Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009610.1 Hibiscus syriacus cultivar Beakdansim tig00116996_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: 3811333
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 18
Found at i:1681199 original size:19 final size:20
Alignment explanation
Indices: 1681159--1681199 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
1681149 GTAAATTGAC
1681159 GTGTTTTCCCTTTAAATATT
1 GTGTTTTCCCTTTAAATATT
*
1681179 GTGTTTTCCTTTTAAAT-TT
1 GTGTTTTCCCTTTAAATATT
1681198 GT
1 GT
1681200 TTGTGCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.59
Consensus pattern (20 bp):
GTGTTTTCCCTTTAAATATT
Found at i:1684878 original size:2 final size:2
Alignment explanation
Indices: 1684871--1684901 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1684861 GGCGGCGAGC
1684871 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1684902 TGCAAAATGA
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1685365 original size:21 final size:21
Alignment explanation
Indices: 1685327--1685367 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1685317 TGTAATTTCC
* * *
1685327 AAAACTTTATATTTTATTAAA
1 AAAACATTAAATTGTATTAAA
1685348 AAAACATTAAATTGTATTAA
1 AAAACATTAAATTGTATTAA
1685368 CTTATAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (21 bp):
AAAACATTAAATTGTATTAAA
Found at i:1687555 original size:14 final size:14
Alignment explanation
Indices: 1687536--1687562 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1687526 TCGAATGGCA
1687536 TCGGTCGGATGCCC
1 TCGGTCGGATGCCC
1687550 TCGGTCGGATGCC
1 TCGGTCGGATGCC
1687563 TTCAGATGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.33, G:0.37, T:0.22
Consensus pattern (14 bp):
TCGGTCGGATGCCC
Found at i:1688326 original size:28 final size:28
Alignment explanation
Indices: 1688286--1688342 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
1688276 CTCTCCATTT
1688286 ACATTATGTCGTTGAATCAACGCTTGAA
1 ACATTATGTCGTTGAATCAACGCTTGAA
** *
1688314 ACATTATGTCGTTGGGTCAATGCTTGAA
1 ACATTATGTCGTTGAATCAACGCTTGAA
1688342 A
1 A
1688343 GCAACAACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (28 bp):
ACATTATGTCGTTGAATCAACGCTTGAA
Found at i:1700784 original size:20 final size:20
Alignment explanation
Indices: 1700759--1700809 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
1700749 TATCATGATC
1700759 CTTACATGATAGTTCATAAA
1 CTTACATGATAGTTCATAAA
1700779 CTTACATGATAGTTCATAAA
1 CTTACATGATAGTTCATAAA
1700799 CTTACATGATA
1 CTTACATGATA
1700810 ATTTACAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (20 bp):
CTTACATGATAGTTCATAAA
Found at i:1705381 original size:36 final size:36
Alignment explanation
Indices: 1705334--1705404 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
1705324 ATTCTGGAGT
* *
1705334 ATGTAGGTTCAGCTCCGATCAAGTTGGTAATTCCTC
1 ATGTAGGTTCAGCACCGATCAAGCTGGTAATTCCTC
1705370 ATGTAGGTTCAGCACCGATCAAGCTGGTAATTCCT
1 ATGTAGGTTCAGCACCGATCAAGCTGGTAATTCCT
1705405 TATGAACCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (36 bp):
ATGTAGGTTCAGCACCGATCAAGCTGGTAATTCCTC
Found at i:1712664 original size:18 final size:18
Alignment explanation
Indices: 1712616--1712667 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
1712606 AGAGTTAGTT
*
1712616 TTTATT-AATGAAATAAC
1 TTTATTCAATGAACTAAC
*
1712633 ATTATTCAATGAACTAAC
1 TTTATTCAATGAACTAAC
1712651 TTTATTCAATGAACTAA
1 TTTATTCAATGAACTAA
1712668 ATGCATGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
17 5 0.16
18 26 0.84
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (18 bp):
TTTATTCAATGAACTAAC
Found at i:1712743 original size:17 final size:17
Alignment explanation
Indices: 1712723--1712770 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
1712713 ACTACTTCCC
1712723 TAAATGAAATACATGCT
1 TAAATGAAATACATGCT
* * *
1712740 TAAATGCAATGCATGGT
1 TAAATGAAATACATGCT
* *
1712757 TTAATGAAAAACAT
1 TAAATGAAATACAT
1712771 ATTAAATGCA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (17 bp):
TAAATGAAATACATGCT
Found at i:1714793 original size:21 final size:23
Alignment explanation
Indices: 1714758--1714800 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
1714748 TTTTTTCTTT
1714758 CTTTCTTTCTTTTATTTTTTTAA
1 CTTTCTTTCTTTTATTTTTTTAA
1714781 CTTT-TTT-TTTTATTTTTTTA
1 CTTTCTTTCTTTTATTTTTTTA
1714801 CTAACCCGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 13 0.65
22 3 0.15
23 4 0.20
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (23 bp):
CTTTCTTTCTTTTATTTTTTTAA
Found at i:1716352 original size:18 final size:18
Alignment explanation
Indices: 1716310--1716355 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
1716300 TAGTTTGATT
*
1716310 AATGAAATAACATTATTC
1 AATGAACTAACATTATTC
*
1716328 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
1716346 AATGAACTAA
1 AATGAACTAA
1716356 ATGCATGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:1716431 original size:17 final size:17
Alignment explanation
Indices: 1716411--1716452 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
1716401 ACTACTTCCC
1716411 TAAATGAAATACATGCT
1 TAAATGAAATACATGCT
* *
1716428 TAAATGCAATGCATGCT
1 TAAATGAAATACATGCT
*
1716445 TTAATGAA
1 TAAATGAA
1716453 CAACATACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (17 bp):
TAAATGAAATACATGCT
Found at i:1717614 original size:24 final size:23
Alignment explanation
Indices: 1717586--1717637 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
1717576 TTGATCATCC
* *
1717586 AAAATAAAATTATTTAAATATTTT
1 AAAATAAAATAACTTAAAT-TTTT
*
1717610 AAAATAATATAACTTAAATTTTT
1 AAAATAAAATAACTTAAATTTTT
1717633 AAAAT
1 AAAAT
1717638 CACTTTTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAATAAAATAACTTAAATTTTT
Found at i:1717997 original size:2 final size:2
Alignment explanation
Indices: 1717990--1718017 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1717980 ATCTTAACTC
1717990 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
1718018 GATTATGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1724973 original size:31 final size:31
Alignment explanation
Indices: 1724927--1725003 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
1724917 TAATAATTAT
* *
1724927 TTTTTGTATTTGTGAATGATATGATGATATA
1 TTTTTATATTAGTGAATGATATGATGATATA
1724958 TTTTTATATTAGTGAATGATATGATGATATA
1 TTTTTATATTAGTGAATGATATGATGATATA
1724989 TTTTTATATTAGTGA
1 TTTTTATATTAGTGA
1725004 TTACATTCCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (31 bp):
TTTTTATATTAGTGAATGATATGATGATATA
Found at i:1725443 original size:24 final size:23
Alignment explanation
Indices: 1725416--1725487 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 23
1725406 TATGTTTTCA
1725416 ATCCTTTAAAATTTTTATAAATTT
1 ATCCTTTAAAA-TTTTATAAATTT
* *
1725440 ATCCCAATTAAAATTTTACAAATTT
1 AT-CC-TTTAAAATTTTATAAATTT
*
1725465 AGTCCTATT-AAGTTTTATAAATT
1 A-TCCT-TTAAAATTTTATAAATT
1725488 CATCATTTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
24 14 0.36
25 18 0.46
26 7 0.18
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (23 bp):
ATCCTTTAAAATTTTATAAATTT
Found at i:1725474 original size:25 final size:25
Alignment explanation
Indices: 1725416--1725475 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
1725406 TATGTTTTCA
*
1725416 ATCCT-TTAAAATTTTTATAAATTT
1 ATCCTATTAAAATTTTTACAAATTT
*
1725440 ATCCCAATTAAAA-TTTTACAAATTT
1 AT-CCTATTAAAATTTTTACAAATTT
1725465 AGTCCTATTAA
1 A-TCCTATTAA
1725476 GTTTTATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 2 0.07
25 21 0.70
26 7 0.23
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.45
Consensus pattern (25 bp):
ATCCTATTAAAATTTTTACAAATTT
Found at i:1725740 original size:45 final size:43
Alignment explanation
Indices: 1725689--1725808 Score: 132
Period size: 43 Copynumber: 2.7 Consensus size: 43
1725679 GCTAAAGTTC
*
1725689 GCGGCGTTTGGTAACAAAAAATGCCGCAATAGGTAACGATATATA
1 GCGGCGTTT-GT-ACAAAAAACGCCGCAATAGGTAACGATATATA
* * *** *
1725734 GCGGCGTTTGTCCAACAAACGCCGCAATAGGTGTTGATATTTA
1 GCGGCGTTTGTACAAAAAACGCCGCAATAGGTAACGATATATA
* * *
1725777 GCGGCGTTTTTCCAACAAACGCCGCAATAGGT
1 GCGGCGTTTGTACAAAAAACGCCGCAATAGGT
1725809 GTTGAGATTT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 56 0.84
44 2 0.03
45 9 0.13
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (43 bp):
GCGGCGTTTGTACAAAAAACGCCGCAATAGGTAACGATATATA
Found at i:1725764 original size:43 final size:43
Alignment explanation
Indices: 1725711--1725956 Score: 253
Period size: 43 Copynumber: 5.8 Consensus size: 43
1725701 AACAAAAAAT
*** *
1725711 GCCGCAATAGGTAACGATATATAGCGGCGTTTGTCCAACAAAC
1 GCCGCAATAGGTGTTGATATATAGCGGCGTTTTTCCAACAAAC
*
1725754 GCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAACAAAC
1 GCCGCAATAGGTGTTGATATATAGCGGCGTTTTTCCAACAAAC
* * * * *
1725797 GCCGCAATAGGTGTTGAGATTTAGCGGAGTTTTTCCCACAAAA
1 GCCGCAATAGGTGTTGATATATAGCGGCGTTTTTCCAACAAAC
* * * *
1725840 GTCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCACAAAC
1 GCCGCAATAGGTGTTGATATATAGCGGCGTTTTTCCAACAAAC
* * * * * **
1725883 ACCGCAAAAGAT-CTGGTATATAGCGGCGTTTTTAGAACAAAC
1 GCCGCAATAGGTGTTGATATATAGCGGCGTTTTTCCAACAAAC
* ** *
1725925 GCCGCAAAAGGTCAT-ATCTATAGCGGCGTTTT
1 GCCGCAATAGGTGTTGATATATAGCGGCGTTTT
1725957 AAGATACAAA
Statistics
Matches: 174, Mismatches: 28, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
42 48 0.28
43 126 0.72
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (43 bp):
GCCGCAATAGGTGTTGATATATAGCGGCGTTTTTCCAACAAAC
Found at i:1725923 original size:42 final size:42
Alignment explanation
Indices: 1725861--1725967 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 42
1725851 TGTTGAGATT
*** *
1725861 TAGCGGCGTTTTTCCCACAAACACCGCAAAAGATC-TGGTATA
1 TAGCGGCGTTTTTAGAACAAACACCGCAAAAGATCAT-ATATA
* * *
1725903 TAGCGGCGTTTTTAGAACAAACGCCGCAAAAGGTCATATCTA
1 TAGCGGCGTTTTTAGAACAAACACCGCAAAAGATCATATATA
*
1725945 TAGCGGCGTTTTAAGATACAAAC
1 TAGCGGCGTTTTTAGA-ACAAAC
1725968 GCCACCTCTC
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 48 0.87
43 7 0.13
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (42 bp):
TAGCGGCGTTTTTAGAACAAACACCGCAAAAGATCATATATA
Found at i:1726103 original size:21 final size:21
Alignment explanation
Indices: 1726077--1726135 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
1726067 ATTTTCCAAT
*
1726077 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
* *
1726098 AAACTTAAAATCCATAACAAG
1 AAACTTGAAATCCATAACAAC
**
1726119 AAAAATGAAATCCATAA
1 AAACTTGAAATCCATAA
1726136 TAATAAATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.56, C:0.20, G:0.05, T:0.19
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:1730111 original size:41 final size:41
Alignment explanation
Indices: 1729957--1730119 Score: 143
Period size: 41 Copynumber: 4.0 Consensus size: 41
1729947 CTAATAAATT
* * * *
1729957 GCGGCGTTTATTTAAACACGCCGCTAAAATACTACGTTTTA
1 GCGGCGTTTATTGAAAAACGCCACTAAAGTACTACGTTTTA
* * * *
1729998 GCAGCGTTTGTT-AGGAAACGCCACTAAAGTACGA-GTATTTA
1 GCGGCGTTTATTGA-AAAACGCCACTAAAGTACTACGT-TTTA
* * * *
1730039 GCGACGTTT-TTGCTTAAAACGCCATTAAAGTATTACGTTTTA
1 GCGGCGTTTATTG--AAAAACGCCACTAAAGTACTACGTTTTA
* *
1730081 GCGGCGTTTATTGAAAAACGCCAATAAAGTACTAGGTTT
1 GCGGCGTTTATTGAAAAACGCCACTAAAGTACTACGTTT
1730120 CAACGACGTT
Statistics
Matches: 96, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
40 5 0.05
41 58 0.60
42 28 0.29
43 5 0.05
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (41 bp):
GCGGCGTTTATTGAAAAACGCCACTAAAGTACTACGTTTTA
Found at i:1730127 original size:83 final size:82
Alignment explanation
Indices: 1729989--1730144 Score: 190
Period size: 83 Copynumber: 1.9 Consensus size: 82
1729979 GCTAAAATAC
* * * * * * *
1729989 TACGTTTTAGCAGCGTTTGTTAGGAAACGCCACTAAAGTACGAGTATTTAGCGACGTTTTTGCTT
1 TACGTTTTAGCAGCGTTTATTAGAAAACGCCAATAAAGTACGAGTATTCAACGACG-TTTTCCTA
1730054 AAAACGCCATTAAAGTAT
65 AAAACGCCATTAAAGTAT
* *
1730072 TACGTTTTAGCGGCGTTTATT-GAAAAACGCCAATAAAGTACTAGGT-TTCAACGACGTTTTCCT
1 TACGTTTTAGCAGCGTTTATTAG-AAAACGCCAATAAAGTACGA-GTATTCAACGACGTTTTCCT
1730135 AAAAACGCCA
64 AAAAACGCCA
1730145 CGATATATGT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
82 16 0.26
83 44 0.71
84 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (82 bp):
TACGTTTTAGCAGCGTTTATTAGAAAACGCCAATAAAGTACGAGTATTCAACGACGTTTTCCTAA
AAACGCCATTAAAGTAT
Found at i:1730249 original size:41 final size:41
Alignment explanation
Indices: 1730204--1730294 Score: 114
Period size: 41 Copynumber: 2.2 Consensus size: 41
1730194 CTATTCTATG
**
1730204 GCGGCGTTTGT-TTACAAACGCCACTAAAGTACTGA-TTGTTA
1 GCGGCGTTTGTCAAACAAACGCCACTAAAGTAC-GAGTT-TTA
* *
1730245 GCGGCGTTTGTCAAATAAATGCCACTAAAGTACGAGTTTTA
1 GCGGCGTTTGTCAAACAAACGCCACTAAAGTACGAGTTTTA
1730286 GCGGCGTTT
1 GCGGCGTTT
1730295 TAAATATAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
41 25 0.57
42 19 0.43
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (41 bp):
GCGGCGTTTGTCAAACAAACGCCACTAAAGTACGAGTTTTA
Found at i:1730304 original size:41 final size:42
Alignment explanation
Indices: 1730223--1730304 Score: 116
Period size: 41 Copynumber: 2.0 Consensus size: 42
1730213 GTTTACAAAC
*
1730223 GCCACTAAAGTACTGATTGTTAGCGGCGTTTGTCAAATAAAT
1 GCCACTAAAGTACTGATTGTTAGCGGCGTTTGTAAAATAAAT
1730265 GCCACTAAAGTAC-GAGTT-TTAGCGGCGTTT-TAAATATAAA
1 GCCACTAAAGTACTGA-TTGTTAGCGGCGTTTGTAAA-ATAAA
1730305 CGCCGTGATA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
40 3 0.08
41 19 0.51
42 15 0.41
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (42 bp):
GCCACTAAAGTACTGATTGTTAGCGGCGTTTGTAAAATAAAT
Found at i:1736259 original size:39 final size:39
Alignment explanation
Indices: 1736215--1736326 Score: 197
Period size: 39 Copynumber: 2.9 Consensus size: 39
1736205 CCCTCCATCC
1736215 AGCAGCCCCTCCACGCATCATTTCCAGCAGCTTCCAGCG
1 AGCAGCCCCTCCACGCATCATTTCCAGCAGCTTCCAGCG
1736254 AGCAGCCCCTCCACGCATCATTTCCAGCAGCTTCCAGCG
1 AGCAGCCCCTCCACGCATCATTTCCAGCAGCTTCCAGCG
* * *
1736293 AGCAGCCCCTCCACGCATCAGTTGCAGCGGCTTC
1 AGCAGCCCCTCCACGCATCATTTCCAGCAGCTTC
1736327 TAGCACTGCC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.20, C:0.43, G:0.20, T:0.18
Consensus pattern (39 bp):
AGCAGCCCCTCCACGCATCATTTCCAGCAGCTTCCAGCG
Found at i:1736380 original size:10 final size:10
Alignment explanation
Indices: 1736365--1736390 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1736355 CTGCCACGCT
1736365 GAAGCCTCCA
1 GAAGCCTCCA
1736375 GAAGCCTCCA
1 GAAGCCTCCA
1736385 GAAGCC
1 GAAGCC
1736391 AGCTGCCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.38, G:0.23, T:0.08
Consensus pattern (10 bp):
GAAGCCTCCA
Found at i:1737693 original size:11 final size:11
Alignment explanation
Indices: 1737677--1737703 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1737667 AGTACTTTAA
1737677 TTATTATTATT
1 TTATTATTATT
1737688 TTATTATTATT
1 TTATTATTATT
1737699 TTATT
1 TTATT
1737704 TTAGTCATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTATTATT
Found at i:1737975 original size:31 final size:31
Alignment explanation
Indices: 1737940--1737999 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
1737930 TCTGATATTT
1737940 CTAAATAA-ATAAATATTTTA-TTTATAAAACC
1 CTAAA-AATATAAAT-TTTTACTTTATAAAACC
*
1737971 CTAAAAATATACATTTTTACTTTATAAAA
1 CTAAAAATATAAATTTTTACTTTATAAAA
1738000 ATTATTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (31 bp):
CTAAAAATATAAATTTTTACTTTATAAAACC
Found at i:1739990 original size:42 final size:43
Alignment explanation
Indices: 1739910--1739990 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 43
1739900 GGCTTTAGAG
*
1739910 AAGTCAGGAGGGAAAGTTATCCCCTATATGTAAAGTTTTACTA
1 AAGTCAGGAGGGAAAGATATCCCCTATATGTAAAGTTTTACTA
* * *
1739953 AAGTTAGGAGTGAAAGATAT-CCTTATATGTAAAGTTTT
1 AAGTCAGGAGGGAAAGATATCCCCTATATGTAAAGTTTT
1739991 GTTTGATGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 17 0.50
43 17 0.50
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (43 bp):
AAGTCAGGAGGGAAAGATATCCCCTATATGTAAAGTTTTACTA
Found at i:1740180 original size:12 final size:12
Alignment explanation
Indices: 1740163--1740216 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
1740153 ACATTCACAT
1740163 ATTTACATTTGC
1 ATTTACATTTGC
1740175 ATTTACATTTGC
1 ATTTACATTTGC
* *
1740187 ATTTTTACGTTTGT
1 A--TTTACATTTGC
*
1740201 ATTTACATTTTC
1 ATTTACATTTGC
1740213 ATTT
1 ATTT
1740217 TTACATAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 25 0.71
14 10 0.29
ACGTcount: A:0.22, C:0.13, G:0.07, T:0.57
Consensus pattern (12 bp):
ATTTACATTTGC
Found at i:1740193 original size:26 final size:26
Alignment explanation
Indices: 1740164--1740222 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
1740154 CATTCACATA
1740164 TTTACATTTGCATTTACATTTGCATT
1 TTTACATTTGCATTTACATTTGCATT
* * *
1740190 TTTACGTTTGTATTTACATTTTCATT
1 TTTACATTTGCATTTACATTTGCATT
1740216 TTTACAT
1 TTTACAT
1740223 AATTACATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.22, C:0.14, G:0.07, T:0.58
Consensus pattern (26 bp):
TTTACATTTGCATTTACATTTGCATT
Found at i:1740219 original size:14 final size:14
Alignment explanation
Indices: 1740140--1740222 Score: 50
Period size: 14 Copynumber: 6.2 Consensus size: 14
1740130 ATACAATTTG
* *
1740140 CATTTTTATTATTA
1 CATTTTCATTTTTA
** *
1740154 CATTCACATATTTA
1 CATTTTCATTTTTA
*
1740168 CATTTGCA--TTTA
1 CATTTTCATTTTTA
*
1740180 CATTTGCATTTTTA
1 CATTTTCATTTTTA
*
1740194 CGTTTGT-A--TTTA
1 CATTT-TCATTTTTA
1740206 CATTTTCATTTTTA
1 CATTTTCATTTTTA
1740220 CAT
1 CAT
1740223 AATTACATTT
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
11 1 0.02
12 21 0.40
14 31 0.58
ACGTcount: A:0.25, C:0.14, G:0.05, T:0.55
Consensus pattern (14 bp):
CATTTTCATTTTTA
Found at i:1742304 original size:2 final size:2
Alignment explanation
Indices: 1742297--1742324 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1742287 TTATCCTTTA
1742297 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
1742325 CCTTTGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1742647 original size:26 final size:27
Alignment explanation
Indices: 1742611--1742692 Score: 87
Period size: 26 Copynumber: 3.0 Consensus size: 27
1742601 TATTATACTC
1742611 ATCCAACAAAGAAA-GAAAAAAGAAAA
1 ATCCAACAAAGAAAGGAAAAAAGAAAA
*
1742637 ATCCAGCAAAGAAAGGAAAAAAGAATAA
1 ATCCAACAAAGAAAGGAAAAAAGAA-AA
* * * *
1742665 AGACGAAAAAAGAAA-AAAAAAAGAAAA
1 A-TCCAACAAAGAAAGGAAAAAAGAAAA
1742692 A
1 A
1742693 AAGGAAAGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
26 13 0.28
27 13 0.28
28 12 0.26
29 9 0.19
ACGTcount: A:0.73, C:0.09, G:0.15, T:0.04
Consensus pattern (27 bp):
ATCCAACAAAGAAAGGAAAAAAGAAAA
Found at i:1742684 original size:9 final size:9
Alignment explanation
Indices: 1742669--1742740 Score: 58
Period size: 9 Copynumber: 7.8 Consensus size: 9
1742659 GAATAAAGAC
1742669 GAAAAAAGAA
1 GAAAAAA-AA
1742679 -AAAAAAAA
1 GAAAAAAAA
*
1742687 GAAAAAAAG
1 GAAAAAAAA
1742696 GAAAGAAATAA
1 GAAA-AAA-AA
1742707 -AAAAAATAA
1 GAAAAAA-AA
* *
1742716 TAATAAAAA
1 GAAAAAAAA
*
1742725 GGAAAAAAA
1 GAAAAAAAA
1742734 GAAAAAA
1 GAAAAAA
1742741 TTAAATTAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
8 2 0.04
9 37 0.73
10 11 0.22
11 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:1742710 original size:19 final size:19
Alignment explanation
Indices: 1742670--1742740 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
1742660 AATAAAGACG
1742670 AAAAAAGAAAAAAAAAAGA
1 AAAAAAGAAAAAAAAAAGA
* * *
1742689 AAAAAAGGAAAGAAATA-A
1 AAAAAAGAAAAAAAAAAGA
* *
1742707 AAAAAATAATAATAAAAAGGA
1 AAAAAAGAA-AA-AAAAAAGA
1742728 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
1742741 TTAAATTAAG
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
18 8 0.20
19 18 0.45
20 5 0.12
21 9 0.22
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (19 bp):
AAAAAAGAAAAAAAAAAGA
Found at i:1742724 original size:30 final size:28
Alignment explanation
Indices: 1742644--1742740 Score: 106
Period size: 28 Copynumber: 3.4 Consensus size: 28
1742634 AAAATCCAGC
* * *
1742644 AAAGAAAGGAAAAAAGAATAAAGACGAAA
1 AAAGAAA-AAAAAAAGAATAAAAAGGAAA
1742673 AAAGAAAAAAAAAAGAA-AAAAAGGAAA
1 AAAGAAAAAAAAAAGAATAAAAAGGAAA
* *
1742700 GAAATAAAAAAAATAATAATAAAAAGGAAAA
1 -AAAGAAAAAAAA-AAGAATAAAAAGG-AAA
1742731 AAAGAAAAAA
1 AAAGAAAAAA
1742741 TTAAATTAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
27 8 0.14
28 20 0.34
29 11 0.19
30 16 0.28
31 3 0.05
ACGTcount: A:0.79, C:0.01, G:0.14, T:0.05
Consensus pattern (28 bp):
AAAGAAAAAAAAAAGAATAAAAAGGAAA
Found at i:1743348 original size:32 final size:32
Alignment explanation
Indices: 1743312--1743373 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
1743302 GTCAGACACA
*
1743312 AGAAGTATCTCTACCAGATGAGCATAACAACG
1 AGAAGTATCTCTACAAGATGAGCATAACAACG
1743344 AGAAGTATCTCTACAAGATGAGCATAACAA
1 AGAAGTATCTCTACAAGATGAGCATAACAA
1743374 TCATTTCTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (32 bp):
AGAAGTATCTCTACAAGATGAGCATAACAACG
Found at i:1747261 original size:54 final size:54
Alignment explanation
Indices: 1747175--1747340 Score: 260
Period size: 54 Copynumber: 3.1 Consensus size: 54
1747165 CAATGATTGA
*
1747175 GAACATCTGAGCAGAAACCACAGGAAATGATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
* * *
1747229 GAACATCTGAGCAGAAACTACAGTAAAGGATGAATGTGTTATCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
* * **
1747283 GAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGCGCCGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
1747337 GAAC
1 GAAC
1747341 CTGCTATTCT
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 101 1.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.23
Consensus pattern (54 bp):
GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
Found at i:1747724 original size:22 final size:22
Alignment explanation
Indices: 1747698--1747776 Score: 104
Period size: 22 Copynumber: 3.6 Consensus size: 22
1747688 ACATCTACAT
1747698 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
1747720 TCTTCAAAGATGATAGATTCCC
1 TCTTCAAAGATGATAGATTCTC
* * * *
1747742 TTTTTAAAGATGACAGATTATC
1 TCTTCAAAGATGATAGATTCTC
*
1747764 TTTTCAAAGATGA
1 TCTTCAAAGATGA
1747777 AAGCTTTATC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:1748378 original size:40 final size:40
Alignment explanation
Indices: 1748323--1748420 Score: 187
Period size: 40 Copynumber: 2.5 Consensus size: 40
1748313 TTTCCAGAGA
*
1748323 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAG
1748363 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAG
1748403 AAGTTCATAATGAGAAGA
1 AAGTTCATAATGAGAAGA
1748421 GCTTGTTCAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.49, C:0.09, G:0.23, T:0.18
Consensus pattern (40 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAG
Found at i:1748645 original size:73 final size:76
Alignment explanation
Indices: 1748526--1748698 Score: 244
Period size: 73 Copynumber: 2.3 Consensus size: 76
1748516 AAGGAAGAAG
** *
1748526 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAAC-T-
1 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATAAGATAGATCAACATA
1748589 TTT-CCAGAGA
66 TTTGCCAGAGA
* *
1748599 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATAAGGTAGATCAACATT
1 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATAAGATAGATCAACA-T
1748664 AACTTTGCCAGAGA
65 -A-TTTGCCAGAGA
*
1748678 AAGTTCATAATAAGAAGAACT
1 AAGTTCATAATGAGAAGAACT
1748699 CATCTGAAGA
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
73 57 0.65
75 1 0.01
78 3 0.03
79 27 0.31
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (76 bp):
AAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATAAGATAGATCAACATA
TTTGCCAGAGA
Found at i:1749136 original size:10 final size:10
Alignment explanation
Indices: 1749121--1749147 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1749111 CACGCATCAT
1749121 TTCCAGCAGC
1 TTCCAGCAGC
1749131 TTCCAGCAGC
1 TTCCAGCAGC
1749141 TTCCAGC
1 TTCCAGC
1749148 GAGCAGCCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.41, G:0.19, T:0.22
Consensus pattern (10 bp):
TTCCAGCAGC
Found at i:1750772 original size:29 final size:31
Alignment explanation
Indices: 1750733--1750790 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
1750723 TCTGATATTT
*
1750733 CTAAATAAATAAATATTTTA-TTTATAAACC
1 CTAAATAAATAAACATTTTACTTTATAAACC
*
1750763 CTAAA-AAATATACATTTTACTTTATAAA
1 CTAAATAAATAAACATTTTACTTTATAAA
1750791 AATTATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (31 bp):
CTAAATAAATAAACATTTTACTTTATAAACC
Found at i:1753088 original size:15 final size:15
Alignment explanation
Indices: 1753068--1753096 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1753058 GCATTTATGC
1753068 ATCAAGAGTTAAAAG
1 ATCAAGAGTTAAAAG
1753083 ATCAAGAGTTAAAA
1 ATCAAGAGTTAAAA
1753097 TAAAAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.07, G:0.17, T:0.21
Consensus pattern (15 bp):
ATCAAGAGTTAAAAG
Found at i:1755459 original size:29 final size:30
Alignment explanation
Indices: 1755425--1755506 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 30
1755415 CCCGAAGGAC
*
1755425 CTATCCAGAGGTCACAAAG-ACCCCGACAA
1 CTATCCAGAGGTCACAAAGAACCCCAACAA
* *
1755454 CTATCCAGAGGTCATAAAGAACCTCAACAA
1 CTATCCAGAGGTCACAAAGAACCCCAACAA
* * * *
1755484 CTGTCCATAGGTCCCGAAGAACC
1 CTATCCAGAGGTCACAAAGAACC
1755507 TAGGTAAACT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 18 0.41
30 26 0.59
ACGTcount: A:0.37, C:0.32, G:0.17, T:0.15
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCCCAACAA
Found at i:1756894 original size:64 final size:63
Alignment explanation
Indices: 1756785--1756925 Score: 153
Period size: 64 Copynumber: 2.2 Consensus size: 63
1756775 TCTTTAACAT
* * *
1756785 GTGCATCGATGCACTACCCATGCATCGATACACAAATTACCTTCGATATTTTCAT-TTTAAAGG
1 GTGCATCGATGCACTACCCATGCATCGATACACAAATTACATTCGAT-GTTTCATCTTTAAAGA
* * * * *
1756848 GATGCATCGATGCACT-CCTTATGCATCGA-AGCACCATTTGCATTCGATGTTTCTTCTTTAAAG
1 G-TGCATCGATGCACTACC-CATGCATCGATA-CACAAATTACATTCGATGTTTCATCTTTAAAG
1756911 A
63 A
1756912 GTGCATCGATGCAC
1 GTGCATCGATGCAC
1756926 ATTACATTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
63 22 0.33
64 44 0.67
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
Found at i:1759878 original size:12 final size:13
Alignment explanation
Indices: 1759854--1759901 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
1759844 ATAAATAATA
*
1759854 AAAAAATTACAAT
1 AAAAAAGTACAAT
1759867 AAAAAAGT-CAAT
1 AAAAAAGTACAAT
* *
1759879 AAACAACTACAAT
1 AAAAAAGTACAAT
1759892 AAAAAAGTAC
1 AAAAAAGTAC
1759902 TAAATACAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
12 10 0.34
13 19 0.66
ACGTcount: A:0.67, C:0.12, G:0.04, T:0.17
Consensus pattern (13 bp):
AAAAAAGTACAAT
Found at i:1759910 original size:26 final size:25
Alignment explanation
Indices: 1759850--1759923 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 25
1759840 AATGATAAAT
*
1759850 AATAAAAAAATTACAATAAAAAAGTC
1 AATAAACAAA-TACAATAAAAAAGTC
*
1759876 AATAAACAACTACAATAAAAAAGTAC
1 AATAAACAAATACAATAAAAAAGT-C
* *
1759902 TAA-ATACAAATATAATAAAAAA
1 -AATAAACAAATACAATAAAAAA
1759924 TAAAACCTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 14 0.34
26 25 0.61
27 2 0.05
ACGTcount: A:0.69, C:0.09, G:0.03, T:0.19
Consensus pattern (25 bp):
AATAAACAAATACAATAAAAAAGTC
Found at i:1762138 original size:17 final size:18
Alignment explanation
Indices: 1762118--1762154 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
1762108 TTTATATAAG
1762118 TAAAATA-TTAAATAAAT
1 TAAAATACTTAAATAAAT
*
1762135 T-AAATACTTATATAAAT
1 TAAAATACTTAAATAAAT
1762152 TAA
1 TAA
1762155 GGGTAAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 3
0.81 0.05 0.14
Matches are distributed among these distances:
16 5 0.29
17 11 0.65
18 1 0.06
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAATACTTAAATAAAT
Found at i:1764892 original size:13 final size:13
Alignment explanation
Indices: 1764874--1764905 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
1764864 TTAAACCTAA
1764874 GGCGCGTCGTAGG
1 GGCGCGTCGTAGG
1764887 GGCGCGTCGTAGG
1 GGCGCGTCGTAGG
1764900 GGCGCG
1 GGCGCG
1764906 CCTTACTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.25, G:0.56, T:0.12
Consensus pattern (13 bp):
GGCGCGTCGTAGG
Found at i:1775318 original size:166 final size:167
Alignment explanation
Indices: 1775031--1775365 Score: 606
Period size: 166 Copynumber: 2.0 Consensus size: 167
1775021 GGCCTTCATC
1775031 TTCAATTTCCACAGTGAGAAATTTCTCCCATTGAATTTTTCAATATCAAATTTTGTTGCCATAGC
1 TTCAATTTCCACAGTGAGAAATTTCTCCCATTGAATTTTTCAATATCAAATTTTGTTGCCATAGC
1775096 TTCTATTGATAGCTCCCACTATTTCACTATCGTGAATAGTTCTCTAGAACCTCAAAGAATGGGTA
66 TTCTATTGATAGCTCCCACTATTTCACTATCGTGAATAGTTCTCTAGAACCTCAAAGAATGGGTA
1775161 ATACC-TCTTA-TTCTTATGTTGGAGGATCCACCTTT
131 ATACCTTCTTATTTCTTATGTTGGAGGATCCACCTTT
1775196 TTCAATTTCCACAGTGAGAAATTTCTCCCATTGAATTTTTCAATATCAAA-TTT-TTGCCATAGC
1 TTCAATTTCCACAGTGAGAAATTTCTCCCATTGAATTTTTCAATATCAAATTTTGTTGCCATAGC
1775259 TTCTATTATTGATAGCTCCCACTATTTCACTATCGTGAATAGTTCTCTAGAACCTCAAAGAATGG
66 TTC---TATTGATAGCTCCCACTATTTCACTATCGTGAATAGTTCTCTAGAACCTCAAAGAATGG
1775324 GTAATACCTTCTTATTTTCTTATGTTGGAGGATCCACCTTT
128 GTAATACCTTCTTA-TTTCTTATGTTGGAGGATCCACCTTT
1775365 T
1 T
1775366 GGTAGCAACC
Statistics
Matches: 164, Mismatches: 0, Indels: 8
0.95 0.00 0.05
Matches are distributed among these distances:
163 13 0.08
164 3 0.02
165 50 0.30
166 67 0.41
167 5 0.03
169 26 0.16
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (167 bp):
TTCAATTTCCACAGTGAGAAATTTCTCCCATTGAATTTTTCAATATCAAATTTTGTTGCCATAGC
TTCTATTGATAGCTCCCACTATTTCACTATCGTGAATAGTTCTCTAGAACCTCAAAGAATGGGTA
ATACCTTCTTATTTCTTATGTTGGAGGATCCACCTTT
Found at i:1779258 original size:15 final size:15
Alignment explanation
Indices: 1779238--1779267 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1779228 ATGGAATCTA
1779238 AATTGATTATCTATG
1 AATTGATTATCTATG
*
1779253 AATTGATTGTCTATG
1 AATTGATTATCTATG
1779268 TAACAAGCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.47
Consensus pattern (15 bp):
AATTGATTATCTATG
Found at i:1789349 original size:16 final size:16
Alignment explanation
Indices: 1789328--1789364 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
1789318 ACAATGCTTG
1789328 GAATGTAACCTTTCAT
1 GAATGTAACCTTTCAT
1789344 GAATGTAACCTTTCAT
1 GAATGTAACCTTTCAT
1789360 GAATG
1 GAATG
1789365 AACATGTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (16 bp):
GAATGTAACCTTTCAT
Found at i:1799741 original size:21 final size:21
Alignment explanation
Indices: 1799715--1799756 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1799705 GCCCAGAATG
*
1799715 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
*
1799736 GGGAATCGATACGCCTTCATA
1 GGGAATCGATACCCCTTCATA
1799757 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:1802444 original size:20 final size:21
Alignment explanation
Indices: 1802408--1802448 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
1802398 CCAGAATGGG
*
1802408 GGAATCGGTACCCCTTCATAA
1 GGAATCGATACCCCTTCATAA
1802429 GGAATCGATA-CCCTTCATAA
1 GGAATCGATACCCCTTCATAA
1802449 TATTCAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (21 bp):
GGAATCGATACCCCTTCATAA
Found at i:1802577 original size:19 final size:19
Alignment explanation
Indices: 1802553--1802625 Score: 95
Period size: 19 Copynumber: 4.1 Consensus size: 19
1802543 AAACCATTCA
1802553 GGGGAATCTGTACCCCCTG
1 GGGGAATCTGTACCCCCTG
1802572 GGGGAATCTGT--CCCC--
1 GGGGAATCTGTACCCCCTG
1802587 -GGGAAT-TGATACCCCCTG
1 GGGGAATCTG-TACCCCCTG
1802605 GGGGAATCTGTACCCCCTG
1 GGGGAATCTGTACCCCCTG
1802624 GG
1 GG
1802626 CAATCTGATT
Statistics
Matches: 47, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
13 2 0.04
14 7 0.15
16 4 0.09
17 4 0.09
19 28 0.60
20 2 0.04
ACGTcount: A:0.16, C:0.30, G:0.33, T:0.21
Consensus pattern (19 bp):
GGGGAATCTGTACCCCCTG
Found at i:1802600 original size:33 final size:34
Alignment explanation
Indices: 1802554--1802620 Score: 111
Period size: 33 Copynumber: 2.0 Consensus size: 34
1802544 AACCATTCAG
1802554 GGGAATCTGTACCCCCTGGGGGAATCTGT-CCCC
1 GGGAATCTGTACCCCCTGGGGGAATCTGTACCCC
1802587 GGGAAT-TGATACCCCCTGGGGGAATCTGTACCCC
1 GGGAATCTG-TACCCCCTGGGGGAATCTGTACCCC
1802621 CTGGGCAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 2 0.06
33 26 0.81
34 4 0.12
ACGTcount: A:0.18, C:0.31, G:0.30, T:0.21
Consensus pattern (34 bp):
GGGAATCTGTACCCCCTGGGGGAATCTGTACCCC
Found at i:1807027 original size:23 final size:23
Alignment explanation
Indices: 1806992--1807059 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
1806982 ATTATTATAT
1806992 GGCACTACAGTGCAATTCTACGC
1 GGCACTACAGTGCAATTCTACGC
* * *
1807015 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACAGTGCAATTCTACGC
*
1807038 GGCACTTA-AGTGCAATTATACG
1 GGCAC-TACAGTGCAATTCTACG
1807060 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 37 0.97
24 1 0.03
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (23 bp):
GGCACTACAGTGCAATTCTACGC
Found at i:1807107 original size:16 final size:17
Alignment explanation
Indices: 1807088--1807121 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1807078 GTGCACAACC
1807088 TCTATAG-ACTCACATG
1 TCTATAGTACTCACATG
*
1807104 TCTATAGTTCTCACATG
1 TCTATAGTACTCACATG
1807121 T
1 T
1807122 GTACATGGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (17 bp):
TCTATAGTACTCACATG
Found at i:1809388 original size:22 final size:22
Alignment explanation
Indices: 1809355--1809418 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
1809345 GGCATGTGAA
*
1809355 ATATGTCACGAAGGACCTA-TGC
1 ATATGTCCCGAAGGACC-ACTGC
* *
1809377 ATTTGTCCCGAAGGACCACTGT
1 ATATGTCCCGAAGGACCACTGC
*
1809399 ATATGTCCTGAAGGACCACT
1 ATATGTCCCGAAGGACCACT
1809419 ATCCATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
21 1 0.03
22 35 0.97
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (22 bp):
ATATGTCCCGAAGGACCACTGC
Found at i:1809456 original size:30 final size:30
Alignment explanation
Indices: 1809420--1809477 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
1809410 AGGACCACTA
* *
1809420 TCCATATATTCCGAAGAACATATGTAACTG
1 TCCATATATCCCGAAGAACATAGGTAACTG
* *
1809450 TCCATATGTCCCGAAGGACATAGGTAAC
1 TCCATATATCCCGAAGAACATAGGTAAC
1809478 CCTCGACTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (30 bp):
TCCATATATCCCGAAGAACATAGGTAACTG
Found at i:1810746 original size:20 final size:20
Alignment explanation
Indices: 1810721--1810777 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
1810711 TTTCCTTTAG
*
1810721 GGGGTATCGATACCCTCCTT
1 GGGGTATCGGTACCCTCCTT
*
1810741 GGGGTATCGGTACCCACCTT
1 GGGGTATCGGTACCCTCCTT
1810761 GGGGTATCGGTACCCTC
1 GGGGTATCGGTACCCTC
1810778 ACTGCATTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.14, C:0.30, G:0.30, T:0.26
Consensus pattern (20 bp):
GGGGTATCGGTACCCTCCTT
Found at i:1812270 original size:12 final size:12
Alignment explanation
Indices: 1812253--1812278 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1812243 TTATCATCTC
1812253 TTATACTTGTAT
1 TTATACTTGTAT
1812265 TTATACTTGTAT
1 TTATACTTGTAT
1812277 TT
1 TT
1812279 TTCTTCCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (12 bp):
TTATACTTGTAT
Found at i:1820363 original size:119 final size:119
Alignment explanation
Indices: 1820152--1820389 Score: 476
Period size: 119 Copynumber: 2.0 Consensus size: 119
1820142 ACCTTAATGA
1820152 CAAAATGCTAACTTCAATGATCATGGTTGGACTTTGGAGGTATTACACTGAGAAAGAATTAGAGG
1 CAAAATGCTAACTTCAATGATCATGGTTGGACTTTGGAGGTATTACACTGAGAAAGAATTAGAGG
1820217 AATTTTTTTTAATGACATATAATTTTTATATCAGATAAATTCTTTTAAAGAATT
66 AATTTTTTTTAATGACATATAATTTTTATATCAGATAAATTCTTTTAAAGAATT
1820271 CAAAATGCTAACTTCAATGATCATGGTTGGACTTTGGAGGTATTACACTGAGAAAGAATTAGAGG
1 CAAAATGCTAACTTCAATGATCATGGTTGGACTTTGGAGGTATTACACTGAGAAAGAATTAGAGG
1820336 AATTTTTTTTAATGACATATAATTTTTATATCAGATAAATTCTTTTAAAGAATT
66 AATTTTTTTTAATGACATATAATTTTTATATCAGATAAATTCTTTTAAAGAATT
1820390 ATTTGATTAT
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 119 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (119 bp):
CAAAATGCTAACTTCAATGATCATGGTTGGACTTTGGAGGTATTACACTGAGAAAGAATTAGAGG
AATTTTTTTTAATGACATATAATTTTTATATCAGATAAATTCTTTTAAAGAATT
Found at i:1820876 original size:6 final size:6
Alignment explanation
Indices: 1820865--1820890 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1820855 GTGTATAAAG
1820865 GGAAAA GGAAAA GGAAAA GGAAAA GG
1 GGAAAA GGAAAA GGAAAA GGAAAA GG
1820891 TGAAAAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (6 bp):
GGAAAA
Found at i:1821577 original size:17 final size:17
Alignment explanation
Indices: 1821555--1821596 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
1821545 ACACTTTATA
1821555 ATGGAAGCCATGTGAGT
1 ATGGAAGCCATGTGAGT
1821572 ATGGAAGCCATGTGAGT
1 ATGGAAGCCATGTGAGT
*
1821589 ATAGAAGC
1 ATGGAAGC
1821597 AACAACGCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.21
Consensus pattern (17 bp):
ATGGAAGCCATGTGAGT
Found at i:1824981 original size:23 final size:23
Alignment explanation
Indices: 1824940--1824983 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1824930 TGGACGACCG
*
1824940 GATTTTTTACCGGATAAAAAACT
1 GATTTTTTACCCGATAAAAAACT
1824963 GATTTTTTATCCCGA-AAAAAA
1 GATTTTTTA-CCCGATAAAAAA
1824984 TCCGGTCTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (23 bp):
GATTTTTTACCCGATAAAAAACT
Found at i:1825004 original size:20 final size:20
Alignment explanation
Indices: 1824979--1825023 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
1824969 TTATCCCGAA
*
1824979 AAAAATCCGGTCTGGGGTTT
1 AAAAATCCGGTCTGAGGTTT
1824999 AAAAATCCGGTCTGAGGTTT
1 AAAAATCCGGTCTGAGGTTT
1825019 AAAAA
1 AAAAA
1825024 ATTGGATGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (20 bp):
AAAAATCCGGTCTGAGGTTT
Found at i:1825092 original size:16 final size:17
Alignment explanation
Indices: 1825052--1825084 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1825042 TTATCAGATT
1825052 AAAAACCGGTTTTTTTA
1 AAAAACCGGTTTTTTTA
1825069 AAAAACCGGTTTTTTT
1 AAAAACCGGTTTTTTT
1825085 TCAAACCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (17 bp):
AAAAACCGGTTTTTTTA
Found at i:1831726 original size:29 final size:30
Alignment explanation
Indices: 1831657--1831715 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
1831647 AATTTAAGAT
1831657 AAAATGGTTTTTGGACTTGAATTGAATTTAC
1 AAAAT-GTTTTTGGACTTGAATTGAATTTAC
1831688 AAAATGTTTTTGGACTT-AATTGAATTTA
1 AAAATGTTTTTGGACTTGAATTGAATTTA
1831716 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 12 0.43
31 5 0.18
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (30 bp):
AAAATGTTTTTGGACTTGAATTGAATTTAC
Found at i:1831821 original size:21 final size:21
Alignment explanation
Indices: 1831795--1831851 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
1831785 AGGGTGTCAA
*
1831795 AGTGCATCCATGTACCCCTAC
1 AGTGCATCCATGCACCCCTAC
* **
1831816 AGTGCATCCATGCATCCCTGT
1 AGTGCATCCATGCACCCCTAC
1831837 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
1831852 ATGCACTAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.25
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTAC
Found at i:1831866 original size:22 final size:23
Alignment explanation
Indices: 1831836--1831879 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1831826 TGCATCCCTG
*
1831836 TAGTGCATCCATGCA-CATGCAC
1 TAGTACATCCATGCACCATGCAC
*
1831858 TAGTACATCGATGCACCATGCA
1 TAGTACATCCATGCACCATGCA
1831880 GTCCATGCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (23 bp):
TAGTACATCCATGCACCATGCAC
Found at i:1836138 original size:18 final size:18
Alignment explanation
Indices: 1836117--1836170 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
1836107 ATGTAAATAT
1836117 TTATGAGATTTTAAATTA
1 TTATGAGATTTTAAATTA
*
1836135 TTATGAG----TAATTTGA
1 TTATGAGATTTTAAATT-A
1836150 TTCATGAGATTTTAAATTA
1 TT-ATGAGATTTTAAATTA
1836169 TT
1 TT
1836171 TTAGGAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 11
0.68 0.05 0.27
Matches are distributed among these distances:
14 5 0.18
15 3 0.11
16 5 0.18
18 7 0.25
19 3 0.11
20 5 0.18
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (18 bp):
TTATGAGATTTTAAATTA
Found at i:1838417 original size:57 final size:58
Alignment explanation
Indices: 1838289--1838425 Score: 258
Period size: 57 Copynumber: 2.4 Consensus size: 58
1838279 TTAAGCAGAC
1838289 AAGATTATATATTTTATATTTGAGAAAGATTTTAAGTTGAAAAATCATTTGTTTTTCA
1 AAGATTATATATTTTATATTTGAGAAAGATTTTAAGTTGAAAAATCATTTGTTTTTCA
*
1838347 AAGATTATATATTTTATATTTGAGAAAGATTTTAAG-TGGAAAATCATTTGTTTTTCA
1 AAGATTATATATTTTATATTTGAGAAAGATTTTAAGTTGAAAAATCATTTGTTTTTCA
1838404 AAGATTATATATTTTATATTTG
1 AAGATTATATATTTTATATTTG
1838426 TTTTTAAGTT
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
57 42 0.54
58 36 0.46
ACGTcount: A:0.37, C:0.03, G:0.12, T:0.47
Consensus pattern (58 bp):
AAGATTATATATTTTATATTTGAGAAAGATTTTAAGTTGAAAAATCATTTGTTTTTCA
Found at i:1840860 original size:71 final size:70
Alignment explanation
Indices: 1840731--1840868 Score: 213
Period size: 71 Copynumber: 2.0 Consensus size: 70
1840721 GTTGAGATAC
* * *
1840731 CTTCAAGTTCAAGTGAAAGCCATTCAACTACAGCTTGTTCGACCTAAATGTCGGTATCATGGAGG
1 CTTCAAGTTCAAGGGAAAGACATTCAACTACAGCTTGTTCGACCTAAATGTCAGTATCATGGAGG
1840796 AATTA
66 AATTA
* * *
1840801 CTTCAAGTTCAAGGGAAAGACATTCATCTACCATCTTGTTCGACCTAAATGTTAGTATCATGGAG
1 CTTCAAGTTCAAGGGAAAGACATTCAACTA-CAGCTTGTTCGACCTAAATGTCAGTATCATGGAG
1840866 GAA
65 GAA
1840869 CCCTCATCTT
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
70 27 0.44
71 34 0.56
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (70 bp):
CTTCAAGTTCAAGGGAAAGACATTCAACTACAGCTTGTTCGACCTAAATGTCAGTATCATGGAGG
AATTA
Found at i:1846702 original size:18 final size:17
Alignment explanation
Indices: 1846679--1846712 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1846669 CAGTCTATTT
1846679 TATTTTAATGATTTTATA
1 TATTTTAAT-ATTTTATA
*
1846697 TATTTTGATATTTTAT
1 TATTTTAATATTTTAT
1846713 TTAATTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
TATTTTAATATTTTATA
Found at i:1846991 original size:14 final size:15
Alignment explanation
Indices: 1846972--1847002 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
1846962 CTAGAACTAT
1846972 TTTAGTTTA-TTTTA
1 TTTAGTTTAGTTTTA
1846986 TTTAGTTTAGTTTTA
1 TTTAGTTTAGTTTTA
1847001 TT
1 TT
1847003 GGTAACTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (15 bp):
TTTAGTTTAGTTTTA
Found at i:1848881 original size:20 final size:20
Alignment explanation
Indices: 1848856--1848912 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
1848846 AATATTTGTC
*
1848856 CCGAAGGACCACTGATTATT
1 CCGAAGAACCACTGATTATT
1848876 CCGAAGAACCACT-A-TA-T
1 CCGAAGAACCACTGATTATT
1848893 CCAGAAGAACCACTGATTAT
1 CC-GAAGAACCACTGATTAT
1848913 CCCTCGACTC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
17 3 0.09
18 13 0.41
19 2 0.06
20 14 0.44
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (20 bp):
CCGAAGAACCACTGATTATT
Found at i:1853161 original size:12 final size:12
Alignment explanation
Indices: 1853144--1853173 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1853134 TAGGGCCATT
1853144 AGTTTTACATCA
1 AGTTTTACATCA
*
1853156 AGTTTTACATTA
1 AGTTTTACATCA
1853168 AGTTTT
1 AGTTTT
1853174 CTTTATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (12 bp):
AGTTTTACATCA
Found at i:1856863 original size:11 final size:12
Alignment explanation
Indices: 1856836--1856867 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
1856826 TTTTCGTTGT
1856836 TTTTATTTTTAA
1 TTTTATTTTTAA
1856848 TTTTATTTTTAA
1 TTTTATTTTTAA
1856860 -TTTATTTT
1 TTTTATTTT
1856868 CCTTGACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTATTTTTAA
Found at i:1859134 original size:12 final size:12
Alignment explanation
Indices: 1859117--1859146 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1859107 TAGGGCTATT
1859117 AGTTTTACATCA
1 AGTTTTACATCA
*
1859129 AGTTTTACATTA
1 AGTTTTACATCA
1859141 AGTTTT
1 AGTTTT
1859147 CTTTATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (12 bp):
AGTTTTACATCA
Found at i:1863043 original size:18 final size:18
Alignment explanation
Indices: 1863020--1863092 Score: 101
Period size: 18 Copynumber: 3.9 Consensus size: 18
1863010 ACTGAATATT
1863020 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
1863038 TGTCCCGAAGGACCACTGA
1 TGTCCCGAAGGACCACT-A
* *
1863057 TTGTTCCGAATGACCACTA
1 -TGTCCCGAAGGACCACTA
*
1863076 TGTCCCAAAGGACCACT
1 TGTCCCGAAGGACCACT
1863093 GATTATCCCT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 31 0.65
19 2 0.04
20 15 0.31
ACGTcount: A:0.27, C:0.32, G:0.21, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:1863072 original size:38 final size:38
Alignment explanation
Indices: 1863019--1863101 Score: 130
Period size: 38 Copynumber: 2.2 Consensus size: 38
1863009 CACTGAATAT
*
1863019 TTGTCCCGAAGGACCACTATGTCCCGAAGGACCACTGA
1 TTGTCCCGAAGGACCACTATGTCCCAAAGGACCACTGA
* *
1863057 TTGTTCCGAATGACCACTATGTCCCAAAGGACCACTGA
1 TTGTCCCGAAGGACCACTATGTCCCAAAGGACCACTGA
*
1863095 TTATCCC
1 TTGTCCC
1863102 TCGACTCTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (38 bp):
TTGTCCCGAAGGACCACTATGTCCCAAAGGACCACTGA
Found at i:1863681 original size:24 final size:24
Alignment explanation
Indices: 1863649--1863707 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
1863639 TTTATAGTGT
*
1863649 ATCGATGCATTCCTTACCGGGTGC
1 ATCGATGCACTCCTTACCGGGTGC
1863673 ATCGATGCACTCCTTACCGGGTGC
1 ATCGATGCACTCCTTACCGGGTGC
1863697 ATCGATGCACT
1 ATCGATGCACT
1863708 ACCTGTGCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.19, C:0.31, G:0.24, T:0.27
Consensus pattern (24 bp):
ATCGATGCACTCCTTACCGGGTGC
Found at i:1869056 original size:2 final size:2
Alignment explanation
Indices: 1869051--1869106 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
1869041 TTGAGGGTGA
1869051 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1869093 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
1869107 TAATAAAAGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1873531 original size:21 final size:21
Alignment explanation
Indices: 1873489--1873533 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1873479 GATTTAACTA
* * *
1873489 AAAAGTTTTAATATGCAATAT
1 AAAAGTTCTAAAAAGCAATAT
*
1873510 AAAAGTTCTAAAAAGCAGTAT
1 AAAAGTTCTAAAAAGCAATAT
1873531 AAA
1 AAA
1873534 TGACTTCTAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.29
Consensus pattern (21 bp):
AAAAGTTCTAAAAAGCAATAT
Found at i:1877575 original size:38 final size:38
Alignment explanation
Indices: 1877524--1877596 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
1877514 TTATTTTTTC
* *
1877524 ATCTGTAAAGTAATTTATTGATTTGTAAGAATCTAATT
1 ATCTGAAAAGTAATTTATTGATGTGTAAGAATCTAATT
* *
1877562 ATCTGAAAAGTAATTTGTTGATGTGTGAGAATCTA
1 ATCTGAAAAGTAATTTATTGATGTGTAAGAATCTA
1877597 TCAATCTATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (38 bp):
ATCTGAAAAGTAATTTATTGATGTGTAAGAATCTAATT
Found at i:1883376 original size:8 final size:8
Alignment explanation
Indices: 1883363--1883402 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
1883353 TCATTTTCAA
1883363 AGAATTTG
1 AGAATTTG
1883371 AGAATTT-
1 AGAATTTG
*
1883378 AGAGTTTG
1 AGAATTTG
*
1883386 GGAATTTG
1 AGAATTTG
1883394 AGAATTTG
1 AGAATTTG
1883402 A
1 A
1883403 AAGCTTGTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.35, C:0.00, G:0.28, T:0.38
Consensus pattern (8 bp):
AGAATTTG
Found at i:1883711 original size:128 final size:128
Alignment explanation
Indices: 1883483--1884341 Score: 1510
Period size: 128 Copynumber: 6.7 Consensus size: 128
1883473 ACTATTCACA
* * * *
1883483 TGAAGGCGCGTTCACGGGGGCGCGTCTTCCATTATTTTTTCAGAGAATATGTTATCATTGCTCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
1883548 TTATATCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* *
1883611 TGAAGGCGCGTCCCCGGGGACGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
1883676 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
1883739 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA-TGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* *
1883803 TTATGTCACTCATGTCCCTCGGGGAC-CTATTCATATCATTACCTATTATTTC-CAAGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* * *
1883864 TGAAGGCGCATTCCCGGGGGTGCGCCTTCCATTATTTTATCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1883929 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
*
1883992 TGAAGGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
1884057 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
*
1884120 TGAAGGCACGTTCCC-GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* *
1884184 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATTAGTACCTATTATTTCTCAAGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* *
1884247 TGAAGGCGCGTTCCCGAGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1884312 TTATGTCACTCATGTCCCTCGGGGACACTA
66 TTATGTCACTCATGTCCCTCGGGGACACTA
1884342 GATGGATTGT
Statistics
Matches: 699, Mismatches: 28, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
125 62 0.09
126 59 0.08
127 180 0.26
128 398 0.57
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (128 bp):
TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
Found at i:1884186 original size:381 final size:383
Alignment explanation
Indices: 1883483--1884341 Score: 1544
Period size: 381 Copynumber: 2.2 Consensus size: 383
1883473 ACTATTCACA
* * * *
1883483 TGAAGGCGCGTTCACGGGGGCGCGTCTTCCATTATTTTTTCAGAGAATATGTTATCATTGCTCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTATCAGAGAATATGTTATCATTGCCCTA
*
1883548 TTATATCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
1883613 AAGGCGCGTCCCCGGGGACGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
131 AAGGCGCGTCCCCGGGGACGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
1883678 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACTTGAA
196 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACTTGAA
*
1883743 GGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATGCCCTATTATG
261 GGCACGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATGCCCTATTATG
*
1883808 TCACTCATGTCCCTCGGGGAC-CTATTCATATCATTACCTATTATTTC-CAAGGGACT
326 TCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAAGGGACT
* *
1883864 TGAAGGCGCATTCCCGGGGGTGCGCCTTCCATTATTTTATCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTATCAGAGAATATGTTATCATTGCCCTA
1883929 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
* **
1883994 AAGGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
131 AAGGCGCGTCCCCGGGGACGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
1884059 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACTTGAA
196 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACTTGAA
1884124 GGCACGTTCCC-GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTAT
261 GGCACGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA-TGCCCTATTAT
*
1884188 GTCACTCATGTCCCTCGGGGACACTATTCATATTAGTACCTATTATTTCTCAAGGGACT
325 GTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAAGGGACT
* * *
1884247 TGAAGGCGCGTTCCCGAGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTATCAGAGAATATGTTATCATTGCCCTA
1884312 TTATGTCACTCATGTCCCTCGGGGACACTA
66 TTATGTCACTCATGTCCCTCGGGGACACTA
1884342 GATGGATTGT
Statistics
Matches: 457, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
380 41 0.09
381 293 0.64
382 24 0.05
383 99 0.22
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (383 bp):
TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTATCAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
AAGGCGCGTCCCCGGGGACGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
ATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACTTGAA
GGCACGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATGCCCTATTATG
TCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAAGGGACT
Found at i:1884205 original size:255 final size:255
Alignment explanation
Indices: 1883483--1884341 Score: 1517
Period size: 255 Copynumber: 3.4 Consensus size: 255
1883473 ACTATTCACA
* * * *
1883483 TGAAGGCGCGTTCACGGGGGCGCGTCTTCCATTATTTTTTCAGAGAATATGTTATCATTGCTCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* *
1883548 TTATATCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACTTG
*
1883613 AAGGCGCGTCCCCGGGGACGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
131 AAGGCGCGTTCCCGGGG-CGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
*
1883678 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
195 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
1883739 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCA-TGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
1883803 TTATGTCACTCATGTCCCTCGGGGAC-CTATTCATATCATTACCTATTATTTC-CAAGGGACTTG
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACTTG
* * *
1883866 AAGGCGCATTCCCGGGGGTGCGCCTTCCATTATTTTATCAGAGAATATGTTATCATTGCCCTATT
131 AAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
1883931 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
195 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
*
1883992 TGAAGGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1884057 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACTTG
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACTTG
*
1884122 AAGGCACGTTCCCGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTA
131 AAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTA
* *
1884187 TGTCACTCATGTCCCTCGGGGACACTATTCATATTAGTACCTATTATTTCTCAAGGGACT
196 TGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* *
1884247 TGAAGGCGCGTTCCCGAGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1884312 TTATGTCACTCATGTCCCTCGGGGACACTA
66 TTATGTCACTCATGTCCCTCGGGGACACTA
1884342 GATGGATTGT
Statistics
Matches: 576, Mismatches: 23, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
253 182 0.32
254 62 0.11
255 257 0.45
256 75 0.13
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (255 bp):
TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACTTG
AAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTA
TGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
Found at i:1884775 original size:33 final size:33
Alignment explanation
Indices: 1884730--1884833 Score: 131
Period size: 33 Copynumber: 3.2 Consensus size: 33
1884720 TAAGTTGAAA
*
1884730 TTTAATGTTAAATTTCGAATACTATAATTTATAT
1 TTTAAT-TTAAATTTCGAATAATATAATTTATAT
*
1884764 TTTAATTTAAATTTCGAATAATAT-ATTTTTATT
1 TTTAATTTAAATTTCGAATAATATAATTTATA-T
* * *
1884797 TTTATTTTAAATTTTGAATAATATAA-TTGTAT
1 TTTAATTTAAATTTCGAATAATATAATTTATAT
1884829 TTTAA
1 TTTAA
1884834 AAACATTTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
32 11 0.18
33 44 0.71
34 7 0.11
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (33 bp):
TTTAATTTAAATTTCGAATAATATAATTTATAT
Found at i:1885384 original size:21 final size:20
Alignment explanation
Indices: 1885354--1885462 Score: 146
Period size: 21 Copynumber: 5.2 Consensus size: 20
1885344 TATGGTATAA
*
1885354 AACCTTGCGGGCTAGGCATGT
1 AACC-TGCGGGCTAGGAATGT
1885375 AACCTGGCGGGCTAGGAATGT
1 AACCT-GCGGGCTAGGAATGT
*
1885396 AACCATGCGGGCTCGGAATGT
1 AACC-TGCGGGCTAGGAATGT
1885417 AACCTGGCGGGCTAGGAATGT
1 AACCT-GCGGGCTAGGAATGT
*
1885438 AACCCTGCGGGCTCGGAATGT
1 AA-CCTGCGGGCTAGGAATGT
1885459 AACC
1 AACC
1885463 CTACGGAGAT
Statistics
Matches: 80, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
20 4 0.05
21 72 0.90
22 4 0.05
ACGTcount: A:0.23, C:0.24, G:0.34, T:0.19
Consensus pattern (20 bp):
AACCTGCGGGCTAGGAATGT
Found at i:1885418 original size:42 final size:42
Alignment explanation
Indices: 1885354--1885462 Score: 182
Period size: 42 Copynumber: 2.6 Consensus size: 42
1885344 TATGGTATAA
* * *
1885354 AACCTTGCGGGCTAGGCATGTAACCTGGCGGGCTAGGAATGT
1 AACCATGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
1885396 AACCATGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
1 AACCATGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
*
1885438 AACCCTGCGGGCTCGGAATGTAACC
1 AACCATGCGGGCTCGGAATGTAACC
1885463 CTACGGAGAT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.23, C:0.24, G:0.34, T:0.19
Consensus pattern (42 bp):
AACCATGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
Found at i:1885498 original size:21 final size:21
Alignment explanation
Indices: 1885472--1885513 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1885462 CCTACGGAGA
* *
1885472 TGACATATGAATTGGTGGGCT
1 TGACATATGAAGTGGAGGGCT
1885493 TGACATATGAAGTGGAGGGCT
1 TGACATATGAAGTGGAGGGCT
1885514 GGGCATGTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.36, T:0.29
Consensus pattern (21 bp):
TGACATATGAAGTGGAGGGCT
Found at i:1889438 original size:3 final size:3
Alignment explanation
Indices: 1889430--1889487 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
1889420 ATTAAATCTG
1889430 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1889477 ATT ATT ATT AT
1 ATT ATT ATT AT
1889488 ATGATGATGA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 52 0.96
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1890844 original size:71 final size:71
Alignment explanation
Indices: 1890728--1890870 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
1890718 AAAAGAATGA
1890728 ACAAATTGCCCTGTGCTGGAATCAATTGCCTTTACAAAAATGTACTTTATATTTCAGAATCTTGG
1 ACAAATTGCCCTGTGCTGGAATCAATTGCCTTTACAAAAATGTACTTTATATTTCAGAATCTTGG
1890793 AGGAGC
66 AGGAGC
1890799 ACAAATTGCCCTGTGCTGGAATCAATTGCCTTTACAAAAATGTACTTTATATTTCAGAATCTTGG
1 ACAAATTGCCCTGTGCTGGAATCAATTGCCTTTACAAAAATGTACTTTATATTTCAGAATCTTGG
1890864 AGGAGC
66 AGGAGC
1890870 A
1 A
1890871 AAAGTCAAAG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (71 bp):
ACAAATTGCCCTGTGCTGGAATCAATTGCCTTTACAAAAATGTACTTTATATTTCAGAATCTTGG
AGGAGC
Found at i:1892775 original size:15 final size:16
Alignment explanation
Indices: 1892755--1892792 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1892745 AAATGTCTTT
1892755 GAAAAA-CAATTTTAA
1 GAAAAATCAATTTTAA
*
1892770 GAAAAATCATTTTTAA
1 GAAAAATCAATTTTAA
1892786 GACAAAA
1 GA-AAAA
1892793 ATTGGTATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 10 0.50
17 4 0.20
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.26
Consensus pattern (16 bp):
GAAAAATCAATTTTAA
Found at i:1893082 original size:30 final size:30
Alignment explanation
Indices: 1893039--1893188 Score: 85
Period size: 30 Copynumber: 5.0 Consensus size: 30
1893029 AAACATGAAC
* * *
1893039 TTAAAGAATTAAAATAGCATAAAATA-AAAT
1 TTAAAGGACTAAAATAGC-GAAAATAGAAAT
* *
1893069 TTAACAGG-CTAAAACATCGAAAATAGAAAT
1 TTAA-AGGACTAAAATAGCGAAAATAGAAAT
** * *
1893099 TTAAAGGACTAAAATA-ATACAAACATAAAT
1 TTAAAGGACTAAAATAGCGA-AAATAGAAAT
* * * * *
1893129 TTAAGGGA-TTAAATGGCGAAAACAGACAT
1 TTAAAGGACTAAAATAGCGAAAATAGAAAT
* *
1893158 TTGAATGACTAAAATAG-GAAAAATAGAAAT
1 TTAAAGGACTAAAATAGCG-AAAATAGAAAT
1893188 T
1 T
1893189 CGTAGGACTG
Statistics
Matches: 89, Mismatches: 24, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
29 29 0.33
30 58 0.65
31 2 0.02
ACGTcount: A:0.55, C:0.08, G:0.13, T:0.23
Consensus pattern (30 bp):
TTAAAGGACTAAAATAGCGAAAATAGAAAT
Found at i:1895544 original size:87 final size:89
Alignment explanation
Indices: 1895446--1895640 Score: 252
Period size: 87 Copynumber: 2.2 Consensus size: 89
1895436 GGATGGCCCA
* * * *
1895446 TTCGTTGTGAAGTTGAGACTTGAATTGGATA-TCATTCGTTGTGAAGTTGAAATCCAA-GT-ATT
1 TTCGTCGTGAAGTTGAGACTTGAATTGGATATTC-TTCGTCGTGAAGTTGAAATCCAATCTAATG
* * *
1895508 TATGTTGCTTGTGGGCACAATATCC
65 AATGTTGCTGGTGGACACAATATCC
*
1895533 TTCGTCGTGAAGTTGAGCCTTGAATTGGATATTCTTCGTCGTGAAGTTGAAATCCAATCTAAAGA
1 TTCGTCGTGAAGTTGAGACTTGAATTGGATATTCTTCGTCGTGAAGTTGAAATCCAATCT--A-A
*
1895598 TGAATGTTGCTGGTGGACACGATATCC
63 TGAATGTTGCTGGTGGACACAATATCC
1895625 TTCGTCGTGAAGTTGA
1 TTCGTCGTGAAGTTGA
1895641 AATCCAAGGG
Statistics
Matches: 93, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
87 51 0.55
88 3 0.03
92 39 0.42
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.35
Consensus pattern (89 bp):
TTCGTCGTGAAGTTGAGACTTGAATTGGATATTCTTCGTCGTGAAGTTGAAATCCAATCTAATGA
ATGTTGCTGGTGGACACAATATCC
Found at i:1895704 original size:60 final size:60
Alignment explanation
Indices: 1895618--1895767 Score: 237
Period size: 60 Copynumber: 2.5 Consensus size: 60
1895608 TGGTGGACAC
* * *
1895618 GATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGTTTCACCAAATTGGTTTTAAGTTG
1 GATATCCTTCGTTGTGAAGTTGAAATCCAAGGATTGTTTCACCAAATTGGCTTTAAGTTG
* * *
1895678 GATATCCTTCATTGTGAAGTTGAAATCCAAGTATTGTTTCACCAAATTGGCTTTGAGTTG
1 GATATCCTTCGTTGTGAAGTTGAAATCCAAGGATTGTTTCACCAAATTGGCTTTAAGTTG
*
1895738 GATATCCTTCGTTGTGAAGTTAAAATCCAA
1 GATATCCTTCGTTGTGAAGTTGAAATCCAA
1895768 TCTCGAATAT
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 82 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (60 bp):
GATATCCTTCGTTGTGAAGTTGAAATCCAAGGATTGTTTCACCAAATTGGCTTTAAGTTG
Found at i:1896330 original size:22 final size:22
Alignment explanation
Indices: 1896305--1896358 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
1896295 GAATTTTCAA
1896305 AATTTTGAAACACATCAAAATG
1 AATTTTGAAACACATCAAAATG
1896327 AATTTTGAAACACATCAAAATG
1 AATTTTGAAACACATCAAAATG
1896349 AATTTTGAAA
1 AATTTTGAAA
1896359 AATATTGCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (22 bp):
AATTTTGAAACACATCAAAATG
Found at i:1904211 original size:627 final size:627
Alignment explanation
Indices: 1902699--1904566 Score: 3022
Period size: 623 Copynumber: 3.0 Consensus size: 627
1902689 TAGATGTTGA
1902699 AGAGTTTTTTATTTTTTAAGAAGAAGTTGTTGAAGAGTTGTG-TACTCTTTGTGAGTTGTTGTAG
1 AGAG-TTTTTATTTTTT---AAGAAGTTGTTGAAGAGTTGTGTTACTCTTTGTGAGTTGTTGTAG
*
1902763 TGGAGTATT-A-A-TCTTTTGTGTCTG-C--CTCTTTGAGAGATTGCGCGGATTTTCCCTGGTTG
62 TGGAGTATTAATAGTCTTTTGTGTCTGCCTTCTCTTTGAGCGA-TGCGCGGATTTTCCCTGGTTG
1902822 TTTGTACTCTTTTCCTCTTGTTAGGTTTATAAAGGTTTTTAACGATGCATATAACTCATGTTAGA
126 TTTGTACTCTTTTCCTCTTGTTAGGTTTATAAAGGTTTTTAACGATGCATATAACTCATGTTAGA
* *
1902887 CTTGTTTGATTATTTATTAATAAAATAATATTGTCGAGCAAAAAAAAGAA-AGAAAAATCATATG
191 CTTGTTTGATTATTTATTAATAAAATAATATTGTCGAG-AAAAAAAA-AACA-ATAAATCATGTG
*
1902951 AGACTTTGACGATTCACCCATTTCAATTTAGATCGAGAG---TAGATTCATCTTAC-AGTTGACA
253 AGACTTTGACGATTCACCCATTTCGATTTAGATCGAGAGTCATAGATTCATCTTACTAGTTGACA
*
1903012 TCCCATTAGAGACATCTCACTTAAAGGATTC-CCCATAACGTATGAAGGCATCTATCATAATTTA
318 TCCCATTAGAGACATCTCACTTAAAGGAGTCTCCCATAACGTA--AAGGCATCTATCATAATTTA
*
1903076 C--AA-AATTCATAATCA--TCTC-TAAATTAACGAAGTAATTTAAGAATCAATGCAAATCCCCT
381 CAAAATAATTCATAATCATCTCTCATAAATTAACGAAGCAATTTAAGAATCAATGCAAATCCCCT
1903135 ATCCCAATGGTCAAAGGCTCAGATCAGGTAGCTTC-T-T-ATGTACAGGCG-AAATGTCTCATTT
446 ATCCCAATGGTCAAAGGCTCAGATCAGGTAGCTTCTTATGATGTACAGGCGAAAATGTCTCATTT
1903196 AGAAGTATCTGCAGGGTGTTCTTAGAGATGATGGATTTACAAAACTAGGATAAACACTTATTCTT
511 AGAAGTATCTGCAGGGTGTTCTTAGAGATGATGGATTTACAAAACTAGGATAAACACTTATTCTT
1903261 TAGAGGGATACCATACTATGATTCTTAATA-TTCAACTTTAAACTCGTAACT
576 TAGAGGGATACCATACTATGATTCTTAATATTTCAACTTTAAACTCGTAACT
1903312 AGAG----T-TTTTTTAAGAAGTTGTTGAAGAGTTGTGTTACTCTTTGTGAGTTGTTGT-GT-GA
1 AGAGTTTTTATTTTTTAAGAAGTTGTTGAAGAGTTGTGTTACTCTTTGTGAGTTGTTGTAGTGGA
* * *
1903370 GTAGTATTAGTCTTTTGTGTCTGCCTTCTCTTTGAGCTATCGCGCGGATTTTCCCTGGTTGTTTG
66 GTATTAATAGTCTTTTGTGTCTGCCTTCTCTTTGAGCGAT-GCGCGGATTTTCCCTGGTTGTTTG
* *
1903435 TACTCTTTTCCTTTTGTTAGGTTTGTAAAGGTTTTTAACGATGCATATAACTCATGTTAGACTTG
130 TACTCTTTTCCTCTTGTTAGGTTTATAAAGGTTTTTAACGATGCATATAACTCATGTTAGACTTG
*
1903500 TTTTATTATTTATTAATAAAATAATATTGTCGAGCAAAAAAAAAAAGAAATAAACAATAAATCAT
195 TTTGATTATTTATTAATAAAATAATATTGTCGAG--------AAAA-AAA-AAACAATAAATCAT
* *
1903565 GTGAGACTTTAACGATTCACCCATTTCGATTTAGATCGAGAGTCATAGATTCATCTTACTAGTAG
250 GTGAGACTTTGACGATTCACCCATTTCGATTTAGATCGAGAGTCATAGATTCATCTTACTAGTTG
1903630 ACATCCCATTAGAGACATCTCACTTAAAGGAGTCTCCCATAACGTACAAAGGCATCTAT-ATAAT
315 ACATCCCATTAGAGACATCTCACTTAAAGGAGTCTCCCATAACGT--AAAGGCATCTATCATAAT
1903694 TTACAAAATAATTCATAATCATCTCTCATAAATTAACGAAGCAATTTAAGAATCAATGCAAATCC
378 TTACAAAATAATTCATAATCATCTCTCATAAATTAACGAAGCAATTTAAGAATCAATGCAAATCC
*
1903759 CCTATCCCAATGGTCAAAGGCTCAAATCAGGTAGCTTCTTATGATGTACAGGCGAAAATGTCTCA
443 CCTATCCCAATGGTCAAAGGCTCAGATCAGGTAGCTTCTTATGATGTACAGGCGAAAATGTCTCA
*
1903824 TTTAGAATTATCTGCAGGGTGTTCTTAGAGATGATGGATTTACAAAACTAGGATAAACACTTATT
508 TTTAGAAGTATCTGCAGGGTGTTCTTAGAGATGATGGATTTACAAAACTAGGATAAACACTTATT
1903889 CTTTAGAGGGATACCATACTATGATTCTTAATATTTCAACTTTAAAACTCGTAACT
573 CTTTAGAGGGATACCATACTATGATTCTTAATATTTCAACTTT-AAACTCGTAACT
1903945 AGAGTTTTTATTTTTTAAGAAGTTGTTGAAGAGTTGTGCTATACTCTTTGTGAGTTGTTGTAGTG
1 AGAGTTTTTATTTTTTAAGAAGTTGTTGAAGAGTTGTG-T-TACTCTTTGTGAGTTGTTGTAGTG
1904010 GAGTATTAATAGTCTTTTGTGTCTGCCTTCTCTTTGAGCGAT-CGCGGATTTTCCCTGG-TGTTT
64 GAGTATTAATAGTCTTTTGTGTCTGCCTTCTCTTTGAGCGATGCGCGGATTTTCCCTGGTTGTTT
*
1904073 GTACTCTTTTTCTCTTGTTAGG-TTATAAAGGTTTTTAACGATGCATATAACTCATGTTAGACTT
129 GTACTCTTTTCCTCTTGTTAGGTTTATAAAGGTTTTTAACGATGCATATAACTCATGTTAGACTT
1904137 GTTTGATTATTTATTAATAAAATAATATTGTCGAG-AAAAAAAAACAATAAATCATGTGAGACTT
194 GTTTGATTATTTATTAATAAAATAATATTGTCGAGAAAAAAAAAACAATAAATCATGTGAGACTT
* *
1904201 TGATGATTCACCCATTTCGATTTAGGTCGAGAGTCATAGATTCATCTTACTAGTTGACATCCCAT
259 TGACGATTCACCCATTTCGATTTAGATCGAGAGTCATAGATTCATCTTACTAGTTGACATCCCAT
* *
1904266 TAGAGACATCTCACTTAAAGGCGTCTCCCAT-ACG--AAGGAATCTATCATAATTTACAAAATAA
324 TAGAGACATCTCACTTAAAGGAGTCTCCCATAACGTAAAGGCATCTATCATAATTTACAAAATAA
1904328 TTCATAATCATCTCTCATAAATTAACGAAGCAATTTAAGAATCAATGCAAATCCCCTATCCCAAT
389 TTCATAATCATCTCTCATAAATTAACGAAGCAATTTAAGAATCAATGCAAATCCCCTATCCCAAT
*
1904393 GGTCAAAGGCTCAGATCAGATAGCTTCTTATGATGTACAGGCGAAAATGTCTCATTTAGAAGTAT
454 GGTCAAAGGCTCAGATCAGGTAGCTTCTTATGATGTACAGGCGAAAATGTCTCATTTAGAAGTAT
*
1904458 CTACAGGGTGTTCTTAGAGATGATGGATTTACAAAACTAGGATAAACACTTATTCTTTAGAGGGA
519 CTGCAGGGTGTTCTTAGAGATGATGGATTTACAAAACTAGGATAAACACTTATTCTTTAGAGGGA
1904523 TACCATACTATGATTCTTAATATTTCAACTTTAAACTCGTAACT
584 TACCATACTATGATTCTTAATATTTCAACTTTAAACTCGTAACT
1904567 TTTAATAGTT
Statistics
Matches: 1174, Mismatches: 34, Indels: 85
0.91 0.03 0.07
Matches are distributed among these distances:
603 6 0.01
604 24 0.02
605 21 0.02
606 13 0.01
607 7 0.01
608 2 0.00
609 130 0.11
613 4 0.00
616 4 0.00
617 52 0.04
618 2 0.00
620 14 0.01
621 46 0.04
622 43 0.04
623 241 0.21
624 13 0.01
626 7 0.01
627 187 0.16
628 4 0.00
629 4 0.00
630 11 0.01
631 107 0.09
632 9 0.01
633 16 0.01
637 1 0.00
638 103 0.09
639 26 0.02
640 36 0.03
641 2 0.00
642 39 0.03
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.36
Consensus pattern (627 bp):
AGAGTTTTTATTTTTTAAGAAGTTGTTGAAGAGTTGTGTTACTCTTTGTGAGTTGTTGTAGTGGA
GTATTAATAGTCTTTTGTGTCTGCCTTCTCTTTGAGCGATGCGCGGATTTTCCCTGGTTGTTTGT
ACTCTTTTCCTCTTGTTAGGTTTATAAAGGTTTTTAACGATGCATATAACTCATGTTAGACTTGT
TTGATTATTTATTAATAAAATAATATTGTCGAGAAAAAAAAAACAATAAATCATGTGAGACTTTG
ACGATTCACCCATTTCGATTTAGATCGAGAGTCATAGATTCATCTTACTAGTTGACATCCCATTA
GAGACATCTCACTTAAAGGAGTCTCCCATAACGTAAAGGCATCTATCATAATTTACAAAATAATT
CATAATCATCTCTCATAAATTAACGAAGCAATTTAAGAATCAATGCAAATCCCCTATCCCAATGG
TCAAAGGCTCAGATCAGGTAGCTTCTTATGATGTACAGGCGAAAATGTCTCATTTAGAAGTATCT
GCAGGGTGTTCTTAGAGATGATGGATTTACAAAACTAGGATAAACACTTATTCTTTAGAGGGATA
CCATACTATGATTCTTAATATTTCAACTTTAAACTCGTAACT
Found at i:1911977 original size:23 final size:23
Alignment explanation
Indices: 1911959--1912014 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
1911949 TATGGCCCTA
*
1911959 CGGTTCATTTCTACGTGGCACTT
1 CGGTGCATTTCTACGTGGCACTT
*
1911982 CGGTGCATTTCTACGCGGCACTT
1 CGGTGCATTTCTACGTGGCACTT
1912005 CGGTGCATTT
1 CGGTGCATTT
1912015 ACATGAGCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.12, C:0.27, G:0.25, T:0.36
Consensus pattern (23 bp):
CGGTGCATTTCTACGTGGCACTT
Found at i:1912888 original size:22 final size:22
Alignment explanation
Indices: 1912841--1913003 Score: 244
Period size: 22 Copynumber: 7.6 Consensus size: 22
1912831 GTTCAGTATT
*
1912841 CGTCTCGAAGGACCACT--AT-
1 CGTCCCGAAGGACCACTGGATA
*
1912860 -GTCCCGAAGGACCACTAGATA
1 CGTCCCGAAGGACCACTGGATA
1912881 CGTCCCGAAGGACCACTGGATA
1 CGTCCCGAAGGACCACTGGATA
*
1912903 CGTCCTGAAGGACCACTGGATA
1 CGTCCCGAAGGACCACTGGATA
*
1912925 CATCCCGAAGGACCACTGGATA
1 CGTCCCGAAGGACCACTGGATA
1912947 CGTCCCGAAGGACCACTGGATA
1 CGTCCCGAAGGACCACTGGATA
*
1912969 CGTCCCGAAGAACCACTGGATA
1 CGTCCCGAAGGACCACTGGATA
*
1912991 CGTCTCGAAGGAC
1 CGTCCCGAAGGAC
1913004 TAATATACCC
Statistics
Matches: 131, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
18 15 0.11
20 2 0.02
22 114 0.87
ACGTcount: A:0.29, C:0.31, G:0.25, T:0.15
Consensus pattern (22 bp):
CGTCCCGAAGGACCACTGGATA
Found at i:1914339 original size:19 final size:19
Alignment explanation
Indices: 1914315--1914364 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
1914305 CCTTGACGGG
*
1914315 TGCATCGATGCACTACCCA
1 TGCATCGGTGCACTACCCA
1914334 TGCATCGGTGCACTACCCA
1 TGCATCGGTGCACTACCCA
1914353 TGCATCGGTGCA
1 TGCATCGGTGCA
1914365 TAAATCCTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.22, C:0.34, G:0.22, T:0.22
Consensus pattern (19 bp):
TGCATCGGTGCACTACCCA
Found at i:1917118 original size:17 final size:17
Alignment explanation
Indices: 1917096--1917149 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
1917086 AATGTTAATA
1917096 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
1917113 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
1917130 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
1917147 TTT
1 TTT
1917150 TTATAATGTT
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:1918721 original size:21 final size:22
Alignment explanation
Indices: 1918695--1918746 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
1918685 CCATCTCCGT
1918695 AGGGTTACATTCCGAGCCCG-C
1 AGGGTTACATTCCGAGCCCGCC
**
1918716 AGGGTTACATTCTTAGCCCGCC
1 AGGGTTACATTCCGAGCCCGCC
1918738 A-GGTTACAT
1 AGGGTTACAT
1918747 GCCTACCCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (22 bp):
AGGGTTACATTCCGAGCCCGCC
Found at i:1919290 original size:28 final size:28
Alignment explanation
Indices: 1919258--1919336 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
1919248 GATAAATGTT
* *
1919258 TTTAAAATACAAATTATATTATTCAAAA
1 TTTAAAATAAAAATAATATTATTCAAAA
*
1919286 TTTAAAATAAAAATAATATTATTCGAAA
1 TTTAAAATAAAAATAATATTATTCAAAA
*
1919314 TTTAAATTTAAAATATAA-ATTAT
1 TTTAAA-ATAAAA-ATAATATTAT
1919337 AGTATTCGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 31 0.69
29 10 0.22
30 4 0.09
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (28 bp):
TTTAAAATAAAAATAATATTATTCAAAA
Found at i:1919321 original size:34 final size:34
Alignment explanation
Indices: 1919283--1919352 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
1919273 ATATTATTCA
*
1919283 AAATTTAAAATAAAAATAATATTATTCGAAATTT
1 AAATTTAAAATAAAAATAATAGTATTCGAAATTT
* *
1919317 AAATTTAAAATATAAATTATAGTATTCGAAATTT
1 AAATTTAAAATAAAAATAATAGTATTCGAAATTT
1919351 AA
1 AA
1919353 CATTAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (34 bp):
AAATTTAAAATAAAAATAATAGTATTCGAAATTT
Found at i:1919348 original size:28 final size:28
Alignment explanation
Indices: 1919258--1919361 Score: 93
Period size: 28 Copynumber: 3.5 Consensus size: 28
1919248 GATAAATGTT
* *
1919258 TTTAAAATACAAATTATATTATTCAAAA
1 TTTAAAATATAAATTATATTATTCGAAA
* *
1919286 TTTAAAATAAAAATAATATTATTCGAAATTTAAA
1 TTTAAAATATAAATTATATTATTCG------AAA
*
1919320 TTTAAAATATAAATTATAGTATTCGAAA
1 TTTAAAATATAAATTATATTATTCGAAA
*
1919348 TTTAACAT-TAAATT
1 TTTAAAATATAAATT
1919362 TCAACTTAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
27 6 0.10
28 32 0.51
34 25 0.40
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (28 bp):
TTTAAAATATAAATTATATTATTCGAAA
Found at i:1919359 original size:34 final size:32
Alignment explanation
Indices: 1919259--1919359 Score: 111
Period size: 34 Copynumber: 3.2 Consensus size: 32
1919249 ATAAATGTTT
* *
1919259 TTAAAATACAAATTATATTATTCAAAATTTAAA
1 TTAAAATATAAATTATA-TATTCGAAATTTAAA
*
1919292 ATAAAA-AT-AA-TAT-TATTCGAAATTTAAA
1 TTAAAATATAAATTATATATTCGAAATTTAAA
1919320 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATATAAATTATA-TATTCGAAATTTAA-A
1919355 TTAAA
1 TTAAA
1919360 TTTCAACTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
28 14 0.25
29 5 0.09
30 5 0.09
31 4 0.07
32 4 0.07
33 5 0.09
34 19 0.33
35 1 0.02
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (32 bp):
TTAAAATATAAATTATATATTCGAAATTTAAA
Found at i:1920018 original size:128 final size:128
Alignment explanation
Indices: 1919715--1920329 Score: 994
Period size: 128 Copynumber: 4.9 Consensus size: 128
1919705 TGATTTACTG
1919715 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC-AA
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
* **
1919779 ATAATGGAAGGCACG-CCCCGGGAACGCGCCTTCAAGTCCCCT-GAG-AA-AATAGGTACTGAT
66 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGT-CAATAGAGAAATAATAGGTACTGAT
1919839 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
**
1919904 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCT-GAGAAATAATAGGTACTGAT
66 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGT-CAATAGAGAAATAATAGGTACTGAT
1919967 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
* * * * *
1920032 ATAATGGAAGGCGCACCCCCGGGAACGCACCTTCATGTGAATAGTGAAATAATAGGTACTGAT
66 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCAATAGAGAAATAATAGGTACTGAT
1920095 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
* * * * *
1920160 ATAATGGAAGGCGCGCCACCGGGAACGCCCCTTCATGTGAATAGTGAAATAATAGGTACTG--
66 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCAATAGAGAAATAATAGGTACTGAT
1920221 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
1 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
* * *
1920286 ATAATGGAAGGCGCACCCCCGGGAACGCGCCTTCATGTGAATAG
66 ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCAATAG
1920330 TCTCCGATTA
Statistics
Matches: 472, Mismatches: 14, Indels: 8
0.96 0.03 0.02
Matches are distributed among these distances:
124 62 0.13
125 16 0.03
126 136 0.29
127 3 0.01
128 255 0.54
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (128 bp):
ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
ATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCAATAGAGAAATAATAGGTACTGAT
Found at i:1921294 original size:31 final size:31
Alignment explanation
Indices: 1921196--1921286 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
1921186 CAATTTAAGG
1921196 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1921227 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1921258 CAAAAT-GTTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1921287 TTCAAAATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.18
30 12 0.20
31 37 0.62
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:1921490 original size:21 final size:21
Alignment explanation
Indices: 1921464--1921505 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1921454 ATTTGAATAT
*
1921464 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1921485 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1921506 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:1921831 original size:34 final size:32
Alignment explanation
Indices: 1921788--1921857 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
1921778 TTTTGTAAAG
* *
1921788 GGGAAAGGTTCTAGCTTAGCCCGTATAAAAGCTA
1 GGGAAAGGTTCTAGCTTAACCCGGA-AAAA-CTA
*
1921822 GGGAAAGGTTCTAGTTTAACCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAACCCGGAAAAACTA
1921854 GGGA
1 GGGA
1921858 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 4 0.12
34 22 0.67
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAACCCGGAAAAACTA
Found at i:1927413 original size:20 final size:20
Alignment explanation
Indices: 1927385--1927423 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1927375 TTACCTATAT
1927385 ACGAAATTCGAGTTGCGAAA
1 ACGAAATTCGAGTTGCGAAA
* *
1927405 ACGAGATTCGCGTTGCGAA
1 ACGAAATTCGAGTTGCGAA
1927424 TAGTTGTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (20 bp):
ACGAAATTCGAGTTGCGAAA
Found at i:1927621 original size:18 final size:18
Alignment explanation
Indices: 1927598--1927632 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1927588 GTCACTGAAG
1927598 TTATTTTCTT-TTAAATTA
1 TTATTTT-TTGTTAAATTA
1927616 TTATTTTTTGTTAAATT
1 TTATTTTTTGTTAAATT
1927633 TTAGTGACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (18 bp):
TTATTTTTTGTTAAATTA
Done.