAGGCACTAGGTGCCAGGATTTGACGGATAT
24980809 TTGTTGGTTAATCCA
66 TTGTTGGTTAATCCA
* **
24980824 ACTAGAGCTGGGCTTACTTTTGTGGTTTATTTGCTAGGCACTAGGTGCCAGGATTTGACGGATA-
1 ACTAGAGCTGGGCTCACTTTTGTGGTTTATCCGCTAGGCACTAGGTGCCAGGATTTGACGGATAT
24980888 TTGTTGGTTAATCCA
66 TTGTTGGTTAATCCA
* *
24980903 ACTAGAGCTGGGCTCATTTTTGTGG-TTATCCGCTAGGCACTGGGTGCCA
1 ACTAGAGCTGGGCTCACTTTTGTGGTTTATCCGCTAGGCACTAGGTGCCA
24980952 TAATCATCGA
Statistics
Matches: 112, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
78 21 0.19
79 38 0.34
80 53 0.47
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.34
Consensus pattern (80 bp):
ACTAGAGCTGGGCTCACTTTTGTGGTTTATCCGCTAGGCACTAGGTGCCAGGATTTGACGGATAT
TTGTTGGTTAATCCA
Found at i:24991363 original size:21 final size:21
Alignment explanation
Indices: 24991313--24991366 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
24991303 GTTGGATGAG
24991313 TGATGCCATAAAAATGGAGTT
1 TGATGCCATAAAAATGGAGTT
**
24991334 CAATGCCATAAAAATGGAGTT
1 TGATGCCATAAAAATGGAGTT
*
24991355 TGATTCCATAAA
1 TGATGCCATAAA
24991367 CGCCAAGGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (21 bp):
TGATGCCATAAAAATGGAGTT
Found at i:24994856 original size:34 final size:34
Alignment explanation
Indices: 24994818--24994883 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
24994808 CTATAGTATA
*
24994818 ATTGTCCCTGCAT-TATTAATGTCATTGCATTTTT
1 ATTGTCCCTGCATCTA-CAATGTCATTGCATTTTT
* *
24994852 ATTGTCGCTGCATCTACATTGTCATTGCATTT
1 ATTGTCCCTGCATCTACAATGTCATTGCATTT
24994884 CCATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.47
Consensus pattern (34 bp):
ATTGTCCCTGCATCTACAATGTCATTGCATTTTT
Found at i:24994857 original size:17 final size:17
Alignment explanation
Indices: 24994826--24994883 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
24994816 TAATTGTCCC
* *
24994826 TGCATTATTAATGTCAT
1 TGCATTTTTATTGTCAT
**
24994843 TGCATTTTTATTGTCGC
1 TGCATTTTTATTGTCAT
* **
24994860 TGCATCTACATTGTCAT
1 TGCATTTTTATTGTCAT
24994877 TGCATTT
1 TGCATTT
24994884 CCATATATAT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (17 bp):
TGCATTTTTATTGTCAT
Found at i:25003803 original size:26 final size:26
Alignment explanation
Indices: 25003767--25003842 Score: 109
Period size: 26 Copynumber: 2.9 Consensus size: 26
25003757 AATTCTGGTC
25003767 GCAATTCTGAACACGTTCATGCAGTG
1 GCAATTCTGAACACGTTCATGCAGTG
*
25003793 GCAATTCTGAACACATTCATGCAGTG
1 GCAATTCTGAACACGTTCATGCAGTG
* *
25003819 ACAATTCTGTAA-ATGTTCATGCAG
1 GCAATTCTG-AACACGTTCATGCAG
25003843 CGACATTCCT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 43 0.96
27 2 0.04
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (26 bp):
GCAATTCTGAACACGTTCATGCAGTG
Found at i:25003879 original size:34 final size:36
Alignment explanation
Indices: 25003841--25003931 Score: 96
Period size: 38 Copynumber: 2.5 Consensus size: 36
25003831 ATGTTCATGC
25003841 AGCGACATTCCTGGGTGCAA-TT-GAATATTTATGT
1 AGCGACATTCCTGGGTGCAATTTAGAATATTTATGT
* * * *
25003875 AGCGATATTTCAGGATGCAATTTGAAGAATATTTATGT
1 AGCGACATTCCTGGGTGCAATTT--AGAATATTTATGT
* *
25003913 AGCGACAGTCTTGGGTGCA
1 AGCGACATTCCTGGGTGCA
25003932 TTCCGAAAAT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
34 16 0.37
35 2 0.05
38 25 0.58
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (36 bp):
AGCGACATTCCTGGGTGCAATTTAGAATATTTATGT
Found at i:25004007 original size:36 final size:37
Alignment explanation
Indices: 25003967--25004042 Score: 136
Period size: 36 Copynumber: 2.1 Consensus size: 37
25003957 GTTTTGGTGA
*
25003967 AATCTAGAAGTGCTCATGC-GGGACATGTTTGGGCGC
1 AATCTAGAAGTGCTCATGCAGCGACATGTTTGGGCGC
25004003 AATCTAGAAGTGCTCATGCAGCGACATGTTTGGGCGC
1 AATCTAGAAGTGCTCATGCAGCGACATGTTTGGGCGC
25004040 AAT
1 AAT
25004043 TCTGGATTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 19 0.50
37 19 0.50
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (37 bp):
AATCTAGAAGTGCTCATGCAGCGACATGTTTGGGCGC
Found at i:25008331 original size:34 final size:36
Alignment explanation
Indices: 25008293--25008393 Score: 91
Period size: 38 Copynumber: 2.8 Consensus size: 36
25008283 TTCATGCAGT
*
25008293 GACATTCTTGGGTGCAA-TT-GAATATTTATGCAAC
1 GACATTCTTGGATGCAATTTAGAATATTTATGCAAC
*
25008327 GACATT-TCTGGATGCAATTTAAAGAATATTTATGCAGC
1 GACATTCT-TGGATGCAATTT--AGAATATTTATGCAAC
* * * *
25008365 GACAGTCTTAGTTGCATTTTAGAAATATT
1 GACATTCTTGGATGCAATTTAG-AATATT
25008394 CCTACGATGA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
33 1 0.02
34 14 0.26
35 2 0.04
36 2 0.04
37 6 0.11
38 28 0.52
39 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.37
Consensus pattern (36 bp):
GACATTCTTGGATGCAATTTAGAATATTTATGCAAC
Found at i:25008464 original size:38 final size:37
Alignment explanation
Indices: 25008416--25008536 Score: 161
Period size: 37 Copynumber: 3.2 Consensus size: 37
25008406 GTTTTGGTGA
* * *
25008416 AATCTGGAAGTGCTCATGCGGCGATAGTTTTTGGGCGC
1 AATCTAGAAGTGCTCATGCGGCGACA-TGTTTGGGCGC
* *
25008454 AATCTAGAAGTGCTCATGCGGTGACATGTTTGGGTGC
1 AATCTAGAAGTGCTCATGCGGCGACATGTTTGGGCGC
* *
25008491 AATCTAGAAGTGCTCATGCAGCGACATGTTTGGGCAC
1 AATCTAGAAGTGCTCATGCGGCGACATGTTTGGGCGC
25008528 AATTCTAGA
1 AA-TCTAGA
25008537 TTAAAATTGC
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
37 44 0.60
38 29 0.40
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (37 bp):
AATCTAGAAGTGCTCATGCGGCGACATGTTTGGGCGC
Found at i:25008495 original size:37 final size:37
Alignment explanation
Indices: 25008402--25008524 Score: 158
Period size: 37 Copynumber: 3.3 Consensus size: 37
25008392 TTCCTACGAT
* * *
25008402 GACA-GTTTTGGTGAAATCTGGAAGTGCTCATGCGGC
1 GACATGTTTGGGTGCAATCTAGAAGTGCTCATGCGGC
* * * *
25008438 GATAGTTTTTGGGCGCAATCTAGAAGTGCTCATGCGGT
1 GACA-TGTTTGGGTGCAATCTAGAAGTGCTCATGCGGC
*
25008476 GACATGTTTGGGTGCAATCTAGAAGTGCTCATGCAGC
1 GACATGTTTGGGTGCAATCTAGAAGTGCTCATGCGGC
25008513 GACATGTTTGGG
1 GACATGTTTGGG
25008525 CACAATTCTA
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
36 3 0.04
37 41 0.56
38 29 0.40
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (37 bp):
GACATGTTTGGGTGCAATCTAGAAGTGCTCATGCGGC
Found at i:25042896 original size:18 final size:18
Alignment explanation
Indices: 25042856--25042894 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
25042846 TATATAGAGA
25042856 TTTTATTACTTATTATAT
1 TTTTATTACTTATTATAT
25042874 TTTTATT-CTT-TATATAT
1 TTTTATTACTTAT-TATAT
25042891 TTTT
1 TTTT
25042895 TAATATGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 1 0.05
17 12 0.60
18 7 0.35
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTATTACTTATTATAT
Found at i:25055320 original size:12 final size:12
Alignment explanation
Indices: 25055305--25055356 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
25055295 AGAGGTGATC
*
25055305 AAGAGAAGGATG
1 AAGAGAAGGAAG
* *
25055317 AAGAAAAAGAAG
1 AAGAGAAGGAAG
25055329 AAGAAAGAAGGAAG
1 AAG--AGAAGGAAG
*
25055343 AAGGGAAGGAAG
1 AAGAGAAGGAAG
25055355 AA
1 AA
25055357 ACTGAACCTG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 22 0.69
14 10 0.31
ACGTcount: A:0.62, C:0.00, G:0.37, T:0.02
Consensus pattern (12 bp):
AAGAGAAGGAAG
Found at i:25062665 original size:17 final size:17
Alignment explanation
Indices: 25062640--25062707 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
25062630 AAGACTATAC
* *
25062640 AAAATAATGGAAATGCA
1 AAAACAATGAAAATGCA
* *
25062657 AAAACAATGCATATGCTA
1 AAAACAATGAAAATGC-A
* *
25062675 AAAATAAAGAAAATGCA
1 AAAACAATGAAAATGCA
*
25062692 AAAACAATAAAAATGC
1 AAAACAATGAAAATGC
25062708 GATTATAATT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
17 27 0.68
18 13 0.32
ACGTcount: A:0.62, C:0.10, G:0.12, T:0.16
Consensus pattern (17 bp):
AAAACAATGAAAATGCA
Found at i:25086193 original size:14 final size:13
Alignment explanation
Indices: 25086153--25086202 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
25086143 TTTATCCTTT
*
25086153 TTTAATTTTTTTA
1 TTTAATTTTTTAA
*
25086166 TTT-GTATTTTTAA
1 TTTAAT-TTTTTAA
25086179 TTTAATTTTTATAA
1 TTTAATTTTT-TAA
25086193 TTTAATTTTT
1 TTTAATTTTT
25086203 CCCTTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 1 0.03
13 16 0.52
14 14 0.45
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (13 bp):
TTTAATTTTTTAA
Found at i:25086200 original size:26 final size:26
Alignment explanation
Indices: 25086153--25086202 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
25086143 TTTATCCTTT
* *
25086153 TTTAATTTTTTTATTTGTATTTTTAA
1 TTTAATTTTTTAATTTGAATTTTTAA
25086179 TTTAATTTTTATAATTT-AATTTTT
1 TTTAATTTTT-TAATTTGAATTTTT
25086203 CCCTTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (26 bp):
TTTAATTTTTTAATTTGAATTTTTAA
Found at i:25094708 original size:18 final size:18
Alignment explanation
Indices: 25094680--25094733 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 18
25094670 TCTCAGTCGC
25094680 AAAAAGAAAAGAAAAAGAG
1 AAAAAG-AAAGAAAAAGAG
*
25094699 AAAAAGAAAG-AAAAGTTG
1 AAAAAGAAAGAAAAAG-AG
25094717 AAAAAGAAAGAAAAAGA
1 AAAAAGAAAGAAAAAGA
25094734 AAGAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 5 0.16
18 15 0.48
19 11 0.35
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (18 bp):
AAAAAGAAAGAAAAAGAG
Found at i:25094710 original size:10 final size:10
Alignment explanation
Indices: 25094680--25094738 Score: 63
Period size: 10 Copynumber: 6.2 Consensus size: 10
25094670 TCTCAGTCGC
25094680 AAAAAGAAAAG
1 AAAAAG-AAAG
25094691 AAAAAG--AG
1 AAAAAGAAAG
25094699 AAAAAGAAAG
1 AAAAAGAAAG
**
25094709 -AAAAG-TTG
1 AAAAAGAAAG
25094717 AAAAAGAAAG
1 AAAAAGAAAG
25094727 AAAAAGAAAG
1 AAAAAGAAAG
25094737 AA
1 AA
25094739 TATATATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
8 9 0.22
9 10 0.25
10 15 0.38
11 6 0.15
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.03
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:25103504 original size:27 final size:28
Alignment explanation
Indices: 25103465--25103518 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
25103455 TTTGATTGAA
25103465 AAAATTGAAAAAACA-AAG-AGAAAAAAG
1 AAAATTGAAAAAA-AGAAGAAGAAAAAAG
**
25103492 AAAATTGGTAAAAAGAAGAAGAAAAAA
1 AAAATTGAAAAAAAGAAGAAGAAAAAA
25103519 ATGTGTTCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 1 0.04
27 14 0.61
28 8 0.35
ACGTcount: A:0.72, C:0.02, G:0.17, T:0.09
Consensus pattern (28 bp):
AAAATTGAAAAAAAGAAGAAGAAAAAAG
Found at i:25103505 original size:28 final size:27
Alignment explanation
Indices: 25103465--25103518 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
25103455 TTTGATTGAA
25103465 AAAATTGAAAAAACAAAG-AGAAAAAAG
1 AAAATTGAAAAAA-AAAGAAGAAAAAAG
* *
25103492 AAAATTGGTAAAAAGAAGAAGAAAAAA
1 AAAATT-GAAAAAAAAAGAAGAAAAAA
25103519 ATGTGTTCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.72, C:0.02, G:0.17, T:0.09
Consensus pattern (27 bp):
AAAATTGAAAAAAAAAGAAGAAAAAAG
Found at i:25135198 original size:14 final size:14
Alignment explanation
Indices: 25135179--25135220 Score: 68
Period size: 14 Copynumber: 3.0 Consensus size: 14
25135169 ATCTGAGAGA
25135179 GAACACTGAATCCT
1 GAACACTGAATCCT
25135193 GAACACTGAA-CACT
1 GAACACTGAATC-CT
25135207 GAACACTGAATCCT
1 GAACACTGAATCCT
25135221 TCAGCAAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.04
14 24 0.92
15 1 0.04
ACGTcount: A:0.38, C:0.29, G:0.14, T:0.19
Consensus pattern (14 bp):
GAACACTGAATCCT
Found at i:25135201 original size:7 final size:7
Alignment explanation
Indices: 25135179--25135216 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
25135169 ATCTGAGAGA
25135179 GAACACT
1 GAACACT
25135186 GAATC-CT
1 GAA-CACT
25135193 GAACACT
1 GAACACT
25135200 GAACACT
1 GAACACT
25135207 GAACACT
1 GAACACT
25135214 GAA
1 GAA
25135217 TCCTTCAGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 1 0.03
7 27 0.93
8 1 0.03
ACGTcount: A:0.42, C:0.26, G:0.16, T:0.16
Consensus pattern (7 bp):
GAACACT
Found at i:25137242 original size:6 final size:6
Alignment explanation
Indices: 25137231--25137264 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
25137221 TGAGTCACTT
*
25137231 GAAAAA GAAAAA AAAAAA GAGAAAA GAAAAA GAA
1 GAAAAA GAAAAA GAAAAA GA-AAAA GAAAAA GAA
25137265 GAAAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:25138094 original size:7 final size:7
Alignment explanation
Indices: 25138082--25138108 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
25138072 GCTATAAATA
25138082 GAAGAAT
1 GAAGAAT
25138089 GAAGAAT
1 GAAGAAT
25138096 GAAGAAT
1 GAAGAAT
25138103 GAAGAA
1 GAAGAA
25138109 ATCATCAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.30, T:0.11
Consensus pattern (7 bp):
GAAGAAT
Found at i:25143925 original size:30 final size:30
Alignment explanation
Indices: 25143863--25143926 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
25143853 TGTTAATTTT
**
25143863 CAATCAATTAGAGTGATTAAGGGGATTACA
1 CAATCAATTAGAGTGAAAAAGGGGATTACA
* *
25143893 CAATCAATTTGAGT-AAAAAGGGGAATTGCA
1 CAATCAATTAGAGTGAAAAAGGGG-ATTACA
25143923 CAAT
1 CAAT
25143927 TAAAGGGGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (30 bp):
CAATCAATTAGAGTGAAAAAGGGGATTACA
Found at i:25150145 original size:24 final size:24
Alignment explanation
Indices: 25150081--25150146 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 24
25150071 CGACAAAAAT
* * *
25150081 TTCTTCCTTCTCTCCTTCTTTTCC
1 TTCTTCTTTCTCTCCTCCTTCTCC
25150105 TTCTTCATTT-TCCTCCTCCTTCT-C
1 TTCTTC-TTTCT-CTCCTCCTTCTCC
25150129 TTCTTCTTTCTCTTCCTC
1 TTCTTCTTTCTC-TCCTC
25150147 AATACCCATA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
23 4 0.11
24 20 0.57
25 11 0.31
ACGTcount: A:0.02, C:0.41, G:0.00, T:0.58
Consensus pattern (24 bp):
TTCTTCTTTCTCTCCTCCTTCTCC
Found at i:25158489 original size:15 final size:15
Alignment explanation
Indices: 25158482--25158529 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
25158472 GCTCGTAACT
25158482 TCCATGCTCGCAATA
1 TCCATGCTCGCAATA
** *
25158497 TCCATGCTCATACTA
1 TCCATGCTCGCAATA
* *
25158512 TTCATGCTCGCATTA
1 TCCATGCTCGCAATA
25158527 TCC
1 TCC
25158530 CCTCCCTCTT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.23, C:0.33, G:0.10, T:0.33
Consensus pattern (15 bp):
TCCATGCTCGCAATA
Found at i:25164953 original size:9 final size:9
Alignment explanation
Indices: 25164939--25165015 Score: 60
Period size: 9 Copynumber: 8.9 Consensus size: 9
25164929 AATGATTTTT
25164939 AAATTATTA
1 AAATTATTA
25164948 AAATTATT-
1 AAATTATTA
25164956 ---TT-TTA
1 AAATTATTA
25164961 AAA-TA-TA
1 AAATTATTA
25164968 AAATTATTA
1 AAATTATTA
25164977 AAATTATTTTAA
1 AAATTA--TT-A
*
25164989 AAATAACTTA
1 AAATTA-TTA
25164999 AAATTATTA
1 AAATTATTA
25165008 AAATTATT
1 AAATTATT
25165016 TTTTGAAATA
Statistics
Matches: 55, Mismatches: 3, Indels: 20
0.71 0.04 0.26
Matches are distributed among these distances:
4 2 0.04
5 2 0.04
7 6 0.11
8 2 0.04
9 27 0.49
10 6 0.11
11 4 0.07
12 6 0.11
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (9 bp):
AAATTATTA
Found at i:25164956 original size:20 final size:20
Alignment explanation
Indices: 25164928--25165036 Score: 73
Period size: 20 Copynumber: 5.4 Consensus size: 20
25164918 CCACATCAGC
*
25164928 AAATGATTTTTAAATTATTA
1 AAATTATTTTTAAATTATTA
*
25164948 AAATTATTTTTTAAAATA-TA
1 AAATTA-TTTTTAAATTATTA
*
25164968 AAATTA--TTAAAATTATTTTA
1 AAATTATTTTTAAATTA--TTA
* ** *
25164988 AAAATAACTTAAAATTATTA
1 AAATTATTTTTAAATTATTA
*
25165008 AAATTATTTTTTGAAA-TAATA
1 AAATTA-TTTTT-AAATTATTA
25165029 AAATTATT
1 AAATTATT
25165037 AAATAATTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
17 7 0.10
20 30 0.42
21 22 0.31
22 12 0.17
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (20 bp):
AAATTATTTTTAAATTATTA
Found at i:25164960 original size:21 final size:21
Alignment explanation
Indices: 25164934--25165036 Score: 74
Period size: 21 Copynumber: 5.0 Consensus size: 21
25164924 CAGCAAATGA
25164934 TTTTTAAATTATTAAAATTAT
1 TTTTTAAATTATTAAAATTAT
*
25164955 TTTTTAAAATA-TAAAATTA-
1 TTTTTAAATTATTAAAATTAT
* *
25164974 --TTAAAATTATTTTAAAAATA-
1 TTTTTAAATTA--TTAAAATTAT
** *
25164994 ACTTAAAATTATTAAAATTAT
1 TTTTTAAATTATTAAAATTAT
*
25165015 TTTTTGAAA-TAATAAAATTAT
1 TTTTT-AAATTATTAAAATTAT
25165036 T
1 T
25165037 AAATAATTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
17 7 0.11
20 23 0.35
21 24 0.36
22 12 0.18
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (21 bp):
TTTTTAAATTATTAAAATTAT
Found at i:25167608 original size:15 final size:15
Alignment explanation
Indices: 25167590--25167637 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
25167580 GGAAAATGAG
25167590 AAAAAGAAAGAAAAA
1 AAAAAGAAAGAAAAA
25167605 AAAAAGAAAAGATAAAA
1 AAAAAG-AAAGA-AAAA
*
25167622 GAAAAG-AAGAAAAA
1 AAAAAGAAAGAAAAA
25167636 AA
1 AA
25167638 TGTTTGCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 5 0.17
15 10 0.34
16 5 0.17
17 9 0.31
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (15 bp):
AAAAAGAAAGAAAAA
Found at i:25167614 original size:20 final size:20
Alignment explanation
Indices: 25167591--25167634 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
25167581 GAAAATGAGA
25167591 AAAAGA-AAGAAAAAAAAAAG
1 AAAAGATAA-AAAAAAAAAAG
* *
25167611 AAAAGATAAAAGAAAAGAAG
1 AAAAGATAAAAAAAAAAAAG
25167631 AAAA
1 AAAA
25167635 AAATGTTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (20 bp):
AAAAGATAAAAAAAAAAAAG
Found at i:25167621 original size:12 final size:12
Alignment explanation
Indices: 25167574--25167634 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
25167564 TCAGTCACTT
*
25167574 AGAAAAGGAAAA
1 AGAAAAGAAAAA
* *
25167586 TGAGAAA-AAGAA
1 AGA-AAAGAAAAA
25167598 AGAAAA-AAAAA
1 AGAAAAGAAAAA
*
25167609 AGAAAAGATAAA
1 AGAAAAGAAAAA
25167621 AGAAAAGAAGAAA
1 AGAAAAGAA-AAA
25167634 A
1 A
25167635 AAATGTTTGC
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
11 13 0.33
12 19 0.49
13 7 0.18
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (12 bp):
AGAAAAGAAAAA
Found at i:25170204 original size:279 final size:279
Alignment explanation
Indices: 25169704--25170263 Score: 1120
Period size: 279 Copynumber: 2.0 Consensus size: 279
25169694 TCCAGTGCTT
25169704 CCACAAATTGTTAATGATATACCACCACCATGTCCACAAGAAGAACAAGTGCAAAATAGGACAAT
1 CCACAAATTGTTAATGATATACCACCACCATGTCCACAAGAAGAACAAGTGCAAAATAGGACAAT
25169769 AAGAGATTTTGTTATGCCTATACTTTATGATTTACAACCTGGGGTTGTGAGACCAGCTATCCAAG
66 AAGAGATTTTGTTATGCCTATACTTTATGATTTACAACCTGGGGTTGTGAGACCAGCTATCCAAG
25169834 CTGGAAATTTTGAGCTAAAACTGGTGATGTTTCAGATGTTAAATTCTAATGGGCAATACTCTGGT
131 CTGGAAATTTTGAGCTAAAACTGGTGATGTTTCAGATGTTAAATTCTAATGGGCAATACTCTGGT
25169899 TTTCCTCATGAAGACGCAAGAGAACACTTAAATCATTTTTGCTTATTTGTGCATCCTTTAGTCAA
196 TTTCCTCATGAAGACGCAAGAGAACACTTAAATCATTTTTGCTTATTTGTGCATCCTTTAGTCAA
25169964 CATGGTGTCCCTGATGATG
261 CATGGTGTCCCTGATGATG
25169983 CCACAAATTGTTAATGATATACCACCACCATGTCCACAAGAAGAACAAGTGCAAAATAGGACAAT
1 CCACAAATTGTTAATGATATACCACCACCATGTCCACAAGAAGAACAAGTGCAAAATAGGACAAT
25170048 AAGAGATTTTGTTATGCCTATACTTTATGATTTACAACCTGGGGTTGTGAGACCAGCTATCCAAG
66 AAGAGATTTTGTTATGCCTATACTTTATGATTTACAACCTGGGGTTGTGAGACCAGCTATCCAAG
25170113 CTGGAAATTTTGAGCTAAAACTGGTGATGTTTCAGATGTTAAATTCTAATGGGCAATACTCTGGT
131 CTGGAAATTTTGAGCTAAAACTGGTGATGTTTCAGATGTTAAATTCTAATGGGCAATACTCTGGT
25170178 TTTCCTCATGAAGACGCAAGAGAACACTTAAATCATTTTTGCTTATTTGTGCATCCTTTAGTCAA
196 TTTCCTCATGAAGACGCAAGAGAACACTTAAATCATTTTTGCTTATTTGTGCATCCTTTAGTCAA
25170243 CATGGTGTCCCTGATGATG
261 CATGGTGTCCCTGATGATG
25170262 CC
1 CC
25170264 TTGAAAATAC
Statistics
Matches: 281, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
279 281 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (279 bp):
CCACAAATTGTTAATGATATACCACCACCATGTCCACAAGAAGAACAAGTGCAAAATAGGACAAT
AAGAGATTTTGTTATGCCTATACTTTATGATTTACAACCTGGGGTTGTGAGACCAGCTATCCAAG
CTGGAAATTTTGAGCTAAAACTGGTGATGTTTCAGATGTTAAATTCTAATGGGCAATACTCTGGT
TTTCCTCATGAAGACGCAAGAGAACACTTAAATCATTTTTGCTTATTTGTGCATCCTTTAGTCAA
CATGGTGTCCCTGATGATG
Found at i:25175451 original size:20 final size:21
Alignment explanation
Indices: 25175415--25175453 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25175405 ATTTTTGTTA
*
25175415 TTTACTTTTATTTGTTTCACT
1 TTTACTTTTAGTTGTTTCACT
25175436 TTTACTTTT-GTTGTTTCA
1 TTTACTTTTAGTTGTTTCA
25175454 AATTCCTTGC
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:0.13, C:0.13, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTACTTTTAGTTGTTTCACT
Found at i:25179903 original size:15 final size:15
Alignment explanation
Indices: 25179885--25179979 Score: 66
Period size: 15 Copynumber: 6.3 Consensus size: 15
25179875 CCTCCATCCA
25179885 TGCTCGCAACATCAG
1 TGCTCGCAACATCAG
* *
25179900 TGCTCGCAACCTCAA
1 TGCTCGCAACATCAG
*
25179915 TGCTCGTAACATCCA-
1 TGCTCGCAACAT-CAG
* * * *
25179930 TGTTTGCAACTTCAA
1 TGCTCGCAACATCAG
**
25179945 TGCTCGCAACATTTG
1 TGCTCGCAACATCAG
* * *
25179960 TGTTCACAACATTAG
1 TGCTCGCAACATCAG
25179975 TGCTC
1 TGCTC
25179980 ATAACTTCCA
Statistics
Matches: 60, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
14 2 0.03
15 56 0.93
16 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (15 bp):
TGCTCGCAACATCAG
Found at i:25179920 original size:30 final size:30
Alignment explanation
Indices: 25179884--25179956 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
25179874 TCCTCCATCC
25179884 ATGCTCGCAACAT-CAGTGCTCGCAACCTCA
1 ATGCTCGCAACATCCA-TGCTCGCAACCTCA
* * * *
25179914 ATGCTCGTAACATCCATGTTTGCAACTTCA
1 ATGCTCGCAACATCCATGCTCGCAACCTCA
25179944 ATGCTCGCAACAT
1 ATGCTCGCAACAT
25179957 TTGTGTTCAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 35 0.95
31 2 0.05
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (30 bp):
ATGCTCGCAACATCCATGCTCGCAACCTCA
Found at i:25179995 original size:15 final size:16
Alignment explanation
Indices: 25179975--25180025 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
25179965 ACAACATTAG
25179975 TGCTCATAACT-TCCA
1 TGCTCATAACTATCCA
* *
25179990 TGCTCACAA-TGTCCA
1 TGCTCATAACTATCCA
*
25180005 TGCTCGT-ACTATCCA
1 TGCTCATAACTATCCA
25180020 TGCTCA
1 TGCTCA
25180026 CATAAGTGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 2 0.07
15 27 0.93
ACGTcount: A:0.24, C:0.33, G:0.12, T:0.31
Consensus pattern (16 bp):
TGCTCATAACTATCCA
Found at i:25181441 original size:35 final size:35
Alignment explanation
Indices: 25181402--25181477 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
25181392 AAGCTAATAT
*
25181402 ATTTTGTTTAACTTGACTTGAAAGCAATCTCTTAG
1 ATTTTGTTTAACTTGACTTGAAACCAATCTCTTAG
*
25181437 ATTTTGTTTAACTTGACTTGCAACCAATCTCTTAG
1 ATTTTGTTTAACTTGACTTGAAACCAATCTCTTAG
*
25181472 AATTTG
1 ATTTTG
25181478 GGTCACACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (35 bp):
ATTTTGTTTAACTTGACTTGAAACCAATCTCTTAG
Done.