Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 198 of 211
Found at i:61157068 original size:30 final size:30
Alignment explanation
Indices: 61157012--61157070 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
61157002 ATTAATATAA
* **
61157012 TTTTTAATATAAATTTTTATCATATTTATT
1 TTTTTAATATAAATATTTAAAATATTTATT
61157042 TTTTTAATAT-AATATTTAAAATTATTTAT
1 TTTTTAATATAAATATTTAAAA-TATTTAT
61157071 AATTTATCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (30 bp):
TTTTTAATATAAATATTTAAAATATTTATT
Found at i:61158807 original size:26 final size:26
Alignment explanation
Indices: 61158771--61158821 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
61158761 GGGTCCCGTA
*
61158771 GCAAGGCGAGTTTGTAGG-TACAGTTC
1 GCAAGGAGAGTTTGT-GGATACAGTTC
61158797 GCAAGGAGAGTTTGTGGATACAGTT
1 GCAAGGAGAGTTTGTGGATACAGTT
61158822 TGCTGAGGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.25, C:0.12, G:0.35, T:0.27
Consensus pattern (26 bp):
GCAAGGAGAGTTTGTGGATACAGTTC
Found at i:61164593 original size:5 final size:5
Alignment explanation
Indices: 61164579--61164615 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
61164569 AATCACTTTT
*
61164579 AAGAA TAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AA
61164616 AAACTACCGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (5 bp):
AAGAA
Found at i:61165323 original size:21 final size:21
Alignment explanation
Indices: 61165299--61165338 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
61165289 TTAAAATCAT
*
61165299 ATTCGAATAA-AAAGAAAACAC
1 ATTCAAATAACAAA-AAAACAC
61165320 ATTCAAATAACAAAAAAAC
1 ATTCAAATAACAAAAAAAC
61165339 TTTATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.65, C:0.15, G:0.05, T:0.15
Consensus pattern (21 bp):
ATTCAAATAACAAAAAAACAC
Found at i:61166375 original size:31 final size:33
Alignment explanation
Indices: 61166315--61166377 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
61166305 TACTTTTAAT
*
61166315 TTAATATATTTTAATTTATTAAATATATATAAA
1 TTAATATATTTTAATATATTAAATATATATAAA
* *
61166348 TTAATATTTTTTAATAT-TTACAT-TATATAA
1 TTAATATATTTTAATATATTAAATATATATAA
61166378 TCATATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 7 0.26
32 5 0.19
33 15 0.56
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (33 bp):
TTAATATATTTTAATATATTAAATATATATAAA
Found at i:61166911 original size:30 final size:30
Alignment explanation
Indices: 61166875--61166936 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
61166865 GTCGAGCTTC
*
61166875 TTCCAACCGCCCTGCTTTTCTCGGTAAGTT
1 TTCCAACAGCCCTGCTTTTCTCGGTAAGTT
* *
61166905 TTCCAACAGCTCTGCTTTTCTCGTTAAGTT
1 TTCCAACAGCCCTGCTTTTCTCGGTAAGTT
61166935 TT
1 TT
61166937 TACCTTCGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.42
Consensus pattern (30 bp):
TTCCAACAGCCCTGCTTTTCTCGGTAAGTT
Found at i:61167863 original size:117 final size:117
Alignment explanation
Indices: 61167655--61167878 Score: 281
Period size: 117 Copynumber: 1.9 Consensus size: 117
61167645 GCACATTCTT
* * * * * *
61167655 CTGAGAATGTTGGAACTCCGGAGAAGAATTTTGATCAACAGACTATGAAGGATAATGTCTCTGCT
1 CTGAGAATGTTGGAAATCAGGAGAAGAATTTGGATCAACAGACTATGAAAGAGAATGTCTCCGCT
** *
61167720 ACATATGCTTCGACTTTCCAGAATTTTTTTCGTCCTTTAGGTGAACAATCTA
66 ACATATGCTTCGACTTTCCAGAATTTTACTCGTCCTTCAGGTGAACAATCTA
* *
61167772 CTGAGAATGTTGGAAATCTAGG-GAGGAATTTGGATCAACAGGC-AGTGAAAGAGAATGTCTCCG
1 CTGAGAATGTTGGAAATC-AGGAGAAGAATTTGGATCAACAGACTA-TGAAAGAGAATGTCTCCG
* * * *
61167835 CTAGATATGCTTCGGCTTTCCGGGATTTTACTCGTCCTTCAGGT
64 CTACATATGCTTCGACTTTCCAGAATTTTACTCGTCCTTCAGGT
61167879 CAAACAGAAT
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
116 1 0.01
117 87 0.97
118 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (117 bp):
CTGAGAATGTTGGAAATCAGGAGAAGAATTTGGATCAACAGACTATGAAAGAGAATGTCTCCGCT
ACATATGCTTCGACTTTCCAGAATTTTACTCGTCCTTCAGGTGAACAATCTA
Found at i:61169408 original size:34 final size:34
Alignment explanation
Indices: 61169339--61169412 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
61169329 TTTTATGTTG
* * * **
61169339 TTTTTTTATATATTTTTTTTGAAATTTGAGTTTA
1 TTTTTTAAAATATTTTTTTTAAAATTTGAAATTA
61169373 TTTTTTAAAATATTTTTTTATAAAATTT-AAATTA
1 TTTTTTAAAATATTTTTTT-TAAAATTTGAAATTA
61169407 TTTTTT
1 TTTTTT
61169413 GATGTGGTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 27 0.79
35 7 0.21
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (34 bp):
TTTTTTAAAATATTTTTTTTAAAATTTGAAATTA
Found at i:61172903 original size:25 final size:26
Alignment explanation
Indices: 61172836--61172907 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 26
61172826 AAAATTTTCT
* *
61172836 TTAAAAATGTTAAATTTTATACAAAATA
1 TTAAAAA-G-TAAATTATATTCAAAATA
*
61172864 TTAAAAAGTAAATTATATTCATAATA
1 TTAAAAAGTAAATTATATTCAAAATA
*
61172890 TTATAAA-TAAATTATATT
1 TTAAAAAGTAAATTATATT
61172908 TTAAAAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 11 0.28
26 21 0.52
27 1 0.03
28 7 0.17
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (26 bp):
TTAAAAAGTAAATTATATTCAAAATA
Found at i:61182487 original size:90 final size:90
Alignment explanation
Indices: 61181928--61182475 Score: 853
Period size: 90 Copynumber: 6.1 Consensus size: 90
61181918 ACTGTTTGAA
* * *
61181928 CGTCGCCGTCTTCTCCAAGATGAAGATCAACTTCCGGTTGTCGGCCATTCTGATTGGACTTCTTT
1 CGTCGCCGTCTTCTCCAAGACGAAGATCAACTTCCGGTTGTCGGCCATTCCGATTGGACATCTTT
61181993 TTTAGAACGAAACAAGGAATGGAAT
66 TTTAGAACGAAACAAGGAATGGAAT
* *
61182018 CGTCGCCGTCTTCTCCAAGACGAAGATCAACTTCCGGTTGTCGGCCATTCTGATTGGACTTCTTT
1 CGTCGCCGTCTTCTCCAAGACGAAGATCAACTTCCGGTTGTCGGCCATTCCGATTGGACATCTTT
61182083 TTTAGAACGAAACAAGGAATGGAAT
66 TTTAGAACGAAACAAGGAATGGAAT
* *
61182108 CGTCGCCGTCTTCTCCAAGACGAAGATCAACTTCCGGTTGTCGGCCATTCTGATTGGACTTCTTT
1 CGTCGCCGTCTTCTCCAAGACGAAGATCAACTTCCGGTTGTCGGCCATTCCGATTGGACATCTTT
61182173 TTTAGAACGAAACAAGGAATGGAAT
66 TTTAGAACGAAACAAGGAATGGAAT
** * * * *
61182198 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGACTGGACATCCTT
1 CGTCGCCGTCTTCTCCAAGACGAAGATCAACTTCCGGTTGTCGGCCATTCCGATTGGACATCTTT
61182263 TTTAGAACGAAACAAGGAATGGAAT
66 TTTAGAACGAAACAAGGAATGGAAT
** * * * *
61182288 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTATTGGCCATTCCGACTGGACATCCTT
1 CGTCGCCGTCTTCTCCAAGACGAAGATCAACTTCCGGTTGTCGGCCATTCCGATTGGACATCTTT
*
61182353 TTTAGAACGAAACAGGGAATGGAAT
66 TTTAGAACGAAACAAGGAATGGAAT
** *
61182378 CGTCGCCGTCTTCTCCAAGACGAAGATGGACTTCCGGTTGTCGGCCATTCCGATTGGACATCATT
1 CGTCGCCGTCTTCTCCAAGACGAAGATCAACTTCCGGTTGTCGGCCATTCCGATTGGACATCTTT
* * *
61182443 TTTAGAACGGAACAAGGATTGGAAC
66 TTTAGAACGAAACAAGGAATGGAAT
*
61182468 CGCCGCCG
1 CGTCGCCG
61182476 GATGCTCCAA
Statistics
Matches: 439, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 439 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (90 bp):
CGTCGCCGTCTTCTCCAAGACGAAGATCAACTTCCGGTTGTCGGCCATTCCGATTGGACATCTTT
TTTAGAACGAAACAAGGAATGGAAT
Found at i:61183677 original size:51 final size:51
Alignment explanation
Indices: 61183643--61183983 Score: 504
Period size: 51 Copynumber: 6.7 Consensus size: 51
61183633 GACAAAGGGT
* * * * *
61183643 TGATCCCTA-CGTCCCCAGATGTTCCCGCTAGTAAACCCGAAAACAATGGGT
1 TGATCCCTATC-TCCCCAGATCTTTCCGCTAGTAAACCTGAAAATAATGGGG
* * * * * * * * *
61183694 TCATCCCTACCTCCCCAGATGTTCCCGCTAGTAATCCCGAAAACAGTGGGT
1 TGATCCCTATCTCCCCAGATCTTTCCGCTAGTAAACCTGAAAATAATGGGG
61183745 TGATCCCTATCTCCCCAGATCTTTCCGCTAGTAAACCTGAAAATAATGGGG
1 TGATCCCTATCTCCCCAGATCTTTCCGCTAGTAAACCTGAAAATAATGGGG
*
61183796 TGATGCCTATCTCCCCAGATCTTTCCGCTAGTAAACCTGAAAATAATGGGG
1 TGATCCCTATCTCCCCAGATCTTTCCGCTAGTAAACCTGAAAATAATGGGG
*
61183847 TGATGCCTATCTCCCCAGATCTTTCCGCTAGTAAACCTGAAAATAATGGGG
1 TGATCCCTATCTCCCCAGATCTTTCCGCTAGTAAACCTGAAAATAATGGGG
*
61183898 TGATCCCTATCTCCCCAGATCTTTCGGCTAGTAAACCTGAAAATAATGGGG
1 TGATCCCTATCTCCCCAGATCTTTCCGCTAGTAAACCTGAAAATAATGGGG
*
61183949 TGATCCCTATCTCCCCAAATCTTTCCGCTAGTAAA
1 TGATCCCTATCTCCCCAGATCTTTCCGCTAGTAAA
61183984 GCCGCACACA
Statistics
Matches: 272, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
51 271 1.00
52 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (51 bp):
TGATCCCTATCTCCCCAGATCTTTCCGCTAGTAAACCTGAAAATAATGGGG
Found at i:61184056 original size:21 final size:21
Alignment explanation
Indices: 61184032--61184079 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
61184022 ACACAAGAAA
61184032 AAGAAGCACCATGGAAAAGGG
1 AAGAAGCACCATGGAAAAGGG
* *
61184053 AAGAAGCACCGTGGGAAAGGG
1 AAGAAGCACCATGGAAAAGGG
61184074 AAGAAG
1 AAGAAG
61184080 AAAGGGAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.46, C:0.12, G:0.38, T:0.04
Consensus pattern (21 bp):
AAGAAGCACCATGGAAAAGGG
Found at i:61185748 original size:64 final size:65
Alignment explanation
Indices: 61185647--61185776 Score: 253
Period size: 64 Copynumber: 2.0 Consensus size: 65
61185637 GTCTGATAGG
61185647 AACAATGTTTGGTTTAGAAAATAATGCAATTTTCGAACCGTTGGGTCTAGACTCCTTGA-TATAT
1 AACAATGTTTGGTTTAGAAAATAATGCAATTTTCGAACCGTTGGGTCTAGACTCCTTGATTATAT
61185711 AACAATGTTTGGTTTAGAAAATAATGCAATTTTCGAACCGTTGGGTCTAGACTCCTTGATTATAT
1 AACAATGTTTGGTTTAGAAAATAATGCAATTTTCGAACCGTTGGGTCTAGACTCCTTGATTATAT
61185776 A
1 A
61185777 TATCATTATC
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
64 59 0.91
65 6 0.09
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (65 bp):
AACAATGTTTGGTTTAGAAAATAATGCAATTTTCGAACCGTTGGGTCTAGACTCCTTGATTATAT
Found at i:61190222 original size:18 final size:17
Alignment explanation
Indices: 61190195--61190228 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
61190185 CCATTCAAAG
*
61190195 AGGCACAAGAAGAGTGAA
1 AGGCAAAAGAAG-GTGAA
61190213 AGGCAAAAGAAGGTGA
1 AGGCAAAAGAAGGTGA
61190229 GTTTTTGGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.50, C:0.09, G:0.35, T:0.06
Consensus pattern (17 bp):
AGGCAAAAGAAGGTGAA
Found at i:61197369 original size:26 final size:26
Alignment explanation
Indices: 61197340--61197424 Score: 106
Period size: 26 Copynumber: 3.3 Consensus size: 26
61197330 TGTTAAATTG
61197340 TTTGCTTTTTGATGTTTGCTTATAAT
1 TTTGCTTTTTGATGTTTGCTTATAAT
61197366 TTTGCTTGATTT-AT-TTTG-TTA-AATT
1 TTTGCTT--TTTGATGTTTGCTTATAA-T
61197391 GTTTGCTTTTTGATGTTTGCTTATAAT
1 -TTTGCTTTTTGATGTTTGCTTATAAT
61197418 TTTGCTT
1 TTTGCTT
61197425 GATTTGGTCT
Statistics
Matches: 51, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
24 5 0.10
25 6 0.12
26 29 0.57
27 6 0.12
28 5 0.10
ACGTcount: A:0.15, C:0.07, G:0.15, T:0.62
Consensus pattern (26 bp):
TTTGCTTTTTGATGTTTGCTTATAAT
Found at i:61197402 original size:52 final size:52
Alignment explanation
Indices: 61197324--61197429 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
61197314 GAATGATGGC
61197324 TTATTTTGTTAAATTGTTTGCTTTTTGATGTTTGCTTATAATTTTGCTTGAT
1 TTATTTTGTTAAATTGTTTGCTTTTTGATGTTTGCTTATAATTTTGCTTGAT
61197376 TTATTTTGTTAAATTGTTTGCTTTTTGATGTTTGCTTATAATTTTGCTTGAT
1 TTATTTTGTTAAATTGTTTGCTTTTTGATGTTTGCTTATAATTTTGCTTGAT
61197428 TT
1 TT
61197430 GGTCTTCAGG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.17, C:0.06, G:0.15, T:0.62
Consensus pattern (52 bp):
TTATTTTGTTAAATTGTTTGCTTTTTGATGTTTGCTTATAATTTTGCTTGAT
Found at i:61203988 original size:25 final size:27
Alignment explanation
Indices: 61203935--61203988 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
61203925 AACCAGAAAA
61203935 ACAAAGAAACGTGCCAAACTACGGCAG
1 ACAAAGAAACGTGCCAAACTACGGCAG
61203962 ACAAAGAAACGTGCC-AA-TACGGCAG
1 ACAAAGAAACGTGCCAAACTACGGCAG
61203987 AC
1 AC
61203989 TTATCTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 10 0.37
26 2 0.07
27 15 0.56
ACGTcount: A:0.44, C:0.26, G:0.22, T:0.07
Consensus pattern (27 bp):
ACAAAGAAACGTGCCAAACTACGGCAG
Found at i:61215242 original size:41 final size:41
Alignment explanation
Indices: 61215179--61215256 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
61215169 ATACAATCAC
* *
61215179 AATTCAATTCAAATTCACTTTCCAC-TTTCTAATCAATATAT
1 AATTCAATACAAATACACTTTCCACTTTTC-AATCAATATAT
* *
61215220 AATTCAATACTAATACATTTTCCACTTTTCAATCAAT
1 AATTCAATACAAATACACTTTCCACTTTTCAATCAAT
61215257 GTACCATCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 28 0.88
42 4 0.12
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (41 bp):
AATTCAATACAAATACACTTTCCACTTTTCAATCAATATAT
Found at i:61226709 original size:9 final size:10
Alignment explanation
Indices: 61226690--61226727 Score: 51
Period size: 9 Copynumber: 3.7 Consensus size: 10
61226680 TTATTTAAGT
61226690 TATACATATATA
1 TATA-ATATA-A
61226702 TATAATATAA
1 TATAATATAA
61226712 TATAAT-TAA
1 TATAATATAA
61226721 TATAATA
1 TATAATA
61226728 CTTATTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 9 0.36
10 7 0.28
11 5 0.20
12 4 0.16
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (10 bp):
TATAATATAA
Found at i:61226711 original size:5 final size:5
Alignment explanation
Indices: 61226690--61226727 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
61226680 TTATTTAAGT
61226690 TATACA TATATA TATAA TATAA TATAA T-TAA TATAA TA
1 TATA-A TATA-A TATAA TATAA TATAA TATAA TATAA TA
61226728 CTTATTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
4 4 0.13
5 17 0.57
6 9 0.30
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:61228601 original size:42 final size:42
Alignment explanation
Indices: 61228555--61228689 Score: 114
Period size: 42 Copynumber: 3.2 Consensus size: 42
61228545 TTTCATCACT
61228555 AATTCACTAACATATATAGTCATCAACAGCCCCATATCATCC
1 AATTCACTAACATATATAGTCATCAACAGCCCCATATCATCC
* * * ** **** * *
61228597 AATTCACTCACGA-ATCTTATTCGGAAGAA-ATTTTCAGATCA-CT
1 AATTCACTAAC-ATAT-ATAGTC--ATCAACAGCCCCATATCATCC
61228640 AATTCACTAACATATATAGTCATCAACAGCCCCATATCATCC
1 AATTCACTAACATATATAGTCATCAACAGCCCCATATCATCC
61228682 AATTCACT
1 AATTCACT
61228690 CACGAATCTT
Statistics
Matches: 64, Mismatches: 22, Indels: 14
0.64 0.22 0.14
Matches are distributed among these distances:
40 3 0.05
41 7 0.11
42 26 0.41
43 18 0.28
44 7 0.11
45 3 0.05
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.29
Consensus pattern (42 bp):
AATTCACTAACATATATAGTCATCAACAGCCCCATATCATCC
Found at i:61228686 original size:85 final size:85
Alignment explanation
Indices: 61228549--61228718 Score: 340
Period size: 85 Copynumber: 2.0 Consensus size: 85
61228539 TTGCAATTTC
61228549 ATCACTAATTCACTAACATATATAGTCATCAACAGCCCCATATCATCCAATTCACTCACGAATCT
1 ATCACTAATTCACTAACATATATAGTCATCAACAGCCCCATATCATCCAATTCACTCACGAATCT
61228614 TATTCGGAAGAAATTTTCAG
66 TATTCGGAAGAAATTTTCAG
61228634 ATCACTAATTCACTAACATATATAGTCATCAACAGCCCCATATCATCCAATTCACTCACGAATCT
1 ATCACTAATTCACTAACATATATAGTCATCAACAGCCCCATATCATCCAATTCACTCACGAATCT
61228699 TATTCGGAAGAAATTTTCAG
66 TATTCGGAAGAAATTTTCAG
61228719 TTAACTCATT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.29
Consensus pattern (85 bp):
ATCACTAATTCACTAACATATATAGTCATCAACAGCCCCATATCATCCAATTCACTCACGAATCT
TATTCGGAAGAAATTTTCAG
Found at i:61233964 original size:27 final size:27
Alignment explanation
Indices: 61233934--61233985 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
61233924 GCTTAATAGC
61233934 CACTATTTCGCAGTAGCAGCGGCGTAT
1 CACTATTTCGCAGTAGCAGCGGCGTAT
61233961 CACTATTTCGCAGTAGCAGCGGCGT
1 CACTATTTCGCAGTAGCAGCGGCGT
61233986 GCGCCACCGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (27 bp):
CACTATTTCGCAGTAGCAGCGGCGTAT
Found at i:61239349 original size:26 final size:26
Alignment explanation
Indices: 61239313--61239375 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
61239303 AGAGGATAAT
* *
61239313 AAAGGAAGCTCACGGACCTAGCTCGC
1 AAAGGGAGCTCACGGACCTAACTCGC
* *
61239339 AAAGGGAGCTCATGGATCTAACTCGC
1 AAAGGGAGCTCACGGACCTAACTCGC
61239365 -AAGGAGAGCTC
1 AAAGG-GAGCTC
61239376 GCACGAACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 4 0.12
26 28 0.88
ACGTcount: A:0.32, C:0.25, G:0.29, T:0.14
Consensus pattern (26 bp):
AAAGGGAGCTCACGGACCTAACTCGC
Found at i:61244535 original size:13 final size:13
Alignment explanation
Indices: 61244516--61244554 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
61244506 TGTATGTACA
* *
61244516 AAAAAAAGAAGAT
1 AAAAAACGAAAAT
61244529 GAAAAAACGAAAAT
1 -AAAAAACGAAAAT
61244543 AAAAAACGAAAA
1 AAAAAACGAAAA
61244555 GAATAAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.77, C:0.05, G:0.13, T:0.05
Consensus pattern (13 bp):
AAAAAACGAAAAT
Found at i:61245377 original size:49 final size:49
Alignment explanation
Indices: 61245207--61245569 Score: 158
Period size: 49 Copynumber: 7.6 Consensus size: 49
61245197 CGCCAATGAT
** * *
61245207 GTGAGATTCGATGTTGTAGCTTCAATCTATTTGACTGCAATGTTGGGGAA
1 GTGAGATTCGCCGTTGTAGCTTCAATCTATTTAATTGCAATG-TGGGGAA
* * * * ** * ** **
61245257 GCGAGATTCGCCATCGTAGCTTCAATCTGTTCCATTACACCGTAAGGAA
1 GTGAGATTCGCCGTTGTAGCTTCAATCTATTTAATTGCAATGTGGGGAA
* * * *
61245306 ATGAGATTTGCCGTTATGGCTTCAATCT-TTTAATTGCAATGTCGGGGAA
1 GTGAGATTCGCCGTTGTAGCTTCAATCTATTTAATTGCAATGT-GGGGAA
* * * **** ***
61245355 GTGAGACTCGCTGTTGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGAA
1 GTGAGATTCGCCGTTGTAGCTTCAATCTATTTAATTGCAAT-GTGGGGAA
* * * *
61245404 GTAAGATTCACCGTTGTGGCTTCAATC----T-ATCGCAA--TGGGGAA
1 GTGAGATTCGCCGTTGTAGCTTCAATCTATTTAATTGCAATGTGGGGAA
* * * **** ***
61245446 GTGAGACTCGTCGTTGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGAA
1 GTGAGATTCGCCGTTGTAGCTTCAATCTATTTAATTGCAAT-GTGGGGAA
* * * *
61245495 ATAAGATTCGCCGTTGTGGCTTCGATCT-TTTAAATTGCAA--TGGGGAA
1 GTGAGATTCGCCGTTGTAGCTTCAATCTATTT-AATTGCAATGTGGGGAA
*
61245542 GTGAGACTCGCCGTTGTAGCTTCAATCT
1 GTGAGATTCGCCGTTGTAGCTTCAATCT
61245570 GTTCCGCTGC
Statistics
Matches: 216, Mismatches: 83, Indels: 31
0.65 0.25 0.09
Matches are distributed among these distances:
42 26 0.12
44 2 0.01
45 1 0.00
46 1 0.00
47 29 0.13
48 11 0.05
49 109 0.50
50 37 0.17
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (49 bp):
GTGAGATTCGCCGTTGTAGCTTCAATCTATTTAATTGCAATGTGGGGAA
Found at i:61245585 original size:96 final size:95
Alignment explanation
Indices: 61245106--61245631 Score: 486
Period size: 96 Copynumber: 5.4 Consensus size: 95
61245096 CCTGTTGAGA
* * ** *** ** *
61245106 AAATAAGATTCGCCGTTGCGGCTTCAATCTTCTAGCTGCAATGCCGGGAAAACAAGGTTCGCCAT
1 AAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAATTGCAATG--GGG-AAGTGAGACTCGCCGT
* * *
61245171 TGTAGTTTCAATCTGTTCCACTGTATCGCCAAT-G
63 TGTAGCTTCAATCTGTTCCGCTGCATCGCC--TGG
** * ** * * * * * *
61245205 ATGTGAGATTCGATGTTGTAGCTTCAATCTATTTGACTGCAATGTTGGGGAAGCGAGATTCGCCA
1 AAATAAGATTCGCCGTTGTGGCTTCAATCT-TTTAATTGCAA---TGGGGAAGTGAGACTCGCCG
* ** * * ***
61245270 TCGTAGCTTCAATCTGTTCCATTACACCGTAAGG
62 TTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGG
* * * *
61245304 AAATGAGATTTGCCGTTATGGCTTCAATCTTTTAATTGCAATGTCGGGGAAGTGAGACTCGCTGT
1 AAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAATTGCAA--T-GGGGAAGTGAGACTCGCCGT
61245369 TGTAGCTTCAATCTGTTCCGCTGCATCGCCTGG
63 TGTAGCTTCAATCTGTTCCGCTGCATCGCCTGG
* * * *
61245402 AAGTAAGATTCACCGTTGTGGCTTCAATC---T-ATCGCAATGGGGAAGTGAGACTCGTCGTTGT
1 AAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAATTGCAATGGGGAAGTGAGACTCGCCGTTGT
61245463 AGCTTCAATCTGTTCCGCTGCATCGCCTGG
66 AGCTTCAATCTGTTCCGCTGCATCGCCTGG
*
61245493 AAATAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGGGGAAGTGAGACTCGCCGTTG
1 AAATAAGATTCGCCGTTGTGGCTTCAATCTTTT-AATTGCAATGGGGAAGTGAGACTCGCCGTTG
61245558 TAGCTTCAATCTGTTCCGCTGCATCGCCTGG
65 TAGCTTCAATCTGTTCCGCTGCATCGCCTGG
* * * *
61245589 AAGTAAGATTCGTCATTGTGGCTTCGATCTTTTAAATTGCAAT
1 AAATAAGATTCGCCGTTGTGGCTTCAATCTTTT-AATTGCAAT
61245632 CTATGGTTAC
Statistics
Matches: 355, Mismatches: 61, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
91 77 0.22
92 1 0.00
94 7 0.02
95 1 0.00
96 99 0.28
97 1 0.00
98 74 0.21
99 47 0.13
100 43 0.12
101 3 0.01
103 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (95 bp):
AAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAATTGCAATGGGGAAGTGAGACTCGCCGTTGT
AGCTTCAATCTGTTCCGCTGCATCGCCTGG
Found at i:61250577 original size:13 final size:14
Alignment explanation
Indices: 61250552--61250580 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
61250542 AATTTTAAAT
61250552 ATTATATTAAAAAA
1 ATTATATTAAAAAA
61250566 ATTATA-TAAAAAA
1 ATTATATTAAAAAA
61250579 AT
1 AT
61250581 ATAATCAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATTATATTAAAAAA
Found at i:61268618 original size:31 final size:31
Alignment explanation
Indices: 61268549--61268619 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
61268539 GGTTTATGTT
**
61268549 TTTTATAAAAATTAATATTATTTTTAATTTAA
1 TTTT-TAAAAATTAATATTATTTTTAATACAA
* *
61268581 TATTTAATAATTCAAT-TTATTTTTAATACAA
1 TTTTTAAAAATT-AATATTATTTTTAATACAA
61268612 TTTTTAAA
1 TTTTTAAA
61268620 TATAATCTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
31 26 0.81
32 6 0.19
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (31 bp):
TTTTTAAAAATTAATATTATTTTTAATACAA
Found at i:61268749 original size:10 final size:11
Alignment explanation
Indices: 61268718--61268750 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
61268708 TATGTAAAAA
61268718 TATAATAATTGT
1 TATAATAA-TGT
61268730 TATAATAATGT
1 TATAATAATGT
61268741 TAT-ATAATGT
1 TATAATAATGT
61268751 GTTGGAGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 6 0.29
12 8 0.38
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (11 bp):
TATAATAATGT
Found at i:61271766 original size:43 final size:42
Alignment explanation
Indices: 61271620--61271778 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 42
61271610 AATGTGATAT
* * * *
61271620 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTAAGATTTA
1 CGTGTAAGACCATGTCTGGGACATTGACATCG-TATATGA-TTA
* *
61271664 CGTGTAAGACCATGTCTGGGACATTGGCGTCGTATATGATTA
1 CGTGTAAGACCATGTCTGGGACATTGACATCGTATATGATTA
* *
61271706 CGTGTAAGACCTTGTCTGGGAC-TGTGACATCGTTATTTGATTA
1 CGTGTAAGACCATGTCTGGGACAT-TGACATCG-TATATGATTA
* * *
61271749 CATGTAATACCACGTCTGGGACATTGACAT
1 CGTGTAAGACCATGTCTGGGACATTGACAT
61271779 TGTACGAGCC
Statistics
Matches: 100, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.01
42 30 0.30
43 38 0.38
44 31 0.31
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACATTGACATCGTATATGATTA
Found at i:61285659 original size:45 final size:44
Alignment explanation
Indices: 61285596--61285684 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 44
61285586 AGCTTGTGTG
* *
61285596 CATCAATAACCTATCACATTTTTGCTCATGCTTATGAACTTAGT
1 CATCAATAACCTATCACATTTTTGCTCATGCTCATGAACATAGT
*
61285640 CATCAATTAACCTATCACATTTTTGCTCATGGTCATGAACATAGT
1 CATCAA-TAACCTATCACATTTTTGCTCATGCTCATGAACATAGT
61285685 GATTTCTTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 6 0.15
45 35 0.85
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.37
Consensus pattern (44 bp):
CATCAATAACCTATCACATTTTTGCTCATGCTCATGAACATAGT
Found at i:61290630 original size:25 final size:24
Alignment explanation
Indices: 61290571--61290623 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
61290561 TTTCTAGAAG
*
61290571 ATTTAATATTTATTAGTATAATAT
1 ATTTAATATTTATTAGTATAAAAT
*
61290595 ATTTAACATTTATTAGTATAAAAAT
1 ATTTAATATTTATTAGTAT-AAAAT
61290620 ATTT
1 ATTT
61290624 GTTATTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (24 bp):
ATTTAATATTTATTAGTATAAAAT
Found at i:61301779 original size:18 final size:18
Alignment explanation
Indices: 61301727--61301782 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
61301717 TTCATAACAC
*
61301727 TTTTTTATAAATAATATAA
1 TTTTTTATAAATAA-ATTA
* *
61301746 TTTTTTTGTCAA-AAATTA
1 -TTTTTTATAAATAAATTA
61301764 TTTTTTATAAATAAATTA
1 TTTTTTATAAATAAATTA
61301782 T
1 T
61301783 GATAAAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
17 9 0.30
18 10 0.33
19 2 0.07
20 9 0.30
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
TTTTTTATAAATAAATTA
Found at i:61313808 original size:42 final size:42
Alignment explanation
Indices: 61313729--61313808 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
61313719 TTTATTATAA
* *
61313729 TATAATATATAATATATATACTTAACATTTAAGTTTTAATAT
1 TATAATATAAAATATATATACTTAACATTTAAATTTTAATAT
*
61313771 TATAATATTAAAATATATAT-TTTAAC-TTTAAAATTTTA
1 TATAATA-TAAAATATATATACTTAACATTT-AAATTTTA
61313809 TAATAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 3 0.09
42 19 0.58
43 11 0.33
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (42 bp):
TATAATATAAAATATATATACTTAACATTTAAATTTTAATAT
Found at i:61319108 original size:81 final size:81
Alignment explanation
Indices: 61318973--61319134 Score: 324
Period size: 81 Copynumber: 2.0 Consensus size: 81
61318963 TCACACCAAC
61318973 TTTTAATATATGTATGATAGTTATGTTATATGTTCAGTCACAATAATTTTTAATAATATAAATAG
1 TTTTAATATATGTATGATAGTTATGTTATATGTTCAGTCACAATAATTTTTAATAATATAAATAG
61319038 GTAAATTTTTTAACAT
66 GTAAATTTTTTAACAT
61319054 TTTTAATATATGTATGATAGTTATGTTATATGTTCAGTCACAATAATTTTTAATAATATAAATAG
1 TTTTAATATATGTATGATAGTTATGTTATATGTTCAGTCACAATAATTTTTAATAATATAAATAG
61319119 GTAAATTTTTTAACAT
66 GTAAATTTTTTAACAT
61319135 AAATGATTAA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (81 bp):
TTTTAATATATGTATGATAGTTATGTTATATGTTCAGTCACAATAATTTTTAATAATATAAATAG
GTAAATTTTTTAACAT
Found at i:61320697 original size:25 final size:27
Alignment explanation
Indices: 61320647--61320697 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
61320637 TAATAAATTT
*
61320647 TAAAAAATATGTATACTTAAATAATAC
1 TAAAAAATATGTATACTTAAACAATAC
61320674 TAAAATAA-ATGTA-ACTT-AACAATA
1 TAAAA-AATATGTATACTTAAACAATA
61320698 AAATATCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 6 0.27
26 4 0.18
27 10 0.45
28 2 0.09
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.31
Consensus pattern (27 bp):
TAAAAAATATGTATACTTAAACAATAC
Found at i:61334034 original size:105 final size:105
Alignment explanation
Indices: 61333847--61334038 Score: 242
Period size: 105 Copynumber: 1.8 Consensus size: 105
61333837 TATAGGTAAC
* ** *
61333847 AACATCAGGCTCAATGCCCTGCTTTATCATTGTGTCAACAATATCTTTAGCTTTAGAAAGCATCC
1 AACATCAGGCTCAATGCCATGCTTTATCATTGTGTCAACAATATCTACAGCTTCAGAAAGCATCC
* *
61333912 CTTCTTTGTAACATGCATCGATACATATATTGTACGTGAT
66 CTTCCTTGCAACATGCATCGATACATATATTGTACGTGAT
* * * * **
61333952 AACATTAGGCTCAATGCCATGCTTTCTCATTGTGTCAACAATTTCTACAGCTTCCGAAATTATAC
1 AACATCAGGCTCAATGCCATGCTTTATCATTGTGTCAACAATATCTACAGCTTCAGAAAGCAT-C
**
61334017 CC-TCCTTGCAATGTGCATCGAT
65 CCTTCCTTGCAACATGCATCGAT
61334039 CAATGTATTA
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
105 69 0.96
106 3 0.04
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (105 bp):
AACATCAGGCTCAATGCCATGCTTTATCATTGTGTCAACAATATCTACAGCTTCAGAAAGCATCC
CTTCCTTGCAACATGCATCGATACATATATTGTACGTGAT
Found at i:61338032 original size:26 final size:26
Alignment explanation
Indices: 61338003--61338060 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
61337993 ATTGAATTAC
*
61338003 ATAATTTCATTGTTTTTTACTTTGCA
1 ATAACTTCATTGTTTTTTACTTTGCA
61338029 ATAACTTCATTGTTTTTTACTTTGCA
1 ATAACTTCATTGTTTTTTACTTTGCA
61338055 ATAACT
1 ATAACT
61338061 CGAGATTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.26, C:0.14, G:0.07, T:0.53
Consensus pattern (26 bp):
ATAACTTCATTGTTTTTTACTTTGCA
Found at i:61354730 original size:19 final size:20
Alignment explanation
Indices: 61354705--61354749 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
61354695 AAAAATGAAT
61354705 AATTGAAATAAAGAAACGTC
1 AATTGAAATAAAGAAACGTC
61354725 -ATTGAAATAAAGAAACGTC
1 AATTGAAATAAAGAAACGTC
61354744 AATTGA
1 AATTGA
61354750 CATGCCGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.53, C:0.09, G:0.16, T:0.22
Consensus pattern (20 bp):
AATTGAAATAAAGAAACGTC
Found at i:61357026 original size:24 final size:25
Alignment explanation
Indices: 61356982--61357035 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
61356972 AATTTTTTTA
** *
61356982 AAAAATAAAATAT-TCAAAAAATTC
1 AAAAATAAAATATAAAAAAAAAGTC
61357006 AAAAATAAAA-ATAAAACAAAAAGTC
1 AAAAATAAAATATAAAA-AAAAAGTC
61357031 AAAAA
1 AAAAA
61357036 GTTAGTATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.08
24 11 0.44
25 12 0.48
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (25 bp):
AAAAATAAAATATAAAAAAAAAGTC
Found at i:61358304 original size:12 final size:13
Alignment explanation
Indices: 61358279--61358309 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
61358269 AATGTTTACC
61358279 TGAAGGAGGCTGA
1 TGAAGGAGGCTGA
61358292 TGAAGGA-GCTGA
1 TGAAGGAGGCTGA
61358304 TGAAGG
1 TGAAGG
61358310 GAGGAGTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.32, C:0.06, G:0.45, T:0.16
Consensus pattern (13 bp):
TGAAGGAGGCTGA
Found at i:61364638 original size:18 final size:18
Alignment explanation
Indices: 61364615--61364702 Score: 130
Period size: 18 Copynumber: 5.1 Consensus size: 18
61364605 CCAACTACTA
*
61364615 TATACGTGAACAGTACCG
1 TATACGTGAATAGTACCG
61364633 TATACGTGAATAGT---G
1 TATACGTGAATAGTACCG
61364648 TATACGTGAATAGTACCG
1 TATACGTGAATAGTACCG
*
61364666 TATACGTGAATAGT-GCG
1 TATACGTGAATAGTACCG
61364683 TATACGTGAATAGTACCG
1 TATACGTGAATAGTACCG
61364701 TA
1 TA
61364703 AACGGTCGTA
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
15 15 0.24
17 16 0.25
18 32 0.51
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (18 bp):
TATACGTGAATAGTACCG
Found at i:61364657 original size:33 final size:34
Alignment explanation
Indices: 61364615--61364702 Score: 151
Period size: 33 Copynumber: 2.6 Consensus size: 34
61364605 CCAACTACTA
*
61364615 TATACGTGAACAGTACCGTATACGTGAATAGT-G
1 TATACGTGAATAGTACCGTATACGTGAATAGTCG
61364648 TATACGTGAATAGTACCGTATACGTGAATAGTGCG
1 TATACGTGAATAGTACCGTATACGTGAATAGT-CG
61364683 TATACGTGAATAGTACCGTA
1 TATACGTGAATAGTACCGTA
61364703 AACGGTCGTA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
33 31 0.60
35 21 0.40
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (34 bp):
TATACGTGAATAGTACCGTATACGTGAATAGTCG
Found at i:61371357 original size:32 final size:32
Alignment explanation
Indices: 61371321--61371381 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
61371311 AAATAAACAC
61371321 ATAATTATTCATTT-AATA-TTATAACTATTCAA
1 ATAA-TATT-ATTTAAATAGTTATAACTATTCAA
*
61371353 ATAATATTATTTAAATAGTTATAATTATT
1 ATAATATTATTTAAATAGTTATAACTATT
61371382 TTTCAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 8 0.31
32 14 0.54
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (32 bp):
ATAATATTATTTAAATAGTTATAACTATTCAA
Found at i:61374588 original size:44 final size:45
Alignment explanation
Indices: 61374539--61374636 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 45
61374529 TAGTCCTCTG
61374539 TTTTGTTATTATTGCTA-TAAAATTAT-TTAGTTCAT-TATTATTAC
1 TTTTGTTATTATTGCTATTAAAATTATATTAGTTCATATA-T-TTAC
* **
61374583 TTTTGTTATTATTGGTATTACTATTATATTAGTTCATATATTTAC
1 TTTTGTTATTATTGCTATTAAAATTATATTAGTTCATATATTTAC
*
61374628 TTTTTTTAT
1 TTTTGTTAT
61374637 ATACGTAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
44 16 0.34
45 19 0.40
46 10 0.21
47 2 0.04
ACGTcount: A:0.27, C:0.06, G:0.07, T:0.60
Consensus pattern (45 bp):
TTTTGTTATTATTGCTATTAAAATTATATTAGTTCATATATTTAC
Found at i:61380754 original size:14 final size:13
Alignment explanation
Indices: 61380737--61380787 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
61380727 CCTTAAACTA
61380737 TTATTGTTATATTT
1 TTATT-TTATATTT
*
61380751 TTATTTT-TACTT
1 TTATTTTATATTT
*
61380763 TTATTTTATTTTAT
1 TTATTTTATATT-T
*
61380777 TTATTATATAT
1 TTATTTTATAT
61380788 ATATACATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
12 11 0.37
13 4 0.13
14 15 0.50
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (13 bp):
TTATTTTATATTT
Found at i:61382354 original size:14 final size:13
Alignment explanation
Indices: 61382335--61382374 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
61382325 AAAAAATAAG
61382335 AGAAAAAGAAAGAA
1 AGAAAAAGAAA-AA
61382349 AG-AAAAG--AAA
1 AGAAAAAGAAAAA
61382359 AGAAAAAGAAAAA
1 AGAAAAAGAAAAA
61382372 AGA
1 AGA
61382375 GAGGTCAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
10 4 0.17
11 6 0.26
13 11 0.48
14 2 0.09
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AGAAAAAGAAAAA
Found at i:61383242 original size:18 final size:17
Alignment explanation
Indices: 61383221--61383255 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
61383211 TGAAAAAATG
61383221 AAAATGAAAAGTGAAAAA
1 AAAATGAAAAGT-AAAAA
61383239 AAAATGAAAAGTAAAAA
1 AAAATGAAAAGTAAAAA
61383256 TAGAGAGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.11
Consensus pattern (17 bp):
AAAATGAAAAGTAAAAA
Found at i:61395253 original size:44 final size:43
Alignment explanation
Indices: 61395203--61395781 Score: 147
Period size: 44 Copynumber: 13.2 Consensus size: 43
61395193 GACAACTGAT
* *
61395203 CTTGCCTTCCTGTCTTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTG-CTTGATAGTGAAGCAGATCGAAGACACAAAC
* * * * ** * *
61395247 CTTGCC-TCTCTCGGTTG-TAGTGGAGCTGGTTAAAGACAACAGAT
1 CTTGCCTTC-CT-GCTTGATAGTGAAGCAGATCGAAGAC-ACAAAC
* *
61395291 CTTGCCTTCCTGCCTTGACAGTGAAGCAGATCGAAAACACAAAC
1 CTTGCCTTCCTG-CTTGATAGTGAAGCAGATCGAAGACACAAAC
* * * ** * * * * *
61395335 CTTGTCTCTCTCAG-TTG-TAGTGGAGTTGGTTGAAGACAGTAGAT
1 CTTGCCT-TC-CTGCTTGATAGTGAAGCAGATCGAAGACA-CAAAC
* * *
61395379 CTTGCCTTCCTGTATTGATAGCGAAGCAGATCGAAGACACAAGC
1 CTTGCCTTCCTG-CTTGATAGTGAAGCAGATCGAAGACACAAAC
* * * ** * * *
61395423 CTTGCCTCCCTCGGTTG-TAGTGGAGCTAG-TTAAAGATAGCAGAT
1 CTTGCCTTCCT-GCTTGATAGTGAAGC-AGATCGAAGACA-CAAAC
* * * *
61395467 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCAAAGACACAAGC
1 CTTGCCTTCCTGC-TTGATAGTGAAGCAGATCGAAGACACAAAC
* * * * * * *
61395511 CTTGCC-TCCGTCGGTTG-TAGTGGAGCTGGTTGAAGACAACAGAT
1 CTTGCCTTCC-T-GCTTGATAGTGAAGCAGATCGAAGAC-ACAAAC
* * * * *
61395555 CTTGCCTTCCTGCATCA-ACTGTAAAGCAGATCAAAGACACAAGC
1 CTTGCCTTCCTGCTTGATA--GTGAAGCAGATCGAAGACACAAAC
* * * * * * * * * *
61395599 CTTGCCTCCCTCGGTTG-TAGTGGAGCTGGTTGAAGATAGTAGAT
1 CTTGCCTTCCT-GCTTGATAGTGAAGCAGATCGAAGACA-CAAAC
* * ** * *
61395643 TTTGCCTTCCTGCATCGCCAGCGAAGCAGATCGAAGACACAAGC
1 CTTGCCTTCCTGC-TTGATAGTGAAGCAGATCGAAGACACAAAC
* * * * * * * *
61395687 CTTGCCTCCCTCGATTG-TAGTGGAGCTGGTTGAAGACAGCAGAT
1 CTTGCCTTCCT-GCTTGATAGTGAAGCAGATCGAAGACA-CAAAC
* * * * *
61395731 CTTGTCTTCCTG-TATAGACAGGGTAGCAGATCGAAGACACAAGC
1 CTTGCCTTCCTGCT-T-GATAGTGAAGCAGATCGAAGACACAAAC
61395775 CTTGCCT
1 CTTGCCT
61395782 CCCTCAGTTG
Statistics
Matches: 358, Mismatches: 142, Indels: 70
0.63 0.25 0.12
Matches are distributed among these distances:
42 3 0.01
43 95 0.27
44 162 0.45
45 96 0.27
46 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (43 bp):
CTTGCCTTCCTGCTTGATAGTGAAGCAGATCGAAGACACAAAC
Found at i:61395344 original size:88 final size:88
Alignment explanation
Indices: 61395189--61395811 Score: 861
Period size: 88 Copynumber: 7.1 Consensus size: 88
61395179 AACAGATCAA
* * *
61395189 TGAAGACAACTGATCTTGCCTTCCTGTC-TTGACAGCGAAGCAGATCGAAGACACAAACCTTGCC
1 TGAAGACAGCAGATCTTGCCTTCCTG-CATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCC
*
61395253 TCTCTCGGTTGTAGTGGAGCTGGT
65 TCCCTCGGTTGTAGTGGAGCTGGT
* * * * * * *
61395277 TAAAGACAACAGATCTTGCCTTCCTGCCTTGACAGTGAAGCAGATCGAAAACACAAACCTTGTCT
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
* * *
61395342 CTCTCAGTTGTAGTGGAGTTGGT
66 CCCTCGGTTGTAGTGGAGCTGGT
* * *
61395365 TGAAGACAGTAGATCTTGCCTTCCTGTATTGATAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
*
61395430 CCCTCGGTTGTAGTGGAGCTAGT
66 CCCTCGGTTGTAGTGGAGCTGGT
* * *
61395453 TAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCAAAGACACAAGCCTTGCCT
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
*
61395518 CCGTCGGTTGTAGTGGAGCTGGT
66 CCCTCGGTTGTAGTGGAGCTGGT
* ** * ** *
61395541 TGAAGACAACAGATCTTGCCTTCCTGCATCAACTGTAAAGCAGATCAAAGACACAAGCCTTGCCT
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
61395606 CCCTCGGTTGTAGTGGAGCTGGT
66 CCCTCGGTTGTAGTGGAGCTGGT
* * * * *
61395629 TGAAGATAGTAGATTTTGCCTTCCTGCATCGCCAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
*
61395694 CCCTCGATTGTAGTGGAGCTGGT
66 CCCTCGGTTGTAGTGGAGCTGGT
* * * * *
61395717 TGAAGACAGCAGATCTTGTCTTCCTGTATAGACAGGGTAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
*
61395782 CCCTCAGTTGTAGTGGAGCTGGT
66 CCCTCGGTTGTAGTGGAGCTGGT
61395805 TGAAGAC
1 TGAAGAC
61395812 GGTGAATCTT
Statistics
Matches: 474, Mismatches: 60, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
87 1 0.00
88 473 1.00
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (88 bp):
TGAAGACAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
CCCTCGGTTGTAGTGGAGCTGGT
Found at i:61395548 original size:43 final size:43
Alignment explanation
Indices: 61395500--61395634 Score: 98
Period size: 43 Copynumber: 3.1 Consensus size: 43
61395490 AAGCAGATCA
61395500 AAGACACAAGCCTTGCCTCCGTCGGTTGTAGTGGAGCTGGTTG
1 AAGACACAAGCCTTGCCTCCGTCGGTTGTAGTGGAGCTGGTTG
* *** * * * **
61395543 AAGACA-ACAGATCTTGCCTTCCTGCATCAACTGTA---AAGCAGATCA
1 AAGACACA-AG-CCTTGCC-TCC-G--TCGGTTGTAGTGGAGCTGGTTG
*
61395588 AAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCTGGTTG
1 AAGACACAAGCCTTGCCTCCGTCGGTTGTAGTGGAGCTGGTTG
61395631 AAGA
1 AAGA
61395635 TAGTAGATTT
Statistics
Matches: 63, Mismatches: 19, Indels: 20
0.62 0.19 0.20
Matches are distributed among these distances:
40 6 0.10
42 1 0.02
43 20 0.32
44 12 0.19
45 16 0.25
46 2 0.03
48 6 0.10
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (43 bp):
AAGACACAAGCCTTGCCTCCGTCGGTTGTAGTGGAGCTGGTTG
Found at i:61396131 original size:44 final size:44
Alignment explanation
Indices: 61396035--61396175 Score: 144
Period size: 44 Copynumber: 3.2 Consensus size: 44
61396025 GAAGATCTAG
* ** * *
61396035 TCTCATCTCCCTGAAGTTGCAGTGGAGCAGACAGGAGAA--ACAAA
1 TCTCATCTCCCTGAAGTTGCAGTGGATC-GA-ATTACAACCACAGA
*
61396079 TCTTATCTCCCTGAAGTTGCAGTGGATCGAATTACAACCACAGA
1 TCTCATCTCCCTGAAGTTGCAGTGGATCGAATTACAACCACAGA
* * *
61396123 TCTCATCTCCCTGAAGTTGTAGTGGAGT-GGATTACAACCTCAGA
1 TCTCATCTCCCTGAAGTTGCAGTGGA-TCGAATTACAACCACAGA
*
61396167 TCTTATCTC
1 TCTCATCTC
61396176 TTTGAATTTG
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
42 4 0.05
43 2 0.02
44 76 0.92
45 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (44 bp):
TCTCATCTCCCTGAAGTTGCAGTGGATCGAATTACAACCACAGA
Found at i:61396187 original size:44 final size:44
Alignment explanation
Indices: 61396078--61396189 Score: 145
Period size: 44 Copynumber: 2.5 Consensus size: 44
61396068 GGAGAAACAA
*
61396078 ATCTTATCTCCCTGAAGTTGCAGTGGATCGAATTACAACCACAG
1 ATCTTATCTCCCTGAAGTTGTAGTGGATCGAATTACAACCACAG
* * *
61396122 ATCTCATCTCCCTGAAGTTGTAGTGGAGT-GGATTACAACCTCAG
1 ATCTTATCTCCCTGAAGTTGTAGTGGA-TCGAATTACAACCACAG
** *
61396166 ATCTTATCTCTTTGAATTTGTAGT
1 ATCTTATCTCCCTGAAGTTGTAGT
61396190 AGAACAAATC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
44 58 0.98
45 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGTAGTGGATCGAATTACAACCACAG
Found at i:61401461 original size:27 final size:28
Alignment explanation
Indices: 61401422--61401475 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
61401412 TTGAATGTAA
61401422 AAGGAGGTTGCTAAGTGCTGATTCCCCC
1 AAGGAGGTTGCTAAGTGCTGATTCCCCC
*
61401450 AAGG-GGTTGCTAAGTGTTGATTCCCC
1 AAGGAGGTTGCTAAGTGCTGATTCCCC
61401476 GAATTACTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (28 bp):
AAGGAGGTTGCTAAGTGCTGATTCCCCC
Found at i:61401496 original size:104 final size:105
Alignment explanation
Indices: 61401310--61401500 Score: 330
Period size: 104 Copynumber: 1.8 Consensus size: 105
61401300 GAGTACATTA
* *
61401310 AATGTAAAAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTACTAAGTGCTGATTCCCCGAC
1 AATGTAAAAAGGAGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTACTAAGTGCTGATTCCCCGAA
*
61401375 TTATTGGTGGTTGCTAAGTGCTGATTCCATCGTATCTTTG
66 TTACTGGTGGTTGCTAAGTGCTGATTCCATCGTATCTTTG
* *
61401415 AATGT-AAAAGGAGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCCCGAA
1 AATGTAAAAAGGAGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTACTAAGTGCTGATTCCCCGAA
61401479 TTACTGGTGGTTGCTAAGTGCT
66 TTACTGGTGGTTGCTAAGTGCT
61401501 AAATCCACCG
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
104 76 0.94
105 5 0.06
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (105 bp):
AATGTAAAAAGGAGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTACTAAGTGCTGATTCCCCGAA
TTACTGGTGGTTGCTAAGTGCTGATTCCATCGTATCTTTG
Found at i:61403235 original size:18 final size:16
Alignment explanation
Indices: 61403212--61403250 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
61403202 AGATAGACAT
61403212 TTATAAAACTTATATATA
1 TTATAAAA-TTATA-ATA
*
61403230 TTATAATATTATAATA
1 TTATAAAATTATAATA
61403246 TTATA
1 TTATA
61403251 TCTTAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 5 0.25
18 7 0.35
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
TTATAAAATTATAATA
Found at i:61403277 original size:7 final size:7
Alignment explanation
Indices: 61403224--61403289 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
61403214 ATAAAACTTA
61403224 TATATAT
1 TATATAT
61403231 TATAATAT
1 TAT-ATAT
61403239 TATAATAT
1 TAT-ATAT
*
61403247 TATATCT
1 TATATAT
61403254 TA-ATTAT
1 TATA-TAT
61403261 TAAGTATAT
1 T-A-TATAT
61403270 ATATTATAT
1 -TA-TATAT
61403279 TATATAT
1 TATATAT
61403286 TATA
1 TATA
61403290 ATAAGTAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
6 1 0.02
7 20 0.40
8 18 0.36
9 9 0.18
10 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:61403302 original size:30 final size:32
Alignment explanation
Indices: 61403234--61403302 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
61403224 TATATATTAT
* *
61403234 AATATTATAATATTATATCTTAATTATTAAGTA
1 AATA-TATAATATTATATATTAATTAATAAGTA
* *
61403267 TATATATTATATTATATATT-A-TAATAAGTA
1 AATATATAATATTATATATTAATTAATAAGTA
61403297 AATATA
1 AATATA
61403303 ATAAATAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 13 0.42
31 1 0.03
32 14 0.45
33 3 0.10
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (32 bp):
AATATATAATATTATATATTAATTAATAAGTA
Found at i:61405197 original size:14 final size:13
Alignment explanation
Indices: 61405157--61405207 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
61405147 TTAAGTATAT
*
61405157 TATTATTTTATTA
1 TATTATTATATTA
* *
61405170 TATT-GTAAATTA
1 TATTATTATATTA
61405182 TATTAATTATATTA
1 TATT-ATTATATTA
61405196 TATTATTATATT
1 TATTATTATATT
61405208 TCAAATAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 9 0.29
13 12 0.39
14 10 0.32
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (13 bp):
TATTATTATATTA
Found at i:61410854 original size:25 final size:25
Alignment explanation
Indices: 61410826--61410881 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
61410816 CATCGGATTT
61410826 CTTCAGAGTAAAAGAAATGGGAAGA
1 CTTCAGAGTAAAAGAAATGGGAAGA
*
61410851 CTTCAGTGTAAAAGAAATGGGAAGA
1 CTTCAGAGTAAAAGAAATGGGAAGA
61410876 CTTCAG
1 CTTCAG
61410882 CGTTCGGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.43, C:0.11, G:0.27, T:0.20
Consensus pattern (25 bp):
CTTCAGAGTAAAAGAAATGGGAAGA
Found at i:61411245 original size:26 final size:27
Alignment explanation
Indices: 61411205--61411261 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
61411195 CGAATTTTTC
*
61411205 AAAAAAAAAACAGGGGAGAAAGGAAAG
1 AAAAAAAAAACAGGGAAGAAAGGAAAG
* * *
61411232 AAAAAGAAAA-AGGGAAGCAAGGGAAG
1 AAAAAAAAAACAGGGAAGAAAGGAAAG
61411258 AAAA
1 AAAA
61411262 TTTGAGATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.67, C:0.04, G:0.30, T:0.00
Consensus pattern (27 bp):
AAAAAAAAAACAGGGAAGAAAGGAAAG
Found at i:61413354 original size:36 final size:36
Alignment explanation
Indices: 61413289--61413358 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
61413279 TTTGACTTGA
* *
61413289 ATATTATGTGATATGAAATGTTCTGAAATTATGTCT
1 ATATTATATGATATGAAATGTTCTAAAATTATGTCT
61413325 ATATTATATGATATGAAATGTT-TCAAAATTATGT
1 ATATTATATGATATGAAATGTTCT-AAAATTATGT
61413359 ATGTTTGATC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 1 0.03
36 30 0.97
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.44
Consensus pattern (36 bp):
ATATTATATGATATGAAATGTTCTAAAATTATGTCT
Found at i:61414225 original size:21 final size:21
Alignment explanation
Indices: 61414184--61414238 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
61414174 TATTTTCATC
* *
61414184 TATTTTATATTCATATTTAAAT
1 TATTATATATT-ATATATAAAT
61414206 TATTATATATTATATATAAAT
1 TATTATATATTATATATAAAT
61414227 T-TTAATATATTA
1 TATT-ATATATTA
61414239 GTTATTTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 18 0.60
22 10 0.33
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTATATATTATATATAAAT
Found at i:61415366 original size:15 final size:17
Alignment explanation
Indices: 61415346--61415378 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
61415336 CTATTTTACC
61415346 AAAATA-ATTTA-AAAA
1 AAAATATATTTACAAAA
61415361 AAAATATATTTACAAAA
1 AAAATATATTTACAAAA
61415378 A
1 A
61415379 TAACACAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAATATATTTACAAAA
Found at i:61415708 original size:105 final size:105
Alignment explanation
Indices: 61415598--61416220 Score: 729
Period size: 105 Copynumber: 5.9 Consensus size: 105
61415588 GGAAAAAAAG
* * *
61415598 AAAAAAAAATTTGGGTGCTGG-TCTGTCAATGGCCGGCACCACATTTATGTAAAAAAAATTTACA
1 AAAAAAAAATTT-GGTGGTGGCT-TGCCAATGGCCGGCACCACCTTTATGTAAAAAAAATTTACA
*
61415662 TTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAATTTC
64 TTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTC
** * * * *
61415704 AAAAAAAAATTTGGTGGTACCCTGCCAATGGCCGACACCACCTTTATATAAAAAAAAATTACATT
1 AAAAAAAAATTTGGTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTAAAAAAAATTTACATT
61415769 TT-GGCTTGTCATTGGCCGGCACCAGTATACGAAAAAATTC
66 TTGGGC-TGTCATTGGCCGGCACCAGTATACGAAAAAATTC
* * *
61415809 AAAAAAAAATTTTGTGGTGGCTTGCCAATGGCTGGCACCACCTTTATGTAAAAAAAAATTACATT
1 AAAAAAAAATTTGGTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTAAAAAAAATTTACATT
* * *
61415874 TTGGGCTGTTATTGGTCGGCACTAGTATACGAAAAAATTC
66 TTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTC
* * ******
61415914 AAAAAAAAAATTT-GTGGTGGCTTGCCAATGGCTGGTACCACCTTTATGTAATTTTTTTTTTACA
1 -AAAAAAAAATTTGGTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTAA-AAAAAATTTACA
* * *
61415978 TTTTAGGCTGTCATTAGCCGGCACCAATATACGAAAAAATTC
64 TTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTC
* * * * *****
61416020 -AAAAAAAA-TTGGTAGTGGCCTGCCAATGGCCGACAACACCTTTATGTAAATTTTTTTTTTACA
1 AAAAAAAAATTTGGTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTAAA--AAAAATTTACA
* ** *
61416083 TTTTGGGCTATCATTGGCCGATATCAGTATACGAAAAAATTC
64 TTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTC
*
61416125 AAAAAAAAAATTTTGGTGGTGGCTTGCCAATGGCCGGTACCACCTTTATGTAAAAAAGAA--TAC
1 -AAAAAAAAA-TTTGGTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTAAAAAA-AATTTAC
*
61416188 ATTTGGGGCTGTCATTGGCCGGCACCAGTATAC
63 ATTTTGGGCTGTCATTGGCCGGCACCAGTATAC
61416221 CGTGAAGGAT
Statistics
Matches: 441, Mismatches: 63, Indels: 26
0.83 0.12 0.05
Matches are distributed among these distances:
103 2 0.00
104 43 0.10
105 252 0.57
106 99 0.22
107 8 0.02
109 37 0.08
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (105 bp):
AAAAAAAAATTTGGTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTAAAAAAAATTTACATT
TTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTC
Found at i:61415846 original size:56 final size:56
Alignment explanation
Indices: 61415770--61415953 Score: 145
Period size: 56 Copynumber: 3.4 Consensus size: 56
61415760 AATTACATTT
* * *
61415770 TGGCTTGTCATTGGCCGGCACCAGTATACGAAAAAATTCAAAAAAAAATTTTGTGG
1 TGGCTTGCCAATGGCTGGCACCAGTATACGAAAAAATTCAAAAAAAAATTTTGTGG
* * * * ** *
61415826 TGGCTTGCCAATGGCTGGCACCACCTTTATGTAAAAA---AAAATTACATTTTG-GG
1 TGGCTTGCCAATGGCTGGCACCA-GTATACGAAAAAATTCAAAAAAAAATTTTGTGG
* * *
61415879 CT-G-TT---ATTGG-TCGGCACTAGTATACGAAAAAATTCAAAAAAAAAATTTGTGG
1 -TGGCTTGCCAATGGCT-GGCACCAGTATACGAAAAAATTCAAAAAAAAATTTTGTGG
*
61415931 TGGCTTGCCAATGGCTGGTACCA
1 TGGCTTGCCAATGGCTGGCACCA
61415954 CCTTTATGTA
Statistics
Matches: 92, Mismatches: 23, Indels: 26
0.65 0.16 0.18
Matches are distributed among these distances:
48 10 0.11
49 10 0.11
51 11 0.12
52 5 0.05
53 5 0.05
54 12 0.13
56 29 0.32
57 10 0.11
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (56 bp):
TGGCTTGCCAATGGCTGGCACCAGTATACGAAAAAATTCAAAAAAAAATTTTGTGG
Found at i:61415945 original size:210 final size:210
Alignment explanation
Indices: 61415598--61416220 Score: 747
Period size: 211 Copynumber: 3.0 Consensus size: 210
61415588 GGAAAAAAAG
* * *
61415598 AAAAAAAAATTTGGGTGCTGG-TCTGTCAATGGCCGGCACCACATTTATGTAAAAAAAATTTACA
1 AAAAAAAAATTT-GGTGGTGGCT-TGCCAATGGCCGGCACCACCTTTATGTAAAAAAAATTTACA
* * ** *
61415662 TTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAATTTC-AAAAAAAAATTTGGTGGTACCC
64 TTTTGGGCTGTCATTGGCCGGCACTAGTATACGAAAAAATTCAAAAAAAAAATTTGGTGGTGGCT
** *
61415726 TGCCAATGGCCGACACCACCTTTATATAAAAAAAAATTACATTTTGGCTTGTCATTGGCCGGCAC
129 TGCCAATGGCCGGTACCACCTTTATGTAAAAAAAAATTACATTTTGGC-TGTCATTGGCCGGCAC
61415791 CAGTATACGAAAAAATTC
193 CAGTATACGAAAAAATTC
* * *
61415809 AAAAAAAAATTTTGTGGTGGCTTGCCAATGGCTGGCACCACCTTTATGTAAAAAAAAATTACATT
1 AAAAAAAAATTTGGTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTAAAAAAAATTTACATT
* *
61415874 TTGGGCTGTTATTGGTCGGCACTAGTATACGAAAAAATTCAAAAAAAAAATTT-GTGGTGGCTTG
66 TTGGGCTGTCATTGGCCGGCACTAGTATACGAAAAAATTCAAAAAAAAAATTTGGTGGTGGCTTG
* ******* *
61415938 CCAATGGCTGGTACCACCTTTATGTAATTTTTTTTTTACATTTTAGGCTGTCATTAGCCGGCACC
131 CCAATGGCCGGTACCACCTTTATGTAA-AAAAAAATTACATTTT-GGCTGTCATTGGCCGGCACC
*
61416003 AATATACGAAAAAATTC
194 AGTATACGAAAAAATTC
* * * * *****
61416020 -AAAAAAAA-TTGGTAGTGGCCTGCCAATGGCCGACAACACCTTTATGTAAATTTTTTTTTTACA
1 AAAAAAAAATTTGGTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTAAA--AAAAATTTACA
* **
61416083 TTTTGGGCTATCATTGGCCGATA-TCAGTATACGAAAAAATTCAAAAAAAAAATTTTGGTGGTGG
64 TTTTGGGCTGTCATTGGCCGGCACT-AGTATACGAAAAAATTCAAAAAAAAAA-TTTGGTGGTGG
* *
61416147 CTTGCCAATGGCCGGTACCACCTTTATGTAAAAAAGAA-TACATTTGGGGCTGTCATTGGCCGGC
127 CTTGCCAATGGCCGGTACCACCTTTATGTAAAAAAAAATTACATTT-TGGCTGTCATTGGCCGGC
61416211 ACCAGTATAC
191 ACCAGTATAC
61416221 CGTGAAGGAT
Statistics
Matches: 348, Mismatches: 54, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
209 36 0.10
210 121 0.35
211 148 0.43
212 6 0.02
213 37 0.11
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (210 bp):
AAAAAAAAATTTGGTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTAAAAAAAATTTACATT
TTGGGCTGTCATTGGCCGGCACTAGTATACGAAAAAATTCAAAAAAAAAATTTGGTGGTGGCTTG
CCAATGGCCGGTACCACCTTTATGTAAAAAAAAATTACATTTTGGCTGTCATTGGCCGGCACCAG
TATACGAAAAAATTC
Found at i:61417444 original size:56 final size:56
Alignment explanation
Indices: 61417371--61417544 Score: 296
Period size: 56 Copynumber: 3.1 Consensus size: 56
61417361 CATCTGAGAC
* *
61417371 TTTTTTTTTCATTCAATCTCATTTATTACAACTTTATTTTTCTACATCTAACACCT
1 TTTTTTTTTCATTCAATCTCATTTATTTCAATTTTATTTTTCTACATCTAACACCT
*
61417427 TTTTTTTTTCATTCAATCCCATTTATTTCAATTTTATTTTTCTACATCTAACACC-
1 TTTTTTTTTCATTCAATCTCATTTATTTCAATTTTATTTTTCTACATCTAACACCT
* *
61417482 CTTTTTTTTCATTCAATCTCATTTATTTCAATTTTATTTTTCTACATCTAATACCT
1 TTTTTTTTTCATTCAATCTCATTTATTTCAATTTTATTTTTCTACATCTAACACCT
61417538 TTTTTTT
1 TTTTTTT
61417545 CATCATCTAA
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
55 52 0.47
56 58 0.53
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (56 bp):
TTTTTTTTTCATTCAATCTCATTTATTTCAATTTTATTTTTCTACATCTAACACCT
Found at i:61417544 original size:22 final size:23
Alignment explanation
Indices: 61417518--61417580 Score: 85
Period size: 22 Copynumber: 2.7 Consensus size: 23
61417508 TTCAATTTTA
61417518 TTTTTC-TACATCTAATA-CCTTT
1 TTTTTCAT-CATCTAATACCCTTT
61417540 TTTTTCATCATCTAATACCCTTT
1 TTTTTCATCATCTAATACCCTTT
61417563 TTTTTCATTCAATCTAAT
1 TTTTTCA-TC-ATCTAAT
61417581 TTATTTCAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
22 15 0.41
23 13 0.35
24 2 0.05
25 7 0.19
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTTTCATCATCTAATACCCTTT
Found at i:61417544 original size:77 final size:78
Alignment explanation
Indices: 61417463--61417625 Score: 276
Period size: 77 Copynumber: 2.1 Consensus size: 78
61417453 TTCAATTTTA
*
61417463 TTTTTC-TACATCTAACACCCTTTTTTTTCATTCAATCTCATTTATTTCAATTTTATTTTTCTAC
1 TTTTTCAT-CATCTAACACCCTTTTTTTTCATTCAATCTAATTTATTTCAATTTTATTTTTCTAC
*
61417527 ATCTAATACCT-TT
65 ATCTAACACCTATT
*
61417540 TTTTTCATCATCTAATACCCTTTTTTTTCATTCAATCTAATTTATTTCAATTTTATTTTTCTACA
1 TTTTTCATCATCTAACACCCTTTTTTTTCATTCAATCTAATTTATTTCAATTTTATTTTTCTACA
61417605 TCTAACACCTATT
66 TCTAACACCTATT
61417618 TTTTTCAT
1 TTTTTCAT
61417626 TAAATCTCAT
Statistics
Matches: 81, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
77 70 0.86
78 11 0.14
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (78 bp):
TTTTTCATCATCTAACACCCTTTTTTTTCATTCAATCTAATTTATTTCAATTTTATTTTTCTACA
TCTAACACCTATT
Found at i:61417583 original size:132 final size:134
Alignment explanation
Indices: 61417402--61417679 Score: 420
Period size: 132 Copynumber: 2.1 Consensus size: 134
61417392 TTTATTACAA
* *
61417402 CTTTATTTTTC-TACATCTAACACCTTTTTTTTTTCATTCAATCCCATTTATTTCAATTTTATTT
1 CTTT-TTTTTCATACATCTAACACCTCTTTTTTTTCATTCAATCCAATTTATTTCAATTTTATTT
* * *
61417466 TTCTACATCTAACACCCT-TTTTTTTCATTCAATCTCATTTATTTCAATTTTATTTTTCTACATC
65 TTCTACATCTAACA-CCTATTTTTTTCATTAAATCTCATTTATTACAACTTTATTTTTCTACATC
*
61417530 TAATAC
129 TAACAC
* *
61417536 CTTTTTTTTCAT-CATCTAATACC-CTTTTTTTTCATTCAATCTAATTTATTTCAATTTTATTTT
1 CTTTTTTTTCATACATCTAACACCTCTTTTTTTTCATTCAATCCAATTTATTTCAATTTTATTTT
61417599 TCTACATCTAACACCTATTTTTTTCATTAAATCTCATTTATTACAACTTTATTTTTCTACATCTA
66 TCTACATCTAACACCTATTTTTTTCATTAAATCTCATTTATTACAACTTTATTTTTCTACATCTA
61417664 ACAC
131 ACAC
**
61417668 CCATTTTTTCAT
1 CTTTTTTTTCAT
61417680 TAAATCTCAT
Statistics
Matches: 132, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
131 3 0.02
132 108 0.82
133 16 0.12
134 5 0.04
ACGTcount: A:0.25, C:0.21, G:0.00, T:0.54
Consensus pattern (134 bp):
CTTTTTTTTCATACATCTAACACCTCTTTTTTTTCATTCAATCCAATTTATTTCAATTTTATTTT
TCTACATCTAACACCTATTTTTTTCATTAAATCTCATTTATTACAACTTTATTTTTCTACATCTA
ACAC
Found at i:61417599 original size:111 final size:110
Alignment explanation
Indices: 61417372--61417575 Score: 277
Period size: 111 Copynumber: 1.8 Consensus size: 110
61417362 ATCTGAGACT
*
61417372 TTTTTTTTCATTCAATCTCATTTATTACAACTTTATTTTTCTACATCTAACACCTTTTTTTTTTC
1 TTTTTTTTCATTCAATCTCATTTATTACAACTTTATTTTTCTACATCTAACACCTTTTTTTTATC
** *
61417437 ATTCAATCCCATTTATTTCAATTTTATTTTTCTACATCTAACACCC
66 ATTCAATCCCATTTATTTCAATTCAATTATTCTA-ATCTAACACCC
* * *
61417483 TTTTTTTTCATTCAATCTCATTTATTTCAATTTTATTTTTCTACATCTAATACCTTTTTTTTCAT
1 TTTTTTTTCATTCAATCTCATTTATTACAACTTTATTTTTCTACATCTAACACCTTTTTTTT-AT
* *
61417548 CA-TCTAATACCCTTTTTTTTC-ATTCAAT
65 CATTC-AAT-CCCATTTATTTCAATTCAAT
61417576 CTAATTTATT
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
111 61 0.74
112 11 0.13
113 10 0.12
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (110 bp):
TTTTTTTTCATTCAATCTCATTTATTACAACTTTATTTTTCTACATCTAACACCTTTTTTTTATC
ATTCAATCCCATTTATTTCAATTCAATTATTCTAATCTAACACCC
Found at i:61417607 original size:55 final size:55
Alignment explanation
Indices: 61417536--61417785 Score: 330
Period size: 55 Copynumber: 4.6 Consensus size: 55
61417526 CATCTAATAC
* * * *
61417536 CTTT-TTTTTC-ATCATCTAATACCCTTTTTTTTCATTCAATCTAATTTATTTCAA
1 CTTTATTTTTCTA-CATCTAACACCCTTTTTTTTCATTAAATCTCATTTATTACAA
*
61417590 TTTTATTTTTCTACATCTAACA-CCTATTTTTTTCATTAAATCTCATTTATTACAA
1 CTTTATTTTTCTACATCTAACACCCT-TTTTTTTCATTAAATCTCATTTATTACAA
*
61417645 CTTTATTTTTCTACATCTAACACCC-ATTTTTTCATTAAATCTCATTTATTACAA
1 CTTTATTTTTCTACATCTAACACCCTTTTTTTTCATTAAATCTCATTTATTACAA
* * * *
61417699 CTTTATTTTTCTACATTTGACA-CCTATTTTTTTCATTCAATCTCATTTATTTCAA
1 CTTTATTTTTCTACATCTAACACCCT-TTTTTTTCATTAAATCTCATTTATTACAA
* *
61417754 TTTTATTTTTCTACATGTAACACCCTTTTTTT
1 CTTTATTTTTCTACATCTAACACCCTTTTTTT
61417786 GGTTTTTTTA
Statistics
Matches: 174, Mismatches: 15, Indels: 13
0.86 0.07 0.06
Matches are distributed among these distances:
53 2 0.01
54 54 0.31
55 112 0.64
56 6 0.03
ACGTcount: A:0.26, C:0.20, G:0.01, T:0.54
Consensus pattern (55 bp):
CTTTATTTTTCTACATCTAACACCCTTTTTTTTCATTAAATCTCATTTATTACAA
Found at i:61417686 original size:109 final size:109
Alignment explanation
Indices: 61417536--61417785 Score: 360
Period size: 109 Copynumber: 2.3 Consensus size: 109
61417526 CATCTAATAC
* * * *
61417536 CTTT-TTTTTC-ATCATCTAATACCCTTTTTTTTCATTCAATCTAATTTATTTCAATTTTATTTT
1 CTTTATTTTTCTA-CATCTAACACCC-TTTTTTTCATTAAATCTAATTTATTACAACTTTATTTT
61417599 TCTACATCTAACACCTATTTTTTTCATTAAATCTCATTTATTACAA
64 TCTACATCTAACACCTATTTTTTTCATTAAATCTCATTTATTACAA
* *
61417645 CTTTATTTTTCTACATCTAACACCCATTTTTTCATTAAATCTCATTTATTACAACTTTATTTTTC
1 CTTTATTTTTCTACATCTAACACCCTTTTTTTCATTAAATCTAATTTATTACAACTTTATTTTTC
* * * *
61417710 TACATTTGACACCTATTTTTTTCATTCAATCTCATTTATTTCAA
66 TACATCTAACACCTATTTTTTTCATTAAATCTCATTTATTACAA
* *
61417754 TTTTATTTTTCTACATGTAACACCCTTTTTTT
1 CTTTATTTTTCTACATCTAACACCCTTTTTTT
61417786 GGTTTTTTTA
Statistics
Matches: 126, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
109 108 0.86
110 17 0.13
111 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.01, T:0.54
Consensus pattern (109 bp):
CTTTATTTTTCTACATCTAACACCCTTTTTTTCATTAAATCTAATTTATTACAACTTTATTTTTC
TACATCTAACACCTATTTTTTTCATTAAATCTCATTTATTACAA
Found at i:61418053 original size:54 final size:53
Alignment explanation
Indices: 61417991--61418109 Score: 175
Period size: 54 Copynumber: 2.2 Consensus size: 53
61417981 GCCTGAGAAC
*
61417991 ATTTATTTTTACCTCATTTCATTTTATATTTAAATTTTATATTTCCAATGGAA
1 ATTTATTTTTACCTCATTTCATTTTATATTTAAATTTTATATTTCCAATGCAA
** * *
61418044 ATTTAATTTTTTTCTCATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAA
1 ATTT-ATTTTTACCTCATTTCATTTTATATTTAAATTTTATATTTCCAATGCAA
*
61418098 ATTTGTTTTTAC
1 ATTTATTTTTAC
61418110 AAGAATATGC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 9 0.16
54 48 0.84
ACGTcount: A:0.28, C:0.11, G:0.03, T:0.58
Consensus pattern (53 bp):
ATTTATTTTTACCTCATTTCATTTTATATTTAAATTTTATATTTCCAATGCAA
Found at i:61418101 original size:26 final size:26
Alignment explanation
Indices: 61418018--61418101 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
61418008 TTCATTTTAT
* * *
61418018 ATTTAAATTTTATATTTCCAATGGAA
1 ATTTAAATTTTCTATTTTCAATGCAA
* * ** *
61418044 ATTTAATTTTTTTCTCA-TTTCATTTTAT
1 ATTTAA--ATTTTCT-ATTTTCAATGCAA
61418072 ATTTAAATTTTCTATTTTCAATGCAA
1 ATTTAAATTTTCTATTTTCAATGCAA
61418098 ATTT
1 ATTT
61418102 GTTTTTACAA
Statistics
Matches: 42, Mismatches: 12, Indels: 8
0.68 0.19 0.13
Matches are distributed among these distances:
25 1 0.02
26 23 0.55
28 17 0.40
29 1 0.02
ACGTcount: A:0.31, C:0.10, G:0.04, T:0.56
Consensus pattern (26 bp):
ATTTAAATTTTCTATTTTCAATGCAA
Found at i:61422657 original size:107 final size:107
Alignment explanation
Indices: 61422130--61423436 Score: 1141
Period size: 107 Copynumber: 12.1 Consensus size: 107
61422120 TTGATAAATT
* * * * ** *
61422130 TGGTGTCGACCATTGGCAGGCTACTACCAAAATTTTTTTTTTGAATTTTTTTCGTATATTGGTGC
1 TGGTGCCGGCCATTGGCAGGCCACCACCAAAATAATTTTTTTGAA-TTTTTTCGTATACTGGTGC
** *** *
61422195 CGGTCAATGACAGCCCAAAATGTAAAAAAAAAATTTACTTAAAGG
65 CGACCAATGACAGCCCAAAATGT--AAAAATTTTTTACATAAAGG
* * * *
61422240 TAGTGCCGGTCATTGGCAGGCCACCACCAAAAAACTAAATTTTTTTTTGAATTTTTTCTTGTACT
1 TGGTGCCGGCCATTGGCAGGCCACCACC--AAAA-T-AA--TTTTTTTGAATTTTTTCGTATACT
*** *
61422305 GGTGCCGACC-ATGACAGCCCAAAATGTAAAAAAGAAAATTTACATACAGG
60 GGTGCCGACCAATGACAGCCCAAAATGT--AAAA-ATTTTTTACATAAAGG
* * * *
61422355 TGGTGCCGGTCATTGGTAGGCCACCACCAAAAAAATATTTTTTTAAAATTTTTTCGTATACTGGT
1 TGGTGCCGGCCATTGGCAGGCCACCACC-AAAATA-ATTTTTTT-GAATTTTTTCGTATACTGGT
* ** ***
61422420 GCC-AGCTAATGACAATCCAAAATGTAAAAAAAAATTTACATAAAGG
63 GCCGA-CCAATGACAGCCCAAAATGT-AAAAATTTTTTACATAAAGG
* * **
61422466 TGGTGCGGGCCATTAGCAGGCCACCACCAAAATTTTTTTTTTTGAATTTTTTCGTATACTGGTGC
1 TGGTGCCGGCCATTGGCAGGCCACCACCAAAA-TAATTTTTTTGAATTTTTTCGTATACTGGTGC
* * * **** *
61422531 CGGCCAATAACAGCGCAAAATGTAAAAAAAAATTAAATAAAGG
65 CGACCAATGACAGCCCAAAATGTAAAAATTTTTTACATAAAGG
** * *
61422574 TGGTGCCGGCCATAT-GCAGGCCACCATTAAAATAATTTTTTTGAATTTTTTCGTATACTGATAC
1 TGGTGCCGGCCAT-TGGCAGGCCACCACCAAAATAATTTTTTTGAATTTTTTCGTATACTGGTGC
* * *
61422638 CGACTAATAACAGCCCAAAATGT--AATTTTTTTACATAAAGG
65 CGACCAATGACAGCCCAAAATGTAAAAATTTTTTACATAAAGG
* * * * * * * * *
61422679 TAGTGCTGGCCATTAGCAGGCCACTACCAGAAAAAAATTTCTCTGAATTTTTTTGTATATTGGTG
1 TGGTGCCGGCCATTGGCAGGCCACCACC--AAAATAATTTTTTTGAATTTTTTCGTATACTGGTG
* * ***
61422744 CCGGCTAATGACAGCCCAAAATGTAAAAAAAAATTTACATAAAGG
64 CCGACCAATGACAGCCCAAAATGT-AAAAATTTTTTACATAAAGG
* *** * * * *
61422789 TGGTGCCGGCCATTGGCAGGCCACCATCAAAA-AAAAATTTTGAATTTTTTTGTATATTGGTACT
1 TGGTGCCGGCCATTGGCAGGCCACCACCAAAATAATTTTTTTGAATTTTTTCGTATACTGGTGCC
**
61422853 GACCAATGACAGCCCAAAATGTAAATTTTTTTTTTACATAAAGG
66 GACCAATGACAGCCCAAAATGTAAA--AATTTTTTACATAAAGG
* * * *
61422897 TGGTGCCGGCCATTGGCAGG---CCATCATAAT--TTTTTTTAAAATTTTTTCGTACACTGGTGC
1 TGGTGCCGGCCATTGGCAGGCCACCACCAAAATAATTTTTTT-GAATTTTTTCGTATACTGGTGC
*
61422957 CTG-CCAATGACAGCCCAAAATG-AAAAATTTTTTTACATAAAGA
65 C-GACCAATGACAGCCCAAAATGTAAAAA-TTTTTTACATAAAGG
* **
61423000 TGATGCCGGCCATTGGCAGGCCACCACCAAAATTTTTTTTTTTTTGAATTTTTT-GTATACTGGT
1 TGGTGCCGGCCATTGGCAGGCCACCACCAAAA---TAATTTTTTTGAATTTTTTCGTATACTGGT
* * * ***
61423064 GCCGGCCAATGATAGCCTAAAATGTAATTTTTTTTTACATAAAGG
63 GCCGACCAATGACAGCCCAAAATGTAAAAATTTTTTACATAAAGG
**
61423109 TGGTGTTGGCCATTGGCAGGCCACCA-CAAAA-AATTTTATTTTGAATTTTTTCGTATACTGGTG
1 TGGTGCCGGCCATTGGCAGGCCACCACCAAAATAA-TTT-TTTTGAATTTTTTCGTATACTGGTG
* **
61423172 CCGGCCAATGACAGCCCAAAATGTAAATTTTTTTTACATAAAGG
64 CCGACCAATGACAGCCCAAAATGTAAAAATTTTTTACATAAAGG
* * * ** * ** *
61423216 TGATGCCGGCCATTGACAGGTCATTACC-AAAT--TTTTTTT-TATTTTTTTATATACTGGTACC
1 TGGTGCCGGCCATTGGCAGGCCACCACCAAAATAATTTTTTTGAATTTTTTCGTATACTGGTGCC
* **
61423277 AACCAATGACAGCCCAAAATGT--ATTTTTTTTACATAAAGG
66 GACCAATGACAGCCCAAAATGTAAAAATTTTTTACATAAAGG
* * * **
61423317 TGGTGCCGGCCATTGGCAGGTCACCACTAAATTTTTTTTTTTGAATTTTTTCGTATACTGGTGCC
1 TGGTGCCGGCCATTGGCAGGCCACCACCAAAATAATTTTTTTGAATTTTTTCGTATACTGGTGCC
* *
61423382 GGCCAATGACAGCCCAAAATGT--AATTTTTTTACATAAAGG
66 GACCAATGACAGCCCAAAATGTAAAAATTTTTTACATAAAGG
*
61423422 TGGTGCCGGCTATTG
1 TGGTGCCGGCCATTG
61423437 AATGGCCAGC
Statistics
Matches: 999, Mismatches: 153, Indels: 95
0.80 0.12 0.08
Matches are distributed among these distances:
101 41 0.04
102 3 0.00
103 71 0.07
104 19 0.02
105 152 0.15
106 24 0.02
107 217 0.22
108 88 0.09
109 105 0.11
110 80 0.08
111 54 0.05
112 31 0.03
113 17 0.02
114 28 0.03
115 59 0.06
116 10 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (107 bp):
TGGTGCCGGCCATTGGCAGGCCACCACCAAAATAATTTTTTTGAATTTTTTCGTATACTGGTGCC
GACCAATGACAGCCCAAAATGTAAAAATTTTTTACATAAAGG
Found at i:61424928 original size:14 final size:15
Alignment explanation
Indices: 61424889--61424930 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
61424879 TTTTAACATA
*
61424889 ATTATTATTAAATAT
1 ATTATAATTAAATAT
61424904 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
61424918 A-TATAATTTAATA
1 ATTATAATTAAATA
61424931 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:61424980 original size:61 final size:61
Alignment explanation
Indices: 61424915--61425102 Score: 181
Period size: 61 Copynumber: 3.1 Consensus size: 61
61424905 TTATAATTAA
*
61424915 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCAT
* * * * * * * * * * *
61424976 AATATATGATACT-ATAAAA-T-ATAATTTAA-C-ATAATTATTAT-TAAATATATTATATTTAA
1 AATATATAAT-TTAATAAAATTCTTAA--TAATCAAT-ATTCTTATATGAATTTACTAAAATCAT
*
61425035 AATATATAATTTAATAAAATCCTTAATAATCAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCAT
61425096 AATATAT
1 AATATAT
61425103 GATACTATAA
Statistics
Matches: 93, Mismatches: 24, Indels: 20
0.68 0.18 0.15
Matches are distributed among these distances:
58 1 0.01
59 33 0.35
60 17 0.18
61 41 0.44
62 1 0.01
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCAT
Found at i:61425025 original size:120 final size:120
Alignment explanation
Indices: 61424880--61425175 Score: 522
Period size: 120 Copynumber: 2.5 Consensus size: 120
61424870 TTAATCATAT
61424880 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
61424945 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
* *
61425000 TTTAACATAATTATTATTAAATATATTATATTTAAAATATATAATTTAATAAAATCCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
61425065 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
* * *
61425120 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
61425176 TAAAATAATT
Statistics
Matches: 167, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
120 165 0.99
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
Found at i:61425052 original size:59 final size:59
Alignment explanation
Indices: 61424880--61425174 Score: 196
Period size: 59 Copynumber: 4.9 Consensus size: 59
61424870 TTAATCATAT
* *
61424880 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAAT-T-C
1 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAA
* * * * * * *
61424937 TTAATAATCA-ATATTCTTATATGAATTTACTCA-AATCATAATATATGATACT-ATAAAATATA
1 TT--TAA-CATA-ATTATTAT-TAAATATA-TTATAATTAAAATATATGAT-TTAATAAAATATA
61424999 A
59 A
* * *
61425000 TTTAACATAATTATTATTAAATATATTATATTTAAAATATATAATTTAATAAAATCCTTAA
1 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAAT--ATAA
* * * * * * * *
61425061 --TAATCA-ATATTCTTATATGAATTTACTAAAATCATAATATATGATACT-ATAAAATATAA
1 TTTAA-CATA-ATTATTAT-TAAATATATTATAATTAAAATATATGAT-TTAATAAAATATAA
* *
61425120 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAAT
1 TTT-AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAAT
61425175 TTAAAATAAT
Statistics
Matches: 175, Mismatches: 40, Indels: 44
0.68 0.15 0.17
Matches are distributed among these distances:
57 2 0.01
58 4 0.02
59 64 0.37
60 34 0.19
61 62 0.35
62 7 0.04
63 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (59 bp):
TTTAACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAA
Found at i:61425394 original size:91 final size:91
Alignment explanation
Indices: 61425190--61425438 Score: 446
Period size: 91 Copynumber: 2.7 Consensus size: 91
61425180 ATAATTATAA
* * *
61425190 ATAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAATTATAA-TTAATAA
1 ATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
* *
61425254 TAATATATTATTTCATAAAATTCTTG
66 TGATATATAATTTCATAAAATTCTTG
61425280 ATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
1 ATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
61425345 TGATATATAATTTCATAAAATTCTTG
66 TGATATATAATTTCATAAAATTCTTG
61425371 ATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
1 ATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
61425436 TGA
66 TGA
61425439 ACGATCAATG
Statistics
Matches: 153, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
90 54 0.35
91 99 0.65
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
ATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
TGATATATAATTTCATAAAATTCTTG
Found at i:61425719 original size:20 final size:22
Alignment explanation
Indices: 61425678--61425723 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
61425668 TATATGTAAT
61425678 ATTATTAAAATAATATTTTTTA
1 ATTATTAAAATAATATTTTTTA
*
61425700 ATTATTTAAA-AATA-TTTTTA
1 ATTATTAAAATAATATTTTTTA
61425720 ATTA
1 ATTA
61425724 ATGCGGTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.43
21 4 0.17
22 9 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATTAAAATAATATTTTTTA
Found at i:61426830 original size:23 final size:23
Alignment explanation
Indices: 61426800--61426860 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
61426790 TGGACAAATG
61426800 AAGGCCATGTTCCTGTTTTTATT
1 AAGGCCATGTTCCTGTTTTTATT
61426823 AAGGCCATGTTCCTGTTTTTATT
1 AAGGCCATGTTCCTGTTTTTATT
**
61426846 GTGGCCATGTTCCTG
1 AAGGCCATGTTCCTG
61426861 AGTTGAACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.15, C:0.20, G:0.21, T:0.44
Consensus pattern (23 bp):
AAGGCCATGTTCCTGTTTTTATT
Found at i:61427824 original size:15 final size:15
Alignment explanation
Indices: 61427800--61427854 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
61427790 CTTAAGATGA
*
61427800 TTAATTTTTTTAAAT
1 TTAATATTTTTAAAT
*
61427815 TTAATA-TTTTATTAT
1 TTAATATTTTTA-AAT
*
61427830 TTAATATTTTT-ATT
1 TTAATATTTTTAAAT
61427844 CTTAATATTTT
1 -TTAATATTTT
61427855 AATAATTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 6 0.18
15 23 0.70
16 4 0.12
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TTAATATTTTTAAAT
Found at i:61427852 original size:9 final size:8
Alignment explanation
Indices: 61427814--61427858 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
61427804 TTTTTTTAAA
61427814 TTTAATAT
1 TTTAATAT
*
61427822 TTTATTA-
1 TTTAATAT
61427829 TTTAATAT
1 TTTAATAT
61427837 TTT--TAT
1 TTTAATAT
61427843 TCTTAATAT
1 T-TTAATAT
61427852 TTTAATA
1 TTTAATA
61427859 ATTCAACTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
6 4 0.13
7 8 0.26
8 15 0.48
9 4 0.13
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTAATAT
Found at i:61428135 original size:12 final size:11
Alignment explanation
Indices: 61428122--61428164 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
61428112 TTGGCCTATC
61428122 CTTTTTTCTTT
1 CTTTTTTCTTT
*
61428133 CCTTTTTCTTT
1 CTTTTTTCTTT
*
61428144 -TTTCTTCTTT
1 CTTTTTTCTTT
61428154 CTTTTTCTCTT
1 CTTTTT-TCTT
61428165 ATTTTTGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 8 0.31
11 14 0.54
12 4 0.15
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
CTTTTTTCTTT
Found at i:61428153 original size:21 final size:19
Alignment explanation
Indices: 61428123--61428161 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 19
61428113 TGGCCTATCC
61428123 TTTTTTCTTTCCTTTTTCTT
1 TTTTTTCTTT-CTTTTTCTT
61428143 TTTTCTTCTTTCTTTTTCT
1 TTTT-TTCTTTCTTTTTCT
61428162 CTTATTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTTCTTTCTTTTTCTT
Found at i:61428193 original size:9 final size:9
Alignment explanation
Indices: 61428181--61428213 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
61428171 GATTTTTCAA
61428181 TTTTTTGAT
1 TTTTTTGAT
61428190 TTTTTTGAT
1 TTTTTTGAT
*
61428199 TTTTTTTAT
1 TTTTTTGAT
61428208 TTTTTT
1 TTTTTT
61428214 CTTTTGAGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (9 bp):
TTTTTTGAT
Found at i:61428194 original size:18 final size:18
Alignment explanation
Indices: 61428173--61428214 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
61428163 TTATTTTTGA
61428173 TTTTTCAATTTTTTGATT
1 TTTTTCAATTTTTTGATT
* * *
61428191 TTTTTGATTTTTTTTATT
1 TTTTTCAATTTTTTGATT
61428209 TTTTTC
1 TTTTTC
61428215 TTTTGAGTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.79
Consensus pattern (18 bp):
TTTTTCAATTTTTTGATT
Found at i:61432066 original size:6 final size:6
Alignment explanation
Indices: 61432049--61432089 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
61432039 AGAAAAAGAA
* * *
61432049 AAAATC AAAATC AAAATC AAGATC AAGATC AAAATG AAAAT
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAAT
61432090 GAGAAAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.63, C:0.12, G:0.07, T:0.17
Consensus pattern (6 bp):
AAAATC
Found at i:61432159 original size:13 final size:13
Alignment explanation
Indices: 61432143--61432167 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61432133 AAATCAGAAT
61432143 GAAAAAGGAAAAA
1 GAAAAAGGAAAAA
61432156 GAAAAAGGAAAA
1 GAAAAAGGAAAA
61432168 TGAGAGGCCA
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:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
GAAAAAGGAAAAA
Found at i:61434471 original size:130 final size:130
Alignment explanation
Indices: 61434224--61434778 Score: 925
Period size: 130 Copynumber: 4.3 Consensus size: 130
61434214 ACGAATTATA
* * * *
61434224 CAGGTCTTATCCC-CCTGAAGTTGCAGTGGAACAGATCGACGACGGCGAATCTCATCTTCAAGTG
1 CAGGTCTTATCCCGACTGAAGTTGCAGTGGGACAGATCGAAGACGGCGAATCTTATCTTCAAGTG
61434288 TAAGGAAGCAGATTTAAGCCACGAGTTC-TTTCTCCCTGAGGTTGCAGTGGAGCAGACTAAGTAA
66 TAAGGAAGCAGATTTAAGCCACGAG-TCATTTCTCCCTGAGGTTGCAGTGGAGCAGACTAAGTAA
61434352 G
130 G
* *
61434353 CAGGTCTTATCCCGACTGAAGTTGCAGTAGGACAGATCGAAGATGGCGAATCTTATCTTCAAGTG
1 CAGGTCTTATCCCGACTGAAGTTGCAGTGGGACAGATCGAAGACGGCGAATCTTATCTTCAAGTG
* * *
61434418 TAAGGAAGCAAATTTAAGCCACGAGTCATTTTTCCCTGGGGTTGCAGTGGAGCAGACTAAGTAAG
66 TAAGGAAGCAGATTTAAGCCACGAGTCATTTCTCCCTGAGGTTGCAGTGGAGCAGACTAAGTAAG
*
61434483 CAGGTCTTATCCTGACTGAAGTTGCAGTGGGACAGATCGAAGACGGCGAATCTTATCTTCAAGTG
1 CAGGTCTTATCCCGACTGAAGTTGCAGTGGGACAGATCGAAGACGGCGAATCTTATCTTCAAGTG
* *
61434548 TAAGGAAGCAGATTTAAGCCACGAGTCCTTTCTCCCTGAGGTTGCAGTGGAGCAGGCTAAGTAAG
66 TAAGGAAGCAGATTTAAGCCACGAGTCATTTCTCCCTGAGGTTGCAGTGGAGCAGACTAAGTAAG
* *
61434613 CAGGTCTTATCCCGACTGAAGTTGCAGTGGGACAGATCAAAGACGGTGAATCTTATCTTCAAGTG
1 CAGGTCTTATCCCGACTGAAGTTGCAGTGGGACAGATCGAAGACGGCGAATCTTATCTTCAAGTG
* *
61434678 TAAGGAAGCAGATTTAAGCCACGAGTCATTTCTCCCTGATGTTGCAGAGGAGCAGACTAAGTAAG
66 TAAGGAAGCAGATTTAAGCCACGAGTCATTTCTCCCTGAGGTTGCAGTGGAGCAGACTAAGTAAG
* *
61434743 CAGGTCTTATCCCGACTGAAGCTGCAGTGGGGCAGA
1 CAGGTCTTATCCCGACTGAAGTTGCAGTGGGACAGA
61434779 CTGAATAAGC
Statistics
Matches: 398, Mismatches: 26, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
129 15 0.04
130 383 0.96
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (130 bp):
CAGGTCTTATCCCGACTGAAGTTGCAGTGGGACAGATCGAAGACGGCGAATCTTATCTTCAAGTG
TAAGGAAGCAGATTTAAGCCACGAGTCATTTCTCCCTGAGGTTGCAGTGGAGCAGACTAAGTAAG
Found at i:61434822 original size:44 final size:44
Alignment explanation
Indices: 61434768--61434863 Score: 102
Period size: 44 Copynumber: 2.2 Consensus size: 44
61434758 CTGAAGCTGC
* * * *
61434768 AGTGGGGCAGACTGAATAAGCCAATCTTATCTCCCTGAAGTTAT
1 AGTGGAGCAGACTGAAGAAGACAATCCTATCTCCCTGAAGTTAT
* ** * * *
61434812 AGTGGAGCAGATTGAAGCCGATAATCCTATCTCCTTGAAGTTGT
1 AGTGGAGCAGACTGAAGAAGACAATCCTATCTCCCTGAAGTTAT
61434856 AGTGGAGC
1 AGTGGAGC
61434864 GGATTAAAGT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (44 bp):
AGTGGAGCAGACTGAAGAAGACAATCCTATCTCCCTGAAGTTAT
Found at i:61434887 original size:44 final size:44
Alignment explanation
Indices: 61434790--61434898 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 44
61434780 TGAATAAGCC
* * * *
61434790 AATCTTATCTCCCTGAAGTTATAGTGGAGCAGATTGAAGCCGAT
1 AATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTAAAGCCAAT
* * *
61434834 AATCCTATCTCCTTGAAGTTGTAGTGGAGCGGATTAAAG-TAAT
1 AATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTAAAGCCAAT
*
61434877 AGATTTTATCT-CTCTGAAGTTG
1 A-ATCTTATCTCCT-TGAAGTTG
61434899 CAGTAGAGTG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 5 0.09
44 49 0.91
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (44 bp):
AATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTAAAGCCAAT
Found at i:61434968 original size:44 final size:44
Alignment explanation
Indices: 61434917--61435045 Score: 136
Period size: 44 Copynumber: 2.9 Consensus size: 44
61434907 TGGTTCGCAT
*
61434917 CAGGTCTTGTCTCCCTGAGGTTGCAGTGGAGCAGACT-AAGTAAG
1 CAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAG-AAG
* * *
61434961 CAGGTCTTATC-CCGACTGAAGTTGCAGTGGGGCAGGCTGAAGAAG
1 CAGGTCTTATCTCC--CTGAGGTTGCAGTGGAGCAGACTGAAGAAG
* ** * *
61435006 TAAATCTTATCTCCCTGAGGTTGCATTGGAGCAGATTGAA
1 CAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAA
61435046 TTCGATAATC
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
43 2 0.03
44 31 0.45
45 31 0.45
46 5 0.07
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (44 bp):
CAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGAAG
Found at i:61435860 original size:18 final size:18
Alignment explanation
Indices: 61435839--61435873 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
61435829 TATTTTTTCT
61435839 TTCTTTTC-GATTTCTTCC
1 TTCTTTTCTG-TTTCTTCC
61435857 TTCTTTTCTGTTTCTTC
1 TTCTTTTCTGTTTCTTC
61435874 AACCTTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.03, C:0.26, G:0.06, T:0.66
Consensus pattern (18 bp):
TTCTTTTCTGTTTCTTCC
Found at i:61438191 original size:4 final size:4
Alignment explanation
Indices: 61438173--61438206 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
61438163 TTAAAGTAAT
61438173 AATA AA-A ACATA AATA AATA AATA AATA AATA AA
1 AATA AATA A-ATA AATA AATA AATA AATA AATA AA
61438207 AGAAATGAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 2 0.07
4 24 0.86
5 2 0.07
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:61441765 original size:41 final size:39
Alignment explanation
Indices: 61441718--61441831 Score: 124
Period size: 41 Copynumber: 2.9 Consensus size: 39
61441708 TTTTACTTTG
*
61441718 AGTCGATGAGACACTGGGTGTCAATTTATTACTTTGGATTA
1 AGTCGATGAGACACTGGGTGTCAA-TTATTACTTCGG-TTA
* * * *
61441759 ATTCGATGAGGCACTGGGTGCCAA-T-TTACTTCGGTTT
1 AGTCGATGAGACACTGGGTGTCAATTATTACTTCGGTTA
* *
61441796 AGCCGATAAGACACTGGGTGTCAAATTATTACTTCG
1 AGTCGATGAGACACTGGGTGTC-AATTATTACTTCG
61441832 AATTATCTGA
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
37 19 0.32
38 10 0.17
39 2 0.03
40 8 0.13
41 21 0.35
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (39 bp):
AGTCGATGAGACACTGGGTGTCAATTATTACTTCGGTTA
Found at i:61442355 original size:13 final size:14
Alignment explanation
Indices: 61442337--61442367 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
61442327 TAGTAGTCCC
61442337 ATTTTTATTT-TTT
1 ATTTTTATTTATTT
61442350 ATTTTTATTTATTT
1 ATTTTTATTTATTT
61442364 ATTT
1 ATTT
61442368 ACATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
ATTTTTATTTATTT
Found at i:61443291 original size:3 final size:3
Alignment explanation
Indices: 61443285--61443360 Score: 80
Period size: 3 Copynumber: 25.0 Consensus size: 3
61443275 TCACATTTTA
* * **
61443285 TAT TAT TAT TAT TAT TACT TAT TAT TAT TAT TAT TAC TAT CAT TGC
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
61443331 TAT TAT TAT TAG CAT TAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
61443361 ATATCAATTT
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
3 55 0.95
4 3 0.05
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:61444698 original size:20 final size:20
Alignment explanation
Indices: 61444673--61444723 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
61444663 GTGAAAAGCT
61444673 ATTTGAATAGCA-AGTATGAG
1 ATTTGAATAGCAGAG-ATGAG
61444693 ATTTGAAATAGCAGGAGATGAG
1 ATTTG-AATAGCA-GAGATGAG
*
61444715 AATTGAATA
1 ATTTGAATA
61444724 TGTTATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.19
21 11 0.41
22 9 0.33
23 2 0.07
ACGTcount: A:0.43, C:0.04, G:0.25, T:0.27
Consensus pattern (20 bp):
ATTTGAATAGCAGAGATGAG
Found at i:61446641 original size:21 final size:21
Alignment explanation
Indices: 61446600--61446654 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
61446590 TATTTTCATC
* *
61446600 TATTTTATATTCATATTTAAAT
1 TATTATATATT-ATATATAAAT
61446622 TATTATATATTATATATAAAT
1 TATTATATATTATATATAAAT
61446643 T-TTGATATATTA
1 TATT-ATATATTA
61446655 GTTATTTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 18 0.60
22 10 0.33
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TATTATATATTATATATAAAT
Found at i:61447934 original size:27 final size:27
Alignment explanation
Indices: 61447893--61447995 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
61447883 TATCTTAGTC
* *
61447893 GTGCCAAGGTGATTGGCGGCACCAAAG
1 GTGCCAAAGTGATTGGCGGCACCAATG
*
61447920 GTGCCAAAGTTATTGGCGGCACCAATG
1 GTGCCAAAGTGATTGGCGGCACCAATG
* *
61447947 GTGCCAAGGAGATTGGCGGCACCAATG
1 GTGCCAAAGTGATTGGCGGCACCAATG
* * *
61447974 ATGCCATACTGATTGGCGGCAC
1 GTGCCAAAGTGATTGGCGGCAC
61447996 TACTCGTGTT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.25, C:0.23, G:0.33, T:0.18
Consensus pattern (27 bp):
GTGCCAAAGTGATTGGCGGCACCAATG
Found at i:61447979 original size:54 final size:54
Alignment explanation
Indices: 61447893--61447995 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
61447883 TATCTTAGTC
* * * *
61447893 GTGCCAAGGTGATTGGCGGCACCAAAGGTGCCAAAGTTATTGGCGGCACCAATG
1 GTGCCAAGGAGATTGGCGGCACCAAAGATGCCAAACTGATTGGCGGCACCAATG
* *
61447947 GTGCCAAGGAGATTGGCGGCACCAATGATGCCATACTGATTGGCGGCAC
1 GTGCCAAGGAGATTGGCGGCACCAAAGATGCCAAACTGATTGGCGGCAC
61447996 TACTCGTGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.25, C:0.23, G:0.33, T:0.18
Consensus pattern (54 bp):
GTGCCAAGGAGATTGGCGGCACCAAAGATGCCAAACTGATTGGCGGCACCAATG
Found at i:61448168 original size:19 final size:21
Alignment explanation
Indices: 61448130--61448168 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
61448120 AATAATTGAT
*
61448130 TATATTGTTGTTATTGTTTTG
1 TATATTGTTGTTATTATTTTG
61448151 TATATT-TTG-TATTATTTT
1 TATATTGTTGTTATTATTTT
61448169 TTTGTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.18, C:0.00, G:0.13, T:0.69
Consensus pattern (21 bp):
TATATTGTTGTTATTATTTTG
Found at i:61448233 original size:3 final size:3
Alignment explanation
Indices: 61448225--61448274 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
61448215 TTTTAGTTAG
* *
61448225 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAG TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
61448273 TA
1 TA
61448275 AGATGTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:61449086 original size:18 final size:18
Alignment explanation
Indices: 61449063--61449100 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
61449053 GGTTGGTGGT
*
61449063 GAAGAAGACGGTGCTGGC
1 GAAGAAGAAGGTGCTGGC
*
61449081 GAAGAAGAAGGTGGTGGC
1 GAAGAAGAAGGTGCTGGC
61449099 GA
1 GA
61449101 TCATTGGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.47, T:0.11
Consensus pattern (18 bp):
GAAGAAGAAGGTGCTGGC
Found at i:61450565 original size:22 final size:22
Alignment explanation
Indices: 61450540--61450627 Score: 67
Period size: 22 Copynumber: 4.0 Consensus size: 22
61450530 CCTTTCCTCT
61450540 TCTTCTTCTTTCTTTTTTTTTC
1 TCTTCTTCTTTCTTTTTTTTTC
* *
61450562 TCTTC-TCATTTCCTTTTCTTTC
1 TCTTCTTC-TTTCTTTTTTTTTC
* *
61450584 -CTTCTT-TTTC-TTTCTTTCC
1 TCTTCTTCTTTCTTTTTTTTTC
*
61450603 TCTCCTTCCTTTCTTTCTTTCTTTC
1 TCTTCTT-CTTTCTTT-TTT-TTTC
61450628 CCTCTCCTTC
Statistics
Matches: 50, Mismatches: 8, Indels: 13
0.70 0.11 0.18
Matches are distributed among these distances:
19 6 0.12
20 9 0.18
21 6 0.12
22 22 0.44
23 2 0.04
24 2 0.04
25 3 0.06
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (22 bp):
TCTTCTTCTTTCTTTTTTTTTC
Found at i:61450589 original size:36 final size:38
Alignment explanation
Indices: 61450519--61450598 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 38
61450509 GCATCAGGCA
* *
61450519 TTTTT-TCTTCTCCTTTCCTCTTCTTCTTCTTTCTTTT
1 TTTTTCTCTTCTCATTTCCTCTTCTTCTTCCTTCTTTT
*
61450556 TTTTTCTCTTCTCATTTCCTTTTC-T-TTCCTTCTTTT
1 TTTTTCTCTTCTCATTTCCTCTTCTTCTTCCTTCTTTT
*
61450592 TCTTTCT
1 TTTTTCT
61450599 TTCCTCTCCT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 16 0.42
37 6 0.16
38 16 0.42
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (38 bp):
TTTTTCTCTTCTCATTTCCTCTTCTTCTTCCTTCTTTT
Found at i:61450611 original size:27 final size:27
Alignment explanation
Indices: 61450581--61450638 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
61450571 TTCCTTTTCT
*
61450581 TTCCTTCTTTTTCTTTCTTT-CCTCTCC
1 TTCCTT-TCTTTCTTTCTTTCCCTCTCC
61450608 TTCCTTTCTTTCTTTCTTTCCCTCTCC
1 TTCCTTTCTTTCTTTCTTTCCCTCTCC
61450635 TTCC
1 TTCC
61450639 CCCCCCACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 12 0.41
27 17 0.59
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (27 bp):
TTCCTTTCTTTCTTTCTTTCCCTCTCC
Found at i:61450615 original size:32 final size:31
Alignment explanation
Indices: 61450520--61450622 Score: 91
Period size: 32 Copynumber: 3.1 Consensus size: 31
61450510 CATCAGGCAT
*
61450520 TTTTTCTTCTCCTTTCCTCTTCTTC-TTCTTTC
1 TTTTTCTT-T-CTTTCCTCTCCTTCTTTCTTTC
* * *
61450552 TTTTTTTTTCTCTTCTCATTTCCTTTTCTTTCCTTC
1 TTTTTCTTTCT-TTC-C-TCTCC--TTCTTTCTTTC
61450588 TTTTTCTTTCTTTCCTCTCCTTCCTTTCTTTC
1 TTTTTCTTTCTTTCCTCTCCTT-CTTTCTTTC
61450620 TTT
1 TTT
61450623 CTTTCCCTCT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
30 2 0.04
31 6 0.11
32 19 0.33
33 7 0.12
34 1 0.02
35 6 0.11
36 16 0.28
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (31 bp):
TTTTTCTTTCTTTCCTCTCCTTCTTTCTTTC
Found at i:61450799 original size:26 final size:27
Alignment explanation
Indices: 61450770--61450832 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 27
61450760 TGTTTTGGGT
61450770 ATATTTTGGTAAATAAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAATTTATA
*
61450796 ATATTTTGTTAAATAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAATTTATA
61450823 ATATTTTGGT
1 ATATTTTGGT
61450833 TATTTTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 20 0.59
27 14 0.41
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAATTTATA
Found at i:61451718 original size:15 final size:16
Alignment explanation
Indices: 61451700--61451730 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
61451690 TTTTTTTCAA
61451700 ATTTAATAT-TTTATT
1 ATTTAATATCTTTATT
61451715 ATTTAATATCTTTATT
1 ATTTAATATCTTTATT
61451731 CGTAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTAATATCTTTATT
Found at i:61459340 original size:5 final size:6
Alignment explanation
Indices: 61459323--61459348 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
61459313 TATATCCGAA
61459323 TCTTTT TCTTTT TCTTTT TCTTTT TC
1 TCTTTT TCTTTT TCTTTT TCTTTT TC
61459349 ATTATAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TCTTTT
Found at i:61459519 original size:27 final size:26
Alignment explanation
Indices: 61459473--61459527 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
61459463 AGCCTTAGAT
*
61459473 GACATATGTCTAAGTCTTTCTT-TAA
1 GACATATATCTAAGTCTTTCTTATAA
*
61459498 GACATATATCTAAGTGTTTTTCTTATAA
1 GACATATATCTAA--GTCTTTCTTATAA
61459526 GA
1 GA
61459528 TAATCTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.48
27 8 0.32
28 5 0.20
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (26 bp):
GACATATATCTAAGTCTTTCTTATAA
Found at i:61461568 original size:22 final size:20
Alignment explanation
Indices: 61461543--61461594 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
61461533 GATTAAATTT
61461543 TATATTTTTACGATAATAAAAA
1 TATATTTTTACGA-AAT-AAAA
* * * *
61461565 TATAATTTCACTAAATAAAT
1 TATATTTTTACGAAATAAAA
61461585 TATATTTTTA
1 TATATTTTTA
61461595 TAAATTTTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 11 0.46
21 3 0.12
22 10 0.42
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (20 bp):
TATATTTTTACGAAATAAAA
Found at i:61461614 original size:30 final size:30
Alignment explanation
Indices: 61461580--61461666 Score: 86
Period size: 31 Copynumber: 2.9 Consensus size: 30
61461570 TTTCACTAAA
*
61461580 TAAATTATATTTTTATAAATTTTAAATAAT
1 TAAATTAAATTTTTATAAATTTTAAATAAT
* * *
61461610 TAAATCAAATTTTTAT-TATGTTTATAATTAT
1 TAAATTAAATTTTTATAAAT-TTTA-AATAAT
* * *
61461641 TAATTTAAAATTTTATAAATTATAAA
1 TAAATTAAATTTTTATAAATTTTAAA
61461667 AAAAAAGTAA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
29 2 0.04
30 20 0.44
31 21 0.47
32 2 0.04
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (30 bp):
TAAATTAAATTTTTATAAATTTTAAATAAT
Found at i:61462767 original size:20 final size:20
Alignment explanation
Indices: 61462708--61462770 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
61462698 TAGACACCTT
61462708 ATTTTTATCATTATAGAATA
1 ATTTTTATCATTATAGAATA
* * *
61462728 ATTGATTAT--TTAAATTAATA
1 ATT-TTTATCATTATA-GAATA
61462748 ATTTTTATCATTATAGAATA
1 ATTTTTATCATTATAGAATA
61462768 ATT
1 ATT
61462771 CTTAAATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
19 8 0.24
20 17 0.52
21 8 0.24
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (20 bp):
ATTTTTATCATTATAGAATA
Done.