Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 69 of 345
Found at i:18906591 original size:27 final size:27
Alignment explanation
Indices: 18906512--18906601 Score: 94
Period size: 27 Copynumber: 3.3 Consensus size: 27
18906502 CTTTGTAGGA
* *
18906512 TAAAATTACCAAAATACCACTGGTTTG
1 TAAAATTACCAAAATACCCCTGATTTG
* *
18906539 -AGAAATTACCGAAATA-CCCTCAATTTG
1 TA-AAATTACCAAAATACCCCT-GATTTG
*
18906566 TAAAATTACCAAAATACCCCTGATTTA
1 TAAAATTACCAAAATACCCCTGATTTG
*
18906593 CAAAATTAC
1 TAAAATTAC
18906602 AGAAATTCCC
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
26 4 0.08
27 42 0.82
28 5 0.10
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTGATTTG
Found at i:18906607 original size:27 final size:27
Alignment explanation
Indices: 18906541--18906667 Score: 80
Period size: 27 Copynumber: 4.6 Consensus size: 27
18906531 CTGGTTTGAG
* * **
18906541 AAATTACCGAAATA-CCCTCAATTTGTA
1 AAATTACAGAAATACCCCT-GATTTACA
18906568 AAATTACCA-AAATACCCCTGATTTACA
1 AAATTA-CAGAAATACCCCTGATTTACA
* *
18906595 AAATTACAGAAATTCCCTTGACTTTTTA-A
1 AAATTACAGAAATACCCCTGA---TTTACA
* * ** *
18906624 AAATTATAGGAATACCATTGGTTTACA
1 AAATTACAGAAATACCCCTGATTTACA
*
18906651 AAATTACTGAAATACCC
1 AAATTACAGAAATACCC
18906668 TTGGTTTGTA
Statistics
Matches: 78, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
26 6 0.08
27 46 0.59
28 5 0.06
29 17 0.22
30 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACAGAAATACCCCTGATTTACA
Found at i:18906671 original size:27 final size:27
Alignment explanation
Indices: 18906567--18906674 Score: 85
Period size: 27 Copynumber: 3.9 Consensus size: 27
18906557 CTCAATTTGT
** * *
18906567 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* * *
18906594 AAAATTACAGAAATTCCCTTGACTTTTTA-
1 AAAATTACTGAAATACCCTTG---GTTTAC
* *
18906623 AAAATTA-TAGGAATACCATTGGTTTAC
1 AAAATTACT-GAAATACCCTTGGTTTAC
18906650 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
18906675 GTAAATTTAC
Statistics
Matches: 63, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
26 4 0.06
27 38 0.60
28 1 0.02
29 16 0.25
30 4 0.06
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:18906684 original size:27 final size:27
Alignment explanation
Indices: 18906567--18906697 Score: 72
Period size: 27 Copynumber: 4.8 Consensus size: 27
18906557 CTCAATTTGT
* * *
18906567 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACGAAAATACCCTTGGTTTAC
* *
18906594 AAAATTAC-AGAAATTCCCTTGACTTTTTA-
1 AAAATTACGA-AAATACCCTTG---GTTTAC
* * *
18906623 AAAATTA-TAGGAATACCATTGGTTTAC
1 AAAATTACGA-AAATACCCTTGGTTTAC
**
18906650 AAAATTACTG-AAATACCCTTGGTTTGT
1 AAAATTAC-GAAAATACCCTTGGTTTAC
* *
18906677 AAATTTACGAAAACACCCTTG
1 AAAATTACGAAAATACCCTTG
18906698 TAGGATGAAA
Statistics
Matches: 81, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
26 6 0.07
27 54 0.67
29 17 0.21
30 4 0.05
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
AAAATTACGAAAATACCCTTGGTTTAC
Found at i:18906758 original size:27 final size:27
Alignment explanation
Indices: 18906728--18906788 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
18906718 ACCCCTAATA
18906728 GGTAAAAAGACCGTAA-AGCCCCTGTAG
1 GGTAAAAAGACCGTAATA-CCCCTGTAG
** * *
18906755 GGTAAAGTGACCGTAATACCCTTGTAT
1 GGTAAAAAGACCGTAATACCCCTGTAG
18906782 GGTAAAA
1 GGTAAAA
18906789 TGATGAATAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (27 bp):
GGTAAAAAGACCGTAATACCCCTGTAG
Found at i:18907629 original size:25 final size:24
Alignment explanation
Indices: 18907594--18907660 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 24
18907584 AGGAAGTGCT
*
18907594 AAAAGGACTCTGCCCCAGTTTACC
1 AAAAGGGCTCTGCCCCAGTTTACC
*
18907618 GAAAAGGGCTCTGCCCCAGTTTATC
1 -AAAAGGGCTCTGCCCCAGTTTACC
*
18907643 AGAAAGGGCTTTGCCCCA
1 A-AAAGGGCTCTGCCCCA
18907661 ATTATTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 1 0.03
25 37 0.97
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (24 bp):
AAAAGGGCTCTGCCCCAGTTTACC
Found at i:18907676 original size:24 final size:24
Alignment explanation
Indices: 18907594--18907676 Score: 78
Period size: 25 Copynumber: 3.4 Consensus size: 24
18907584 AGGAAGTGCT
* * *
18907594 AAAAGGACTCTGCCCCAGTTTACC
1 AAAAGGGCTCTGCCCCAGATTATC
*
18907618 GAAAAGGGCTCTGCCCCAGTTTATC
1 -AAAAGGGCTCTGCCCCAGATTATC
* *
18907643 AGAAAGGGCTTTGCCCCA-ATTATT
1 A-AAAGGGCTCTGCCCCAGATTATC
18907667 AAAAGAGGCT
1 AAAAG-GGCT
18907677 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.20
25 37 0.73
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (24 bp):
AAAAGGGCTCTGCCCCAGATTATC
Found at i:18907876 original size:42 final size:42
Alignment explanation
Indices: 18907811--18907902 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
18907801 TAGTCTCCCC
* ** *
18907811 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
18907853 AAATGGGCTTGCATATATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
18907895 AAATGGGC
1 AAATGGGC
18907903 CTAAGGGCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:18907962 original size:31 final size:31
Alignment explanation
Indices: 18907926--18908039 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
18907916 CATTTACAGT
* *
18907926 AAAGGCTTTGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
18907957 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
18907988 AAAGGCTTTGGCCCAGTGATATGATTTATG-
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
18908018 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
18908040 TCAAGACTAA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
29 5 0.06
30 16 0.20
31 58 0.73
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:18919388 original size:22 final size:23
Alignment explanation
Indices: 18919338--18919389 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
18919328 ACGTTTTGAC
18919338 TTTTATTCTACTTTAAGACTACT
1 TTTTATTCTACTTTAAGACTACT
* *
18919361 TTTTATTTTTCTTTAAG-CTTA-T
1 TTTTATTCTACTTTAAGAC-TACT
18919383 TTTTATT
1 TTTTATT
18919390 AGGTTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.21, C:0.12, G:0.04, T:0.63
Consensus pattern (23 bp):
TTTTATTCTACTTTAAGACTACT
Found at i:18919488 original size:24 final size:24
Alignment explanation
Indices: 18919461--18919511 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
18919451 CTTCCTTATA
*
18919461 TATTCCCCAAAAGGTTTCTAATTC
1 TATTCCCCAAAAAGTTTCTAATTC
* *
18919485 TATTCCCTAAAAAGTTTCTGATTC
1 TATTCCCCAAAAAGTTTCTAATTC
18919509 TAT
1 TAT
18919512 CACAGTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (24 bp):
TATTCCCCAAAAAGTTTCTAATTC
Found at i:18923869 original size:14 final size:14
Alignment explanation
Indices: 18923850--18923876 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18923840 ATATTTGGCT
18923850 TGTTCTTAATTATG
1 TGTTCTTAATTATG
18923864 TGTTCTTAATTAT
1 TGTTCTTAATTAT
18923877 TTTCTTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:18930623 original size:40 final size:40
Alignment explanation
Indices: 18930553--18930806 Score: 363
Period size: 40 Copynumber: 6.4 Consensus size: 40
18930543 AAACCAAGTA
* *
18930553 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
18930592 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
18930632 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
18930672 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
18930712 CCTTCAGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * *
18930752 CCTTCGGGACTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
18930792 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
18930807 TCGGTTACCA
Statistics
Matches: 202, Mismatches: 9, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
39 17 0.08
40 185 0.92
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:18939994 original size:16 final size:15
Alignment explanation
Indices: 18939973--18940027 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
18939963 CTATTTTTTA
18939973 TTTATTTAGTCTTATT
1 TTTATTTA-TCTTATT
*
18939989 TTTATTTTATTTTATT
1 TTTA-TTTATCTTATT
* *
18940005 TTTATTTTTTTTGATT
1 TTTATTTATCTT-ATT
18940021 TTTATTT
1 TTTATTT
18940028 TCATTTCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 7 0.20
16 24 0.69
17 4 0.11
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (15 bp):
TTTATTTATCTTATT
Found at i:18939998 original size:5 final size:5
Alignment explanation
Indices: 18939988--18940053 Score: 57
Period size: 5 Copynumber: 12.8 Consensus size: 5
18939978 TTAGTCTTAT
*
18939988 TTTTA TTTTA TTTTA TTTTTA TTTT- TTTTGA TTTTTA TTTTCA TTTCAA
1 TTTTA TTTTA TTTTA -TTTTA TTTTA TTTT-A -TTTTA TTTT-A TTT-TA
18940037 TTTTA --TTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
18940054 GAAAGACATA
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
3 3 0.06
4 4 0.08
5 26 0.51
6 14 0.27
7 4 0.08
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:18940009 original size:32 final size:32
Alignment explanation
Indices: 18939964--18940043 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 32
18939954 TGAATCCTCC
18939964 TATTTT-TTATTTATTTAGTCTT-ATTTTTATTT
1 TATTTTATT-TTTATTT-GTCTTGATTTTTATTT
* *
18939996 TATTTTATTTTTATTTTTTTTGATTTTTATTT
1 TATTTTATTTTTATTTGTCTTGATTTTTATTT
* *
18940028 TCATTTCAATTTTATT
1 T-ATTTTATTTTTATT
18940044 ATTTTATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 3 0.07
32 24 0.59
33 14 0.34
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.75
Consensus pattern (32 bp):
TATTTTATTTTTATTTGTCTTGATTTTTATTT
Found at i:18940022 original size:7 final size:6
Alignment explanation
Indices: 18939984--18940033 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
18939974 TTATTTAGTC
*
18939984 TTATTT TTA-TT TTA-TT TTATTT TTA-TT TT-TTT TGATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
*
18940028 TCATTT
1 TTATTT
18940034 CAATTTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
5 17 0.45
6 21 0.55
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:18940023 original size:22 final size:22
Alignment explanation
Indices: 18939967--18940033 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
18939957 ATCCTCCTAT
* *
18939967 TTTTTATTT-A-TTTAGTCTTA
1 TTTTTATTTGATTTTATTTTTA
*
18939987 TTTTTATTTTATTTTATTTTTA
1 TTTTTATTTGATTTTATTTTTA
*
18940009 TTTTT-TTTGATTTTTATTTTCA
1 TTTTTATTTGA-TTTTATTTTTA
18940031 TTT
1 TTT
18940034 CAATTTTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.22
21 5 0.12
22 26 0.65
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (22 bp):
TTTTTATTTGATTTTATTTTTA
Found at i:18940028 original size:16 final size:16
Alignment explanation
Indices: 18939984--18940053 Score: 83
Period size: 16 Copynumber: 4.4 Consensus size: 16
18939974 TTATTTAGTC
18939984 TTATTTTTATTTTATT
1 TTATTTTTATTTTATT
18940000 TTATTTTTATTTT-TT
1 TTATTTTTATTTTATT
18940015 TTGATTTTTATTTTCATT
1 TT-ATTTTTATTTT-ATT
* *
18940033 TCAATTTTA--TTATT
1 TTATTTTTATTTTATT
18940047 TTATTTT
1 TTATTTT
18940054 GAAAGACATA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
14 8 0.17
15 6 0.13
16 24 0.51
17 6 0.13
18 3 0.06
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (16 bp):
TTATTTTTATTTTATT
Found at i:18953135 original size:14 final size:14
Alignment explanation
Indices: 18953075--18953140 Score: 71
Period size: 14 Copynumber: 4.6 Consensus size: 14
18953065 TACAAATGAA
*
18953075 AATATATAATAATGT
1 AATATAT-ATAATAT
18953090 AA-ATTATATAATAT
1 AATA-TATATAATAT
* *
18953104 AAAAATCTATAATAT
1 -AATATATATAATAT
18953119 AATATATATAATAT
1 AATATATATAATAT
18953133 AATATATA
1 AATATATA
18953141 AAAAAATATT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
14 27 0.61
15 16 0.36
16 1 0.02
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (14 bp):
AATATATATAATAT
Found at i:18953137 original size:12 final size:12
Alignment explanation
Indices: 18953111--18953328 Score: 64
Period size: 12 Copynumber: 17.9 Consensus size: 12
18953101 TATAAAAATC
18953111 TATAATATAATATA
1 TATAATAT-A-ATA
18953125 TATAATATAATA
1 TATAATATAATA
*
18953137 TATAA-A-AAAA
1 TATAATATAATA
*
18953147 TATTATGATAGATA
1 TATAAT-ATA-ATA
*
18953161 GTAAAATATAATA
1 -TATAATATAATA
* *
18953174 TGTAATAAAAATA
1 TATAAT-ATAATA
*
18953187 CATAA-ATAA-A
1 TATAATATAATA
*
18953197 TATAAT-GAA-A
1 TATAATATAATA
18953207 TATAATATGAA-A
1 TATAATAT-AATA
*
18953219 TAT-GTATAATA
1 TATAATATAATA
18953230 -ATAATAATAATAA
1 TATAAT-ATAAT-A
* *
18953243 TGTAACA-AATA
1 TATAATATAATA
* *
18953254 TTTTACATATAAGAA
1 -TATA-ATATAA-TA
18953269 TATAATGA-AATA
1 TATAAT-ATAATA
*
18953281 AATAATATAATA
1 TATAATATAATA
* *
18953293 -AAATATATAACA
1 TATA-ATATAATA
* *
18953305 TATAATAAAATT
1 TATAATATAATA
18953317 TATATATATAAT
1 TATA-ATATAAT
18953329 GTTACAAATG
Statistics
Matches: 150, Mismatches: 31, Indels: 47
0.66 0.14 0.21
Matches are distributed among these distances:
10 25 0.17
11 13 0.09
12 56 0.37
13 29 0.19
14 22 0.15
15 5 0.03
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.35
Consensus pattern (12 bp):
TATAATATAATA
Found at i:18953287 original size:17 final size:17
Alignment explanation
Indices: 18953267--18953315 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
18953257 TACATATAAG
*
18953267 AATATAATGAAATAAAT
1 AATATAATAAAATAAAT
*
18953284 AATATAATAAAATATAT
1 AATATAATAAAATAAAT
18953301 AACATATAATAAAAT
1 -A-ATATAATAAAAT
18953316 TTATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 15 0.54
18 1 0.04
19 12 0.43
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
AATATAATAAAATAAAT
Found at i:18953309 original size:19 final size:18
Alignment explanation
Indices: 18953267--18953328 Score: 72
Period size: 19 Copynumber: 3.4 Consensus size: 18
18953257 TACATATAAG
* *
18953267 AATATAATGAAATAAAT-
1 AATATAATAAAATATATA
18953284 AATATAATAAAATATATA
1 AATATAATAAAATATATA
*
18953302 ACATATAATAAAATTTATA
1 A-ATATAATAAAATATATA
*
18953321 TATATAAT
1 AATATAAT
18953329 GTTACAAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
17 15 0.38
18 8 0.21
19 16 0.41
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (18 bp):
AATATAATAAAATATATA
Found at i:18955674 original size:43 final size:43
Alignment explanation
Indices: 18955627--18955779 Score: 163
Period size: 43 Copynumber: 3.6 Consensus size: 43
18955617 TGTTCTCAAT
*
18955627 TAAGACCACGTCTGGGACGTTGACATCGATATGTGATTACGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGTG
* * * * * *
18955670 TAAGATCATGTCTGGGACATCGGCATC-ATATTTAATT-CGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGTG
*
18955711 TAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGA-TAGCATG
1 TAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATTA-CGTG
*
18955754 TAAGATCACGTCTGGGACGTTGGCAT
1 TAAGACCACGTCTGGGACGTTGGCAT
18955780 TATATGATAT
Statistics
Matches: 88, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
41 26 0.30
42 15 0.17
43 46 0.52
44 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGTG
Found at i:18955986 original size:20 final size:21
Alignment explanation
Indices: 18955951--18955989 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
18955941 TTGCAAATCA
18955951 TATATGATGTAAATGAAAAAT
1 TATATGATGTAAATGAAAAAT
*
18955972 TATATG-TGTATATGAAAA
1 TATATGATGTAAATGAAAA
18955990 GTACATTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (21 bp):
TATATGATGTAAATGAAAAAT
Found at i:18958461 original size:22 final size:22
Alignment explanation
Indices: 18958436--18958479 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
18958426 GCAAGTGCTG
*
18958436 AACTTCAAAGGCTTCAATGGTT
1 AACTTCAAAGGCATCAATGGTT
18958458 AACTTCAAAGGCATCAATGGTT
1 AACTTCAAAGGCATCAATGGTT
18958480 TCCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (22 bp):
AACTTCAAAGGCATCAATGGTT
Found at i:18960267 original size:20 final size:18
Alignment explanation
Indices: 18960238--18960297 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 18
18960228 ATGTTTTTTC
18960238 AAAAGAAAATAATAAAATT
1 AAAAGAAAATAATAAAA-T
18960257 AAAATGAAAATAA-AAAGA-
1 AAAA-GAAAATAATAAA-AT
*
18960275 AAAAGAAAAAAATAAAAAT
1 AAAAGAAAATAAT-AAAAT
18960294 AAAA
1 AAAA
18960298 AGATAAGAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
17 7 0.20
18 5 0.14
19 14 0.40
20 9 0.26
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (18 bp):
AAAAGAAAATAATAAAAT
Found at i:18960298 original size:20 final size:20
Alignment explanation
Indices: 18960238--18960300 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
18960228 ATGTTTTTTC
* *
18960238 AAAAGAAAATAATAAAATTA
1 AAAAGAAAAAAATAAAAATA
* *
18960258 AAATG---AAAATAAAAAGA
1 AAAAGAAAAAAATAAAAATA
18960275 AAAAGAAAAAAATAAAAATA
1 AAAAGAAAAAAATAAAAATA
18960295 AAAAGA
1 AAAAGA
18960301 TAAGAGGATT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 13 0.38
20 21 0.62
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (20 bp):
AAAAGAAAAAAATAAAAATA
Found at i:18965790 original size:13 final size:13
Alignment explanation
Indices: 18965772--18965800 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
18965762 GATTGTTTAT
18965772 TAAACTAATTAAC
1 TAAACTAATTAAC
18965785 TAAACTAATTAAC
1 TAAACTAATTAAC
18965798 TAA
1 TAA
18965801 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:18967558 original size:27 final size:27
Alignment explanation
Indices: 18967528--18967921 Score: 329
Period size: 27 Copynumber: 14.7 Consensus size: 27
18967518 TAATAAAGAG
*
18967528 AAATTACTAAAATACCCTCGATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
* * * * *
18967555 AAATT-GTCGAAATACCCCCAATTTATA
1 AAATTACT-AAAATACCCTCGATTTGTA
* *
18967582 AAATTAC-AGAAATACCATCGA-TTGTG
1 AAATTACTA-AAATACCCTCGATTTGTA
** *
18967608 AAATTACTAAAATACCCTTAATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
** * *
18967635 AAATTACCGAAATACCCCCGATTCGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* *
18967662 AAATTA-TCGAAATACCCTCGA-TTGTG
1 AAATTACT-AAAATACCCTCGATTTGTA
* *
18967688 AAATTACTAAAATACCCTCAATTTGTG
1 AAATTACTAAAATACCCTCGATTTGTA
* *
18967715 AAATTGCTGAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* *
18967742 AAATTACAAAAATATCCC-CGATTTGTG
1 AAATTACTAAAATA-CCCTCGATTTGTA
** * *
18967769 AAATTACTGGAACACCCTCAATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
** *
18967796 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * *
18967823 AAATTACCAAAACACCCTTGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
*
18967850 AAATTA-TCAAAATACCCTCAATTTGTA
1 AAATTACT-AAAATACCCTCGATTTGTA
* * *
18967877 AAATTA-TCGAAACACCCTCGGTTTGTA
1 AAATTACT-AAAATACCCTCGATTTGTA
18967904 AAATTA-TCAAAATACCCT
1 AAATTACT-AAAATACCCT
18967922 TGTAGTGTAA
Statistics
Matches: 298, Mismatches: 58, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
26 43 0.14
27 252 0.85
28 3 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:18967664 original size:80 final size:81
Alignment explanation
Indices: 18967527--18967921 Score: 469
Period size: 81 Copynumber: 4.9 Consensus size: 81
18967517 ATAATAAAGA
* * ** * * *
18967527 GAAATTACTAAAATACCCTCGATTTATAAAATTGTCGAAATACCCCCAATTTATAAAATTA-CAG
1 GAAATTACTAAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCA-
*
18967591 AAATACCATCGA-TTGT
65 AAATACCCTCGATTTGT
* * * * *
18967607 GAAATTACTAAAATACCCTTAATTTATAAAATTACCGAAATACCCCCGATTCGTAAAATTATCGA
1 GAAATTACTAAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAA
18967672 AATACCCTCGA-TTGT
66 AATACCCTCGATTTGT
* * *
18967687 GAAATTACTAAAATACCCTCAATTTGTGAAATTGCTGAAATACCCTCGATTTGTAAAATTA-CAA
1 GAAATTACTAAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATC-A
18967751 AAATATCCC-CGATTTGT
65 AAATA-CCCTCGATTTGT
** * * *
18967768 GAAATTACTGGAACACCCTCAATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCAA
1 GAAATTACTAAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAA
* *
18967833 AACACCCTTGATTTGT
66 AATACCCTCGATTTGT
* * * *
18967849 AAAATTA-TCAAAATACCCTCAATTTGTAAAATTATCGAAACACCCTCGGTTTGTAAAATTATCA
1 GAAATTACT-AAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCA
18967913 AAATACCCT
65 AAATACCCT
18967922 TGTAGTGTAA
Statistics
Matches: 274, Mismatches: 34, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
79 1 0.00
80 135 0.49
81 137 0.50
82 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
GAAATTACTAAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAA
AATACCCTCGATTTGT
Found at i:18968542 original size:27 final size:27
Alignment explanation
Indices: 18968475--18968542 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
18968465 TGAGGCTAAG
* * *
18968475 ATGGGC-TAGGCCCAATTGATTCTGTT
1 ATGGGCTTTGGCCCAAATGATTCTGTA
* *
18968501 ATGGGCTGTGACCCAAATGATAT-TGTA
1 ATGGGCTTTGGCCCAAATGAT-TCTGTA
18968528 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
18968543 CGTATGCTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 6 0.18
27 26 0.79
28 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATTCTGTA
Found at i:18971098 original size:22 final size:23
Alignment explanation
Indices: 18971073--18971118 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
18971063 CAACCAAACC
18971073 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
18971095 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
18971118 A
1 A
18971119 CGTCATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:18971124 original size:23 final size:22
Alignment explanation
Indices: 18971080--18971129 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
18971070 ACCAATTCAA
*
18971080 CATATTTTCAAGATAAATTCAT
1 CATATTTTCAAGATAAAGTCAT
*
18971102 GCATATTTAT-AAGATAACGTCAT
1 -CATATTT-TCAAGATAAAGTCAT
18971125 CATAT
1 CATAT
18971130 ACCCAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.21
23 18 0.75
24 1 0.04
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (22 bp):
CATATTTTCAAGATAAAGTCAT
Found at i:18978842 original size:23 final size:23
Alignment explanation
Indices: 18978798--18978842 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
18978788 ACCTTTGCAA
*
18978798 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
18978821 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
18978843 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:18980339 original size:12 final size:12
Alignment explanation
Indices: 18980322--18980353 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
18980312 CCCCTAATTA
18980322 TTTTTATTCAAT
1 TTTTTATTCAAT
18980334 TTTTTATT--AT
1 TTTTTATTCAAT
18980344 TTTTTATTCA
1 TTTTTATTCA
18980354 GGATTCAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.56
12 8 0.44
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTATTCAAT
Found at i:18981022 original size:45 final size:45
Alignment explanation
Indices: 18980968--18981102 Score: 252
Period size: 45 Copynumber: 3.0 Consensus size: 45
18980958 ATTAACTCAC
*
18980968 TTGGTGCAAAAATTATGGAATACCAACTTAGAAAACCCTCCTATG
1 TTGGTGCAAAAATTATGGAATACCAGCTTAGAAAACCCTCCTATG
*
18981013 TTGGTGCAAAAATTATGGAATACCAGCTTAGAAAACCTTCCTATG
1 TTGGTGCAAAAATTATGGAATACCAGCTTAGAAAACCCTCCTATG
18981058 TTGGTGCAAAAATTATGGAATACCAGCTTAGAAAACCCTCCTATG
1 TTGGTGCAAAAATTATGGAATACCAGCTTAGAAAACCCTCCTATG
18981103 GCATTTTTAG
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 87 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (45 bp):
TTGGTGCAAAAATTATGGAATACCAGCTTAGAAAACCCTCCTATG
Found at i:18986442 original size:23 final size:23
Alignment explanation
Indices: 18986416--18986502 Score: 68
Period size: 23 Copynumber: 3.7 Consensus size: 23
18986406 AAAAAAAAAG
18986416 AAAATATAATAATAATAATAGTA
1 AAAATATAATAATAATAATAGTA
* * * *
18986439 AAAACACAATAGTAATAATAATGA
1 AAAATATAATAATAATAATAGT-A
* *
18986463 AAAGGTATTATAAT-ATAATAGTA
1 AAA-ATATAATAATAATAATAGTA
* *
18986486 ATAATGATGATAATAAT
1 AAAAT-ATAATAATAAT
18986503 GGTATTAGTA
Statistics
Matches: 47, Mismatches: 13, Indels: 7
0.70 0.19 0.10
Matches are distributed among these distances:
22 1 0.02
23 28 0.60
24 13 0.28
25 5 0.11
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (23 bp):
AAAATATAATAATAATAATAGTA
Found at i:18986488 original size:33 final size:38
Alignment explanation
Indices: 18986446--18986527 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 38
18986436 GTAAAAACAC
18986446 AATAGTAATAATAATG-AA-AA-GGTATTA-TAAT-AT
1 AATAGTAATAATAATGAAATAATGGTATTAGTAATAAT
*
18986479 AATAGTAATAATGATGATAATAATGGTATTAGTAATAAT
1 AATAGTAATAATAATGA-AATAATGGTATTAGTAATAAT
*
18986518 AATAATAATA
1 AATAGTAATA
18986528 GAAAATAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 15 0.37
35 2 0.05
36 2 0.05
37 7 0.17
38 4 0.10
39 11 0.27
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.34
Consensus pattern (38 bp):
AATAGTAATAATAATGAAATAATGGTATTAGTAATAAT
Found at i:18986536 original size:19 final size:18
Alignment explanation
Indices: 18986512--18986552 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
18986502 TGGTATTAGT
*
18986512 AATAATAATAATAATAGAA
1 AATAATAACAATAATA-AA
*
18986531 AATAATAACAATATTAAA
1 AATAATAACAATAATAAA
18986549 AATA
1 AATA
18986553 GCACTCTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (18 bp):
AATAATAACAATAATAAA
Found at i:18986957 original size:13 final size:13
Alignment explanation
Indices: 18986923--18986969 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
18986913 TTTGTAGGCA
18986923 AGTGGAGTGG-TT
1 AGTGGAGTGGTTT
18986935 -G-GGA-TGGTTT
1 AGTGGAGTGGTTT
18986945 AGTGGAGTGGTTT
1 AGTGGAGTGGTTT
*
18986958 AGTGGGGTGGTT
1 AGTGGAGTGGTT
18986970 GGAGTGAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
9 3 0.10
10 5 0.17
11 2 0.07
12 3 0.10
13 17 0.57
ACGTcount: A:0.13, C:0.00, G:0.51, T:0.36
Consensus pattern (13 bp):
AGTGGAGTGGTTT
Found at i:18987806 original size:2 final size:2
Alignment explanation
Indices: 18987799--18987825 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18987789 AAGCGCAAAC
18987799 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
18987826 ACATACATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18988833 original size:45 final size:45
Alignment explanation
Indices: 18988728--18988860 Score: 157
Period size: 45 Copynumber: 3.0 Consensus size: 45
18988718 ATGCTATCTC
* * * * *
18988728 ATATCGATACCACTGTCCTAGACAGGGTCTTACAC-AAATCA-A-
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAACACAT
* * *
18988770 ATA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAACACAT
*
18988814 ATATCGATGCCAATGTCCCAGACGTGGTCTTACACGAAAACACAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAACACAT
18988859 AT
1 AT
18988861 CGGATCCTAT
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
41 26 0.34
42 7 0.09
43 1 0.01
44 3 0.04
45 39 0.51
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (45 bp):
ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAACACAT
Found at i:19013163 original size:27 final size:27
Alignment explanation
Indices: 19013133--19013194 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
19013123 GGGCAAAATG
19013133 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
19013160 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
19013187 GTAATTTT
1 GTAATTTT
19013195 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:19013207 original size:27 final size:27
Alignment explanation
Indices: 19013174--19013253 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
19013164 TTTTACCCTA
* *
19013174 CAGGGGTATTTTAGTAATTTTTCAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
19013201 CATGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
19013228 TAGGGGTATTTTGGTAATTTTACAAA
1 CAGGGGTATTTTGGTAATTTTACAAA
19013254 TTGAGGGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:19013208 original size:54 final size:54
Alignment explanation
Indices: 19013149--19013275 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 54
19013139 TTACCCCACA
** *
19013149 AGGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAA-CC
1 AGGGTATTTCAGTAATTTTA-CAAACTAGGGGTATTTTAGTAATTTTACAAATCC
** * **
19013202 ATGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCC
*
19013257 AGGGTATTTCTGTAATTTT
1 AGGGTATTTCAGTAATTTT
19013276 GTAAATCGAG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
53 4 0.07
54 56 0.92
55 1 0.02
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCC
Found at i:19013261 original size:27 final size:28
Alignment explanation
Indices: 19013175--19013287 Score: 117
Period size: 27 Copynumber: 4.1 Consensus size: 28
19013165 TTTACCCTAC
* * *
19013175 AGGGGTATTTTAGTAATTTTTCAAA-CC
1 AGGGGTATTTTGGTAATTTTACAAATCG
* *
19013202 ATGGGTATTTTGGTAATTTTACAAA-CT
1 AGGGGTATTTTGGTAATTTTACAAATCG
*
19013229 AGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGGTATTTTGGTAATTTTACAAATCG
**
19013257 A-GGGTATTTCT-GTAATTTTGTAAATCG
1 AGGGGTATTT-TGGTAATTTTACAAATCG
19013284 AGGG
1 AGGG
19013288 TAAAATAGTA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
27 69 0.95
28 4 0.05
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (28 bp):
AGGGGTATTTTGGTAATTTTACAAATCG
Found at i:19013288 original size:27 final size:27
Alignment explanation
Indices: 19013241--19013639 Score: 306
Period size: 27 Copynumber: 14.8 Consensus size: 27
19013231 GGGTATTTTG
** * ** *
19013241 GTAATTTTACAAATTGAGGGTATTTCT
1 GTAATTTTGTAAATCGAGGGTAAATCA
19013268 GTAATTTTGTAAATCGAGGGTAAAAT-A
1 GTAATTTTGTAAATCGAGGGT-AAATCA
* * **
19013295 GTAATTCTGTAAATCAAGAGAAAAAT-A
1 GTAATTTTGTAAATCGAG-GGTAAATCA
* * * *
19013322 GTAATTCTATAAATCGACGGTAAAAC-
1 GTAATTTTGTAAATCGAGGGTAAATCA
*
19013348 GATAATTTTGTAAATCGAGGGTAAAACA
1 G-TAATTTTGTAAATCGAGGGTAAATCA
* * *
19013376 GTAATTTTGTAAATCAAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAATCA
* *
19013403 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTTTGTAAATCGAGGGTAAATCA
* * *
19013430 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAATCA
*
19013457 GTAATTTTATAAATCGAGGGTAAAAT-A
1 GTAATTTTGTAAATCGAGGGT-AAATCA
* * *
19013484 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAATCA
* *
19013511 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAATCA
* * *
19013538 GTAATTATGTAAATCGGGGGTAAAAC-
1 GTAATTTTGTAAATCGAGGGTAAATCA
* ** **
19013564 GATAATTCTGTAAATCG-GGGTACTTTG
1 G-TAATTTTGTAAATCGAGGGTAAATCA
** * * **
19013591 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTGTAAATCGAGGGTAAATCA
**
19013618 GTAATTTTACAAATCGAGGGTA
1 GTAATTTTGTAAATCGAGGGTA
19013640 TTTCAGTATT
Statistics
Matches: 309, Mismatches: 53, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
26 25 0.08
27 277 0.90
28 7 0.02
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.31
Consensus pattern (27 bp):
GTAATTTTGTAAATCGAGGGTAAATCA
Found at i:19013299 original size:54 final size:54
Alignment explanation
Indices: 19013240--19013585 Score: 424
Period size: 54 Copynumber: 6.4 Consensus size: 54
19013230 GGGGTATTTT
* * *** * * *
19013240 GGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTGTAAATCGAGGGTAAAAT
1 GGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
* * * * * * * * *
19013294 AGTAATTCTGTAAATCAAGAGAAAAATAGTAATTCTATAAATCGACGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
* * * *
19013348 GATAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
19013402 GGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
*
19013456 GGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
* * * *
19013510 GGTAATTTTGTAAATCGAGGGTAAAACGGTAATTATGTAAATCGGGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
* * *
19013564 GATAATTCTGTAAATCG-GGGTA
1 GGTAATTTTATAAATCGAGGGTA
19013586 CTTTGGTAAT
Statistics
Matches: 252, Mismatches: 40, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
53 5 0.02
54 247 0.98
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (54 bp):
GGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:19013326 original size:81 final size:80
Alignment explanation
Indices: 19013268--19013585 Score: 415
Period size: 81 Copynumber: 4.0 Consensus size: 80
19013258 GGGTATTTCT
* * * *
19013268 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGAGAAAAATAGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATA
*
19013333 AATCGACGGTAAAAC
66 AATCGAGGGTAAAAC
** *
19013348 GATAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACGGTAATTTTAT
1 G-TAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTAT
19013413 AAATCGAGGGTAAAAC
65 AAATCGAGGGTAAAAC
* * * * *
19013429 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGT
1 -GTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTAT
19013494 AAATCGAGGGTAAAAC
65 AAATCGAGGGTAAAAC
* * ** * *
19013510 GGTAATTTTGTAAATCGAGGGTAAAACGGTAATTATGTAAATCGGGGGTAAAA-CGATAATTCTG
1 -GTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAATAG-TAATTCTA
19013574 TAAATCG-GGGTA
64 TAAATCGAGGGTA
19013586 CTTTGGTAAT
Statistics
Matches: 213, Mismatches: 22, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
80 7 0.03
81 205 0.96
82 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (80 bp):
GTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATA
AATCGAGGGTAAAAC
Found at i:19013640 original size:27 final size:27
Alignment explanation
Indices: 19013575--19013680 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 27
19013565 ATAATTCTGT
*
19013575 AAATCG-GGGTACTTT-GGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTAC
* *
19013601 AAGTCGAAGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTAC
*
19013628 AAATCGAGGGTATTTCAGTATTTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTAC
* *
19013655 AAA-CTAAGGGTATTTCGGTAATTTTA
1 AAATC-GAGGGTATTTCAGTAATTTTA
19013681 GTAAACTAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 9 0.13
27 59 0.87
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
AAATCGAGGGTATTTCAGTAATTTTAC
Found at i:19013694 original size:27 final size:27
Alignment explanation
Indices: 19013591--19013695 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
19013581 GGGTACTTTG
* *
19013591 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
19013618 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
19013645 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
19013672 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
19013696 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:19017556 original size:27 final size:27
Alignment explanation
Indices: 19017526--19017587 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
19017516 GGGCAAAATG
19017526 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
19017553 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
19017580 GTAATTTT
1 GTAATTTT
19017588 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:19017600 original size:27 final size:27
Alignment explanation
Indices: 19017567--19017646 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
19017557 TTTTACCCTA
* *
19017567 CAGGGGTATTTTAGTAATTTTTCAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
19017594 CATGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
19017621 TAGGGGTATTTTGGTAATTTTACAAA
1 CAGGGGTATTTTGGTAATTTTACAAA
19017647 TTGAGGGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:19017601 original size:54 final size:54
Alignment explanation
Indices: 19017542--19017668 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 54
19017532 TTACCCCACA
** *
19017542 AGGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAA-CC
1 AGGGTATTTCAGTAATTTTA-CAAACTAGGGGTATTTTAGTAATTTTACAAATCC
** * **
19017595 ATGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCC
*
19017650 AGGGTATTTCTGTAATTTT
1 AGGGTATTTCAGTAATTTT
19017669 GTAAATCGAG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
53 4 0.07
54 56 0.92
55 1 0.02
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCC
Found at i:19017654 original size:27 final size:28
Alignment explanation
Indices: 19017568--19017680 Score: 117
Period size: 27 Copynumber: 4.1 Consensus size: 28
19017558 TTTACCCTAC
* * *
19017568 AGGGGTATTTTAGTAATTTTTCAAA-CC
1 AGGGGTATTTTGGTAATTTTACAAATCG
* *
19017595 ATGGGTATTTTGGTAATTTTACAAA-CT
1 AGGGGTATTTTGGTAATTTTACAAATCG
*
19017622 AGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGGTATTTTGGTAATTTTACAAATCG
**
19017650 A-GGGTATTTCT-GTAATTTTGTAAATCG
1 AGGGGTATTT-TGGTAATTTTACAAATCG
19017677 AGGG
1 AGGG
19017681 TAAAATAGTA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
27 69 0.95
28 4 0.05
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (28 bp):
AGGGGTATTTTGGTAATTTTACAAATCG
Found at i:19017955 original size:27 final size:27
Alignment explanation
Indices: 19017661--19017979 Score: 388
Period size: 27 Copynumber: 11.8 Consensus size: 27
19017651 GGGTATTTCT
* *
19017661 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * * *
19017688 GTAATTCTGTAAATCAAGAGAAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
19017715 GTAATTCTATAAATCGACGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
19017742 ATAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
19017769 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
19017796 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
**
19017823 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
19017850 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
19017877 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
19017904 GTAATTTTGTAAATCGAAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
19017931 GTAATTATGTAAATCGGGGGTAAAAC-
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
19017957 GATAATTCTATAAATCGGGGGTA
1 G-TAATTCTGTAAATCGAGGGTA
19017980 CTTTGGTAAT
Statistics
Matches: 251, Mismatches: 40, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
26 1 0.00
27 250 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:19018006 original size:27 final size:27
Alignment explanation
Indices: 19017985--19018074 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
19017975 GGGTACTTTG
*
19017985 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
19018012 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
19018039 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
19018066 GTAATTTTA
1 GTAATTTTA
19018075 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:19018016 original size:81 final size:81
Alignment explanation
Indices: 19017661--19018033 Score: 316
Period size: 81 Copynumber: 4.6 Consensus size: 81
19017651 GGGTATTTCT
** * * * * * * * *
19017661 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGAGAAAAATAGTAATTCTATA
1 GTAATTTTACAAATCGAAGGTAAAACAGTAATTATATAAATCGAGGGTAAAACAGTAATTCTATA
* *
19017726 AATCGACGGTAAAACA
66 AATCGAGGGTAAAACG
* ** * * * * * *
19017742 ATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTATA
1 GTAATTTTACAAATCGAAGGTAAAACAGTAATTATATAAATCGAGGGTAAAACAGTAATTCTATA
*
19017807 AATCGAGGGTAAAACA
66 AATCGAGGGTAAAACG
* ** * ** * *
19017823 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTA
1 GTAATTTTACAAATCGAAGGTAAAACAGTAATTATATAAATCGAGGGTAAAACAGTAATTCTATA
19017888 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
** * * *
19017904 GTAATTTTGTAAATCGAAGGTAAAACGGTAATTATGTAAATCGGGGGTAAAAC-GATAATTCTAT
1 GTAATTTTACAAATCGAAGGTAAAACAGTAATTATATAAATCGAGGGTAAAACAG-TAATTCTAT
* ****
19017968 AAATCGGGGGTACTTTG
65 AAATCGAGGGTAAAACG
* *** * *
19017985 GTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTACAAATCGAGGGTA
1 GTAATTTTACAAATCGAAGGTAAAACAGTAATTATATAAATCGAGGGTA
19018034 TTTCAGTATT
Statistics
Matches: 249, Mismatches: 42, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
80 1 0.00
81 248 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (81 bp):
GTAATTTTACAAATCGAAGGTAAAACAGTAATTATATAAATCGAGGGTAAAACAGTAATTCTATA
AATCGAGGGTAAAACG
Found at i:19018088 original size:27 final size:27
Alignment explanation
Indices: 19017985--19018089 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
19017975 GGGTACTTTG
* *
19017985 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
19018012 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
19018039 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
19018066 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
19018090 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:19020929 original size:43 final size:43
Alignment explanation
Indices: 19020816--19020917 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 43
19020806 ATCGAGATGT
* * *
19020816 GATTACTTGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGA
* *
19020859 GATTACGTGGAAGACCATGTCTGGGACATTGGCATCGTTAAT-C
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TAATGA
*
19020902 GATTTCGTGTAAGACC
1 GATTACGTGTAAGACC
19020918 CTATCTTGGA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 48 0.94
44 3 0.06
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGA
Found at i:19021504 original size:29 final size:29
Alignment explanation
Indices: 19021472--19021559 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 29
19021462 TAGCCATGTG
19021472 ATTTGGCTTGTAAATGTTAGTATATTGTC
1 ATTTGGCTTGTAAATGTTAGTATATTGTC
* * * ** *
19021501 ATTTAAG-TTGT-GATTTTAG-CCA-TGTG
1 ATTT-GGCTTGTAAATGTTAGTATATTGTC
19021527 ATTTGGCTTGTAAATGTTAGTATATTGTC
1 ATTTGGCTTGTAAATGTTAGTATATTGTC
19021556 ATTT
1 ATTT
19021560 AAGTTGGCTT
Statistics
Matches: 42, Mismatches: 12, Indels: 10
0.66 0.19 0.16
Matches are distributed among these distances:
25 1 0.02
26 11 0.26
27 7 0.17
28 7 0.17
29 15 0.36
30 1 0.02
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (29 bp):
ATTTGGCTTGTAAATGTTAGTATATTGTC
Found at i:19021521 original size:55 final size:55
Alignment explanation
Indices: 19021451--19021565 Score: 230
Period size: 55 Copynumber: 2.1 Consensus size: 55
19021441 TTATATTTTG
19021451 AGTTGTGATTTTAGCCATGTGATTTGGCTTGTAAATGTTAGTATATTGTCATTTA
1 AGTTGTGATTTTAGCCATGTGATTTGGCTTGTAAATGTTAGTATATTGTCATTTA
19021506 AGTTGTGATTTTAGCCATGTGATTTGGCTTGTAAATGTTAGTATATTGTCATTTA
1 AGTTGTGATTTTAGCCATGTGATTTGGCTTGTAAATGTTAGTATATTGTCATTTA
19021561 AGTTG
1 AGTTG
19021566 GCTTGAATTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 60 1.00
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.47
Consensus pattern (55 bp):
AGTTGTGATTTTAGCCATGTGATTTGGCTTGTAAATGTTAGTATATTGTCATTTA
Found at i:19023804 original size:43 final size:43
Alignment explanation
Indices: 19023657--19023815 Score: 209
Period size: 43 Copynumber: 3.7 Consensus size: 43
19023647 TATGTGTTTT
* *
19023657 CGTGTAAGACCATGTCTGGGACGTTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTA
* *
19023701 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-TACTTGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
*
19023743 CGTGTAAGACC-CTATCTGGGAC-TATGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGACGT-TGGCATCGATATTTGATTA
19023786 CGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
19023816 TGTAAGAGCT
Statistics
Matches: 101, Mismatches: 8, Indels: 13
0.83 0.07 0.11
Matches are distributed among these distances:
41 2 0.02
42 30 0.30
43 36 0.36
44 33 0.33
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:19028332 original size:77 final size:77
Alignment explanation
Indices: 19028239--19028394 Score: 303
Period size: 77 Copynumber: 2.0 Consensus size: 77
19028229 TTTTCTTATT
19028239 ATTCTATATGGTTATCTATGAAAGATATTTATTGAATGGATATAACGATATTCCCTTCGATTATA
1 ATTCTATATGGTTATCTATGAAAGATATTTATTGAATGGATATAACGATATTCCCTTCGATTATA
19028304 ATTTCTACTTTG
66 ATTTCTACTTTG
*
19028316 ATTCTATATGGTTATCTATGAAAGATATTTATTGAATGGATATAATGATATTCCCTTCGATTATA
1 ATTCTATATGGTTATCTATGAAAGATATTTATTGAATGGATATAACGATATTCCCTTCGATTATA
19028381 ATTTCTACTTTG
66 ATTTCTACTTTG
19028393 AT
1 AT
19028395 CATAGTAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (77 bp):
ATTCTATATGGTTATCTATGAAAGATATTTATTGAATGGATATAACGATATTCCCTTCGATTATA
ATTTCTACTTTG
Found at i:19031606 original size:23 final size:23
Alignment explanation
Indices: 19031576--19031650 Score: 89
Period size: 23 Copynumber: 3.2 Consensus size: 23
19031566 GGACTCACCA
*
19031576 CAGCTCGTATGAGCTTATTGATT
1 CAGCTCGTATGAGCTTATTGTTT
* *
19031599 CAGCTCGTAAGAGCTTACTGTTT
1 CAGCTCGTATGAGCTTATTGTTT
*
19031622 CAGCTCAT-TGGAGCTTATTGTTTT
1 CAGCTCGTAT-GAGCTTATTG-TTT
19031646 CAGCT
1 CAGCT
19031651 TAATAGAGCT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
23 36 0.82
24 8 0.18
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTATTGTTT
Found at i:19031659 original size:24 final size:23
Alignment explanation
Indices: 19031586--19031664 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 23
19031576 CAGCTCGTAT
* * *
19031586 GAGCTTATTGATTCAGCTC-GTAA
1 GAGCTTACTGTTTCAGCTCAAT-A
* *
19031609 GAGCTTACTGTTTCAGCTCATTG
1 GAGCTTACTGTTTCAGCTCAATA
* *
19031632 GAGCTTATTGTTTTCAGCTTAATA
1 GAGCTTACTG-TTTCAGCTCAATA
19031656 GAGCTTACT
1 GAGCTTACT
19031665 ATTTATCAGC
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
23 26 0.58
24 19 0.42
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTCAATA
Found at i:19043765 original size:39 final size:39
Alignment explanation
Indices: 19043675--19043858 Score: 253
Period size: 39 Copynumber: 4.7 Consensus size: 39
19043665 ACAAAGCATG
* * * *
19043675 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAACACGAATGCCTT
*
19043715 CGGGACTTTAGCCCGAATATAACACCAACACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAACACGAATGCCTT
* *
19043755 CGGGACTTAGCTCGGATATAACACCAACATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAACACGAATGCCTT
* *
19043794 CAGGACTTAGCCTGGATATAACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAACACGAATGCCTT
19043833 CGGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCA
19043859 TTATAAAGTC
Statistics
Matches: 129, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 108 0.84
40 21 0.16
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAACACGAATGCCTT
Found at i:19043964 original size:28 final size:28
Alignment explanation
Indices: 19043931--19044012 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
19043921 ATTTAATCAT
** *
19043931 TCAATATTTTTCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* *
19043959 TCAATATCTCGCACATTAAGTGCCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* * *
19043987 TCAATATTTCGTACACTGAGTACCAT
1 TCAATATTTCGCACACTAAGTGCCAT
19044013 ATTTGATTGC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGCCATTC
Found at i:19050411 original size:93 final size:93
Alignment explanation
Indices: 19050300--19050470 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
19050290 GCCCCTAAGT
* *
19050300 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
19050365 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * * * *
19050393 GAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAATTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
19050458 CGAGTTCGGATGC
66 CGAGTTCGGATGC
19050471 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:19050460 original size:46 final size:46
Alignment explanation
Indices: 19050295--19050467 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
19050285 AACCCGCCCC
* * * * *
19050295 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
19050341 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
19050389 TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
19050434 TAAGTGAACTCGGACTCAATTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
19050468 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.55
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:19056777 original size:17 final size:17
Alignment explanation
Indices: 19056755--19056843 Score: 59
Period size: 15 Copynumber: 5.7 Consensus size: 17
19056745 TATTAAGCCC
19056755 CCCAAAAAAAAACCTAA
1 CCCAAAAAAAAACCTAA
*
19056772 CCCAAAAAAAAAAC-AA
1 CCCAAAAAAAAACCTAA
** **
19056788 -AGAAAAAAAAA-AGAA
1 CCCAAAAAAAAACCTAA
*
19056803 ---AAAGAAAAACCT-A
1 CCCAAAAAAAAACCTAA
*
19056816 CCC-CAAAAAAACCTAA
1 CCCAAAAAAAAACCTAA
19056832 CCCAAAAAAAAA
1 CCCAAAAAAAAA
19056844 AAAGAAGAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 14
0.70 0.13 0.18
Matches are distributed among these distances:
13 9 0.16
15 20 0.36
16 6 0.11
17 20 0.36
ACGTcount: A:0.71, C:0.22, G:0.03, T:0.03
Consensus pattern (17 bp):
CCCAAAAAAAAACCTAA
Found at i:19056810 original size:11 final size:11
Alignment explanation
Indices: 19056778--19056811 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
19056768 CTAACCCAAA
19056778 AAAAAAACAAAG
1 AAAAAAA-AAAG
19056790 AAAAAAAAAAG
1 AAAAAAAAAAG
19056801 AAAAAGAAAAA
1 AAAAA-AAAAA
19056812 CCTACCCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:19056826 original size:16 final size:15
Alignment explanation
Indices: 19056807--19056841 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
19056797 AAAGAAAAAG
*
19056807 AAAAACCTACCCCAA
1 AAAAACCTAACCCAA
19056822 AAAAACCTAACCCAA
1 AAAAACCTAACCCAA
19056837 AAAAA
1 AAAAA
19056842 AAAAAGAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.63, C:0.31, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAACCTAACCCAA
Found at i:19056842 original size:16 final size:15
Alignment explanation
Indices: 19056807--19056842 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
19056797 AAAGAAAAAG
*
19056807 AAAAACCTACCCCAA
1 AAAAACCTACCCAAA
19056822 AAAAACCTAACCCAAA
1 AAAAACCT-ACCCAAA
19056838 AAAAA
1 AAAAA
19056843 AAAAGAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.64, C:0.31, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAACCTACCCAAA
Found at i:19057440 original size:2 final size:2
Alignment explanation
Indices: 19057435--19057465 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
19057425 TAAATACTAT
*
19057435 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19057466 TTTAAATACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:19059455 original size:12 final size:12
Alignment explanation
Indices: 19059435--19059470 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
19059425 ATTCATTTAA
19059435 CATTCATGCATT
1 CATTCATGCATT
*
19059447 CATTTATGCATT
1 CATTCATGCATT
*
19059459 CATTCATTCATT
1 CATTCATGCATT
19059471 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:19066546 original size:71 final size:69
Alignment explanation
Indices: 19066352--19066615 Score: 332
Period size: 71 Copynumber: 3.7 Consensus size: 69
19066342 GAGTTAAGCC
* *
19066352 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
19066417 GAGGTAT
63 GAGGTAT
* * ** * *
19066424 TTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTG
1 TTTTAATTTTTGT-TTTAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCGGGGCACGCTG
19066488 AGGTAT
64 AGGTAT
19066494 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTT--AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
19066559 AGGTAT
64 AGGTAT
* * ** * *
19066565 TTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
19066616 TTTAATTTTT
Statistics
Matches: 167, Mismatches: 20, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
69 35 0.21
70 56 0.34
71 60 0.36
72 16 0.10
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (69 bp):
TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAG
GTAT
Found at i:19066660 original size:122 final size:124
Alignment explanation
Indices: 19066494--19066740 Score: 392
Period size: 122 Copynumber: 2.0 Consensus size: 124
19066484 GTTGAGGTAT
19066494 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
* *
19066559 AGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* *
19066615 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * * *
19066680 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
19066740 T
1 T
19066741 CAGGTCACGC
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
121 12 0.11
122 60 0.53
123 1 0.01
124 13 0.11
125 28 0.25
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (124 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:19066705 original size:263 final size:257
Alignment explanation
Indices: 19066185--19066777 Score: 1042
Period size: 263 Copynumber: 2.3 Consensus size: 257
19066175 TTTCAAGGAA
*
19066185 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
19066250 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
19066315 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
131 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
19066380 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
196 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
19066442 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
*
19066507 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTA---TT--T
19066572 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
126 TTA-GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
19066637 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
190 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
19066702 TTT
255 TTT
* * * * * *
19066705 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
19066770 GTTTTCAA
64 GTTTTCAA
19066778 TTTACGTTGT
Statistics
Matches: 320, Mismatches: 8, Indels: 8
0.95 0.02 0.02
Matches are distributed among these distances:
257 120 0.38
260 2 0.01
262 4 0.01
263 131 0.41
265 63 0.20
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (257 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
Found at i:19066736 original size:72 final size:71
Alignment explanation
Indices: 19066615--19067054 Score: 306
Period size: 72 Copynumber: 6.1 Consensus size: 71
19066605 GAGTTAAGCC
*
19066615 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
19066679 TGAGGTA
65 TGAGGTA
** * *
19066686 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
19066751 TGAGGTA
65 TGAGGTA
* * ** * * * * ** * *** *
19066758 TTTTCAATTTCTG-TTTT-CAATTTACGT--TGTT-CAAGA-ATCAACTCATATTGCGAGAGGTA
1 TTTTCAATTTTTGTTTTTAAAATCAAC-TCATATTGCGAGAGGTGAGTTGAGCCT-CG-G-GGCA
* * ***
19066817 GGTTGA-ACC
62 CGCTGAGGTA
** * *
19066826 TTTT-AATTTCTACTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTT-TTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
19066890 CTGAGGTA
64 CTGAGGTA
* * ** *
19066898 ATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCAC
1 TTTTCAATTTTTGTT-T--TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
19066962 GCTGAGGTA
63 GCTGAGGTA
* ** * * **
19066971 TTTTCAATTTTTATGTTTTAATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACAC
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GGCAC
*
19067036 GCCGAGGTA
63 GCTGAGGTA
19067045 TTTTCAATTT
1 TTTTCAATTT
19067055 CCGTTTTTCA
Statistics
Matches: 272, Mismatches: 74, Indels: 43
0.70 0.19 0.11
Matches are distributed among these distances:
66 5 0.02
67 10 0.04
68 8 0.03
69 13 0.05
70 6 0.02
71 47 0.17
72 78 0.29
73 42 0.15
74 63 0.23
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
GAGGTA
Found at i:19067019 original size:71 final size:74
Alignment explanation
Indices: 19066845--19067055 Score: 268
Period size: 74 Copynumber: 2.9 Consensus size: 74
19066835 CTACTTTTTC
*
19066845 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
19066910 GTTGTCAAA
66 GTTGTCAAA
* *
19066919 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
***
19066982 -TATGT-TTT
66 GT-TGTCAAA
** * * *
19066990 AATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATTT
19067055 C
64 C
19067056 CGTTTTTCAA
Statistics
Matches: 119, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
71 33 0.28
72 6 0.05
73 23 0.19
74 57 0.48
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTGTCAAA
Found at i:19067064 original size:14 final size:14
Alignment explanation
Indices: 19067045--19067079 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
19067035 CGCCGAGGTA
19067045 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
19067059 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
19067073 CTTTCAA
1 TTTTCAA
19067080 AAAAAATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:19067185 original size:74 final size:77
Alignment explanation
Indices: 19067060--19067221 Score: 240
Period size: 74 Copynumber: 2.1 Consensus size: 77
19067050 AATTTCCGTT
* *
19067060 TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-AC
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
*
19067124 ACGCTGAGGTAA
66 ACGCCGAGGTAA
* *
19067136 TTTCAATTTCTGT-TGTC-AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CA
*
19067199 CACGCCGAGGTAT
65 CACGCCGAGGTAA
19067212 TTTCAATTTC
1 TTTCAATTTC
19067222 CGTTTTTCAA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
74 40 0.51
75 3 0.04
76 35 0.45
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (77 bp):
TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
ACGCCGAGGTAA
Found at i:19067331 original size:165 final size:166
Alignment explanation
Indices: 19066899--19067556 Score: 962
Period size: 165 Copynumber: 4.0 Consensus size: 166
19066889 GCTGAGGTAA
* *
19066899 TTTCAATTTCTG--TTGTC-AAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGC
1 TTTCAATTTCTGCCTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* *** *
19066960 ACGCTGAGGTATTTTCAATTT-T-TATGT-TTTAATTTCAACTCGTATTGCGAGAGGCGAGTTGA
65 ACGCTGAGGTAATTTCAATTTCTGT-TGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGA
19067022 GCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
129 GCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
*
19067060 TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
19067125 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGC
66 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGC
19067190 CTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
131 CTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
*
19067226 TTTCAATTTTTGCCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
19067290 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGC
66 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGC
* * *
19067355 CTCAGATCACACGTCGAGGTATTTTCAATTTCCATT
131 CTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
*
19067391 TTTCAATTTCTGCCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGA
1 TTTCAATTTCTGCCTTTC--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* * ***
19067456 CACGCTGAGGTAATTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGA
64 CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGA
* ** *
19067519 GCCTCAAG--ACACGTTGAGGTATTTTCAATTTCTGTT
129 GCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
19067555 TT
1 TT
19067557 CAAAAAATCA
Statistics
Matches: 458, Mismatches: 29, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
161 12 0.03
162 2 0.00
163 41 0.09
164 50 0.11
165 162 0.35
166 119 0.26
168 72 0.16
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (166 bp):
TTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGC
CTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
Found at i:19067515 original size:72 final size:73
Alignment explanation
Indices: 19067413--19067919 Score: 406
Period size: 72 Copynumber: 6.5 Consensus size: 73
19067403 CCTTTCAAAA
*
19067413 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
19067478 CTGTTTTC
66 CTGTTTTC
* ** ** *
19067486 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
19067550 CTGTTTTC
66 CTGTTTTC
* * * ** *
19067558 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
*
19067623 TTCTATCTTTC
64 TTCTGT-TTTC
* ** *
19067634 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--TTTTC
* *
19067699 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * *
19067713 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTC-
* *
19067777 AAATCTATTTTTCAAATTCTGTTTT
61 --A---A--TTTC----TGT-TTTC
* * * ** *
19067802 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCTGAGGTATTTTCAAT
19067867 TTCTGTTTTTTTTTC
64 TTCTG-----TTTTC
19067882 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
19067920 TTTTTAATTT
Statistics
Matches: 346, Mismatches: 52, Indels: 63
0.75 0.11 0.14
Matches are distributed among these distances:
72 65 0.19
73 34 0.10
75 21 0.06
76 5 0.01
77 48 0.14
78 3 0.01
79 64 0.18
80 9 0.03
81 6 0.02
82 30 0.09
83 1 0.00
85 4 0.01
86 2 0.01
88 49 0.14
89 5 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:19067518 original size:331 final size:312
Alignment explanation
Indices: 19066845--19067714 Score: 1025
Period size: 331 Copynumber: 2.7 Consensus size: 312
19066835 CTACTTTTTC
*** * * *
19066845 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAACGAGTTGAGCCTCAAGACACGCCGAGGTATTTTCAATTTCT
* *
19066910 G-TTGTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTT
66 GCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTT
*** ** * *
19066974 TCAATTT-TTATGT-TTTAATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACG
130 TCAATTTCTTATGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACG
* * *
19067037 CCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGA
195 ACGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGA
19067102 GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAA
260 GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC-AA
* *** *
19067156 AAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAACGAGTTGAGCCTCAAG--ACACGCCGAGGTATTTTCAA---
19067221 CCGTTTTTCAATTTTTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
61 -----TTTC------TG-CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G
* *
19067286 GACACGCTGAGGTAATTTCAATTTCTGT-TGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGT
113 GACACGCTGAGGTATTTTCAATTTCT-TATGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGT
*
19067350 TGAGCCTCAGATCACACGTCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAA
177 TGAGCCTCAGATCACACGACGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTC--AAAA
*
19067415 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
240 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
19067480 GTTTTC-A
305 GTTGTCAA
* * **
19067487 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAACGAGTTGAGCCTCAAGACACGCCGAGGTATTTTCAATTTCT
* * * * * *
19067552 GTTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTAT
66 GCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-ACA--CGCTGAGGTAT
* * * *
19067616 TTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
128 TTTCAATTTCT-TATGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
**
19067681 AC-ACTGAGGTATTTTTTCAATTTATATTTTTCAA
192 ACGAC-GAGGTA--TTTTCAATTTCCATTTTTCAA
19067715 AAAAATCAAC
Statistics
Matches: 484, Mismatches: 44, Indels: 55
0.83 0.08 0.09
Matches are distributed among these distances:
311 37 0.08
312 2 0.00
313 56 0.12
314 4 0.01
315 24 0.05
316 55 0.11
318 19 0.04
321 8 0.02
327 2 0.00
328 41 0.08
329 43 0.09
330 4 0.01
331 116 0.24
333 73 0.15
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (312 bp):
AAAATCAACTCATATTGCGAGAAACGAGTTGAGCCTCAAGACACGCCGAGGTATTTTCAATTTCT
GCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTT
CAATTTCTTATGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGA
CGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAG
AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAA
Found at i:19067736 original size:79 final size:76
Alignment explanation
Indices: 19067412--19068129 Score: 427
Period size: 88 Copynumber: 9.0 Consensus size: 76
19067402 GCCTTTCAAA
** *
19067412 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
19067475 TTTCTGTTTTC
66 TTTCTGTTTTC
* ** * *
19067486 --AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
19067547 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * ** *
19067558 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
*
19067622 TTTCTATCTTTC
66 TTTCTGT-TTTC
* *
19067634 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTA--TTTTC
* *
19067699 AATTTATATTTTTC
64 AATTTCT-GTTTTC
* * * * * *
19067713 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCT-GAGGTATTTTCA
** *
19067777 AAATCTATTTTTC
65 ATTTCT-GTTTTC
* ** * **
19067790 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
19067855 GCTATTTTCAATTTCTGTTTTTTTTTC
55 GGTATTTTCAATTTCTG-----TTTTC
* * * * * *
19067882 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTCAGA--TC-AC-A-CGCTGAGGT
*
19067946 GAGTCTTTTAATTTCTGTTTTTC
58 -A-T-TTTCAATTTCTG-TTTTC
* **
19067969 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA-TATCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGATCACACGCT-GAGGTATTTTC
**
19068030 AAAATCTGCTTTTC
64 AATTTCTG-TTTTC
** * *
19068044 AAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGA
1 ------A-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
19068109 GCTATTTTCAATTTCTGTTTT
55 GGTATTTTCAATTTCTGTTTT
19068130 TAATGTCTGT
Statistics
Matches: 505, Mismatches: 82, Indels: 101
0.73 0.12 0.15
Matches are distributed among these distances:
72 65 0.13
73 32 0.06
75 36 0.07
76 5 0.01
77 65 0.13
78 7 0.01
79 64 0.13
80 2 0.00
81 7 0.01
82 30 0.06
83 1 0.00
84 31 0.06
85 7 0.01
86 1 0.00
87 11 0.02
88 119 0.24
89 3 0.01
90 1 0.00
91 13 0.03
92 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
TTTCTGTTTTC
Found at i:19067937 original size:30 final size:30
Alignment explanation
Indices: 19067901--19067962 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
19067891 CAACTCATAT
19067901 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
19067931 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
19067961 TG
1 TG
19067963 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:19068063 original size:254 final size:248
Alignment explanation
Indices: 19067552--19068130 Score: 753
Period size: 254 Copynumber: 2.3 Consensus size: 248
19067542 TTCAATTTCT
* * *
19067552 GTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
*
19067617 TTCAATTTC----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
66 TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
* *
19067678 CACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGA
131 CACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGA
* ** * * * **
19067743 GTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTATTTTTCAAATTCT
195 GTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAA
* *
19067797 GTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
* *
19067861 TTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA
66 TTCAATTTCTGTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCA
* * * * * * *
19067926 -ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGC
128 GA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGC
* *
19067988 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAA
186 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAA
19068051 G-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
19068115 TTCAATTTCTGTTTTT
66 TTCAATTTCTGTTTTT
19068131 AATGTCTGTT
Statistics
Matches: 290, Mismatches: 29, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
244 62 0.21
245 6 0.02
248 13 0.04
249 30 0.10
250 1 0.00
251 3 0.01
252 2 0.01
253 5 0.02
254 145 0.50
255 5 0.02
256 13 0.04
257 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (248 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
CACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAG
TTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAA
Found at i:19068796 original size:17 final size:17
Alignment explanation
Indices: 19068776--19068811 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
19068766 AACCTAACCC
*
19068776 AAAAAAAA-ACAAAGAA
1 AAAAAAAAGAAAAAGAA
19068792 AAAAAAAAGAAAAAGAA
1 AAAAAAAAGAAAAAGAA
19068809 AAA
1 AAA
19068812 CCTACCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAAGAA
Found at i:19068810 original size:11 final size:11
Alignment explanation
Indices: 19068778--19068811 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
19068768 CCTAACCCAA
19068778 AAAAAAACAAAG
1 AAAAAAA-AAAG
19068790 AAAAAAAAAAG
1 AAAAAAAAAAG
19068801 AAAAAGAAAAA
1 AAAAA-AAAAA
19068812 CCTACCCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:19068825 original size:15 final size:15
Alignment explanation
Indices: 19068807--19068841 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
19068797 AAAGAAAAAG
*
19068807 AAAAACCTACCCCAA
1 AAAAACCTAACCCAA
19068822 AAAAACCTAACCCAA
1 AAAAACCTAACCCAA
19068837 AAAAA
1 AAAAA
19068842 AAAGAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.63, C:0.31, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAACCTAACCCAA
Found at i:19069434 original size:2 final size:2
Alignment explanation
Indices: 19069429--19069461 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
19069419 TAAATACTAT
*
19069429 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19069462 TAAATACCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:19081678 original size:28 final size:28
Alignment explanation
Indices: 19081646--19081712 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
19081636 TCGTGTGGCT
19081646 TCAAAACACATGACTTTGCCTTCTTGCA
1 TCAAAACACATGACTTTGCCTTCTTGCA
19081674 TCAAAACACATGACTTTGCCTTCTTGCA
1 TCAAAACACATGACTTTGCCTTCTTGCA
19081702 TCAAAACACAT
1 TCAAAACACAT
19081713 CCTAGTCCGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.33, C:0.28, G:0.09, T:0.30
Consensus pattern (28 bp):
TCAAAACACATGACTTTGCCTTCTTGCA
Found at i:19084328 original size:22 final size:23
Alignment explanation
Indices: 19084300--19084361 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 23
19084290 GCAAATACGT
19084300 TTGGCACACAGCCATAAT-CAGG
1 TTGGCACACAGCCATAATGCAGG
* *
19084322 TTGGCACACAACCAT-ATGTAGG
1 TTGGCACACAGCCATAATGCAGG
*
19084344 TTGGCACAAAGCCATAAT
1 TTGGCACACAGCCATAAT
19084362 TAGAATAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (23 bp):
TTGGCACACAGCCATAATGCAGG
Found at i:19084577 original size:41 final size:41
Alignment explanation
Indices: 19084506--19084628 Score: 176
Period size: 41 Copynumber: 3.0 Consensus size: 41
19084496 TAAAAGCCAC
* *
19084506 CGGTGGATCCACGGTCA-TCAAACAACCATGCGATCCTTAAT
1 CGGTGGATCCACGGT-AGTCAAGCAACCATGCGATCCTCAAT
* *
19084547 CGGTGGATCCACGGTAGCCAAGCAATCATGCGATCCTCAAT
1 CGGTGGATCCACGGTAGTCAAGCAACCATGCGATCCTCAAT
* *
19084588 CAGTGGATCCACGGTTGTCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGGTAGTCAAGCAACCATGCGATCCTCAAT
19084629 TTCTTCCTCT
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 1 0.01
41 72 0.99
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (41 bp):
CGGTGGATCCACGGTAGTCAAGCAACCATGCGATCCTCAAT
Found at i:19084918 original size:27 final size:28
Alignment explanation
Indices: 19084867--19085266 Score: 190
Period size: 27 Copynumber: 14.8 Consensus size: 28
19084857 TTCAGCCTAT
* * * *
19084867 AAGGGTGTTTTGGTAAATCTACAAACT-
1 AAGGGTATTTTAGTAATTTTACAAACTC
*
19084894 AAGGGTATTTTAGTAATTTTGCAAAC-C
1 AAGGGTATTTTAGTAATTTTACAAACTC
* ** *
19084921 AATGGTATTTCT-GTAATTTTTGAAAGTC
1 AAGGGTATTT-TAGTAATTTTACAAACTC
* ** *
19084949 AATGGTATTTCT-GTAATTTTGTAAA-TT
1 AAGGGTATTT-TAGTAATTTTACAAACTC
* *
19084976 AGGGGTATTTCT-GTAATTTTCCAAA-TC
1 AAGGGTATTT-TAGTAATTTTACAAACTC
*
19085003 AATGGTATTTT-GATAATTTT-CTAAA-TC
1 AAGGGTATTTTAG-TAATTTTAC-AAACTC
* * *
19085030 AAGGGTATTTTGGTAATTTTA-AAAATT
1 AAGGGTATTTTAGTAATTTTACAAACTC
* * * *
19085057 GAGGGTATTTCAATAATTTTAC-AAGTC
1 AAGGGTATTTTAGTAATTTTACAAACTC
* * * **
19085084 GAGGGTATTTCAATAATTTTAC-AGGTC
1 AAGGGTATTTTAGTAATTTTACAAACTC
* * *
19085111 AAAGGTATTTCAGTAATTTCACAAA-TC
1 AAGGGTATTTTAGTAATTTTACAAACTC
* *
19085138 AGGGGTATTTTGGTAATTTTACAAAC-C
1 AAGGGTATTTTAGTAATTTTACAAACTC
* * * *
19085165 AAGGATATTTTGGTAATTTTGCTAA-TC
1 AAGGGTATTTTAGTAATTTTACAAACTC
* * * *
19085192 GACGGTATTTTGGTAATTTTATAAAC-C
1 AAGGGTATTTTAGTAATTTTACAAACTC
* * * **
19085219 AAGGGTA-TTAATTAATATTGTAAAC-C
1 AAGGGTATTTTAGTAATTTTACAAACTC
* *
19085245 AAGGGTATTTCAATAATTTTAC
1 AAGGGTATTTTAGTAATTTTAC
19085267 CCTACGGAGT
Statistics
Matches: 299, Mismatches: 60, Indels: 28
0.77 0.16 0.07
Matches are distributed among these distances:
26 27 0.09
27 245 0.82
28 27 0.09
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (28 bp):
AAGGGTATTTTAGTAATTTTACAAACTC
Found at i:19085067 original size:81 final size:82
Alignment explanation
Indices: 19084867--19085212 Score: 271
Period size: 81 Copynumber: 4.3 Consensus size: 82
19084857 TTCAGCCTAT
* * * * * *
19084867 AAGGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTTAGTAATTTTGCAAACCAATGGTATTTC
1 AAGGGTATTTTGGTAATTTTACAAATTAGGGGTATTTTAGTAATTTTACAAACCAATGGTATTT-
19084932 TG-TAATTTT--TGAAAGTC
65 TGATAATTTTACT-AAA-TC
* ** * *
19084949 AATGGTATTTCT-GTAATTTTGTAAATTAGGGGTATTTCT-GTAATTTTCCAAATCAATGGTATT
1 AAGGGTATTT-TGGTAATTTTACAAATTAGGGGTATTT-TAGTAATTTTACAAACCAATGGTATT
19085012 TTGATAATTTT-CTAAATC
64 TTGATAATTTTACTAAATC
* * * ** * *
19085030 AAGGGTATTTTGGTAATTTTAAAAATT-GAGGGTATTTCAATAATTTTACAAGTCGAGGGTATTT
1 AAGGGTATTTTGGTAATTTTACAAATTAG-GGGTATTTTAGTAATTTTACAAACCAATGGTATTT
** **
19085094 CAATAATTTTAC-AGGTC
65 TGATAATTTTACTAAATC
* ** * * *
19085111 AAAGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACCAA-GGATATTT
1 AAGGGTATTTTGGTAATTTTACAAATTAGGGGTATTTTAGTAATTTTACAAACCAATGG-TATTT
* *
19085175 TGGTAATTTTGCT-AATC
65 TGATAATTTTACTAAATC
* *
19085192 GACGGTATTTTGGTAATTTTA
1 AAGGGTATTTTGGTAATTTTA
19085213 TAAACCAAGG
Statistics
Matches: 207, Mismatches: 46, Indels: 23
0.75 0.17 0.08
Matches are distributed among these distances:
80 4 0.02
81 138 0.67
82 62 0.30
83 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (82 bp):
AAGGGTATTTTGGTAATTTTACAAATTAGGGGTATTTTAGTAATTTTACAAACCAATGGTATTTT
GATAATTTTACTAAATC
Found at i:19085612 original size:6 final size:6
Alignment explanation
Indices: 19085603--19085635 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
19085593 ATTGGAATCG
19085603 GAATTA GAATTA GAATTA GAATTA GAATTA GAA
1 GAATTA GAATTA GAATTA GAATTA GAATTA GAA
19085636 CTGAACATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (6 bp):
GAATTA
Found at i:19085618 original size:18 final size:18
Alignment explanation
Indices: 19085592--19085635 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
19085582 TTCAAACTCA
* *
19085592 AATTGGAATCGGAATTAG
1 AATTAGAATCAGAATTAG
*
19085610 AATTAGAATTAGAATTAG
1 AATTAGAATCAGAATTAG
19085628 AATTAGAA
1 AATTAGAA
19085636 CTGAACATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.20, T:0.30
Consensus pattern (18 bp):
AATTAGAATCAGAATTAG
Found at i:19095876 original size:36 final size:36
Alignment explanation
Indices: 19095836--19095908 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
19095826 GAGAACTTAC
*
19095836 AAGGATTGAACTCGACATATCATACTTTTTCATAAT
1 AAGGATTGAACTCGAAATATCATACTTTTTCATAAT
*
19095872 AAGGATTGAACTGGAAATATCATACTTTTTCATAAT
1 AAGGATTGAACTCGAAATATCATACTTTTTCATAAT
19095908 A
1 A
19095909 TTAATAATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (36 bp):
AAGGATTGAACTCGAAATATCATACTTTTTCATAAT
Found at i:19096727 original size:18 final size:18
Alignment explanation
Indices: 19096704--19096750 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
19096694 TTCATTCGGG
19096704 AAAGGCATTAATATTTCA
1 AAAGGCATTAATATTTCA
19096722 AAAGGCATTAATATTTCA
1 AAAGGCATTAATATTTCA
*
19096740 AAATGCATTAA
1 AAAGGCATTAA
19096751 AAATATGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (18 bp):
AAAGGCATTAATATTTCA
Found at i:19100069 original size:2 final size:2
Alignment explanation
Indices: 19100062--19100098 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
19100052 GAGACTAGTC
19100062 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19100099 CATGTCATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19102126 original size:30 final size:30
Alignment explanation
Indices: 19102092--19102152 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
19102082 TCCTTAACTC
19102092 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
19102122 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
19102152 A
1 A
19102153 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:19104648 original size:43 final size:43
Alignment explanation
Indices: 19104598--19104754 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 43
19104588 TAACCTAAAT
* * * * *
19104598 ATGGTCTTACATGTTATTACATATCGATGCCACTGTCCCAAAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
* * *
19104641 AGGGTCTTACACGAAATCGA-ATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATC-ACATATCGATGCCAATGTCCCAGAC
*
19104684 ATGGTCTTACACGTAATCACACTA-CAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACA-TATCGATGCCAATGTCCCAGAC
* * *
19104727 ATGGTCTTAGATGTAATCACATCTCGAT
1 ATGGTCTTACACGTAATCACATATCGAT
19104755 AACCTAATGT
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
42 2 0.02
43 90 0.95
44 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:19112008 original size:16 final size:17
Alignment explanation
Indices: 19111987--19112019 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19111977 AAAGCTTAGT
19111987 AAGTCAT-ATACAAATA
1 AAGTCATCATACAAATA
*
19112003 AAGTCATCATACGAATA
1 AAGTCATCATACAAATA
19112020 TTTGTATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (17 bp):
AAGTCATCATACAAATA
Found at i:19112352 original size:43 final size:43
Alignment explanation
Indices: 19112305--19112430 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
19112295 TATTACATAT
* * * *
19112305 CGATGCCACTATCCCAGATAGGGTCTTACACGAAATC-GAATAA
1 CGATGCCAATGTCCCAGATATGGTCTTACACGAAATCACAAT-A
* *
19112348 CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATA
1 CGATGCCAATGTCCCAGATATGGTCTTACACGAAATCACAATA
* * * *
19112391 CAATGTCAATGTCCCAGATATGGTCTTACATGTAATCACA
1 CGATGCCAATGTCCCAGATATGGTCTTACACGAAATCACA
19112431 TCTTAGTAAC
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 69 0.96
44 3 0.04
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGATATGGTCTTACACGAAATCACAATA
Found at i:19117152 original size:6 final size:6
Alignment explanation
Indices: 19117143--19117176 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
19117133 TTCAAACTCA
* *
19117143 AATTGG AATTGG AATTAG AATTAG AATTAG AATT
1 AATTAG AATTAG AATTAG AATTAG AATTAG AATT
19117177 GAACATGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (6 bp):
AATTAG
Found at i:19120915 original size:40 final size:40
Alignment explanation
Indices: 19120808--19120916 Score: 116
Period size: 40 Copynumber: 2.7 Consensus size: 40
19120798 ATTTAATTAA
**
19120808 TTTTTT-AAATTTTAAAAATTCAAAAAAATACTTTTTAAAT
1 TTTTTTAAAATTTT-AAAATTTTAAAAAATACTTTTTAAAT
* * *
19120848 TATTTTAATTATTTTAAAATTTT-AAAAATA-GTTTTATAAT
1 TTTTTTAA-AATTTTAAAATTTTAAAAAATACTTTTTA-AAT
*
19120888 TTTTTTAAAATTTTTAAATTTTAAAAAAT
1 TTTTTTAAAATTTTAAAATTTTAAAAAAT
19120917 TAATTAAATA
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
39 17 0.30
40 28 0.49
41 7 0.12
42 5 0.09
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (40 bp):
TTTTTTAAAATTTTAAAATTTTAAAAAATACTTTTTAAAT
Found at i:19123978 original size:3 final size:3
Alignment explanation
Indices: 19123970--19124007 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
19123960 GAGTGCTCCA
*
19123970 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAA TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
19124008 TTGTAGATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:19127810 original size:21 final size:21
Alignment explanation
Indices: 19127786--19127850 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
19127776 AAATCTAACT
19127786 GAAGCACAAAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
** * *
19127807 GAAGC-CCGAAG-GGT-AACT
1 GAAGCACAAAAGTGCTAAACG
*
19127825 GAAGCACATAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
19127846 GAAGC
1 GAAGC
19127851 CCGAAGGCTA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 6 0.18
21 13 0.39
ACGTcount: A:0.42, C:0.20, G:0.28, T:0.11
Consensus pattern (21 bp):
GAAGCACAAAAGTGCTAAACG
Found at i:19127826 original size:39 final size:39
Alignment explanation
Indices: 19127780--19127868 Score: 160
Period size: 39 Copynumber: 2.3 Consensus size: 39
19127770 AACCCGAAAT
19127780 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
* *
19127819 GTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
19127858 CTAACTGAAGC
1 CTAACTGAAGC
19127869 TCATCAGAGC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.12
Consensus pattern (39 bp):
CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
Found at i:19128619 original size:21 final size:20
Alignment explanation
Indices: 19128594--19128657 Score: 60
Period size: 21 Copynumber: 3.2 Consensus size: 20
19128584 TAGCCTTCGG
19128594 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTT-TGT
* * * *
19128615 GCTTCAG-TTA-CCCTTCGG
1 GCTTCCGTTTAGCACTTTGT
19128633 GCTTCCGTTTAGCACTTTTGT
1 GCTTCCGTTTAGCAC-TTTGT
19128654 GCTT
1 GCTT
19128658 TAGTTAGATT
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 7 0.22
19 7 0.22
20 5 0.16
21 13 0.41
ACGTcount: A:0.11, C:0.27, G:0.20, T:0.42
Consensus pattern (20 bp):
GCTTCCGTTTAGCACTTTGT
Found at i:19128622 original size:39 final size:39
Alignment explanation
Indices: 19128576--19128664 Score: 151
Period size: 39 Copynumber: 2.3 Consensus size: 39
19128566 GCTCTGATGA
19128576 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
19128615 GCTTCAGTTACCCTTCGGGCTTCCGTTTAGCACTTTTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
19128654 GCTTTAGTTAG
1 GCTTCAGTTAG
19128665 ATTTCGGGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.12, C:0.25, G:0.22, T:0.40
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:19129157 original size:12 final size:12
Alignment explanation
Indices: 19129112--19129167 Score: 60
Period size: 12 Copynumber: 4.5 Consensus size: 12
19129102 TGTGTTAAAA
*
19129112 TATATATTAAAT
1 TATATATTATAT
19129124 TAT-TATTATATT
1 TATATATTATA-T
19129136 ATAGTATATTATAT
1 -TA-TATATTATAT
*
19129150 TATATATTATAC
1 TATATATTATAT
19129162 TATATA
1 TATATA
19129168 AATAAGTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 6 0.16
12 19 0.50
13 4 0.11
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (12 bp):
TATATATTATAT
Found at i:19129160 original size:5 final size:5
Alignment explanation
Indices: 19129114--19129154 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
19129104 TGTTAAAATA
* *
19129114 TATAT TAAAT TATTAT TATAT TATAG TATAT TATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT
19129155 ATTATACTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:19130505 original size:18 final size:19
Alignment explanation
Indices: 19130484--19130522 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
19130474 ATATATAGAT
19130484 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
19130502 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
19130521 AT
1 AT
19130523 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:19130871 original size:39 final size:39
Alignment explanation
Indices: 19130761--19130895 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
19130751 GACCTCGAGT
* * * *
19130761 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
19130802 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
19130840 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
19130879 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
19130896 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:19131039 original size:18 final size:19
Alignment explanation
Indices: 19131018--19131058 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
19131008 AATGAAATGA
19131018 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
19131036 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
19131055 GAAA
1 GAAA
19131059 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Done.