Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008654.1 Hibiscus syriacus cultivar Beakdansim tig00111648_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: 3533819
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 18
Found at i:3152587 original size:27 final size:25
Alignment explanation
Indices: 3152536--3152589 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 25
3152526 ACTCTTATAT
*
3152536 TATTATTATTATTATTATTATAAAA
1 TATTATTATTATTATTATTACAAAA
3152561 TATTATTATTTATTTATTATTACAAAA
1 TATTATTA-TTA-TTATTATTACAAAA
3152588 TA
1 TA
3152590 CCCAAATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 8 0.31
26 3 0.12
27 15 0.58
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTATTATTATTATTATTACAAAA
Found at i:3152648 original size:12 final size:11
Alignment explanation
Indices: 3152633--3152666 Score: 50
Period size: 11 Copynumber: 2.9 Consensus size: 11
3152623 AATTACAAGC
3152633 CCAAACCCAAAG
1 CCAAA-CCAAAG
3152645 CCAAACCAAAG
1 CCAAACCAAAG
3152656 CCAAAGCCAAA
1 CCAAA-CCAAA
3152667 CCCTAACCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.53, C:0.38, G:0.09, T:0.00
Consensus pattern (11 bp):
CCAAACCAAAG
Found at i:3152653 original size:17 final size:17
Alignment explanation
Indices: 3152633--3152668 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
3152623 AATTACAAGC
3152633 CCAAACCCAAAGCCAAA
1 CCAAACCCAAAGCCAAA
*
3152650 CCAAAGCCAAAGCCAAA
1 CCAAACCCAAAGCCAAA
3152667 CC
1 CC
3152669 CTAACCTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.42, G:0.08, T:0.00
Consensus pattern (17 bp):
CCAAACCCAAAGCCAAA
Found at i:3152674 original size:23 final size:23
Alignment explanation
Indices: 3152632--3152703 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 23
3152622 CAATTACAAG
* *
3152632 CCCAAACCCAAAGCCAAACCAAA
1 CCCAAACCCAAACCCTAACCAAA
* * *
3152655 GCCAAAGCCAAACCCTAACCTAA
1 CCCAAACCCAAACCCTAACCAAA
* * * *
3152678 CCCTAATCCTAACCCTAACCTAA
1 CCCAAACCCAAACCCTAACCAAA
3152701 CCC
1 CCC
3152704 TAATCCTAAC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.42, C:0.44, G:0.04, T:0.10
Consensus pattern (23 bp):
CCCAAACCCAAACCCTAACCAAA
Found at i:3152682 original size:6 final size:6
Alignment explanation
Indices: 3152665--3152713 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
3152655 GCCAAAGCCA
* *
3152665 AACCCT AA-CCT AACCCT AATCCT AACCCT AA-CCT AACCCT AATCCT
1 AACCCT AACCCT AACCCT AACCCT AACCCT AACCCT AACCCT AACCCT
3152711 AAC
1 AAC
3152714 ACATCCTTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
5 10 0.27
6 27 0.73
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.20
Consensus pattern (6 bp):
AACCCT
Found at i:3152690 original size:17 final size:16
Alignment explanation
Indices: 3152665--3152713 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
3152655 GCCAAAGCCA
3152665 AACCCTAACCTAACCCT
1 AACCCTAACCTAA-CCT
*
3152682 AATCCTAACCCTAACCT
1 AACCCTAA-CCTAACCT
3152699 AACCCTAATCCTAAC
1 AACCCTAA-CCTAAC
3152714 ACATCCTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 23 0.82
18 5 0.18
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.20
Consensus pattern (16 bp):
AACCCTAACCTAACCT
Found at i:3152704 original size:23 final size:23
Alignment explanation
Indices: 3152665--3152713 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
3152655 GCCAAAGCCA
3152665 AACCCTAACCTAACCCTAATCCT
1 AACCCTAACCTAACCCTAATCCT
3152688 AACCCTAACCTAACCCTAATCCT
1 AACCCTAACCTAACCCTAATCCT
3152711 AAC
1 AAC
3152714 ACATCCTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.20
Consensus pattern (23 bp):
AACCCTAACCTAACCCTAATCCT
Found at i:3161498 original size:46 final size:44
Alignment explanation
Indices: 3161438--3161542 Score: 117
Period size: 42 Copynumber: 2.4 Consensus size: 44
3161428 TAAAGTTCAC
*
3161438 GACGTTTGGT-AACAATAAACGTCGCAATAGGTAAAGATATATAGA
1 GACGTTTGTTCAACAA-AAACGTCGCAA-AGGTAAAGATATATAGA
* * * *
3161483 GGCGTTTGTTCAAC--AAACGTCGTAAAGGTAACGATATATAGC
1 GACGTTTGTTCAACAAAAACGTCGCAAAGGTAAAGATATATAGA
*
3161525 GACGTTTGTTCTACAAAA
1 GACGTTTGTTCAACAAAA
3161543 GACACAATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
42 27 0.54
43 10 0.20
44 2 0.04
45 8 0.16
46 3 0.06
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (44 bp):
GACGTTTGTTCAACAAAAACGTCGCAAAGGTAAAGATATATAGA
Found at i:3161519 original size:42 final size:43
Alignment explanation
Indices: 3161454--3161541 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 43
3161444 TGGTAACAAT
*
3161454 AAACGTCGCAATAGGTAAAGATATATAGAGGCGTTTGTTCAAC
1 AAACGTCGCAATAGGTAAAGATATATAGAGACGTTTGTTCAAC
* * * *
3161497 AAACGTCGTAA-AGGTAACGATATATAGCGACGTTTGTTCTAC
1 AAACGTCGCAATAGGTAAAGATATATAGAGACGTTTGTTCAAC
3161539 AAA
1 AAA
3161542 AGACACAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 30 0.75
43 10 0.25
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.26
Consensus pattern (43 bp):
AAACGTCGCAATAGGTAAAGATATATAGAGACGTTTGTTCAAC
Found at i:3168468 original size:15 final size:15
Alignment explanation
Indices: 3168448--3168476 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3168438 CAATTTTACC
3168448 ATTCAAAGAAACAAG
1 ATTCAAAGAAACAAG
3168463 ATTCAAAGAAACAA
1 ATTCAAAGAAACAA
3168477 ACCTGGGTAA
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:0.62, C:0.14, G:0.10, T:0.14
Consensus pattern (15 bp):
ATTCAAAGAAACAAG
Found at i:3171793 original size:42 final size:42
Alignment explanation
Indices: 3171746--3171906 Score: 175
Period size: 42 Copynumber: 3.9 Consensus size: 42
3171736 TGGCATTTTA
* * * *
3171746 GGTATAAACATCGCTAATTTACCACTCTATTGCGGTGTTTGT
1 GGTATAAACGTCGCTAAATTACCACTCTATTACGGCGTTTGT
*
3171788 GGTATAAACGTCGTTAAATTACCACTCTATTACGGCGTTTGT
1 GGTATAAACGTCGCTAAATTACCACTCTATTACGGCGTTTGT
* * * * *
3171830 GGTATAAATGCCACTAAATTACCACTCTATTATGGCATTTG-
1 GGTATAAACGTCGCTAAATTACCACTCTATTACGGCGTTTGT
* *
3171871 GGCTA-AAACGCCGCTAAATTTA-TACTCTATTACGGC
1 GG-TATAAACGTCGCTAAA-TTACCACTCTATTACGGC
3171907 ATTTTTACTA
Statistics
Matches: 102, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
41 25 0.25
42 77 0.75
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (42 bp):
GGTATAAACGTCGCTAAATTACCACTCTATTACGGCGTTTGT
Found at i:3176208 original size:159 final size:160
Alignment explanation
Indices: 3175903--3176210 Score: 338
Period size: 159 Copynumber: 1.9 Consensus size: 160
3175893 GGATAAACCA
*
3175903 ATCAACATTTCCAATGGGAGAGTTCATAATAAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCA
1 ATCAACATTTCCAATGGGAGAGTTCATAATAAAAAGAACTCATCCAATGAGGGAGAAGAAGTTCA
* * ** * * * *
3175968 TAATGAGAAGAATTTATTCAACCTTGGATCACCAATCGTATATGGATTTGGATCAGAATCATCAT
66 TAATGAGAAGAACTTATTCAACCTTAGATCACCAATCACATAAGGACTTGGAACAGAACCATCAT
* * ** *
3176033 TTTGTTTGATTCCATCACAAAAGGTAGTGG
131 CTAGGCTCATTCCATCACAAAAGGTAGTGG
* * * *
3176063 ATCAACATTTCCAGT-GGAGAGTTTATAATAAAAATAACTCATCCGATGAGGGAGAAGAAGTTCA
1 ATCAACATTTCCAATGGGAGAGTTCATAATAAAAAGAACTCATCCAATGAGGGAGAAGAAGTTCA
* * * * *
3176127 TAATGAGAAGAACTTGTTCAACCTTAGCTCGCTTCCATTACATAAGGACTTGGAACA-ACACCA-
66 TAATGAGAAGAACTTATTCAACCTTAGATCAC--CAATCACATAAGGACTTGGAACAGA-ACCAT
3176190 -ATACTAGGCTCA-TCCATCACA
128 CAT-CTAGGCTCATTCCATCACA
3176211 TATGGATTTG
Statistics
Matches: 121, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
159 83 0.69
160 19 0.16
161 19 0.16
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (160 bp):
ATCAACATTTCCAATGGGAGAGTTCATAATAAAAAGAACTCATCCAATGAGGGAGAAGAAGTTCA
TAATGAGAAGAACTTATTCAACCTTAGATCACCAATCACATAAGGACTTGGAACAGAACCATCAT
CTAGGCTCATTCCATCACAAAAGGTAGTGG
Found at i:3176272 original size:203 final size:202
Alignment explanation
Indices: 3176007--3176428 Score: 623
Period size: 203 Copynumber: 2.1 Consensus size: 202
3175997 CACCAATCGT
* **
3176007 ATATGGATTTGGATCAGAATCATCATTTTGTTTGATTCCATCACAAAAGGTAGTGGATCAACATT
1 ATATGGATTTGGATCAGAATCATCATTTTGTTCGATTCCATCACAAAAGGTAGTCCATCAACATT
* *
3176072 TCCAGTGGAGAGTTTATAATAAAAATAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGAAG
66 TCCAGTGGAGAGTTCATAATAAAAATAACTCATCCAATGAGGGAGAAGAAGTTCATAATGAGAAG
* *
3176137 AACTTGTTCAACCTTAGCTCGCTTCCATTACATAAGGACTTGGAACAACACCAA-TACTAGGCTC
131 AACTTGTTCAACCTTAGCTCACTTCCATCACATAAGGACTTGGAACAACACCAACT-CTA-GCTC
3176201 ATCCATCAC
194 ATCCATCAC
* *
3176210 ATATGGATTTGGATCAGTATCATCATTTTGTTCGATTCCATCACAGAAGG-AGGTCCATCAACAT
1 ATATGGATTTGGATCAGAATCATCATTTTGTTCGATTCCATCACAAAAGGTA-GTCCATCAACAT
* * * * * *
3176274 TTCTAGTGGAGAGTTCATAATGAGAATAACTTATCTAATGAGGGAGAAGACGTTCATAATGAGAA
65 TTCCAGTGGAGAGTTCATAATAAAAATAACTCATCCAATGAGGGAGAAGAAGTTCATAATGAGAA
* * *
3176339 GAACTTGTTCAACCTTAGCTCATTTCCATCACATAAGGAGTTGGAACAACACCAACTTTAGCTCA
130 GAACTTGTTCAACCTTAGCTCACTTCCATCACATAAGGACTTGGAACAACACCAACTCTAGCTCA
3176404 TCCATCAC
195 TCCATCAC
* *
3176412 ATAAGGAGTTGGATCAG
1 ATATGGATTTGGATCAG
3176429 CATCGGTACT
Statistics
Matches: 197, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
202 29 0.15
203 167 0.85
204 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (202 bp):
ATATGGATTTGGATCAGAATCATCATTTTGTTCGATTCCATCACAAAAGGTAGTCCATCAACATT
TCCAGTGGAGAGTTCATAATAAAAATAACTCATCCAATGAGGGAGAAGAAGTTCATAATGAGAAG
AACTTGTTCAACCTTAGCTCACTTCCATCACATAAGGACTTGGAACAACACCAACTCTAGCTCAT
CCATCAC
Found at i:3176348 original size:20 final size:20
Alignment explanation
Indices: 3176286--3176349 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
3176276 CTAGTGGAGA
*
3176286 GTTCATAATGAGAATAACTT
1 GTTCATAATGAGAAGAACTT
* * ***
3176306 -ATC-TAATGAGGGAGAAGAC
1 GTTCATAATGA-GAAGAACTT
3176325 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
3176345 GTTCA
1 GTTCA
3176350 ACCTTAGCTC
Statistics
Matches: 30, Mismatches: 11, Indels: 6
0.64 0.23 0.13
Matches are distributed among these distances:
18 6 0.20
19 6 0.20
20 12 0.40
21 6 0.20
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:3176690 original size:3 final size:3
Alignment explanation
Indices: 3176682--3176722 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
3176672 TCAACTCTTA
* *
3176682 TAT TAT TAT TAT TAT TAT TAT TAT TAT AAAA TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT T
3176723 TATTTCTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 32 0.97
4 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:3176717 original size:25 final size:27
Alignment explanation
Indices: 3176688--3176741 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
3176678 CTTATATTAT
*
3176688 TATTATTA-TTA-TTATTATTATAAAA
1 TATTATTATTTATTTATTATTACAAAA
*
3176713 TATTATTATTTATTTCTTATTACAAAA
1 TATTATTATTTATTTATTATTACAAAA
3176740 TA
1 TA
3176742 CCCAAACCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.32
26 3 0.12
27 14 0.56
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (27 bp):
TATTATTATTTATTTATTATTACAAAA
Found at i:3177924 original size:14 final size:14
Alignment explanation
Indices: 3177905--3177931 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3177895 ACTGATTAAT
3177905 TTTAATTTTACATG
1 TTTAATTTTACATG
3177919 TTTAATTTTACAT
1 TTTAATTTTACAT
3177932 TTATTTCAAT
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:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (14 bp):
TTTAATTTTACATG
Found at i:3178166 original size:17 final size:17
Alignment explanation
Indices: 3178144--3178181 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
3178134 TTAATTTATT
*
3178144 TTTATT-TGTTCCTTAGA
1 TTTATTATGTT-CTAAGA
3178161 TTTATTATGTTCTAAGA
1 TTTATTATGTTCTAAGA
3178178 TTTA
1 TTTA
3178182 CTCTTAGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.24, C:0.08, G:0.11, T:0.58
Consensus pattern (17 bp):
TTTATTATGTTCTAAGA
Found at i:3184746 original size:8 final size:8
Alignment explanation
Indices: 3184733--3184814 Score: 58
Period size: 8 Copynumber: 11.5 Consensus size: 8
3184723 ACATTCACAT
3184733 TTTGCATC
1 TTTGCATC
3184741 TTTGCA--
1 TTTGCATC
*
3184747 TTTACAT-
1 TTTGCATC
*
3184754 TAT-CATC
1 TTTGCATC
3184761 TTTGCA--
1 TTTGCATC
*
3184767 TTTACAT-
1 TTTGCATC
3184774 T-TGCATC
1 TTTGCATC
3184781 TTTGCATC
1 TTTGCATC
3184789 TTTGCATC
1 TTTGCATC
3184797 TTTGCA-C
1 TTTGCATC
*
3184804 -TCGCATC
1 TTTGCATC
3184811 TTTG
1 TTTG
3184815 TACCTATGCA
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
6 21 0.36
7 8 0.14
8 30 0.51
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.49
Consensus pattern (8 bp):
TTTGCATC
Found at i:3184762 original size:20 final size:20
Alignment explanation
Indices: 3184733--3184802 Score: 96
Period size: 20 Copynumber: 3.7 Consensus size: 20
3184723 ACATTCACAT
3184733 TTTGCATCTTTGCATTTACA
1 TTTGCATCTTTGCATTTACA
3184753 TTAT-CATCTTTGCATTTACA
1 TT-TGCATCTTTGCATTTACA
3184773 TTTGCATCTTTGCA--T-C-
1 TTTGCATCTTTGCATTTACA
3184789 TTTGCATCTTTGCA
1 TTTGCATCTTTGCA
3184803 CTCGCATCTT
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
16 14 0.29
17 1 0.02
18 1 0.02
19 1 0.02
20 30 0.62
21 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTGCATCTTTGCATTTACA
Found at i:3184794 original size:16 final size:15
Alignment explanation
Indices: 3184733--3184814 Score: 61
Period size: 14 Copynumber: 5.8 Consensus size: 15
3184723 ACATTCACAT
3184733 TTTGCATCTTTGCA-
1 TTTGCATCTTTGCAC
* *
3184747 TTTACAT-TAT-CATC
1 TTTGCATCTTTGCA-C
*
3184761 TTTGCA--TTTACA-
1 TTTGCATCTTTGCAC
3184773 TTTGCATCTTTGCATC
1 TTTGCATCTTTGCA-C
3184789 TTTGCATCTTTGCAC
1 TTTGCATCTTTGCAC
*
3184804 -TCGCATCTTTG
1 TTTGCATCTTTG
3184815 TACCTATGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
12 8 0.15
13 4 0.07
14 28 0.51
15 1 0.02
16 14 0.25
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.49
Consensus pattern (15 bp):
TTTGCATCTTTGCAC
Found at i:3184831 original size:22 final size:22
Alignment explanation
Indices: 3184781--3184831 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
3184771 CATTTGCATC
* *
3184781 TTTGCATCTTTGCATCTTTGCA
1 TTTGCATCTTTGCACCTATGCA
* * *
3184803 CTCGCATCTTTGTACCTATGCA
1 TTTGCATCTTTGCACCTATGCA
3184825 TTTGCAT
1 TTTGCAT
3184832 TTCTACATTA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.16, C:0.25, G:0.14, T:0.45
Consensus pattern (22 bp):
TTTGCATCTTTGCACCTATGCA
Found at i:3186509 original size:20 final size:20
Alignment explanation
Indices: 3186483--3186604 Score: 109
Period size: 20 Copynumber: 6.0 Consensus size: 20
3186473 TCAGATTGCA
*
3186483 CAGGGGGTACAGATTCCCCC
1 CAGGGGGAACAGATTCCCCC
*
3186503 TAGGGGGAACAGATTCCCCC
1 CAGGGGGAACAGATTCCCCC
* * * *
3186523 TAGAGGGTACCGATTCCCCCC
1 CAGGGGGAACAGATT-CCCCC
* *
3186544 CAGGGAGAATAGATTCCCCCC
1 CAGGGGGAACAGATT-CCCCC
* * *
3186565 CAGAGAGAATAGATTCCCCC
1 CAGGGGGAACAGATTCCCCC
* *
3186585 CAGGGGGTACCGATTCCCCC
1 CAGGGGGAACAGATTCCCCC
3186605 TGTCTAACGG
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
20 50 0.60
21 34 0.40
ACGTcount: A:0.24, C:0.34, G:0.26, T:0.16
Consensus pattern (20 bp):
CAGGGGGAACAGATTCCCCC
Found at i:3186558 original size:41 final size:40
Alignment explanation
Indices: 3186487--3186605 Score: 121
Period size: 41 Copynumber: 2.9 Consensus size: 40
3186477 ATTGCACAGG
* *
3186487 GGGTACAGATTCCCCCTAGGGGGAACAGATTCCCCCTAGA
1 GGGTACAGATTCCCCCCAGGGAGAACAGATTCCCCCTAGA
* * *
3186527 GGGTACCGATTCCCCCCCAGGGAGAATAGATTCCCCCCCAGA
1 GGGTACAGATT-CCCCCCAGGGAGAACAGATT-CCCCCTAGA
* * * * * *
3186569 GAGAATAGATTCCCCCCAGGGGGTACCGATTCCCCCT
1 GGGTACAGATTCCCCCCAGGGAGAACAGATTCCCCCT
3186606 GTCTAACGGT
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
40 15 0.24
41 33 0.52
42 15 0.24
ACGTcount: A:0.24, C:0.34, G:0.25, T:0.17
Consensus pattern (40 bp):
GGGTACAGATTCCCCCCAGGGAGAACAGATTCCCCCTAGA
Found at i:3189324 original size:21 final size:21
Alignment explanation
Indices: 3189295--3189397 Score: 138
Period size: 20 Copynumber: 5.0 Consensus size: 21
3189285 AATCAGATTG
*
3189295 CCCAAGGGGTACAGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
3189316 CCCAGGGGGTACAGATT-CCC
1 CCCAGGGGGTACAGATTCCCC
*
3189336 CCCAGGGGGAACAGATT-CCC
1 CCCAGGGGGTACAGATTCCCC
*
3189356 CCCAGGGGGTACCGATTCCCCC
1 CCCAGGGGGTACAGATT-CCCC
* *
3189378 CCCAGGGTGTACCGATTCCC
1 CCCAGGGGGTACAGATTCCC
3189398 GTTGTCTAAC
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
20 37 0.49
21 19 0.25
22 19 0.25
ACGTcount: A:0.19, C:0.39, G:0.27, T:0.15
Consensus pattern (21 bp):
CCCAGGGGGTACAGATTCCCC
Found at i:3190664 original size:22 final size:22
Alignment explanation
Indices: 3190619--3190692 Score: 107
Period size: 22 Copynumber: 3.5 Consensus size: 22
3190609 ATGTTGCCTA
* *
3190619 GTATCGATACT--CTTACCATG
1 GTATCGATACTACCATACTATG
3190639 GTATCGATACTACCATACTATG
1 GTATCGATACTACCATACTATG
3190661 GTATCGATACTACCATACTATG
1 GTATCGATACTACCATACTATG
*
3190683 GTACCGATAC
1 GTATCGATAC
3190693 CCCCTTACGG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
20 11 0.22
22 38 0.78
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (22 bp):
GTATCGATACTACCATACTATG
Found at i:3191115 original size:33 final size:34
Alignment explanation
Indices: 3191078--3191148 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
3191068 CCTTTACAAC
*
3191078 TCCCTAG-TTTTTCACGGGATAAACTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
* *
3191111 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
3191145 TCCC
1 TCCC
3191149 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 7 0.21
34 27 0.79
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
Found at i:3191573 original size:20 final size:20
Alignment explanation
Indices: 3191546--3191668 Score: 149
Period size: 20 Copynumber: 6.0 Consensus size: 20
3191536 TTCGGTGTTT
*
3191546 GAGTGCATGGATGCACTACA
1 GAGTGCATGGATGCACTGCA
* *
3191566 GGGTGCATCGATGCACTGTGCA
1 GAGTGCATGGATGCAC--TGCA
3191588 TG-GATGCATGGATGCACTGCA
1 -GAG-TGCATGGATGCACTGCA
*
3191609 GAGTGCATGGATGCACTGTA
1 GAGTGCATGGATGCACTGCA
*
3191629 GAGTGCATGGATGCACTACA
1 GAGTGCATGGATGCACTGCA
*
3191649 GAGTGCATGGATACACTGCA
1 GAGTGCATGGATGCACTGCA
3191669 TGGTGTATGA
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
20 67 0.75
21 5 0.06
22 4 0.04
23 13 0.15
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.22
Consensus pattern (20 bp):
GAGTGCATGGATGCACTGCA
Found at i:3194331 original size:3 final size:3
Alignment explanation
Indices: 3194323--3194354 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
3194313 TCTTTTCAAA
3194323 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3194355 ATGCATCAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3194818 original size:39 final size:38
Alignment explanation
Indices: 3194724--3194822 Score: 155
Period size: 38 Copynumber: 2.6 Consensus size: 38
3194714 ATTTGATATC
* * * *
3194724 GTTTCACTCGAAAC-AAAATTTTATCTCACTTGAGATA
1 GTTTCCCTTGAAACAAAAAATTTGTCTCACTTGAGATA
3194761 GTTTCCCTTGAAACAAAAAATTTGTCTCACTTGAGATA
1 GTTTCCCTTGAAACAAAAAATTTGTCTCACTTGAGATA
3194799 GTTTCCCTTGAAACAAAAAATTTG
1 GTTTCCCTTGAAACAAAAAATTTG
3194823 AATTTGTTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
37 12 0.21
38 45 0.79
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.34
Consensus pattern (38 bp):
GTTTCCCTTGAAACAAAAAATTTGTCTCACTTGAGATA
Found at i:3194951 original size:97 final size:97
Alignment explanation
Indices: 3194785--3195036 Score: 350
Period size: 97 Copynumber: 2.6 Consensus size: 97
3194775 AAAAAATTTG
* *
3194785 TCTCACTTGAGATAGTTTCCCTTGAAACAAAAAATTTGAATTTGTTTAACTC--AAAAAATTCTC
1 TCTCACTTGAGATAGTTTCCCTTGAAACACAAAATTTGAATTTGTTTCACTCGAAAAAAATTCTC
** *
3194848 ACTTGAGATTGTTTTTCTTAAAATAAATTTCA
66 ACTTGAGATTGCCTTTCTTAAAACAAATTTCA
3194880 TCTCACTTGAGATAGTTTCCCTTGAAACACAAAATTTGAATTTGTTTCACTCGAAAAAAATTCTC
1 TCTCACTTGAGATAGTTTCCCTTGAAACACAAAATTTGAATTTGTTTCACTCGAAAAAAATTCTC
* *
3194945 ACTTGAGATTGCCTTTCTTAAAACCAATTTCG
66 ACTTGAGATTGCCTTTCTTAAAACAAATTTCA
* * * * *
3194977 TCTCACTTGAGATAGTTT-CTTATGAAATAC-AATTTTGAAATTGTTTCACTTGAAACAAAA
1 TCTCACTTGAGATAGTTTCCCT-TGAAACACAAAATTTGAATTTGTTTCACTCGAAA-AAAA
3195037 ATTTATCCCT
Statistics
Matches: 141, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
95 50 0.35
96 24 0.17
97 67 0.48
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.38
Consensus pattern (97 bp):
TCTCACTTGAGATAGTTTCCCTTGAAACACAAAATTTGAATTTGTTTCACTCGAAAAAAATTCTC
ACTTGAGATTGCCTTTCTTAAAACAAATTTCA
Found at i:3195081 original size:98 final size:97
Alignment explanation
Indices: 3194785--3195073 Score: 311
Period size: 97 Copynumber: 3.0 Consensus size: 97
3194775 AAAAAATTTG
* * * *
3194785 TCTCACTTGAGATAGTTTCCCTTGAAACAAAAAATTTGAATTTGTTTAACTC--AAAAAATTCTC
1 TCTCACTTGAGATAGTTTCCCTTGAAACACAAAATTTGAAATTGTTTCACTCGAAAAAAATTATC
* * ** *
3194848 ACTTGAGATTGTTTTTCTTAAAATAAATTTCA
66 ACCTGAGATAGCCTTTCTTAAAACAAATTTCA
* *
3194880 TCTCACTTGAGATAGTTTCCCTTGAAACACAAAATTTGAATTTGTTTCACTCGAAAAAAATTCTC
1 TCTCACTTGAGATAGTTTCCCTTGAAACACAAAATTTGAAATTGTTTCACTCGAAAAAAATTATC
* * * *
3194945 ACTTGAGATTGCCTTTCTTAAAACCAATTTCG
66 ACCTGAGATAGCCTTTCTTAAAACAAATTTCA
* * * *
3194977 TCTCACTTGAGATAGTTT-CTTATGAAATAC-AATTTTGAAATTGTTTCACTTGAAACAAAAATT
1 TCTCACTTGAGATAGTTTCCCT-TGAAACACAAAATTTGAAATTGTTTCACTCG-AA-AAAAA-T
*
3195040 TATC-CCTGAGATAG-CTTCTCTTGAAACAAATTTC
62 TATCACCTGAGATAGCCTT-TCTTAAAACAAATTTC
3195074 TTTTCACTCA
Statistics
Matches: 170, Mismatches: 17, Indels: 11
0.86 0.09 0.06
Matches are distributed among these distances:
95 50 0.29
96 21 0.12
97 68 0.40
98 27 0.16
99 4 0.02
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (97 bp):
TCTCACTTGAGATAGTTTCCCTTGAAACACAAAATTTGAAATTGTTTCACTCGAAAAAAATTATC
ACCTGAGATAGCCTTTCTTAAAACAAATTTCA
Found at i:3195511 original size:113 final size:113
Alignment explanation
Indices: 3195308--3195521 Score: 322
Period size: 113 Copynumber: 1.9 Consensus size: 113
3195298 TCCATCACAA
* * * *
3195308 AAGGAGGTGGATCGACATTTCCAATGAAAGGGTTTATAATGAGAAGAACTCGTCCAAAGAGGGAG
1 AAGGAGGTGGATCGAAATTTCCAATGAAAGAGCTCATAATGAGAAGAACTCGTCCAAAGAGGGAG
*
3195373 AAGAAGTTCATAATGAAATAGACTTGTTCAACCTTTGCTCAATCATAG
66 AAGAAGTTCATAATGAAAGAGACTTGTTCAACCTTTGCTCAATCATAG
* * * *
3195421 AAGGAGGTGGATCGAAATTTCCAATGGAAGAGCTCATAATGAGAAGAACTTGTCCGAAGATGGAG
1 AAGGAGGTGGATCGAAATTTCCAATGAAAGAGCTCATAATGAGAAGAACTCGTCCAAAGAGGGAG
*
3195486 GAGAAGTTCATAATGAGAAGA-ACTTGTTCAACCTTT
66 AAGAAGTTCATAATGA-AAGAGACTTGTTCAACCTTT
3195522 TGTTCGATTC
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
113 87 0.97
114 3 0.03
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (113 bp):
AAGGAGGTGGATCGAAATTTCCAATGAAAGAGCTCATAATGAGAAGAACTCGTCCAAAGAGGGAG
AAGAAGTTCATAATGAAAGAGACTTGTTCAACCTTTGCTCAATCATAG
Found at i:3203077 original size:21 final size:21
Alignment explanation
Indices: 3203052--3203124 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
3203042 CCGAGTTACC
*
3203052 CGCGACGGCCGCAATAGCG-T
1 CGCGACGGCCCCAATAGCGCT
*
3203072 CCGCGATGGCCCCAATAGCGCT
1 -CGCGACGGCCCCAATAGCGCT
* *
3203094 CGTGACGGCCCCAATAGCCCT
1 CGCGACGGCCCCAATAGCGCT
3203115 CGCGACGGCC
1 CGCGACGGCC
3203125 GCAGTTACGG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 44 0.98
22 1 0.02
ACGTcount: A:0.18, C:0.41, G:0.30, T:0.11
Consensus pattern (21 bp):
CGCGACGGCCCCAATAGCGCT
Found at i:3205272 original size:2 final size:2
Alignment explanation
Indices: 3205265--3205291 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3205255 CAGCCCTACT
3205265 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 T
3205292 TTGTTCATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3205350 original size:3 final size:3
Alignment explanation
Indices: 3205344--3205370 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3205334 AGTTTTGATG
3205344 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
3205371 CTTTTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:3205893 original size:138 final size:136
Alignment explanation
Indices: 3205545--3205942 Score: 417
Period size: 138 Copynumber: 2.9 Consensus size: 136
3205535 TACGTCAATA
* *** * *
3205545 ATTAGAGCCTCCATTTTAGGTTTAATTTCAAA-TTCAGTCCATTAATTTATGAGAATTTTTAATT
1 ATTAGAGCCTCCACTTTAGGCCCAATTTCAAACCT-AGTCC-TTAATTTAGGAGAATTTTTAATT
* * *
3205609 TGGTCCTC-ATTTTGCTCGAGATTCCATTTTAATTA-TCGGATCCAATAATTGATTAAAATTAAT
64 TGGTCCTCGCTTTTGCTCGAGGTTCCATTTTAATTATTCGAAT-CAATAATTGATTAAAATTAAT
*
3205672 TAGATTAAT
128 TAGATAAAT
* * * ** * *
3205681 ATTAGAGCTTTCATTTTAGGCTTAATTTCAAACTTAGTTCTTAAATTTAGGAGAATTTTTAATTT
1 ATTAGAGCCTCCACTTTAGGCCCAATTTCAAACCTAGTCCTT-AATTTAGGAGAATTTTTAATTT
* * *
3205746 GGTCATCGCTTTTGCTCGAGGTTCCATTTTAATTATTTGAATCAATAATTGATTGAAATTGAATT
65 GGTCCTCGCTTTTGCTCGAGGTTCCATTTTAATTATTCGAATCAATAATTGATTAAAATT-AATT
*
3205811 -GGTAAAAT
129 AGAT-AAAT
* * * *
3205819 TTTAGAGCCTCCACTTTAGGCCCAATTTCATACCTAGTCCTTGAATTTAGGAGGATTTTCAATTT
1 ATTAGAGCCTCCACTTTAGGCCCAATTTCAAACCTAGTCCTT-AATTTAGGAGAATTTTTAATTT
* * ** * *
3205884 GATCCTCGCTTTATGCTCGAGGTTCTATTTTGGTTATTCGACTCAATAATTTATTAAAA
65 GGTCCTCGCTTT-TGCTCGAGGTTCCATTTTAATTATTCGAATCAATAATTGATTAAAA
3205943 ATGATTTGGA
Statistics
Matches: 221, Mismatches: 34, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
135 2 0.01
136 60 0.27
137 46 0.21
138 74 0.33
139 39 0.18
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (136 bp):
ATTAGAGCCTCCACTTTAGGCCCAATTTCAAACCTAGTCCTTAATTTAGGAGAATTTTTAATTTG
GTCCTCGCTTTTGCTCGAGGTTCCATTTTAATTATTCGAATCAATAATTGATTAAAATTAATTAG
ATAAAT
Found at i:3207052 original size:19 final size:19
Alignment explanation
Indices: 3207028--3207072 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
3207018 ACATTTATTC
3207028 TAAAACATCGATAACTGTT
1 TAAAACATCGATAACTGTT
*
3207047 TAAAACATCGATAATTGTT
1 TAAAACATCGATAACTGTT
3207066 TAAAACA
1 TAAAACA
3207073 ATATAAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (19 bp):
TAAAACATCGATAACTGTT
Found at i:3207510 original size:21 final size:21
Alignment explanation
Indices: 3207484--3207533 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
3207474 CCTCCACATT
3207484 AGTATCGATACTACTTTCATC
1 AGTATCGATACTACTTTCATC
*
3207505 AGTATCGATACTACTTTTATC
1 AGTATCGATACTACTTTCATC
3207526 AGTATCGA
1 AGTATCGA
3207534 AACTTTTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (21 bp):
AGTATCGATACTACTTTCATC
Found at i:3208162 original size:12 final size:12
Alignment explanation
Indices: 3208145--3208169 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3208135 GAAATGAATA
3208145 TTAAATTCATTG
1 TTAAATTCATTG
3208157 TTAAATTCATTG
1 TTAAATTCATTG
3208169 T
1 T
3208170 GGTTGATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (12 bp):
TTAAATTCATTG
Found at i:3210212 original size:77 final size:76
Alignment explanation
Indices: 3210093--3210242 Score: 221
Period size: 77 Copynumber: 2.0 Consensus size: 76
3210083 CTTTTAAATT
* * *
3210093 TAGAAATTTTAGTTTTATTCTTTTATCATCATCTTTTATTTAGTAATTAGTTATTTTATTTATTT
1 TAGAAATTTTAGTTTTATTATTTTATCATCATCTTTTATTTAGGAATTAGTTATTTTATTTACTT
3210158 AGAACTCTCGA
66 AGAACTCTCGA
* * *
3210169 TAGAATTTTTA-TTTTCATTATCTTTATCGTTATCTTTTATTTAGGAATTAGTTATTTTATTTAC
1 TAGAAATTTTAGTTTT-ATTAT-TTTATCATCATCTTTTATTTAGGAATTAGTTATTTTATTTAC
3210233 TTAGAACTCT
64 TTAGAACTCT
3210243 AAAGACATAT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
75 4 0.06
76 14 0.21
77 48 0.73
ACGTcount: A:0.27, C:0.09, G:0.08, T:0.56
Consensus pattern (76 bp):
TAGAAATTTTAGTTTTATTATTTTATCATCATCTTTTATTTAGGAATTAGTTATTTTATTTACTT
AGAACTCTCGA
Found at i:3211728 original size:95 final size:95
Alignment explanation
Indices: 3211508--3211716 Score: 262
Period size: 95 Copynumber: 2.2 Consensus size: 95
3211498 TACTGATGAG
* * *
3211508 GTAGTATTGATACCATGGTGAGGGTATCGATACCAGGTATCATCGGACCTAATTTTGGTATCGAT
1 GTAGTATCGATACCATGGTGAGGGTATCGATACCAGGCATCATCGAACCTAATTTTGGTATCGAT
* * ** *
3211573 ACCGGAATGGGTTATCGGTACCCTAGTATA
66 ACCGGAAAGGGGTATCAATACCATAGTATA
* *
3211603 GTAGTATCGATACCATGGTGAGGGTATCGATTCCAAGGCA-CATCGAAGCTAATTTTGGTATCGA
1 GTAGTATCGATACCATGGTGAGGGTATCGATACC-AGGCATCATCGAACCTAATTTTGGTATCGA
* *
3211667 TA-CTGAAAGAGGGTATCAATACCATATTAGT-
65 TACCGGAAAG-GGGTATCAATACCATAGTA-TA
3211698 GTAGTATCGATACCATGGT
1 GTAGTATCGATACCATGGT
3211717 ATAAGTATCG
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
94 5 0.05
95 89 0.90
96 5 0.05
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (95 bp):
GTAGTATCGATACCATGGTGAGGGTATCGATACCAGGCATCATCGAACCTAATTTTGGTATCGAT
ACCGGAAAGGGGTATCAATACCATAGTATA
Found at i:3212114 original size:54 final size:54
Alignment explanation
Indices: 3212054--3212608 Score: 840
Period size: 54 Copynumber: 10.3 Consensus size: 54
3212044 TTATCCAATA
* *
3212054 GGCACTAAATGTGCATTTCATGGAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
*
3212108 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
*
3212162 GGCACTAAGTGTGCATTTCACGGAATTCATCATATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * *
3212216 AGCACTAAGTGTGAATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTT
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * *
3212270 GGTACTAAGTGTGCATTTCACAGAATTCATTCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * **
3212324 GGAACTAAGTGTGCATTTCACAGAATTCATCCTATAAGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * * *
3212378 GGAACTAGGTGTGCATTTCACGGAATTCATCATATGTGGATGAATAACCATTCC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * *
3212432 AGCATTAAGTGTGCATTTCACGAAATTCATCTTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * *
3212486 GGCACTAAGTGTGCATTTCACAGAATTCATTCTATATGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
3212540 GACACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
3212594 GACACTAAGTTTGCA
1 GGCACTAAGTGTGCA
3212609 AAGCACATAA
Statistics
Matches: 456, Mismatches: 45, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 456 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
Found at i:3213049 original size:17 final size:20
Alignment explanation
Indices: 3213017--3213056 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
3213007 GTATGTTTTA
3213017 TTTTTAATGAATTAAA-TGT
1 TTTTTAATGAATTAAATTGT
3213036 TTTTTAA-GAA-TAAATTGT
1 TTTTTAATGAATTAAATTGT
3213054 TTT
1 TTT
3213057 ACGGGATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 9 0.45
19 7 0.35
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (20 bp):
TTTTTAATGAATTAAATTGT
Found at i:3218853 original size:95 final size:95
Alignment explanation
Indices: 3218728--3218899 Score: 274
Period size: 95 Copynumber: 1.8 Consensus size: 95
3218718 TACTGATGAG
* * *
3218728 GTAGTATTGATACCATGGTGAGGGTATCGATATC-AGGTATCATCAAACCTAATTTTGGTATCGA
1 GTAGTATCGATACCATGGTGAGGGTATCGATACCAAGGCA-CATCAAACCTAATTTTGGTATCGA
3218792 TACCGGAAGGGGTTATCAGTACCCTAGCATA
65 TACCGGAAGGGGTTATCAGTACCCTAGCATA
** *
3218823 GTAGTATCGATACCATGGTGAGGGTATCGATACCAAGGCACATCAAAGTTAATTTTTGTATCGAT
1 GTAGTATCGATACCATGGTGAGGGTATCGATACCAAGGCACATCAAACCTAATTTTGGTATCGAT
3218888 ACCGGAAGGGGT
66 ACCGGAAGGGGT
3218900 ATCGATGCCA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
95 66 0.94
96 4 0.06
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (95 bp):
GTAGTATCGATACCATGGTGAGGGTATCGATACCAAGGCACATCAAACCTAATTTTGGTATCGAT
ACCGGAAGGGGTTATCAGTACCCTAGCATA
Found at i:3219680 original size:54 final size:54
Alignment explanation
Indices: 3219273--3219665 Score: 590
Period size: 54 Copynumber: 7.3 Consensus size: 54
3219263 TTACCCAATA
* * * * *
3219273 GGCACTAAATGTGTATTTCACATAATTCATCCTCTGTGGATGAATAATCGTTTC
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * *
3219327 GGCACTAAATTTACATTTCACAAAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * *
3219381 GGCACTAAGTGTTCATTTCACATAATTTATCCTAAGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
3219435 GGCACTAAGTGTGCATTTCACAGAATTCATCATATGTGGATGAATAACCGTTTA
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
* * *
3219489 GGCACTAGGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATCGTTTC
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
3219543 GGCACTAAGTGTGCATTTCAC-GTAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACAG-AATTCATCCTATGTGGATGAATAACCGTTTC
*
3219597 GACACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
*
3219651 GGCACTAAGTTTGCA
1 GGCACTAAGTGTGCA
3219666 AAGCACGGAA
Statistics
Matches: 309, Mismatches: 28, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
53 1 0.00
54 307 0.99
55 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
Found at i:3222266 original size:10 final size:10
Alignment explanation
Indices: 3222251--3222300 Score: 75
Period size: 10 Copynumber: 5.1 Consensus size: 10
3222241 TTAATTCATT
3222251 TTCCCTCTTC
1 TTCCCTCTTC
*
3222261 TTCCCTATT-
1 TTCCCTCTTC
3222270 TTCCCTCTTC
1 TTCCCTCTTC
*
3222280 TTCACTCTTC
1 TTCCCTCTTC
3222290 TTCCCTCTTC
1 TTCCCTCTTC
3222300 T
1 T
3222301 CTGGTACAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
9 8 0.23
10 27 0.77
ACGTcount: A:0.04, C:0.44, G:0.00, T:0.52
Consensus pattern (10 bp):
TTCCCTCTTC
Found at i:3222272 original size:19 final size:19
Alignment explanation
Indices: 3222248--3222300 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
3222238 TCCTTAATTC
*
3222248 ATTTTCCCTCTTCTTCCCT
1 ATTTTCCCTCTTCTTCACT
3222267 ATTTTCCCTCTTCTTCACT
1 ATTTTCCCTCTTCTTCACT
*
3222286 CTTCTTCCCTCTTCT
1 ATT-TTCCCTCTTCT
3222301 CTGGTACAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 20 0.65
20 11 0.35
ACGTcount: A:0.06, C:0.42, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTTCCCTCTTCTTCACT
Found at i:3224723 original size:21 final size:21
Alignment explanation
Indices: 3224689--3224730 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3224679 GCATCAAGGT
3224689 TTTTGAAGACGCCATGAATTC
1 TTTTGAAGACGCCATGAATTC
* *
3224710 TTTTGTAGAGGCCATGAATTC
1 TTTTGAAGACGCCATGAATTC
3224731 CTGTAAGGAT
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:0.17, G:0.21, T:0.36
Consensus pattern (21 bp):
TTTTGAAGACGCCATGAATTC
Found at i:3225064 original size:31 final size:31
Alignment explanation
Indices: 3225029--3225103 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
3225019 ACTCTCATGA
3225029 TGGTTGCCTTGACAGAATAGGCACACATTAT
1 TGGTTGCCTTGACAGAATAGGCACACATTAT
3225060 TGGTTGCCTTGACAGAATAGGCACACATTAT
1 TGGTTGCCTTGACAGAATAGGCACACATTAT
*
3225091 TGGTCGCCTTGAC
1 TGGTTGCCTTGAC
3225104 TTCTCTTACC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (31 bp):
TGGTTGCCTTGACAGAATAGGCACACATTAT
Found at i:3226342 original size:21 final size:20
Alignment explanation
Indices: 3226304--3226345 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
3226294 AATTAATCCT
3226304 ACTAAGTATTAAAGCTAAGA
1 ACTAAGTATTAAAGCTAAGA
3226324 ACTAA-TATTAAGGAGCTAAGA
1 ACTAAGTATTAA--AGCTAAGA
3226345 A
1 A
3226346 TATTTATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 5 0.25
21 9 0.45
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.24
Consensus pattern (20 bp):
ACTAAGTATTAAAGCTAAGA
Found at i:3227266 original size:21 final size:21
Alignment explanation
Indices: 3227240--3227281 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
3227230 GCATTAAGGT
3227240 TTTTGTAGACGCCATGAATTC
1 TTTTGTAGACGCCATGAATTC
*
3227261 TTTTGTAGAGGCCATGAATTC
1 TTTTGTAGACGCCATGAATTC
3227282 CTGCAAGGAT
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:0.17, G:0.21, T:0.38
Consensus pattern (21 bp):
TTTTGTAGACGCCATGAATTC
Found at i:3230430 original size:21 final size:21
Alignment explanation
Indices: 3230404--3230447 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
3230394 TAATCATAGT
*
3230404 TGCTTTTGAGCATTCGATTCA
1 TGCTTTCGAGCATTCGATTCA
3230425 TGCTTTCGAGCATTCGATTCA
1 TGCTTTCGAGCATTCGATTCA
3230446 TG
1 TG
3230448 GTTATTGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.41
Consensus pattern (21 bp):
TGCTTTCGAGCATTCGATTCA
Found at i:3230537 original size:2 final size:2
Alignment explanation
Indices: 3230530--3230564 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3230520 TCTTTATAAG
3230530 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3230565 GTTAGTGTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3232152 original size:43 final size:43
Alignment explanation
Indices: 3232066--3232241 Score: 196
Period size: 42 Copynumber: 4.2 Consensus size: 43
3232056 AAAAAACCAT
* * * * * *
3232066 TATAGATCT-GACCTTTTGCGATGTTTGTT-CTAAAATGCCGC
1 TATAGATATCGACCTTTTACGACGTTTATTCCAAAAACGCCGC
*
3232107 TATACATATCGACCTTTTACGACGTTTATTCCAAAAACGCCGC
1 TATAGATATCGACCTTTTACGACGTTTATTCCAAAAACGCCGC
* * * * * *
3232150 TATAGATCTCGACCATGTGCGGCGTTTATTCC-AAAACGCCAC
1 TATAGATATCGACCTTTTACGACGTTTATTCCAAAAACGCCGC
* *
3232192 TATAGATATCGACCTTTTACGGCGTTTGTTCCAAAAACGCCGC
1 TATAGATATCGACCTTTTACGACGTTTATTCCAAAAACGCCGC
3232235 TATAGAT
1 TATAGAT
3232242 CTTGACCTAT
Statistics
Matches: 112, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
41 7 0.06
42 53 0.47
43 52 0.46
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (43 bp):
TATAGATATCGACCTTTTACGACGTTTATTCCAAAAACGCCGC
Found at i:3232201 original size:85 final size:83
Alignment explanation
Indices: 3232066--3232261 Score: 257
Period size: 85 Copynumber: 2.3 Consensus size: 83
3232056 AAAAAACCAT
* ** * * * *
3232066 TATAGATCTGACCTTTTGCGATGTTTGTTCTAAAATGCCGCTATACATATCGACCTTTTACGACG
1 TATAGATCTGACC-ATTGCGGCGTTTATTCCAAAACGCCACTATACATATCGACCTTTTACGACG
3232131 TTTATTCCAAAAACGCCGC
65 TTTATTCCAAAAACGCCGC
* *
3232150 TATAGATCTCGACCATGTGCGGCGTTTATTCCAAAACGCCACTATAGATATCGACCTTTTACGGC
1 TATAGATCT-GACCAT-TGCGGCGTTTATTCCAAAACGCCACTATACATATCGACCTTTTACGAC
*
3232215 GTTTGTTCCAAAAACGCCGC
64 GTTTATTCCAAAAACGCCGC
3232235 TATAGATCTTGACCTATTGCGGCGTTT
1 TATAGATC-TGACC-ATTGCGGCGTTT
3232262 TTTTGTTTTC
Statistics
Matches: 98, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
84 10 0.10
85 85 0.87
86 3 0.03
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (83 bp):
TATAGATCTGACCATTGCGGCGTTTATTCCAAAACGCCACTATACATATCGACCTTTTACGACGT
TTATTCCAAAAACGCCGC
Found at i:3232249 original size:43 final size:43
Alignment explanation
Indices: 3232066--3232261 Score: 218
Period size: 43 Copynumber: 4.6 Consensus size: 43
3232056 AAAAAACCAT
** * * *
3232066 TATAGATCT-GACCTTTTGCGATGTTTGTT-CTAAAATGCCGC
1 TATAGATCTCGACCTTTTGCGGCGTTTATTCCAAAAACGCCGC
* * * *
3232107 TATACATATCGACCTTTTACGACGTTTATTCCAAAAACGCCGC
1 TATAGATCTCGACCTTTTGCGGCGTTTATTCCAAAAACGCCGC
* * *
3232150 TATAGATCTCGACCATGTGCGGCGTTTATTCC-AAAACGCCAC
1 TATAGATCTCGACCTTTTGCGGCGTTTATTCCAAAAACGCCGC
* * *
3232192 TATAGATATCGACCTTTTACGGCGTTTGTTCCAAAAACGCCGC
1 TATAGATCTCGACCTTTTGCGGCGTTTATTCCAAAAACGCCGC
* *
3232235 TATAGATCTTGACCTATTGCGGCGTTT
1 TATAGATCTCGACCTTTTGCGGCGTTT
3232262 TTTTGTTTTC
Statistics
Matches: 128, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
41 7 0.05
42 53 0.41
43 68 0.53
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (43 bp):
TATAGATCTCGACCTTTTGCGGCGTTTATTCCAAAAACGCCGC
Found at i:3235554 original size:45 final size:45
Alignment explanation
Indices: 3235491--3235631 Score: 255
Period size: 45 Copynumber: 3.1 Consensus size: 45
3235481 GGAATGAAAA
3235491 CTGCTGCTTCCTAGGTACAGCAGAATGATGACACTGATATGCAAG
1 CTGCTGCTTCCTAGGTACAGCAGAATGATGACACTGATATGCAAG
* *
3235536 CTGCTCCTTCCTAGGTACAGAAGAATGATGACACTGATATGCAAG
1 CTGCTGCTTCCTAGGTACAGCAGAATGATGACACTGATATGCAAG
*
3235581 CTGCTGCTTCCTAGGTACAGCAGAATGATGACACTGATATACAAG
1 CTGCTGCTTCCTAGGTACAGCAGAATGATGACACTGATATGCAAG
3235626 CTGCTG
1 CTGCTG
3235632 TTTCGCCGGC
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 91 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (45 bp):
CTGCTGCTTCCTAGGTACAGCAGAATGATGACACTGATATGCAAG
Found at i:3238359 original size:27 final size:27
Alignment explanation
Indices: 3238321--3238375 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
3238311 AGGTTGCCAA
*
3238321 TCATCATCAACGAATGAGGGCTTTATT
1 TCATCAGCAACGAATGAGGGCTTTATT
3238348 TCATCAGCAACGAATGAGGGCTTTATT
1 TCATCAGCAACGAATGAGGGCTTTATT
3238375 T
1 T
3238376 GGTATTCGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (27 bp):
TCATCAGCAACGAATGAGGGCTTTATT
Found at i:3261399 original size:16 final size:17
Alignment explanation
Indices: 3261354--3261388 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
3261344 ACGACTAAAA
*
3261354 TATAATTTCTTAAAAGT
1 TATAATTACTTAAAAGT
3261371 TATAATTACTTAAAAGT
1 TATAATTACTTAAAAGT
3261388 T
1 T
3261389 TAGATACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (17 bp):
TATAATTACTTAAAAGT
Found at i:3268556 original size:4 final size:4
Alignment explanation
Indices: 3268547--3268572 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
3268537 TGATTTTAGG
3268547 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
3268573 GAATGTAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:3268865 original size:32 final size:32
Alignment explanation
Indices: 3268814--3268889 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
3268804 TAAAAATGCA
* *
3268814 ATACATATAATATGTACTATATAATGAAACCTAT
1 ATAC-TAT-ATATGCACTATATAATGAAAACTAT
* * *
3268848 GTATTATATATGCACTATCTAATGAAAACTAT
1 ATACTATATATGCACTATATAATGAAAACTAT
3268880 ATACTATATA
1 ATACTATATA
3268890 ATAAACTATA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
32 30 0.86
33 3 0.09
34 2 0.06
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.37
Consensus pattern (32 bp):
ATACTATATATGCACTATATAATGAAAACTAT
Found at i:3285313 original size:14 final size:15
Alignment explanation
Indices: 3285294--3285331 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
3285284 AACTAATATT
*
3285294 AAAAATAAAAATAA-
1 AAAAATAAAAACAAG
*
3285308 AAAAATAAAACCAAG
1 AAAAATAAAAACAAG
3285323 AAAAATAAA
1 AAAAATAAA
3285332 CAAACAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.11
Consensus pattern (15 bp):
AAAAATAAAAACAAG
Found at i:3293245 original size:6 final size:7
Alignment explanation
Indices: 3293228--3293254 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
3293218 AATAAATTAT
3293228 TTTTTAA
1 TTTTTAA
3293235 TTTTTAA
1 TTTTTAA
3293242 TTTTTAA
1 TTTTTAA
3293249 TTTTTA
1 TTTTTA
3293255 TTATTCATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTAA
Found at i:3294885 original size:176 final size:176
Alignment explanation
Indices: 3294683--3295034 Score: 704
Period size: 176 Copynumber: 2.0 Consensus size: 176
3294673 ATTGCATGAG
3294683 GACAAGAAATAGCTTAACTTTGGGGGTGTGATAGCTCCATAAAAATGCTACTTTTAAAGCCTTTT
1 GACAAGAAATAGCTTAACTTTGGGGGTGTGATAGCTCCATAAAAATGCTACTTTTAAAGCCTTTT
3294748 TCACTTAAGTTATTGTTTTTCTAAGGGTTAATATAGGTCATTTTAGATTCATGTAGTTGCATGTA
66 TCACTTAAGTTATTGTTTTTCTAAGGGTTAATATAGGTCATTTTAGATTCATGTAGTTGCATGTA
3294813 GTTTAATTTGTGGTGGTTGTGTTATTTTTACTTTGATAAGGTGCTA
131 GTTTAATTTGTGGTGGTTGTGTTATTTTTACTTTGATAAGGTGCTA
3294859 GACAAGAAATAGCTTAACTTTGGGGGTGTGATAGCTCCATAAAAATGCTACTTTTAAAGCCTTTT
1 GACAAGAAATAGCTTAACTTTGGGGGTGTGATAGCTCCATAAAAATGCTACTTTTAAAGCCTTTT
3294924 TCACTTAAGTTATTGTTTTTCTAAGGGTTAATATAGGTCATTTTAGATTCATGTAGTTGCATGTA
66 TCACTTAAGTTATTGTTTTTCTAAGGGTTAATATAGGTCATTTTAGATTCATGTAGTTGCATGTA
3294989 GTTTAATTTGTGGTGGTTGTGTTATTTTTACTTTGATAAGGTGCTA
131 GTTTAATTTGTGGTGGTTGTGTTATTTTTACTTTGATAAGGTGCTA
3295035 TATGATGGGA
Statistics
Matches: 176, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
176 176 1.00
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (176 bp):
GACAAGAAATAGCTTAACTTTGGGGGTGTGATAGCTCCATAAAAATGCTACTTTTAAAGCCTTTT
TCACTTAAGTTATTGTTTTTCTAAGGGTTAATATAGGTCATTTTAGATTCATGTAGTTGCATGTA
GTTTAATTTGTGGTGGTTGTGTTATTTTTACTTTGATAAGGTGCTA
Found at i:3297614 original size:27 final size:27
Alignment explanation
Indices: 3297527--3297647 Score: 110
Period size: 26 Copynumber: 4.6 Consensus size: 27
3297517 TATTTATAAG
3297527 AATT-AAAAGAAATAAAGATTTAAAAGG-
1 AATTAAAAAG-AATAAAGA-TTAAAAGGA
* * *
3297554 -ATTAAAAGGAATAAAGATAAAAAAGA
1 AATTAAAAAGAATAAAGATTAAAAGGA
* * *
3297580 AATCAAAAGGGAA-AAA-ATTAAAATGA
1 AATTAAAA-AGAATAAAGATTAAAAGGA
*
3297606 AATTAAAAAGAATAAAGATTAATAGGA
1 AATTAAAAAGAATAAAGATTAAAAGGA
3297633 AATT-AAAAGAATAAA
1 AATTAAAAAGAATAAA
3297648 AAATTAAATA
Statistics
Matches: 78, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
25 9 0.12
26 40 0.51
27 25 0.32
28 4 0.05
ACGTcount: A:0.66, C:0.01, G:0.14, T:0.19
Consensus pattern (27 bp):
AATTAAAAAGAATAAAGATTAAAAGGA
Found at i:3297635 original size:53 final size:54
Alignment explanation
Indices: 3297554--3297655 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 54
3297544 ATTTAAAAGG
* *
3297554 ATTAAAAGGAATAAAGATAAAAAAGAAATCAAAAG-GGAAAAAATTAAAATGAA
1 ATTAAAAAGAATAAAGATAAAAAAGAAATCAAAAGAAGAAAAAATTAAAATGAA
* * * * *
3297607 ATTAAAAAGAATAAAGATTAATAGGAAATTAAAAGAATAAAAAATTAAA
1 ATTAAAAAGAATAAAGATAAAAAAGAAATCAAAAGAAGAAAAAATTAAA
3297656 TAAAATTGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 30 0.73
54 11 0.27
ACGTcount: A:0.68, C:0.01, G:0.13, T:0.19
Consensus pattern (54 bp):
ATTAAAAAGAATAAAGATAAAAAAGAAATCAAAAGAAGAAAAAATTAAAATGAA
Found at i:3297653 original size:27 final size:28
Alignment explanation
Indices: 3297591--3297655 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
3297581 ATCAAAAGGG
*
3297591 AAAAAATTAAAATGAAATTAAAAAGAAT
1 AAAAAATTAAAAGGAAATTAAAAAGAAT
* *
3297619 -AAAGATTAATAGGAAATT-AAAAGAAT
1 AAAAAATTAAAAGGAAATTAAAAAGAAT
3297645 AAAAAATTAAA
1 AAAAAATTAAA
3297656 TAAAATTGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 8 0.26
27 23 0.74
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (28 bp):
AAAAAATTAAAAGGAAATTAAAAAGAAT
Found at i:3297662 original size:53 final size:53
Alignment explanation
Indices: 3297527--3297662 Score: 132
Period size: 53 Copynumber: 2.6 Consensus size: 53
3297517 TATTTATAAG
* * ** *
3297527 AATTAAAAGAAATAAAGATTTAAA-AGGATTAAAAGGAATAAAGATAAAAAAGA
1 AATTAAAAG-AATAAAAAATTAAATAAAATTAAAAAGAATAAAGATAAAAAAGA
* ** * * * *
3297580 AATCAAAAG-GGAAAAAATTAAAATGAAATTAAAAAGAATAAAGATTAATAGGA
1 AATTAAAAGAATAAAAAATT-AAATAAAATTAAAAAGAATAAAGATAAAAAAGA
3297633 AATTAAAAGAATAAAAAATTAAATAAAATT
1 AATTAAAAGAATAAAAAATTAAATAAAATT
3297663 GAATCTCCTA
Statistics
Matches: 64, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
51 6 0.09
52 3 0.05
53 47 0.73
54 8 0.12
ACGTcount: A:0.66, C:0.01, G:0.12, T:0.21
Consensus pattern (53 bp):
AATTAAAAGAATAAAAAATTAAATAAAATTAAAAAGAATAAAGATAAAAAAGA
Found at i:3299821 original size:30 final size:30
Alignment explanation
Indices: 3299787--3299851 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
3299777 GTGAACCGGT
* *
3299787 GGTTCAAACCGGTTTTGCCGGTTTTCAGCC
1 GGTTCAAACCAGTTTTACCGGTTTTCAGCC
** **
3299817 GGTTCACCCCAGTTTTATTGGTTTTCAGCC
1 GGTTCAAACCAGTTTTACCGGTTTTCAGCC
3299847 GGTTC
1 GGTTC
3299852 TATCGGTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.12, C:0.26, G:0.25, T:0.37
Consensus pattern (30 bp):
GGTTCAAACCAGTTTTACCGGTTTTCAGCC
Found at i:3301502 original size:14 final size:14
Alignment explanation
Indices: 3301445--3301506 Score: 54
Period size: 14 Copynumber: 4.2 Consensus size: 14
3301435 GGCTTATATC
3301445 TAATATGGACTATTA
1 TAATATGGACTA-TA
*
3301460 TTTAATATGGATTATA
1 --TAATATGGACTATA
* *
3301476 TTATACTAG-CTATA
1 TAATA-TGGACTATA
3301490 TAATATGGACTATA
1 TAATATGGACTATA
3301504 TAA
1 TAA
3301507 CATGAAAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
13 2 0.05
14 20 0.54
15 2 0.05
16 2 0.05
17 11 0.30
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.42
Consensus pattern (14 bp):
TAATATGGACTATA
Found at i:3311616 original size:20 final size:20
Alignment explanation
Indices: 3311593--3311634 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
3311583 TAAAAAGCGA
3311593 AACGTTTGGGTAAAATGCTC
1 AACGTTTGGGTAAAATGCTC
3311613 AACGTTTGGGTAAAATGCTC
1 AACGTTTGGGTAAAATGCTC
3311633 AA
1 AA
3311635 AATAACATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (20 bp):
AACGTTTGGGTAAAATGCTC
Found at i:3316952 original size:19 final size:19
Alignment explanation
Indices: 3316928--3316972 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
3316918 AAATTTGTAT
3316928 TGTTCTCTTTGGGAGAGAG
1 TGTTCTCTTTGGGAGAGAG
3316947 TGTTCTCTTTGGGAGAGAG
1 TGTTCTCTTTGGGAGAGAG
3316966 TGTTCTC
1 TGTTCTC
3316973 AAGAATTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.13, C:0.13, G:0.33, T:0.40
Consensus pattern (19 bp):
TGTTCTCTTTGGGAGAGAG
Found at i:3322294 original size:19 final size:19
Alignment explanation
Indices: 3322234--3322294 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
3322224 TTGGTACAGA
* *
3322234 GGGAAACGATACCCTCATG
1 GGGAAACGATACCCCCCTG
* *
3322253 AGGGAACCGAT-TCCCCCTAG
1 -GGGAAACGATACCCCCCT-G
*
3322273 GGGAATCGATACCCCCCTG
1 GGGAAACGATACCCCCCTG
3322292 GGG
1 GGG
3322295 TTCTGTAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.25, C:0.31, G:0.30, T:0.15
Consensus pattern (19 bp):
GGGAAACGATACCCCCCTG
Found at i:3325061 original size:20 final size:20
Alignment explanation
Indices: 3325032--3325069 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3325022 ATTTTACACT
3325032 TAGGGAACCGATTCCCCCTA
1 TAGGGAACCGATTCCCCCTA
*
3325052 TAGGGTACCGATTCCCCC
1 TAGGGAACCGATTCCCCC
3325070 CACGCTCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.37, G:0.21, T:0.21
Consensus pattern (20 bp):
TAGGGAACCGATTCCCCCTA
Found at i:3329098 original size:22 final size:21
Alignment explanation
Indices: 3329052--3329102 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
3329042 ATAATTAATG
**
3329052 AACATAATTAAAATGATAAAT
1 AACATAATTAAAAAAATAAAT
3329073 AACAATAATTAAAAAAAGTAAA-
1 AAC-ATAATTAAAAAAA-TAAAT
3329095 AACATAAT
1 AACATAAT
3329103 AGAATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 8 0.31
22 14 0.54
23 4 0.15
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.24
Consensus pattern (21 bp):
AACATAATTAAAAAAATAAAT
Found at i:3334343 original size:182 final size:183
Alignment explanation
Indices: 3334035--3334430 Score: 541
Period size: 182 Copynumber: 2.2 Consensus size: 183
3334025 TTGTCGGTAT
* * * * *
3334035 GTATCGATACCATTA-AAATATGTATCGATACATAATAATATATCAGGTAAAAAGTATGAGAAAA
1 GTATCGATA-CTTTATAAACATGTATCGATACATAACAATATAACAGGTAAAAAGTATGACAAAA
* *
3334099 CCGGGTTCAATATGAAAAAAAGGTAAAGCGCTACTGAATATATTGAAGGTATCGATTCTATTCAA
65 CCGGGTTCAATATGAAAAAAAGGTAAAGCGATACTCAATATATTGAAGGTATCGATTCTATTCAA
* *
3334164 ATAAGTATC-AACACTTTTGGAATTTAAAAGAAAAGCAGTAATAACACCTATAAA
130 ATAAGTATCGAA-ACTTTTGGAATTTAAAAGAAAAACAATAATAACACCTATAAA
* * *
3334218 GTATCGATATTTTATCAACATGTATCGATACGTAACAATATAAC-GGTAAAAA-TATGACAAAAC
1 GTATCGATACTTTATAAACATGTATCGATACATAACAATATAACAGGTAAAAAGTATGACAAAAC
* * ** * *
3334281 CGGTTTCATTATGACAAAACCGGTAAAGCGATAC-CATATATGTTGAATGTATCGATTCTATTCA
66 CGGGTTCAATATGA-AAAAAAGGTAAAGCGATACTCA-ATATATTGAAGGTATCGATTCTATTCA
* *
3334345 AATAAGTATCGAAACTTTTGGAATTTAAAAGAAAAACAATAATAGCGCCTATAAA
129 AATAAGTATCGAAACTTTTGGAATTTAAAAGAAAAACAATAATAACACCTATAAA
3334400 GTATCGATACTTTATAAACATGTATCGATAC
1 GTATCGATACTTTATAAACATGTATCGATAC
3334431 TTTATAAACA
Statistics
Matches: 187, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
181 23 0.12
182 129 0.69
183 35 0.19
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (183 bp):
GTATCGATACTTTATAAACATGTATCGATACATAACAATATAACAGGTAAAAAGTATGACAAAAC
CGGGTTCAATATGAAAAAAAGGTAAAGCGATACTCAATATATTGAAGGTATCGATTCTATTCAAA
TAAGTATCGAAACTTTTGGAATTTAAAAGAAAAACAATAATAACACCTATAAA
Found at i:3334426 original size:21 final size:21
Alignment explanation
Indices: 3334400--3334450 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
3334390 CGCCTATAAA
3334400 GTATCGATACTTTATAAACAT
1 GTATCGATACTTTATAAACAT
3334421 GTATCGATACTTTATAAACAT
1 GTATCGATACTTTATAAACAT
3334442 GTATCGATA
1 GTATCGATA
3334451 TGTAACAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (21 bp):
GTATCGATACTTTATAAACAT
Found at i:3334540 original size:205 final size:203
Alignment explanation
Indices: 3334218--3334633 Score: 681
Period size: 205 Copynumber: 2.0 Consensus size: 203
3334208 CACCTATAAA
* * * * *
3334218 GTATCGATATTTTATCAACATGTATCGATACGTAACAATATAACGGTAAAAATATGACAAAACCG
1 GTATCGATACTTTATAAACATGTATCGATACGTAACAATATAACAGTAAAAATATGAAAAAACCA
* *
3334283 GTTTCATTATGACAAAACCGGTAAAGCGATACCATATATGTTGAATGTATCGATTCTATTCAAAT
66 GTTTCATTATGACAAAACCGGTAAAGCGATACCATATATGTTGAAGGTATCGATTCCATTCAAAT
3334348 AAGTATCGAAACTTTTGGAATTTAAAAGAAAAACAATAATAGCGCCTATAAAGTATCGATACTTT
131 AAGTATCGAAACTTTTGGAATTTAAAAGAAAAACAATAATAGCGCCTATAAAGTATCGATACTTT
3334413 ATAAACAT
196 ATAAACAT
* *
3334421 GTATCGATACTTTATAAACATGTATCGATATGTAACAATATAACAAGTAAAAATATGAAAAAAAT
1 GTATCGATACTTTATAAACATGTATCGATACGTAACAATATAAC-AGTAAAAATATG-AAAAAAC
* *
3334486 CAGTTTCATTATGACAAAACCGGTAAAGGGATACTGA-ATATGTTGAAGGTATCGATTCCATTCA
64 CAGTTTCATTATGACAAAACCGGTAAAGCGATAC-CATATATGTTGAAGGTATCGATTCCATTCA
* *
3334550 AATAAGTATCGATACTTTTGGAATTTAAAAGAAAAACAATAATAGCGCCTATAAAGTATTGATAC
128 AATAAGTATCGAAACTTTTGGAATTTAAAAGAAAAACAATAATAGCGCCTATAAAGTATCGATAC
3334615 TTTATAAACAT
193 TTTATAAACAT
3334626 GTATCGAT
1 GTATCGAT
3334634 CAATAACAAT
Statistics
Matches: 197, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
203 41 0.21
204 11 0.06
205 144 0.73
206 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (203 bp):
GTATCGATACTTTATAAACATGTATCGATACGTAACAATATAACAGTAAAAATATGAAAAAACCA
GTTTCATTATGACAAAACCGGTAAAGCGATACCATATATGTTGAAGGTATCGATTCCATTCAAAT
AAGTATCGAAACTTTTGGAATTTAAAAGAAAAACAATAATAGCGCCTATAAAGTATCGATACTTT
ATAAACAT
Found at i:3337281 original size:66 final size:66
Alignment explanation
Indices: 3337158--3337282 Score: 169
Period size: 66 Copynumber: 1.9 Consensus size: 66
3337148 AAGTGGGTGT
* *
3337158 AAAAATAGATGGAGTGGTAAAAGAAGTTATAGAGTTGAGGGGTGAAGTTAAGATGGTGATGGGCG
1 AAAAATAGATGGAGTGGTAAAAGAAGTTATAGAATTGAGGGGTGAACTTAAGATGGTGATGGGCG
3337223 G
66 G
* * * * * * *
3337224 AAAAATTGATGGAGTGGTGAAGGAAGTTGTGGAATTGAGGGGTGAACTTACGGTGGTGA
1 AAAAATAGATGGAGTGGTAAAAGAAGTTATAGAATTGAGGGGTGAACTTAAGATGGTGA
3337283 AGGGAGTGGT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 50 1.00
ACGTcount: A:0.34, C:0.02, G:0.40, T:0.24
Consensus pattern (66 bp):
AAAAATAGATGGAGTGGTAAAAGAAGTTATAGAATTGAGGGGTGAACTTAAGATGGTGATGGGCG
G
Found at i:3341928 original size:200 final size:201
Alignment explanation
Indices: 3341580--3342737 Score: 1769
Period size: 200 Copynumber: 5.8 Consensus size: 201
3341570 CCCAAACTTG
* * * *
3341580 AAGTATCGATACATGTATTATAAGTATCGAT-TTCAAAAACATCGAAACCGATAATTATAAAGTA
1 AAGTGTCGATACATTTATTATAAGTATCGATCCTC-AAAACATCGAAACCGATTATTATAAAGTA
* * * * *
3341644 ATAGCTAAATTTATAATGTAACCG-TTAAAAGTATACCAATTTAATGAGAGAATAGGTAAACATA
65 ATAGGTAAATTTACAATGTAACCGAGTAAAAATATACCAGTTTAATGAGAGAATAGGTAAACATA
*
3341708 ATGTATCGATACTTTTTAAAATTGTATCAATACTTTTTGTCCAGAATGAATGCCAAACGAGATGC
130 ATGTATCGATACTTTTTAAAATTGTATCGATACTTTTTGTCCAGAATGAATGCCAAACGAGATGC
3341773 ACACATA
195 ACACATA
*
3341780 AAGTGTCGATACATTTATTATAAGTATCGATCCTCAAAACATCAAAACCGATTATTATAAAGTAA
1 AAGTGTCGATACATTTATTATAAGTATCGATCCTCAAAACATCGAAACCGATTATTATAAAGTAA
*
3341845 TAGGTAAATTTACAATGTAACCGA-TAAAAATATACCAGTTTAATTAGAGAATAGGTAAACATAA
66 TAGGTAAATTTACAATGTAACCGAGTAAAAATATACCAGTTTAATGAGAGAATAGGTAAACATAA
* * * *
3341909 TGTATCAATACTTTTTAAAATTGGATCGATACATTTTGTCCAAAATGAATGCCAAACGAGATGCA
131 TGTATCGATACTTTTTAAAATTGTATCGATACTTTTTGTCCAGAATGAATGCCAAACGAGATGCA
* *
3341974 CGCACA
196 CACATA
**
3341980 AAGTGTCGATACATTTATTATAAGTATCGATCCTC-AAACATCGAAATTGATTATTATAAAGTAA
1 AAGTGTCGATACATTTATTATAAGTATCGATCCTCAAAACATCGAAACCGATTATTATAAAGTAA
* *
3342044 TAGGTAAATTTACAATGTAACC-AGTAAAAATATATCAGTTTAATGGGAGAATAGGTAAACATAA
66 TAGGTAAATTTACAATGTAACCGAGTAAAAATATACCAGTTTAATGAGAGAATAGGTAAACATAA
* * * * *
3342108 TATATTGATACCTTTTAAAATTGTATCGATACTTTTTGTCTAGAATGAATGCTAAACGAGATGCA
131 TGTATCGATACTTTTTAAAATTGTATCGATACTTTTTGTCCAGAATGAATGCCAAACGAGATGCA
3342173 -ACCATA
196 CA-CATA
* * *
3342179 AAGTGTCGATGCATTTATTATAAGTATCAATCCTCAAAACATCGAAACTGATTATTATAAAGTAA
1 AAGTGTCGATACATTTATTATAAGTATCGATCCTCAAAACATCGAAACCGATTATTATAAAGTAA
*
3342244 TAGGTAAATTTACAATGTAACC-AGTAAAAATATA-TAGGTTTAATGAGAGAATAGGTAAACATA
66 TAGGTAAATTTACAATGTAACCGAGTAAAAATATACCA-GTTTAATGAGAGAATAGGTAAACATA
* * *
3342307 ATGTATCGATACCTTTTAAAATTGTATCGATACTTTTTGTCCAGAATGAATGCTAATCGAGATGC
130 ATGTATCGATACTTTTTAAAATTGTATCGATACTTTTTGTCCAGAATGAATGCCAAACGAGATGC
*
3342372 ACGCATA
195 ACACATA
* * *
3342379 AAGTGTGGATACATTTATTATAAGTATCAATCCTCAAAACATCGAAATCGATTATTATAAAGTAA
1 AAGTGTCGATACATTTATTATAAGTATCGATCCTCAAAACATCGAAACCGATTATTATAAAGTAA
* * * *
3342444 TAGGTAAATTTACAATGTAA-CTAGTAAAAATATACCGGTTTAATGAGAGAATATGTAAACTTAA
66 TAGGTAAATTTACAATGTAACCGAGTAAAAATATACCAGTTTAATGAGAGAATAGGTAAACATAA
** * *
3342508 TGTATTAATACTTTTTAAAATTGTATCGATACTTTTTGTCCAGAATGAATACCAAACGAGATGTA
131 TGTATCGATACTTTTTAAAATTGTATCGATACTTTTTGTCCAGAATGAATGCCAAACGAGATGCA
3342573 CACATA
196 CACATA
*
3342579 AAGTGTCGATACATTTATTATAAGTATCGATCCTCAAAACATCGAAACTGATTATTATAAAGTAA
1 AAGTGTCGATACATTTATTATAAGTATCGATCCTCAAAACATCGAAACCGATTATTATAAAGTAA
*
3342644 TAGGTAAATTTACAATGTAACCG-GTAAAAATATACCGGTTTAATGAGAGAATAGGTAAACATAA
66 TAGGTAAATTTACAATGTAACCGAGTAAAAATATACCAGTTTAATGAGAGAATAGGTAAACATAA
* *
3342708 TATATCTATACTTTTTAAAATTGTATCGAT
131 TGTATCGATACTTTTTAAAATTGTATCGAT
3342738 GCGTTTTTAA
Statistics
Matches: 878, Mismatches: 70, Indels: 20
0.91 0.07 0.02
Matches are distributed among these distances:
198 1 0.00
199 179 0.20
200 695 0.79
201 3 0.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.32
Consensus pattern (201 bp):
AAGTGTCGATACATTTATTATAAGTATCGATCCTCAAAACATCGAAACCGATTATTATAAAGTAA
TAGGTAAATTTACAATGTAACCGAGTAAAAATATACCAGTTTAATGAGAGAATAGGTAAACATAA
TGTATCGATACTTTTTAAAATTGTATCGATACTTTTTGTCCAGAATGAATGCCAAACGAGATGCA
CACATA
Found at i:3342357 original size:399 final size:399
Alignment explanation
Indices: 3341580--3342737 Score: 1822
Period size: 399 Copynumber: 2.9 Consensus size: 399
3341570 CCCAAACTTG
* * * * *
3341580 AAGTATCGATACATGTATTATAAGTATCGAT-TTCAAAAACATCGAAACCGATAATTATAAAGTA
1 AAGTGTCGATACATTTATTATAAGTATCGATCCTC-AAAACATCGAAATCGATTATTATAAAGTA
* * * *
3341644 ATAGCTAAATTTATAATGTAACC-GTTAAAAGTATACCAATTTAATGAGAGAATAGGTAAACATA
65 ATAGGTAAATTTACAATGTAACCAG-TAAAAATATACCAGTTTAATGAGAGAATAGGTAAACATA
* *
3341708 ATGTATCGATACTTTTTAAAATTGTATCAATACTTTTTGTCCAGAATGAATGCCAAACGAGATGC
129 ATGTATTGATACTTTTTAAAATTGTATCGATACTTTTTGTCCAGAATGAATGCCAAACGAGATGC
* *
3341773 ACACATAAAGTGTCGATACATTTATTATAAGTATCGATCCTCAAAACATCAAAACCGATTATTAT
194 ACACATAAAGTGTCGATACATTTATTATAAGTATCGATCCTCAAAACATCGAAACTGATTATTAT
*
3341838 AAAGTAATAGGTAAATTTACAATGTAACCGATAAAAATATACCA-GTTTAATTAGAGAATAGGTA
259 AAAGTAATAGGTAAATTTACAATGTAACCG-TAAAAATATA-CAGGTTTAATGAGAGAATAGGTA
*
3341902 AACATAATGTATCAATACTTTTTAAAATTGGATCGATACATTTTGTCCAAAATGAATGCCAAACG
322 AACATAATGTATCAATACTTTTTAAAATTGTATCGATACATTTTGTCCAAAATGAATGCCAAACG
3341967 AGATGCACGCACA
387 AGATGCACGCACA
*
3341980 AAGTGTCGATACATTTATTATAAGTATCGATCCTC-AAACATCGAAATTGATTATTATAAAGTAA
1 AAGTGTCGATACATTTATTATAAGTATCGATCCTCAAAACATCGAAATCGATTATTATAAAGTAA
* *
3342044 TAGGTAAATTTACAATGTAACCAGTAAAAATATATCAGTTTAATGGGAGAATAGGTAAACATAAT
66 TAGGTAAATTTACAATGTAACCAGTAAAAATATACCAGTTTAATGAGAGAATAGGTAAACATAAT
* * * *
3342109 ATATTGATACCTTTTAAAATTGTATCGATACTTTTTGTCTAGAATGAATGCTAAACGAGATGCA-
131 GTATTGATACTTTTTAAAATTGTATCGATACTTTTTGTCCAGAATGAATGCCAAACGAGATGCAC
* *
3342173 ACCATAAAGTGTCGATGCATTTATTATAAGTATCAATCCTCAAAACATCGAAACTGATTATTATA
196 A-CATAAAGTGTCGATACATTTATTATAAGTATCGATCCTCAAAACATCGAAACTGATTATTATA
*
3342238 AAGTAATAGGTAAATTTACAATGTAACCAGTAAAAATATATAGGTTTAATGAGAGAATAGGTAAA
260 AAGTAATAGGTAAATTTACAATGTAACC-GTAAAAATATACAGGTTTAATGAGAGAATAGGTAAA
* * * * * *
3342303 CATAATGTATCGATACCTTTTAAAATTGTATCGATACTTTTTGTCCAGAATGAATGCTAATCGAG
324 CATAATGTATCAATACTTTTTAAAATTGTATCGATACATTTTGTCCAAAATGAATGCCAAACGAG
*
3342368 ATGCACGCATA
389 ATGCACGCACA
* *
3342379 AAGTGTGGATACATTTATTATAAGTATCAATCCTCAAAACATCGAAATCGATTATTATAAAGTAA
1 AAGTGTCGATACATTTATTATAAGTATCGATCCTCAAAACATCGAAATCGATTATTATAAAGTAA
* * * *
3342444 TAGGTAAATTTACAATGTAACTAGTAAAAATATACCGGTTTAATGAGAGAATATGTAAACTTAAT
66 TAGGTAAATTTACAATGTAACCAGTAAAAATATACCAGTTTAATGAGAGAATAGGTAAACATAAT
* * *
3342509 GTATTAATACTTTTTAAAATTGTATCGATACTTTTTGTCCAGAATGAATACCAAACGAGATGTAC
131 GTATTGATACTTTTTAAAATTGTATCGATACTTTTTGTCCAGAATGAATGCCAAACGAGATGCAC
3342574 ACATAAAGTGTCGATACATTTATTATAAGTATCGATCCTCAAAACATCGAAACTGATTATTATAA
196 ACATAAAGTGTCGATACATTTATTATAAGTATCGATCCTCAAAACATCGAAACTGATTATTATAA
*
3342639 AGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTAATGAGAGAATAGGTAAAC
261 AGTAATAGGTAAATTTACAATGTAACC-GTAAAAATATACAGGTTTAATGAGAGAATAGGTAAAC
* *
3342704 ATAATATATCTATACTTTTTAAAATTGTATCGAT
325 ATAATGTATCAATACTTTTTAAAATTGTATCGAT
3342738 GCGTTTTTAA
Statistics
Matches: 695, Mismatches: 56, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
398 2 0.00
399 360 0.52
400 330 0.47
401 3 0.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.32
Consensus pattern (399 bp):
AAGTGTCGATACATTTATTATAAGTATCGATCCTCAAAACATCGAAATCGATTATTATAAAGTAA
TAGGTAAATTTACAATGTAACCAGTAAAAATATACCAGTTTAATGAGAGAATAGGTAAACATAAT
GTATTGATACTTTTTAAAATTGTATCGATACTTTTTGTCCAGAATGAATGCCAAACGAGATGCAC
ACATAAAGTGTCGATACATTTATTATAAGTATCGATCCTCAAAACATCGAAACTGATTATTATAA
AGTAATAGGTAAATTTACAATGTAACCGTAAAAATATACAGGTTTAATGAGAGAATAGGTAAACA
TAATGTATCAATACTTTTTAAAATTGTATCGATACATTTTGTCCAAAATGAATGCCAAACGAGAT
GCACGCACA
Found at i:3342734 original size:21 final size:22
Alignment explanation
Indices: 3342710--3342751 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3342700 AAACATAATA
*
3342710 TATCTATAC-TTTTTAAAATTG
1 TATCGATACGTTTTTAAAATTG
*
3342731 TATCGATGCGTTTTTAAAATT
1 TATCGATACGTTTTTAAAATT
3342752 ACGCGTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.50
Consensus pattern (22 bp):
TATCGATACGTTTTTAAAATTG
Found at i:3343070 original size:36 final size:36
Alignment explanation
Indices: 3343029--3343108 Score: 142
Period size: 36 Copynumber: 2.2 Consensus size: 36
3343019 GAGGCGTGGG
*
3343029 TCTTCTAAATGACAACCTTCTTCTCAACCAAGCTCT
1 TCTTCTAAACGACAACCTTCTTCTCAACCAAGCTCT
*
3343065 TCTTCTCAACGACAACCTTCTTCTCAACCAAGCTCT
1 TCTTCTAAACGACAACCTTCTTCTCAACCAAGCTCT
3343101 TCTTCTAA
1 TCTTCTAA
3343109 CCAAATCAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.26, C:0.35, G:0.05, T:0.34
Consensus pattern (36 bp):
TCTTCTAAACGACAACCTTCTTCTCAACCAAGCTCT
Found at i:3343092 original size:18 final size:18
Alignment explanation
Indices: 3343029--3343092 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
3343019 GAGGCGTGGG
* *
3343029 TCTTCTAAATGACAACCT
1 TCTTCTCAACGACAACCT
3343047 TCTTCTCAAC--CAAGCTCT
1 TCTTCTCAACGACAA-C-CT
3343065 TCTTCTCAACGACAACCT
1 TCTTCTCAACGACAACCT
3343083 TCTTCTCAAC
1 TCTTCTCAAC
3343093 CAAGCTCTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.08
17 1 0.03
18 32 0.80
19 1 0.03
20 3 0.08
ACGTcount: A:0.27, C:0.36, G:0.05, T:0.33
Consensus pattern (18 bp):
TCTTCTCAACGACAACCT
Found at i:3343102 original size:18 final size:18
Alignment explanation
Indices: 3343045--3343112 Score: 97
Period size: 18 Copynumber: 3.8 Consensus size: 18
3343035 AAATGACAAC
3343045 CTTCTTCTCAACCAAGCT
1 CTTCTTCTCAACCAAGCT
3343063 CTTCTTCTCAACGACAA-C-
1 CTTCTTCTCAAC--CAAGCT
3343081 CTTCTTCTCAACCAAGCT
1 CTTCTTCTCAACCAAGCT
3343099 CTTCTTCT-AACCAA
1 CTTCTTCTCAACCAA
3343113 ATCAGGTCGT
Statistics
Matches: 46, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
16 3 0.07
17 7 0.15
18 32 0.70
19 1 0.02
20 3 0.07
ACGTcount: A:0.25, C:0.38, G:0.04, T:0.32
Consensus pattern (18 bp):
CTTCTTCTCAACCAAGCT
Found at i:3345719 original size:24 final size:24
Alignment explanation
Indices: 3345673--3345720 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
3345663 TCATTTTTTG
* *
3345673 GAGTTTGAATTTAAATTTCAATTT
1 GAGTTTGAATTTAAATATAAATTT
* *
3345697 GAGTTTGATTTTCAATATAAATTT
1 GAGTTTGAATTTAAATATAAATTT
3345721 CCACTTTACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.50
Consensus pattern (24 bp):
GAGTTTGAATTTAAATATAAATTT
Found at i:3351035 original size:118 final size:117
Alignment explanation
Indices: 3350803--3351063 Score: 319
Period size: 118 Copynumber: 2.2 Consensus size: 117
3350793 ATATGACAAA
* * * *
3350803 TCCAGTAATTAACCT-ATTTTGTTATCGTCGAATTTCCAAAGTCGTATCAGCTTAAAAAAGCGCT
1 TCCAGTAATTAA-CTGGTTATGTTATCATCGAATTTCCAAAGTCGCATCAGCTTAAAAAAGCGCT
** * *
3350867 ACCTATTATGTTATATAAGCGCTACCTAATATGTTGTTATAATTAATAATGTT
65 ACCTATTACATTATATAAGCACTACCTAATATGTTATTATAATTAATAATGTT
* * *
3350920 TCCAGTAATTAACTGGTTATGTTATCATCGGATTTCCAAAGCTC-CATCAGCTTTAACAATGCGC
1 TCCAGTAATTAACTGGTTATGTTATCATCGAATTTCCAAAG-TCGCATCAGC-TTAAAAAAGCGC
* * ** *
3350984 TACCTATTACATTATATAAGCACTACTTAATATGTTATTGTGCTTGATAATGTT
64 TACCTATTACATTATATAAGCACTACCTAATATGTTATTATAATTAATAATGTT
* *
3351038 TCCAATAATTAACCGGTTATGTTATC
1 TCCAGTAATTAACTGGTTATGTTATC
3351064 GTCTATATAT
Statistics
Matches: 123, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
116 2 0.02
117 40 0.33
118 81 0.66
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (117 bp):
TCCAGTAATTAACTGGTTATGTTATCATCGAATTTCCAAAGTCGCATCAGCTTAAAAAAGCGCTA
CCTATTACATTATATAAGCACTACCTAATATGTTATTATAATTAATAATGTT
Found at i:3352423 original size:29 final size:26
Alignment explanation
Indices: 3352391--3352472 Score: 67
Period size: 29 Copynumber: 3.0 Consensus size: 26
3352381 TTAATAATGC
3352391 TAAAGAACAAGATTTACATAATGGATCA
1 TAAAGAA-AAGATTTA-ATAATGGATCA
* *
3352419 TTAAATAAAAAGGATTTAATAATGTATCA
1 -TAAA-GAAAA-GATTTAATAATGGATCA
* *
3352448 AAAAGAAATG-TTTAGATAATGGATC
1 TAAAGAAAAGATTTA-ATAATGGATC
3352473 GTACGAGGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
25 4 0.09
26 10 0.23
27 3 0.07
28 3 0.07
29 16 0.36
30 8 0.18
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.29
Consensus pattern (26 bp):
TAAAGAAAAGATTTAATAATGGATCA
Found at i:3353247 original size:5 final size:5
Alignment explanation
Indices: 3353222--3353307 Score: 61
Period size: 5 Copynumber: 16.8 Consensus size: 5
3353212 AAAAAAGTCA
* *
3353222 AAAAT AAAGTT AAATAT AAAAT AAAAAT AAAAT AAAAT AAAA- AATAT
1 AAAAT AAA-AT AAA-AT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT
* * *
3353269 TAAAT -AAAT AAAA- GAATT AAAAT AAAATT AAAATT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T AAAA-T AAAA
3353308 AGGATTAAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
4 9 0.14
5 32 0.49
6 24 0.37
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (5 bp):
AAAAT
Found at i:3353251 original size:23 final size:23
Alignment explanation
Indices: 3353211--3353307 Score: 79
Period size: 23 Copynumber: 4.0 Consensus size: 23
3353201 AAAATTGTCC
* *
3353211 TAAAAAAGTCAAAAATAAAGTTAAA
1 TAAAAAA-T-AAAAATAAAATAAAA
*
3353236 TATAAAATAAAAATAAAATAAAA
1 TAAAAAATAAAAATAAAATAAAA
*
3353259 TAAAAAATATTAAAT-AAATAAAA
1 TAAAAAATA-AAAATAAAATAAAA
* *
3353282 GAATTAAAATAAAATTAAAATTAAAA
1 TAA--AAAATAAAAATAAAA-TAAAA
3353308 AGGATTAAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
23 31 0.53
24 8 0.14
25 15 0.25
26 5 0.08
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (23 bp):
TAAAAAATAAAAATAAAATAAAA
Found at i:3353316 original size:16 final size:16
Alignment explanation
Indices: 3353283--3353334 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
3353273 TAAATAAAAG
*
3353283 AATTAAAATAAAATTAA
1 AATTAAAA-AGAATTAA
*
3353300 AATTAAAAAGGATT-A
1 AATTAAAAAGAATTAA
*
3353315 AATTGAAAAGAATTAA
1 AATTAAAAAGAATTAA
3353331 AATT
1 AATT
3353335 CAAGGATCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 13 0.43
16 9 0.30
17 8 0.27
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (16 bp):
AATTAAAAAGAATTAA
Found at i:3353324 original size:42 final size:40
Alignment explanation
Indices: 3353245--3353333 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 40
3353235 ATATAAAATA
*
3353245 AAAATAAAATAAAATAAAAAATATTAAATAAATAAAAGAATT
1 AAAATAAAATAAAATAAAAAAGATTAAAT--ATAAAAGAATT
*
3353287 AAAATAAAATTAAAATTAAAAAGGATTAAAT-TGAAAAGAATT
1 AAAATAAAA-TAAAA-TAAAAAAGATTAAATAT-AAAAGAATT
3353329 AAAAT
1 AAAAT
3353334 TCAAGGATCA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
41 1 0.02
42 23 0.55
43 5 0.12
44 13 0.31
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.25
Consensus pattern (40 bp):
AAAATAAAATAAAATAAAAAAGATTAAATATAAAAGAATT
Found at i:3354460 original size:3 final size:3
Alignment explanation
Indices: 3354452--3354517 Score: 68
Period size: 3 Copynumber: 22.3 Consensus size: 3
3354442 ATGAACAAAA
*
3354452 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAC AAT -AT AAAT AAT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT -AAT AAT A-AT
3354499 AAT -AT AAT -AT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
3354518 CATATTATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
2 8 0.15
3 38 0.70
4 8 0.15
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3354526 original size:12 final size:11
Alignment explanation
Indices: 3354453--3354517 Score: 75
Period size: 10 Copynumber: 6.1 Consensus size: 11
3354443 TGAACAAAAA
3354453 ATAATAATAAT
1 ATAATAATAAT
3354464 AATAATAATAAT
1 -ATAATAATAAT
*
3354476 A-AATAACAAT
1 ATAATAATAAT
3354486 ATAAATAAT-AT
1 AT-AATAATAAT
3354497 ATAAT-ATAAT
1 ATAATAATAAT
3354507 ATAAT-ATAAT
1 ATAATAATAAT
3354517 A
1 A
3354518 CATATTATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
9 2 0.04
10 25 0.52
11 5 0.10
12 16 0.33
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:3354527 original size:19 final size:18
Alignment explanation
Indices: 3354456--3354528 Score: 64
Period size: 16 Copynumber: 4.2 Consensus size: 18
3354446 ACAAAAAATA
*
3354456 ATAATAATAATAATAATA-
1 ATAAT-ATAATAATATTAT
* *
3354474 ATAA-ATAACAATA-TAA
1 ATAATATAATAATATTAT
*
3354490 ATAATAT-ATAATATAAT
1 ATAATATAATAATATTAT
3354507 ATAATATAATACATATTAT
1 ATAATATAATA-ATATTAT
3354526 ATA
1 ATA
3354529 TTTATTTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
15 2 0.04
16 17 0.38
17 10 0.22
18 7 0.16
19 9 0.20
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATATAATAATATTAT
Found at i:3354552 original size:31 final size:29
Alignment explanation
Indices: 3354523--3354577 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
3354513 TAATACATAT
3354523 TATATATTTA-TTT-AAAAACTATATAACA
1 TATAT-TTTATTTTCAAAAACTATATAACA
3354551 TATATTTTATTTTCAAAAACTATATAA
1 TATATTTTATTTTCAAAAACTATATAA
3354578 TATGTTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 4 0.16
28 8 0.32
29 13 0.52
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (29 bp):
TATATTTTATTTTCAAAAACTATATAACA
Found at i:3354575 original size:22 final size:23
Alignment explanation
Indices: 3354550--3354605 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
3354540 ACTATATAAC
3354550 ATATATTTTATTTTCAAAA-ACT
1 ATATATTTTATTTTCAAAATACT
* * * *
3354572 ATATAATATGTTTTCAAAATATT
1 ATATATTTTATTTTCAAAATACT
*
3354595 ATATATATTAT
1 ATATATTTTAT
3354606 ATATGTTTTC
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (23 bp):
ATATATTTTATTTTCAAAATACT
Found at i:3354580 original size:27 final size:25
Alignment explanation
Indices: 3354519--3354585 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 25
3354509 AATATAATAC
*
3354519 ATATTATATA-TTTATTTAAAAACT
1 ATATAATATATTTTATTTAAAAACT
3354543 ATATAACATATATTTTATTTTCAAAAACT
1 ATAT-A-ATATATTTTA-TTT-AAAAACT
*
3354572 ATATAATATGTTTT
1 ATATAATATATTTT
3354586 CAAAATATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
24 4 0.11
26 5 0.14
27 12 0.33
28 4 0.11
29 11 0.31
ACGTcount: A:0.43, C:0.06, G:0.01, T:0.49
Consensus pattern (25 bp):
ATATAATATATTTTATTTAAAAACT
Found at i:3354668 original size:22 final size:25
Alignment explanation
Indices: 3354624--3354679 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 25
3354614 TCAAAAATCG
* *
3354624 TTTTAAAAACTATATATATTATATA
1 TTTTCAAAACTATATATATTATACA
*
3354649 TTTTCAAAAC-ATAT-TA-TATACG
1 TTTTCAAAACTATATATATTATACA
3354671 TTTTCAAAA
1 TTTTCAAAA
3354680 ATGTGTTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 13 0.46
23 2 0.07
24 4 0.14
25 9 0.32
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.45
Consensus pattern (25 bp):
TTTTCAAAACTATATATATTATACA
Found at i:3354674 original size:60 final size:61
Alignment explanation
Indices: 3354599--3354775 Score: 247
Period size: 60 Copynumber: 3.0 Consensus size: 61
3354589 AATATTATAT
*
3354599 ATATTATATATGTTTTCAAAAATCGTTTTAAAAACTATATATATTATATATTTTCAAAA-C
1 ATATTATATATGTTTTCAAAAATCGTTTTAAAAACTATATATATTATATGTTTTCAAAACC
* * *
3354659 ATATTATATACGTTTTCAAAAATGTGTTTTCAAAACTATAT-TA-TATATGTTTTCAAAACC
1 ATATTATATATGTTTTCAAAAAT-CGTTTTAAAAACTATATATATTATATGTTTTCAAAACC
* * *
3354719 ATATTATATATGTTTTCAAAAACCGATTTAAAAA-T-TATATATTATATGCTTTCAAAA
1 ATATTATATATGTTTTCAAAAATCGTTTTAAAAACTATATATATTATATGTTTTCAAAA
3354776 ACCGTTTTCT
Statistics
Matches: 103, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
57 3 0.03
58 3 0.03
59 36 0.35
60 46 0.45
61 15 0.15
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.44
Consensus pattern (61 bp):
ATATTATATATGTTTTCAAAAATCGTTTTAAAAACTATATATATTATATGTTTTCAAAACC
Found at i:3354712 original size:23 final size:23
Alignment explanation
Indices: 3354683--3354739 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
3354673 TTCAAAAATG
*
3354683 TGTTTTCAAAACTATATTATATA
1 TGTTTTCAAAACCATATTATATA
3354706 TGTTTTCAAAACCATATTATATA
1 TGTTTTCAAAACCATATTATATA
3354729 TGTTTTCAAAA
1 TGTTTTCAAAA
3354740 ACCGATTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.46
Consensus pattern (23 bp):
TGTTTTCAAAACCATATTATATA
Found at i:3354772 original size:36 final size:38
Alignment explanation
Indices: 3354725--3354814 Score: 121
Period size: 38 Copynumber: 2.4 Consensus size: 38
3354715 AACCATATTA
* *
3354725 TATATGTTTTCAAAAACCG-ATT-TAAAAATTATATAT
1 TATATGTTTTCAAAAACCGTATTCTAAAAACTATACAT
* *
3354761 TATATGCTTTCAAAAACCGTTTTCTAAAAACTATACAT
1 TATATGTTTTCAAAAACCGTATTCTAAAAACTATACAT
*
3354799 TATATATTTTCAAAAA
1 TATATGTTTTCAAAAA
3354815 ATATTTTCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
36 18 0.39
37 2 0.04
38 26 0.57
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.40
Consensus pattern (38 bp):
TATATGTTTTCAAAAACCGTATTCTAAAAACTATACAT
Found at i:3354778 original size:60 final size:59
Alignment explanation
Indices: 3354599--3354775 Score: 223
Period size: 59 Copynumber: 3.0 Consensus size: 59
3354589 AATATTATAT
* *
3354599 ATATTATATATGTTTTCAAAAATCGTTTTAAAAACTATATATATTATATATTTTCAAAA-C
1 ATATTATATATGTTTTCAAAAACCGTTTTAAAAA-T-TATATATTATATGTTTTCAAAACC
* ** * *
3354659 ATATTATATACGTTTTCAAAAATGTGTTTTCAAAACTATAT-TATATATGTTTTCAAAACC
1 ATATTATATATGTTTTCAAAAA-CCGTTTTAAAAATTATATAT-TATATGTTTTCAAAACC
* *
3354719 ATATTATATATGTTTTCAAAAACCGATTTAAAAATTATATATTATATGCTTTCAAAA
1 ATATTATATATGTTTTCAAAAACCGTTTTAAAAATTATATATTATATGTTTTCAAAA
3354776 ACCGTTTTCT
Statistics
Matches: 100, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
58 1 0.01
59 46 0.46
60 44 0.44
61 9 0.09
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.44
Consensus pattern (59 bp):
ATATTATATATGTTTTCAAAAACCGTTTTAAAAATTATATATTATATGTTTTCAAAACC
Found at i:3354820 original size:13 final size:13
Alignment explanation
Indices: 3354802--3354827 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3354792 TATACATTAT
3354802 ATATTTTCAAAAA
1 ATATTTTCAAAAA
3354815 ATATTTTCAAAAA
1 ATATTTTCAAAAA
3354828 CTACATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATTTTCAAAAA
Found at i:3354822 original size:38 final size:38
Alignment explanation
Indices: 3354747--3354838 Score: 100
Period size: 38 Copynumber: 2.5 Consensus size: 38
3354737 AAAACCGATT
* * * * *
3354747 TAAAAATTATATATTATATGCTTTCAAAAACCGTTTTC
1 TAAAAACTATACATTATATACTTTCAAAAAACATTTTC
* *
3354785 TAAAAACTATACATTATATATTTTCAAAAAATATTTTC
1 TAAAAACTATACATTATATACTTTCAAAAAACATTTTC
3354823 -AAAAAC--TACATTATAT
1 TAAAAACTATACATTATAT
3354839 TAGTATATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
35 10 0.21
37 6 0.13
38 31 0.66
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (38 bp):
TAAAAACTATACATTATATACTTTCAAAAAACATTTTC
Found at i:3367070 original size:15 final size:15
Alignment explanation
Indices: 3367026--3367078 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
3367016 ATAAATAATT
*
3367026 AATT-AATTAAAATAA
1 AATTAAATTAAAA-AG
3367041 AATTCAAATTAAAAAG
1 AATT-AAATTAAAAAG
*
3367057 AATTAAATTGAAAAG
1 AATTAAATTAAAAAG
3367072 AATTAAA
1 AATTAAA
3367079 AGTCAAGGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 21 0.62
16 5 0.15
17 8 0.24
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (15 bp):
AATTAAATTAAAAAG
Found at i:3367423 original size:17 final size:17
Alignment explanation
Indices: 3367403--3367452 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
3367393 TTTAGGGAAG
3367403 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
*
3367420 TAGTTCATTCATTAAAC
1 TAGTTCATTAATTAAAC
* *
3367437 TAGTTCGTTTATTAAA
1 TAGTTCATTAATTAAA
3367453 TTAACTCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:3369652 original size:5 final size:5
Alignment explanation
Indices: 3369641--3370273 Score: 702
Period size: 5 Copynumber: 126.0 Consensus size: 5
3369631 AATAAACAAA
* * * * * * * * *
3369641 ATAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * * * * *
3369691 GTAAT GTAAT ATAAT ATAAT GTAAT GTAAT GTAAT ATAAT GTAAT GTAATGT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA--T
* *
3369743 AGTAAT GT-AT ATAAT GTAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 A-TAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
3369793 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT-A- ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
3369841 ATAAT AATATAT ATAAT ATAAT ATAATAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT -ATA-AT ATAAT ATAAT AT-A-AT ATAAT ATAAT ATAAT ATAAT
3369890 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * * * *
3369940 ATAAT ATAAT ATAAT ATAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * * * * * *
3369990 GTAAT TTAAT GTAAT TTAAT GTAAT GTAAT GTAAT GTAATAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT-A-AT ATAAT ATAAT
3370042 ATAAT ATAAT ATAAT A-AAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * * * *
3370091 ATAAT ATAAT ATAAT ATAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * * * * * * * *
3370141 GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT GTAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
*
3370191 GTAAT ATAAT ATAAT ATAAT ATAAT AT-A- ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
3370239 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
3370274 TATTTAAAAA
Statistics
Matches: 595, Mismatches: 18, Indels: 30
0.93 0.03 0.05
Matches are distributed among these distances:
3 4 0.01
4 11 0.02
5 556 0.93
6 11 0.02
7 10 0.02
8 3 0.01
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:3370383 original size:37 final size:37
Alignment explanation
Indices: 3370340--3370510 Score: 149
Period size: 37 Copynumber: 4.7 Consensus size: 37
3370330 CAAAAAAATT
3370340 ATATATATTATATATGTTTTCAAAAACCGTTTT--AA
1 ATATATATTATATATGTTTTCAAAAACCGTTTTCAAA
* **
3370375 ATATATATATATTATATGTTTTTAAAAA-TATTTTCAAA
1 ATATATAT-TA-TATATGTTTTCAAAAACCGTTTTCAAA
* * **
3370413 A-CTATATTATATACGTTTTCAAAAATGTGTTTTCAAA
1 ATATATATTATATATGTTTTCAAAAA-CCGTTTTCAAA
** * *
3370450 A-CCATATTATATATGTTTTCAAAAACCGATTTAAAA
1 ATATATATTATATATGTTTTCAAAAACCGTTTTCAAA
*
3370486 AT-TAT-TTATTATATGATTTCAAAAA
1 ATATATATTA-TATATGTTTTCAAAAA
3370511 TTGTTTTATA
Statistics
Matches: 113, Mismatches: 15, Indels: 15
0.79 0.10 0.10
Matches are distributed among these distances:
35 25 0.22
36 33 0.29
37 52 0.46
38 3 0.03
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.44
Consensus pattern (37 bp):
ATATATATTATATATGTTTTCAAAAACCGTTTTCAAA
Found at i:3370424 original size:72 final size:70
Alignment explanation
Indices: 3370343--3370572 Score: 196
Period size: 72 Copynumber: 3.1 Consensus size: 70
3370333 AAAAATTATA
* *
3370343 TATATTATATATGTTTTCAAAAACCGTTTTAAATATATATATATTATATGTTTTTAAAAATATTT
1 TATATTATATATGTTTTCAAAAACTGTTTTAAA-AAATAT-TATTATATGTTTTTAAAAATATTT
3370408 TCAAAAC
64 TCAAAAC
* * * * *
3370415 TATATTATATACGTTTTCAAAAATGTGTTTTCAAAACCATATTA-TATATGTTTTCAAAAACCGA
1 TATATTATATATGTTTTCAAAAA-CTGTTTT-AAAA-AATATTATTATATGTTTTTAAAAA--TA
* *
3370479 -TTTAAAAAT
61 TTTTCAAAAC
* * * *
3370488 TAT-TTATTATATGATTTCAAAAATTGTTTTATAAAAACTATGCATTATATGGTTTTAAGAAATA
1 TATATTA-TATATGTTTTCAAAAACTGTTTTA-AAAAA-TAT-TATTATATGTTTTTAA-AAATA
3370552 TTTTCAAAAGC
61 TTTTCAAAA-C
*
3370563 TACATTATAT
1 TATATTATAT
3370573 TATTATATAT
Statistics
Matches: 125, Mismatches: 19, Indels: 25
0.74 0.11 0.15
Matches are distributed among these distances:
71 2 0.02
72 52 0.42
73 34 0.27
74 26 0.21
75 8 0.06
76 3 0.02
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (70 bp):
TATATTATATATGTTTTCAAAAACTGTTTTAAAAAATATTATTATATGTTTTTAAAAATATTTTC
AAAAC
Found at i:3374578 original size:65 final size:63
Alignment explanation
Indices: 3374459--3374668 Score: 196
Period size: 65 Copynumber: 3.3 Consensus size: 63
3374449 TTTTTCAGAG
* *
3374459 TGATGCA-CTGATGCACCAATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATCGAATG
1 TGATGCATC-GATGCA-CAA-CCATGCACCGATGCACTCAGGATATT---TTGAAACATCGAATG
3374520 CATT
60 CATT
* *
3374524 TCATGCATCGATGCACATACCATGCACCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACA-ACCATGCACCGATGCACTCAGGATATTT-TG-AAACATCGAATGCAT
3374588 T
63 T
* * * * * * *
3374589 TGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCAAATTCACT
1 TGATGCATCGATGCA-CAACCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
3374653 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
3374669 TCTTACTGCA
Statistics
Matches: 123, Mismatches: 13, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
62 1 0.01
63 3 0.02
64 45 0.37
65 68 0.55
66 6 0.05
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (63 bp):
TGATGCATCGATGCACAACCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
Found at i:3383231 original size:65 final size:65
Alignment explanation
Indices: 3383101--3383260 Score: 193
Period size: 65 Copynumber: 2.5 Consensus size: 65
3383091 AATTAAATTG
**
3383101 AACATCGAATGCATTTCG-TGCATCGATGCA-CATACCATGCACCGATGCACTGAGGATTTTATG
1 AACATCGAATGCATTT-GATGCATCGATGCACCATACCATGCACCGATGCACACAGGATTTTATG
3383164 AA
65 -A
* * * *
3383166 AACATCGAATGCATTTGATGCATCGATGCACCA-GCCATGCATCGATGCACACTGGCTATTT-TG
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATGCACACAGGAT-TTTATG
3383229 A
65 A
* *
3383230 AACATCAAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
3383261 TCTTAGTGCA
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
64 31 0.37
65 48 0.57
66 5 0.06
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (65 bp):
AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATGCACACAGGATTTTATGA
Found at i:3383260 original size:17 final size:19
Alignment explanation
Indices: 3383238--3383280 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
3383228 GAAACATCAA
*
3383238 ATGCACT-TGA-TGCATCG
1 ATGCACTCTGAGTGCACCG
*
3383255 ATGCACTCTTAGTGCACCG
1 ATGCACTCTGAGTGCACCG
3383274 ATGCACT
1 ATGCACT
3383281 AAGGTTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (19 bp):
ATGCACTCTGAGTGCACCG
Found at i:3384101 original size:103 final size:103
Alignment explanation
Indices: 3383983--3384606 Score: 823
Period size: 103 Copynumber: 6.1 Consensus size: 103
3383973 AACTCAACAA
* * * * * * *
3383983 AAAAATTTATCTCACTGGAGATTGTTTTTCTTAAGATCAATTTAGTATCGCTTGAGATAGTTTTT
1 AAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTTC
* * *
3384048 CCTTAAAACATAAATTTAGAAATTGTTTCACTCGAAAC
66 CCTTGAAACACAAATTTTGAAATTGTTTCACTCGAAAC
* *
3384086 AAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTTGCTTGAGACA-ATTTC
1 AAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTTC
* * *
3384150 CCTTGAAGCACAAATTTTGAAATTGCTTCACTCGAAAT
66 CCTTGAAACACAAATTTTGAAATTGTTTCACTCGAAAC
* ** * * *
3384188 AAAAATTTATCACACTTGAGATTGTTTTTCTTAAAATTAATTTTGTCTCGCTTAAGACAATTTTC
1 AAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTTC
*
3384253 CCTTGAAACACAAATTTTGAAATTGTTTCACTCGAAAT
66 CCTTGAAACACAAATTTTGAAATTGTTTCACTCGAAAC
* * * * *
3384291 AAAAATTTCTCTCACTTGAGATTGTTTTTCTTAAAATCAATTTCATTTTGCTTGAGACAGTTTTC
1 AAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTTC
* *
3384356 CCTTGAAATACAAATTTTGAAATTGTTCCACTCGAAAC
66 CCTTGAAACACAAATTTTGAAATTGTTTCACTCGAAAC
* *
3384394 AAAAA-TTATCTCACTTGAGATTGTTTTT-TTAAAACCAATCTCGTCTCGTTTGAGACAG-TTTC
1 AAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTTC
* *
3384456 CCTTGAAGCGCAAATTTTGAAATTGTTTCACTCGAAAC
66 CCTTGAAACACAAATTTTGAAATTGTTTCACTCGAAAC
* * *
3384494 -AAAATTTATCTCACTTGAAATTG-TTTT-TTAAAACCAATTTCGTCTTGCTTGAGACAG-TATC
1 AAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTTC
* ** *
3384555 ACTTGAAATGCAAATTTTGAAATTGTTTCACTTGAAAC
66 CCTTGAAACACAAATTTTGAAATTGTTTCACTCGAAAC
*
3384593 AAAATTTTATCTCA
1 AAAAATTTATCTCA
3384607 TATAAGATAA
Statistics
Matches: 461, Mismatches: 57, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
99 72 0.16
100 67 0.15
101 24 0.05
102 110 0.24
103 188 0.41
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.39
Consensus pattern (103 bp):
AAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTTC
CCTTGAAACACAAATTTTGAAATTGTTTCACTCGAAAC
Found at i:3384344 original size:205 final size:203
Alignment explanation
Indices: 3383983--3384606 Score: 835
Period size: 205 Copynumber: 3.1 Consensus size: 203
3383973 AACTCAACAA
* * * * * *
3383983 AAAAATTTATCTCACTGGAGATTGTTTTTCTTAAGATCAATTTAGTATCGCTTGAGATAGTTTTT
1 AAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAATCAATTTAGTCTCGCTTGAGACAATTTTC
* * *
3384048 CCTTAAAACATAAATTTAGAAATTGTTTCACTCGAAACAAAAATTTATCTCACTTGAGATTGTTT
66 CCTTGAAACACAAATTTTGAAATTGTTTCACTCGAAA-AAAAATTTATCTCACTTGAGATTGTTT
**
3384113 TTCTTAAAACCAATTTCGTCTTGCTTGAGACAATTTCCCTTGAAGCACAAATTTTGAAATTGCTT
130 TTCTTAAAACCAATTTCGTCTTGCTTGAGACAATTTCCCTTGAAATACAAATTTTGAAATTG-TT
*
3384178 CACTCGAAAT
194 CACTCGAAAC
* * * *
3384188 AAAAATTTATCACACTTGAGATTGTTTTTCTTAAAATTAATTTTGTCTCGCTTAAGACAATTTTC
1 AAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAATCAATTTAGTCTCGCTTGAGACAATTTTC
*
3384253 CCTTGAAACACAAATTTTGAAATTGTTTCACTCGAAATAAAAATTTCTCTCACTTGAGATTGTTT
66 CCTTGAAACACAAATTTTGAAATTGTTTCACTCGAAA-AAAAATTTATCTCACTTGAGATTGTTT
* * * *
3384318 TTCTTAAAATCAATTTCATTTTGCTTGAGACAGTTTTCCCTTGAAATACAAATTTTGAAATTGTT
130 TTCTTAAAACCAATTTCGTCTTGCTTGAGACA-ATTTCCCTTGAAATACAAATTTTGAAATTGTT
3384383 CCACTCGAAAC
194 -CACTCGAAAC
* * * * *
3384394 AAAAA-TTATCTCACTTGAGATTGTTTTT-TTAAAACCAATCTCGTCTCGTTTGAGAC-AGTTTC
1 AAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAATCAATTTAGTCTCGCTTGAGACAATTTTC
* * * *
3384456 CCTTGAAGCGCAAATTTTGAAATTGTTTCACTCGAAACAAAATTTATCTCACTTGAAATTG-TTT
66 CCTTGAAACACAAATTTTGAAATTGTTTCACTCGAAAAAAAATTTATCTCACTTGAGATTGTTTT
* * * *
3384520 T-TTAAAACCAATTTCGTCTTGCTTGAGACAGTATCACTTGAAATGCAAATTTTGAAATTGTTTC
131 TCTTAAAACCAATTTCGTCTTGCTTGAGACAATTTCCCTTGAAATACAAATTTTGAAATTG-TTC
*
3384584 ACTTGAAAC
195 ACTCGAAAC
*
3384593 AAAATTTTATCTCA
1 AAAAATTTATCTCA
3384607 TATAAGATAA
Statistics
Matches: 371, Mismatches: 44, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
199 39 0.11
200 36 0.10
201 4 0.01
202 21 0.06
203 40 0.11
204 22 0.06
205 168 0.45
206 41 0.11
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.39
Consensus pattern (203 bp):
AAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAATCAATTTAGTCTCGCTTGAGACAATTTTC
CCTTGAAACACAAATTTTGAAATTGTTTCACTCGAAAAAAAATTTATCTCACTTGAGATTGTTTT
TCTTAAAACCAATTTCGTCTTGCTTGAGACAATTTCCCTTGAAATACAAATTTTGAAATTGTTCA
CTCGAAAC
Found at i:3385010 original size:44 final size:45
Alignment explanation
Indices: 3384946--3385068 Score: 142
Period size: 44 Copynumber: 2.8 Consensus size: 45
3384936 CACCCTTTTA
* *
3384946 CTCGATTCTATCACAGAAGGAGATAGATCAACATTAG-CATT-TTG
1 CTCGATTCCATCACAGAAGGAGGTAGATCAACATT-GTCATTCTTG
* *
3384990 TTCGATTCCATCACAGAAGGAGGTGGATCAACATTGTCATTCTTG
1 CTCGATTCCATCACAGAAGGAGGTAGATCAACATTGTCATTCTTG
* * ** *
3385035 CTAGATTTCATCGTAGAATGAGGTAGATCAACAT
1 CTCGATTCCATCACAGAAGGAGGTAGATCAACAT
3385069 AATCAAAGGA
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.02
44 35 0.53
45 30 0.45
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (45 bp):
CTCGATTCCATCACAGAAGGAGGTAGATCAACATTGTCATTCTTG
Found at i:3386970 original size:27 final size:29
Alignment explanation
Indices: 3386911--3386977 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
3386901 CTGTCTCTGG
*
3386911 TTTTAATATT-TTCTTATTTTGGCCCCAAT
1 TTTTAAT-TTATTCTTATTTTGGCCACAAT
*
3386940 TTTTAATTTATTCTTATTTTGGTCAC-AT
1 TTTTAATTTATTCTTATTTTGGCCACAAT
3386968 TTTT-ATTTAT
1 TTTTAATTTAT
3386978 GATTTGCCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 6 0.17
28 8 0.23
29 21 0.60
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.61
Consensus pattern (29 bp):
TTTTAATTTATTCTTATTTTGGCCACAAT
Found at i:3387468 original size:10 final size:10
Alignment explanation
Indices: 3387450--3387480 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
3387440 TCAACATTGC
3387450 ATTTCAATTT
1 ATTTCAATTT
*
3387460 ATTTTAATTT
1 ATTTCAATTT
3387470 ATTTCAATTT
1 ATTTCAATTT
3387480 A
1 A
3387481 GTCCCTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (10 bp):
ATTTCAATTT
Found at i:3388012 original size:19 final size:20
Alignment explanation
Indices: 3387983--3388025 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
3387973 GAGCAATACC
3387983 GATATTGTTCACATGGTACT
1 GATATTGTTCACATGGTACT
3388003 GATA-TGTTCACATGGTACT
1 GATATTGTTCACATGGTACT
3388022 GATA
1 GATA
3388026 CCAAAGGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (20 bp):
GATATTGTTCACATGGTACT
Done.