Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397276.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_106.0, whole genome shotgun sequence
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: 2845708
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.30
Warning! 346660 characters in sequence are not A, C, G, or T
File 5 of 6
Found at i:1970008 original size:13 final size:12
Alignment explanation
Indices: 1969977--1970004 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1969967 AGAACGATAG
1969977 AAAATAAAATAA
1 AAAATAAAATAA
1969989 AAAATAAAATAA
1 AAAATAAAATAA
1970001 AAAA
1 AAAA
1970005 ATAATACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:1979027 original size:19 final size:19
Alignment explanation
Indices: 1979003--1979039 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1978993 GAATCTAACT
1979003 AAGATTGAAATTTAAAGGA
1 AAGATTGAAATTTAAAGGA
1979022 AAGATTGAAATTTAAAGG
1 AAGATTGAAATTTAAAGG
1979040 CAAAACTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.22, T:0.27
Consensus pattern (19 bp):
AAGATTGAAATTTAAAGGA
Found at i:1983743 original size:23 final size:23
Alignment explanation
Indices: 1983717--1983763 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1983707 TAAACATTCT
1983717 CTTTAACTTAGATTAATGGGATA
1 CTTTAACTTAGATTAATGGGATA
1983740 CTTTAACTTAGATTAATGGGATA
1 CTTTAACTTAGATTAATGGGATA
1983763 C
1 C
1983764 ATGGCTAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (23 bp):
CTTTAACTTAGATTAATGGGATA
Found at i:1989971 original size:13 final size:13
Alignment explanation
Indices: 1989953--1989977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1989943 TTATATGTTG
1989953 ATTTTCATTTTCT
1 ATTTTCATTTTCT
1989966 ATTTTCATTTTC
1 ATTTTCATTTTC
1989978 AGTCTTTAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTTTCATTTTCT
Found at i:1991623 original size:18 final size:19
Alignment explanation
Indices: 1991589--1991629 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
1991579 TGTTAAGAGT
*
1991589 TTTTAGAATTTATTTGTTG
1 TTTTAGAATTTATTTGTTC
1991608 TTTTA-AATTT-TGTTGTTC
1 TTTTAGAATTTAT-TTGTTC
1991626 TTTT
1 TTTT
1991630 CTTAACTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 14 0.70
19 5 0.25
ACGTcount: A:0.17, C:0.02, G:0.12, T:0.68
Consensus pattern (19 bp):
TTTTAGAATTTATTTGTTC
Found at i:2004719 original size:2 final size:2
Alignment explanation
Indices: 2004712--2004739 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2004702 ATTTCATACT
2004712 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2004740 CATACCTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2006334 original size:77 final size:77
Alignment explanation
Indices: 2006238--2006392 Score: 283
Period size: 77 Copynumber: 2.0 Consensus size: 77
2006228 CAAAAGGTTT
*
2006238 TGGCATTGCAAAATATTGCAAAAAAGAAGATTTTAGTACACTACCATGCTTGGTATTTTGGAAAT
1 TGGCATCGCAAAATATTGCAAAAAAGAAGATTTTAGTACACTACCATGCTTGGTATTTTGGAAAT
*
2006303 GATTTGAAATGA
66 AATTTGAAATGA
*
2006315 TGGCATCGCAAAATATTGCAAAAAAGAGGATTTTAGTACACTACCATGCTTGGTATTTTGGAAAT
1 TGGCATCGCAAAATATTGCAAAAAAGAAGATTTTAGTACACTACCATGCTTGGTATTTTGGAAAT
2006380 AATTTGAAATGA
66 AATTTGAAATGA
2006392 T
1 T
2006393 CTTTTGAAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.32
Consensus pattern (77 bp):
TGGCATCGCAAAATATTGCAAAAAAGAAGATTTTAGTACACTACCATGCTTGGTATTTTGGAAAT
AATTTGAAATGA
Found at i:2017759 original size:64 final size:64
Alignment explanation
Indices: 2017658--2017805 Score: 161
Period size: 64 Copynumber: 2.3 Consensus size: 64
2017648 TAGCACGACA
* * * *
2017658 TGTGGAATGTTACCTCACACCATGTGAAACACTATCATCATTATTCTAGTCACAATTCACCATG
1 TGTGGAATGTTAACTCACACCATGTGAAACACTATCATCATCATACTAGACACAATTCACCATG
* * * * ** * * *
2017722 TGTGGCATGTTAATTCATACCATGTGAAGCGTTATCATCATCATACTAGACATAATTTACCCTG
1 TGTGGAATGTTAACTCACACCATGTGAAACACTATCATCATCATACTAGACACAATTCACCATG
* *
2017786 TGTGTAACGTTAACTCACAC
1 TGTGGAATGTTAACTCACAC
2017806 TGCGCGAAAG
Statistics
Matches: 66, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (64 bp):
TGTGGAATGTTAACTCACACCATGTGAAACACTATCATCATCATACTAGACACAATTCACCATG
Found at i:2020273 original size:19 final size:20
Alignment explanation
Indices: 2020238--2020281 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
2020228 CAAGAGTATT
2020238 ATTTGATTTAAACTTTTAA-
1 ATTTGATTTAAACTTTTAAG
*
2020257 ATTTGATTATATA-TTTTAAG
1 ATTTGATT-TAAACTTTTAAG
2020277 ATTTG
1 ATTTG
2020282 GATGTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (20 bp):
ATTTGATTTAAACTTTTAAG
Found at i:2023478 original size:23 final size:24
Alignment explanation
Indices: 2023452--2023500 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
2023442 AATATGTTAA
2023452 AATATT-AATATATAAAT-ATTTTT
1 AATATTAAATA-ATAAATAATTTTT
2023475 AATATTAAATAATAAATAATTTTT
1 AATATTAAATAATAAATAATTTTT
2023499 AA
1 AA
2023501 ATGAAAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
AATATTAAATAATAAATAATTTTT
Found at i:2023825 original size:33 final size:33
Alignment explanation
Indices: 2023744--2023825 Score: 80
Period size: 33 Copynumber: 2.5 Consensus size: 33
2023734 TAAGAAAGAG
*
2023744 AATTAATGCATGTGGA-GTGAGATTGTAAATGA
1 AATTAATGCATGTGGATGTGAGATTGGAAATGA
* * * *
2023776 AATTATTGAATTTGGATTGTTGA-ATTGGACA-GA
1 AATTAATGCATGTGGA-TG-TGAGATTGGAAATGA
2023809 AATTAATGCATGTGGAT
1 AATTAATGCATGTGGAT
2023826 CTTTCATATT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
32 14 0.36
33 15 0.38
34 7 0.18
35 3 0.08
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (33 bp):
AATTAATGCATGTGGATGTGAGATTGGAAATGA
Found at i:2024923 original size:2 final size:2
Alignment explanation
Indices: 2024918--2024948 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2024908 TATATAGATT
2024918 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
2024949 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:2036212 original size:13 final size:13
Alignment explanation
Indices: 2036196--2036244 Score: 52
Period size: 14 Copynumber: 4.0 Consensus size: 13
2036186 TAAAATAACA
2036196 TTATTTAATAAAT
1 TTATTTAATAAAT
*
2036209 TTATTTTTATAAAT
1 TTA-TTTAATAAAT
2036223 TT-TTT-ATAAA-
1 TTATTTAATAAAT
2036233 -TATTTAATAAAT
1 TTATTTAATAAAT
2036245 AATTTTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
9 1 0.03
10 3 0.10
11 10 0.32
12 3 0.10
13 3 0.10
14 11 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTATTTAATAAAT
Found at i:2045134 original size:21 final size:20
Alignment explanation
Indices: 2045102--2045141 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2045092 ATAGACTGGG
*
2045102 AAAAAAACTTAAGTAATTTT
1 AAAAAAACTTAAATAATTTT
*
2045122 AAAAAAATTTTAAATAATTT
1 AAAAAAA-CTTAAATAATTT
2045142 ATCAAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
AAAAAAACTTAAATAATTTT
Found at i:2061380 original size:14 final size:14
Alignment explanation
Indices: 2061361--2061388 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2061351 CTAAAATTAT
2061361 AACTTATAAAAAAA
1 AACTTATAAAAAAA
2061375 AACTTATAAAAAAA
1 AACTTATAAAAAAA
2061389 NNNNNNNNNN
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (14 bp):
AACTTATAAAAAAA
Found at i:2064100 original size:11 final size:12
Alignment explanation
Indices: 2064078--2064129 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 12
2064068 GCCTTCCTAG
*
2064078 TCTTTTCTTCTT
1 TCTTCTCTTCTT
2064090 TCTTC-CTTCTT
1 TCTTCTCTTCTT
2064101 TC-TCTCTTCCTT
1 TCTTCTCTT-CTT
*
2064113 TCTTTCTTTTCTT
1 TC-TTCTCTTCTT
2064126 TCTT
1 TCTT
2064130 TGCTTCCAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
10 2 0.06
11 11 0.32
12 11 0.32
13 5 0.15
14 5 0.15
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (12 bp):
TCTTCTCTTCTT
Found at i:2064103 original size:4 final size:4
Alignment explanation
Indices: 2064081--2064130 Score: 50
Period size: 4 Copynumber: 12.8 Consensus size: 4
2064071 TTCCTAGTCT
* * *
2064081 TTTC -TTC TTTC -TTC CTTC TTTC TCTC TTCC TTTC TTTC TTTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC
2064128 TTT
1 TTT
2064131 GCTTCCAAGC
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
3 6 0.16
4 28 0.74
5 4 0.11
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTC
Found at i:2064108 original size:15 final size:16
Alignment explanation
Indices: 2064081--2064130 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 16
2064071 TTCCTAGTCT
*
2064081 TTTC-TTCTTTCTTCC
1 TTTCTTTCTCTCTTCC
2064096 -TTCTTTCTCTCTTCC
1 TTTCTTTCTCTCTTCC
2064111 TTTCTTTCT-T-TT-C
1 TTTCTTTCTCTCTTCC
2064124 TTTCTTT
1 TTTCTTT
2064131 GCTTCCAAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 8 0.25
14 5 0.16
15 11 0.34
16 8 0.25
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTCTTTCTCTCTTCC
Found at i:2078886 original size:14 final size:14
Alignment explanation
Indices: 2078867--2078898 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
2078857 ACTTTACCAG
2078867 ACTCAATCTGATAA
1 ACTCAATCTGATAA
2078881 ACTCAATCTGATAA
1 ACTCAATCTGATAA
2078895 ACTC
1 ACTC
2078899 TGTAAGCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (14 bp):
ACTCAATCTGATAA
Found at i:2088619 original size:14 final size:13
Alignment explanation
Indices: 2088600--2088643 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
2088590 GATGCAAAAC
2088600 TAACAAAAAATATT
1 TAACAAAAAAT-TT
2088614 TAACAAAACAATTT
1 TAACAAAA-AATTT
* *
2088628 GAAAAAAAAATTT
1 TAACAAAAAATTT
2088641 TAA
1 TAA
2088644 GCTAAATACC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 7 0.27
14 16 0.62
15 3 0.12
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (13 bp):
TAACAAAAAATTT
Found at i:2091202 original size:17 final size:17
Alignment explanation
Indices: 2091180--2091217 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
2091170 GAATTTTGAT
* *
2091180 CCATTTGGTTTATGAAC
1 CCATTTGGATTATAAAC
2091197 CCATTTGGATTATAAAC
1 CCATTTGGATTATAAAC
2091214 CCAT
1 CCAT
2091218 CATTCCTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (17 bp):
CCATTTGGATTATAAAC
Found at i:2091657 original size:32 final size:31
Alignment explanation
Indices: 2091605--2091686 Score: 80
Period size: 31 Copynumber: 2.6 Consensus size: 31
2091595 AAGGAAATGA
*
2091605 AAAT-TCCTCCATCGTA-GCTTTAAAACTTTTT
1 AAATCTCCTCCACCG-AGGCTTTAAAAC-TTTT
**
2091636 ACAA-CTCCTCCACCGAGGCTTTGGAACTTTT
1 A-AATCTCCTCCACCGAGGCTTTAAAACTTTT
*
2091667 AAATCTTCTCCACCGAGGCT
1 AAATCTCCTCCACCGAGGCT
2091687 CCAAATATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
30 2 0.05
31 22 0.51
32 19 0.44
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (31 bp):
AAATCTCCTCCACCGAGGCTTTAAAACTTTT
Found at i:2093909 original size:84 final size:83
Alignment explanation
Indices: 2093757--2094152 Score: 336
Period size: 84 Copynumber: 4.7 Consensus size: 83
2093747 CCCTCCATCA
* * * * * *
2093757 AGGTTCCAATAACTTAAGAATTCTTTCACTGAGTATCTGATATCTTAAGAATTCCTCCACCAAAA
1 AGGTTCTAATATCTTAAGAATTCTTTCACTGAGGATCTAATATCTTAAGAATTCTTCCACC-GAA
*
2093822 ATCTAATATCCATCCACTG
65 ATCTAATATCCTTCCACTG
* * * * *
2093841 AGGTTTTAATATCTTAAGAATTCTTTCCCCGAGTATCTAATATCTTAAGAATTCTTCCATCGACA
1 AGGTTCTAATATCTTAAGAATTCTTTCACTGAGGATCTAATATCTTAAGAATTCTTCCACCGA-A
* *
2093906 ATCTAGTATCCTTCCA-TCA
65 ATCTAATATCCTTCCACT-G
* * ** *
2093925 AGGTTCTAATATCTTAAGAATTC-CTCTACTAAGGATCTAATATCTTAAGAATTCTTTTACTGAG
1 AGGTTCTAATATCTTAAGAATTCTTTC-ACTGAGGATCTAATATCTTAAGAATTCTTCCACCGA-
* *
2093989 GATCTAATATCCTTCCATTG
64 AATCTAATATCCTTCCACTG
* * * * * * *
2094009 AGGTTCTAGTATTTTAAAAATT-TCTCTATTGAGGATCTAATATCTTAAGAATTCCTCTACCGAA
1 AGGTTCTAATATCTTAAGAATTCTTTC-ACTGAGGATCTAATATCTTAAGAATTCTTCCACCGAA
*
2094073 GATCTAATATCCCTT-CACCG
65 -ATCTAATAT-CCTTCCACTG
* * * * * * *
2094093 AGTTTTTAATATTTTAAAAATTCCTCTT--TTGAGAATCTAATATCTTAAGAGTTCTTCCAC
1 AGGTTCTAATATCTTAAGAATT-CT-TTCACTGAGGATCTAATATCTTAAGAATTCTTCCAC
2094153 TGAGGTTCTA
Statistics
Matches: 257, Mismatches: 45, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
83 4 0.02
84 246 0.96
85 5 0.02
86 1 0.00
87 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (83 bp):
AGGTTCTAATATCTTAAGAATTCTTTCACTGAGGATCTAATATCTTAAGAATTCTTCCACCGAAA
TCTAATATCCTTCCACTG
Found at i:2093910 original size:31 final size:31
Alignment explanation
Indices: 2093847--2093915 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
2093837 ACTGAGGTTT
**
2093847 TAATATCTTAAGAATTCTTTCCCCGAGTATC
1 TAATATCTTAAGAATTCTTTCCCCGACAATC
*
2093878 TAATATCTTAAGAATTC-TTCCATCGACAATC
1 TAATATCTTAAGAATTCTTTCC-CCGACAATC
*
2093909 TAGTATC
1 TAATATC
2093916 CTTCCATCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 4 0.12
31 29 0.88
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.38
Consensus pattern (31 bp):
TAATATCTTAAGAATTCTTTCCCCGACAATC
Found at i:2093964 original size:31 final size:31
Alignment explanation
Indices: 2093924--2093999 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
2093914 TCCTTCCATC
*
2093924 AAGGTTCTAATATCTTAAGAATTCCTCTACT
1 AAGGATCTAATATCTTAAGAATTCCTCTACT
* *
2093955 AAGGATCTAATATCTTAAGAATTCTTTTACT
1 AAGGATCTAATATCTTAAGAATTCCTCTACT
*
2093986 GAGGATCTAATATC
1 AAGGATCTAATATC
2094000 CTTCCATTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (31 bp):
AAGGATCTAATATCTTAAGAATTCCTCTACT
Found at i:2094049 original size:168 final size:168
Alignment explanation
Indices: 2093745--2094167 Score: 422
Period size: 168 Copynumber: 2.5 Consensus size: 168
2093735 AAATTTAAAA
* * * * * *
2093745 ATCCCTCCATCAAGGTTCCAATAACTTAAGAATT-CTTTCACTGAGTATCTGATATCTTAAGAAT
1 ATCCTTCCATCAAGGTTCTAATATCTTAAGAATTCCTCT-ACTGAGAATCTAATATCTTAAGAAT
* ** ** * * * *
2093809 TCCTCCACCAAAAATCTAATATCCATCCACTGAGGTTTTAATATCTTAAGAATTCTTTCCCCGAG
65 TCTTCCACTGAGGATCTAATATCCATCCACTGAGGTTCTAATATCTTAAAAATTCTCTCACCGAG
* * * *
2093874 TATCTAATATCTTAAGAATTCTTCCATCGACA-ATCTAGT
130 GATCTAATATCTTAAGAATTCCTCCACCGA-AGATCTAAT
* *
2093913 ATCCTTCCATCAAGGTTCTAATATCTTAAGAATTCCTCTACTAAGGATCTAATATCTTAAGAATT
1 ATCCTTCCATCAAGGTTCTAATATCTTAAGAATTCCTCTACTGAGAATCTAATATCTTAAGAATT
** * * * * **
2093978 CTTTTACTGAGGATCTAATATCCTTCCATTGAGGTTCTAGTATTTTAAAAATT-TCTCTATTGAG
66 CTTCCACTGAGGATCTAATATCCATCCACTGAGGTTCTAATATCTTAAAAATTCTCTC-ACCGAG
*
2094042 GATCTAATATCTTAAGAATTCCTCTACCGAAGATCTAAT
130 GATCTAATATCTTAAGAATTCCTCCACCGAAGATCTAAT
* * * * * * ** *
2094081 ATCCCTT-CACCGAGTTTTTAATATTTTAAAAATTCCTCTTTTGAGAATCTAATATCTTAAGAGT
1 AT-CCTTCCATCAAGGTTCTAATATCTTAAGAATTCCTCTACTGAGAATCTAATATCTTAAGAAT
*
2094145 TCTTCCACTGAGGTTCTAATATC
65 TCTTCCACTGAGGATCTAATATC
2094168 TTGAGAATTC
Statistics
Matches: 208, Mismatches: 43, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
167 4 0.02
168 197 0.95
169 7 0.03
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (168 bp):
ATCCTTCCATCAAGGTTCTAATATCTTAAGAATTCCTCTACTGAGAATCTAATATCTTAAGAATT
CTTCCACTGAGGATCTAATATCCATCCACTGAGGTTCTAATATCTTAAAAATTCTCTCACCGAGG
ATCTAATATCTTAAGAATTCCTCCACCGAAGATCTAAT
Found at i:2094067 original size:31 final size:31
Alignment explanation
Indices: 2094005--2094083 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
2093995 ATATCCTTCC
* * * *
2094005 ATTGAGGTTCTAGTATTTTAAAAATTTCTCT
1 ATTGAGGATCTAATATCTTAAAAATTCCTCT
*
2094036 ATTGAGGATCTAATATCTTAAGAATTCCTCT
1 ATTGAGGATCTAATATCTTAAAAATTCCTCT
** *
2094067 ACCGAAGATCTAATATC
1 ATTGAGGATCTAATATC
2094084 CCTTCACCGA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (31 bp):
ATTGAGGATCTAATATCTTAAAAATTCCTCT
Found at i:2094163 original size:31 final size:31
Alignment explanation
Indices: 2094099--2094197 Score: 101
Period size: 31 Copynumber: 3.2 Consensus size: 31
2094089 ACCGAGTTTT
* * *** *
2094099 TAATATTTTAAAAATTCCTCTTTTGAGAATC
1 TAATATCTTAAGAATTCCTCCACTGAGGATC
* * *
2094130 TAATATCTTAAGAGTTCTTCCACTGAGGTTC
1 TAATATCTTAAGAATTCCTCCACTGAGGATC
*
2094161 TAATATCTTGAGAATTCCTCCACTGAGGATC
1 TAATATCTTAAGAATTCCTCCACTGAGGATC
2094192 -AATATC
1 TAATATC
2094198 CTTCCACCTA
Statistics
Matches: 55, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
30 6 0.11
31 49 0.89
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.38
Consensus pattern (31 bp):
TAATATCTTAAGAATTCCTCCACTGAGGATC
Found at i:2094248 original size:114 final size:115
Alignment explanation
Indices: 2094038--2094250 Score: 279
Period size: 114 Copynumber: 1.9 Consensus size: 115
2094028 ATTTCTCTAT
*
2094038 TGAGGATCTAATATCTTAAGAATTCCTCTACCGAAGATCTAATATCCCTTCACCGAGTTTTTAAT
1 TGAGGATCTAATATCTTAAGAATTCCTCCACCGAAGATCTAATATCCCTTCACCGAGTTTTTAAT
** *
2094103 ATTTTAAAAATTCCTCTTTTGAGAATCTAATATCTTAAGAGTTCTTCCAC
66 ATTTTAAAAATTCCTCCATCGAGAATCTAATATCTTAAGAGTTCTTCCAC
* * * * *
2094153 TGAGGTTCTAATATCTTGAGAATTCCTCCACTGAGGATC-AATAT-CCTTCCACCTACG-TTTTA
1 TGAGGATCTAATATCTTAAGAATTCCTCCACCGAAGATCTAATATCCCTT-CACCGA-GTTTTTA
* * *
2094215 ATATTTTAAGAATTCCTCCATCGAGGATTTAATATC
64 ATATTTTAAAAATTCCTCCATCGAGAATCTAATATC
2094251 CCAAGAATTC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
113 4 0.05
114 45 0.54
115 35 0.42
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.38
Consensus pattern (115 bp):
TGAGGATCTAATATCTTAAGAATTCCTCCACCGAAGATCTAATATCCCTTCACCGAGTTTTTAAT
ATTTTAAAAATTCCTCCATCGAGAATCTAATATCTTAAGAGTTCTTCCAC
Found at i:2101257 original size:18 final size:19
Alignment explanation
Indices: 2101219--2101268 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
2101209 CAATCAAAAT
2101219 AAAAAT-AAA-AAATAGACA
1 AAAAATAAAATAAATAGA-A
2101237 AAAAATAAAATAAATAGAA
1 AAAAATAAAATAAATAGAA
*
2101256 AAGAA-AAAATAAA
1 AAAAATAAAATAAA
2101269 ATAAGTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 14 0.48
19 8 0.28
20 7 0.24
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.12
Consensus pattern (19 bp):
AAAAATAAAATAAATAGAA
Found at i:2102391 original size:79 final size:79
Alignment explanation
Indices: 2102260--2102420 Score: 322
Period size: 79 Copynumber: 2.0 Consensus size: 79
2102250 CGGGAATGCC
2102260 ATTCCTAGATCTTGGGTAGTGAACAATTTTCCATTTATGAATATTCAATCCAACCTTGAATAATC
1 ATTCCTAGATCTTGGGTAGTGAACAATTTTCCATTTATGAATATTCAATCCAACCTTGAATAATC
2102325 CAATACTGTTTGCA
66 CAATACTGTTTGCA
2102339 ATTCCTAGATCTTGGGTAGTGAACAATTTTCCATTTATGAATATTCAATCCAACCTTGAATAATC
1 ATTCCTAGATCTTGGGTAGTGAACAATTTTCCATTTATGAATATTCAATCCAACCTTGAATAATC
2102404 CAATACTGTTTGCA
66 CAATACTGTTTGCA
2102418 ATT
1 ATT
2102421 TAGAAATATA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (79 bp):
ATTCCTAGATCTTGGGTAGTGAACAATTTTCCATTTATGAATATTCAATCCAACCTTGAATAATC
CAATACTGTTTGCA
Found at i:2104210 original size:29 final size:28
Alignment explanation
Indices: 2104131--2104375 Score: 332
Period size: 28 Copynumber: 8.6 Consensus size: 28
2104121 TGACAACTTT
2104131 AACATG-TTGTCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
*
2104158 AATATGTTTGTCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
* *
2104186 AGCATGTTATATCTTAATTTAGACAAGAA
1 AACATGTT-TGTCTTAATTTAGACAAGAA
*
2104215 CAACATTTTTGTCTTAATTTAGACAAGAA
1 -AACATGTTTGTCTTAATTTAGACAAGAA
* *
2104244 AATATGTTTTGTTTTAATTTAGACAAGAA
1 AACATG-TTTGTCTTAATTTAGACAAGAA
*
2104273 AATATGTTTGTCTTAATTTAAGACAAGAA
1 AACATGTTTGTCTTAATTT-AGACAAGAA
* *
2104302 AA-ATATGTTGTCTTAATCTAGACAAGAA
1 AACATGT-TTGTCTTAATTTAGACAAGAA
* *
2104330 AACATATTTGTCTTAATTTAGACAAGAT
1 AACATGTTTGTCTTAATTTAGACAAGAA
2104358 AACATGTTTGTCTTAATT
1 AACATGTTTGTCTTAATT
2104376 AAAGACAATA
Statistics
Matches: 195, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
27 5 0.03
28 93 0.48
29 91 0.47
30 6 0.03
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.38
Consensus pattern (28 bp):
AACATGTTTGTCTTAATTTAGACAAGAA
Found at i:2104383 original size:57 final size:55
Alignment explanation
Indices: 2104131--2104375 Score: 321
Period size: 57 Copynumber: 4.3 Consensus size: 55
2104121 TGACAACTTT
*
2104131 AACATG-TTGTCTTAATTTAGACAAGAAAATATGTTTGTCTTAATTTAGACAAGA
1 AACATGTTTGTCTTAATTTAGACAAGAAAACATGTTTGTCTTAATTTAGACAAGA
* *
2104185 AAGCATGTTATATCTTAATTTAGACAAGAACAACATTTTTGTCTTAATTTAGACAAGAA
1 AA-CATGTT-TGTCTTAATTTAGACAAGAA-AACATGTTTGTCTTAATTTAGACAAG-A
* * *
2104244 AATATGTTTTGTTTTAATTTAGACAAGAAAATATGTTTGTCTTAATTTAAGACAAGA
1 AACATG-TTTGTCTTAATTTAGACAAGAAAACATGTTTGTCTTAATTT-AGACAAGA
* * * *
2104301 AAAATATGTTGTCTTAATCTAGACAAGAAAACATATTTGTCTTAATTTAGACAAGA
1 AACATGT-TTGTCTTAATTTAGACAAGAAAACATGTTTGTCTTAATTTAGACAAGA
2104357 TAACATGTTTGTCTTAATT
1 -AACATGTTTGTCTTAATT
2104376 AAAGACAATA
Statistics
Matches: 165, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
54 2 0.01
55 4 0.02
56 20 0.12
57 82 0.50
58 52 0.32
59 5 0.03
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.38
Consensus pattern (55 bp):
AACATGTTTGTCTTAATTTAGACAAGAAAACATGTTTGTCTTAATTTAGACAAGA
Found at i:2110907 original size:39 final size:38
Alignment explanation
Indices: 2110864--2110954 Score: 137
Period size: 38 Copynumber: 2.4 Consensus size: 38
2110854 GGTTTTCTTC
* *
2110864 AATTTTTGGATTTACTTAAATAAGATTAATTTGTTTTAT
1 AATTTTAGGACTTA-TTAAATAAGATTAATTTGTTTTAT
*
2110903 AATTTTAGTACTTATTAAATAAGATTAATTTGTTTTAT
1 AATTTTAGGACTTATTAAATAAGATTAATTTGTTTTAT
*
2110941 AATTTTAGTACTTA
1 AATTTTAGGACTTA
2110955 GTGAAACTTC
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 38 0.78
39 11 0.22
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (38 bp):
AATTTTAGGACTTATTAAATAAGATTAATTTGTTTTAT
Found at i:2110922 original size:38 final size:38
Alignment explanation
Indices: 2110879--2110954 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
2110869 TTGGATTTAC
2110879 TTAAATAAGATTAATTTGTTTTATAATTTTAGTACTTA
1 TTAAATAAGATTAATTTGTTTTATAATTTTAGTACTTA
2110917 TTAAATAAGATTAATTTGTTTTATAATTTTAGTACTTA
1 TTAAATAAGATTAATTTGTTTTATAATTTTAGTACTTA
2110955 GTGAAACTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.53
Consensus pattern (38 bp):
TTAAATAAGATTAATTTGTTTTATAATTTTAGTACTTA
Found at i:2119421 original size:2 final size:2
Alignment explanation
Indices: 2119414--2119438 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2119404 TTTCATTCTT
2119414 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 T
2119439 TCTTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2120344 original size:34 final size:34
Alignment explanation
Indices: 2120301--2120369 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
2120291 TGAAAAGTTA
*
2120301 GCATAGGTTGTGCTTGCT-TCCATAAAAAGGTATT
1 GCATAGGTTGTGCTTGCTCT-CATAAAAAGGCATT
* *
2120335 GCATGGGTTGTGCTTGCTCTTATAAAAAGGCATT
1 GCATAGGTTGTGCTTGCTCTCATAAAAAGGCATT
2120369 G
1 G
2120370 TAAGGGTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 30 0.97
35 1 0.03
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (34 bp):
GCATAGGTTGTGCTTGCTCTCATAAAAAGGCATT
Found at i:2120377 original size:34 final size:34
Alignment explanation
Indices: 2120306--2120377 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
2120296 AGTTAGCATA
* *
2120306 GGTTGTGCTTGCTTCCATAAAAAGGTATTGCATG
1 GGTTGTGCTTGCTTCCATAAAAAGGCATTGCAAG
* *
2120340 GGTTGTGCTTGC-TCTTATAAAAAGGCATTGTAAG
1 GGTTGTGCTTGCTTC-CATAAAAAGGCATTGCAAG
2120374 GGTT
1 GGTT
2120378 TGAGGCTTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 2 0.06
34 31 0.94
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (34 bp):
GGTTGTGCTTGCTTCCATAAAAAGGCATTGCAAG
Found at i:2121923 original size:35 final size:35
Alignment explanation
Indices: 2121849--2121924 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
2121839 AAGAAAAGTG
* * * * *
2121849 CTTTTTGATGGGATCAAGCAAAACCCTTACAAGTG
1 CTTTTTGACGAGATCAAGCAAAACCCTTAAAAATA
2121884 CTTTTTGACGAGATCAAGCAAAA-CCTTAAAAATCA
1 CTTTTTGACGAGATCAAGCAAAACCCTTAAAAAT-A
2121919 CTTTTT
1 CTTTTT
2121925 ACCGAGTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 8 0.23
35 27 0.77
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (35 bp):
CTTTTTGACGAGATCAAGCAAAACCCTTAAAAATA
Found at i:2127240 original size:16 final size:16
Alignment explanation
Indices: 2127216--2127251 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2127206 AATAGTTTTT
* *
2127216 CTCTTGAGTGTCGTCA
1 CTCTGGAGTGTCGCCA
2127232 CTCTGGAGTGTCGCCA
1 CTCTGGAGTGTCGCCA
2127248 CTCT
1 CTCT
2127252 TAGAAGGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.31, G:0.25, T:0.33
Consensus pattern (16 bp):
CTCTGGAGTGTCGCCA
Found at i:2135965 original size:20 final size:19
Alignment explanation
Indices: 2135940--2135994 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
2135930 TGATCTATAG
2135940 AATTGAATTATTTAATTTAA
1 AATTGAATTATTTAATTT-A
2135960 AATTGAATATGATTT-ATTTA
1 AATTGAAT-T-ATTTAATTTA
*
2135980 AATT-AATTAATTAAT
1 AATTGAATTATTTAAT
2135995 AAAATTATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
17 3 0.10
18 3 0.10
19 3 0.10
20 13 0.42
21 5 0.16
22 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
AATTGAATTATTTAATTTA
Found at i:2142350 original size:35 final size:35
Alignment explanation
Indices: 2142304--2142384 Score: 128
Period size: 35 Copynumber: 2.3 Consensus size: 35
2142294 TCACTAAAGA
*
2142304 AAGTGCTTTTTAACTAGATCAAGCAAAACCCTCAC
1 AAGTGCTTTTTAACAAGATCAAGCAAAACCCTCAC
*
2142339 AAGTGTTTTTTAACAAGATCAAGCAAAACCCTCAC
1 AAGTGCTTTTTAACAAGATCAAGCAAAACCCTCAC
2142374 AA-TCGCTTTTT
1 AAGT-GCTTTTT
2142385 TCCGAGCTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
34 1 0.02
35 41 0.98
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (35 bp):
AAGTGCTTTTTAACAAGATCAAGCAAAACCCTCAC
Found at i:2143928 original size:56 final size:56
Alignment explanation
Indices: 2143839--2143947 Score: 191
Period size: 56 Copynumber: 1.9 Consensus size: 56
2143829 CAATCTGCTG
2143839 CCACTTCGACAGACACTTCTATCCTACTAGTAACTCATTTGGGATCAAACCTACTT
1 CCACTTCGACAGACACTTCTATCCTACTAGTAACTCATTTGGGATCAAACCTACTT
* * *
2143895 CCACTTCGACAGACACTTCTGTCCTACTTGTAACTCATTTGGTATCAAACCTA
1 CCACTTCGACAGACACTTCTATCCTACTAGTAACTCATTTGGGATCAAACCTA
2143948 AACACAATCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (56 bp):
CCACTTCGACAGACACTTCTATCCTACTAGTAACTCATTTGGGATCAAACCTACTT
Found at i:2144707 original size:43 final size:43
Alignment explanation
Indices: 2144633--2144716 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
2144623 CCGCACCCAA
* * *
2144633 ACTCTTCATTTCATGAAGCTGCTTTGTTCAAGTGCATATCAAC
1 ACTCTTCACTTCATGAAGCTGCTTTGATCAAGTGCAAATCAAC
* *
2144676 ACTCTTCACTTCATGGAG-TTCTTTTGATCAAGTGCAAATCA
1 ACTCTTCACTTCATGAAGCTGC-TTTGATCAAGTGCAAATCA
2144717 GCACCATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 2 0.06
43 33 0.94
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (43 bp):
ACTCTTCACTTCATGAAGCTGCTTTGATCAAGTGCAAATCAAC
Found at i:2152756 original size:252 final size:248
Alignment explanation
Indices: 2152304--2152765 Score: 547
Period size: 252 Copynumber: 1.8 Consensus size: 248
2152294 ATATGCAAAT
* **
2152304 GTATATGTGAAAGTTAACGTAGCATGTCAATTAAGTAAAAAAATTTAATTTTTTTAGAAAATAAA
1 GTATATGTGAAAGTTAACGTAACATGTCAATTAAGTAAAAAAATTTAATTTTAATAGAAAATAAA
* * * * *
2152369 TATTTAAATTTATATTTTCGAATTAAAAGTATTTAGCAATTTACAATTTTAATTTAAAAATAAAT
66 AATTTAAATTTATATTATCGAATTAAAAATATTTAACAATTTACAATTATAATTTAAAAATAAAT
* *** *
2152434 AAAAATAAAGATAAAAATAATTAATGTTAAAATTTTTTATTAAAAAACTTGGACGTAAAACTATA
131 AAAAATAAAGATAAAAATAATTAATGTTAAAAATTACCATTAAAAAACTTGGACATAAAACTATA
2152499 AGAATTGACATAAAAACTCATAAAGGTTGAATAAGTAAATTTAAAATCTTAAC
196 AGAATTGACATAAAAACTCATAAAGGTTGAATAAGTAAATTTAAAATCTTAAC
***
2152552 GTATATGTGTAAAAGTTAACGTAACA-GATCAATTAAGTCTTAAAATTCTAATTTTAATA-ATAA
1 GTATATGTG--AAAGTTAACGTAACATG-TCAATTAAGTAAAAAAATT-TAATTTTAATAGA-AA
* * * *
2152615 ATAAAAATTTATATTTATATTATC-AGGTTAAAAATATTTAACGATTTATATATTATAATTTAAA
61 ATAAAAATTTAAATTTATATTATCGA-ATTAAAAATATTTAACAATTTACA-ATTATAATTTAAA
** * * * *
2152679 AATAAATAATCA-AAAGAATTAAAATAATTATTGTTAAAAATTACCATTAAAAAGCATT-GATAT
124 AATAAATAAAAATAAAG-ATAAAAATAATTAATGTTAAAAATTACCATTAAAAAAC-TTGGACAT
** *
2152742 AAAGTTATAAGAATTGACTTAAAA
187 AAAACTATAAGAATTGACATAAAA
2152766 TTATAAGAAT
Statistics
Matches: 176, Mismatches: 29, Indels: 14
0.80 0.13 0.06
Matches are distributed among these distances:
248 9 0.05
249 1 0.01
250 32 0.18
251 55 0.31
252 77 0.44
253 2 0.01
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (248 bp):
GTATATGTGAAAGTTAACGTAACATGTCAATTAAGTAAAAAAATTTAATTTTAATAGAAAATAAA
AATTTAAATTTATATTATCGAATTAAAAATATTTAACAATTTACAATTATAATTTAAAAATAAAT
AAAAATAAAGATAAAAATAATTAATGTTAAAAATTACCATTAAAAAACTTGGACATAAAACTATA
AGAATTGACATAAAAACTCATAAAGGTTGAATAAGTAAATTTAAAATCTTAAC
Found at i:2152764 original size:20 final size:20
Alignment explanation
Indices: 2152741--2152785 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
2152731 AGCATTGATA
* *
2152741 TAAAGTTATAAGAATTGACT
1 TAAAATTATAAGAATTGACG
2152761 TAAAATTATAAGAATTGACG
1 TAAAATTATAAGAATTGACG
2152781 TAAAA
1 TAAAA
2152786 ACTCAAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.04, G:0.13, T:0.31
Consensus pattern (20 bp):
TAAAATTATAAGAATTGACG
Found at i:2152986 original size:269 final size:272
Alignment explanation
Indices: 2152489--2152986 Score: 684
Period size: 269 Copynumber: 1.8 Consensus size: 272
2152479 AACTTGGACG
* * * *
2152489 TAAAACTATAAGAATTGACATAAAAACTCATAAAGGTTGAATAAGTAAATTTAAAATCTTAACGT
1 TAAAACTATAAGAATTGACATAAAAACTCAAAAAGGTTGAACAAGCAAACTTAAAATCTTAACGT
* *
2152554 ATATGTGTAAAAGTTAACGTAACAGATCAATTAAGTCTTAAAATTCTAATTTTAATAATAAATAA
66 AAATGTGTAAAAGTTAACGTAACAGATCAATTAAGTCATAAAATTCTAATTTTAATAATAAATAA
* * * * *
2152619 AAATTTATATTTATATTATCAGGTTAAAAATATTTAACGATTTATATATTATAATTTAAAAATAA
131 AAATTTAAATTAATATTATCAGGGTAAAAATATTTAACCATTTATAAATTATAATTTAAAAATAA
* * *
2152684 ATAATCAAAAGAATTAAAATAATTATTGTTAAAAATTACCATTAAAAAGCATTGATATAAAGTTA
196 ATAATAAAAAGAATAAAAATAATTATAGTTAAAAATTACCATTAAAAAGCATTGATATAAAGTTA
2152749 TAAGAATTGACT
261 TAAGAATTGACT
* * *
2152761 TAAAATTATAAGAATTGACGTAAAAACTCAAAAAGG-TGTAACAAGCATACTTAAAATCTTAAC-
1 TAAAACTATAAGAATTGACATAAAAACTCAAAAAGGTTG-AACAAGCAAACTTAAAATCTTAACG
* * *
2152824 TAAATGTGTGAGAGTTAACGTAACAGGTCAATTAAGTCATAATAA-TCTAATTTTAATAA-AAA-
65 TAAATGTGTAAAAGTTAACGTAACAGATCAATTAAGTCATAA-AATTCTAATTTTAATAATAAAT
** * * * * *
2152886 AATCATTTAAATTAATATTCTTAGGGTAAAAGTATTTAACCATTTATAAATTTTAATTTTAAAAT
129 AAAAATTTAAATTAATATTATCAGGGTAAAAATATTTAACCATTTATAAATTATAATTTAAAAAT
2152951 AAATAATAACAAAG-ATAAAAATAATTATAGTTAAAA
194 AAATAATAA-AAAGAATAAAAATAATTATAGTTAAAA
2152987 GTTGATATTG
Statistics
Matches: 196, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
269 81 0.41
270 7 0.04
271 53 0.27
272 55 0.28
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (272 bp):
TAAAACTATAAGAATTGACATAAAAACTCAAAAAGGTTGAACAAGCAAACTTAAAATCTTAACGT
AAATGTGTAAAAGTTAACGTAACAGATCAATTAAGTCATAAAATTCTAATTTTAATAATAAATAA
AAATTTAAATTAATATTATCAGGGTAAAAATATTTAACCATTTATAAATTATAATTTAAAAATAA
ATAATAAAAAGAATAAAAATAATTATAGTTAAAAATTACCATTAAAAAGCATTGATATAAAGTTA
TAAGAATTGACT
Found at i:2153039 original size:17 final size:17
Alignment explanation
Indices: 2153017--2153054 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
2153007 ACATAAAACT
2153017 CATAAAGGTGAAACAAG
1 CATAAAGGTGAAACAAG
2153034 CATAAAGGTGAAACAAG
1 CATAAAGGTGAAACAAG
2153051 CATA
1 CATA
2153055 TTTAGAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.53, C:0.13, G:0.21, T:0.13
Consensus pattern (17 bp):
CATAAAGGTGAAACAAG
Found at i:2157402 original size:21 final size:22
Alignment explanation
Indices: 2157373--2157416 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
2157363 AAGTGATTAA
2157373 TTTAAGTTATTTTA-GTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
* *
2157394 TTTAGGTTATTTTATTTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
2157416 T
1 T
2157417 ACTTTAAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (22 bp):
TTTAAGTTATTTTATGTTAAAT
Found at i:2163586 original size:21 final size:21
Alignment explanation
Indices: 2163545--2163586 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2163535 AAGTCATAAG
* *
2163545 CAATTCATCAGCAATTGAAAT
1 CAATGCATCAGCAATTAAAAT
*
2163566 CAATGCATCAGCAGTTAAAAT
1 CAATGCATCAGCAATTAAAAT
2163587 GACATATCGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (21 bp):
CAATGCATCAGCAATTAAAAT
Found at i:2169510 original size:80 final size:80
Alignment explanation
Indices: 2169372--2169761 Score: 516
Period size: 80 Copynumber: 4.9 Consensus size: 80
2169362 CATGAGTTCC
* * * * *
2169372 ATTTATGAGATTAT-AACATGTATGCCATTAGATGTATATTTTAAGCACA-TCATGTACACTATG
1 ATTTATGAGATTATGAA-ATGTATGCCATGAGATGTATATGTTGAG-ATAGTCATATACACTATG
2169435 GGCTAAGCATGTAAGTG
64 GGCTAAGCATGTAAGTG
* * *
2169452 ATTTATGAGGTTAGGAAATGTATGCCATGAGATGCATATGTTGAGATAGTCATATACACTATGGG
1 ATTTATGAGATTATGAAATGTATGCCATGAGATGTATATGTTGAGATAGTCATATACACTATGGG
*
2169517 TTAAGCAAT-TAAGTG
66 CTAAGC-ATGTAAGTG
* ** * *
2169532 ATTTATAAGGCTATGAAATGTATGACATGAGATGTATATGTTGAGATTGTCATATACACTATGGG
1 ATTTATGAGATTATGAAATGTATGCCATGAGATGTATATGTTGAGATAGTCATATACACTATGGG
* *
2169597 CTAAACATGTAAGTA
66 CTAAGCATGTAAGTG
* *
2169612 ATTTATGAGACTATGAAATGTATGCCATGAGATGTACATGTTGAGATAGTCATATACACTATGGG
1 ATTTATGAGATTATGAAATGTATGCCATGAGATGTATATGTTGAGATAGTCATATACACTATGGG
*
2169677 CGAAGCATGTAAGTG
66 CTAAGCATGTAAGTG
* * * * *
2169692 AATTATGAGATTATGAAATGTATGTCACGAGATGTATGTGTTGAGATAGTCATATACACTATAGG
1 ATTTATGAGATTATGAAATGTATGCCATGAGATGTATATGTTGAGATAGTCATATACACTATGGG
2169757 CTAAG
66 CTAAG
2169762 TATGATGATA
Statistics
Matches: 272, Mismatches: 34, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
79 4 0.01
80 264 0.97
81 4 0.01
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.33
Consensus pattern (80 bp):
ATTTATGAGATTATGAAATGTATGCCATGAGATGTATATGTTGAGATAGTCATATACACTATGGG
CTAAGCATGTAAGTG
Found at i:2177806 original size:27 final size:25
Alignment explanation
Indices: 2177775--2177835 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
2177765 CCATGGTCTA
2177775 TGATACATACGTGGCAAGGCCACAAG
1 TGATA-ATACGTGGCAAGGCCACAAG
* *
2177801 TTGAT-ATATGTGGCTAGGCCACAAG
1 -TGATAATACGTGGCAAGGCCACAAG
2177826 TGAT-ATACGT
1 TGATAATACGT
2177836 AGTTACGATC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.29
25 18 0.58
27 4 0.13
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (25 bp):
TGATAATACGTGGCAAGGCCACAAG
Found at i:2177814 original size:25 final size:24
Alignment explanation
Indices: 2177785--2177832 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
2177775 TGATACATAC
2177785 GTGGCAAGGCCACAAGTTGATATAT
1 GTGGCAAGGCCACAAG-TGATATAT
*
2177810 GTGGCTAGGCCACAAGTGATATA
1 GTGGCAAGGCCACAAGTGATATA
2177833 CGTAGTTACG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (24 bp):
GTGGCAAGGCCACAAGTGATATAT
Found at i:2183857 original size:13 final size:15
Alignment explanation
Indices: 2183837--2183872 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
2183827 GTTTAGATTG
2183837 ATTAAAATAATTAA-
1 ATTAAAATAATTAAT
2183851 A-TAAAAT-ATTAAT
1 ATTAAAATAATTAAT
2183864 ATTAAAATA
1 ATTAAAATA
2183873 TATCTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
12 5 0.26
13 7 0.37
14 7 0.37
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
ATTAAAATAATTAAT
Found at i:2186703 original size:32 final size:32
Alignment explanation
Indices: 2186667--2186748 Score: 155
Period size: 32 Copynumber: 2.6 Consensus size: 32
2186657 GAATTTCTTG
2186667 ACTATGGCTTTAACACTTTTTTTTGAAAGGCA
1 ACTATGGCTTTAACACTTTTTTTTGAAAGGCA
2186699 ACTATGGCTTTAACACTTTTTTTTGAAAGGCA
1 ACTATGGCTTTAACACTTTTTTTTGAAAGGCA
*
2186731 CCTATGGCTTTAACACTT
1 ACTATGGCTTTAACACTT
2186749 GATGGTTTCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (32 bp):
ACTATGGCTTTAACACTTTTTTTTGAAAGGCA
Found at i:2189321 original size:36 final size:36
Alignment explanation
Indices: 2189272--2189342 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
2189262 ATAAATTATA
*
2189272 AAAAAAAAAAACATT-TACTCATCCAGTCATTAATAT
1 AAAAAAAAAAACATTAT-CTCATCAAGTCATTAATAT
**
2189308 AAAAAAATTAACATTATCTCATCAAGTCATTAATA
1 AAAAAAAAAAACATTATCTCATCAAGTCATTAATA
2189343 CATTATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 30 0.97
37 1 0.03
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.30
Consensus pattern (36 bp):
AAAAAAAAAAACATTATCTCATCAAGTCATTAATAT
Found at i:2189663 original size:25 final size:26
Alignment explanation
Indices: 2189611--2189678 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 26
2189601 TACTAAAATT
**
2189611 AATAATTTAAT-ATAAC-TTTTAAAC
1 AATAATTTAATAATAACATAATAAAC
2189635 AATAATTTAATAATAACATAATAAA-
1 AATAATTTAATAATAACATAATAAAC
2189660 AATAATTT-ATCAATAACAT
1 AATAATTTAAT-AATAACAT
2189679 TAATGTCGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
24 13 0.33
25 21 0.54
26 5 0.13
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAATTTAATAATAACATAATAAAC
Found at i:2192540 original size:20 final size:20
Alignment explanation
Indices: 2192499--2192540 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
2192489 TGACCTTTTA
*
2192499 TTTTTTGTATCTAACATAAT
1 TTTTTTGTATCTAAAATAAT
* *
2192519 TTTTTTGTTTCTAAAATGAT
1 TTTTTTGTATCTAAAATAAT
2192539 TT
1 TT
2192541 AGTAAGCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTTTTGTATCTAAAATAAT
Found at i:2194591 original size:18 final size:20
Alignment explanation
Indices: 2194568--2194614 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
2194558 TAAAAATATT
2194568 TAAATATTAGTTAA-TAT-A
1 TAAATATTAGTTAATTATAA
* *
2194586 TTAATATTATTTAATTATAA
1 TAAATATTAGTTAATTATAA
2194606 TAAATATTA
1 TAAATATTA
2194615 TAAAGAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.50
19 3 0.12
20 9 0.38
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TAAATATTAGTTAATTATAA
Found at i:2194832 original size:22 final size:22
Alignment explanation
Indices: 2194769--2194841 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
2194759 ATAATACAAC
* *
2194769 ATATTATTAAATTATAATAAAA
1 ATATTATTTAATTATAGTAAAA
* *
2194791 ATATGT-TTGT-ATTTTGGTAAAA
1 ATAT-TATT-TAATTATAGTAAAA
2194813 ATATTATTTAATTATAGT-AAA
1 ATATTATTTAATTATAGTAAAA
2194834 AT-TTATTT
1 ATATTATTT
2194842 TGATTTTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
20 6 0.15
21 7 0.17
22 27 0.66
23 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (22 bp):
ATATTATTTAATTATAGTAAAA
Found at i:2196193 original size:14 final size:14
Alignment explanation
Indices: 2196174--2196204 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2196164 TTTATAATTA
*
2196174 ATTATTAATTAACT
1 ATTATTAATTAAAT
2196188 ATTATTAATTAAAT
1 ATTATTAATTAAAT
2196202 ATT
1 ATT
2196205 TTTATACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTATTAATTAAAT
Found at i:2197716 original size:21 final size:21
Alignment explanation
Indices: 2197690--2197732 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
2197680 ATAACTCCAC
*
2197690 TAAATGGCAGGCTAAGTTCCT
1 TAAATGACAGGCTAAGTTCCT
*
2197711 TAAATGATAGGCTAAGTTCCT
1 TAAATGACAGGCTAAGTTCCT
2197732 T
1 T
2197733 TGAGAGGCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (21 bp):
TAAATGACAGGCTAAGTTCCT
Found at i:2199189 original size:31 final size:31
Alignment explanation
Indices: 2199114--2199181 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
2199104 GCAATTGTGC
* *
2199114 TATG-TGCAGACTTTCTTGCTTCTTTATTTT
1 TATGTTGCAGACTTTCTGGCTCCTTTATTTT
* *
2199144 TTTGTTGCATACTTTCTGGCTCCTTTATTTT
1 TATGTTGCAGACTTTCTGGCTCCTTTATTTT
2199175 TATGTTG
1 TATGTTG
2199182 TGGACTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 3 0.09
31 29 0.91
ACGTcount: A:0.12, C:0.16, G:0.15, T:0.57
Consensus pattern (31 bp):
TATGTTGCAGACTTTCTGGCTCCTTTATTTT
Found at i:2202785 original size:26 final size:22
Alignment explanation
Indices: 2202735--2202779 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
2202725 TTTCTCTTAT
2202735 TTTCAATCAACTAATGGTAATA
1 TTTCAATCAACTAATGGTAATA
2202757 TTTCAATCAACTAATGGTAATA
1 TTTCAATCAACTAATGGTAATA
2202779 T
1 T
2202780 GTATTTAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (22 bp):
TTTCAATCAACTAATGGTAATA
Found at i:2204844 original size:7 final size:7
Alignment explanation
Indices: 2204832--2204858 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2204822 AGATTTTTCA
2204832 AATCTTC
1 AATCTTC
2204839 AATCTTC
1 AATCTTC
2204846 AATCTTC
1 AATCTTC
2204853 AATCTT
1 AATCTT
2204859 GCACAACCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (7 bp):
AATCTTC
Found at i:2205501 original size:15 final size:15
Alignment explanation
Indices: 2205477--2205509 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2205467 TAACATAAAA
2205477 TTAAACTAAAATAAC
1 TTAAACTAAAATAAC
*
2205492 TTAAATTAAAATAAC
1 TTAAACTAAAATAAC
2205507 TTA
1 TTA
2205510 TCAAGATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (15 bp):
TTAAACTAAAATAAC
Found at i:2220939 original size:21 final size:22
Alignment explanation
Indices: 2220914--2220957 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
2220904 AAGTGATTAA
2220914 TTTAAGTTATTTTA-GTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
*
2220935 TTTAAGTTATTTTATTTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
2220957 T
1 T
2220958 ACTTTAAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (22 bp):
TTTAAGTTATTTTATGTTAAAT
Found at i:2232553 original size:35 final size:35
Alignment explanation
Indices: 2232512--2232591 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 35
2232502 TTTCTTTATA
* *
2232512 TGTGTGGTACCTGCCCCACATCTCA-CTCTTACATG
1 TGTGTGGTACCTACCCCACATC-AAGCTCTTACATG
* *
2232547 TGTGTGGTACCTACCCCACATCAAGGTCTTATATG
1 TGTGTGGTACCTACCCCACATCAAGCTCTTACATG
2232582 TGTGTGGTAC
1 TGTGTGGTAC
2232592 ATGCTTGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 1 0.03
35 39 0.98
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.33
Consensus pattern (35 bp):
TGTGTGGTACCTACCCCACATCAAGCTCTTACATG
Found at i:2236469 original size:12 final size:12
Alignment explanation
Indices: 2236452--2236476 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2236442 TAGTTTTAAT
2236452 AATCATAGGACA
1 AATCATAGGACA
2236464 AATCATAGGACA
1 AATCATAGGACA
2236476 A
1 A
2236477 TGTCAATCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (12 bp):
AATCATAGGACA
Found at i:2243479 original size:29 final size:27
Alignment explanation
Indices: 2243437--2243577 Score: 129
Period size: 28 Copynumber: 5.0 Consensus size: 27
2243427 ACAAAAATGG
2243437 AACATGTTTGTCTTAATTTAGACAAGA
1 AACATGTTTGTCTTAATTTAGACAAGA
*
2243464 ATACATGCTTGGTCTTAATTTAGACAAGA
1 A-ACATG-TTTGTCTTAATTTAGACAAGA
*
2243493 AATATGTTTGTCTTAATTTAAGACAAGAAA
1 AACATGTTTGTCTTAATTT-AGACAAG--A
* * * * *
2243523 AATATTTTTTTCTTAATCTAGACAAAAA
1 AACATGTTTGTCTTAATTTAGAC-AAGA
* * * *
2243551 AACATATTTGTCTCAATTAAAACAAGA
1 AACATGTTTGTCTTAATTTAGACAAGA
2243578 TAAATATTTT
Statistics
Matches: 93, Mismatches: 15, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
27 16 0.17
28 33 0.35
29 25 0.27
30 19 0.20
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (27 bp):
AACATGTTTGTCTTAATTTAGACAAGA
Found at i:2243537 original size:30 final size:30
Alignment explanation
Indices: 2243443--2243607 Score: 139
Period size: 29 Copynumber: 5.7 Consensus size: 30
2243433 ATGGAACATG
* **
2243443 TTTGTCTTAATTT-AGACAAGAATACAT-GC
1 TTTGTCTTAATTTAAGACAAGAA-AAATATT
* *
2243472 TTGGTCTTAATTT-AGACAAG--AAATATG
1 TTTGTCTTAATTTAAGACAAGAAAAATATT
2243499 TTTGTCTTAATTTAAGACAAGAAAAATATT
1 TTTGTCTTAATTTAAGACAAGAAAAATATT
* * * *
2243529 TTTTTCTTAATCT-AGACAA-AAAAACATA
1 TTTGTCTTAATTTAAGACAAGAAAAATATT
* * *
2243557 TTTGTCTCAA-TTAAAACAAGATAAATATT
1 TTTGTCTTAATTTAAGACAAGAAAAATATT
* *
2243586 TTTGTCTCAATTAAAGACAAGA
1 TTTGTCTTAATTTAAGACAAGA
2243608 GTTGTCTTAA
Statistics
Matches: 110, Mismatches: 19, Indels: 13
0.77 0.13 0.09
Matches are distributed among these distances:
26 3 0.03
27 13 0.12
28 27 0.25
29 41 0.37
30 26 0.24
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (30 bp):
TTTGTCTTAATTTAAGACAAGAAAAATATT
Found at i:2243545 original size:57 final size:58
Alignment explanation
Indices: 2243437--2243592 Score: 167
Period size: 57 Copynumber: 2.7 Consensus size: 58
2243427 ACAAAAATGG
* ** * * *
2243437 AACATGTTTGTCTTAATTT-AGACAAGAATACAT-GCTTGGTCTTAATTTAGAC-AAGA
1 AACATGTTTGTCTTAATTTAAGACAAGAA-AAATATTTTTGTCTTAATCTAGACAAAAA
* *
2243493 AATATGTTTGTCTTAATTTAAGACAAGAAAAATATTTTTTTCTTAATCTAGACAAAAA
1 AACATGTTTGTCTTAATTTAAGACAAGAAAAATATTTTTGTCTTAATCTAGACAAAAA
* * * *
2243551 AACATATTTGTCTCAA-TTAAAACAAGATAAATATTTTTGTCT
1 AACATGTTTGTCTTAATTTAAGACAAGAAAAATATTTTTGTCT
2243593 CAATTAAAGA
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
56 21 0.25
57 46 0.55
58 16 0.19
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (58 bp):
AACATGTTTGTCTTAATTTAAGACAAGAAAAATATTTTTGTCTTAATCTAGACAAAAA
Found at i:2244701 original size:7 final size:8
Alignment explanation
Indices: 2244684--2244709 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2244674 TGTTTCCTTC
2244684 TTTATTTT
1 TTTATTTT
2244692 TTTATTTT
1 TTTATTTT
2244700 TTTATTTT
1 TTTATTTT
2244708 TT
1 TT
2244710 CTTAGATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTATTTT
Found at i:2251297 original size:21 final size:20
Alignment explanation
Indices: 2251264--2251305 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
2251254 TTAGAGAACG
2251264 AAAGAGTAGTGAAGAAAGAAA
1 AAAGAGTAGTGAA-AAAGAAA
*
2251285 AAAGAG-AGTTGAAAAGGAAA
1 AAAGAGTAG-TGAAAAAGAAA
2251305 A
1 A
2251306 CACCAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.62, C:0.00, G:0.29, T:0.10
Consensus pattern (20 bp):
AAAGAGTAGTGAAAAAGAAA
Found at i:2258966 original size:118 final size:119
Alignment explanation
Indices: 2258806--2259091 Score: 333
Period size: 122 Copynumber: 2.4 Consensus size: 119
2258796 GTACATCAAT
* * * * * * *
2258806 AAAATTATGTATATATAGTGCATCAAATTTGTCAATATTATTTTTTGAAGAGTTT-ACTATTTAT
1 AAAATTATGCATATATAGTACATCAAATTTATCATTAATATTTTTTGAAAAGTTTCA-AATTTAT
*
2258870 CATTATATATAATTTATAA-CCTTTATATATAACCCATGCCCTTCAAAATCATTA
65 CATTATATATAATTTATAACCCTATATATATAACCCATGCCCTTCAAAATCATTA
*
2258924 AAAATTATGCATATATAGTACATCAAATTTATCATTAATATTTTGAAGTGAAAAGTTTCAAATTT
1 AAAATTATGCATATATAGTACATCAAATTTATCATTAATATTTT---TTGAAAAGTTTCAAATTT
** * *** * *
2258989 ATTGTTATATATAATTTATAACCCTATATATATAATCCATGTTTTTCTAAATCTTTA
63 ATCATTATATATAATTTATAACCCTATATATATAACCCATGCCCTTCAAAATCATTA
** * *
2259046 AAAATTACACATATATAGTACATCAAATTTTTTATTAATATTTTTT
1 AAAATTATGCATATATAGTACATCAAATTTATCATTAATATTTTTT
2259092 TCCATTCATA
Statistics
Matches: 141, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
118 39 0.28
119 1 0.01
121 32 0.23
122 69 0.49
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (119 bp):
AAAATTATGCATATATAGTACATCAAATTTATCATTAATATTTTTTGAAAAGTTTCAAATTTATC
ATTATATATAATTTATAACCCTATATATATAACCCATGCCCTTCAAAATCATTA
Found at i:2264923 original size:37 final size:37
Alignment explanation
Indices: 2264863--2264939 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
2264853 AATGGTAACC
*
2264863 TTAGTTTTAGGCAAAGTTCAATATGACATTTTATTGG
1 TTAGTTTTAGGCAAAGTTCAATATGACATTTGATTGG
* * * *
2264900 TTAGTTTTAGGGAAGGTTTAATATGACATTTGGTTGG
1 TTAGTTTTAGGCAAAGTTCAATATGACATTTGATTGG
2264937 TTA
1 TTA
2264940 CTATTTATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.27, C:0.05, G:0.23, T:0.44
Consensus pattern (37 bp):
TTAGTTTTAGGCAAAGTTCAATATGACATTTGATTGG
Found at i:2271360 original size:23 final size:24
Alignment explanation
Indices: 2271334--2271393 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
2271324 CCAAATTGGT
*
2271334 TTGATCACAAACTTTGC-C-TAATC
1 TTGATCACAAACTTT-CACTTAACC
*
2271357 TTGATCACGAA-TTTCACTTAACC
1 TTGATCACAAACTTTCACTTAACC
2271380 TTGATCACAAACTT
1 TTGATCACAAACTT
2271394 CGTCGCTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 1 0.03
22 4 0.13
23 24 0.77
24 2 0.06
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (24 bp):
TTGATCACAAACTTTCACTTAACC
Found at i:2271420 original size:28 final size:25
Alignment explanation
Indices: 2271379--2271448 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
2271369 TTCACTTAAC
* *
2271379 CTTGATCACAAACTTCGTCGCTTGATAT
1 CTTGATCATAAACTTCGT--C-TCATAT
* *
2271407 CTTGATCATGAACTTTGTCTCATAT
1 CTTGATCATAAACTTCGTCTCATAT
2271432 CTTGATCATAAACTTCG
1 CTTGATCATAAACTTCG
2271449 CTTTTTGATC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
25 20 0.56
26 1 0.03
28 15 0.42
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.39
Consensus pattern (25 bp):
CTTGATCATAAACTTCGTCTCATAT
Found at i:2273112 original size:42 final size:42
Alignment explanation
Indices: 2273060--2273144 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
2273050 AAGAAATACC
*
2273060 TCATGCATCATATAAAATAACCATAATGTATTTAATATGAAA
1 TCATACATCATATAAAATAACCATAATGTATTTAATATGAAA
2273102 TCATACATCATATAAAATAACCATAATGTATTTAATATGAAA
1 TCATACATCATATAAAATAACCATAATGTATTTAATATGAAA
2273144 T
1 T
2273145 ACGATTAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.34
Consensus pattern (42 bp):
TCATACATCATATAAAATAACCATAATGTATTTAATATGAAA
Found at i:2276784 original size:27 final size:28
Alignment explanation
Indices: 2276754--2276807 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
2276744 GAAATAGAAG
* *
2276754 GAAA-GTTGTGACTGTTGGAAATTAAAA
1 GAAAGGTTGTGACTATTGAAAATTAAAA
*
2276781 GAAAGGTTGTGTCTATTGAAAATTAAA
1 GAAAGGTTGTGACTATTGAAAATTAAA
2276808 TCAATAGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.31
Consensus pattern (28 bp):
GAAAGGTTGTGACTATTGAAAATTAAAA
Found at i:2281748 original size:21 final size:20
Alignment explanation
Indices: 2281710--2281749 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2281700 TGCATTCTGA
2281710 ATGAAATGCATCAATACATG
1 ATGAAATGCATCAATACATG
* *
2281730 ATGAACATGTATCGATACAT
1 ATGAA-ATGCATCAATACAT
2281750 CTAACTCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (20 bp):
ATGAAATGCATCAATACATG
Found at i:2287473 original size:16 final size:17
Alignment explanation
Indices: 2287452--2287483 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2287442 AAACTTTTTT
2287452 AGAAAGG-TAAAAAATG
1 AGAAAGGTTAAAAAATG
2287468 AGAAAGGTTAAAAAAT
1 AGAAAGGTTAAAAAAT
2287484 TACTAGTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.62, C:0.00, G:0.22, T:0.16
Consensus pattern (17 bp):
AGAAAGGTTAAAAAATG
Found at i:2290829 original size:16 final size:16
Alignment explanation
Indices: 2290810--2290840 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2290800 ATAAAAATAT
2290810 AAAAAAATCAAAATCC
1 AAAAAAATCAAAATCC
*
2290826 AAAAGAATCAAAATC
1 AAAAAAATCAAAATC
2290841 TAAATTTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.16, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAAAAATCAAAATCC
Found at i:2304297 original size:55 final size:55
Alignment explanation
Indices: 2304191--2304300 Score: 141
Period size: 55 Copynumber: 2.0 Consensus size: 55
2304181 TGCTGTCAAG
* * **
2304191 AGGTTATGCCTGATCCTTGGAGAGGCAAAAGGTTACACCTGCTCCCTAAAAGGCA
1 AGGTTATGCATGATCCTTGGAAAGGCAAAAGGTTACACCTAATCCCTAAAAGGCA
* * *
2304246 AGGTTATGCATGATCCTT-GAAATGCAAGAGGTTACGCCTAATCCCTGAAAAGGCA
1 AGGTTATGCATGATCCTTGGAAAGGCAAAAGGTTACACCTAATCCCT-AAAAGGCA
2304301 TTATATGGGT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 22 0.47
55 25 0.53
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.23
Consensus pattern (55 bp):
AGGTTATGCATGATCCTTGGAAAGGCAAAAGGTTACACCTAATCCCTAAAAGGCA
Found at i:2306489 original size:158 final size:158
Alignment explanation
Indices: 2306145--2306466 Score: 511
Period size: 158 Copynumber: 2.0 Consensus size: 158
2306135 GGAAACATAC
* * *
2306145 ATTATTTGAAGACAATTTATCAAGATAAACAACATATGTGTTGCCTTGTCTTTGACCCACAAAAA
1 ATTATTTGAAGACAACTCAACAAGATAAACAACATATGTGTTGCCTTGTCTTTGACCCACAAAAA
* *
2306210 GAATTTTATTTGCCTTAACATCAACAACATGACAAATTAAGGCTTTAACATGACTTTAAGACCTT
66 GAATTTTATATGCCTTAACATCAACAACATGACAAATTAAGGCTTTAACATGACTGTAAGACCTT
2306275 TATCACAAAGTTGAGTAACACTTGACAA
131 TATCACAAAGTTGAGTAACACTTGACAA
* * * *
2306303 ATTATTTGAAGACAATTCATCAAGATAAACAACATATGTAG-TGCCTTGTCTTTGACGCAGAAAA
1 ATTATTTGAAGACAACTCAACAAGATAAACAACATATGT-GTTGCCTTGTCTTTGACCCACAAAA
* *
2306367 AGAATTTTATATGTCTTAGCATCAACAACATGACAAATTAAGGCTTTAAACATGACTGTAAGACC
65 AGAATTTTATATGCCTTAACATCAACAACATGACAAATTAAGGCTTT-AACATGACTGTAAGACC
*
2306432 TTTATCGCAAAGTTGAGTAACACTTGACAA
129 TTTATCACAAAGTTGAGTAACACTTGACAA
2306462 ATTAT
1 ATTAT
2306467 GCTTGAGACC
Statistics
Matches: 154, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
158 103 0.67
159 51 0.33
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (158 bp):
ATTATTTGAAGACAACTCAACAAGATAAACAACATATGTGTTGCCTTGTCTTTGACCCACAAAAA
GAATTTTATATGCCTTAACATCAACAACATGACAAATTAAGGCTTTAACATGACTGTAAGACCTT
TATCACAAAGTTGAGTAACACTTGACAA
Found at i:2311209 original size:35 final size:36
Alignment explanation
Indices: 2311170--2311247 Score: 113
Period size: 36 Copynumber: 2.2 Consensus size: 36
2311160 GTCTTGATAT
* * *
2311170 AGGTTACGTCTGATCTTG-TAAAAGGCATGTTGTGA
1 AGGTTACGCCTAATCTTGTTAAAAGGCATGTTGTAA
*
2311205 AGGTTACGCCTAATCTTGTTAAAAGGTATGTTGTAA
1 AGGTTACGCCTAATCTTGTTAAAAGGCATGTTGTAA
2311241 AGGTTAC
1 AGGTTAC
2311248 ACTTGATGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
35 16 0.42
36 22 0.58
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.35
Consensus pattern (36 bp):
AGGTTACGCCTAATCTTGTTAAAAGGCATGTTGTAA
Found at i:2311264 original size:36 final size:36
Alignment explanation
Indices: 2311188--2311269 Score: 83
Period size: 36 Copynumber: 2.2 Consensus size: 36
2311178 TCTGATCTTG
* * **
2311188 TAAAAGGCATGTTGTGAAGGTTACGCCTAATCTTGT
1 TAAAAGGCATGTTGTAAAGGTTACACCTAATCTTAC
* * * *
2311224 TAAAAGGTATGTTGTAAAGGTTACACTTGATGTTAC
1 TAAAAGGCATGTTGTAAAGGTTACACCTAATCTTAC
2311260 TAAAAAGGCA
1 T-AAAAGGCA
2311270 AATTGATAGT
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
36 29 0.81
37 7 0.19
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (36 bp):
TAAAAGGCATGTTGTAAAGGTTACACCTAATCTTAC
Found at i:2311414 original size:20 final size:21
Alignment explanation
Indices: 2311389--2311429 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2311379 TCACTTACTG
*
2311389 ATTTCATACTC-CATTTTTCT
1 ATTTCATACTCTCATATTTCT
*
2311409 ATTTCATTCTCTCATATTTCT
1 ATTTCATACTCTCATATTTCT
2311430 GCTTCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.20, C:0.24, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTCATACTCTCATATTTCT
Found at i:2313689 original size:34 final size:35
Alignment explanation
Indices: 2313651--2313727 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 35
2313641 GTCTTGATAT
* * *
2313651 AGGTTACGTCTGATC-CTTAAAAGGCATGTTGTGA
1 AGGTTACGCCTAATCTCTTAAAAGGCATGTTGTAA
* *
2313685 AGGTTACGCCTAATCTTGTTAAAAGGTATGTTGTAA
1 AGGTTACGCCTAATC-TCTTAAAAGGCATGTTGTAA
2313721 AGGTTAC
1 AGGTTAC
2313728 ACTTGATGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
34 13 0.36
36 23 0.64
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.34
Consensus pattern (35 bp):
AGGTTACGCCTAATCTCTTAAAAGGCATGTTGTAA
Found at i:2313744 original size:36 final size:36
Alignment explanation
Indices: 2313668--2313744 Score: 82
Period size: 36 Copynumber: 2.1 Consensus size: 36
2313658 GTCTGATCCT
* * **
2313668 TAAAAGGCATGTTGTGAAGGTTACGCCTAATCTTGT
1 TAAAAGGCATGTTGTAAAGGTTACACCTAATCTTAC
* * * *
2313704 TAAAAGGTATGTTGTAAAGGTTACACTTGATGTTAC
1 TAAAAGGCATGTTGTAAAGGTTACACCTAATCTTAC
2313740 TAAAA
1 TAAAA
2313745 AGGAAAATTG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (36 bp):
TAAAAGGCATGTTGTAAAGGTTACACCTAATCTTAC
Found at i:2326650 original size:13 final size:13
Alignment explanation
Indices: 2326632--2326658 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2326622 TGATGACTTG
2326632 TATGTGATGTTGT
1 TATGTGATGTTGT
2326645 TATGTGATGTTGT
1 TATGTGATGTTGT
2326658 T
1 T
2326659 TCCATATACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.56
Consensus pattern (13 bp):
TATGTGATGTTGT
Found at i:2326715 original size:81 final size:81
Alignment explanation
Indices: 2326570--2326726 Score: 251
Period size: 81 Copynumber: 1.9 Consensus size: 81
2326560 CATGCACGTC
* * *
2326570 ATGTTGCTTCCACATACTATATGAGATAAGAACAAGCATGGGTTATATGCTATGATGACTTGTAT
1 ATGTTGCTTCCACATACTATATGAGATAAGAACAAGCATGAGATATATGCTATGATGACATGTAT
2326635 GTGATGTTGTTATGTG
66 GTGATGTTGTTATGTG
* * *
2326651 ATGTTGTTTCCATATACTATATGAGATAAGAACAAGCATGAGATATATGCTATGTTGACATGTAT
1 ATGTTGCTTCCACATACTATATGAGATAAGAACAAGCATGAGATATATGCTATGATGACATGTAT
*
2326716 TTGATGTTGTT
66 GTGATGTTGTT
2326727 TCCACATACT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 69 1.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (81 bp):
ATGTTGCTTCCACATACTATATGAGATAAGAACAAGCATGAGATATATGCTATGATGACATGTAT
GTGATGTTGTTATGTG
Found at i:2326786 original size:64 final size:67
Alignment explanation
Indices: 2326645--2326812 Score: 252
Period size: 64 Copynumber: 2.5 Consensus size: 67
2326635 GTGATGTTGT
* * *
2326645 TATGTGATGTTGTTTCCATATACTATATGAGATAAGAACAAGCATGAGATATATGCTATGTTGAC
1 TATGTGATGTTGTTTCCACATACTATATGAGATAA-AACAAGCATGAGATATACGCTATGATGAC
2326710 ATG
65 ATG
* *
2326713 TATTTGATGTTGTTTCCACATACTATATGAGATAAAA-ACG-A-GAGATATACGCTATGATGACA
1 TATGTGATGTTGTTTCCACATACTATATGAGATAAAACAAGCATGAGATATACGCTATGATGACA
2326775 TG
66 TG
*
2326777 TATGTGATGTTGTTTCCACATACTATATGAGGTAAA
1 TATGTGATGTTGTTTCCACATACTATATGAGATAAA
2326813 GATGAGCACA
Statistics
Matches: 93, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
64 55 0.59
65 1 0.01
66 2 0.02
67 2 0.02
68 33 0.35
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (67 bp):
TATGTGATGTTGTTTCCACATACTATATGAGATAAAACAAGCATGAGATATACGCTATGATGACA
TG
Found at i:2336233 original size:23 final size:23
Alignment explanation
Indices: 2336168--2336234 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
2336158 ATTTTTAAGT
*
2336168 ATTGCGTGACTAATTGGT-AGGC
1 ATTGCGTGACTAATTAGTAAGGC
* * * *
2336190 ATTGCGTTAGTACTTAATAAGGC
1 ATTGCGTGACTAATTAGTAAGGC
*
2336213 ATTGCGTGACTAGTTAGTAAGG
1 ATTGCGTGACTAATTAGTAAGG
2336235 TATTATTTGA
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
22 13 0.37
23 22 0.63
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (23 bp):
ATTGCGTGACTAATTAGTAAGGC
Found at i:2336331 original size:22 final size:21
Alignment explanation
Indices: 2336260--2336350 Score: 83
Period size: 22 Copynumber: 4.2 Consensus size: 21
2336250 GCATTGGTTA
*
2336260 AAAATCAATCACGCAATGCCT
1 AAAATCAATCACGCAATGCTT
*
2336281 AAAAACTAATCACGCAATGCTT
1 AAAATC-AATCACGCAATGCTT
* *
2336303 GAAAATCAATCATGCAATTCTT
1 -AAAATCAATCACGCAATGCTT
* * * *
2336325 AACAATCAGTCATGCATTACTT
1 AA-AATCAATCACGCAATGCTT
2336347 AAAA
1 AAAA
2336351 ACTAGTCTCA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
21 9 0.15
22 45 0.76
23 5 0.08
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (21 bp):
AAAATCAATCACGCAATGCTT
Found at i:2338843 original size:21 final size:21
Alignment explanation
Indices: 2338817--2338871 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
2338807 ATTTTTTATT
2338817 TAAAATATATTAAGAAT-TTTA
1 TAAAATATATTAA-AATCTTTA
* *
2338838 TAAAATTTATT-AATTCTTTA
1 TAAAATATATTAAAATCTTTA
2338858 TAAAAATATATTAA
1 T-AAAATATATTAA
2338872 TAAAAGCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 2 0.07
20 6 0.21
21 19 0.68
22 1 0.04
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
TAAAATATATTAAAATCTTTA
Found at i:2338859 original size:20 final size:21
Alignment explanation
Indices: 2338834--2338872 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2338824 TATTAAGAAT
*
2338834 TTTAT-AAAATTTATTAATTC
1 TTTATAAAAATATATTAATTC
2338854 TTTATAAAAATATATTAAT
1 TTTATAAAAATATATTAAT
2338873 AAAAGCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTATAAAAATATATTAATTC
Found at i:2348839 original size:21 final size:22
Alignment explanation
Indices: 2348788--2348845 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 22
2348778 CAAAATCTCA
*
2348788 ACAAAATTTTCATGAAAAATGGTG
1 ACAAAATTTTC--CAAAAATGGTG
2348812 ACAAAATTTTCCAAAAATGGTG
1 ACAAAATTTTCCAAAAATGGTG
*
2348834 ACAAATTTTTCC
1 ACAAAATTTTCC
2348846 TTGGAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 21 0.66
24 11 0.34
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (22 bp):
ACAAAATTTTCCAAAAATGGTG
Found at i:2386096 original size:15 final size:15
Alignment explanation
Indices: 2386076--2386104 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2386066 TCATGTATTT
2386076 ATTATTTATTTTTTA
1 ATTATTTATTTTTTA
2386091 ATTATTTATTTTTT
1 ATTATTTATTTTTT
2386105 TTGAAGCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTATTTATTTTTTA
Found at i:2461617 original size:49 final size:50
Alignment explanation
Indices: 2461558--2461673 Score: 139
Period size: 50 Copynumber: 2.3 Consensus size: 50
2461548 ACTTGATCCT
* * **
2461558 ATTAAAAAGTAAGAATCCC-TTGTGGATTGT-TTAAAGGTTATCGCTTCTT
1 ATTAAAAAGTAAGAATCCCTTTGTGGATTGTGCTAAA-GTTATCACTTCCC
*
2461607 GTTAAAAAGTAAGAA-CCCTTTTGTGGATTGTGCTAAAGTTATCACTTCCC
1 ATTAAAAAGTAAGAATCCC-TTTGTGGATTGTGCTAAAGTTATCACTTCCC
*
2461657 ATTAAAAAGCAAGAATC
1 ATTAAAAAGTAAGAATC
2461674 TTTAATAGTG
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
48 3 0.05
49 14 0.25
50 34 0.61
51 5 0.09
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (50 bp):
ATTAAAAAGTAAGAATCCCTTTGTGGATTGTGCTAAAGTTATCACTTCCC
Found at i:2464155 original size:49 final size:50
Alignment explanation
Indices: 2464096--2464211 Score: 139
Period size: 50 Copynumber: 2.3 Consensus size: 50
2464086 ACTTGATCCT
* * **
2464096 ATTAAAAAGTAAGAATCCC-TTGTGGATTGT-TTAAAGGTTATCGCTTCTT
1 ATTAAAAAGTAAGAATCCCTTTGTGGATTGTGCTAAA-GTTATCACTTCCC
*
2464145 GTTAAAAAGTAAGAA-CCCTTTTGTGGATTGTGCTAAAGTTATCACTTCCC
1 ATTAAAAAGTAAGAATCCC-TTTGTGGATTGTGCTAAAGTTATCACTTCCC
*
2464195 ATTAAAAAGCAAGAATC
1 ATTAAAAAGTAAGAATC
2464212 TTTAATAGTG
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
48 3 0.05
49 14 0.25
50 34 0.61
51 5 0.09
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (50 bp):
ATTAAAAAGTAAGAATCCCTTTGTGGATTGTGCTAAAGTTATCACTTCCC
Found at i:2473459 original size:15 final size:16
Alignment explanation
Indices: 2473425--2473463 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
2473415 AAGATTAATG
2473425 TAAAAATATAAATAAAA
1 TAAAAA-ATAAATAAAA
*
2473442 TAAAAAATAACT-AAA
1 TAAAAAATAAATAAAA
2473457 TAAAAAA
1 TAAAAAA
2473464 AGGAGATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.48
16 5 0.24
17 6 0.29
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (16 bp):
TAAAAAATAAATAAAA
Found at i:2513512 original size:21 final size:21
Alignment explanation
Indices: 2513473--2513512 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2513463 ACTCTTTTTC
* **
2513473 TTCTTCCAATTTTCCTCTCTT
1 TTCTTCCAATTATAATCTCTT
2513494 TTCTTCCAATTATAATCTC
1 TTCTTCCAATTATAATCTC
2513513 ACTCAATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (21 bp):
TTCTTCCAATTATAATCTCTT
Found at i:2515557 original size:449 final size:444
Alignment explanation
Indices: 2514091--2515852 Score: 1787
Period size: 449 Copynumber: 3.9 Consensus size: 444
2514081 GATCTCATTA
* * * *
2514091 CCAAGTTTAGTCAATCCAAAACGCAAAAAGTCTCATTGATTAAAGATAATTCAAAAT-TTTGCCA
1 CCAAGTTCAGTCAACCCAAAA--AAAAAAGTCTCTTTGATTAAAGATAATTC-AAATCTTTGCCA
* * ** *
2514155 CTTTTAAATTGCCAAGTTGACGCCAATAATT-AAGGAAGTTCAAACTATCAATTACAAGTGAAGA
63 ATTTTAAACTGCCAAGTTGACATCAATAATTGAA-GAAGTTCAAACTATCAATTGCAAGTGAAGA
* * * *
2514219 AAGAATACTTATTGCTTGAGTCTACTCCTCACACTTGGCCCAATCAATGGCAAATTCTTGATGTG
127 AAGAAGACTTATTGCTTGAGTCTACTCCTCACAATTGGCCCAATCAATGACAAATTCTTGAAGTG
* * * * * * **
2514284 TTCCAATGCTTCAATATTAGTTCCTCCTTAGTCAAAGCTTAAACTGCCAATAAAAAAGAACTTGT
192 TTACAATGCATGAATATTAGTTCCTCCTCAGTAAAAGCTTAAACTGCCAATAAAAAAGAGCTCAT
* * * * *
2514349 TAAACCAAATATCCTTAATTGGACGGCTTT-GGCAAGAATTAGGTCCCATGAAAGAAGAAAGACT
257 TAAACCAAAAATTCTTAATAGGACGG-TTTAGGCAAAAATTAGGTCCCATTAAA-AA-AAAGACT
* * * * * *
2514413 ATTAAGTTGAGAATCCTTAAATTGATGATTTAGGCAAACGTTATAATGTGGAAAAAAAAAAAAAC
319 ATTAAGTTGAAAATCCTTAAAATGACGACTTAGGCAAAAGTTAAAATGT--AAAAAAAAAAAAA-
* * *
2514478 ACAAGAACTACGCTATGACTTGATCCTTCATATTAGAAGGTGTGTAGGCAGCTTGGCCTTATTA
381 ACAAGAACTACGTTATGACTTGATCCTTCATATTAGAAGGTGTGTAGGCAGCTTGGTCTTATTG
* * * * * * *
2514542 CCAAGTTCAGTCAACTC-AAAAAAGAAGTCTTTTTAATGAAAGATAATTCAAATCTTTTCCATTT
1 CCAAGTTCAGTCAACCCAAAAAAAAAAGTCTCTTTGATTAAAGATAATTCAAATCTTTGCCAATT
** * *
2514606 TTAAACTGCCAAGTTGATGTCGATAATTGAAGAAGTTCAAACTATTAATTGCAAGTGAAGAAAAG
66 TTAAACTGCCAAGTTGACATCAATAATTGAAGAAGTTCAAACTATCAATTGCAAGTGAAG-AAAG
* * * * *
2514671 AATACTTATTGCTTGAGTCTATTCCTCACAATTGGCCCAATCGATGGCAAATTCTTAAAGTGTTA
130 AAGACTTATTGCTTGAGTCTACTCCTCACAATTGGCCCAATCAATGACAAATTCTTGAAGTGTTA
* * * ** **
2514736 CAATGCATGAATATTAATTCCCCCTCAGTAAAAACTTAAACTGCCAATGGAAAAGAGCTTGTTAA
195 CAATGCATGAATATTAGTTCCTCCTCAGTAAAAGCTTAAACTGCCAATAAAAAAGAGCTCATTAA
* * * *
2514801 ACCAAAAA-TCTTTAATAGGACGTTTTAGGAAAAAATTAGGTCCC-TTAACAAGAGAGACTATTA
260 ACCAAAAATTC-TTAATAGGACGGTTTAGGCAAAAATTAGGTCCCATTAA-AAAAAAGACTATTA
* * * * * * *
2514864 AGTTGAAAATCTTTAAAATGACAACTTAGGGAAAAGTTAGAATCTAAAAAAAACAAGAAACCCAG
323 AGTTGAAAATCCTTAAAATGACGACTTAGGCAAAAGTTAAAATGTAAAAAAAA-AA-AAAACAAG
* * * * * * *
2514929 AAATATC-TTATGACTTGATACTTCAAATTAGAAGGTATGTAGTCAGTTTGGTCTCA-TG
386 AACTA-CGTTATGACTTGATCCTTCATATTAGAAGGTGTGTAGGCAGCTTGGTCTTATTG
* * *
2514987 CCAAGTTCAGTCAACCCAAAAATAAAAAATTCTCTTCT-ATTAAAGATAATTAAAATCTTTGTC-
1 CCAAGTTCAGTCAACCC-AAAA-AAAAAAGTCTCTT-TGATTAAAGATAATTCAAATCTTTGCCA
* * * * * *
2515050 ATTTCAAAATTGCCAAGTTGACATCGATAATTGAAGAAGTTCACACTATCAGTTGCAAGT-ACGG
63 ATTT-TAAACTGCCAAGTTGACATCAATAATTGAAGAAGTTCAAACTATCAATTGCAAGTGA-AG
* * * * *
2515114 TAAAGAAGACTTATTGCTTGAGTCTACT-CT-AGCAATCGGCCTAATCAATTACAATTTCATGAA
126 -AAAGAAGACTTATTGCTTGAGTCTACTCCTCA-CAATTGGCCCAATCAATGACAAATTCTTGAA
** ** * * * * *
2515177 GCATTAGGATGCATGAATATTAGTTTCTCCTGAGTAAAAGCATAAACTACCCATAAAAAAGAGCT
189 GTGTTACAATGCATGAATATTAGTTCCTCCTCAGTAAAAGCTTAAACTGCCAATAAAAAAGAGCT
**
2515242 CATTAAATAAAAAATTCTTAATAGGACGGTTTAGGCAAAAATTAGGTCCCATTAAAAAAACAGAC
254 CATTAAACCAAAAATTCTTAATAGGACGGTTTAGGCAAAAATTAGGTCCCATTAAAAAAA-AGAC
* * *
2515307 TATTAAGTTTAAATTCCTTAAAATGACGACTTAGGCAACAGTTAAAATGTAACGAAAAAAAAAAA
318 TATTAAGTTGAAAATCCTTAAAATGACGACTTAGGCAAAAGTTAAAATGTAA--AAAAAAAAAAA
* * * **
2515372 ATAAGAACTACGTTATGACTTGATCCTTCATATAAGGAGGTGCATAGGCAGCTTGGTCTTATTG
381 ACAAGAACTACGTTATGACTTGATCCTTCATATTAGAAGGTGTGTAGGCAGCTTGGTCTTATTG
* * *
2515436 CCAAGTTTAGTCAACCCAAAAAACAAAAGTTCTCTTTGATTGAAGATCATTCAAATCTTTGCCAA
1 CCAAGTTCAGTCAACCCAAAAAA-AAAAG-TCTCTTTGATTAAAGATAATTCAAATCTTTGCCAA
* * * *
2515501 TTTGAAACTACTAAGTTAACATCAATAATTGAAGAAGTTCAAACTATCAATTGCAAGTGAAGCAA
64 TTTTAAACTGCCAAGTTGACATCAATAATTGAAGAAGTTCAAACTATCAATTGCAAGTGAAG-AA
* * * ** *
2515566 AGAAGACTTATTGCTTGAGTCTACTCTTCACAATTGGCCTAATTAATGGTACATTCTTGAAGTGT
128 AGAAGACTTATTGCTTGAGTCTACTCCTCACAATTGGCCCAATCAATGACAAATTCTTGAAGTGT
* * * ** *
2515631 TACAATGCTTGAATATTGGTTCCTCCTCAGTAAGAGCTTAAACTGCTTATAAAAAA-AGCCCATT
193 TACAATGCATGAATATTAGTTCCTCCTCAGTAAAAGCTTAAACTGCCAATAAAAAAGAGCTCATT
** * ** ** * * ** *
2515695 AAACCAAAAGCTCTTAATCA-AACGACTTACACAAATATCAGGTTTTGCA-AAAAAAGAAAGACT
258 AAACCAAAAATTCTTAAT-AGGACGGTTTAGGCAAAAATTAGG--TCCCATTAAAAA-AAAGACT
* * * * *
2515758 ATTGATTTGAAAATCCTTAAAATGACGACTTAAGCAAAAGTTAAAATGT--AGAAAAAAAAATCA
319 ATTAAGTTGAAAATCCTTAAAATGACGACTTAGGCAAAAGTTAAAATGTAAAAAAAAAAAAAACA
*
2515821 AGAACTACATTATGACTTGATCCTTCATATTA
384 AGAACTACGTTATGACTTGATCCTTCATATTA
2515853 AAAAGTACAT
Statistics
Matches: 1077, Mismatches: 200, Indels: 73
0.80 0.15 0.05
Matches are distributed among these distances:
445 25 0.02
446 92 0.09
447 183 0.17
448 306 0.28
449 312 0.29
450 139 0.13
451 20 0.02
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.29
Consensus pattern (444 bp):
CCAAGTTCAGTCAACCCAAAAAAAAAAGTCTCTTTGATTAAAGATAATTCAAATCTTTGCCAATT
TTAAACTGCCAAGTTGACATCAATAATTGAAGAAGTTCAAACTATCAATTGCAAGTGAAGAAAGA
AGACTTATTGCTTGAGTCTACTCCTCACAATTGGCCCAATCAATGACAAATTCTTGAAGTGTTAC
AATGCATGAATATTAGTTCCTCCTCAGTAAAAGCTTAAACTGCCAATAAAAAAGAGCTCATTAAA
CCAAAAATTCTTAATAGGACGGTTTAGGCAAAAATTAGGTCCCATTAAAAAAAAGACTATTAAGT
TGAAAATCCTTAAAATGACGACTTAGGCAAAAGTTAAAATGTAAAAAAAAAAAAAACAAGAACTA
CGTTATGACTTGATCCTTCATATTAGAAGGTGTGTAGGCAGCTTGGTCTTATTG
Found at i:2522292 original size:447 final size:447
Alignment explanation
Indices: 2520572--2522336 Score: 1759
Period size: 448 Copynumber: 4.0 Consensus size: 447
2520562 ATGTACTTTT
* ** * * * *
2520572 TAATAAGAAGGATCAAGTCATAACGTAGTTCT-TG-T-TTTTTTTTTAACATTTTAACTTTTG-C
1 TAATATGAAGGATCAAGTCATAGTGTATTTTTGTGTTCTTTTTTTTTTACATTCTAACTTTTGCC
** * * *
2520633 TTAAGTGGTCATTTTAAAGATTTTTAAATCAATAGTCTTTCGTTTTTTGCAT--GACCTAATATT
66 TTAAGTCATCATTTTAAAGATTTTCAACTTAATAGTCTTTC--TTTTT-CATGGGACCTAAT-TT
* * * * *
2520696 TGTATAAGCCGTCCTATT-AAGAGCTTTTGGTTTAACAGGCTTTTTTTTTATAAGCAATTTAAGC
127 TGCATAAGCCGTCCTATTAAAGA-TTTTTGGTTTAACAGGC-TCTTTTTTATTAGCAGTTTAAGC
* * *
2520760 TCTTACTGAGGAGGAACTAATATTCAAGCATTGTAACACTTCAAGAATGTACCATTGATTAGGCC
190 TTTTACTGAGGAGGAACTAATATTCAAGCATTGTAACACTTCAAGAATTTGCCATTGATTAGGCC
* * ** * * *
2520825 AATTGCAAAGAGTAGACTCAAGCAATAAGCCTTCTTTGCTTCACCTGCAATTTATAGTTTGAACT
255 AATTGCGAGGAGTAGACTCAAGCAATAAGTATTCTTTACTTCACTTGCAATTGATAGTTTGAACT
* * * * * * * * * * *
2520890 TCTTCAATTATTGATGTTAACATAGTAGTTT-CAAATTGGTAAAGATTTGAATGAGCTTCAATCA
320 TCTTCAATTATCGATGTCAACTTGGCAATTTAAAAATT-GCAAAGATTTGAATTATCTTTAATCA
* * * * * * * *** *
2520954 AAGATAAATTTTGTTTTTCGAGTTGACTCAACTTGGCAATAAGACGAAGCTGACTGTGTACCTCC
384 AAGAGAATTTTTGTTTTT-GAGTTGACTAAACTTGGTAATGAGGCCAAGCTGACTACATACCTTC
* * * ** * * * * * *
2521019 TCATATGAAGGATCAAGTCATAATGTA-GTTCCTATT-TTTTTTTGTCATATTTTAACTGTTGCC
1 TAATATGAAGGATCAAGTCATAGTGTATTTTTGTGTTCTTTTTTTTTTACATTCTAACTTTTGCC
* *
2521082 -TAAGCCATCATTTTAAGGATTTTCAACTTAATAGTCTATT-TTTTTCATGGGACCTAATTTCTG
66 TTAAGTCATCATTTTAAAGATTTTCAACTTAATAGTCT-TTCTTTTTCATGGGACCTAATTT-TG
* * ** * * * * *
2521145 CCTAAACCGTCCTATTAAAGATTTTTTATTTAGC-GAGCTCTTTTTTATTGGTAGTTTATGTTTT
129 CATAAGCCGTCCTATTAAAGATTTTTGGTTTAACAG-GCTCTTTTTTATTAGCAGTTTAAGCTTT
* * * ** * * * * *
2521209 TACTGAGGATGAACTAATATTCATGCATTCTAATGCTTCATGAAATTGCAATTGATTCGGCCGAT
193 TACTGAGGAGGAACTAATATTCAAGCATTGTAACACTTCAAGAATTTGCCATTGATTAGGCCAAT
* * * *
2521274 TGCGA-GAGTAGACTAAAGCAATAAGTCTTCTTTACTTTACTTGCAATTGATAGTGTGAACTTCT
258 TGCGAGGAGTAGACTCAAGCAATAAGTATTCTTTACTTCACTTGCAATTGATAGTTTGAACTTCT
* *
2521338 TCAATTATCGATGTCAACTTGGCAATTTCAAAA-TGACAAAGATTTGAATTATCTTTAATGAAAG
323 TCAATTATCGATGTCAACTTGGCAATTTAAAAATTG-CAAAGATTTGAATTATCTTTAATCAAAG
* * *
2521402 AGAATTTTTGTTTTAT-AGGTTGACTGAACTTGG-CATGAGGCCAAACTGACTACATACCTTC
387 AGAATTTTTGTTTT-TGA-GTTGACTAAACTTGGTAATGAGGCCAAGCTGACTACATACCTTC
* *
2521463 -AACTTTGAAGGATCAAGTCATAAG-GTATTTCTTG-GTTTCTTTTCTTTTTTAGATTCTAACTT
1 TAA-TATGAAGGATCAAGTCAT-AGTGTATTT-TTGTG-TTCTTTT-TTTTTTACATTCTAACTT
* * ** * * * *
2521525 TT-CCCTAAGTCGTCATTGGAAAGATTTTCAACTTAATAGTCTCTCTTGTT-AGGGGACTTAATT
61 TTGCCTTAAGTCATCATTTTAAAGATTTTCAACTTAATAGTCTTTCTTTTTCATGGGACCTAA-T
* * ** * * *
2521588 TTTGCATAAGACGTCCTATTAAAGATTTTTGGTTTAACAAGCTCTTTTCCATTGGCAGTTTATGT
125 TTTGCATAAGCCGTCCTATTAAAGATTTTTGGTTTAACAGGCTCTTTTTTATTAGCAGTTTAAGC
** * * * * * *
2521653 TTTTACCAAGGGGGGACTAATATTCATGCACTGTAACACTTCAAGAATTTGCCATCGATTGGGCC
190 TTTTACTGAGGAGGAACTAATATTCAAGCATTGTAACACTTCAAGAATTTGCCATTGATTAGGCC
* * * *
2521718 AATTGTGAGGAATAGACTCAAGCAATAAGTACTCTTTTCTTCACTTGCAATTGATAGTTTGAACT
255 AATTGCGAGGAGTAGACTCAAGCAATAAGTATTCTTTACTTCACTTGCAATTGATAGTTTGAACT
** * * * *
2521783 TCTTCAATTATCGACATTAACTTGGTAGTTTAAAAATGGCAAAGATTTGAATTATCTTTAATCAA
320 TCTTCAATTATCGATGTCAACTTGGCAATTTAAAAATTGCAAAGATTTGAATTATCTTTAATCAA
* * *
2521848 AGAGACTTTTT-TTTTTGAGTTGACTAAACTTGGTAATGAGGCCAAGCTGCCTACACACCTTC
385 AGAGAATTTTTGTTTTTGAGTTGACTAAACTTGGTAATGAGGCCAAGCTGACTACATACCTTC
2521910 TAATATGAAGGATCAAGTCATAGTGTACTTTTTGTGTTCTTTTTTTTTTACATTCTAACTTTTGC
1 TAATATGAAGGATCAAGTCATAGTGTA-TTTTTGTGTTCTTTTTTTTTTACATTCTAACTTTTGC
* * * *
2521975 CTTAA-TCATCATTTTAAGGATTCTCAACTTAATAGTCTTTCTTCTTTCGTGGGGCCTAATTCTT
65 CTTAAGTCATCATTTTAAAGATTTTCAACTTAATAGTCTTTCTT-TTTCATGGGACCTAATT-TT
* * * * *
2522039 GCATAAGCTGTCCAATTAAGGATTTTTGGTTTAATAGGTTCTTTTTTATTAGCAGTTTAAGCTTT
128 GCATAAGCCGTCCTATTAAAGATTTTTGGTTTAACAGGCTCTTTTTTATTAGCAGTTTAAGCTTT
* * * *
2522104 TACTGAGAAGGAACTAATATTGAAGCATTGGAACACTTCAAGAATTTGCCATTGATTAGGCCAAG
193 TACTGAGGAGGAACTAATATTCAAGCATTGTAACACTTCAAGAATTTGCCATTGATTAGGCCAAT
* *
2522169 TGTGAGGAGTAGACTCAAGCAATAAGTATTCTTT-CTTCACTTGCAATTGATAGTTTGAACTTCC
258 TGCGAGGAGTAGACTCAAGCAATAAGTATTCTTTACTTCACTTGCAATTGATAGTTTGAACTTCT
* * *
2522233 TCAATTATTGGTGTCAACTTGGCAACTTAAAAATTGCAAA-ATTTTGAATTATCTTTAATCAAAG
323 TCAATTATCGATGTCAACTTGGCAATTTAAAAATTGCAAAGA-TTTGAATTATCTTTAATCAAAG
* *
2522297 AGACTTTTTGCGTTTTG-GATT-ATCTAAACTTGGTAATGAG
387 AGAATTTTTG-TTTTTGAG-TTGA-CTAAACTTGGTAATGAG
2522337 ATCCAGCTAC
Statistics
Matches: 1081, Mismatches: 196, Indels: 80
0.80 0.14 0.06
Matches are distributed among these distances:
443 1 0.00
444 41 0.04
445 129 0.12
446 160 0.15
447 343 0.32
448 379 0.35
449 28 0.03
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.39
Consensus pattern (447 bp):
TAATATGAAGGATCAAGTCATAGTGTATTTTTGTGTTCTTTTTTTTTTACATTCTAACTTTTGCC
TTAAGTCATCATTTTAAAGATTTTCAACTTAATAGTCTTTCTTTTTCATGGGACCTAATTTTGCA
TAAGCCGTCCTATTAAAGATTTTTGGTTTAACAGGCTCTTTTTTATTAGCAGTTTAAGCTTTTAC
TGAGGAGGAACTAATATTCAAGCATTGTAACACTTCAAGAATTTGCCATTGATTAGGCCAATTGC
GAGGAGTAGACTCAAGCAATAAGTATTCTTTACTTCACTTGCAATTGATAGTTTGAACTTCTTCA
ATTATCGATGTCAACTTGGCAATTTAAAAATTGCAAAGATTTGAATTATCTTTAATCAAAGAGAA
TTTTTGTTTTTGAGTTGACTAAACTTGGTAATGAGGCCAAGCTGACTACATACCTTC
Found at i:2535201 original size:41 final size:41
Alignment explanation
Indices: 2535151--2535235 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
2535141 TATGCCTAAG
*
2535151 AAAAAGCCAACCATGGAAAAGATGTTCTTGCAATTTATGAC
1 AAAAAGCCAACCATGGAAAAGATGTTCATGCAATTTATGAC
2535192 AAAAAGCCAACCATGGAAAAGATGTTCATGCAATTTATGAC
1 AAAAAGCCAACCATGGAAAAGATGTTCATGCAATTTATGAC
2535233 AAA
1 AAA
2535236 GACTAATGNN
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.22
Consensus pattern (41 bp):
AAAAAGCCAACCATGGAAAAGATGTTCATGCAATTTATGAC
Found at i:2536018 original size:17 final size:16
Alignment explanation
Indices: 2535996--2536038 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
2535986 TTTGAACCTC
2535996 TTATTTTTTATTTTCAG
1 TTATTTTTTATTTT-AG
*
2536013 TTA-TTTTTATTTTAT
1 TTATTTTTTATTTTAG
2536028 TTATATTTTTA
1 TTAT-TTTTTA
2536039 CATTANNNNN
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 4 0.17
16 10 0.43
17 9 0.39
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (16 bp):
TTATTTTTTATTTTAG
Found at i:2540069 original size:446 final size:448
Alignment explanation
Indices: 2539219--2541044 Score: 1843
Period size: 446 Copynumber: 4.1 Consensus size: 448
2539209 ATGCACCCTG
* * * *
2539219 AACTTGGCAATGAAACCAAGCCT-CCTGTGTACCTTTTAATATGAAGGATCAAGTCATAACGTAG
1 AACTTGGCAATGAGACCAA-ACTGCCTATGTACCTTCTAATATGAAGGATCAAGTCATAACGTAG
* * * *
2539283 TTCTTGTTTGGTTTTTTTTTTTTGACATTTTAACTTTTGCTTAAGTCACCATTTTAAGGATTTTC
65 TTCTTG-TT-CTTTTTTTTTTTTCACATTCTAACTTTTGCCTAAGTCACCATTTTAAGGATTTTC
* * * * * * * ** * * * *
2539348 AAATCAATAGACTTTCTTTTTTTGCAAGACCTAATATTTGCGTAGGCTGTCTTCTTAA-GAGGTT
128 AACTTAATAGTCTTTCTTTTTATG-AGGACCTAATTTTTGCCTAAACCGTCCTATTAAGGA-TTT
* * ** ** * *
2539412 TTGGTTTAAC-AGGCTTTTTTTATAAGCAGTTTAAGCTCATATGAAGGAGGAACTAATATCCAAG
191 TTGATTTAACAAGTCTTTTTTTATTGGCAGTTTAAGCTTTTACG-AGGAGGAACTAATATTCAAG
* * * * * * *
2539476 CATTGTAACACTTTAAGAATGTACCATTGATTAAGTCC-ATTGTGAAGAGTAGACTCT-TGCAAT
255 CATTGTAACACTTCAAGAATTTGCCATTGATT-GGGCCGATTGTGACGAGTAGACT-TAAGCAAT
* * * * *
2539539 AAGTCTTCTTTACTTCACTTGCAATTGATAGTATGAACTTCTTCAATTATTGACATTAACTTTGT
318 AAGTCTTCTTT-CTTCACTTGCAATTGATAGTTTGAACTTCTTCAATTATCGACATCAACTTGGC
* * * * *
2539604 AGTTTCAAATTGACAAAGATTTGAATGATCTTTAATGAAAGAGAAATTTTGCTTTTTGAGTTGAC
382 AATTTCAAAATGGCAAAGATTTGAATTATCTTTAATCAAAGAGAAATTTTGCTTTTTGAGTTGAC
2539669 TA
447 TA
* * *
2539671 AACTTGGCAATAAGACCAAACTGCCTATGTACCTCCTCATATGAAGGATCAAGTCATAACGTAGT
1 AACTTGGCAATGAGACCAAACTGCCTATGTACCTTCTAATATGAAGGATCAAGTCATAACGTAGT
* * * *
2539736 TCTTG-T-TTTTTTTTTGTT-ACATTTTAACTATTGCCTAAGTCATCATTTTAAGGATTTTCAAC
66 TCTTGTTCTTTTTTTTTTTTCACATTCTAACTTTTGCCTAAGTCACCATTTTAAGGATTTTCAAC
** *
2539798 TTAATAGTCCTTT-TTTTTATG-GGACCTAATTTTTGCCTAAATTGTCCTATTAAGGATTTTTTA
131 TTAATAGT-CTTTCTTTTTATGAGGACCTAATTTTTGCCTAAACCGTCCTATTAAGGATTTTTGA
* * * *
2539861 TTTAACAAGCTCTTTTTTTATTGGTAGTTTACGCTTTTACCGAGAAGGAACTAATATTCATGCAT
195 TTTAACAAG-TCTTTTTTTATTGGCAGTTTAAGCTTTTA-CGAGGAGGAACTAATATTCAAGCAT
* ** * * *
2539926 TCTAATGCTTCATGAATTTGCAATTGATTGGGCTGATTGTGA-GAGTAGACTTAAGCAATAAGTC
258 TGTAACACTTCAAGAATTTGCCATTGATTGGGCCGATTGTGACGAGTAGACTTAAGCAATAAGTC
* * * * *
2539990 TTCTTTAATTTACTTGCAATTGATAGTGTGAACTTCTTCAATTATCGACGTCAGCTTGGCAATTT
323 TTCTTT-CTTCACTTGCAATTGATAGTTTGAACTTCTTCAATTATCGACATCAACTTGGCAATTT
* * *
2540055 CAAAATGGCAAAGATTTGAATTATCTTAAATCAAAGAGAAATTTTGATTTTT-AGGTTGACTG
387 CAAAATGGCAAAGATTTGAATTATCTTTAATCAAAGAGAAATTTTGCTTTTTGA-GTTGACTA
* ** * * * * * *
2540117 AACTTGGCAATGAGACGAAACTGATTATGTGCTTTCTAATTTGAAGGATCAAGTCGTAAGGTATT
1 AACTTGGCAATGAGACCAAACTGCCTATGTACCTTCTAATATGAAGGATCAAGTCATAACGTAGT
*
2540182 TCTTG--CTTTATTTTTTTTT-AGATTCTAACTTTTGCCTAAGTCACCATTTTAAGGATTTTCAA
66 TCTTGTTCTTT-TTTTTTTTTCACATTCTAACTTTTGCCTAAGTCACCATTTTAAGGATTTTCAA
* * * *
2540244 CTTAATAGTCTCTCTTTTTAAG-GGACTTAATTTTTGCCTAAGA-CGTCCTATTAAAGATTTTTG
130 CTTAATAGTCTTTCTTTTTATGAGGACCTAATTTTTGCCTAA-ACCGTCCTATTAAGGATTTTTG
* * ** * * *
2540307 ATTTAACTA-CCTCTTTTCCATTGGCAGTTTAAGTTTTTAGCGAGGGGGAACTAATATTCATGCA
194 ATTTAACAAGTCT-TTTTTTATTGGCAGTTTAAGCTTTTA-CGAGGAGGAACTAATATTCAAGCA
* * * ** *
2540371 TTGTAACACTTCAAGGATTTGCCATTGATTGGGCCGATTATGAGGAAAAGACTTAGGCAATAAGT
257 TTGTAACACTTCAAGAATTTGCCATTGATTGGGCCGATTGTGACGAGTAGACTTAAGCAATAAGT
* * * *
2540436 CTTCTTTCTTTACTTGCAGTTGATAGTTTGAACTTCTTCAATTATCGACATCAACTTGACAGTTT
322 CTTCTTTCTTCACTTGCAATTGATAGTTTGAACTTCTTCAATTATCGACATCAACTTGGCAATTT
* * * * * *
2540501 AAAAATGGCAAAGATTTGAATTATCTTTAATCAAAGAG-ACTTTT-TTTTTTGAATTGAGTG
387 CAAAATGGCAAAGATTTGAATTATCTTTAATCAAAGAGAAATTTTGCTTTTTGAGTTGACTA
* * * ** * * *
2540561 AACATGGCAATGAGACCAAGCTGCGTGCGTGA-CTTCTAATATGAAGGATCAAGTCGTAACATAC
1 AACTTGGCAATGAGACCAAACTGCCTATGT-ACCTTCTAATATGAAGGATCAAGTCATAACGTAG
*** *
2540625 TTCTTGTGTCCTTTTTTTCTTTTTCACATTCTAACTTTTGCCTAAGTTGTCATTTTAGGGATTCT
65 TTCTTGT-T-CTTTTTTT-TTTTTCACATTCTAACTTTTGCCTAAGTCACCATTTTAAGGATT-T
* * * * * *
2540690 T-AACTTAATAGTCTTTCTTTTT-TCGCAGGACCTAATTCTTACCTAAGCCATCCAATTAAGTAT
126 TCAACTTAATAGTCTTTCTTTTTAT-G-AGGACCTAATTTTTGCCTAAACCGTCCTATTAAGGA-
* * * *
2540753 TTTTTG-TTTAACAAGT-TCTTTTTATTGGCAATTTAAGCTTTTATAGAGGAGGAACTAATATTG
188 TTTTTGATTTAACAAGTCTTTTTTTATTGGCAGTTTAAGCTTTTA-CGAGGAGGAACTAATATTC
* * * * * *
2540816 AAGCATTGGAACACTTCACGAATTTTCCATTGATTGGGCCAAGTGTGACGAGTAGACTCAAGCAA
252 AAGCATTGTAACACTTCAAGAATTTGCCATTGATTGGGCCGATTGTGACGAGTAGACTTAAGCAA
* * *
2540881 TAAGTATTCGTTTCTTCACTTGCAATTGATAGTTTGAACTTCCTCAATTATCGACGTCAACTTGG
317 TAAGTCTTC-TTTCTTCACTTGCAATTGATAGTTTGAACTTCTTCAATTATCGACATCAACTTGG
* ** *
2540946 CAATTT-AAAATGGCAAAGATTTGAATTATCTTTAATCAAAAAGACTTTTTGCGTTTTG-GATTG
381 CAATTTCAAAATGGCAAAGATTTGAATTATCTTTAATCAAAGAGAAATTTTGCTTTTTGAG-TTG
*
2541009 GCTA
445 ACTA
* * * *
2541013 AACTTGGTAATGAGATCAAGCTACCTATGTAC
1 AACTTGGCAATGAGACCAAACTGCCTATGTAC
2541045 ATACCCCGTA
Statistics
Matches: 1141, Mismatches: 198, Indels: 70
0.81 0.14 0.05
Matches are distributed among these distances:
444 67 0.06
445 44 0.04
446 362 0.32
447 258 0.23
448 26 0.02
449 54 0.05
450 136 0.12
451 96 0.08
452 98 0.09
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (448 bp):
AACTTGGCAATGAGACCAAACTGCCTATGTACCTTCTAATATGAAGGATCAAGTCATAACGTAGT
TCTTGTTCTTTTTTTTTTTTCACATTCTAACTTTTGCCTAAGTCACCATTTTAAGGATTTTCAAC
TTAATAGTCTTTCTTTTTATGAGGACCTAATTTTTGCCTAAACCGTCCTATTAAGGATTTTTGAT
TTAACAAGTCTTTTTTTATTGGCAGTTTAAGCTTTTACGAGGAGGAACTAATATTCAAGCATTGT
AACACTTCAAGAATTTGCCATTGATTGGGCCGATTGTGACGAGTAGACTTAAGCAATAAGTCTTC
TTTCTTCACTTGCAATTGATAGTTTGAACTTCTTCAATTATCGACATCAACTTGGCAATTTCAAA
ATGGCAAAGATTTGAATTATCTTTAATCAAAGAGAAATTTTGCTTTTTGAGTTGACTA
Found at i:2543022 original size:272 final size:272
Alignment explanation
Indices: 2542508--2543029 Score: 585
Period size: 272 Copynumber: 1.9 Consensus size: 272
2542498 AATAAGTCCT
* * * *
2542508 TTTTGCTTCACTTGCAATTTCATAGTTTGAATTTCTACAATTATCAACATCAATTTGGTAGTTTT
1 TTTTGCTTCACTTGCAATTTCATAGTTTGAACTTCTACAATTATCAACATCAACTTGATAGTTTC
* * * *** *
2542573 AACACCACAAAGATTTGAATTATCTTTAATCTAAATGACGTTTTTTTTTCTTTGTTTGAACTAGG
66 AACACCAAAAAAAATTGAATTATCTTTAATCTAAATGACGTTTTTTTTTCGGGGTTTGAAATAGG
** * *
2542638 CGATGAGACCAAGCTGCCTACATACCTCCTAATATGAAATATCAAGTTGTAACTTATTTCATCTT
131 CGATGAGACCAAGCTGCCTACATACCTCCTAATATGAAATATCAAGTCATAACATAGTTCATCTT
* * * *
2542703 TTTTTGATGCCCTAACTTTTACCTAAGTCATCCTTCTAAGTATTTTCAACTTAACAGGCTTTTCT
196 TTTTTAAGGCCCTAACTTTTACCTAAGCCATCATTCTAAGTATTTTCAACTTAACAGGCTTTTCT
2542768 TCAAGTCCTAAA
261 TCAAGTCCTAAA
* * * *
2542780 TTTTGCTTCACTTGCAATTTGATAGTTTGAACTTCTTCAATTATCGACATCCACTTGATAGTTTC
1 TTTTGCTTCACTTGCAATTTCATAGTTTGAACTTCTACAATTATCAACATCAACTTGATAGTTTC
* *
2542845 AACA-TAAAAAAAATTGAATTATCTTTAAT-TGAATAGA-GTTTTTTTTT-GGGGTTAACT-AAA
66 AACACCAAAAAAAATTGAATTATCTTTAATCTAAAT-GACGTTTTTTTTTCGGGGTT---TGAAA
*
2542905 TATGGC-ATTGAGACCAAGCTGCCTACATACCTCCTAATATGAAGGT-TCAAGTCATAACATAGT
127 TA-GGCGA-TGAGACCAAGCTGCCTACATACCTCCTAATATGAA-ATATCAAGTCATAACATAGT
* *** * * * * *
2542968 TC-TTTTTTTCCTTAAGGTTTTAACTTTTGCTTAAGCCATCATTTTTAG-ATTTTCAGCTTAAC
189 TCATCTTTTT--TTAAGGCCCTAACTTTTACCTAAGCCATCATTCTAAGTATTTTCAACTTAAC
2543030 GGTGTTTCTT
Statistics
Matches: 206, Mismatches: 35, Indels: 18
0.80 0.14 0.07
Matches are distributed among these distances:
269 3 0.01
270 14 0.07
271 34 0.17
272 128 0.62
273 27 0.13
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (272 bp):
TTTTGCTTCACTTGCAATTTCATAGTTTGAACTTCTACAATTATCAACATCAACTTGATAGTTTC
AACACCAAAAAAAATTGAATTATCTTTAATCTAAATGACGTTTTTTTTTCGGGGTTTGAAATAGG
CGATGAGACCAAGCTGCCTACATACCTCCTAATATGAAATATCAAGTCATAACATAGTTCATCTT
TTTTTAAGGCCCTAACTTTTACCTAAGCCATCATTCTAAGTATTTTCAACTTAACAGGCTTTTCT
TCAAGTCCTAAA
Found at i:2546318 original size:442 final size:443
Alignment explanation
Indices: 2545152--2546470 Score: 1234
Period size: 442 Copynumber: 3.0 Consensus size: 443
2545142 TTTTTTTGGG
* * * * * *
2545152 TTGACTAAACTTGCCGATGAGACCAAGCTACCTACATACC-TCATAATATGAAGGATTAAATCAT
1 TTGACTGAACTTGGCAATGAGACCAAGCTGCCTACATACCTTC-TAATATGAAGGATCAAGTCAT
* * ** * * *
2545216 AACGTAATTCTTGTTCTTTTTTCTTTTTTACATCCTAA-TGTTTGCCTAAGTCATAATTTTAAGG
65 AAC--AGTTCTTGTGC---TTT-TTTTTTACATTATAACT-TTTGCCTAAGTCGTCATTTTAAAG
* * * * * *** * * * * * *
2545280 ATT-TTAATCTCAATAATATTTCTTTTTTTGC-AAGACCTAATTTTTGCCTAAGCTATCCTATTA
123 ATTCTCAA-CTTAACAGTCTTTCTTTTTGCACGAAGACCAAATATTTACCTAAGCCATCCCATTC
* * *** ** * * *
2545343 AGGATTTTTCACTTAACGAACTCATTTTTATTGGTAATTTAAGCTTTTTACTG-AG-GAATTGAT
187 AGAATTTCTGGTTTAACGGGCTCATTTTTATTTGTAGTTTAAGC-TTTTACTGAAGAGAATTAAT
* * *
2545406 ATTCAAGCATTGTAACGCTTCAAGAATTTGCCATTGATTAGGTCAATTGTGAGGAGTAGACTCAA
251 ATT-AAGCATTGTAACGCTTCAAGAATTTGCCATTGATT-GGGCAATTATGAAGAGTAGACTCAA
* * * * * *
2545471 GCAATAAGTCTTCTTTACCTCACTTGCATTTTATAGTGTGAACTTCATTAATTATCGACT-TCAA
314 GCAATAAGTATTCTTTACTTCACTTGCAATTAATAGTTTGAACTTCTTTAATTATCGA-TGTCAA
* * ** ** * * * * *
2545535 CATGGCAATTTCAAGTTAACAAAGATTTGGATTATCTTTAATCAAACAAACTTTTTATTTTTTGG
378 CTTGGCAATTTAAAAATGGCAAAGATTTGAATTATCTTTAAGCAAACAAACTATTTATTCTTCGG
2545600 A
443 A
* ** *
2545601 TTGACTGATCTTGGCAATGAGACCAAGCTGCCTATGTCCCTTCTAATATGAAGGATCAAGTCATA
1 TTGACTGAACTTGGCAATGAGACCAAGCTGCCTACATACCTTCTAATATGAAGGATCAAGTCATA
** * *
2545666 ACGTAGTTCTTGTTTTTTTTTTTTTCATTATAACTTTTGCCTAAGTCGTCATTTTAAAGATTTTC
66 AC--AGTTCTTGTGCTTTTTTTTTACATTATAACTTTTGCCTAAGTCGTCATTTTAAAGATTCTC
* * * * * *
2545731 AACTTAACAGTCTTTCTTTTTGCATGAAGACCAAATTTTTGCCTATGCCATCCTATTCAGGATTT
129 AACTTAACAGTCTTTCTTTTTGCACGAAGACCAAATATTTACCTAAGCCATCCCATTCAGAATTT
* * * * * * *
2545796 CTGGTTTAGCGGGCTCATTTTTAGTTGCAGTTTATGCTTTTATTGAGGAGGAACTAATATTCACA
194 CTGGTTTAACGGGCTCATTTTTATTTGTAGTTTAAGCTTTTACTGAAGA-GAATTAATATT-A-A
* * *
2545861 -CAATGTAACGCTTCAAGAATTTGCCCTTGATTGGGACAATTATGAAGAGTAGACTCAAGCATTA
256 GCATTGTAACGCTTCAAGAATTTGCCATTGATTGGG-CAATTATGAAGAGTAGACTCAAGCAATA
* * *
2545925 GGTTTTCTTTACTTCACTTGCAACTAATAGTTTGAACTTCTTTAATTATCGATGTCAACTTGGCA
320 AGTATTCTTTACTTCACTTGCAATTAATAGTTTGAACTTCTTTAATTATCGATGTCAACTTGGCA
* * ** *
2545990 GTTTAAAAATGGCAAAG-TTTGAATTATCTTTAGGGGAAGAAAC-ATTT-TTCTTCGGA
385 ATTTAAAAATGGCAAAGATTTGAATTATCTTTAAGCAAACAAACTATTTATTCTTCGGA
* * *
2546046 TTGATTGAACTTGGCAATGAGACCAAGCTGTCTACATACCTTCTAATATGAAGGATCAAGTCGTA
1 TTGACTGAACTTGGCAATGAGACCAAGCTGCCTACATACCTTCTAATATGAAGGATCAAGTCATA
* *
2546111 AC-GTTCTTGTGCTTTTTTTTTAGATTATAACTTTTGCTTAAGTCGTCATTTTAAAGATTCTCAA
66 ACAGTTCTTGTGCTTTTTTTTTACATTATAACTTTTGCCTAAGTCGTCATTTTAAAGATTCTCAA
* * ** * *
2546175 TTTAATAGTCTTTCTTTTTTTACG-GGACCTAATATTTACCTAAGCCATCCCATT-ATGAATTT-
131 CTTAACAGTCTTTCTTTTTGCACGAAGACCAAATATTTACCTAAGCCATCCCATTCA-GAATTTC
* * ** *
2546237 TATGTTTAACGGGGTTGTTTTTTATTTGTAGTTTAAGCTTTTACCGAAGACGAATTAATATTAAT
195 T-GGTTTAAC-GGGCTCATTTTTATTTGTAGTTTAAGCTTTTACTGAAGA-GAATTAATATTAA-
* *
2546302 GCATTGTAATGCTTCAAGAATTTGCCATTGATTGGGC--TGAGTGTAAGGAGTAGACTCAAGCAA
256 GCATTGTAACGCTTCAAGAATTTGCCATTGATTGGGCAATTA-TG-AA-GAGTAGACTCAAGCAA
* * * * *
2546365 TAAGTATTCTTTTCTTCACTTGCTATTGATAGTTTGAACTT-TTTCAGTTATCGAAGTCAACTTG
318 TAAGTATTCTTTACTTCACTTGCAATTAATAGTTTGAACTTCTTT-AATTATCGATGTCAACTTG
* *
2546429 GCAATTTAAAAATGGCAAAGATTTGAAGTATCTTTAATCAAA
382 GCAATTTAAAAATGGCAAAGATTTGAATTATCTTTAAGCAAA
2546471 AACACTTTTT
Statistics
Matches: 716, Mismatches: 134, Indels: 46
0.80 0.15 0.05
Matches are distributed among these distances:
439 2 0.00
440 5 0.01
441 42 0.06
442 233 0.33
443 16 0.02
445 125 0.17
446 71 0.10
447 23 0.03
448 131 0.18
449 66 0.09
450 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (443 bp):
TTGACTGAACTTGGCAATGAGACCAAGCTGCCTACATACCTTCTAATATGAAGGATCAAGTCATA
ACAGTTCTTGTGCTTTTTTTTTACATTATAACTTTTGCCTAAGTCGTCATTTTAAAGATTCTCAA
CTTAACAGTCTTTCTTTTTGCACGAAGACCAAATATTTACCTAAGCCATCCCATTCAGAATTTCT
GGTTTAACGGGCTCATTTTTATTTGTAGTTTAAGCTTTTACTGAAGAGAATTAATATTAAGCATT
GTAACGCTTCAAGAATTTGCCATTGATTGGGCAATTATGAAGAGTAGACTCAAGCAATAAGTATT
CTTTACTTCACTTGCAATTAATAGTTTGAACTTCTTTAATTATCGATGTCAACTTGGCAATTTAA
AAATGGCAAAGATTTGAATTATCTTTAAGCAAACAAACTATTTATTCTTCGGA
Found at i:2561079 original size:12 final size:13
Alignment explanation
Indices: 2561062--2561091 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
2561052 ATTACCAACC
2561062 ATTTTCATCG-TA
1 ATTTTCATCGATA
2561074 ATTTTCATCGATA
1 ATTTTCATCGATA
2561087 ATTTT
1 ATTTT
2561092 TACTTTTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (13 bp):
ATTTTCATCGATA
Found at i:2576471 original size:446 final size:445
Alignment explanation
Indices: 2575427--2576537 Score: 1491
Period size: 445 Copynumber: 2.5 Consensus size: 445
2575417 GGTGTCATTT
* ** * * *
2575427 CCAAGTTCAATCAATTC-AAAACGCAAAAAATCTTTTTGATTAAAGATAATTCAAATCTTTGCCA
1 CCAAGTTCAGTCAACCCAAAAAC-CAAAAAGTCTCTTTAATTAAAGATAATTCAAATCTTTGCCA
** * * * *
2575491 TTTTGAAATTGTAAAGTTGACGTCGATAATTGAAGAAGTTCAAACTATCAATTGTTAGTGAATTA
65 TTTTGAAATTGCCAAGTTGACGTCAATAATTGAAGAAGTTCATACTATCAATTGCTAGTGAACTA
* * * **
2575556 AAATAGACAAATTGCTTGAGTCTACTCCTCACAGTCGGCCTAATCAATTGCAAATTCTTGAAGTG
130 AAAAAGACTAATTGCTTGAGTCTACTCCTCACAGTCGGCCCAATCAATTGCAAATTCTTGAAACG
* * *
2575621 TTACAATGCATGAATATTAGTTCCTCGATAAAAGCTTAAACTGCTAATAAAAATAAACTCGTTAA
195 TTACAATGCATGAATATTAGTTCCTCGATAAAAGCTTAAACTGCCAATAAAAATAAACCCATTAA
** * * * *
2575686 ATGAAAAATCCCTAATCGGATGGCTTAGGCAAAAATTAGGTCTTGCAAAAAAAGAAAGAATATTA
260 ACCAAAAATCCCTAATAGGATGGCTTAGGCAAAAATTAGATCCTACAAAAAAAGAAAGAATATTA
* * * * * *
2575751 AGTTGAGAATCCTTAGAATGACGATTTAGGAAAAGTTAAAATCCAAAAAAAAAAAATACAAGTAT
325 AGTTGAGAATCCTTAAAATGACAACTTAGGAAAAGTTAAAATCCAAAAAAAAAAAACACAAGAAC
* * *
2575816 TACGTTACAACTTGATCCTTCATTTTAGAAGGTACCTAGGTAGCTTAGTCTCTTTG
390 TACGTTACAACTTGATCCTTCATATTAGAAGGTACCTAGGCAGCTTAGTCTCGTTG
** *
2575872 CCAAGTTCAGTCAACCCAAAAAAGAAAAAGT-TCCTTTAATTAAAGATAATTCAAATTTTTGCCA
1 CCAAGTTCAGTCAACCCAAAAACCAAAAAGTCT-CTTTAATTAAAGATAATTCAAATCTTTGCCA
* * * *
2575936 TTTTGAAATTGCCAAGTT-AGCGTCAATAATTGAAGAAGTTCATCCTTTCAGTTGCTAGTGAAGT
65 TTTTGAAATTGCCAAGTTGA-CGTCAATAATTGAAGAAGTTCATACTATCAATTGCTAGTGAACT
* * * *
2576000 GAAAAAGACTAATTGCTTCAGTCTACTCGTCATAGTCGGCCCAATCAATTGCAAATTCTTGAAAC
129 AAAAAAGACTAATTGCTTGAGTCTACTCCTCACAGTCGGCCCAATCAATTGCAAATTCTTGAAAC
* * *
2576065 GTTACAATGCATGAATATTAGTTCGTCGGTAAAAGCTTAAACTGCCAATAAAAATGAACCCATTA
194 GTTACAATGCATGAATATTAGTTCCTCGATAAAAGCTTAAACTGCCAATAAAAATAAACCCATTA
*
2576130 AACCAAAAATCCCTAATAGGATGGCTTAGGCAAAAATTAGATCCTACAGAAAAAGAAAGAATATT
259 AACCAAAAATCCCTAATAGGATGGCTTAGGCAAAAATTAGATCCTACAAAAAAAGAAAGAATATT
* *
2576195 -AGTTGAGAATCCTTAAAATGACAACTTAGGCAAAAGTTAGAAT-CTAAAAAAAAAAACACATGA
324 AAGTTGAGAATCCTTAAAATGACAACTTAGG-AAAAGTTAAAATCCAAAAAAAAAAAACACA--A
* * * *
2576258 GAACTATGTTACAACTTGATCCTTCATATTAGAAGGTATGC-AGGCAGTTTGGTCTCGTTG
386 GAACTACGTTACAACTTGATCCTTCATATTAGAAGGTA-CCTAGGCAGCTTAGTCTCGTTG
* * *
2576318 CCAAGTTTAGTCAACCCAAAAACCAAAAAGTCTCTTTAATTAAGGATAATTCAAATCTTTGCCTT
1 CCAAGTTCAGTCAACCCAAAAACCAAAAAGTCTCTTTAATTAAAGATAATTCAAATCTTTGCCAT
* *
2576383 TTTGAAATTGCCAAGTTGAC-ACTAATAATTGAAGAAATTCATACTATCAATTGCTAGTGAACTA
66 TTTGAAATTGCCAAGTTGACGTC-AATAATTGAAGAAGTTCATACTATCAATTGCTAGTGAACTA
* * * *
2576447 AAAAAGATTAATTGCTTGAGTCTACTCCTCACAGTCGGTCCAATCAATTGTAAATTCTTGAAGTC
130 AAAAAGACTAATTGCTTGAGTCTACTCCTCACAGTCGGCCCAATCAATTGCAAATTCTTGAA-AC
*
2576512 -TTACAATACATGAATATTAGTTCCTC
194 GTTACAATGCATGAATATTAGTTCCTC
2576538 CTTTTGTAAC
Statistics
Matches: 578, Mismatches: 77, Indels: 21
0.86 0.11 0.03
Matches are distributed among these distances:
444 44 0.08
445 286 0.49
446 244 0.42
447 4 0.01
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (445 bp):
CCAAGTTCAGTCAACCCAAAAACCAAAAAGTCTCTTTAATTAAAGATAATTCAAATCTTTGCCAT
TTTGAAATTGCCAAGTTGACGTCAATAATTGAAGAAGTTCATACTATCAATTGCTAGTGAACTAA
AAAAGACTAATTGCTTGAGTCTACTCCTCACAGTCGGCCCAATCAATTGCAAATTCTTGAAACGT
TACAATGCATGAATATTAGTTCCTCGATAAAAGCTTAAACTGCCAATAAAAATAAACCCATTAAA
CCAAAAATCCCTAATAGGATGGCTTAGGCAAAAATTAGATCCTACAAAAAAAGAAAGAATATTAA
GTTGAGAATCCTTAAAATGACAACTTAGGAAAAGTTAAAATCCAAAAAAAAAAAACACAAGAACT
ACGTTACAACTTGATCCTTCATATTAGAAGGTACCTAGGCAGCTTAGTCTCGTTG
Found at i:2598431 original size:12 final size:12
Alignment explanation
Indices: 2598411--2598453 Score: 68
Period size: 12 Copynumber: 3.5 Consensus size: 12
2598401 AGAAGCTGAG
*
2598411 GAAATTGGTTTT
1 GAAAATGGTTTT
2598423 GAAAATGGTTTT
1 GAAAATGGTTTT
2598435 GAAAATGGTTTT
1 GAAAATGGTTTT
2598447 GATAAAT
1 GA-AAAT
2598454 AGAGAGCGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 25 0.86
13 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (12 bp):
GAAAATGGTTTT
Found at i:2602112 original size:32 final size:33
Alignment explanation
Indices: 2602063--2602126 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2602053 AGCCAAATCA
*
2602063 AAAACATAGCTTATGAATCATTTAGGTGATATC
1 AAAACATAGCTTATGAATCATTTAAGTGATATC
* *
2602096 AAAA-ATAGTTTATGAATTATTTAAGTGATAT
1 AAAACATAGCTTATGAATCATTTAAGTGATAT
2602127 AAATTATTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 24 0.86
33 4 0.14
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (33 bp):
AAAACATAGCTTATGAATCATTTAAGTGATATC
Found at i:2615322 original size:445 final size:447
Alignment explanation
Indices: 2613719--2615323 Score: 1324
Period size: 445 Copynumber: 3.6 Consensus size: 447
2613709 ATGTAGGTAG
* * * ** * *
2613719 CTTGGTCTCATTGCCAAGTTCAATCAATCCAAAATGCAAAAAGTCTCTTTTATTCAAGATAATTC
1 CTTGCTCTCATTGCCAAGTTCAGTCAACCCAAAAAACAAAAAGTCTCTTTGATTAAAGATAATTC
* * * ** * * * * *
2613784 AAATATTTGCCATTTTTAAATTGCCAAGTTGGCT-TCAATAATTGAAGAAGTTCAAACTATCAAT
66 AAATCTTAGCCATTTTGAAATTGCCAAGTT-AATGTCGACAATTGAAAAAGTTCACACTACCAAT
* * * ** * * * * *
2613848 TGCAAGTGAAG-AAAAGAAGACTTATTGCTAGAGTCTACTCCTCACACTCGACCCTATCAA-TGG
130 TGCAAGTGAAGTGAAA-AAGACTAATTGATTCAGTCTA-TACTCACAATTGACCCAATCAATTAG
* ** * ** * *
2613911 CAAATTCTTGAAGCATTCCAATGCATGAATATTAGTTCCTCCTCGGTAAGAGCTTAAACTACCAA
193 C-AATTCTTAAAGCATTGAAATGCATGAATATTAATTCCTCCTCAATAAAAGCTTAAACTACAAA
* * ** * * *
2613976 TAAAAAAGAACCCGTTAAACCAAAAATCCTTAATAGGACAGCTTAAGCAAAAATTAGGTCCTGTG
257 TAAAAAACAGCCCGTTAAACCAAAAATCCTTAATAGGATGGCTTAGGCAAAAATTAAGTCCTG-C
* * * * * * * **
2614041 AAAAAA-GAAATACTATTAAGTTGAGAATCCATAAAATGACGACTTAGGCAAAAGTTAGAAT-GG
321 AAAAAAGGAAAGACTATTAAGTTGAAAATCCTTAAAAAGACAACCTAGGCAAAAGTTAAAATCTA
* ** *** ** ** ** * * *
2614104 A-AAAACAAATGCAAGAACTACATTATGACTTGATAATTTTTATTAGAAGGTACGTAGGCAG
386 ACAAAAAAAACACAAGAACTATGCTACAACTTGATCCTTCATATTAGAAGATACGCAGGCAA
* ** * * * *
2614165 CTTGGTCTCAAAGCCAAGTTCAGTAAACCTAAAAAA-AAGAAGTCTCTTTGATTATAGATAATTC
1 CTTGCTCTCATTGCCAAGTTCAGTCAACCCAAAAAACAAAAAGTCTCTTTGATTAAAGATAATTC
* * * * * * * * * * *
2614229 AAATCTTTGCCATTTTCAAACTACAAAGTTGACAT-T-GATAATTGAAGAGGTTCATACTATCGA
66 AAATCTTAGCCATTTTGAAATTGCCAAGTT-A-ATGTCGACAATTGAAAAAGTTCACACTACCAA
** * * * *
2614292 TTGCTGGTGAAGTGAACAAGACTAATTGCTTGAGTCTACTCCTCAC--TGTGAGCCCAATCAATT
129 TTGCAAGTGAAGTGAAAAAGACTAATTGATTCAGTCTA-TACTCACAAT-TGA-CCCAATCAATT
* * * * **
2614355 -GCCAATTCTTGAAGCGTT-ACAATGCATGAATATTAGTTCTTCCTCGGTAAAAGC-T----T--
191 AG-CAATTCTTAAAGCATTGA-AATGCATGAATATTAATTCCTCCTCAATAAAAGCTTAAACTAC
* *
2614411 AAAT-------AG-CCATTAAA--AAAAATCCTTAATAGGATGGCTTAGGCAAAAATTAGGTCCT
254 AAATAAAAAACAGCCCGTTAAACCAAAAATCCTTAATAGGATGGCTTAGGCAAAAATTAAGTCCT
* * * * *
2614466 GCAAAAATGGAAAGACTATTAAGTTGAGAATCCTTAAAATGACAACTTAGGCAAAAGTTAGAATC
319 GCAAAAAAGGAAAGACTATTAAGTTGAAAATCCTTAAAAAGACAACCTAGGCAAAAGTTAAAATC
* * *
2614531 TAACAAAAAAAACACAAGAACTATGTTATAACTTGGTCCTTCATATTAGAAGATACGCAGGCAA
384 TAACAAAAAAAACACAAGAACTATGCTACAACTTGATCCTTCATATTAGAAGATACGCAGGCAA
* * * ** *
2614595 CTTGGTCTCATTGCCAAGTTTAGTTAACCCAAAAAACAAAAAGTCTCTTTTCTTAAAGATTATTC
1 CTTGCTCTCATTGCCAAGTTCAGTCAACCCAAAAAACAAAAAGTCTCTTTGATTAAAGATAATTC
* * * * *
2614660 ACATCTTTGCCATTTTGAAATTGCCATGTTAATGTCGATAATTGAAAAAGTTCATACTACCAATT
66 AAATCTTAGCCATTTTGAAATTGCCAAGTTAATGTCGACAATTGAAAAAGTTCACACTACCAATT
* * * *
2614725 GCTAGTGAAGTGAAAAAGACTAATTGATTCAGTCTATAACTCACAGTTGGCCCAATCAATTAGCT
131 GCAAGTGAAGTGAAAAAGACTAATTGATTCAGTCTAT-ACTCACAATTGACCCAATCAATTAGCA
* * * * *
2614790 ATTCTTAAAGCATTGCAATGCATGAATATTAGTTCTTCCTCAGTAAAAGCTTAAACTACCAATAA
195 ATTCTTAAAGCATTGAAATGCATGAATATTAATTCCTCCTCAATAAAAGCTTAAACTACAAATAA
*
2614855 AAAACAGCCCGTTCAACCAAAAATCCTTAATAGGATGGCTTAGGC-AAAATTAAGTCCTGCAAAA
260 AAAACAGCCCGTTAAACCAAAAATCCTTAATAGGATGGCTTAGGCAAAAATTAAGTCCTGCAAAA
* * * * * *
2614919 AAGGAATGACTATTAAGTTGAAAATCCTTAAAAAGGCGACCTAGGTAATAGTTAAAATGTAA-AA
325 AAGGAAAGACTATTAAGTTGAAAATCCTTAAAAAGACAACCTAGGCAAAAGTTAAAATCTAACAA
* * * * *
2614983 ACAAAA-ACAAGAACTATGCTACGACTTGATCCTTCATATTAGAAGGTACGTAGGCAT
390 AAAAAACACAAGAACTATGCTACAACTTGATCCTTCATATTAGAAGATACGCAGGCAA
* *
2615040 TTTGCTCTCATTGCCAAGTTCAGTCAACCCAAAAAGCAAAAAGTCTCTTTGATTAAAGATAATTC
1 CTTGCTCTCATTGCCAAGTTCAGTCAACCCAAAAAACAAAAAGTCTCTTTGATTAAAGATAATTC
** * *
2615105 AAATCTTAG-CATTTTGAAATTGCCAAGTTGGTGTCGACAATTGAAGAAGTTCACACTATCAATT
66 AAATCTTAGCCATTTTGAAATTGCCAAGTTAATGTCGACAATTGAAAAAGTTCACACTACCAATT
* * ** * *
2615169 GCAAGTGAAGT-AAAGAAGACTTATTGCTTGTGTCTACT-CGTTACAATTGACCCAATCAA-TGG
131 GCAAGTGAAGTGAAA-AAGACTAATTGATTCAGTCTA-TAC-TCACAATTGACCCAATCAATTAG
* * * * * * ** *
2615231 CAAATTCTTGATGCATT-AAAGTTCTTGGATATTAATTCCTCCTTAATAGGAGCTTAAACTGCAA
193 C-AATTCTTAAAGCATTGAAA-TGCATGAATATTAATTCCTCCTCAATAAAAGCTTAAACTACAA
* *
2615295 ATAAAAAAGAGTCCGTTAAAGCCAAAAAT
256 ATAAAAAACAGCCCGTTAAA-CCAAAAAT
2615324 TCTTTAAAAG
Statistics
Matches: 958, Mismatches: 160, Indels: 83
0.80 0.13 0.07
Matches are distributed among these distances:
427 5 0.01
428 91 0.09
429 3 0.00
430 87 0.09
431 167 0.17
432 4 0.00
433 1 0.00
436 1 0.00
438 6 0.01
440 1 0.00
443 10 0.01
444 155 0.16
445 284 0.30
446 47 0.05
447 69 0.07
448 27 0.03
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (447 bp):
CTTGCTCTCATTGCCAAGTTCAGTCAACCCAAAAAACAAAAAGTCTCTTTGATTAAAGATAATTC
AAATCTTAGCCATTTTGAAATTGCCAAGTTAATGTCGACAATTGAAAAAGTTCACACTACCAATT
GCAAGTGAAGTGAAAAAGACTAATTGATTCAGTCTATACTCACAATTGACCCAATCAATTAGCAA
TTCTTAAAGCATTGAAATGCATGAATATTAATTCCTCCTCAATAAAAGCTTAAACTACAAATAAA
AAACAGCCCGTTAAACCAAAAATCCTTAATAGGATGGCTTAGGCAAAAATTAAGTCCTGCAAAAA
AGGAAAGACTATTAAGTTGAAAATCCTTAAAAAGACAACCTAGGCAAAAGTTAAAATCTAACAAA
AAAAACACAAGAACTATGCTACAACTTGATCCTTCATATTAGAAGATACGCAGGCAA
Found at i:2616916 original size:443 final size:443
Alignment explanation
Indices: 2616051--2617012 Score: 1085
Period size: 443 Copynumber: 2.2 Consensus size: 443
2616041 TACATTATTT
* * * * * *
2616051 CTTAATCCTTCTTATTATG-AGGTACGTAAGCAACTTGGTCTCATTGCCAAGTTCAATCAATCCA
1 CTTAATCCTTCATATTA-GAAGGTACGTAGGCAGCTTGGTCTCATTGCCAAGTTTAGTCAACCCA
* * * * * *
2616115 AAGAAAAATGTTTCTTCCCTTAAAGATAATTCAAACTTTGCCATTTTTAAACTGCCAGGTTGACA
65 AAAAAAAAAGTCTCTTCCATTAAAGATAATTCAAACTTTGCCATTTTGAAACTGCCAAGTTGACA
* * * *
2616180 TCGATAATTGAAGAAGTTCAAACTATTAATTGCAAGTGAAGTTAAGAAAACCTAATGCTTGAGTC
130 TCGACAATTGAAGAAGTTCAAACTATCAATTGCAAGTGAAGTAAAGAAAACCGAATGCTTGAGTC
** * * * * * * *
2616245 TACTTTTCATAATCGTCCCACTCAAGGGCAAATTCTTGAAGCGTTACAATATGTGAGTATTAGTT
195 TACTCCTCACAATCGACCCAATCAAAGGCAAATTCTTGAAGCGTTACAATATGTGAATATCAATT
*
2616310 CCTCCTCAATAAAAGCATAAACTGCCAATAAAAAAAAGCCCATTAAACCAAAAATCCTTAATAAA
260 CCTCCTCAATAAAAGCATAAACTACCAATAAAAAAAAGCCCATTAAACCAAAAATCCTTAATAAA
* * *
2616375 ATGGCATAGGCAAAATTAGGTCTTAGTAAAAAAAGAAAGACTCTTCAGTTGAAAATCTTTAAAAT
325 ATCGCATAGGCAAAATTAGGTCTTAGCAAAAAAAGAAAGACTATTCAGTTGAAAATCTTTAAAAT
* * *
2616440 GATGGCTTAGGCAAATATTATAATGTAAAAAAAA-AA-AAGAACTACGTTATGA
390 GATGACTTAGGCAAATATTAGAATGTAAAAAAAAGAACAAGAACTACGTTACGA
* * *
2616492 CTTGATCCTTCATATTAGAAGGTATGTAGGCAGTTTGGTCTCATTGCCAAGTTTAGTCAACCCAC
1 CTTAATCCTTCATATTAGAAGGTACGTAGGCAGCTTGGTCTCATTGCCAAGTTTAGTCAACCCA-
** * * *
2616557 AAAACAAAAAGTCTCTTTGATTAAAGATAATTCAAATCTTT-TCATTTTGAAATTGCCAAGTTGG
65 AAAA-AAAAAGTCTCTTCCATTAAAGATAATTCAAA-CTTTGCCATTTTGAAACTGCCAAGTTGA
** * * * *
2616621 TGTCGACAATTGGAGAAGTTCACACTATCAATTGCAAGTGAAGTAAAGAAGACCGATTGCTTGAG
128 CATCGACAATTGAAGAAGTTCAAACTATCAATTGCAAGTGAAGTAAAGAAAACCGAATGCTTGAG
* *
2616686 TCTACTCCTCACAATCGACCTAATCAAAGGCAAATTCTTGAAGCGTTACAATGCT-TGAATATCA
193 TCTACTCCTCACAATCGACCCAATCAAAGGCAAATTCTTGAAGCGTTACAAT-ATGTGAATATCA
* * * ** ** * *
2616750 ATTCCTCCTCAGTAAAAAGCTTAAATTACCAATAAAAACGAGTTCGTTAAGCCAAAAATCCTTAA
257 ATTCCTCCTCAAT-AAAAGCATAAACTACCAATAAAAAAAAGCCCATTAAACCAAAAATCCTTAA
** * * * * * * *
2616815 TAGGATCGCTTAGGCAAAAATTAGGTCTT-GCAAACATAGAAATATTATTGAGTTTAAAAT-TCT
321 TAAAATCGCATAGGC-AAAATTAGGTCTTAGCAAAAAAAGAAAGACTATTCAGTTGAAAATCT-T
* *
2616878 TAAAATTATGACTTAGGCAAA-AGTTAGAATGTAAAAAAAAAAAAGAACAAGAACTACTTTACGA
384 TAAAATGATGACTTAGGCAAATA-TTAGAATGT----AAAAAAAAGAACAAGAACTACGTTACGA
* * *** *
2616942 CTTAATCCTTCATATTAGGAGGTACGTTGGCAGCTTGGTCTCATCATCAAGTTTAGTCAACCTAA
1 CTTAATCCTTCATATTAGAAGGTACGTAGGCAGCTTGGTCTCATTGCCAAGTTTAGTCAACCCAA
2617007 AAAAAA
66 AAAAAA
2617013 GATGAAAAAG
Statistics
Matches: 429, Mismatches: 77, Indels: 23
0.81 0.15 0.04
Matches are distributed among these distances:
440 1 0.00
441 53 0.12
442 3 0.01
443 164 0.38
444 109 0.25
445 13 0.03
448 11 0.03
449 6 0.01
450 69 0.16
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (443 bp):
CTTAATCCTTCATATTAGAAGGTACGTAGGCAGCTTGGTCTCATTGCCAAGTTTAGTCAACCCAA
AAAAAAAAGTCTCTTCCATTAAAGATAATTCAAACTTTGCCATTTTGAAACTGCCAAGTTGACAT
CGACAATTGAAGAAGTTCAAACTATCAATTGCAAGTGAAGTAAAGAAAACCGAATGCTTGAGTCT
ACTCCTCACAATCGACCCAATCAAAGGCAAATTCTTGAAGCGTTACAATATGTGAATATCAATTC
CTCCTCAATAAAAGCATAAACTACCAATAAAAAAAAGCCCATTAAACCAAAAATCCTTAATAAAA
TCGCATAGGCAAAATTAGGTCTTAGCAAAAAAAGAAAGACTATTCAGTTGAAAATCTTTAAAATG
ATGACTTAGGCAAATATTAGAATGTAAAAAAAAGAACAAGAACTACGTTACGA
Found at i:2621347 original size:21 final size:21
Alignment explanation
Indices: 2621323--2621363 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2621313 GAGTAATGAA
*
2621323 TACATGGCCAAGAATAATGCG
1 TACATGGCAAAGAATAATGCG
*
2621344 TACATGGCAAAGAATGATGC
1 TACATGGCAAAGAATAATGC
2621364 CATCATTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (21 bp):
TACATGGCAAAGAATAATGCG
Found at i:2625241 original size:27 final size:29
Alignment explanation
Indices: 2625211--2625280 Score: 81
Period size: 33 Copynumber: 2.3 Consensus size: 29
2625201 TCTTATATAT
2625211 ATTTTTAATG-TC-ATATATTTTATTTTC
1 ATTTTTAATGATCTATATATTTTATTTTC
2625238 ATTTTTAATTGTAATCTTATATATTTTATTTTC
1 ATTTTTAA-TG--ATC-TATATATTTTATTTTC
2625271 ATTTCTTAAT
1 ATTT-TTAAT
2625281 ATAATTTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
27 8 0.22
28 2 0.06
31 2 0.06
33 20 0.56
34 4 0.11
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.63
Consensus pattern (29 bp):
ATTTTTAATGATCTATATATTTTATTTTC
Found at i:2625294 original size:33 final size:33
Alignment explanation
Indices: 2625223--2625309 Score: 106
Period size: 33 Copynumber: 2.6 Consensus size: 33
2625213 TTTTAATGTC
*
2625223 ATATATTTTATTTTCATTTTTAATTGTAATCTT
1 ATATATTTTATTTTCATTTTTAATTATAATCTT
*
2625256 ATATATTTTATTTTCATTTCTTAA-TATAATTTT
1 ATATATTTTATTTTCATTT-TTAATTATAATCTT
*
2625289 CTATATTGTATATTTT-ATTTT
1 ATATATT-T-TATTTTCATTTT
2625310 ATTTTTTCCT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
33 33 0.69
34 9 0.19
35 6 0.12
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (33 bp):
ATATATTTTATTTTCATTTTTAATTATAATCTT
Found at i:2627112 original size:16 final size:16
Alignment explanation
Indices: 2627070--2627136 Score: 59
Period size: 15 Copynumber: 4.3 Consensus size: 16
2627060 CTAGGAAGCA
*
2627070 AAAGAAGAAA-GAAAG
1 AAAGGAGAAAGGAAAG
2627085 AAAGGAGAAAGGAAA-
1 AAAGGAGAAAGGAAAG
*
2627100 AAAGGAAGTAAGG-AAG
1 AAAGG-AGAAAGGAAAG
* * *
2627116 AGAGGAGAAAGAAAAA
1 AAAGGAGAAAGGAAAG
2627132 AAAGG
1 AAAGG
2627137 TAAGAGAAGG
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
15 21 0.51
16 20 0.49
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (16 bp):
AAAGGAGAAAGGAAAG
Done.