Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 31 of 73
Found at i:7516465 original size:23 final size:22
Alignment explanation
Indices: 7516420--7516465 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
7516410 TATGTTTTAC
*
7516420 TTTTATTTTCTTTTTTAACATT
1 TTTTATTTTCTTTTTTAAAATT
7516442 TTTTATATTT-TTTTTCTAAAATT
1 TTTTAT-TTTCTTTTT-TAAAATT
7516465 T
1 T
7516466 AATATTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTATTTTCTTTTTTAAAATT
Found at i:7516543 original size:53 final size:53
Alignment explanation
Indices: 7516430--7516542 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 53
7516420 TTTTATTTTC
***
7516430 TTTTTTAACATTTTTTATATTTTTTTTCTAAAATTTAATATTTTTCATTTATT
1 TTTTTTAACATTTTTTATAACATTTTTCTAAAATTTAATATTTTTCATTTATT
7516483 TTATTTTAACATTTTTATATAACATTTTT-T-AAATTTAATATTTCCTTC-TTTGATT
1 TT-TTTTAACATTTTT-TATAACATTTTTCTAAAATTTAATATTT--TTCATTT-ATT
7516538 TTTTT
1 TTTTT
7516543 AGATTTAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
53 15 0.29
54 20 0.38
55 17 0.33
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (53 bp):
TTTTTTAACATTTTTTATAACATTTTTCTAAAATTTAATATTTTTCATTTATT
Found at i:7530713 original size:81 final size:81
Alignment explanation
Indices: 7530568--7531001 Score: 663
Period size: 81 Copynumber: 5.4 Consensus size: 81
7530558 CATGCCGACT
* * *
7530568 ATGCACAGCTAGGCATTTAGTCTTTTATCTCAAAGGCATTTAACCTTTCATCTAACT-GCATTAT
1 ATGCACAGCTAGACAATTAATCTTTTA-CTCAAAGGCATTTAACCTTTCATCTAACTAGCATTAT
*
7530632 TGACACCTTTCTGCCAA
65 TGGCACCTTTCTGCCAA
* ** * * *
7530649 ATGCACATCTAGGTAATAAATCTTTTACTGAAAGGCATTTAACCTTTCATCTAACTGGCATTATT
1 ATGCACAGCTAGACAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTAGCATTATT
*
7530714 GGCACCGTTCTGCCAA
66 GGCACCTTTCTGCCAA
* * *
7530730 ATGCATAGCTAGACAATTAATCTTTTATTGAAAGGCATTTAACCTTTCATCTAACTAGCATTATT
1 ATGCACAGCTAGACAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTAGCATTATT
7530795 GGCACCTTTCTGCCAA
66 GGCACCTTTCTGCCAA
* *
7530811 ATGCACAGCTAGACAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATTATT
1 ATGCACAGCTAGACAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTAGCATTATT
*
7530876 GGCACCTTTCGGCCAA
66 GGCACCTTTCTGCCAA
7530892 ATGCACAGCTAGACAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTAGCATTATT
1 ATGCACAGCTAGACAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTAGCATTATT
* *
7530957 GACACCTTTTTGCCAA
66 GGCACCTTTCTGCCAA
* *
7530973 ATGCACAACTAGGCAATTAATCTTTTACT
1 ATGCACAGCTAGACAATTAATCTTTTACT
7531002 TTAAAACAAT
Statistics
Matches: 323, Mismatches: 29, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
80 28 0.09
81 295 0.91
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (81 bp):
ATGCACAGCTAGACAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTAGCATTATT
GGCACCTTTCTGCCAA
Found at i:7533290 original size:20 final size:20
Alignment explanation
Indices: 7533265--7533304 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
7533255 ACTGATACAC
*
7533265 TAGTGTATCGATACACCCTG
1 TAGTGTATCCATACACCCTG
7533285 TAGTGTATCCATACACCCTG
1 TAGTGTATCCATACACCCTG
7533305 GCTATAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (20 bp):
TAGTGTATCCATACACCCTG
Found at i:7536372 original size:21 final size:21
Alignment explanation
Indices: 7536348--7536388 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7536338 AATTATCTGT
7536348 TTAACAATTGATATCCTTTTG
1 TTAACAATTGATATCCTTTTG
* *
7536369 TTAACAATTGGTATCTTTTT
1 TTAACAATTGATATCCTTTT
7536389 CATTAAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (21 bp):
TTAACAATTGATATCCTTTTG
Found at i:7536752 original size:16 final size:18
Alignment explanation
Indices: 7536709--7536762 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 18
7536699 CCGAATGCAA
7536709 ATAGTGTACCGATACACC
1 ATAGTGTACCGATACACC
7536727 TATGAGTGTACCGATACA-C
1 -AT-AGTGTACCGATACACC
* *
7536746 -TAGTGTATCAATACACC
1 ATAGTGTACCGATACACC
7536763 CTGGAGTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
16 12 0.39
17 2 0.06
19 3 0.10
20 14 0.45
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (18 bp):
ATAGTGTACCGATACACC
Found at i:7536772 original size:20 final size:20
Alignment explanation
Indices: 7536747--7536786 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
7536737 CCGATACACT
7536747 AGTGTATCAATACACCCTGG
1 AGTGTATCAATACACCCTGG
*
7536767 AGTGTATCCATACACCCTGG
1 AGTGTATCAATACACCCTGG
7536787 CTGCAACGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (20 bp):
AGTGTATCAATACACCCTGG
Found at i:7539604 original size:46 final size:46
Alignment explanation
Indices: 7539529--7539618 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
7539519 TAATACACCT
* * *
7539529 TTATGTATTTTCATTTGTGGCATCATTTCATGCCAATTATGCACTG
1 TTATATATTTTCATTTATGGCATCATTTCATGCCAACTATGCACTG
*
7539575 TTATATATTTTCATTTATGGCATCCTTTCATGCCAACTATGCAC
1 TTATATATTTTCATTTATGGCATCATTTCATGCCAACTATGCAC
7539619 AGCTAGGCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.44
Consensus pattern (46 bp):
TTATATATTTTCATTTATGGCATCATTTCATGCCAACTATGCACTG
Found at i:7539743 original size:81 final size:81
Alignment explanation
Indices: 7539592--7539965 Score: 469
Period size: 81 Copynumber: 4.6 Consensus size: 81
7539582 TTTTCATTTA
* *
7539592 TGGCATCCTTTCATGCCAACTATGCACAGCTAGGCATTTAGTCTTTTATCTCAAAGGCATTTAAC
1 TGGCA-CCTTT-ATGCCAA--ATGCACAGCTAGGCAATTAATCTTTTA-CTCAAAGGCATTTAAC
*
7539657 TTTTCATCTAACTGGCATTAT
61 CTTTCATCTAACTGGCATTAT
* * * *
7539678 TGGCTCATTTATGCCAAATGCACATCTAGGGAATTAATCTTTTACTCAAAGGCATTTAACCTTTC
1 TGGCACCTTTATGCCAAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGCATTTAACCTTTC
7539743 ATCTAACTGGCATTAT
66 ATCTAACTGGCATTAT
* * * * * *
7539759 TGGCATCTTTTTTCCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGCATTTAATCTTTA
1 TGGCACCTTTATGCCAAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGCATTTAACCTTTC
*
7539824 ATCTAACTGTCATTAT
66 ATCTAACTGGCATTAT
* * * * * * ** *
7539840 TGACACCGTTCTACCAAATGCATAGTTAAACAATTAATCATTTACTCAAAGGCATTTAACCTTTC
1 TGGCACCTTTATGCCAAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGCATTTAACCTTTC
*
7539905 ATCTAACAGGCATTAT
66 ATCTAACTGGCATTAT
* *
7539921 TGGCACCTCTCTGCCAAATGCACAGCTAGGCAATTAATCTTTTAC
1 TGGCACCTTTATGCCAAATGCACAGCTAGGCAATTAATCTTTTAC
7539966 ATTAAAATAG
Statistics
Matches: 247, Mismatches: 41, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
81 209 0.85
82 23 0.09
84 7 0.03
85 4 0.02
86 4 0.02
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.35
Consensus pattern (81 bp):
TGGCACCTTTATGCCAAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGCATTTAACCTTTC
ATCTAACTGGCATTAT
Found at i:7543652 original size:48 final size:48
Alignment explanation
Indices: 7543559--7543653 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
7543549 ATACTTTGTG
**
7543559 TATGATGGTTATCGATCGATTTTGTTTAATGCATAAGTTGTATTTTCA
1 TATGATGGTTATCGATCGATTTTGTTTAATGCATAAGTTACATTTTCA
* * *
7543607 TATGATGGTTATCGATCGATTTTTTTTAATGCCTATGTTACATTTTC
1 TATGATGGTTATCGATCGATTTTGTTTAATGCATAAGTTACATTTTC
7543654 GTATCAGCAC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.23, C:0.11, G:0.17, T:0.49
Consensus pattern (48 bp):
TATGATGGTTATCGATCGATTTTGTTTAATGCATAAGTTACATTTTCA
Found at i:7543809 original size:53 final size:54
Alignment explanation
Indices: 7543661--7543825 Score: 179
Period size: 54 Copynumber: 3.1 Consensus size: 54
7543651 TTCGTATCAG
* *** * * * *
7543661 CACTATGTGTGCAACCCACAAAATTCATAATGAGTTTGTGAATTACCGTATCGA
1 CACTATGTGTGCAACCTATGGAATTCATAATGAGTTTATGAATTACCATTTCAA
* * * * *
7543715 TAGTATGTGTGCAACCTATGGTATTCATAATGAGTTAATGAATGACCATTTCAA
1 CACTATGTGTGCAACCTATGGAATTCATAATGAGTTTATGAATTACCATTTCAA
* **
7543769 CACTATTTGTGCATTC-ATGGAATTCATAATGAGTTTATGAATTACCATTTCAA
1 CACTATGTGTGCAACCTATGGAATTCATAATGAGTTTATGAATTACCATTTCAA
7543822 CACT
1 CACT
7543826 TAGGTGCAAC
Statistics
Matches: 90, Mismatches: 21, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
53 38 0.42
54 52 0.58
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (54 bp):
CACTATGTGTGCAACCTATGGAATTCATAATGAGTTTATGAATTACCATTTCAA
Found at i:7543840 original size:53 final size:53
Alignment explanation
Indices: 7543682--7543840 Score: 153
Period size: 53 Copynumber: 3.0 Consensus size: 53
7543672 CAACCCACAA
* * * * * *
7543682 AATTCATAATGAGTTTGTGAATTACCGTATCGATA-GTATGTGTGCAAC-CTATGG
1 AATTCATAATGAGTTTATGAATTACCATTTCAACACTTA-G-GTGCAACTC-ATGG
* * * ** *
7543736 TATTCATAATGAGTTAATGAATGACCATTTCAACACTATTTGTGC-ATTCATGG
1 AATTCATAATGAGTTTATGAATTACCATTTCAACACT-TAGGTGCAACTCATGG
7543789 AATTCATAATGAGTTTATGAATTACCATTTCAACACTTAGGTGCAACTCATG
1 AATTCATAATGAGTTTATGAATTACCATTTCAACACTTAGGTGCAACTCATG
7543841 TACCTTGTAT
Statistics
Matches: 83, Mismatches: 18, Indels: 9
0.75 0.16 0.08
Matches are distributed among these distances:
52 5 0.06
53 45 0.54
54 32 0.39
56 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (53 bp):
AATTCATAATGAGTTTATGAATTACCATTTCAACACTTAGGTGCAACTCATGG
Found at i:7550595 original size:54 final size:54
Alignment explanation
Indices: 7550470--7550650 Score: 161
Period size: 54 Copynumber: 3.4 Consensus size: 54
7550460 CTATGTGTAC
* * * * * * *
7550470 TTTCGACACTATGTGTGTAACCCACAAAATTCACAATGAGTTTGTGAATTACCG
1 TTTCGACACTATATGTGCAACCCATAGAATTCATAATGAGTTTATGAATTACCA
* * * * * * *
7550524 TATCGGCAGTATGTGTGCAACCCATGGTATTCATAATGAGTTTATGAATGACCA
1 TTTCGACACTATATGTGCAACCCATAGAATTCATAATGAGTTTATGAATTACCA
** * *
7550578 TTTCGACACTATATGTGC-ATTCTTAGAATTGATAATGAGTTTATGAATTACCA
1 TTTCGACACTATATGTGCAACCCATAGAATTCATAATGAGTTTATGAATTACCA
*
7550631 TTTC-AGCACT-TAAGTGCAAC
1 TTTCGA-CACTATATGTGCAAC
7550651 TCATGTACCT
Statistics
Matches: 100, Mismatches: 25, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
52 7 0.07
53 37 0.37
54 56 0.56
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (54 bp):
TTTCGACACTATATGTGCAACCCATAGAATTCATAATGAGTTTATGAATTACCA
Found at i:7551548 original size:2 final size:2
Alignment explanation
Indices: 7551541--7551576 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7551531 ATAAACTTTA
7551541 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
7551577 CCAAATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7551698 original size:2 final size:2
Alignment explanation
Indices: 7551693--7551722 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7551683 AAATCAAATA
7551693 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
7551723 GAACTGGGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7576782 original size:19 final size:20
Alignment explanation
Indices: 7576745--7576787 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7576735 CTCAAAATCC
* *
7576745 TTTTTTAAAATTTTATTTTG
1 TTTTTTAAAACTATATTTTG
7576765 TTTTTTAAAACTAT-TTTTG
1 TTTTTTAAAACTATATTTTG
7576784 TTTT
1 TTTT
7576788 AAAAAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTTTTAAAACTATATTTTG
Found at i:7578836 original size:20 final size:20
Alignment explanation
Indices: 7578808--7578856 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
7578798 TTTTCCTTGG
*
7578808 ATATTGATACTATAAGAACA
1 ATATCGATACTATAAGAACA
* *
7578828 ATATCGATACTGTAAGAATA
1 ATATCGATACTATAAGAACA
7578848 ATATCGATA
1 ATATCGATA
7578857 TTTTTTTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (20 bp):
ATATCGATACTATAAGAACA
Found at i:7580815 original size:28 final size:28
Alignment explanation
Indices: 7580772--7580828 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
7580762 CCACTGTTGC
*
7580772 TTTCAAGCACTAGCTCGAAGGCATAATA
1 TTTCAAGCACTAGCTCGAAGACATAATA
* * *
7580800 TTTCAAGCATTGGCTCGACGACATAATA
1 TTTCAAGCACTAGCTCGAAGACATAATA
7580828 T
1 T
7580829 AAACAGAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (28 bp):
TTTCAAGCACTAGCTCGAAGACATAATA
Found at i:7585838 original size:143 final size:139
Alignment explanation
Indices: 7585662--7585920 Score: 351
Period size: 143 Copynumber: 1.8 Consensus size: 139
7585652 AACTAAAGTT
* * * *
7585662 CTCACGTCCTTGAAATTAAATTTTATTTATTTAGTTTTTATTAAATTTTAATTAAAATTGTTATT
1 CTCACGTCCTTGAAATTAAATTTTATTTATTTAGGTTTAACTAAATTTTAATTAAAATTATTATT
* * *
7585727 TCAGTTATCAAACGTGTAGCTCCTGAAACAGCCA-AGCATTCTTCACCTTTTACCATATAGCGAG
66 TCAGTCATCAAACGCGTAGCTCCTGAAAC-GCAAGAGCATTCTTCACCTTTTACCATATAGCGAG
7585791 ATGGACATCC
130 ATGGACATCC
7585801 CTCAC-TCCTTGAAATTAAATTTTAATGACTTTATTTAGGTTTAACTAAATTTTAATTAAAATTA
1 CTCACGTCCTTGAAATTAAA-TTT--T-A-TTTATTTAGGTTTAACTAAATTTTAATTAAAATTA
* * * *
7585865 TTATTTTAGTCATCAAATGCGTAGCTCCTGAAACGGAAGAGTATTCTTCACCTTTT
61 TTATTTCAGTCATCAAACGCGTAGCTCCTGAAACGCAAGAGCATTCTTCACCTTTT
7585921 TCTACACTGG
Statistics
Matches: 103, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
138 14 0.14
139 8 0.08
141 1 0.01
142 3 0.03
143 77 0.75
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.41
Consensus pattern (139 bp):
CTCACGTCCTTGAAATTAAATTTTATTTATTTAGGTTTAACTAAATTTTAATTAAAATTATTATT
TCAGTCATCAAACGCGTAGCTCCTGAAACGCAAGAGCATTCTTCACCTTTTACCATATAGCGAGA
TGGACATCC
Found at i:7595771 original size:70 final size:72
Alignment explanation
Indices: 7595679--7595818 Score: 176
Period size: 71 Copynumber: 2.0 Consensus size: 72
7595669 TAAAATATAA
* * * * *
7595679 GCATGAAATTATAATCTCTAGAG-GTGGTAGATATGTATTTCCCTCTCTTGGTGCA-TGAAATAA
1 GCATGAAATTATAACCTCTAGAGAGTGGCAGACATGTATTGCCCTCTCTTGGTGCACGGAAATAA
7595742 TGGCACT
66 TGGCACT
* * * * *
7595749 GCATGAAATTATAACCTGTAGAGAGTGGCGGGCCTGTATTGCTCTCTCTTGGTGCACGGAAATAA
1 GCATGAAATTATAACCTCTAGAGAGTGGCAGACATGTATTGCCCTCTCTTGGTGCACGGAAATAA
7595814 TGGCA
66 TGGCA
7595819 ATCTTAAGAG
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
70 21 0.36
71 25 0.43
72 12 0.21
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (72 bp):
GCATGAAATTATAACCTCTAGAGAGTGGCAGACATGTATTGCCCTCTCTTGGTGCACGGAAATAA
TGGCACT
Found at i:7601429 original size:15 final size:16
Alignment explanation
Indices: 7601397--7601429 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7601387 TAGTGAGTGA
*
7601397 TGAGATTGTGGTTTGG
1 TGAGATTGTGGGTTGG
7601413 TGAGATTG-GGGTTGG
1 TGAGATTGTGGGTTGG
7601428 TG
1 TG
7601430 GGTTGTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.39
Consensus pattern (16 bp):
TGAGATTGTGGGTTGG
Found at i:7602680 original size:28 final size:28
Alignment explanation
Indices: 7602640--7602697 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
7602630 GCAGTAATGA
*
7602640 TGAAGCTGAAGCCTGGAGACCCTTAAAC
1 TGAAGCTGAAGCCTGAAGACCCTTAAAC
7602668 TGAAGCTGAAGCCTGAAGACCCTTAAAC
1 TGAAGCTGAAGCCTGAAGACCCTTAAAC
7602696 TG
1 TG
7602698 CATCTATCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (28 bp):
TGAAGCTGAAGCCTGAAGACCCTTAAAC
Found at i:7604151 original size:59 final size:59
Alignment explanation
Indices: 7604052--7604180 Score: 159
Period size: 59 Copynumber: 2.2 Consensus size: 59
7604042 CAGCAGGTTG
* ** * *
7604052 CATATTCGGGAATACACTAAAGGATACTTAGTGTATATGGTGGGCACAACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACAACCTTATGTGT
* ** * *
7604111 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACAACCTTATGTGT
*
7604170 CATACTCGGGA
1 CATATTCGGGA
7604181 TTGCATTACG
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACAACCTTATGTGT
Found at i:7606205 original size:29 final size:29
Alignment explanation
Indices: 7606172--7606421 Score: 143
Period size: 29 Copynumber: 8.6 Consensus size: 29
7606162 TGATGCATTT
* *
7606172 CTGATTCTGCATGGGATTGTATCCCTATC
1 CTGATTCTACATGGGATTATATCCCTATC
* * * * *
7606201 CTGATTCTTCACGAGACTT-GAT-CCTCGTC
1 CTGATTCTACATGGGA-TTATATCCCT-ATC
* * *
7606230 TTGATTCAACATGAGATTATATCCCTATC
1 CTGATTCTACATGGGATTATATCCCTATC
* * **
7606259 CTGATTCTATATGAGACTT-TATCCCCGTC
1 CTGATTCTACATGGGA-TTATATCCCTATC
* *
7606288 CTGATTCTACATGGGGATTATATCTC-GTC
1 CTGATTCTACAT-GGGATTATATCCCTATC
** * *
7606317 CTGATTCTACACAGGACTT-GATCCCCATC
1 CTGATTCTACATGGGA-TTATATCCCTATC
* * *
7606346 CTGATTCTGCATGGGGATTATAT-CATCGTC
1 CTGATTCTACAT-GGGATTATATCCCT-ATC
* * * *
7606376 CTAATTCTGCATGAGATTATATCCCCATC
1 CTGATTCTACATGGGATTATATCCCTATC
*
7606405 CTAATTCTACATGGGAT
1 CTGATTCTACATGGGAT
7606422 CCCTATAGAT
Statistics
Matches: 170, Mismatches: 38, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
28 12 0.07
29 124 0.73
30 34 0.20
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (29 bp):
CTGATTCTACATGGGATTATATCCCTATC
Found at i:7606421 original size:58 final size:58
Alignment explanation
Indices: 7606172--7606419 Score: 207
Period size: 58 Copynumber: 4.3 Consensus size: 58
7606162 TGATGCATTT
* * * * * * * * * *
7606172 CTGATTCTGCAT-GGGATTGTATCCCTATCCTGATTCTTCACGAGACTTGATCCTCGTC
1 CTGATTCTACATGGGGATTATATCTC-GTCCTAATTCTACATGAGACTTTATCCCCATC
* * * * * * * *
7606230 TTGATTCAACAT-GAGATTATATCCCTATCCTGATTCTATATGAGACTTTATCCCCGTC
1 CTGATTCTACATGGGGATTATATCTC-GTCCTAATTCTACATGAGACTTTATCCCCATC
* * *
7606288 CTGATTCTACATGGGGATTATATCTCGTCCTGATTCTACA-CAGGACTTGATCCCCATC
1 CTGATTCTACATGGGGATTATATCTCGTCCTAATTCTACATGA-GACTTTATCCCCATC
* *
7606346 CTGATTCTGCATGGGGATTATATCATCGTCCTAATTCTGCATGAGA-TTATATCCCCATC
1 CTGATTCTACATGGGGATTATATC-TCGTCCTAATTCTACATGAGACTT-TATCCCCATC
*
7606405 CTAATTCTACATGGG
1 CTGATTCTACATGGG
7606420 ATCCCTATAG
Statistics
Matches: 159, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
57 1 0.01
58 108 0.68
59 49 0.31
60 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (58 bp):
CTGATTCTACATGGGGATTATATCTCGTCCTAATTCTACATGAGACTTTATCCCCATC
Found at i:7607307 original size:206 final size:206
Alignment explanation
Indices: 7606953--7607365 Score: 826
Period size: 206 Copynumber: 2.0 Consensus size: 206
7606943 TTTGTGGGGT
7606953 TAGCACGATTACTTTAACTCTTAGGCAAGACTTAGACGGTTACATTTAGTGGTATCAGAACACAT
1 TAGCACGATTACTTTAACTCTTAGGCAAGACTTAGACGGTTACATTTAGTGGTATCAGAACACAT
7607018 GTTTAAACTCTTGGATTGTGTAGCCCATTATAGTTCTAAAAATTATTATAAATGATTTTGTAAAA
66 GTTTAAACTCTTGGATTGTGTAGCCCATTATAGTTCTAAAAATTATTATAAATGATTTTGTAAAA
7607083 TTATTTTTAGACAAGTATGAATATTGTTTTTGAAAAAAAAAATCATGCTACAAGATTTTTGAGTA
131 TTATTTTTAGACAAGTATGAATATTGTTTTTGAAAAAAAAAATCATGCTACAAGATTTTTGAGTA
7607148 TCTTTTGAAAC
196 TCTTTTGAAAC
7607159 TAGCACGATTACTTTAACTCTTAGGCAAGACTTAGACGGTTACATTTAGTGGTATCAGAACACAT
1 TAGCACGATTACTTTAACTCTTAGGCAAGACTTAGACGGTTACATTTAGTGGTATCAGAACACAT
7607224 GTTTAAACTCTTGGATTGTGTAGCCCATTATAGTTCTAAAAATTATTATAAATGATTTTGTAAAA
66 GTTTAAACTCTTGGATTGTGTAGCCCATTATAGTTCTAAAAATTATTATAAATGATTTTGTAAAA
7607289 TTATTTTTAGACAAGTATGAATATTGTTTTTGAAAAAAAAAATCATGCTACAAGATTTTTGAGTA
131 TTATTTTTAGACAAGTATGAATATTGTTTTTGAAAAAAAAAATCATGCTACAAGATTTTTGAGTA
7607354 TCTTTTGAAAC
196 TCTTTTGAAAC
7607365 T
1 T
7607366 CTCGAGACTC
Statistics
Matches: 207, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
206 207 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (206 bp):
TAGCACGATTACTTTAACTCTTAGGCAAGACTTAGACGGTTACATTTAGTGGTATCAGAACACAT
GTTTAAACTCTTGGATTGTGTAGCCCATTATAGTTCTAAAAATTATTATAAATGATTTTGTAAAA
TTATTTTTAGACAAGTATGAATATTGTTTTTGAAAAAAAAAATCATGCTACAAGATTTTTGAGTA
TCTTTTGAAAC
Found at i:7619649 original size:19 final size:20
Alignment explanation
Indices: 7619625--7619679 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 20
7619615 ATGCAAAAAT
7619625 GGTATCGATACCATAGTA-G
1 GGTATCGATACCATAGTATG
*
7619644 GGTATC-AGTATCATAGTATG
1 GGTATCGA-TACCATAGTATG
7619664 GTAGTATCGATACCAT
1 G--GTATCGATACCAT
7619680 GAAAGGGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 1 0.03
19 15 0.52
20 2 0.07
22 10 0.34
23 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (20 bp):
GGTATCGATACCATAGTATG
Found at i:7620124 original size:59 final size:59
Alignment explanation
Indices: 7620027--7620599 Score: 808
Period size: 59 Copynumber: 9.7 Consensus size: 59
7620017 ATGGTACTAA
*
7620027 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTATATGAATTTCCGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
7620086 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTGTTGGGAACTTCT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTT-T
* * **
7620146 -TGTGCAAAGATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTAA
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * *
7620204 GTGTGTAAAAATGTTTAGAAATTCATACTAAGTGTATGGATTTCCGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* ** * **
7620263 GTGTGCAAAGATGTTAAGAAATTCATACTAAGTGTATGAATTTTTGTATTGAGCACTAA
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
7620322 GTGTGCAAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTTCGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * *
7620381 GTGTGCAAAGATGTTAAGAAATTCATACTAAGTCTATGAATTTCCATATTGGGAACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * *
7620440 GTGTGCAAAGATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATCGGGCACTCT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* ** *
7620499 GTGTGCAAAAATGTTAAGAAATTCATATTAAACGTATGAATTTCAGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * * *
7620558 ATGTACAAAAA-GATAAGAAATTCGTATTAAGTGTATGAATTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTT
7620600 ATGTATGGGA
Statistics
Matches: 456, Mismatches: 56, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
58 27 0.06
59 428 0.94
60 1 0.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (59 bp):
GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
Found at i:7626763 original size:20 final size:21
Alignment explanation
Indices: 7626714--7626767 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
7626704 AACTATAGTA
* *
7626714 GGGTATCGATACCATAGTTTG
1 GGGTATCGATACCATAGGTAG
*
7626735 GTAGTATCGATACCAT-GGTAG
1 G-GGTATCGATACCATAGGTAG
7626756 GGGTATCGATAC
1 GGGTATCGATAC
7626768 TGTAGAGCGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.36
21 5 0.18
22 13 0.46
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (21 bp):
GGGTATCGATACCATAGGTAG
Found at i:7627139 original size:53 final size:51
Alignment explanation
Indices: 7627077--7627212 Score: 147
Period size: 51 Copynumber: 2.6 Consensus size: 51
7627067 AAGTGTGCAA
7627077 AAATGTTAAGAATTCATACT-AGTGTAT-ATTTCCATATTGGGCACTTTGTGTGC
1 AAATGTTAAGAATTCATACTAAGTGTATAATTTCCAT-TT-GG--CTTTGTGTGC
* * *
7627130 AAATGTTAAGAAATCATACTAAGT-TATGAATTTTCGTTTGGCTTTGTGTGC
1 AAATGTTAAGAATTCATACTAAGTGTAT-AATTTCCATTTGGCTTTGTGTGC
7627181 AAATGTT-AGAAATTCATA-TAAGTGTATGAATT
1 AAATGTTAAG-AATTCATACTAAGTGTAT-AATT
7627213 CGTTTGGGCA
Statistics
Matches: 74, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
50 7 0.09
51 32 0.43
53 24 0.32
54 5 0.07
55 6 0.08
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (51 bp):
AAATGTTAAGAATTCATACTAAGTGTATAATTTCCATTTGGCTTTGTGTGC
Found at i:7627198 original size:51 final size:49
Alignment explanation
Indices: 7627120--7627219 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 49
7627110 ATATTGGGCA
7627120 CTTTGTGTGCAAATGTTAAGAAATCATACTAAGT-TATGAATTTTCGTTTGG
1 CTTTGTGTGCAAATGTTAAGAAATCATA-TAAGTGTATGAA--TTCGTTTGG
7627171 CTTTGTGTGCAAATGTT-AGAAATTCATATAAGTGTATGAATTCGTTTGG
1 CTTTGTGTGCAAATGTTAAGAAA-TCATATAAGTGTATGAATTCGTTTGG
7627220 GCACTTTACA
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
49 9 0.19
50 10 0.21
51 28 0.60
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (49 bp):
CTTTGTGTGCAAATGTTAAGAAATCATATAAGTGTATGAATTCGTTTGG
Found at i:7627376 original size:21 final size:22
Alignment explanation
Indices: 7627351--7627392 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
7627341 AAATGTTATG
7627351 AATTCATACTAAGTG-ATGAAA
1 AATTCATACTAAGTGTATGAAA
7627372 AATTCATACTAAGTGTATGAA
1 AATTCATACTAAGTGTATGAA
7627393 TTTTCGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (22 bp):
AATTCATACTAAGTGTATGAAA
Found at i:7627427 original size:79 final size:79
Alignment explanation
Indices: 7627296--7627444 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
7627286 CGTAAGAAAG
*
7627296 TCATACTAATGTATGAATTTCGTATTGGGCATAAAAGATGTGAAAAAATGTTATG-AATTCATAC
1 TCATACTAATGTATGAATTTCGTATTGGGCAT-AAAGATGTGAAAAAATGTTAAGAAATTCATAC
7627360 TAAGTGATGAAAAAT
65 TAAGTGATGAAAAAT
*
7627375 TCATACTAAGTGTATGAATTTTCGTTTTGGGCACT-AAG-TGT-ACAAAAATGTTAAGAAATTCA
1 TCATACTAA-TGTATGAA-TTTCGTATTGGGCA-TAAAGATGTGA-AAAAATGTTAAGAAATTCA
*
7627437 TATTAAGT
62 TACTAAGT
7627445 ATATGAATTT
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
78 1 0.02
79 23 0.37
80 24 0.39
81 13 0.21
82 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (79 bp):
TCATACTAATGTATGAATTTCGTATTGGGCATAAAGATGTGAAAAAATGTTAAGAAATTCATACT
AAGTGATGAAAAAT
Found at i:7627464 original size:59 final size:59
Alignment explanation
Indices: 7627371--7627926 Score: 717
Period size: 59 Copynumber: 9.4 Consensus size: 59
7627361 AAGTGATGAA
* * * *
7627371 AAATTCATACTAAGTGTATGAATTTTCGTTTTGGGCACTAAGTGTACAAAAATGTTAAG
1 AAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTAGTGTGCAAAAATGTTAAG
* * *
7627430 AAATTCATATTAAGTATATGAATTTCCGTATTGGGCACATTA-TGTGCAAATATGTTAAG
1 AAATTCATACTAAGTGTATGAATTTCCGTATTGGGCAC-TTAGTGTGCAAAAATGTTAAG
* * * * *
7627489 AAAATCATACTAAGTGTTTGAATTTCCGTATTGGGCACTAACTGTGAAAAAATGTTAAG
1 AAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTAGTGTGCAAAAATGTTAAG
* * *
7627548 AAATTCCTACTAAGTGTATGAATTTCTGTATTGGGCACTAAGTGTGCAAAAAATGTTAAG
1 AAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTAGTGTGC-AAAAATGTTAAG
* * * *
7627608 TAA-TGATTACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAGATGTTAAG
1 AAATTCA-TACTAAGTGTATGAATTTCCGTATTGGGCACTTAGTGTGCAAAAATGTTAAG
* *
7627667 AAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAGATGTTAAG
1 AAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTAGTGTGCAAAAATGTTAAG
* * *
7627726 AAATTCATACTAAGTGTATGAATTTCCGTATTGTGCACTTTGTGTGCAAAGATGTTAAG
1 AAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTAGTGTGCAAAAATGTTAAG
* * * *
7627785 AAATTAATACTAAGTGTTTGAATTTCTGTATTGGACACTCT-GTGTGCAAAAATGTTAAG
1 AAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACT-TAGTGTGCAAAAATGTTAAG
* * * *
7627844 AAATTCATATTAAGTGTATGAATTTTCGTATTGGTCACTTTA-TGTGCAAAAA-GATAAG
1 AAATTCATACTAAGTGTATGAATTTCCGTATTGGGCAC-TTAGTGTGCAAAAATGTTAAG
* * *
7627902 AAATTCTTATTAAGTGTATGGATTT
1 AAATTCATACTAAGTGTATGAATTT
7627927 TTGTATGAGA
Statistics
Matches: 444, Mismatches: 45, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
58 30 0.07
59 357 0.80
60 57 0.13
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (59 bp):
AAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTAGTGTGCAAAAATGTTAAG
Found at i:7627644 original size:237 final size:236
Alignment explanation
Indices: 7627371--7627926 Score: 776
Period size: 237 Copynumber: 2.4 Consensus size: 236
7627361 AAGTGATGAA
* * *
7627371 AAATTCATACTAAGTGTATGAATTTTCGTTTTGGGCACTAAGTGTACAAAAATGTTAAGAAATTC
1 AAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTAGTGTGCAAAAATGTTAAGAAATTC
* *
7627436 ATATTAAGTATATGAATTTCCGTATTGGGCACATTATGTGCAAATATGTTAAGAAAATCATACTA
66 ATATTAAGTGTATGAATTTCCGTATTGGGCACATTATGTGCAAAGATGTTAAGAAAATCATACTA
* **
7627501 AGTGTTTGAATTTCCGTATTGGGCACTAACTGTGAAAAAATGTTAAGAAATTCCTACTAAGTGTA
131 AGTGTATGAATTTCCGTATTGGGCACTAACTGTGAAAAAATGTTAAGAAATTAATACTAAGTGTA
*
7627566 TGAATTTCTGTATTGGGCACTAAGTGTGCAAAAAATGTTAAG
196 TGAATTTCTGTATTGGACACTAAGTGTGC-AAAAATGTTAAG
* * * * *
7627608 TAA-TGATTACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAGATGTTAAGAAATT
1 AAATTCA-TACTAAGTGTATGAATTTTCGTATTGGGCACTTAGTGTGCAAAAATGTTAAGAAATT
* * * *
7627672 CATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAGATGTTAAGAAATTCATACT
65 CATATTAAGTGTATGAATTTCCGTATTGGGCACATTATGTGCAAAGATGTTAAGAAAATCATACT
* *** * *
7627737 AAGTGTATGAATTTCCGTATTGTGCACTTTGTGTGCAAAGATGTTAAGAAATTAATACTAAGTGT
130 AAGTGTATGAATTTCCGTATTGGGCACTAACTGTGAAAAAATGTTAAGAAATTAATACTAAGTGT
* **
7627802 TTGAATTTCTGTATTGGACACTCTGTGTGCAAAAATGTTAAG
195 ATGAATTTCTGTATTGGACACTAAGTGTGCAAAAATGTTAAG
* * *
7627844 AAATTCATATTAAGTGTATGAATTTTCGTATTGGTCACTTTA-TGTGCAAAAA-GATAAGAAATT
1 AAATTCATACTAAGTGTATGAATTTTCGTATTGGGCAC-TTAGTGTGCAAAAATGTTAAGAAATT
* *
7627907 CTTATTAAGTGTATGGATTT
65 CATATTAAGTGTATGAATTT
7627927 TTGTATGAGA
Statistics
Matches: 278, Mismatches: 38, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
235 27 0.10
236 53 0.19
237 198 0.71
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (236 bp):
AAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTAGTGTGCAAAAATGTTAAGAAATTC
ATATTAAGTGTATGAATTTCCGTATTGGGCACATTATGTGCAAAGATGTTAAGAAAATCATACTA
AGTGTATGAATTTCCGTATTGGGCACTAACTGTGAAAAAATGTTAAGAAATTAATACTAAGTGTA
TGAATTTCTGTATTGGACACTAAGTGTGCAAAAATGTTAAG
Found at i:7642139 original size:19 final size:20
Alignment explanation
Indices: 7642096--7642143 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
7642086 TCTAAATCCT
*
7642096 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
7642116 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
7642135 TTTTCAAAA
1 TTTTCAAAA
7642144 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:7652019 original size:32 final size:31
Alignment explanation
Indices: 7651936--7652020 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
7651926 CTAATGTGAC
* *
7651936 TCTTAGGTAGGCTCTACGGCCCTAAGATCAT
1 TCTTAGGTAGGCCCTATGGCCCTAAGATCAT
** * **
7651967 TCTCGGGTAGGCCCTGTGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTATGGCCCTAAGAT-CAT
*
7651999 TCTTAGGTAGGCCCCATGGCCC
1 TCTTAGGTAGGCCCTATGGCCC
7652021 CAAACTTTCT
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.55
32 19 0.45
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.27
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTATGGCCCTAAGATCAT
Found at i:7653649 original size:18 final size:18
Alignment explanation
Indices: 7653610--7653651 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
7653600 TTGAGGTAAC
* *
7653610 CTAATGGAAATAAAATAT
1 CTAAAGGAAATAAAAGAT
7653628 CTAAAGGAAATAAAACGA-
1 CTAAAGGAAATAAAA-GAT
7653646 CTAAAG
1 CTAAAG
7653652 ATAATCCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.57, C:0.10, G:0.14, T:0.19
Consensus pattern (18 bp):
CTAAAGGAAATAAAAGAT
Found at i:7654026 original size:20 final size:21
Alignment explanation
Indices: 7653990--7654036 Score: 87
Period size: 20 Copynumber: 2.3 Consensus size: 21
7653980 TAGAGTCAAT
7653990 CACAAAATTGAAAATAAACAA
1 CACAAAATTGAAAATAAACAA
7654011 CACAAAATTG-AAATAAACAA
1 CACAAAATTGAAAATAAACAA
7654031 CACAAA
1 CACAAA
7654037 TAAACAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.66, C:0.17, G:0.04, T:0.13
Consensus pattern (21 bp):
CACAAAATTGAAAATAAACAA
Found at i:7661237 original size:20 final size:20
Alignment explanation
Indices: 7661212--7661286 Score: 80
Period size: 20 Copynumber: 3.7 Consensus size: 20
7661202 TTCAGCCTTC
* * *
7661212 ATGCATGGATGTACAGCATG
1 ATGCATCGATGCACAGCAAG
*
7661232 ATGCATCGATGCACAACCAAG
1 ATGCATCGATGCAC-AGCAAG
7661253 ATGCATCGATGCACAG-AAGG
1 ATGCATCGATGCACAGCAA-G
*
7661273 ATGCATTGATGCAC
1 ATGCATCGATGCAC
7661287 TAATTGCATT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.04
20 27 0.57
21 18 0.38
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.20
Consensus pattern (20 bp):
ATGCATCGATGCACAGCAAG
Found at i:7661352 original size:22 final size:23
Alignment explanation
Indices: 7661321--7661363 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
7661311 ATGGATTCAC
7661321 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
7661344 TGCA-GGTGCATGGATGCACT
1 TGCATGGTGCATCGATGCACT
7661364 GCAGGGATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:7661376 original size:21 final size:20
Alignment explanation
Indices: 7661307--7661424 Score: 134
Period size: 21 Copynumber: 5.8 Consensus size: 20
7661297 CGGTGTTTGA
* *
7661307 GTGCATGGATTCACTGCATG
1 GTGCATGGATGCACTGCAGG
*
7661327 GTGCATCGATGCACTAGTGCA-G
1 GTGCATGGATGCAC---TGCAGG
7661349 GTGCATGGATGCACTGCAGG
1 GTGCATGGATGCACTGCAGG
7661369 GATGCATGGATGCACTGCAGG
1 G-TGCATGGATGCACTGCAGG
7661390 GATGCATGGATG--CTGCAGGG
1 G-TGCATGGATGCACTGCA-GG
7661410 GTGCATGGATGCACT
1 GTGCATGGATGCACT
7661425 TTGACACCCT
Statistics
Matches: 87, Mismatches: 3, Indels: 15
0.83 0.03 0.14
Matches are distributed among these distances:
19 19 0.22
20 17 0.20
21 33 0.38
22 14 0.16
23 4 0.05
ACGTcount: A:0.21, C:0.19, G:0.36, T:0.23
Consensus pattern (20 bp):
GTGCATGGATGCACTGCAGG
Found at i:7661536 original size:29 final size:31
Alignment explanation
Indices: 7661503--7661562 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 31
7661493 AAAAATTGAA
7661503 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
7661532 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
7661563 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:7662736 original size:19 final size:20
Alignment explanation
Indices: 7662700--7662746 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
7662690 CTAAATCCTT
*
7662700 TTTCAAAATTTCATTTTTGC
1 TTTCAAAATCTCATTTTTGC
*
7662720 TTTCAAAATCT-ATTTTTGT
1 TTTCAAAATCTCATTTTTGC
7662739 TTTCAAAA
1 TTTCAAAA
7662747 GAAAATCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.30, C:0.13, G:0.04, T:0.53
Consensus pattern (20 bp):
TTTCAAAATCTCATTTTTGC
Found at i:7664053 original size:20 final size:20
Alignment explanation
Indices: 7664028--7664102 Score: 96
Period size: 20 Copynumber: 3.7 Consensus size: 20
7664018 TGCAGCCTTC
*
7664028 ATGCATAGATGCACAGTAGG
1 ATGCATCGATGCACAGTAGG
** *
7664048 ATGCATCGATGCACAACCAAG
1 ATGCATCGATGCAC-AGTAGG
*
7664069 ATGCATCGATGCATAGTAGG
1 ATGCATCGATGCACAGTAGG
7664089 ATGCATCGATGCAC
1 ATGCATCGATGCAC
7664103 TAATTGCATT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.20
Consensus pattern (20 bp):
ATGCATCGATGCACAGTAGG
Found at i:7670992 original size:109 final size:109
Alignment explanation
Indices: 7670801--7671018 Score: 436
Period size: 109 Copynumber: 2.0 Consensus size: 109
7670791 AGTTTCTCAT
7670801 TTCTTATTTCATTGCCCTGTTTCATGAAAATTTTGACAACGCTACTTTGATTGTTGAAATAAACC
1 TTCTTATTTCATTGCCCTGTTTCATGAAAATTTTGACAACGCTACTTTGATTGTTGAAATAAACC
7670866 CTTTGTTATGTCAAAAAATTTTGGTTCATTGTTACTAATGTGGG
66 CTTTGTTATGTCAAAAAATTTTGGTTCATTGTTACTAATGTGGG
7670910 TTCTTATTTCATTGCCCTGTTTCATGAAAATTTTGACAACGCTACTTTGATTGTTGAAATAAACC
1 TTCTTATTTCATTGCCCTGTTTCATGAAAATTTTGACAACGCTACTTTGATTGTTGAAATAAACC
7670975 CTTTGTTATGTCAAAAAATTTTGGTTCATTGTTACTAATGTGGG
66 CTTTGTTATGTCAAAAAATTTTGGTTCATTGTTACTAATGTGGG
7671019 AGGATACCTC
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 109 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.43
Consensus pattern (109 bp):
TTCTTATTTCATTGCCCTGTTTCATGAAAATTTTGACAACGCTACTTTGATTGTTGAAATAAACC
CTTTGTTATGTCAAAAAATTTTGGTTCATTGTTACTAATGTGGG
Found at i:7673921 original size:11 final size:11
Alignment explanation
Indices: 7673901--7673931 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
7673891 TTTTCACAAA
7673901 AAAAAT-AAAC
1 AAAAATAAAAC
7673911 AAAAATAAAAC
1 AAAAATAAAAC
7673922 AAAAATAAAA
1 AAAAATAAAA
7673932 ATAGGTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.30
11 14 0.70
ACGTcount: A:0.84, C:0.06, G:0.00, T:0.10
Consensus pattern (11 bp):
AAAAATAAAAC
Found at i:7674232 original size:18 final size:20
Alignment explanation
Indices: 7674191--7674234 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
7674181 TAAAACAATA
7674191 ATAATATACCAAATCATAAC
1 ATAATATACCAAATCATAAC
*
7674211 -TAATATA-CAAAT-ATTAC
1 ATAATATACCAAATCATAAC
7674228 ATAATAT
1 ATAATAT
7674235 GAGTACTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.18
18 11 0.50
19 7 0.32
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.32
Consensus pattern (20 bp):
ATAATATACCAAATCATAAC
Found at i:7675520 original size:3 final size:3
Alignment explanation
Indices: 7675501--7675535 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
7675491 ACTTTATATT
*
7675501 ATA AAA ATA ATA A-A ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7675536 TATTAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:7675524 original size:20 final size:20
Alignment explanation
Indices: 7675501--7675543 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
7675491 ACTTTATATT
7675501 ATAAAAATAATAAAATAATA
1 ATAAAAATAATAAAATAATA
* * *
7675521 ATAATAATAATAATATATTA
1 ATAAAAATAATAAAATAATA
7675541 ATA
1 ATA
7675544 TTTTTAGACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAAAATAATAAAATAATA
Found at i:7675788 original size:40 final size:40
Alignment explanation
Indices: 7675744--7675839 Score: 183
Period size: 40 Copynumber: 2.4 Consensus size: 40
7675734 GTGACACGGC
7675744 TCCTACGTGATGAGGAGATATGGTCGGTGGATGACATTGT
1 TCCTACGTGATGAGGAGATATGGTCGGTGGATGACATTGT
*
7675784 TCCTACGTGATGAGGAGATCTGGTCGGTGGATGACATTGT
1 TCCTACGTGATGAGGAGATATGGTCGGTGGATGACATTGT
7675824 TCCTACGTGATGAGGA
1 TCCTACGTGATGAGGA
7675840 TGGCTTGGCC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.22, C:0.15, G:0.34, T:0.29
Consensus pattern (40 bp):
TCCTACGTGATGAGGAGATATGGTCGGTGGATGACATTGT
Found at i:7676155 original size:46 final size:47
Alignment explanation
Indices: 7676078--7676170 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 47
7676068 AGATGATGTT
* ** *
7676078 TCAAGAGAAGCTGTCTCAAGAGAGACGAAA-TTTGTTTCAAGGGAAA
1 TCAAGAGAAACTGTCTCAAGAGAGAAAAAATTTTGTTTCAAGAGAAA
*
7676124 TCAAGAGAAACTGTCTCAAGAGAGAAAAAATTTTGTTTTAAGAGAAA
1 TCAAGAGAAACTGTCTCAAGAGAGAAAAAATTTTGTTTCAAGAGAAA
7676171 AAATCTCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
46 27 0.66
47 14 0.34
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.24
Consensus pattern (47 bp):
TCAAGAGAAACTGTCTCAAGAGAGAAAAAATTTTGTTTCAAGAGAAA
Found at i:7676194 original size:66 final size:65
Alignment explanation
Indices: 7676124--7676251 Score: 193
Period size: 66 Copynumber: 2.0 Consensus size: 65
7676114 TCAAGGGAAA
* * *
7676124 TCAAGAGAAACTGTCTCAAGAGAGAAAAAATTTTGTTTTAAGAGAAAAAATCTCAAAGATTGTGT
1 TCAAGAGAAACTGTCTCAAGAGAGAAAAAA-TTTATTTCAAGAGAAAAAATCTAAAAGATTGTGT
7676189 T
65 T
* * *
7676190 TCAAGAGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACAATCTAAAAGTTTGT
1 TCAAGAGAAACTGTCTCAAGAGAGAAAAAATTTATTTCAAGAGAAAAAATCTAAAAGATTGT
7676252 CAATTTTGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
65 27 0.48
66 29 0.52
ACGTcount: A:0.45, C:0.11, G:0.17, T:0.27
Consensus pattern (65 bp):
TCAAGAGAAACTGTCTCAAGAGAGAAAAAATTTATTTCAAGAGAAAAAATCTAAAAGATTGTGTT
Found at i:7687659 original size:14 final size:14
Alignment explanation
Indices: 7687640--7687668 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7687630 CATCCATTCA
7687640 ACTTCAACACCATC
1 ACTTCAACACCATC
7687654 ACTTCAACACCATC
1 ACTTCAACACCATC
7687668 A
1 A
7687669 ACCATTTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (14 bp):
ACTTCAACACCATC
Found at i:7692343 original size:18 final size:20
Alignment explanation
Indices: 7692302--7692345 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
7692292 TAAAACAATA
7692302 ATAATATACCAAATCATAAC
1 ATAATATACCAAATCATAAC
*
7692322 -TAATATA-CAAAT-ATTAC
1 ATAATATACCAAATCATAAC
7692339 ATAATAT
1 ATAATAT
7692346 GAGTACTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.18
18 11 0.50
19 7 0.32
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.32
Consensus pattern (20 bp):
ATAATATACCAAATCATAAC
Found at i:7692736 original size:62 final size:64
Alignment explanation
Indices: 7692658--7692800 Score: 152
Period size: 62 Copynumber: 2.3 Consensus size: 64
7692648 CCTAAAGAAA
* ** * *
7692658 TGAAAAACA--TGGGTGATATTACAAAGCTAC-ATGGATTAAAGCTGCAATTACCCCTT-TACAT
1 TGAAAAACACGTGTGTGATATTACAAAGCTACGA-GGACCAAAGCTGCAATTACACCTTACACAT
* * * * *
7692719 TG-AAAACACGTGTGTGATATTATAGAGCTACGAGGACCAAAGTTGCTATTAGACCTTACACAT
1 TGAAAAACACGTGTGTGATATTACAAAGCTACGAGGACCAAAGCTGCAATTACACCTTACACAT
7692782 TGAAAAACACGTGTGTGAT
1 TGAAAAACACGTGTGTGAT
7692801 TCCCCTAAAG
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
60 6 0.09
61 2 0.03
62 36 0.54
63 7 0.10
64 16 0.24
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (64 bp):
TGAAAAACACGTGTGTGATATTACAAAGCTACGAGGACCAAAGCTGCAATTACACCTTACACAT
Found at i:7693862 original size:18 final size:20
Alignment explanation
Indices: 7693839--7693877 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7693829 GTCTGGTATG
7693839 TTGGGTT-T-GATTTGTAAT
1 TTGGGTTCTAGATTTGTAAT
*
7693857 TTGGGTTCTAGGTTTGTAAT
1 TTGGGTTCTAGATTTGTAAT
7693877 T
1 T
7693878 GATTGGGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 1 0.06
20 10 0.56
ACGTcount: A:0.15, C:0.03, G:0.28, T:0.54
Consensus pattern (20 bp):
TTGGGTTCTAGATTTGTAAT
Found at i:7699689 original size:3 final size:3
Alignment explanation
Indices: 7699676--7699715 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
7699666 ACTTTATATT
*
7699676 ATA AAA ATA ATA ATA A-A ATA AT- ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7699716 TATTAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:7699695 original size:11 final size:11
Alignment explanation
Indices: 7699679--7699723 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
7699669 TTATATTATA
7699679 AAAATAATAAT
1 AAAATAATAAT
7699690 AAAATAAT-AT
1 AAAATAATAAT
7699700 AATAATAATAAT
1 AA-AATAATAAT
* *
7699712 AATATATTAAT
1 AAAATAATAAT
7699723 A
1 A
7699724 TTTTTGTAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 4 0.13
11 22 0.73
12 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:7699709 original size:25 final size:25
Alignment explanation
Indices: 7699671--7699724 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
7699661 ATGTGACTTT
*
7699671 ATATTATAAAAATAATAATAAAATA
1 ATATAATAAAAATAATAATAAAATA
* * *
7699696 ATATAATAATAATAATAATATATTA
1 ATATAATAAAAATAATAATAAAATA
7699721 ATAT
1 ATAT
7699725 TTTTGTAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
ATATAATAAAAATAATAATAAAATA
Found at i:7704463 original size:28 final size:29
Alignment explanation
Indices: 7704405--7704478 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
7704395 CTAGATTAAT
* **
7704405 AAAAAATATAATTTAA-TCCTATTATTCA
1 AAAAAATATAATTTAATTACTATTATAAA
*
7704433 AAAAAATATAATTTAATTACT-TTGTAAA
1 AAAAAATATAATTTAATTACTATTATAAA
* *
7704461 AAAATATATAATGTAATT
1 AAAAAATATAATTTAATT
7704479 CAAAAAATTG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 36 0.92
29 3 0.08
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (29 bp):
AAAAAATATAATTTAATTACTATTATAAA
Found at i:7705756 original size:17 final size:17
Alignment explanation
Indices: 7705734--7705766 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7705724 TGAGTGTTAA
7705734 TTTAATAAATGAACTAG
1 TTTAATAAATGAACTAG
*
7705751 TTTAATTAATGAACTA
1 TTTAATAAATGAACTA
7705767 CTTCCCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (17 bp):
TTTAATAAATGAACTAG
Found at i:7716400 original size:18 final size:18
Alignment explanation
Indices: 7716368--7716407 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
7716358 GTAGAAATAT
*
7716368 AAAAATAAGGCAAATAAA
1 AAAAATAAGGAAAATAAA
7716386 CAAAAAT-AGGAAAATAAA
1 -AAAAATAAGGAAAATAAA
7716404 AAAA
1 AAAA
7716408 TATGAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 10 0.50
19 6 0.30
ACGTcount: A:0.75, C:0.05, G:0.10, T:0.10
Consensus pattern (18 bp):
AAAAATAAGGAAAATAAA
Found at i:7716420 original size:11 final size:11
Alignment explanation
Indices: 7716404--7716445 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
7716394 GGAAAATAAA
7716404 AAAATATGAAT
1 AAAATATGAAT
7716415 AAAATATGAAT
1 AAAATATGAAT
* *
7716426 -AAATATAAAG
1 AAAATATGAAT
7716436 AAAATATGAA
1 AAAATATGAA
7716446 AGGGAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.24
Consensus pattern (11 bp):
AAAATATGAAT
Found at i:7716431 original size:21 final size:21
Alignment explanation
Indices: 7716405--7716445 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7716395 GAAAATAAAA
* *
7716405 AAATATGAATAAAATATGAAT
1 AAATATAAAGAAAATATGAAT
7716426 AAATATAAAGAAAATATGAA
1 AAATATAAAGAAAATATGAA
7716446 AGGGAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (21 bp):
AAATATAAAGAAAATATGAAT
Found at i:7716535 original size:28 final size:27
Alignment explanation
Indices: 7716472--7716535 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
7716462 AAAAGGTAAA
*
7716472 GATAAAGAAAAATAAATAAATATAGAAT
1 GATAAA-AAAAATAAATAAATAAAGAAT
* *
7716500 CA-AGAAAAAAGATAAATAAATAAATAAT
1 GATA-AAAAAA-ATAAATAAATAAAGAAT
7716528 GATAAAAA
1 GATAAAAA
7716536 CATATATGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
27 5 0.17
28 23 0.79
29 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (27 bp):
GATAAAAAAAATAAATAAATAAAGAAT
Found at i:7716592 original size:12 final size:12
Alignment explanation
Indices: 7716568--7716621 Score: 74
Period size: 12 Copynumber: 4.5 Consensus size: 12
7716558 AGCTATAATG
*
7716568 ATAATAGTGAAA
1 ATAATAATGAAA
*
7716580 ATAGTAATGAAA
1 ATAATAATGAAA
7716592 ATAATAATGAAA
1 ATAATAATGAAA
7716604 ATAATAAAT-AAA
1 ATAAT-AATGAAA
7716616 ATAATA
1 ATAATA
7716622 TATATATATG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
11 1 0.03
12 34 0.89
13 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (12 bp):
ATAATAATGAAA
Found at i:7716688 original size:18 final size:18
Alignment explanation
Indices: 7716657--7716699 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
7716647 CGTACATAAG
7716657 AAAAATATACATAATAAAAT
1 AAAAA-ATACATAAT-AAAT
*
7716677 AAAAAATA-ATAATGAAT
1 AAAAAATACATAATAAAT
7716694 AAAAAA
1 AAAAAA
7716700 GTTTGACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 9 0.41
18 5 0.23
19 3 0.14
20 5 0.23
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAAAATACATAATAAAT
Found at i:7716694 original size:22 final size:21
Alignment explanation
Indices: 7716657--7716697 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
7716647 CGTACATAAG
7716657 AAAAATATACATAATAAAATA
1 AAAAATATACATAATAAAATA
7716678 AAAAATAATA-ATGAATAAAA
1 AAAAAT-ATACAT-AATAAAA
7716698 AAGTTTGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (21 bp):
AAAAATATACATAATAAAATA
Found at i:7718519 original size:65 final size:65
Alignment explanation
Indices: 7718437--7718730 Score: 233
Period size: 65 Copynumber: 4.4 Consensus size: 65
7718427 AGACAAAAAT
* *
7718437 TTTCAAGAGAAACTGTCTCGAGGGAGACGAAATTTGTTT-AATGGAAAACAGATTAAAATATTTT
1 TTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAA-GGAAAACAGATTAAAATATTTT
7718501 G
65 G
* * * *
7718502 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAAGG-AAATATATTCAAAGAT-TT
1 TTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTGTTTC-AAGGAAAACAGATT-AAA-ATATT
7718565 TTG
63 TTG
* **** *
7718568 TTTCAAGGAAAACTGTCTCAAGGGAGAC-AAAAAAATTT-AAGAGAAAATGTCTCAAGA-GAGAC
1 TTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAG-GAAAA-----C-AGATTA-A-
*
7718630 AA-AATTTG
57 AATATTTTG
* ** * * * *
7718638 TTTTAAAAGAAACTGTCTCAAGGGAGACGAGATTTGTTTCAAGGAAAACAGATTCAAAGATTCTG
1 TTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGAAAACAGATTAAAATATTTTG
*
7718703 TTTCAAGGGAAACTGTCTCAAGAGAGAC
1 TTTCAAGGGAAACTGTCTCAAGGGAGAC
7718731 AAAAAAAATT
Statistics
Matches: 177, Mismatches: 33, Indels: 38
0.71 0.13 0.15
Matches are distributed among these distances:
63 3 0.02
64 3 0.02
65 83 0.47
66 37 0.21
67 4 0.02
69 1 0.01
70 30 0.17
71 13 0.07
72 3 0.02
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (65 bp):
TTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGAAAACAGATTAAAATATTTTG
Found at i:7718541 original size:36 final size:36
Alignment explanation
Indices: 7718498--7719016 Score: 224
Period size: 36 Copynumber: 15.1 Consensus size: 36
7718488 ATTAAAATAT
7718498 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * **
7718534 TTTGTTTCAAAGGAAA-TATATTC-A-A-AG---ATT
1 TTTGTTTCAAGGGAAACTGT-CTCAAGAGAGACAAAA
* *
7718564 TTTGTTTCAAGGAAAACTGTCTCAAGGGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*** * *
7718600 -AAATTT-AAGAGAAAATGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* ** * * *
7718634 TTTGTTTTAAAAGAAACTGTCTCAAGGGAGACGAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
7718670 TTTGTTTCAAGGAAAACAGAT-TC-A-A-AG-----A
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAA
7718698 TTCTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
**** * * * * *
7718735 AAAATTTTAAGAGAAAATGTCTCAAAAGAAACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
** *
7718771 TTTGTTTCTAAAAGAAACTGTCTCAAGAGAGAAAAAA
1 TTTGTTTC-AAGGGAAACTGTCTCAAGAGAGACAAAA
* * ** **
7718808 CTTTGTTTCAATGAAAAC-AACTTC-A-A-AG----TT
1 -TTTGTTTCAAGGGAAACTGTC-TCAAGAGAGACAAAA
*
7718838 TTTGTTTCAAGGGAAACCGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
7718874 TTTGTTT-TAGGAGAAAATTTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGG-GAAACTGTCTCAAGAGAGACAAAA
* * *** ***
7718910 CTTTGTTTCAATGAAAAGAAAT-TC-A-A-AG---TTT
1 -TTTGTTTCAAGGGAAA-CTGTCTCAAGAGAGACAAAA
*
7718941 TTTGTTTCAAGGGAAACCGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * *
7718977 ATTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
7719013 TTTG
1 TTTG
7719017 AGCGAGAGAC
Statistics
Matches: 347, Mismatches: 93, Indels: 86
0.66 0.18 0.16
Matches are distributed among these distances:
28 4 0.01
29 35 0.10
30 36 0.10
31 6 0.02
32 5 0.01
33 8 0.02
34 29 0.08
35 15 0.04
36 152 0.44
37 45 0.13
38 12 0.03
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.27
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:7718598 original size:165 final size:167
Alignment explanation
Indices: 7718281--7718640 Score: 423
Period size: 165 Copynumber: 2.1 Consensus size: 167
7718271 GGAGAAGTTA
* * *
7718281 TCTCAAAAGAGACAGAATTTGTTTCAA--GAGAAAC-GATCTCAAAGATATTTGTTGTTTCATGA
1 TCTCAAGAGAGACAAAATTTGTTT-AATGGA-AAACAGAT-T-AAA-ATA-TT-TTGTTTCAAGA
*
7718343 GAAACGGTCTCAAGGTAAACAAAATTTTGTGTTAAGGGAAATAAATTCAAAGATTTTGTGTTTCA
59 GAAACGGTCTCAAGGTAAACAAAATTTTGTGTTAAAGGAAATAAATTCAAAGATTTTGTGTTTCA
* *
7718408 AAAGAAACCGTCTCAAGGGAGAC-AAAAATTTTCAAGAGAAACTG
124 AAAGAAACCGTCTCAAGGGAGACAAAAAAATTT-AAGAGAAAATG
* * * * *
7718452 TCTCGAGGGAGACGAAATTTGTTTAATGGAAAACAGATTAAAATATTTTGTTTCAAGGGAAACTG
1 TCTCAAGAGAGACAAAATTTGTTTAATGGAAAACAGATTAAAATATTTTGTTTCAAGAGAAACGG
* * *
7718517 TCTCAAGAG-AGACAAAA-TTTGT-TTCAAAGGAAATATATTCAAAGATTTT-TGTTTC-AAGGA
66 TCTCAAG-GTAAACAAAATTTTGTGTT-AAAGGAAATAAATTCAAAGATTTTGTGTTTCAAAAG-
*
7718577 AAACTGTCTCAAGGGAGACAAAAAAATTTAAGAGAAAATG
128 AAACCGTCTCAAGGGAGACAAAAAAATTTAAGAGAAAATG
7718617 TCTCAAGAGAGACAAAATTTGTTT
1 TCTCAAGAGAGACAAAATTTGTTT
7718641 TAAAAGAAAC
Statistics
Matches: 164, Mismatches: 18, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
164 3 0.02
165 57 0.35
166 35 0.21
167 29 0.18
168 3 0.02
169 3 0.02
170 5 0.03
171 24 0.15
172 5 0.03
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (167 bp):
TCTCAAGAGAGACAAAATTTGTTTAATGGAAAACAGATTAAAATATTTTGTTTCAAGAGAAACGG
TCTCAAGGTAAACAAAATTTTGTGTTAAAGGAAATAAATTCAAAGATTTTGTGTTTCAAAAGAAA
CCGTCTCAAGGGAGACAAAAAAATTTAAGAGAAAATG
Found at i:7718854 original size:139 final size:138
Alignment explanation
Indices: 7718510--7718918 Score: 556
Period size: 139 Copynumber: 3.0 Consensus size: 138
7718500 TGTTTCAAGG
* * *
7718510 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAAGGAAATATATTCAAAGATTTTTGTTTCAAG
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAAGAAAACAGATTCAAAG-TTTTTGTTTCAAG
* *
7718575 GAAAACTGTCTCAAGGGAGAC-AAAAAAA-TTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTG
65 GGAAACTGTCTCAAGAGAGACAAAAAAAATTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTG
7718638 TTT-TAAAA
130 TTTCTAAAA
* * * * * *
7718646 GAAACTGTCTCAAGGGAGACGAGATTTGTTTCAAGGAAAACAGATTCAAAGATTCTGTTTCAAGG
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAAGAAAACAGATTCAAAGTTTTTGTTTCAAGG
* *
7718711 GAAACTGTCTCAAGAGAGACAAAAAAAATTTTAAGAGAAAATGTCTCAAAAGAAACAAAATTTGT
66 GAAACTGTCTCAAGAGAGACAAAAAAAATTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTGT
7718776 TTCTAAAA
131 TTCTAAAA
* *
7718784 GAAACTGTCTCAAGAGAGAAAAAACTTTGTTTCAATGAAAACA-ACTTCAAAGTTTTTGTTTCAA
1 GAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAAGAAAACAGA-TTCAAAGTTTTTGTTTCAA
* **** * *
7718848 GGGAAACCGTCTCAAGAGAGACAAAATTTGTTTTAGGAGAAAATTTCTCAAGAGAGACAAAACTT
64 GGGAAACTGTCTCAAGAGAGACAAAAAAAATTTTAAGAGAAAATGTCTCAAGAGAGACAAAA-TT
7718913 TGTTTC
128 TGTTTC
7718919 AATGAAAAGA
Statistics
Matches: 238, Mismatches: 29, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
135 30 0.13
136 51 0.21
137 36 0.15
138 26 0.11
139 87 0.37
140 8 0.03
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (138 bp):
GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAAGAAAACAGATTCAAAGTTTTTGTTTCAAGG
GAAACTGTCTCAAGAGAGACAAAAAAAATTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTGT
TTCTAAAA
Found at i:7718935 original size:102 final size:103
Alignment explanation
Indices: 7718753--7719016 Score: 415
Period size: 103 Copynumber: 2.6 Consensus size: 103
7718743 AAGAGAAAAT
* * * * *
7718753 GTCTCAAAAGAAACAAAATTTGTTTCTAAAAGAAACTGTCTCAAGAGAGAAAAAACTTTGTTTCA
1 GTCTCAAGAGAGACAAAATTTGTTT-TAAGAGAAAATGTCTCAAGAGAGACAAAACTTTGTTTCA
*
7718818 ATGAAAACAACTTCAAAG-TTTTTGTTTCAAGGGAAACC
65 ATGAAAACAAATTCAAAGTTTTTTGTTTCAAGGGAAACC
* *
7718856 GTCTCAAGAGAGACAAAATTTGTTTTAGGAGAAAATTTCTCAAGAGAGACAAAACTTTGTTTCAA
1 GTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAACTTTGTTTCAA
*
7718921 TGAAAAGAAATTCAAAGTTTTTTGTTTCAAGGGAAACC
66 TGAAAACAAATTCAAAGTTTTTTGTTTCAAGGGAAACC
*
7718959 GTCTCAAGAGAGACAAAAATTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA-TTTG
1 GTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAACTTTG
7719017 AGCGAGAGAC
Statistics
Matches: 148, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
102 54 0.36
103 94 0.64
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (103 bp):
GTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAACTTTGTTTCAA
TGAAAACAAATTCAAAGTTTTTTGTTTCAAGGGAAACC
Found at i:7720471 original size:95 final size:95
Alignment explanation
Indices: 7720297--7720478 Score: 251
Period size: 95 Copynumber: 1.9 Consensus size: 95
7720287 ATATGTAAAT
* * * * *
7720297 ACCTTTTTCAGGTTAGCTGAATCTTATCTATAAAGCTGGGGCATTTAACCAATTCCCTTAGAGGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCATTTAACCAATTCCCTTAGAGGG
*
7720362 ACAGCTCAGACTTTATTGTATAGTATAATC
66 ACAACTCAGACTTTATTGTATAGTATAATC
* * *
7720392 ACCTTTATCAGGCTAGTTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATT-GCTCTAGAGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCATTTAACCAATTCCCT-TAGAGG
7720456 GACAACTCA-AGCTTTATTGTATA
65 GACAACTCAGA-CTTTATTGTATA
7720479 TAAATAATAT
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
94 3 0.04
95 73 0.96
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (95 bp):
ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCATTTAACCAATTCCCTTAGAGGG
ACAACTCAGACTTTATTGTATAGTATAATC
Found at i:7724518 original size:11 final size:11
Alignment explanation
Indices: 7724502--7724543 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
7724492 GGAAAATAAA
7724502 AAAATATGAAT
1 AAAATATGAAT
7724513 AAAATATGAAT
1 AAAATATGAAT
* *
7724524 -AAATATAAAG
1 AAAATATGAAT
7724534 AAAATATGAA
1 AAAATATGAA
7724544 AGGGAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.24
Consensus pattern (11 bp):
AAAATATGAAT
Found at i:7724529 original size:21 final size:21
Alignment explanation
Indices: 7724503--7724543 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7724493 GAAAATAAAA
* *
7724503 AAATATGAATAAAATATGAAT
1 AAATATAAAGAAAATATGAAT
7724524 AAATATAAAGAAAATATGAA
1 AAATATAAAGAAAATATGAA
7724544 AGGGAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (21 bp):
AAATATAAAGAAAATATGAAT
Found at i:7724704 original size:15 final size:14
Alignment explanation
Indices: 7724677--7724710 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
7724667 TAATAGTGAA
*
7724677 AATAGTAATAAAAT
1 AATAATAATAAAAT
7724691 AATAATAATGAAAAT
1 AATAATAAT-AAAAT
7724706 AATAA
1 AATAA
7724711 ATATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (14 bp):
AATAATAATAAAAT
Found at i:7724772 original size:18 final size:20
Alignment explanation
Indices: 7724741--7724783 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 20
7724731 CGTACATAAG
7724741 AAAAATATACATAAT-AAAA
1 AAAAATATACATAATGAAAA
7724760 TAAAAA-ATA-ATAATGAAAA
1 -AAAAATATACATAATGAAAA
7724779 AAAAA
1 AAAAA
7724784 GTATTACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.45
19 7 0.32
20 5 0.23
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (20 bp):
AAAAATATACATAATGAAAA
Found at i:7729891 original size:7 final size:7
Alignment explanation
Indices: 7729879--7729912 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
7729869 ATTTTCTTTC
7729879 TTTTCAG
1 TTTTCAG
*
7729886 TTTTCAC
1 TTTTCAG
*
7729893 TTTTCAA
1 TTTTCAG
7729900 TTTTCAG
1 TTTTCAG
7729907 TTTTCA
1 TTTTCA
7729913 ATATACTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.59
Consensus pattern (7 bp):
TTTTCAG
Found at i:7729897 original size:14 final size:14
Alignment explanation
Indices: 7729878--7729914 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
7729868 TATTTTCTTT
*
7729878 CTTTTCAGTTTTCA
1 CTTTTCAATTTTCA
7729892 CTTTTCAATTTTCA
1 CTTTTCAATTTTCA
*
7729906 GTTTTCAAT
1 CTTTTCAAT
7729915 ATACTTGTGG
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:0.19, C:0.19, G:0.05, T:0.57
Consensus pattern (14 bp):
CTTTTCAATTTTCA
Found at i:7733398 original size:3 final size:3
Alignment explanation
Indices: 7733392--7733465 Score: 100
Period size: 3 Copynumber: 25.0 Consensus size: 3
7733382 TCATTTTGTT
7733392 TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
*
7733438 TTA TTA -TA TT- TT- TTA TTTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
7733466 AATAAATATT
Statistics
Matches: 65, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
2 6 0.09
3 53 0.82
4 6 0.09
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:7735787 original size:28 final size:28
Alignment explanation
Indices: 7735730--7735789 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
7735720 TAATTCTTTC
*
7735730 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATTTATATATATACTTATTA
*
7735758 TTTTCATAATATTTATATGTATA-TTA-TA
1 TTTTCA-AA-ATTTATATATATACTTATTA
7735786 TTTT
1 TTTT
7735790 TATTTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 12 0.43
29 5 0.18
30 11 0.39
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (28 bp):
TTTTCAAAATTTATATATATACTTATTA
Found at i:7735793 original size:6 final size:6
Alignment explanation
Indices: 7735784--7735827 Score: 54
Period size: 6 Copynumber: 7.0 Consensus size: 6
7735774 ATGTATATTA
7735784 TATTTT TATTTT TATTTT TATTTT TAATATTT T-TATTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT T-AT-TTT TAT-TTT TATTTT
7735828 CAAGTATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 28 0.80
7 3 0.09
8 4 0.11
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TATTTT
Found at i:7735799 original size:17 final size:17
Alignment explanation
Indices: 7735738--7735809 Score: 54
Period size: 17 Copynumber: 4.1 Consensus size: 17
7735728 TCTTTTCAAA
*
7735738 ATTTTTATATATACTTATT
1 ATTTTTAT-TATA-TTTTT
* * *
7735757 ATTTTCATAATATTTAT
1 ATTTTTATTATATTTTT
* *
7735774 ATGTATATTATATTTTT
1 ATTTTTATTATATTTTT
*
7735791 ATTTTTATTTTTATTTTT
1 ATTTTTA-TTATATTTTT
7735809 A
1 A
7735810 ATATTTTTAT
Statistics
Matches: 40, Mismatches: 12, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
17 20 0.50
18 13 0.32
19 7 0.17
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (17 bp):
ATTTTTATTATATTTTT
Found at i:7735835 original size:21 final size:21
Alignment explanation
Indices: 7735790--7735835 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
7735780 ATTATATTTT
*
7735790 TATTTTTATTTTTATTTTTAA
1 TATTTTTATTTTTATTTTCAA
7735811 TATTTTTA-TTTTATTTTCAA
1 TATTTTTATTTTTATTTTCAA
7735831 GTATT
1 -TATT
7735836 AAATTTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (21 bp):
TATTTTTATTTTTATTTTCAA
Found at i:7735837 original size:27 final size:27
Alignment explanation
Indices: 7735779--7735841 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
7735769 TTTATATGTA
* *
7735779 TATT-ATATTTTTATTTTTATTTTTAT
1 TATTAATATTTTTATTTTTATTTTAAG
*
7735805 TTTTAATATTTTTA-TTTTATTTTCAAG
1 TATTAATATTTTTATTTTTATTTT-AAG
7735832 TATTAA-ATTT
1 TATTAATATTT
7735842 CATTATTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
26 16 0.52
27 15 0.48
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (27 bp):
TATTAATATTTTTATTTTTATTTTAAG
Found at i:7737157 original size:7 final size:7
Alignment explanation
Indices: 7737141--7737180 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
7737131 TTTTCATACA
7737141 TGCA-TT
1 TGCATTT
7737147 TGCATTT
1 TGCATTT
7737154 TGCATCTT
1 TGCAT-TT
7737162 TGCATTT
1 TGCATTT
7737169 T-CATTT
1 TGCATTT
7737175 TGCATT
1 TGCATT
7737181 CGTACTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 10 0.32
7 14 0.45
8 7 0.23
ACGTcount: A:0.15, C:0.17, G:0.12, T:0.55
Consensus pattern (7 bp):
TGCATTT
Found at i:7739718 original size:8 final size:8
Alignment explanation
Indices: 7739705--7739769 Score: 50
Period size: 8 Copynumber: 8.5 Consensus size: 8
7739695 TTCATCAGTA
7739705 AAAAGAAG
1 AAAAGAAG
*
7739713 AAAAGAGATA
1 AAAAGA-A-G
*
7739723 AAAAGAAT
1 AAAAGAAG
*
7739731 AAAAAAAG
1 AAAAGAAG
7739739 -AAAG-AG
1 AAAAGAAG
7739745 AAAA-AAG
1 AAAAGAAG
7739752 -AAA-AAG
1 AAAAGAAG
7739758 AAAAGAAG
1 AAAAGAAG
7739766 AAAA
1 AAAA
7739770 AAATGTTGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
6 8 0.17
7 11 0.24
8 19 0.41
9 2 0.04
10 6 0.13
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.03
Consensus pattern (8 bp):
AAAAGAAG
Found at i:7739726 original size:18 final size:18
Alignment explanation
Indices: 7739703--7739773 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 18
7739693 CATTCATCAG
*
7739703 TAAAAAGAAGAAAAGAGA
1 TAAAAAGAAGAAAAGAAA
*
7739721 TAAAAAGAATAAAA-AAA
1 TAAAAAGAAGAAAAGAAA
* *
7739738 GAAAGAGAA-AAAAGAAA
1 TAAAAAGAAGAAAAGAAA
*
7739755 AAGAAAAGAAGAAAA-AAA
1 TA-AAAAGAAGAAAAGAAA
7739773 T
1 T
7739774 GTTGAATCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
16 4 0.09
17 13 0.30
18 22 0.51
19 4 0.09
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (18 bp):
TAAAAAGAAGAAAAGAAA
Found at i:7739750 original size:13 final size:13
Alignment explanation
Indices: 7739714--7739768 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
7739704 AAAAAGAAGA
7739714 AAAGAGATAAAAAG
1 AAAGAGA-AAAAAG
*
7739728 -AATA-AAAAAAG
1 AAAGAGAAAAAAG
7739739 AAAGAGAAAAAAG
1 AAAGAGAAAAAAG
*
7739752 AAAAAGAAAAGAAG
1 AAAGAGAAAA-AAG
7739766 AAA
1 AAA
7739769 AAAATGTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
11 6 0.17
12 4 0.11
13 19 0.54
14 6 0.17
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (13 bp):
AAAGAGAAAAAAG
Found at i:7739750 original size:14 final size:14
Alignment explanation
Indices: 7739722--7739770 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
7739712 GAAAAGAGAT
7739722 AAAAAGAATAAAAA-
1 AAAAAGAA-AAAAAG
7739736 AAGAAAGAGAAAAAAG
1 AA-AAAGA-AAAAAAG
*
7739752 AAAAAGAAAAGAAG
1 AAAAAGAAAAAAAG
7739766 AAAAA
1 AAAAA
7739771 AATGTTGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 13 0.42
15 15 0.48
16 3 0.10
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:7739755 original size:20 final size:21
Alignment explanation
Indices: 7739710--7739771 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 21
7739700 CAGTAAAAAG
7739710 AAGAAAAG-AGATAAAAAGAATA
1 AAGAAAAGAAGA-AAAAAGAA-A
7739732 AA-AAAAGAAAGAGAAAAAAGAAA
1 AAGAAAAG--A-AGAAAAAAGAAA
7739755 AAGAAAAGAAGAAAAAA
1 AAGAAAAGAAGAAAAAA
7739772 ATGTTGAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
21 13 0.37
22 3 0.09
23 3 0.09
24 13 0.37
25 3 0.09
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (21 bp):
AAGAAAAGAAGAAAAAAGAAA
Found at i:7744321 original size:53 final size:54
Alignment explanation
Indices: 7744221--7744370 Score: 203
Period size: 54 Copynumber: 2.8 Consensus size: 54
7744211 CTGATGAGAA
* * *
7744221 ATATGGGCAGAAGCCACAGGAAAATGATGAATGTATTTTCAAATGC-TTACGAAC
1 ATATGGGCAGAAGCCACATG-AAAGGATGAATGTATTGTCAAATGCTTTACGAAC
*
7744275 ATATGGGCAGAAGCCACATGAAAGGATGAATGCATTGTCAAATGCTTTACGAAC
1 ATATGGGCAGAAGCCACATGAAAGGATGAATGTATTGTCAAATGCTTTACGAAC
** * * *
7744329 ATCCGAGCAGAAACCACATGAAAGGATGAATGTGTTGTCAAA
1 ATATGGGCAGAAGCCACATGAAAGGATGAATGTATTGTCAAA
7744371 ATGTTTTATG
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 22 0.26
54 63 0.74
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (54 bp):
ATATGGGCAGAAGCCACATGAAAGGATGAATGTATTGTCAAATGCTTTACGAAC
Found at i:7744775 original size:22 final size:22
Alignment explanation
Indices: 7744747--7744826 Score: 124
Period size: 22 Copynumber: 3.6 Consensus size: 22
7744737 TAAATCCACA
7744747 CTCTTCAAAGATGATAGATTTT
1 CTCTTCAAAGATGATAGATTTT
7744769 CTCTTCAAAGATGATAGATTTT
1 CTCTTCAAAGATGATAGATTTT
** *
7744791 CTCTTTGAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTTT
*
7744813 CTTTTCAAAGATGA
1 CTCTTCAAAGATGA
7744827 ACACTTTATT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTTT
Found at i:7745875 original size:112 final size:113
Alignment explanation
Indices: 7745678--7746119 Score: 428
Period size: 121 Copynumber: 3.8 Consensus size: 113
7745668 CAGAATGTTT
7745678 TCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAGTTCATAA
1 TCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAATAAGAAGTTCATAA
* * *
7745743 TAAGAAGAACTTGTTCAACCTTTTGATCAAATTC-ATCAC-TCGAT-GGA
65 TGAGAAGAACTTGTTCAACCTTTTGAT-AAATTCTATCACATAGATAGCA
* * * *
7745790 TCAACATTTCTAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAA
1 TCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATAA
* * *
7745855 TGAGAAGAACTTGTCCAACCTTTTGCTAGATTCTATCACAGAAGGAGATAGATCAGCA
65 TGAGAAGAACTTGTTCAACCTTTTGATAAATTCTATCAC--------ATAGAT-AGCA
* * *
7745913 TCAATATTTCCAGAAGTGTTCATAATAAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATAAT
1 TCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATAAT
* * * *
7745978 GAGCAGAACTTGTTCAACC-TTTGCAT-GACTCTATCACAGAAGGAGATATATTAGCA
66 GAGAAGAACTTGTTCAACCTTTTG-ATAAATTCTATCAC--------ATAGA-TAGCA
* * * * *
7746034 TCAACATTTTCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAATCCATAA
1 TCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAATAAGAAGTTCATAA
*
7746098 TGAGAAGAATTTGTTCAACCTT
65 TGAGAAGAACTTGTTCAACCTT
7746120 GCCTTAATTC
Statistics
Matches: 281, Mismatches: 32, Indels: 24
0.83 0.09 0.07
Matches are distributed among these distances:
111 5 0.02
112 60 0.21
113 29 0.10
121 104 0.37
122 69 0.25
123 14 0.05
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (113 bp):
TCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACCTTTTGATAAATTCTATCACATAGATAGCA
Found at i:7745944 original size:122 final size:122
Alignment explanation
Indices: 7745789--7746119 Score: 461
Period size: 121 Copynumber: 2.7 Consensus size: 122
7745779 CACTCGATGG
* * *
7745789 ATCAACATTTCTAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* *
7745854 ATGAGAAGAACTTGTCCAACCTTTTGC-TAGATTCTATCACAGAAGGAGATAGATCAGC
65 ATGAGAAGAACTTGTTCAACCTTTTGCAT-GACTCTATCACAGAAGGAGATAGATCAGC
* * * *
7745912 ATCAATATTTCCAGAAGTGTTCATAATAAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATAA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
* * *
7745977 TGAGCAGAACTTGTTCAACC-TTTGCATGACTCTATCACAGAAGGAGATATATTAGC
66 TGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
* * * *
7746033 ATCAACATTTTCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAATCCATA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATA
*
7746097 ATGAGAAGAATTTGTTCAACCTT
65 ATGAGAAGAACTTGTTCAACCTT
7746120 GCCTTAATTC
Statistics
Matches: 183, Mismatches: 22, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
121 102 0.56
122 68 0.37
123 13 0.07
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (122 bp):
ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
Found at i:7746467 original size:3 final size:3
Alignment explanation
Indices: 7746461--7746499 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
7746451 TTCATTTTGT
*
7746461 TTA TTA TTA TTA TTA TTA TTA -TA TTA TTTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
7746500 AATAAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7747931 original size:2 final size:2
Alignment explanation
Indices: 7747919--7747957 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
7747909 ATTATTATTT
*
7747919 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7747958 TTGTTTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7748217 original size:2 final size:2
Alignment explanation
Indices: 7748205--7748246 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
7748195 ATATCTTATT
*
7748205 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7748247 AATAAATTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7749814 original size:28 final size:26
Alignment explanation
Indices: 7749780--7749839 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
7749770 GAATATATAC
7749780 TATTT-TAATATAATCTTAAAAATGTGTAA
1 TATTTATAA-ATAAT-TTAAAAATG-GT-A
*
7749809 TATTTATAAATGATTTAAAAATGGTA
1 TATTTATAAATAATTTAAAAATGGTA
7749835 TATTT
1 TATTT
7749840 GTTCATAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 6 0.21
27 2 0.07
28 9 0.31
29 9 0.31
30 3 0.10
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (26 bp):
TATTTATAAATAATTTAAAAATGGTA
Found at i:7752307 original size:78 final size:78
Alignment explanation
Indices: 7752152--7752305 Score: 265
Period size: 78 Copynumber: 2.0 Consensus size: 78
7752142 TGCTCATGAT
*
7752152 GCCTCTGAATTCTTCCATGACCCTGCAATGAAATCTAGGTTTGTTTTTGCACTTGTTTCTTTTCT
1 GCCTCTGAATTCTTCCATGACCCTGCAATGAAATATAGGTTTGTTTTTGCACTTGTTTCTTTTCT
7752217 ATATTCATTTTAG
66 ATATTCATTTTAG
*
7752230 GCCTCTGAATT-TTACCATGTCCCTGCAATGAAATATAGGTTTGCTTTTTGCACTTGTTTCTTTT
1 GCCTCTGAATTCTT-CCATGACCCTGCAATGAAATATAGGTTTG-TTTTTGCACTTGTTTCTTTT
7752294 CTATATTCATTT
64 CTATATTCATTT
7752306 AGTCGGAAGC
Statistics
Matches: 72, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
77 2 0.03
78 38 0.53
79 32 0.44
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (78 bp):
GCCTCTGAATTCTTCCATGACCCTGCAATGAAATATAGGTTTGTTTTTGCACTTGTTTCTTTTCT
ATATTCATTTTAG
Found at i:7757684 original size:3 final size:3
Alignment explanation
Indices: 7757676--7757758 Score: 102
Period size: 3 Copynumber: 28.7 Consensus size: 3
7757666 TTAATTTTAA
*
7757676 TAT TAT TAT TAT TAAT T-T TAT T-T T-T TTT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
7757719 TAT TAT TAT TAT TAT TAT AAT AAT TAT TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
7757759 ATACAAATAT
Statistics
Matches: 73, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
2 8 0.11
3 62 0.85
4 3 0.04
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:7761022 original size:31 final size:32
Alignment explanation
Indices: 7760965--7761025 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
7760955 TCTTACCAAT
*
7760965 ACTAACTAATTTCTTTTCTTTTGTTTGTGTAC
1 ACTAACTAATTTCTTCTCTTTTGTTTGTGTAC
**
7760997 ACTAACTTGTTTCTTCTC-TTTGTTTGTGT
1 ACTAACTAATTTCTTCTCTTTTGTTTGTGT
7761026 CATTTTGTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 11 0.42
32 15 0.58
ACGTcount: A:0.15, C:0.16, G:0.11, T:0.57
Consensus pattern (32 bp):
ACTAACTAATTTCTTCTCTTTTGTTTGTGTAC
Found at i:7763724 original size:19 final size:19
Alignment explanation
Indices: 7763702--7763739 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
7763692 ATGATCTTCT
7763702 TAGATGGAATGGTCAAGTA
1 TAGATGGAATGGTCAAGTA
7763721 TAGATGGAATGGTCAAGTA
1 TAGATGGAATGGTCAAGTA
7763740 GATGAATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.32, T:0.26
Consensus pattern (19 bp):
TAGATGGAATGGTCAAGTA
Found at i:7764927 original size:14 final size:15
Alignment explanation
Indices: 7764908--7764940 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
7764898 TTGAGAAAAG
7764908 CATATATACAT-ATA
1 CATATATACATGATA
7764922 CATATATACATGATA
1 CATATATACATGATA
7764937 CATA
1 CATA
7764941 AAATTTGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.33
Consensus pattern (15 bp):
CATATATACATGATA
Found at i:7765263 original size:36 final size:36
Alignment explanation
Indices: 7765223--7765316 Score: 102
Period size: 36 Copynumber: 2.6 Consensus size: 36
7765213 CTTTGAGGGT
7765223 GTTTTTCTTGAAACAAATTTTGTCTCCCTTGAGACA
1 GTTTTTCTTGAAACAAATTTTGTCTCCCTTGAGACA
* **
7765259 G-TTTTCTTAAAAACAAATTTTGTCTTGCTTGAGACA
1 GTTTTTCTT-GAAACAAATTTTGTCTCCCTTGAGACA
*
7765295 -TTTTATCTCGGAATACAAATTT
1 GTTTT-TCT-TGAA-ACAAATTT
7765317 CAAAGTTGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
35 7 0.15
36 28 0.58
37 5 0.10
38 8 0.17
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.43
Consensus pattern (36 bp):
GTTTTTCTTGAAACAAATTTTGTCTCCCTTGAGACA
Found at i:7765595 original size:35 final size:36
Alignment explanation
Indices: 7765511--7765605 Score: 115
Period size: 35 Copynumber: 2.7 Consensus size: 36
7765501 AAAAACCAAC
* ** *
7765511 CTTTGAGATTGTTT-CTTTGGAAACAAAATTTACCAT
1 CTTTGAGATTGTTTCCCTT-GAAACAAAATCAAACAT
7765547 CTTTGAG-TCTGTTTCCCTTGAAACAAAA-CAAACAT
1 CTTTGAGAT-TGTTTCCCTTGAAACAAAATCAAACAT
7765582 CTTTGAGATTGTTTCCCTTGAAAC
1 CTTTGAGATTGTTTCCCTTGAAAC
7765606 GAATTTTCTC
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
35 27 0.52
36 22 0.42
37 3 0.06
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (36 bp):
CTTTGAGATTGTTTCCCTTGAAACAAAATCAAACAT
Found at i:7765809 original size:28 final size:28
Alignment explanation
Indices: 7765778--7765859 Score: 128
Period size: 28 Copynumber: 2.9 Consensus size: 28
7765768 GAAACACATC
7765778 ATCTTTGAGTTTGTTTTTCTTGAAACAA
1 ATCTTTGAGTTTGTTTTTCTTGAAACAA
*
7765806 ATCTTTGAGTTTGTTTTTCTTAAAACAA
1 ATCTTTGAGTTTGTTTTTCTTGAAACAA
* **
7765834 ATCTTTGAGTTGGTTTACCTTGAAAC
1 ATCTTTGAGTTTGTTTTTCTTGAAAC
7765860 CAAAATCCTT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.48
Consensus pattern (28 bp):
ATCTTTGAGTTTGTTTTTCTTGAAACAA
Found at i:7766133 original size:134 final size:133
Alignment explanation
Indices: 7765928--7766350 Score: 564
Period size: 134 Copynumber: 3.2 Consensus size: 133
7765918 CCGAACCTCT
* *
7765928 TCATCGCGTAGGAGCCGTGTCAACCATAGATAACCAGCAGTCCTCATCACGTAGGAATCGTGTTA
1 TCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGC-GTCCTCATCACGTAGGAAACGTGTTA
* *
7765993 TCGCCCTTCCTAAATATGGTCAGAACTCTTCATCATGTATGAGCAGTGTCATCCCCCGACCAGAC
65 TCGCCCTTCCTAAAGATGGCCAGAACTCTTCATCATGTATGAGCAGTGTCATCCCCCGACCAGAC
7766058 CTTC
130 CTTC
* * *
7766062 TCATCGCGTAGGAGCCGTGTCAACCATAGATAACCAGTCGTCATCATCACGTAGGAACCGTGTTA
1 TCATCACGTAGGAGCCGTGTCAACCATAGATAACCAG-CGTCCTCATCACGTAGGAAACGTGTTA
* * * * *
7766127 TTGCCCTTCCTAAAGATGGCCAGAACTCATCATCACGTATGAGTAGTGTCATCTCCCGACCAGAC
65 TCGCCCTTCCTAAAGATGGCCAGAACTCTTCATCATGTATGAGCAGTGTCATCCCCCGACCAGAC
*
7766192 CTCC
130 CTTC
* * * * * *
7766196 TCATCACGTAGGAGCCGTGTCACCCTTAGATAATCAGCCGTCCTCATCGCTTAGGAAACGAGTTA
1 TCATCACGTAGGAGCCGTGTCAACCATAGATAACCAG-CGTCCTCATCACGTAGGAAACGTGTTA
* * *
7766261 TCGCCCTTCCTAAAGATGGCCATAACTCTTCATCATGTATGAGTC-GTGTCAT-CCCTGATCAGA
65 TCGCCCTTCCTAAAGATGGCCAGAACTCTTCATCATGTATGAG-CAGTGTCATCCCCCGACCAGA
*
7766324 TC-TC
129 CCTTC
*
7766328 TTCATCACGTAGAAGCCGTGTCA
1 -TCATCACGTAGGAGCCGTGTCA
7766351 CCCTTAGACG
Statistics
Matches: 255, Mismatches: 31, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
132 1 0.00
133 30 0.12
134 223 0.87
135 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (133 bp):
TCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCGTCCTCATCACGTAGGAAACGTGTTAT
CGCCCTTCCTAAAGATGGCCAGAACTCTTCATCATGTATGAGCAGTGTCATCCCCCGACCAGACC
TTC
Found at i:7766573 original size:3 final size:3
Alignment explanation
Indices: 7766559--7766608 Score: 75
Period size: 3 Copynumber: 16.7 Consensus size: 3
7766549 TTAATTTTAA
*
7766559 TAT TAA TAT TAT TAT TAT TAAT TAT TAT TAT TAT TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
7766604 TAT TA
1 TAT TA
7766609 ATACAAATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:7766574 original size:25 final size:26
Alignment explanation
Indices: 7766546--7766602 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
7766536 GGGTATTTTC
7766546 TATTTAATT-TTAATATTAATATTAT
1 TATTTAATTATTAATATTAATATTAT
* *
7766571 TATTATTAATTATTATTATTATTATTAT
1 TA-T-TTAATTATTAATATTAATATTAT
7766599 TATT
1 TATT
7766603 ATATTAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 2 0.07
26 2 0.07
27 7 0.26
28 16 0.59
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TATTTAATTATTAATATTAATATTAT
Found at i:7766582 original size:19 final size:19
Alignment explanation
Indices: 7766560--7766597 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7766550 TAATTTTAAT
7766560 ATTAATATTATTATTATTA
1 ATTAATATTATTATTATTA
*
7766579 ATTATTATTATTATTATTA
1 ATTAATATTATTATTATTA
7766598 TTATTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTAATATTATTATTATTA
Found at i:7768970 original size:2 final size:2
Alignment explanation
Indices: 7768965--7769321 Score: 125
Period size: 2 Copynumber: 182.0 Consensus size: 2
7768955 AACTATAGTT
* * *
7768965 TA TA TA TA -A AA TA TA TA TA CTA TA TA TA TA AA CTA TA TA GTT
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA -TA
* * *
7769007 TA TA TT TA TA TCA T- TA TA TA CTA TA TA TA AA CTA CA TA TA T-
1 TA TA TA TA TA T-A TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA
* * * * *
7769048 TA TG TA TA AA CTA TA TA TA TG TA TA -A AA CTA TA GTT TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA
* * *
7769090 TA -A TA T- TA -A TA TA TA TA TA AA CTA TG TA GTT TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA
* *
7769130 AA TA TA -A TT TA TA TA TA -A CTA T- TA TA TA -A TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * *
7769168 GTA T- TA -A TA TA TA TA -A CTT TA TA TA TA TA TA TT TA TG T- TA
1 -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
7769208 AA T- TA TA CA -A T- TA TA TA TA TA TA TA TG TG TA -A T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
7769245 -A T- TA TA TA TA CTT TA AA TA TA AA TA TA GTA TA TA -A GTA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA
* *
7769285 TA TA TA AA CTA TA AA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7769322 ATTATAAAGA
Statistics
Matches: 262, Mismatches: 50, Indels: 86
0.66 0.13 0.22
Matches are distributed among these distances:
1 25 0.10
2 215 0.82
3 22 0.08
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:7768979 original size:11 final size:11
Alignment explanation
Indices: 7768965--7769003 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
7768955 AACTATAGTT
7768965 TATATATAAAA
1 TATATATAAAA
**
7768976 TATATATACTA
1 TATATATAAAA
*
7768987 TATATATAAAC
1 TATATATAAAA
7768998 TATATA
1 TATATA
7769004 GTTTATATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (11 bp):
TATATATAAAA
Found at i:7769341 original size:22 final size:22
Alignment explanation
Indices: 7769316--7769366 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
7769306 TATATATATA
7769316 TATATAATTATAAAG-ACTAAAG
1 TATATAA-TATAAAGTACTAAAG
* *
7769338 TATATAATATAAAGTATTTAAG
1 TATATAATATAAAGTACTAAAG
7769360 TATATAA
1 TATATAA
7769367 AGTATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (22 bp):
TATATAATATAAAGTACTAAAG
Found at i:7769371 original size:9 final size:9
Alignment explanation
Indices: 7769344--7769389 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
7769334 AAAGTATATA
7769344 ATATAAAGT
1 ATATAAAGT
*
7769353 AT-TTAAGT
1 ATATAAAGT
7769361 ATATAAAGT
1 ATATAAAGT
* *
7769370 ATATATA-C
1 ATATAAAGT
7769378 ATATAAAGT
1 ATATAAAGT
7769387 ATA
1 ATA
7769390 AGTGTGTGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
8 13 0.45
9 16 0.55
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (9 bp):
ATATAAAGT
Found at i:7769381 original size:17 final size:16
Alignment explanation
Indices: 7769283--7769389 Score: 69
Period size: 17 Copynumber: 6.2 Consensus size: 16
7769273 TATATAAGTA
7769283 TATATATAAACTATAAA-
1 TATATAT-AA-TATAAAG
*
7769300 TATATAT-ATATATA-
1 TATATATAATATAAAG
7769314 TATATATAATTATAAAG
1 TATATATAA-TATAAAG
7769331 ACTAAAGTATATAATATAAAG
1 --T--A-TATATAATATAAAG
*
7769352 TATTTA-AGTATATAAAG
1 TATATATA--ATATAAAG
7769369 TATATATACATATAAAG
1 TATATATA-ATATAAAG
7769386 TATA
1 TATA
7769390 AGTGTGTGTG
Statistics
Matches: 74, Mismatches: 5, Indels: 22
0.73 0.05 0.22
Matches are distributed among these distances:
14 12 0.16
15 3 0.04
16 8 0.11
17 33 0.45
18 1 0.01
19 2 0.03
21 8 0.11
22 7 0.09
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (16 bp):
TATATATAATATAAAG
Found at i:7770058 original size:22 final size:21
Alignment explanation
Indices: 7770033--7770275 Score: 118
Period size: 22 Copynumber: 11.2 Consensus size: 21
7770023 TTTATATACA
7770033 TATATAAAGTATAAAGTATAAG
1 TATATAAA-TATAAAGTATAAG
*
7770055 TATATATATATATATA-TATATA-
1 TATATA-A-ATATAAAGTATA-AG
*
7770077 TATATATATATAAAGTATAAAG
1 TATATAAATATAAAGTAT-AAG
7770099 TATAT-AATATAAAGTAATAAAG
1 TATATAAATATAAAGT-AT-AAG
* * **
7770121 TGTTTGGATAT-AAGTATTAAAG
1 TATATAAATATAAAGTA-T-AAG
7770143 TATATAAATAT-AAGTATTAA-
1 TATATAAATATAAAGTA-TAAG
7770163 -ATATAAAGTATATAAGTACATAAG
1 TATATAAA-TATA-AAGT--ATAAG
7770187 TAT-TAAACTATATAA-TATAAAG
1 TATATAAA-TATA-AAGTAT-AAG
7770209 TAT-TAAACTATATAA-T-TAAG
1 TATATAAA-TATA-AAGTATAAG
**
7770229 TAT-TAAATATAAAACATTAAAG
1 TATATAAATATAAAGTA-T-AAG
7770251 TATATAAATAT-AAGTATTAAG
1 TATATAAATATAAAGTA-TAAG
7770272 TATA
1 TATA
7770276 ATGTATATTA
Statistics
Matches: 184, Mismatches: 15, Indels: 45
0.75 0.06 0.18
Matches are distributed among these distances:
18 2 0.01
19 11 0.06
20 19 0.10
21 27 0.15
22 88 0.48
23 22 0.12
24 13 0.07
25 2 0.01
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.37
Consensus pattern (21 bp):
TATATAAATATAAAGTATAAG
Found at i:7770066 original size:14 final size:13
Alignment explanation
Indices: 7770026--7770109 Score: 68
Period size: 12 Copynumber: 6.4 Consensus size: 13
7770016 TTGATACTTT
*
7770026 ATATACATATATA
1 ATATATATATATA
*
7770039 A-AGTATAAAGTATA
1 ATA-TATATA-TATA
7770053 AGTATATATATAT-
1 A-TATATATATATA
7770066 ATATATATATAT-
1 ATATATATATATA
7770078 ATATATATATA-A
1 ATATATATATATA
*
7770090 AGTATAAAGTATATA
1 A-TATATA-TATATA
7770105 ATATA
1 ATATA
7770110 AAGTAATAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
12 24 0.41
13 11 0.19
14 16 0.27
15 7 0.12
16 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (13 bp):
ATATATATATATA
Done.