Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008511.1 Hibiscus syriacus cultivar Beakdansim tig00111366_pilon, 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: 2221980
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 9 of 9
Found at i:1974390 original size:13 final size:14
Alignment explanation
Indices: 1974372--1974400 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1974362 ATTTTTTTAT
1974372 AAAAAA-AAAAGGG
1 AAAAAAGAAAAGGG
1974385 AAAAAAGAAAAGGG
1 AAAAAAGAAAAGGG
1974399 AA
1 AA
1974401 GTATCCATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAGGG
Found at i:1974962 original size:23 final size:23
Alignment explanation
Indices: 1974929--1974979 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
1974919 TGTATAACAT
1974929 GTTTTCATCTGCCTTTATGACAC
1 GTTTTCATCTGCCTTTATGACAC
* * *
1974952 GTTTTCTTCTGTCTTTTTGACAC
1 GTTTTCATCTGCCTTTATGACAC
1974975 GTTTT
1 GTTTT
1974980 TCAGTGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.12, C:0.22, G:0.14, T:0.53
Consensus pattern (23 bp):
GTTTTCATCTGCCTTTATGACAC
Found at i:1982415 original size:2 final size:2
Alignment explanation
Indices: 1982408--1982447 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1982398 ATTTCCCATA
1982408 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1982448 GATCTTGTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1991213 original size:26 final size:26
Alignment explanation
Indices: 1991184--1991251 Score: 127
Period size: 26 Copynumber: 2.6 Consensus size: 26
1991174 CAACCCCTTT
*
1991184 TCTTTTTTTCTTTCTTATTCCTTCAC
1 TCTTTCTTTCTTTCTTATTCCTTCAC
1991210 TCTTTCTTTCTTTCTTATTCCTTCAC
1 TCTTTCTTTCTTTCTTATTCCTTCAC
1991236 TCTTTCTTTCTTTCTT
1 TCTTTCTTTCTTTCTT
1991252 TCACTCTTCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.06, C:0.28, G:0.00, T:0.66
Consensus pattern (26 bp):
TCTTTCTTTCTTTCTTATTCCTTCAC
Found at i:1991215 original size:22 final size:22
Alignment explanation
Indices: 1991190--1991259 Score: 81
Period size: 26 Copynumber: 3.1 Consensus size: 22
1991180 CTTTTCTTTT
1991190 TTTCTTTCTTATTCCTTCACTCTTTC
1 TTTCTTTCTTATTCCTTCA--C--TC
1991216 TTTCTTTCTTATTCCTTCACTC
1 TTTCTTTCTTATTCCTTCACTC
*
1991238 TTTCTTTC-T-TTCTTTCACTC
1 TTTCTTTCTTATTCCTTCACTC
1991258 TT
1 TT
1991260 CTTCCTCAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
20 12 0.28
21 1 0.02
22 10 0.23
24 1 0.02
26 19 0.44
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTCTTTCTTATTCCTTCACTC
Found at i:1992280 original size:9 final size:8
Alignment explanation
Indices: 1992258--1992284 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
1992248 AATTTATTTT
1992258 TTAAAAAA
1 TTAAAAAA
1992266 TTAAAAAA
1 TTAAAAAA
1992274 TTAAAAAA
1 TTAAAAAA
1992282 TTA
1 TTA
1992285 TATTTTCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
TTAAAAAA
Found at i:1992765 original size:21 final size:21
Alignment explanation
Indices: 1992739--1992778 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1992729 AAACTTTAAC
*
1992739 TATTATATATATATATATATG
1 TATTATACATATATATATATG
*
1992760 TATTATACGTATATATATA
1 TATTATACATATATATATA
1992779 ATAATACAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (21 bp):
TATTATACATATATATATATG
Found at i:1995464 original size:30 final size:30
Alignment explanation
Indices: 1995428--1995502 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
1995418 CTTTTAAAAC
*
1995428 TTGCAATA-CAGTCCCCAACATTTAGTCTGT
1 TTGCAATATCA-TCCCCAACATTTAGTCCGT
1995458 TTGCAATATCATCCCCAACATTTAGTCCGT
1 TTGCAATATCATCCCCAACATTTAGTCCGT
* *
1995488 TTGTAATATGATCCC
1 TTGCAATATCATCCC
1995503 GGACGTAACT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 39 0.95
31 2 0.05
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (30 bp):
TTGCAATATCATCCCCAACATTTAGTCCGT
Found at i:2005012 original size:2 final size:2
Alignment explanation
Indices: 2005005--2005069 Score: 105
Period size: 2 Copynumber: 33.0 Consensus size: 2
2004995 TAATATTTTA
* *
2005005 AT AT AT AT -T AT AT GT AT AT AA AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2005046 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
2005070 TCTTTTTAAC
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2011069 original size:2 final size:2
Alignment explanation
Indices: 2011062--2011090 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2011052 TATCATTAAA
2011062 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2011091 CCTTAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2024801 original size:24 final size:24
Alignment explanation
Indices: 2024714--2024813 Score: 64
Period size: 25 Copynumber: 4.2 Consensus size: 24
2024704 AAAAAATGCT
* *
2024714 TTAAAATCATTTTGATG-TTTTAA
1 TTAAAATTATTTTAATGTTTTTAA
* * ***
2024737 -AAAAAATATTTTAAACATTTTAA
1 TTAAAATTATTTTAATGTTTTTAA
2024760 -TAAAA-TATTTTACGAATGTTTTTAA
1 TTAAAATTATTTT---AATGTTTTTAA
*
2024785 TTAAAATTATTTTAATGATTTTAAA
1 TTAAAATTATTTTAATG-TTTTTAA
2024810 TTAA
1 TTAA
2024814 TTATTATAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
22 16 0.27
23 10 0.17
24 4 0.07
25 18 0.31
26 5 0.08
27 6 0.10
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (24 bp):
TTAAAATTATTTTAATGTTTTTAA
Found at i:2025889 original size:4 final size:4
Alignment explanation
Indices: 2025882--2026168 Score: 556
Period size: 4 Copynumber: 71.8 Consensus size: 4
2025872 GCACGCATGC
2025882 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2025930 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2025978 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2026026 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2026074 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
2026122 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGC ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
2026169 CAAAACAGGA
Statistics
Matches: 281, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
4 281 1.00
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:2036113 original size:13 final size:13
Alignment explanation
Indices: 2036095--2036144 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
2036085 TCACAACCCG
*
2036095 ACCCGACTCGTTT
1 ACCCGACCCGTTT
2036108 ACCCGACCCCGTTT
1 ACCCGA-CCCGTTT
*
2036122 ACCCGACCCGTTG
1 ACCCGACCCGTTT
2036135 ACCCGACCCG
1 ACCCGACCCG
2036145 ACCCGTTGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
13 22 0.65
14 12 0.35
ACGTcount: A:0.16, C:0.48, G:0.18, T:0.18
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:2036122 original size:14 final size:14
Alignment explanation
Indices: 2036103--2036143 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
2036093 CGACCCGACT
2036103 CGTTTACCCGACCC
1 CGTTTACCCGACCC
2036117 CGTTTACCCGA-CC
1 CGTTTACCCGACCC
*
2036130 CGTTGACCCGACCC
1 CGTTTACCCGACCC
2036144 GACCCGTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.15, C:0.49, G:0.17, T:0.20
Consensus pattern (14 bp):
CGTTTACCCGACCC
Found at i:2036145 original size:18 final size:18
Alignment explanation
Indices: 2036122--2036157 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2036112 GACCCCGTTT
2036122 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
2036140 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
2036158 TTGACCGTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.50, G:0.22, T:0.11
Consensus pattern (18 bp):
ACCCGACCCGTTGACCCG
Found at i:2037481 original size:18 final size:18
Alignment explanation
Indices: 2037455--2037489 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2037445 TCGAAAGGAA
*
2037455 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
2037473 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
2037490 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:2046684 original size:25 final size:26
Alignment explanation
Indices: 2046650--2046698 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
2046640 AGATCCAACA
2046650 AAAAATAAAC-AAAAACAAAAAAATT
1 AAAAATAAACAAAAAACAAAAAAATT
2046675 AAAAATAAACAAAAAACAAAAAAA
1 AAAAATAAACAAAAAACAAAAAAA
2046699 AATCAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (26 bp):
AAAAATAAACAAAAAACAAAAAAATT
Found at i:2046698 original size:19 final size:18
Alignment explanation
Indices: 2046649--2046690 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
2046639 CAGATCCAAC
2046649 AAAAAA-TAAACAAAAACA
1 AAAAAATTAAA-AAAAACA
2046667 AAAAAATTAAAAATAAACA
1 AAAAAATTAAAAA-AAACA
2046686 AAAAA
1 AAAAA
2046691 CAAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (18 bp):
AAAAAATTAAAAAAAACA
Found at i:2046919 original size:16 final size:16
Alignment explanation
Indices: 2046900--2046932 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2046890 GAAACATTTC
*
2046900 AAAAGCTGAACAATTG
1 AAAAGATGAACAATTG
2046916 AAAAGATGAACAATTG
1 AAAAGATGAACAATTG
2046932 A
1 A
2046933 GTCGAAAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.09, G:0.18, T:0.18
Consensus pattern (16 bp):
AAAAGATGAACAATTG
Found at i:2046985 original size:36 final size:36
Alignment explanation
Indices: 2046929--2047063 Score: 209
Period size: 36 Copynumber: 3.8 Consensus size: 36
2046919 AGATGAACAA
* *
2046929 TTGAGTCGAAAGTGTTGATGCTTCCTTCCGTTCACT
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACT
* *
2046965 TTGAATCGAAAGTGTCGATGCTTCCTTTCGTTC-TT
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACT
2047000 CTTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACT
1 -TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACT
*
2047037 TTGAATCGAAAGTGTTGATGCTTCCTT
1 TTGAATCGAAAGTGTCGATGCTTCCTT
2047064 TCGTACTTCT
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
35 1 0.01
36 88 0.98
37 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (36 bp):
TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACT
Found at i:2047051 original size:72 final size:72
Alignment explanation
Indices: 2046929--2047074 Score: 256
Period size: 72 Copynumber: 2.0 Consensus size: 72
2046919 AGATGAACAA
* *
2046929 TTGAGTCGAAAGTGTTGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGTCGATGCTTCCTTTC
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGTCGATGCTTCCTTTC
*
2046994 GTTCTTC
66 GTACTTC
*
2047001 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGTTGATGCTTCCTTTC
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGTCGATGCTTCCTTTC
2047066 GTACTTC
66 GTACTTC
2047073 TT
1 TT
2047075 ATTCACCTTC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (72 bp):
TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGTCGATGCTTCCTTTC
GTACTTC
Found at i:2049227 original size:4 final size:4
Alignment explanation
Indices: 2049210--2049246 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
2049200 ACATTTATAC
* *
2049210 ATGT ATGC ATGT ATGT ATGT ATGT TTGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
2049247 AGCCATGTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:2049432 original size:65 final size:65
Alignment explanation
Indices: 2049328--2049458 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
2049318 ACCAGCTCTA
2049328 TTCTGTATGGTTTCCTATATGTCTCATTACCATTTTCTTGTTGATTGTCTTCCTCTCCTTTAACC
1 TTCTGTATGGTTTCCTATATGTCTCATTACCATTTTCTTGTTGATTGTCTTCCTCTCCTTTAACC
2049393 TTCTGTATGGTTTCCTATATGTCTCATTACCATTTTCTTGTTGATTGTCTTCCTCTCCTTTAACC
1 TTCTGTATGGTTTCCTATATGTCTCATTACCATTTTCTTGTTGATTGTCTTCCTCTCCTTTAACC
2049458 T
1 T
2049459 GCTCCCAATA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.14, C:0.24, G:0.11, T:0.51
Consensus pattern (65 bp):
TTCTGTATGGTTTCCTATATGTCTCATTACCATTTTCTTGTTGATTGTCTTCCTCTCCTTTAACC
Found at i:2050528 original size:2 final size:2
Alignment explanation
Indices: 2050521--2050549 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2050511 ATAAGATTTG
2050521 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2050550 CTAATCTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2051203 original size:60 final size:60
Alignment explanation
Indices: 2051127--2051251 Score: 175
Period size: 60 Copynumber: 2.1 Consensus size: 60
2051117 ATGACACTAA
* *
2051127 TTCT-AAATAATCCTTAAACTTTTGAACATTCTAATTCCAT-CCATAAACTAT-GATCCTCT
1 TTCTAAAATAATCCTTAAACTTTTGAACATACTAATTCCATCCCA-AAACTATGGCT-CTCT
* *
2051186 TTCTAAAATAGTCCTTAAACTTTTGAACATACTAATTTCATCCCAAAACTATGGCTCTCT
1 TTCTAAAATAATCCTTAAACTTTTGAACATACTAATTCCATCCCAAAACTATGGCTCTCT
2051246 TTCTAA
1 TTCTAA
2051252 TTAGTCCCCA
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
59 4 0.07
60 50 0.85
61 5 0.08
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (60 bp):
TTCTAAAATAATCCTTAAACTTTTGAACATACTAATTCCATCCCAAAACTATGGCTCTCT
Found at i:2051906 original size:74 final size:74
Alignment explanation
Indices: 2051788--2051926 Score: 199
Period size: 74 Copynumber: 1.9 Consensus size: 74
2051778 CAGGTACAAT
* * *
2051788 AATAAATAATAGTATTAATCTCCTCTTTTTTCCCCAATATGCTATTTAATATATTATCTTTTCCC
1 AATAAATAATAATATTAATCTCATCTTTTTTCCCCAATATGCTATTTAATACATTATCTTTTCCC
2051853 CATATATAC
66 CATATATAC
* * * *
2051862 AATAACTAATAATATTAATGTCATCTTCTTTT-CTCAATATGCTATTTATTACATTATCTTTTCC
1 AATAAATAATAATATTAATCTCATCTT-TTTTCCCCAATATGCTATTTAATACATTATCTTTTCC
2051926 C
65 C
2051927 AAATTATACA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
74 53 0.93
75 4 0.07
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.46
Consensus pattern (74 bp):
AATAAATAATAATATTAATCTCATCTTTTTTCCCCAATATGCTATTTAATACATTATCTTTTCCC
CATATATAC
Found at i:2051935 original size:74 final size:74
Alignment explanation
Indices: 2051788--2051946 Score: 196
Period size: 74 Copynumber: 2.1 Consensus size: 74
2051778 CAGGTACAAT
* * *
2051788 AATAAATAATAGTATTAATCTCCTCTTTTTTCCCCAATATGCTATTTAATATATTATCTTTTCCC
1 AATAAATAATAATATTAATCTCATCTTTTTTCCCCAATATGCTATTTAATACATTATCTTTTCCC
*
2051853 CATATATAC
66 AATATATAC
* * * *
2051862 AATAACTAATAATATTAATGTCATCTTCTTTT-CTCAATATGCTATTTATTACATTATCTTTTCC
1 AATAAATAATAATATTAATCTCATCTT-TTTTCCCCAATATGCTATTTAATACATTATCTTTTCC
2051926 CAA-ATTATAC
65 CAATA-TATAC
* *
2051936 AGTAATTAATA
1 AATAAATAATA
2051947 CTTAATATAT
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
73 1 0.01
74 68 0.93
75 4 0.05
ACGTcount: A:0.35, C:0.18, G:0.03, T:0.45
Consensus pattern (74 bp):
AATAAATAATAATATTAATCTCATCTTTTTTCCCCAATATGCTATTTAATACATTATCTTTTCCC
AATATATAC
Found at i:2054296 original size:13 final size:13
Alignment explanation
Indices: 2054278--2054302 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2054268 GGTTATGTAT
2054278 TTTTTATTTTTTA
1 TTTTTATTTTTTA
2054291 TTTTTATTTTTT
1 TTTTTATTTTTT
2054303 TTATTAATTT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:2056328 original size:15 final size:16
Alignment explanation
Indices: 2056308--2056338 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2056298 TGATTAAAAA
2056308 AATTAA-ATTTATTTT
1 AATTAATATTTATTTT
2056323 AATTAATATTTATTTT
1 AATTAATATTTATTTT
2056339 TCACTAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
AATTAATATTTATTTT
Found at i:2057473 original size:35 final size:35
Alignment explanation
Indices: 2057433--2057517 Score: 143
Period size: 35 Copynumber: 2.4 Consensus size: 35
2057423 ATTACAACTC
* * *
2057433 GATCGATCTAATCCTATATAAGGAGTTATCAGTTT
1 GATCGAGCTAAACCTATATAAGGAATTATCAGTTT
2057468 GATCGAGCTAAACCTATATAAGGAATTATCAGTTT
1 GATCGAGCTAAACCTATATAAGGAATTATCAGTTT
2057503 GATCGAGCTAAACCT
1 GATCGAGCTAAACCT
2057518 CCATACTCAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (35 bp):
GATCGAGCTAAACCTATATAAGGAATTATCAGTTT
Found at i:2058179 original size:15 final size:15
Alignment explanation
Indices: 2058155--2058188 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2058145 AATTAGGGGT
*
2058155 ATTTCGAACATTTTA
1 ATTTCAAACATTTTA
2058170 ATTTCAAACATTTTA
1 ATTTCAAACATTTTA
2058185 ATTT
1 ATTT
2058189 TTGATGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (15 bp):
ATTTCAAACATTTTA
Found at i:2058647 original size:26 final size:25
Alignment explanation
Indices: 2058618--2058680 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
2058608 AGGTTACTTC
2058618 AATCATCTTGAAGTTCAAGGTATTTT
1 AATCAT-TTGAAGTTCAAGGTATTTT
** * *
2058644 AATCATTTTGGGGTTTAGGGTATTTT
1 AATCA-TTTGAAGTTCAAGGTATTTT
*
2058670 AGTCATTTGAA
1 AATCATTTGAA
2058681 TATCAGAAGT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
25 4 0.14
26 24 0.83
27 1 0.03
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (25 bp):
AATCATTTGAAGTTCAAGGTATTTT
Found at i:2060934 original size:4 final size:4
Alignment explanation
Indices: 2060925--2063093 Score: 4180
Period size: 4 Copynumber: 547.0 Consensus size: 4
2060915 AAACTGCCCT
*
2060925 TACA TACA TACA TATA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2060973 TACA TACA TACA TACA TACA TACA TAC- -ACA TACA TAC- -ACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2061017 TACA TACA TACA TAC- TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2061064 TACA TACA TACA TACA TACA TACA TACA TACA TACA T-CA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2061111 TACA TACA TACA TACA TAACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA T-ACA TACA TACA TACA TACA TACA TACA TACA
2061160 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2061208 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2061256 TACA TACA TACA TACA TAC- TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2061303 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC- -ACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2061349 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2061397 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2061445 TACA TACA TAC- TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2061492 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2061540 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2061588 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC-
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2061635 -ACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2061682 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2061730 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2061778 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2061826 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC-
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2061873 -ACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2061920 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2061968 TACA TACA TACA TAC- -ACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062014 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062062 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062110 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062158 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062206 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062254 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062302 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062350 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062398 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062446 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062494 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062542 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062590 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062638 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062686 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062734 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062782 TACA TACA TAC- TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062829 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062877 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062925 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2062973 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2063021 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA T--A TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
2063067 TACA TACA TACA TACA TA-A TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA
2063094 CATTACGACA
Statistics
Matches: 2142, Mismatches: 2, Indels: 42
0.98 0.00 0.02
Matches are distributed among these distances:
2 14 0.01
3 18 0.01
4 2106 0.98
5 4 0.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:2064281 original size:20 final size:20
Alignment explanation
Indices: 2064239--2064281 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
2064229 TTTTCAATGG
*
2064239 TTTTTCTGCTCGAAACGTTT
1 TTTTTCTGCTCGAAACGTAT
*
2064259 TTTTTCTGTTC-AAATCGTAT
1 TTTTTCTGCTCGAAA-CGTAT
2064279 TTT
1 TTT
2064282 CTGCTTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.16, C:0.16, G:0.12, T:0.56
Consensus pattern (20 bp):
TTTTTCTGCTCGAAACGTAT
Found at i:2067564 original size:19 final size:20
Alignment explanation
Indices: 2067529--2067566 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2067519 TAATCAAATT
*
2067529 AAAAATTAAAATGAAACCAA
1 AAAAATTAAAATCAAACCAA
2067549 AAAAATTAAAA-CAAACCA
1 AAAAATTAAAATCAAACCA
2067567 GGATTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.71, C:0.13, G:0.03, T:0.13
Consensus pattern (20 bp):
AAAAATTAAAATCAAACCAA
Found at i:2069809 original size:22 final size:22
Alignment explanation
Indices: 2069782--2069826 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2069772 TTGCCAATGG
*
2069782 TTTTTCTGCTCGAAACGTTTTT
1 TTTTTCTGCTCGAAACGTATTT
* *
2069804 TTTTTCTGTTCGAATCGTATTT
1 TTTTTCTGCTCGAAACGTATTT
2069826 T
1 T
2069827 CTGCTTGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.13, C:0.16, G:0.13, T:0.58
Consensus pattern (22 bp):
TTTTTCTGCTCGAAACGTATTT
Found at i:2070320 original size:18 final size:18
Alignment explanation
Indices: 2070299--2070337 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2070289 TAATTAATAA
2070299 TAATAATAATAATATATT
1 TAATAATAATAATATATT
* * *
2070317 TAATATTTATAATATTTT
1 TAATAATAATAATATATT
2070335 TAA
1 TAA
2070338 GCCCGGTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATAATAATAATATATT
Found at i:2070750 original size:36 final size:36
Alignment explanation
Indices: 2070515--2071112 Score: 461
Period size: 36 Copynumber: 15.9 Consensus size: 36
2070505 CGAGATCGAT
*
2070515 TTGCTTCACTACTCTTTGGTGAAGGCTTAAGATGGA
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA
* *
2070551 TTTGCTTCACTACTCTTTGGTGAAGGATTAAGATGGA
1 -TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA
* *
2070588 TTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATTGA
1 -TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA
*
2070625 TTTTGCTTCACTACTCATT-GGTGAAGGCTTAAGATGGC
1 --TTGCTTCACTACTC-TTCGGTGAAGGCTTAAGATGGA
**** * * * * *
2070663 TTGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATTGA
1 TTGCTTCAC-TACTCTTC--GGT--GAAGGCTTA-AGATGGA
2070705 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA
1 -TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA
* * *
2070742 TTGCTTCACTCCTCTTCGGTGAAGGCTTAATATTGCA
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGA-TGGA
* * *
2070779 TGGGGACTT-AAT-CATCATGCTCGG-G-AGGCTTACTGATGGA
1 T--TG-CTTCACTAC-TC-T--TCGGTGAAGGCTTA-AGATGGA
* *
2070819 TTTGCTTCACTACTCTTCTGTGAAGGCTTAAAATGGA
1 -TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA
* * * *
2070856 TTACTTCACTCCTCTTCGGTGAAGGCTTAAGATTGC
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA
* *** * * * *
2070892 TCAG-AGGACTTAATCATCATGCTCGAGAGGCTTACTGATGGA
1 T-TGCTTCAC-TACTCTTC--GGT-GA-AGGCTTA-AGATGGA
*
2070934 TTTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGGA
1 -TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA
* * *
2070971 TTACTTCACTACTCTTCGGTGAAGGCTTAGGATGAA
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA
* * * * *
2071007 TTTCTTTACTACTCTTCGGTGAAGGCTTAGGATTGT
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA
* *
2071043 TTGCTTCACTACTCTTCGGTGAAAGCTTAAGATGGT
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA
*
2071079 TTGCTTCACTACTCTTCGGTGAAGGCTTAGGATG
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATG
2071113 ACCCGGAGGA
Statistics
Matches: 448, Mismatches: 80, Indels: 67
0.75 0.13 0.11
Matches are distributed among these distances:
36 198 0.44
37 100 0.22
38 60 0.13
39 18 0.04
40 20 0.04
41 19 0.04
42 25 0.06
43 8 0.02
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (36 bp):
TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA
Found at i:2070950 original size:115 final size:114
Alignment explanation
Indices: 2070582--2071203 Score: 714
Period size: 115 Copynumber: 5.5 Consensus size: 114
2070572 GAAGGATTAA
*
2070582 GATGGATTTGCTTCACTACTCTT-TGGTGAAGGCTTAAGATTGATTTTGCTTCACTACTCATT-G
1 GATGGATTTGCTTCACTACTCTTCT-GTGAAGGCTTAAGATGGA--TTGCTTCACTACTC-TTCG
* **
2070645 GTGAAGGCTTAAGATGGCTTGGAGGACTTAATCATCATGCTCG-GAAGGCTTACT
62 GTGAAGGCTTAAGATTGC-CAGAGGACTTAATCATCATGCTCGAG-AGGCTTACT
* * *
2070699 GATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTGCTTCACTCCTCTTCGGTGA
1 GATGGATTTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCGGTGA
* * *
2070764 AGGCTTAATATTG-CATGGGGACTTAATCATCATGCTCGGGAGGCTTACT
66 AGGCTTAAGATTGCCA-GAGGACTTAATCATCATGCTCGAGAGGCTTACT
* * *
2070813 GATGGATTTGCTTCACTACTCTTCTGTGAAGGCTTAAAATGGATTACTTCACTCCTCTTCGGTGA
1 GATGGATTTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCGGTGA
2070878 AGGCTTAAGATTGCTCAGAGGACTTAATCATCATGCTCGAGAGGCTTACT
66 AGGCTTAAGATTGC-CAGAGGACTTAATCATCATGCTCGAGAGGCTTACT
*
2070928 GATGGATTTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGGATTACTTCACTACTCTTCGGTGA
1 GATGGATTTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCGGTGA
* *** * * * *
2070993 AGGCTTAGGA-TG--A-ATTTCTTTA-CTACTCTTCGGT-GA-AGGCTTA-G
66 AGGCTTAAGATTGCCAGAGGACTTAATC-A-TCAT-GCTCGAGAGGCTTACT
* * * *
2071037 GATTG-TTTGCTTCACTACTCTTCGGTGAAAGCTTAAGATGGTTTGCTTCACTACTCTTCGGTGA
1 GATGGATTTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCGGTGA
* * * * *
2071101 AGGCTTAGGA-TGACCCGGAGGACTTAATTATCATGCTCAAAAGGCTTACT
66 AGGCTTAAGATTG--CCAGAGGACTTAATCATCATGCTCGAGAGGCTTACT
* * * *
2071151 GATGGATTTGCTTCACTACTCTCCAGTGAAGGCTTCAGATGGTTTGCTTCACT
1 GATGGATTTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGGATTGCTTCACT
2071204 CTCAACATGA
Statistics
Matches: 440, Mismatches: 46, Indels: 40
0.84 0.09 0.08
Matches are distributed among these distances:
108 67 0.15
109 5 0.01
110 13 0.03
111 8 0.02
112 6 0.01
113 13 0.03
114 111 0.25
115 176 0.40
116 2 0.00
117 39 0.09
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (114 bp):
GATGGATTTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCGGTGA
AGGCTTAAGATTGCCAGAGGACTTAATCATCATGCTCGAGAGGCTTACT
Found at i:2071155 original size:223 final size:223
Alignment explanation
Indices: 2070515--2071203 Score: 850
Period size: 223 Copynumber: 3.0 Consensus size: 223
2070505 CGAGATCGAT
* * * * *
2070515 TTGCTTCACTACTCTTTGGTGAAGGCTTAAGATGGATTTGCTTCACTACTCTTTGGTGAAGGATT
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGAATTT-CTTTACTACTCTTCGGTGAAGGCTT
* *
2070580 AAGATGGATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATTGATTTTGCTTCACTACTCATT-
65 AAGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGA-TG-GTTTGCTTCACTACTC-TTC
* * *
2070644 GGTGAAGGCTTAAGATGGCTTGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATTGATTTG
127 GGTGAAGGCTTAAGAT-GCTCGGAGGACTTAATCATCATGCTCGAAAGGCTTACTGATGGATTTG
*
2070709 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGA
191 CTTCACTACTCTTCAGTGAAGGCTTAAGATGGA
* * * ** *
2070742 TTGCTTCACTCCTCTTCGGTGAAGGCTTAATATTGCATGGGGAC-TTAAT-CATCATGCTCGG-G
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGA-TGAAT---TTCTTTACTAC-TC-T--TCGGTG
* * * * * *
2070804 -AGGCTTACTGATGGATTTGCTTCACTACTCTTCTGTGAAGGCTTAAAATGGATTACTTCACTCC
58 AAGGCTTA-AGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTAC
* *
2070868 TCTTCGGTGAAGGCTTAAGATTGCTCAGAGGACTTAATCATCATGCTCGAGAGGCTTACTGATGG
122 TCTTCGGTGAAGGCTTAAGA-TGCTCGGAGGACTTAATCATCATGCTCGAAAGGCTTACTGATGG
*
2070933 ATTTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGGA
186 ATTTGCTTCACTACTCTTCAGTGAAGGCTTAAGATGGA
* *
2070971 TTACTTCACTACTCTTCGGTGAAGGCTTAGGATGAATTTCTTTACTACTCTTCGGTGAAGGCTTA
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGAATTTCTTTACTACTCTTCGGTGAAGGCTTA
* * *
2071036 GGATTG-TTTGCTTCACTACTCTTCGGTGAAAGCTTAAGATGGTTTGCTTCACTACTCTTCGGTG
66 AGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTG
* * * *
2071100 AAGGCTTAGGATGACCCGGAGGACTTAATTATCATGCTCAAAAGGCTTACTGATGGATTTGCTTC
131 AAGGCTTAAGATG-CTCGGAGGACTTAATCATCATGCTCGAAAGGCTTACTGATGGATTTGCTTC
* * *
2071165 ACTACTCTCCAGTGAAGGCTTCAGATGGT
195 ACTACTCTTCAGTGAAGGCTTAAGATGGA
2071194 TTGCTTCACT
1 TTGCTTCACT
2071204 CTCAACATGA
Statistics
Matches: 395, Mismatches: 51, Indels: 36
0.82 0.11 0.07
Matches are distributed among these distances:
222 2 0.01
223 146 0.37
224 5 0.01
225 9 0.02
226 6 0.02
227 30 0.08
228 11 0.03
229 135 0.34
230 11 0.03
231 37 0.09
232 3 0.01
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.35
Consensus pattern (223 bp):
TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGAATTTCTTTACTACTCTTCGGTGAAGGCTTA
AGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTG
AAGGCTTAAGATGCTCGGAGGACTTAATCATCATGCTCGAAAGGCTTACTGATGGATTTGCTTCA
CTACTCTTCAGTGAAGGCTTAAGATGGA
Found at i:2087311 original size:13 final size:14
Alignment explanation
Indices: 2087288--2087317 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2087278 TTCCCATTAC
2087288 AGACGTGCATATGA
1 AGACGTGCATATGA
2087302 AGAC-TGCATATGA
1 AGACGTGCATATGA
2087315 AGA
1 AGA
2087318 TTGTCCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (14 bp):
AGACGTGCATATGA
Found at i:2087888 original size:21 final size:21
Alignment explanation
Indices: 2087863--2087907 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
2087853 TAATCAAATT
2087863 AAAAATTAAAATGAAACCAAA
1 AAAAATTAAAATGAAACCAAA
2087884 AAAAATTAAAATGAAACCAAA
1 AAAAATTAAAATGAAACCAAA
2087905 AAA
1 AAA
2087908 TTAAAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.73, C:0.09, G:0.04, T:0.13
Consensus pattern (21 bp):
AAAAATTAAAATGAAACCAAA
Found at i:2090163 original size:22 final size:22
Alignment explanation
Indices: 2090136--2090180 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2090126 TTGCCAATGG
*
2090136 TTTTTCTGCTCGAAACGTTTTT
1 TTTTTCTGCTCGAAACGTATTT
* *
2090158 TTTTTCTGTTCGAATCGTATTT
1 TTTTTCTGCTCGAAACGTATTT
2090180 T
1 T
2090181 CTGCTTGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.13, C:0.16, G:0.13, T:0.58
Consensus pattern (22 bp):
TTTTTCTGCTCGAAACGTATTT
Found at i:2091104 original size:36 final size:36
Alignment explanation
Indices: 2090872--2091467 Score: 448
Period size: 36 Copynumber: 15.9 Consensus size: 36
2090862 GATCGATTTA
* *
2090872 CTTCACTACTCTTTGGTGAATGCTTAAGATGGATTTG
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGA-TTG
* *
2090909 CTTCACTACTCTTTGGTGAAGGATTAAGATGGATTTG
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGA-TTG
* *
2090946 CTTCACTACTCTTTGGTGAAGGCTTAAGATTGATTTTG
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGA--TTG
* * *
2090984 CTTCACTACTCTTTGGTGAAGGCTTAAGATGGCTCG
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTG
**** * * * * *
2091020 GAGGACTTAATCATCATGCTCGGAAGGCTTACTGATTGATTTG
1 CTTCAC-TACTCTTC--GGT--GAAGGCTTA-AGATGGA-TTG
2091063 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTG
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTG
* ** *
2091099 CTTCACTCCTCTTCGGTGAAGGCTTAAGATTGCCTGGGG
1 CTTCACTACTCTTCGGTGAAGGCTTAAGA-TGGAT--TG
* *
2091138 ACTT-AAT-CATCATGCTCGG-G-AGGCTTACTGATGGATTTG
1 -CTTCACTAC-TC-T--TCGGTGAAGGCTTA-AGATGGA-TTG
** * *
2091177 CTTCACTACTCTTCTATGAAGGCTTAAAATGGATTA
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTG
* * * *
2091213 CTTCACTCCTCTTCGGTGAAGGCTTAAGATTGCTCG
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTG
**** * *
2091249 GAGGACTTAATCATCATGCTCGG-G-AGGCTTACTGATGGATTTT
1 CTTCAC-T-A-C-TC-T--TCGGTGAAGGCTTA-AGATGGA-TTG
*
2091292 CTTCACTACTCTTCTGTGAAGGCTTAAGATGGATTG
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTG
* * *
2091328 CTTCACTACTCTTCGATGAAGGCTTAGGATGGATTT
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTG
* * * *
2091364 CTTTACTACTCTTCGGTGAAGGCTTAGGATTGTTTG
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTG
*
2091400 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTG
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTG
*
2091436 CTTCACTACTCTTCGGTGAAGGCTTAGGATGG
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATGG
2091468 CCCGGAGGAC
Statistics
Matches: 445, Mismatches: 81, Indels: 67
0.75 0.14 0.11
Matches are distributed among these distances:
36 201 0.45
37 93 0.21
38 64 0.14
39 15 0.03
40 19 0.04
41 22 0.05
42 20 0.04
43 11 0.02
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.35
Consensus pattern (36 bp):
CTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTG
Found at i:2091304 original size:115 final size:115
Alignment explanation
Indices: 2090936--2091557 Score: 782
Period size: 115 Copynumber: 5.5 Consensus size: 115
2090926 GAAGGATTAA
* *
2090936 GATGGATTTGCTTCACTACTCTT-TGGTGAAGGCTTAAGATTGATTTTGCTTCACTACTCTTTGG
1 GATGGATTTGCTTCACTACTCTTCT-GTGAAGGCTTAAGATGGA--TTGCTTCACTACTCTTCGG
*
2091000 TGAAGGCTTAAGATGGCTCGGAGGACTTAATCATCATGCTCGGAAGGCTTACT
63 TGAAGGCTTAAGATGGCTCGGAGGACTTAATCATCATGCTCGGGAGGCTTACT
* * *
2091053 GATTGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTGCTTCACTCCTCTTCGGTGA
1 GATGGATTTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCGGTGA
*
2091118 AGGCTTAAGATTGC-CTGG-GGACTTAATCATCATGCTCGGGAGGCTTACT
66 AGGCTTAAGATGGCTC-GGAGGACTTAATCATCATGCTCGGGAGGCTTACT
* * * *
2091167 GATGGATTTGCTTCACTACTCTTCTATGAAGGCTTAAAATGGATTACTTCACTCCTCTTCGGTGA
1 GATGGATTTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCGGTGA
*
2091232 AGGCTTAAGATTGCTCGGAGGACTTAATCATCATGCTCGGGAGGCTTACT
66 AGGCTTAAGATGGCTCGGAGGACTTAATCATCATGCTCGGGAGGCTTACT
* *
2091282 GATGGATTTTCTTCACTACTCTTCTGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCGATGA
1 GATGGATTTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCGGTGA
* * ****** *
2091347 AGGCTTAGGATGGATTTCTTTAC-T-A-C-TC-T--TCGGTGAAGGCTTA-G
66 AGGCTTAAGATGGCTCGGAGGACTTAATCATCATGCTCGG-G-AGGCTTACT
* * *
2091391 GATTG-TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTGA
1 GATGGATTTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCGGTGA
* * * * * *
2091455 AGGCTTAGGATGGCCCGGAGGACTTAATTACCATGCTCAGAAGGCTTACT
66 AGGCTTAAGATGGCTCGGAGGACTTAATCATCATGCTCGGGAGGCTTACT
* * * *
2091505 GATGGATTTGCTTCACTACTCTCCAGTGAAGGCTTCAGATGGTTTGCTTCACT
1 GATGGATTTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGGATTGCTTCACT
2091558 CTCAACATGA
Statistics
Matches: 440, Mismatches: 50, Indels: 32
0.84 0.10 0.06
Matches are distributed among these distances:
108 74 0.17
109 6 0.01
110 9 0.02
111 2 0.00
112 2 0.00
113 9 0.02
114 112 0.25
115 187 0.43
117 39 0.09
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.34
Consensus pattern (115 bp):
GATGGATTTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCGGTGA
AGGCTTAAGATGGCTCGGAGGACTTAATCATCATGCTCGGGAGGCTTACT
Found at i:2091502 original size:223 final size:224
Alignment explanation
Indices: 2090872--2091557 Score: 878
Period size: 223 Copynumber: 3.0 Consensus size: 224
2090862 GATCGATTTA
* * * * *
2090872 CTTCACTACTCTTTGGTGAATGCTTAAGATGGATTTGCTTCACTACTCTTTGGTGAAGGATTAAG
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTT-CTTTACTACTCTTCGGTGAAGGCTTAAG
* * *
2090937 ATGGATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATTGATTTTGCTTCACTACTCTTTGGTG
65 ATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGA-TG-GTTTGCTTCACTACTCTTCGGTG
*
2091002 AAGGCTTAAGATGGCTCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATTGATTTGCTTC
128 AAGGCTTAAGATGGCTCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATGGATTTGCTTC
*
2091067 ACTACTCTTCGGTGAAGGCTTAAGATGGATTG
193 ACTACTCTTCAGTGAAGGCTTAAGATGGATTG
* **** *
2091099 CTTCACTCCTCTTCGGTGAAGGCTTAAGATTGCCTGGGGAC-TTAAT-CATCATGCTCGG-G-AG
1 CTTCACTACTCTTCGGTGAAGGCTTAAGA-TG---GATTTCTTTACTAC-TC-T--TCGGTGAAG
* ** * * * *
2091160 GCTTACTGATGGATTTGCTTCACTACTCTTCTATGAAGGCTTAAAATGGATTACTTCACTCCTCT
58 GCTTA-AGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTACTCT
* *
2091225 TCGGTGAAGGCTTAAGATTGCTCGGAGGACTTAATCATCATGCTCGGGAGGCTTACTGATGGATT
122 TCGGTGAAGGCTTAAGATGGCTCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATGGATT
* *
2091290 TTCTTCACTACTCTTCTGTGAAGGCTTAAGATGGATTG
187 TGCTTCACTACTCTTCAGTGAAGGCTTAAGATGGATTG
* * *
2091328 CTTCACTACTCTTCGATGAAGGCTTAGGATGGATTTCTTTACTACTCTTCGGTGAAGGCTTAGGA
1 CTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTTCTTTACTACTCTTCGGTGAAGGCTTAAGA
*
2091393 TTG-TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTGAAG
66 TGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTGAAG
* * * * *
2091457 GCTTAGGATGGCCCGGAGGACTTAATTACCATGCTCAGAAGGCTTACTGATGGATTTGCTTCACT
131 GCTTAAGATGGCTCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATGGATTTGCTTCACT
* * *
2091522 ACTCTCCAGTGAAGGCTTCAGATGGTTTG
196 ACTCTTCAGTGAAGGCTTAAGATGGATTG
2091551 CTTCACT
1 CTTCACT
2091558 CTCAACATGA
Statistics
Matches: 392, Mismatches: 54, Indels: 30
0.82 0.11 0.06
Matches are distributed among these distances:
223 148 0.38
224 5 0.01
225 10 0.03
226 6 0.02
227 27 0.07
228 5 0.01
229 141 0.36
230 10 0.03
231 37 0.09
232 3 0.01
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (224 bp):
CTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTTCTTTACTACTCTTCGGTGAAGGCTTAAGA
TGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTGAAG
GCTTAAGATGGCTCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATGGATTTGCTTCACT
ACTCTTCAGTGAAGGCTTAAGATGGATTG
Found at i:2096623 original size:21 final size:21
Alignment explanation
Indices: 2096597--2096640 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2096587 TTGCCAATGG
*
2096597 TTTTTCTGCTCGAAACGTTTT
1 TTTTTCTGCTCGAAACATTTT
* *
2096618 TTTTTCTGTTCGAATCATTTT
1 TTTTTCTGCTCGAAACATTTT
2096639 TT
1 TT
2096641 CTGCTTGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.16, G:0.11, T:0.59
Consensus pattern (21 bp):
TTTTTCTGCTCGAAACATTTT
Found at i:2097939 original size:18 final size:18
Alignment explanation
Indices: 2097913--2097958 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
2097903 TTTATATATT
* *
2097913 TTAACTTAAATTCACATA
1 TTAAATTAAAATCACATA
*
2097931 TTAAATTAAAATCACATC
1 TTAAATTAAAATCACATA
2097949 TTAACATTAA
1 TTAA-ATTAA
2097959 TTTTCTTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAAATTAAAATCACATA
Found at i:2098037 original size:29 final size:30
Alignment explanation
Indices: 2097967--2098037 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 30
2097957 AATTTTCTTG
* * *
2097967 TTTTTATTTTAAATTATTAAATCTATTTTA
1 TTTTTATTTTAAACTATAAAATATATTTTA
* * * *
2097997 TTCTTGTCTTAACCTA-AAAATATATTTTA
1 TTTTTATTTTAAACTATAAAATATATTTTA
2098026 TTTTTATTTTAA
1 TTTTTATTTTAA
2098038 TCTTATCTTA
Statistics
Matches: 31, Mismatches: 10, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.59
Consensus pattern (30 bp):
TTTTTATTTTAAACTATAAAATATATTTTA
Found at i:2098429 original size:36 final size:36
Alignment explanation
Indices: 2098389--2098462 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
2098379 TAAATTGTTT
2098389 TAAAAATTAAATTTTTTAATTTTTATTTATGATAAA
1 TAAAAATTAAATTTTTTAATTTTTATTTATGATAAA
2098425 TAAAAATTAAATTTTTTAATTTTTATTTATGATAAA
1 TAAAAATTAAATTTTTTAATTTTTATTTATGATAAA
2098461 TA
1 TA
2098463 TTTTTCTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (36 bp):
TAAAAATTAAATTTTTTAATTTTTATTTATGATAAA
Found at i:2099088 original size:17 final size:18
Alignment explanation
Indices: 2099055--2099088 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2099045 CCGCTATTAG
2099055 TGAACCGGTCAGAACCGC
1 TGAACCGGTCAGAACCGC
*
2099073 TGAACCGTTC-GAACCG
1 TGAACCGGTCAGAACCG
2099089 GACCGGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.32, G:0.26, T:0.15
Consensus pattern (18 bp):
TGAACCGGTCAGAACCGC
Found at i:2100399 original size:18 final size:18
Alignment explanation
Indices: 2100376--2100415 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
2100366 TTTGTATTTC
2100376 TTTATATTAGTTATTCGT
1 TTTATATTAGTTATTCGT
2100394 TTTATATTAGTTATTCGT
1 TTTATATTAGTTATTCGT
2100412 TTTA
1 TTTA
2100416 CTGATGGTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.62
Consensus pattern (18 bp):
TTTATATTAGTTATTCGT
Found at i:2108041 original size:2 final size:2
Alignment explanation
Indices: 2108034--2108064 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2108024 TTGTTAATGA
2108034 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2108065 AGCGTAAATT
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2108844 original size:23 final size:23
Alignment explanation
Indices: 2108813--2108866 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
2108803 GTTCATGTTC
* *
2108813 GTTCATTTAATGTTCACGAACGT
1 GTTCGTTTAATGTTCACGAACAT
*
2108836 GTTCGTTTAATGTTCATGAACAT
1 GTTCGTTTAATGTTCACGAACAT
*
2108859 GTTTGTTT
1 GTTCGTTT
2108867 GGCGTTCGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (23 bp):
GTTCGTTTAATGTTCACGAACAT
Found at i:2108865 original size:27 final size:27
Alignment explanation
Indices: 2108806--2108865 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 27
2108796 TGAACGTGTT
*
2108806 CATGTTCGTTCATTTAATGTTCACGAA
1 CATGTTTGTTCATTTAATGTTCACGAA
* *
2108833 C--G--TGTTCGTTTAATGTTCATGAA
1 CATGTTTGTTCATTTAATGTTCACGAA
2108856 CATGTTTGTT
1 CATGTTTGTT
2108866 TGGCGTTCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 8
0.70 0.08 0.22
Matches are distributed among these distances:
23 19 0.73
25 2 0.08
27 5 0.19
ACGTcount: A:0.22, C:0.15, G:0.18, T:0.45
Consensus pattern (27 bp):
CATGTTTGTTCATTTAATGTTCACGAA
Found at i:2108908 original size:34 final size:34
Alignment explanation
Indices: 2108835--2108920 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 34
2108825 TTCACGAACG
* * ** **
2108835 TGTTCGTTTAATGTTCATGAACATGTTTGTTTGG
1 TGTTCGTTTAACGTTCATGAACATATTCATTTAA
*
2108869 CGTTCGTTTAACGTTCATGAACATATTCATTTAA
1 TGTTCGTTTAACGTTCATGAACATATTCATTTAA
*
2108903 TGTTCGTTTAGCGTTCAT
1 TGTTCGTTTAACGTTCAT
2108921 TTAACATCTT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.47
Consensus pattern (34 bp):
TGTTCGTTTAACGTTCATGAACATATTCATTTAA
Found at i:2110614 original size:18 final size:19
Alignment explanation
Indices: 2110591--2110626 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2110581 TGTATTGGAG
*
2110591 CTCTT-AAACTTGCTTCTT
1 CTCTTAAAACTTCCTTCTT
2110609 CTCTTAAAACTTCCTTCT
1 CTCTTAAAACTTCCTTCT
2110627 GTGTTTTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.19, C:0.31, G:0.03, T:0.47
Consensus pattern (19 bp):
CTCTTAAAACTTCCTTCTT
Found at i:2117750 original size:3 final size:3
Alignment explanation
Indices: 2117742--2117797 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
2117732 GATTCATCGG
*
2117742 AGA AGA AGA AGA TGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
2117790 AGA AGA AG
1 AGA AGA AG
2117798 GTTTTGCTCC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:2122996 original size:10 final size:10
Alignment explanation
Indices: 2122981--2123022 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
2122971 CATGTTCGTT
2122981 TAAACGAACA
1 TAAACGAACA
2122991 TAAACGAACA
1 TAAACGAACA
*
2123001 TGAACATGAACA
1 T-AA-ACGAACA
2123013 TAAACGAACA
1 TAAACGAACA
2123023 AATTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 17 0.61
11 4 0.14
12 7 0.25
ACGTcount: A:0.57, C:0.19, G:0.12, T:0.12
Consensus pattern (10 bp):
TAAACGAACA
Found at i:2123116 original size:20 final size:20
Alignment explanation
Indices: 2123088--2123127 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2123078 ATTTAAATGA
* *
2123088 TAAATGAACATAAACAAACG
1 TAAACGAACAAAAACAAACG
*
2123108 TAAACGAACAAAAATAAACG
1 TAAACGAACAAAAACAAACG
2123128 AACATAATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.15, G:0.10, T:0.12
Consensus pattern (20 bp):
TAAACGAACAAAAACAAACG
Found at i:2123138 original size:13 final size:13
Alignment explanation
Indices: 2123108--2123147 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
2123098 TAAACAAACG
*
2123108 TAAACGAACAAAAA
1 TAAACGAAC-ATAA
2123122 TAAACGAACATAA
1 TAAACGAACATAA
*
2123135 TAAATGAACATAA
1 TAAACGAACATAA
2123148 ACATACATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.65, C:0.12, G:0.07, T:0.15
Consensus pattern (13 bp):
TAAACGAACATAA
Found at i:2123392 original size:12 final size:12
Alignment explanation
Indices: 2123375--2123402 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2123365 TGATATTGTT
2123375 TTGTTCAATAAA
1 TTGTTCAATAAA
2123387 TTGTTCAATAAA
1 TTGTTCAATAAA
2123399 TTGT
1 TTGT
2123403 CTCATCCTCT
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:0.36, C:0.07, G:0.11, T:0.46
Consensus pattern (12 bp):
TTGTTCAATAAA
Found at i:2128925 original size:49 final size:47
Alignment explanation
Indices: 2128868--2128962 Score: 154
Period size: 49 Copynumber: 2.0 Consensus size: 47
2128858 GAAAATAAAA
*
2128868 AACTAAAATTAACAAAGAAATAGAGGGGGAAAAGAGAAAAGGAAAATAT
1 AACTAAAATTAACAAAGAAATAGAAGGGGAAAA-A-AAAAGGAAAATAT
*
2128917 AACTAAAATTAACAAAGAAGTAGAAGGGGAAAAAAAAAGGAAAATA
1 AACTAAAATTAACAAAGAAATAGAAGGGGAAAAAAAAAGGAAAATA
2128963 ATCCATTTCG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 12 0.27
48 1 0.02
49 31 0.70
ACGTcount: A:0.63, C:0.04, G:0.21, T:0.12
Consensus pattern (47 bp):
AACTAAAATTAACAAAGAAATAGAAGGGGAAAAAAAAAGGAAAATAT
Found at i:2135698 original size:20 final size:20
Alignment explanation
Indices: 2135675--2135726 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2135665 AACGCGATCC
2135675 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
2135695 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
2135715 CCAAAATCGCAA
1 CCAGAATCGCAA
2135727 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:2135743 original size:21 final size:20
Alignment explanation
Indices: 2135716--2135815 Score: 65
Period size: 21 Copynumber: 4.8 Consensus size: 20
2135706 AATCAGTTTC
2135716 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
2135737 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
**
2135758 CAAAATTCGCATTGCGATTTT
1 CAAAA-TCGCAACGCGATTTT
* * *
2135779 CCATAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
2135800 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
2135816 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 7
0.71 0.20 0.08
Matches are distributed among these distances:
20 14 0.24
21 31 0.53
22 14 0.24
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:2135877 original size:20 final size:20
Alignment explanation
Indices: 2135783--2135995 Score: 250
Period size: 20 Copynumber: 10.6 Consensus size: 20
2135773 GATTTTCCAT
* ** *
2135783 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
2135803 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
2135823 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2135843 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
2135863 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
2135883 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2135903 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2135923 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
2135943 AATCGCAACG-ATAATACATAA
1 AATCGCAACGCGT-ATCCGT-A
2135964 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2135984 AATCGCAACGCG
1 AATCGCAACGCG
2135996 ATATTTAAAG
Statistics
Matches: 165, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
19 2 0.01
20 145 0.88
21 17 0.10
22 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:2136393 original size:33 final size:33
Alignment explanation
Indices: 2136354--2136424 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2136344 TTCACTTAGA
*
2136354 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
2136387 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
2136420 TTTCA
1 TTTCA
2136425 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:2136565 original size:33 final size:33
Alignment explanation
Indices: 2136523--2136614 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 33
2136513 GATAAATGAA
***
2136523 AATCGCAACGAGAGAATGACTGTCGC-ACGAGAG
1 AATCGCAACGAGA-AATGAAAATCGCAACGAGAG
*
2136556 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGAGAAATGAAAATCGCAACGAGAG
* **
2136589 AATCGCAACGCGAAACCAAAATCGCA
1 AATCGCAACGAGAAATGAAAATCGCA
2136615 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
32 9 0.17
33 43 0.83
ACGTcount: A:0.42, C:0.24, G:0.24, T:0.10
Consensus pattern (33 bp):
AATCGCAACGAGAAATGAAAATCGCAACGAGAG
Found at i:2136632 original size:19 final size:19
Alignment explanation
Indices: 2136610--2136674 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
2136600 GAAACCAAAA
*
2136610 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2136629 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
2136643 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2136662 TCGCGTTGCGATT
1 TCGCGTTGCGATT
2136675 CTCTCGTTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 10 0.26
16 3 0.08
17 3 0.08
19 22 0.58
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2136657 original size:33 final size:33
Alignment explanation
Indices: 2136615--2136729 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
2136605 CAAAATCGCA
2136615 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
2136648 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* * *
2136681 TTGCGATTGTCATCTCACGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
2136714 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
2136730 AACCAAAAGA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.10, C:0.24, G:0.20, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:2136701 original size:19 final size:17
Alignment explanation
Indices: 2136615--2136722 Score: 81
Period size: 14 Copynumber: 6.5 Consensus size: 17
2136605 CAAAATCGCA
*
2136615 TTGCGATTTTCATTTCGCG
1 TTGCGA-TTTCATCTC-CG
2136634 TTGCGA-TTC-TCT-CG
1 TTGCGATTTCATCTCCG
*
2136648 TTGCGATTTTCATTTCGCG
1 TTGCGA-TTTCATCTC-CG
2136667 TTGCGA-TTC-TCT-CG
1 TTGCGATTTCATCTCCG
2136681 TTGCGATTGTCATCTCACG
1 TTGCGATT-TCATCTC-CG
2136700 TTGCGA-TTC-TCT-CG
1 TTGCGATTTCATCTCCG
2136714 TTGCGATTT
1 TTGCGATTT
2136723 TCATTTCAAC
Statistics
Matches: 75, Mismatches: 3, Indels: 26
0.72 0.03 0.25
Matches are distributed among these distances:
14 24 0.32
15 3 0.04
16 12 0.16
17 13 0.17
18 1 0.01
19 22 0.29
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.44
Consensus pattern (17 bp):
TTGCGATTTCATCTCCG
Found at i:2138629 original size:92 final size:93
Alignment explanation
Indices: 2138427--2138896 Score: 894
Period size: 92 Copynumber: 5.1 Consensus size: 93
2138417 TAGATTGCTT
*
2138427 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2138492 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
2138520 AGTAAATTTGTTC-GTTGCTGCCAATTCTGCTAAACTGTATATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2138583 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2138611 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2138676 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2138704 AGT-AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2138767 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2138795 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2138860 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2138888 AGTAAATTT
1 AGTAAATTT
2138897 ATCCATTCAA
Statistics
Matches: 370, Mismatches: 3, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
91 76 0.21
92 210 0.57
93 84 0.23
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2138980 original size:19 final size:19
Alignment explanation
Indices: 2138940--2139068 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
2138930 TAGTTTACTT
* *
2138940 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
2138960 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
2138979 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
2138998 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
2139012 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
2139031 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
2139045 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
2139064 TCGCA
1 TCGCA
2139069 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:2139019 original size:33 final size:32
Alignment explanation
Indices: 2138976--2139068 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
2138966 CGCGAAACCA
**
2138976 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
2139008 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
2139041 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
2139069 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:2139066 original size:52 final size:52
Alignment explanation
Indices: 2138940--2139068 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
2138930 TAGTTTACTT
**
2138940 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
2138992 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
2139045 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
2139069 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:2139086 original size:19 final size:19
Alignment explanation
Indices: 2139064--2139198 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
2139054 GAAACCAAAA
*
2139064 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2139083 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
2139099 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
2139116 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
2139132 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
2139149 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
2139168 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
2139188 TCGTGTTGCGA
1 TCGCGTTGCGA
2139199 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2139105 original size:14 final size:14
Alignment explanation
Indices: 2139086--2139142 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2139076 TTTCATTTCG
2139086 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
2139100 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
2139117 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
2139133 CGTTGCGATT
1 CGTTGCGATT
2139143 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:2139111 original size:33 final size:33
Alignment explanation
Indices: 2139069--2139161 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
2139059 CAAAATCGCA
*
2139069 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
2139102 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
2139135 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
2139162 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:2141119 original size:14 final size:14
Alignment explanation
Indices: 2141100--2141135 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2141090 ATTGTTTAAT
2141100 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
2141114 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
2141128 TGATTTGT
1 TGATTTGT
2141136 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2141258 original size:19 final size:19
Alignment explanation
Indices: 2141242--2141343 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
2141232 AAAAATGACT
2141242 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2141261 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2141280 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
2141294 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2141313 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
2141333 ATCGCAATGCG
1 ATCGCAATGCG
2141344 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2141396 original size:19 final size:19
Alignment explanation
Indices: 2141372--2141664 Score: 392
Period size: 19 Copynumber: 16.4 Consensus size: 19
2141362 GATTATCTCG
2141372 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2141391 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2141410 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
2141424 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2141443 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2141462 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2141481 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2141500 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2141519 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2141538 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
2141552 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2141571 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
2141590 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
2141604 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
2141624 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
2141638 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
2141657 TTGCGATT
1 TTGCGATT
2141665 GTATTTTCCG
Statistics
Matches: 245, Mismatches: 8, Indels: 42
0.83 0.03 0.14
Matches are distributed among these distances:
14 29 0.12
16 24 0.10
17 20 0.08
18 3 0.01
19 157 0.64
20 12 0.05
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:2141412 original size:52 final size:52
Alignment explanation
Indices: 2141350--2141664 Score: 330
Period size: 52 Copynumber: 5.9 Consensus size: 52
2141340 TGCGTTTATA
*
2141350 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTATTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
2141402 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTATTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
2141454 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TT-ATTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
*
2141511 ATTTCGCATTGCGATTTTAATTTCGCATTGCGA--TTC-TGTCG--TTGCGATTTTC
1 ATTTCGCATTGCGA--TT-ATTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
*
2141563 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTC
1 ATTTCGCATTGCGA--TT-ATTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
* *
2141615 ATTTCCGCATTGCGA-T-TTTCATGTTGGGATTTTCATTTCGCGTTGCGATT
1 ATTT-CGCATTGCGATTATTTC--GTTGCGATTTTCATTTCGCATTGCGATT
2141665 GTATTTTCCG
Statistics
Matches: 241, Mismatches: 9, Indels: 25
0.88 0.03 0.09
Matches are distributed among these distances:
48 9 0.04
50 5 0.02
51 4 0.02
52 129 0.54
53 18 0.07
54 6 0.02
55 8 0.03
57 62 0.26
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTATTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:2141520 original size:128 final size:122
Alignment explanation
Indices: 2141372--2141636 Score: 194
Period size: 128 Copynumber: 2.1 Consensus size: 122
2141362 GATTATCTCG
*
2141372 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA-TTC-TTTCG-TTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TGTCG--TTGCGATTTCATTTCGATTGCGATTTT
*
2141434 CATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTTTCATTTCG
61 CATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCG
2141498 CA
121 CA
* * *
2141500 TTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGA-TTC-TGTCG-TTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGA--TT-CTGTCG--TTGCGATTTCATTTCGATTGCGATTTT
* * *
2141562 CATTTCGCATTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG--TTGCGATTTTCATTTCCG
61 CATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TC-CGCATTGCGATTTTCATTT-CG
2141622 CA
121 CA
2141624 TTGCGATTTTCAT
1 TTGCGATTTTCAT
2141637 GTTGGGATTT
Statistics
Matches: 125, Mismatches: 5, Indels: 18
0.84 0.03 0.12
Matches are distributed among these distances:
121 7 0.06
122 4 0.03
123 18 0.14
124 18 0.14
125 2 0.02
126 2 0.02
128 74 0.59
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (122 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTGTCGTTGCGATTTCATTTCGATTGCGATTTTCATTT
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCGCA
Found at i:2143954 original size:12 final size:12
Alignment explanation
Indices: 2143937--2143961 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2143927 TCTTCGGGGA
2143937 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2143949 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2143961 C
1 C
2143962 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2144169 original size:24 final size:24
Alignment explanation
Indices: 2144135--2144181 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2144125 CTGAAACATC
2144135 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
2144159 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
2144182 GACCAATTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:2144890 original size:20 final size:20
Alignment explanation
Indices: 2144862--2145229 Score: 442
Period size: 20 Copynumber: 18.4 Consensus size: 20
2144852 AAATTTAAGT
* * * *
2144862 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
2144882 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
2144902 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
2144922 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
2144942 GTTGCGATTT-CGGATACGC
1 GTTGCGATTTACGGATACGC
*
2144961 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
2144981 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
2145001 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2145021 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2145041 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
2145061 GTTGC-AGTTTACGGATACGC
1 GTTGCGA-TTTACGGATACGC
2145081 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2145101 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
2145121 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
2145141 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
2145161 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
2145181 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
2145201 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
2145221 GTTGCGATT
1 GTTGCGATT
2145230 ATGGAAAATC
Statistics
Matches: 307, Mismatches: 30, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
18 2 0.01
19 19 0.06
20 280 0.91
21 6 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:2145951 original size:20 final size:21
Alignment explanation
Indices: 2145926--2145977 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
2145916 TTTTCCCAAT
2145926 TCGCAATGCGAATAAGT-AAA
1 TCGCAATGCGAATAAGTAAAA
* **
2145946 TCGCAACGCGAATTGGTAAAA
1 TCGCAATGCGAATAAGTAAAA
2145967 TCGCAATGCGA
1 TCGCAATGCGA
2145978 TACTGACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (21 bp):
TCGCAATGCGAATAAGTAAAA
Found at i:2145991 original size:20 final size:20
Alignment explanation
Indices: 2145966--2146081 Score: 101
Period size: 20 Copynumber: 5.7 Consensus size: 20
2145956 AATTGGTAAA
*
2145966 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
2145986 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
2146007 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
2146028 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
2146048 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
2146068 TTCGCAACGAGATA
1 ATCGCAACGCGATA
2146082 ATACAGAATC
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
19 2 0.02
20 44 0.52
21 36 0.43
22 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:2146012 original size:21 final size:21
Alignment explanation
Indices: 2145986--2146041 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
2145976 GATACTGACT
2145986 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
2146007 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
2146028 ATCGCAACGCGATA
1 ATCGCAACGCGATA
2146042 CTGACTTTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.45, C:0.25, G:0.16, T:0.14
Consensus pattern (21 bp):
ATCGCAACGCGATAATACAAA
Found at i:2149325 original size:19 final size:19
Alignment explanation
Indices: 2149303--2149367 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
2149293 GGAAATTACT
2149303 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
2149322 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
2149336 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2149355 ATCGCAACGCGAA
1 ATCGCAATGCGAA
2149368 TTTAATTTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
14 9 0.25
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 21 0.58
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2149326 original size:39 final size:33
Alignment explanation
Indices: 2149303--2149365 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
2149293 GGAAATTACT
*
2149303 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGGGA
2149336 ATCGCAATGCGAAATGAAAATCGCAACGCG
1 ATCGCAATGCGAAATGAAAATCGCAACGCG
2149366 AATTTAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.41, C:0.21, G:0.25, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGCGGGA
Found at i:2149545 original size:14 final size:14
Alignment explanation
Indices: 2149526--2149562 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2149516 CATCAATTAA
2149526 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2149540 ACAAATCACCTTTT
1 ACAAATCAACTTTT
2149554 ACAAATCAA
1 ACAAATCAA
2149563 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2155780 original size:20 final size:19
Alignment explanation
Indices: 2155753--2155812 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 19
2155743 CATTTTTGTG
2155753 CAGAGGGAATCGATCCCCC
1 CAGAGGGAATCGATCCCCC
*
2155772 CATGAGGGAACCGATTCCCCC
1 CA-GAGGGAATCGA-TCCCCC
*
2155793 CACAGGGGAATCGATACCCC
1 CAGA-GGGAATCGAT-CCCC
2155813 GCTGGGGTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.06
20 12 0.35
21 20 0.59
ACGTcount: A:0.27, C:0.37, G:0.25, T:0.12
Consensus pattern (19 bp):
CAGAGGGAATCGATCCCCC
Found at i:2155792 original size:21 final size:20
Alignment explanation
Indices: 2155755--2155794 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2155745 TTTTTGTGCA
*
2155755 GAGGGAATCGATCCCCCCAT
1 GAGGGAACCGATCCCCCCAT
2155775 GAGGGAACCGATTCCCCCCA
1 GAGGGAACCGA-TCCCCCCA
2155795 CAGGGGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCAT
Found at i:2160516 original size:42 final size:41
Alignment explanation
Indices: 2160431--2160553 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
2160421 GTGAATCTGG
* * * *
2160431 CTCTTGAATGGTGGGA-GGGACCTCTTCAATGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
2160473 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
2160515 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
2160554 CGAGTCGGAC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:2160950 original size:91 final size:90
Alignment explanation
Indices: 2160771--2160955 Score: 273
Period size: 91 Copynumber: 2.0 Consensus size: 90
2160761 ATTTCAAACT
* *
2160771 TTCAACCAAAAGACAAAATAAAGACAAATATTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAATAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
*
2160836 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCAAATAAATTTAC
*
2160864 TTCAACCAAAAGACAAAATAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACATTTTAGCA
1 TTCAACCAAAAGACAAAAT--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
2160928 GTATTGGCAGCAACCAAATAAATTTAC
64 GAATTGGCAGCAACCAAATAAATTTAC
2160955 T
1 T
2160956 AAGCAATCTA
Statistics
Matches: 85, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
91 40 0.47
93 19 0.22
95 26 0.31
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAATAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCAAATAAATTTAC
Found at i:2162671 original size:20 final size:19
Alignment explanation
Indices: 2162640--2162780 Score: 86
Period size: 19 Copynumber: 7.8 Consensus size: 19
2162630 TCTTTTGGTT
2162640 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
2162659 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
2162680 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
2162699 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
** *
2162713 GAAATGACTATCGCGACGA
1 GAAATGAAAATCGCAACGA
*
2162732 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
* * *
2162746 GAAATCAAAATCACAACGC
1 GAAATGAAAATCGCAACGA
2162765 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2162781 TGCGATTTTG
Statistics
Matches: 93, Mismatches: 17, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
14 19 0.20
16 4 0.04
17 3 0.03
19 36 0.39
20 29 0.31
21 2 0.02
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:2162722 original size:33 final size:33
Alignment explanation
Indices: 2162665--2162750 Score: 154
Period size: 33 Copynumber: 2.6 Consensus size: 33
2162655 ACGAGATAAT
2162665 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
2162699 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
2162732 GAGAATCGCAACGCGAAAT
1 GAGAATCGCAACGCGAAAT
2162751 CAAAATCACA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 37 0.73
34 14 0.27
ACGTcount: A:0.38, C:0.23, G:0.27, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:2163386 original size:20 final size:20
Alignment explanation
Indices: 2163356--2163408 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2163346 GCGCTATGTA
*
2163356 AATCGCGTTGCGAAAGTCAG
1 AATCTCGTTGCGAAAGTCAG
2163376 AAT-TACGTTGCGAAAGTCAG
1 AATCT-CGTTGCGAAAGTCAG
*
2163396 TATCTCGTTGCGA
1 AATCTCGTTGCGA
2163409 TTTTGTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (20 bp):
AATCTCGTTGCGAAAGTCAG
Found at i:2163469 original size:41 final size:41
Alignment explanation
Indices: 2163381--2163471 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 41
2163371 GTCAGAATTA
* * * ** *
2163381 CGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATTATCG
1 CGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAATATCG
*
2163422 CATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT-TCG
1 CGTTGCGATAGTCAGTATCGCATTGCGATTTT-CCAATATCG
2163463 CGTTGCGAT
1 CGTTGCGAT
2163472 TTACTTATTC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 39 0.95
42 2 0.05
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (41 bp):
CGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAATATCG
Found at i:2164911 original size:27 final size:28
Alignment explanation
Indices: 2164881--2164950 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 28
2164871 ATTATCATTT
*
2164881 TTATTTTATTTTATTTTG-ATTACTTAA
1 TTATTTTATTTTATTTTGTATAACTTAA
* *
2164908 TTATTTT-TTTTAATTATGTATAATTTAA
1 TTATTTTATTTT-ATTTTGTATAACTTAA
2164936 -T-TTTTATTTTATTTT
1 TTATTTTATTTTATTTT
2164951 AGTCATATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
26 12 0.33
27 17 0.47
28 7 0.19
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.70
Consensus pattern (28 bp):
TTATTTTATTTTATTTTGTATAACTTAA
Found at i:2167089 original size:50 final size:48
Alignment explanation
Indices: 2167027--2167156 Score: 125
Period size: 55 Copynumber: 2.5 Consensus size: 48
2167017 AGCAGTAAAA
** *
2167027 CGCGCCCCCTGCACTGCGCTATACGATGATTTGACGTCACGTGGGGTATAG
1 CGCG-CCCCTGCAC-GCGCTATACGATGAACTGACGCCACGT-GGGTATAG
*
2167078 CGCGCCCCTGCATCGCGACGCGCTATACGGTGAACTGACGCCACGTGGGTATAG
1 CGCG-CCC--C-T-GC-ACGCGCTATACGATGAACTGACGCCACGTGGGTATAG
2167132 CGCAGCCCCTGCAACGCGCTATACG
1 CGC-GCCCCTGC-ACGCGCTATACG
2167157 CCACGTAGGG
Statistics
Matches: 68, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
50 14 0.21
51 9 0.13
52 1 0.01
53 1 0.01
54 15 0.22
55 26 0.38
56 2 0.03
ACGTcount: A:0.18, C:0.34, G:0.29, T:0.18
Consensus pattern (48 bp):
CGCGCCCCTGCACGCGCTATACGATGAACTGACGCCACGTGGGTATAG
Found at i:2167117 original size:55 final size:55
Alignment explanation
Indices: 2167042--2167149 Score: 155
Period size: 55 Copynumber: 2.0 Consensus size: 55
2167032 CCCCTGCACT
** * *
2167042 GCGCTATACGATGATTTGACGTCACGTGGGGTATAGCGC-GCCCCTGCATCGCGAC
1 GCGCTATACGATGAACTGACGCCACGT-GGGTATAGCGCAGCCCCTGCAACGCGAC
*
2167097 GCGCTATACGGTGAACTGACGCCACGTGGGTATAGCGCAGCCCCTGCAACGCG
1 GCGCTATACGATGAACTGACGCCACGTGGGTATAGCGCAGCCCCTGCAACGCG
2167150 CTATACGCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 11 0.23
55 36 0.77
ACGTcount: A:0.19, C:0.31, G:0.31, T:0.19
Consensus pattern (55 bp):
GCGCTATACGATGAACTGACGCCACGTGGGTATAGCGCAGCCCCTGCAACGCGAC
Found at i:2167247 original size:50 final size:46
Alignment explanation
Indices: 2167180--2167286 Score: 144
Period size: 46 Copynumber: 2.2 Consensus size: 46
2167170 TAGTGCGGAT
2167180 CAGGTACCGCGCTATACCTTTACTCCTGAATAATTTTATATAGCGCGCGG
1 CAGGTACCGCGCTATACCTTTACT-C---ATAATTTTATATAGCGCGCGG
* *
2167230 CAGGTACTGCGAC-ATACCTTTACTCATAATTTTATATAGCGCGGGG
1 CAGGTACCGCG-CTATACCTTTACTCATAATTTTATATAGCGCGCGG
2167276 CAGGTACCGCG
1 CAGGTACCGCG
2167287 TTTTGTATAA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
46 30 0.57
49 1 0.02
50 21 0.40
51 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.28
Consensus pattern (46 bp):
CAGGTACCGCGCTATACCTTTACTCATAATTTTATATAGCGCGCGG
Found at i:2171441 original size:17 final size:18
Alignment explanation
Indices: 2171419--2171457 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
2171409 AAAGGCGATG
*
2171419 GCGGCATCATA-ATGGTT
1 GCGGCATCATATATGGCT
2171436 GCGGCATCATATATGGCT
1 GCGGCATCATATATGGCT
2171454 GCGG
1 GCGG
2171458 TGGCTGCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (18 bp):
GCGGCATCATATATGGCT
Found at i:2173159 original size:110 final size:111
Alignment explanation
Indices: 2172962--2173182 Score: 372
Period size: 110 Copynumber: 2.0 Consensus size: 111
2172952 ATTACAAAAA
* * * *
2172962 TTAATTCTTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTAATAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
* *
2173027 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGATAT
*
2173073 TTAATTATTAATATAATAATCATGCATTAAATAAAT-AACTAAATATTACTAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
2173137 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGATAT
2173183 ATGATTTCCA
Statistics
Matches: 103, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
110 70 0.68
111 33 0.32
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:2173316 original size:12 final size:10
Alignment explanation
Indices: 2173302--2173342 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
2173292 ACCTTAAAAA
*
2173302 GAGAGTATTT
1 GAGAGAATTT
2173312 GAGAGAAATTT
1 GAGAG-AATTT
2173323 -AGAGAATTT
1 GAGAGAATTT
2173332 GAGAGAATTT
1 GAGAGAATTT
2173342 G
1 G
2173343 GTGTGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:2173568 original size:51 final size:50
Alignment explanation
Indices: 2173434--2173588 Score: 172
Period size: 50 Copynumber: 3.1 Consensus size: 50
2173424 CCCCCTGCAC
* * * *
2173434 CGCGCTATACCCCACGTGTCAG-ATATACAT-GTATAGCGCGCTGCAGGGGC
1 CGCGCTATACCCCACGTGGC-GCAAAT-CATCGTATAGCGCGGTGCAGGGGG
* ** *
2173484 CGCACTATA-CCCACGTGGCGGCAGCTCACCGTATAGCGCGGTGCAGGGGG
1 CGCGCTATACCCCACGTGGC-GCAAATCATCGTATAGCGCGGTGCAGGGGG
2173534 CGCGCTATACCCCACGTGGCGCCAAATCATCGTATAGCGCGGTGCAGGGGTG
1 CGCGCTATACCCCACGTGGCG-CAAATCATCGTATAGCGCGGTGCAGGGG-G
2173586 CGC
1 CGC
2173589 TTTACTACTA
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
49 12 0.14
50 37 0.42
51 35 0.40
52 4 0.05
ACGTcount: A:0.19, C:0.32, G:0.32, T:0.17
Consensus pattern (50 bp):
CGCGCTATACCCCACGTGGCGCAAATCATCGTATAGCGCGGTGCAGGGGG
Found at i:2174263 original size:130 final size:130
Alignment explanation
Indices: 2173939--2174328 Score: 714
Period size: 130 Copynumber: 3.0 Consensus size: 130
2173929 TAACTGTTCT
2173939 TCTGTTGTTCCGTTGACACACAC--GTTGAAAGGTAGCATTCCATGTCTGTCATGAGTTTGGGTT
1 TCTGTTGTTCCGTTGACACACACATGTTGAAAGGTAGCATTCCATGTCTGTCATGAGTTTGGGTT
*
2174002 ATTTGTTATTGTGTAGTTACTGGATTTATCTTGATTATGATATGG-ATCATACCATTAACATGTA
66 ATTTGTTATTGTGTAGTTACTGGATTTATCTTAATTATGATATGGTATCATACCATTAACATGTA
2174066 TCTGTTGTTCCGTTGACACACACATGTTGAAAGGTAGCATTCCATGTCTGTCATGAGTTTGGGTT
1 TCTGTTGTTCCGTTGACACACACATGTTGAAAGGTAGCATTCCATGTCTGTCATGAGTTTGGGTT
* *
2174131 ATTTGCTGTTGTGTAGTTACTGGATTTATCTTAATTATGATATGGTATCATACCATTAACATGTA
66 ATTTGTTATTGTGTAGTTACTGGATTTATCTTAATTATGATATGGTATCATACCATTAACATGTA
* *
2174196 TCTGTTGTTCCGTTGACACACACATGTTGAAAGCTAGCATTCCATGTCTGTCATGAGTTTGGATT
1 TCTGTTGTTCCGTTGACACACACATGTTGAAAGGTAGCATTCCATGTCTGTCATGAGTTTGGGTT
2174261 ATTTGTTATTGTGTAGTTACTGGATTTATCTTAATTATGATATGGTATCATACCATTAACATGTA
66 ATTTGTTATTGTGTAGTTACTGGATTTATCTTAATTATGATATGGTATCATACCATTAACATGTA
2174326 TCT
1 TCT
2174329 CTTGAATGGT
Statistics
Matches: 253, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
127 23 0.09
129 82 0.32
130 148 0.58
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (130 bp):
TCTGTTGTTCCGTTGACACACACATGTTGAAAGGTAGCATTCCATGTCTGTCATGAGTTTGGGTT
ATTTGTTATTGTGTAGTTACTGGATTTATCTTAATTATGATATGGTATCATACCATTAACATGTA
Found at i:2175917 original size:2 final size:2
Alignment explanation
Indices: 2175910--2175936 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2175900 AAATTCATCC
2175910 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2175937 GTTATTCGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2178466 original size:10 final size:10
Alignment explanation
Indices: 2178433--2178466 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2178423 AACGAAAGTT
2178433 TTTTATTCGA
1 TTTTATTCGA
*
2178443 TTTGATTCGA
1 TTTTATTCGA
*
2178453 TTTTATTGGA
1 TTTTATTCGA
2178463 TTTT
1 TTTT
2178467 GTGATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.18, C:0.06, G:0.15, T:0.62
Consensus pattern (10 bp):
TTTTATTCGA
Found at i:2180182 original size:136 final size:131
Alignment explanation
Indices: 2179928--2180279 Score: 341
Period size: 136 Copynumber: 2.6 Consensus size: 131
2179918 TTCCATTGTC
* * **
2179928 CTTTACGCCTTTGCCTTAGATGGGGATTTGATACGTTA-GAACTGTAACAGACTGTAATTTCCCA
1 CTTTACGCCTTTGCCTTAGATGGGGATTTGATATG-GAGGAACTGTAACAGACTAAAATTTCCCA
* * * * *
2179992 TGATTTTCAATAATTTGTGAATGCATTATGGCAGACCTCTGAAGTAGGATTTATCGGTTTC-ATG
65 TGATTTTCAATAATTTGTGAAGGCACTATGGCAGACATCTGAAGTAGGAATTATCAG-TTCGATG
2180056 TTG
129 TTG
* *
2180059 CTTTATGCCTTTGCCTTAGATGGGGATTTGATATGGAGGAACTGCCCCGTAATAGACTAAAATTT
1 CTTTACGCCTTTGCCTTAGATGGGGATTTGATATGGAGGAACT-----GTAACAGACTAAAATTT
* * * * *
2180124 CCCTTGATTTTCAATGATTTGTGAAGGCACTATGGCAGACATTTTAAGTTGGAATTATCAGTTCG
61 CCCATGATTTTCAATAATTTGTGAAGGCACTATGGCAGACATCTGAAGTAGGAATTATCAGTTCG
* *
2180189 GTTTTG
126 ATGTTG
* * * * * * * ** *
2180195 CTTTACACCTTTGCCTTAAATGGGGATTTAAT-TGGGAGGAACTCTAATAAACTATAGGTTCCTA
1 CTTTACGCCTTTGCCTTAGATGGGGATTTGATAT-GGAGGAACTGTAACAGACTAAAATTTCCCA
* *
2180259 TGCTTTTTAATAATTTGTGAA
65 TGATTTTCAATAATTTGTGAA
2180280 TGCCCTGTGG
Statistics
Matches: 181, Mismatches: 32, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
130 1 0.01
131 70 0.39
135 4 0.02
136 106 0.59
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (131 bp):
CTTTACGCCTTTGCCTTAGATGGGGATTTGATATGGAGGAACTGTAACAGACTAAAATTTCCCAT
GATTTTCAATAATTTGTGAAGGCACTATGGCAGACATCTGAAGTAGGAATTATCAGTTCGATGTT
G
Found at i:2196879 original size:22 final size:22
Alignment explanation
Indices: 2196853--2196895 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2196843 CTTCGAGTTG
2196853 AAACAATATCGGTTCTCAGAGA
1 AAACAATATCGGTTCTCAGAGA
2196875 AAACAATATCGGTTCTCAGAG
1 AAACAATATCGGTTCTCAGAG
2196896 TTCATTACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.23
Consensus pattern (22 bp):
AAACAATATCGGTTCTCAGAGA
Found at i:2213732 original size:30 final size:31
Alignment explanation
Indices: 2213698--2213771 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 31
2213688 TTCAGCACAC
2213698 TTATTTCATTTAAAT-TTATTTTATTCAATT
1 TTATTTCATTTAAATCTTATTTTATTCAATT
* *
2213728 TTATTT-A-TCAAATGCTTATTTTATTCTATT
1 TTATTTCATTTAAAT-CTTATTTTATTCAATT
2213758 TTATTTTC-TTTAAA
1 TTA-TTTCATTTAAA
2213772 CATATTTGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
28 5 0.14
29 1 0.03
30 23 0.64
31 3 0.08
32 4 0.11
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.62
Consensus pattern (31 bp):
TTATTTCATTTAAATCTTATTTTATTCAATT
Found at i:2213764 original size:15 final size:15
Alignment explanation
Indices: 2213698--2213764 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 15
2213688 TTCAGCACAC
* * *
2213698 TTATTTCATTTAAAT
1 TTATTTTATTCAATT
2213713 TTATTTTATTCAATT
1 TTATTTTATTCAATT
*
2213728 TTA-TTTA-TCAAATGC
1 TTATTTTATTC-AAT-T
*
2213743 TTATTTTATTCTATT
1 TTATTTTATTCAATT
2213758 TTATTTT
1 TTATTTT
2213765 CTTTAAACAT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
13 2 0.05
14 7 0.17
15 25 0.60
16 6 0.14
17 2 0.05
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.64
Consensus pattern (15 bp):
TTATTTTATTCAATT
Found at i:2217038 original size:10 final size:9
Alignment explanation
Indices: 2217016--2217048 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
2217006 AACCATAAAA
*
2217016 GAAAAAAAT
1 GAAAAAATT
2217025 -AAAAAATT
1 GAAAAAATT
2217033 GAAAAAATT
1 GAAAAAATT
2217042 GAAAAAA
1 GAAAAAA
2217049 GGGTGATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (9 bp):
GAAAAAATT
Found at i:2217939 original size:17 final size:16
Alignment explanation
Indices: 2217917--2217948 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
2217907 AAGAATTATC
2217917 TTTAGAATTATCTTTTT
1 TTTAGAATTAT-TTTTT
2217934 TTTAGAATTATTTTT
1 TTTAGAATTATTTTT
2217949 CTTATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.66
Consensus pattern (16 bp):
TTTAGAATTATTTTTT
Done.