Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 137 of 190
Found at i:22155550 original size:24 final size:24
Alignment explanation
Indices: 22155497--22155568 Score: 87
Period size: 24 Copynumber: 3.0 Consensus size: 24
22155487 AAATCATTAA
22155497 ATATTAA-AAATAAAATAAAAAAT
1 ATATTAATAAATAAAATAAAAAAT
*
22155520 ATATTAATAAATAACAATAATAAAT
1 ATATTAATAAATAA-AATAAAAAAT
*
22155545 -TTTTAATAAAT-AAATAAATAAAT
1 ATATTAATAAATAAAATAAA-AAAT
22155568 A
1 A
22155569 ATATAAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
22 5 0.12
23 12 0.29
24 16 0.38
25 9 0.21
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (24 bp):
ATATTAATAAATAAAATAAAAAAT
Found at i:22155686 original size:13 final size:13
Alignment explanation
Indices: 22155668--22155742 Score: 64
Period size: 12 Copynumber: 5.8 Consensus size: 13
22155658 TAAATTCTTA
22155668 AAACCCTAAATTG
1 AAACCCTAAATTG
*
22155681 AAACCCTAAAAT-
1 AAACCCTAAATTG
* * *
22155693 AAAACCTAAGGTCG
1 AAACCCTAA-ATTG
*
22155707 AAACCTTAAA-TG
1 AAACCCTAAATTG
*
22155719 AAACCCTAAGATCG
1 AAACCCTAA-ATTG
22155733 AAACCCTAAA
1 AAACCCTAAA
22155743 ATCAAAATCG
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
12 17 0.36
13 13 0.28
14 17 0.36
ACGTcount: A:0.49, C:0.24, G:0.09, T:0.17
Consensus pattern (13 bp):
AAACCCTAAATTG
Found at i:22155696 original size:26 final size:27
Alignment explanation
Indices: 22155666--22155749 Score: 102
Period size: 26 Copynumber: 3.2 Consensus size: 27
22155656 CATAAATTCT
*
22155666 TAAAACCCTAA-ATTGAAACCCTAAAA
1 TAAAACCCTAAGATCGAAACCCTAAAA
* *
22155692 TAAAA-CCTAAGGTCGAAA-CCTTAAA
1 TAAAACCCTAAGATCGAAACCCTAAAA
*
22155717 TGAAACCCTAAGATCGAAACCCTAAAA
1 TAAAACCCTAAGATCGAAACCCTAAAA
22155744 TCAAAA
1 T-AAAA
22155750 TCGTAAGTGA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
25 15 0.32
26 22 0.47
27 7 0.15
28 3 0.06
ACGTcount: A:0.51, C:0.23, G:0.08, T:0.18
Consensus pattern (27 bp):
TAAAACCCTAAGATCGAAACCCTAAAA
Found at i:22155723 original size:12 final size:13
Alignment explanation
Indices: 22155668--22155742 Score: 66
Period size: 14 Copynumber: 5.8 Consensus size: 13
22155658 TAAATTCTTA
*
22155668 AAACCCTAAATTG
1 AAACCCTAAATCG
22155681 AAACCCTAAAAT--
1 AAACCCT-AAATCG
* *
22155693 AAAACCTAAGGTCG
1 AAACCCTAA-ATCG
*
22155707 AAACCTTAAAT-G
1 AAACCCTAAATCG
22155719 AAACCCTAAGATCG
1 AAACCCTAA-ATCG
22155733 AAACCCTAAA
1 AAACCCTAAA
22155743 ATCAAAATCG
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
11 2 0.04
12 16 0.32
13 11 0.22
14 21 0.42
ACGTcount: A:0.49, C:0.24, G:0.09, T:0.17
Consensus pattern (13 bp):
AAACCCTAAATCG
Found at i:22155762 original size:52 final size:51
Alignment explanation
Indices: 22155668--22155769 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 51
22155658 TAAATTCTTA
* *
22155668 AAACCCTAAATTGAAACCCTAAAATAAAACCTAAGGTCGAAACCTTAAATG
1 AAACCCTAAATCGAAACCCTAAAATAAAACCTAAGGTCGAAACCTGAAATG
*
22155719 AAACCCTAAGATCGAAACCCTAAAATCAAAATCGTAA-GT-GAAACCTGAAAT
1 AAACCCTAA-ATCGAAACCCTAAAAT-AAAA-CCTAAGGTCGAAACCTGAAAT
22155770 CCTAAATCCT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 9 0.20
52 26 0.58
53 6 0.13
54 4 0.09
ACGTcount: A:0.49, C:0.22, G:0.11, T:0.19
Consensus pattern (51 bp):
AAACCCTAAATCGAAACCCTAAAATAAAACCTAAGGTCGAAACCTGAAATG
Found at i:22160935 original size:25 final size:25
Alignment explanation
Indices: 22160894--22160951 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
22160884 GAAATGCCTT
*
22160894 AAAGAAAAACGAG-AAAAAAATGAA
1 AAAGAAAAACGAGAAAAAAAAGGAA
22160918 AAAGAAAAA-GAGACAAAAAAAAGGAA
1 AAAGAAAAACGAG--AAAAAAAAGGAA
22160944 AAAGAAAA
1 AAAGAAAA
22160952 GTTTAGAGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 3 0.10
24 9 0.30
26 18 0.60
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.02
Consensus pattern (25 bp):
AAAGAAAAACGAGAAAAAAAAGGAA
Found at i:22162175 original size:21 final size:21
Alignment explanation
Indices: 22162144--22162213 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
22162134 CCACTTAACG
*
22162144 AAAAAGGAAAAGAAGAAGT-AA
1 AAAAATGAAAAGAA-AAGTGAA
*
22162165 AAGAATGAAAAAGAAAAGTGAA
1 AAAAATG-AAAAGAAAAGTGAA
* *
22162187 AAAAATGAAAAAAAAAATGAA
1 AAAAATGAAAAGAAAAGTGAA
22162208 AGAAAA
1 A-AAAA
22162214 GAGGGAAAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 22 0.54
22 19 0.46
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (21 bp):
AAAAATGAAAAGAAAAGTGAA
Found at i:22162177 original size:22 final size:22
Alignment explanation
Indices: 22162151--22162213 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
22162141 ACGAAAAAGG
*
22162151 AAAAGAAGAAGT-AAAAGAATGA
1 AAAAGAA-AAGTGAAAAAAATGA
22162173 AAAAGAAAAGTGAAAAAAATGA
1 AAAAGAAAAGTGAAAAAAATGA
*
22162195 AAAA-AAAAATGAAAGAAAA
1 AAAAGAAAAGTGAAA-AAAA
22162214 GAGGGAAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.35
22 24 0.65
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (22 bp):
AAAAGAAAAGTGAAAAAAATGA
Found at i:22163609 original size:33 final size:33
Alignment explanation
Indices: 22163559--22163851 Score: 197
Period size: 33 Copynumber: 8.8 Consensus size: 33
22163549 TAAACCCAAC
*
22163559 TTAGTTAGCA-CTCAATGAAAATTTAAGCCTTGA
1 TTAGTTGGCACCT-AATGAAAATTTAAGCCTTGA
* * * *
22163592 TTATTTGGCACCTAATGAAAAATTTAAGTCATAA
1 TTAGTTGGCACCTAATG-AAAATTTAAGCCTTGA
*
22163626 TTTAGTTGGCACCCAATGAAAAATTTAAG-CTTAGA
1 -TTAGTTGGCACCTAATG-AAAATTTAAGCCTT-GA
* * *
22163661 TTA-TATGGCA-CTAATGAAAATTAAAGCCTAGT
1 TTAGT-TGGCACCTAATGAAAATTTAAGCCTTGA
** * * * * * *
22163693 TTAACTAGCACTTAATAAAAATTTAAACCTAGT
1 TTAGTTGGCACCTAATGAAAATTTAAGCCTTGA
* **
22163726 TTAGTTGGCA-CTAATGAAAATTTAA-ACTCAA
1 TTAGTTGGCACCTAATGAAAATTTAAGCCTTGA
* *
22163757 TTTAGTTGACACCTAATGAAAAATTTAAGCCTAGA
1 -TTAGTTGGCACCTAATG-AAAATTTAAGCCTTGA
* *
22163792 TTATTTGGCA-CTAATGAAAATTTAAG-CTTAGT
1 TTAGTTGGCACCTAATGAAAATTTAAGCCTT-GA
** * *
22163824 TTAACTAGCAACTAATGAAAATTTAAGC
1 TTAGTTGGCACCTAATGAAAATTTAAGC
22163852 TCAGATTAGC
Statistics
Matches: 206, Mismatches: 39, Indels: 29
0.75 0.14 0.11
Matches are distributed among these distances:
31 4 0.02
32 57 0.28
33 73 0.35
34 42 0.20
35 30 0.15
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (33 bp):
TTAGTTGGCACCTAATGAAAATTTAAGCCTTGA
Found at i:22163781 original size:99 final size:99
Alignment explanation
Indices: 22163671--22164046 Score: 249
Period size: 97 Copynumber: 3.8 Consensus size: 99
22163661 TTATATGGCA
* ** *
22163671 CTAATG-AAAATTAAAGCCTAGTTTAACTAGCACTTAATAAAAATTTAAACCTAGTTTAGTTGGC
1 CTAATGAAAAATTTAAGCCTAGTTTAACTAGCACTTAAT-AAAATTTAAACCTAGTTTAACTAGC
* *
22163735 -ACTAATGAAAATTTAAACTCA-ATTTAGTTGACAC
65 AACTAATGAAAATTTAAACTCAGA-TTAGCTAACAC
* ** * * *
22163769 CTAATGAAAAATTTAAGCCTAGATTATTTGGCAC-TAATGAAAATTTAAGCTTAGTTTAACTAGC
1 CTAATGAAAAATTTAAGCCTAGTTTAACTAGCACTTAAT-AAAATTTAAACCTAGTTTAACTAGC
*
22163833 AACTAATGAAAATTTAAGCTCAGATTAGCTAACAC
65 AACTAATGAAAATTTAAACTCAGATTAGCTAACAC
* * * * * * *
22163868 CTTATGCAAAGATTTAAG-CTCAGTTTAGCTAGCA-TCTAATGAAATTTAAACCCAATTTAAC-C
1 CTAATG-AAAAATTTAAGCCT-AGTTTAACTAGCACT-TAATAAAATTTAAACCTAGTTTAACTA
* * *
22163930 GACACCT-A--AAGATTTAAGCTCAG-TATA-CTTAACACC
63 G-CAACTAATGAAAATTTAAACTCAGAT-TAGC-TAACA-C
* * * * * * * *
22163966 CT-ATGAAAAGATTTAAGCCCAGATTATCTGGTAC-CAATAAAAATTTAAACCAAGTTTAGCTAG
1 CTAATGAAAA-ATTTAAGCCTAGTTTAACTAGCACTTAAT-AAAATTTAAACCTAGTTTAACTAG
* *
22164029 CATCTGATGAAAATTTAA
64 CAACTAATGAAAATTTAA
22164047 GTTTAGATTA
Statistics
Matches: 217, Mismatches: 42, Indels: 36
0.74 0.14 0.12
Matches are distributed among these distances:
96 8 0.04
97 61 0.28
98 36 0.17
99 60 0.28
100 48 0.22
101 4 0.02
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (99 bp):
CTAATGAAAAATTTAAGCCTAGTTTAACTAGCACTTAATAAAATTTAAACCTAGTTTAACTAGCA
ACTAATGAAAATTTAAACTCAGATTAGCTAACAC
Found at i:22163790 original size:66 final size:67
Alignment explanation
Indices: 22163559--22163859 Score: 300
Period size: 66 Copynumber: 4.6 Consensus size: 67
22163549 TAAACCCAAC
* *
22163559 TTAGTTAGCA-CTCAATG-AAAATTTAAGCCTTGATTATTTGGCACCTAATGAAAAATTT-AAGT
1 TTAGTTAGCACCT-AATGAAAAATTTAAGCCTAGATTATTTGGCA-CTAATG-AAAATTTAAACT
22163621 CATAAT
63 C-TAAT
* * * *
22163627 TTAGTTGGCACCCAATGAAAAATTTAAGCTTAGATTATATGGCACTAATGAAAA-TTAAAGC-CT
1 TTAGTTAGCACCTAATGAAAAATTTAAGCCTAGATTATTTGGCACTAATGAAAATTTAAA-CTCT
*
22163690 AGT
65 AAT
** * * * *
22163693 TTAACTAGCACTTAAT-AAAAATTTAAACCTAGTTTAGTTGGCACTAATGAAAATTTAAACTC-A
1 TTAGTTAGCACCTAATGAAAAATTTAAGCCTAGATTATTTGGCACTAATGAAAATTTAAACTCTA
22163756 AT
66 AT
*
22163758 TTAGTT-GACACCTAATGAAAAATTTAAGCCTAGATTATTTGGCACTAATGAAAATTTAAGCT-T
1 TTAGTTAG-CACCTAATGAAAAATTTAAGCCTAGATTATTTGGCACTAATGAAAATTTAAACTCT
*
22163821 AGT
65 AAT
** *
22163824 TTAACTAGCAACTAATG-AAAATTTAAG-CTCAGATTA
1 TTAGTTAGCACCTAATGAAAAATTTAAGCCT-AGATTA
22163860 GCTAACACCT
Statistics
Matches: 193, Mismatches: 29, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
64 3 0.02
65 62 0.32
66 77 0.40
67 8 0.04
68 19 0.10
69 24 0.12
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (67 bp):
TTAGTTAGCACCTAATGAAAAATTTAAGCCTAGATTATTTGGCACTAATGAAAATTTAAACTCTA
AT
Found at i:22163792 original size:131 final size:133
Alignment explanation
Indices: 22163564--22163849 Score: 400
Period size: 131 Copynumber: 2.2 Consensus size: 133
22163554 CCAACTTAGT
* * * * *
22163564 TAGCACTCAATGAAAATTTAAGCCTTGATTATTTGGCACCTAATGAAAAATTTAAGTCATAATTT
1 TAGCACTTAATGAAAATTTAAACCTAGATTAGTTGGCACCTAATGAAAAATTTAACTCA-AATTT
* *
22163629 AGTTGGCACCCAATGAAAAATTTAAGCTTAGATTATATGGCACTAATGAAAATTAAAGCCTAGTT
65 AGTTGACACCCAATGAAAAATTTAAGCCTAGATTATATGGCACTAATGAAAATTAAAGCCTAGTT
22163694 TAAC
130 TAAC
* *
22163698 TAGCACTTAATAAAAATTTAAACCTAGTTTAGTTGGCA-CTAATG-AAAATTTAAACTC-AATTT
1 TAGCACTTAATGAAAATTTAAACCTAGATTAGTTGGCACCTAATGAAAAATTT-AACTCAAATTT
* * * *
22163760 AGTTGACACCTAATGAAAAATTTAAGCCTAGATTATTTGGCACTAATGAAAATTTAAGCTTAGTT
65 AGTTGACACCCAATGAAAAATTTAAGCCTAGATTATATGGCACTAATGAAAATTAAAGCCTAGTT
22163825 TAAC
130 TAAC
22163829 TAGCAAC-TAATGAAAATTTAA
1 TAGC-ACTTAATGAAAATTTAA
22163850 GCTCAGATTA
Statistics
Matches: 136, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
131 85 0.62
132 9 0.07
133 10 0.07
134 32 0.24
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (133 bp):
TAGCACTTAATGAAAATTTAAACCTAGATTAGTTGGCACCTAATGAAAAATTTAACTCAAATTTA
GTTGACACCCAATGAAAAATTTAAGCCTAGATTATATGGCACTAATGAAAATTAAAGCCTAGTTT
AAC
Found at i:22163852 original size:33 final size:32
Alignment explanation
Indices: 22163564--22163916 Score: 192
Period size: 33 Copynumber: 10.6 Consensus size: 32
22163554 CCAACTTAGT
* **
22163564 TAGCACTCAATGAAAATTTAAGCCTT-GATTATT
1 TAGCACT-AATGAAAATTTAAG-CTTAGTTTAAC
* * * **
22163597 TGGCACCTAATGAAAAATTTAAGTCATAATTTAGT
1 TAGCA-CTAATG-AAAATTTAAG-CTTAGTTTAAC
* * *
22163632 TGGCACCCAATGAAAAATTTAAGCTTAGATTATA-
1 TAGCA-CTAATG-AAAATTTAAGCTTAGTTTA-AC
* * *
22163666 TGGCACTAATGAAAATTAAAGCCTAGTTTAAC
1 TAGCACTAATGAAAATTTAAGCTTAGTTTAAC
* * * **
22163698 TAGCACTTAATAAAAATTTAAACCTAGTTTAGT
1 TAGCAC-TAATGAAAATTTAAGCTTAGTTTAAC
* * * * *
22163731 TGGCACTAATGAAAATTTAAACTCAATTT-AG
1 TAGCACTAATGAAAATTTAAGCTTAGTTTAAC
* * * **
22163762 TTGACACCTAATGAAAAATTTAAGCCTAGATTATT
1 TAG-CA-CTAATG-AAAATTTAAGCTTAGTTTAAC
*
22163797 TGGCACTAATGAAAATTTAAGCTTAGTTTAAC
1 TAGCACTAATGAAAATTTAAGCTTAGTTTAAC
* * *
22163829 TAGCAACTAATGAAAATTTAAGCTCAGATTAGC
1 TAGC-ACTAATGAAAATTTAAGCTTAGTTTAAC
* * * *
22163862 TAACACCTTATGCAAAGATTTAAGCTCAGTTTAGC
1 TAGCA-CTAATG-AAA-ATTTAAGCTTAGTTTAAC
22163897 TAGCATCTAATG-AAATTTAA
1 TAGCA-CTAATGAAAATTTAA
22163917 ACCCAATTTA
Statistics
Matches: 255, Mismatches: 51, Indels: 29
0.76 0.15 0.09
Matches are distributed among these distances:
31 3 0.01
32 69 0.27
33 86 0.34
34 43 0.17
35 54 0.21
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (32 bp):
TAGCACTAATGAAAATTTAAGCTTAGTTTAAC
Found at i:22166561 original size:3 final size:3
Alignment explanation
Indices: 22166553--22166577 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22166543 GAATAAAAAG
22166553 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
22166578 GCTTTTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:22166889 original size:27 final size:26
Alignment explanation
Indices: 22166847--22166919 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 26
22166837 AAAGTGATTT
*
22166847 ATAAATTCCTAAAACCCTAAATTGAAATC
1 ATAAATT--TAAAACCCTAAA-TGAAACC
22166876 ATAAATTTAAAACCCTAAATGAAACC
1 ATAAATTTAAAACCCTAAATGAAACC
* * *
22166902 CTAAAGTCAAAACCCTAA
1 ATAAATTTAAAACCCTAA
22166920 GATCGAAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
26 21 0.52
27 12 0.30
29 7 0.17
ACGTcount: A:0.51, C:0.22, G:0.04, T:0.23
Consensus pattern (26 bp):
ATAAATTTAAAACCCTAAATGAAACC
Found at i:22166902 original size:12 final size:13
Alignment explanation
Indices: 22166885--22166946 Score: 65
Period size: 12 Copynumber: 4.8 Consensus size: 13
22166875 CATAAATTTA
22166885 AAACCCTAAAT-G
1 AAACCCTAAATCG
*
22166897 AAACCCTAAAGTCA
1 AAACCCTAAA-TCG
22166911 AAACCCTAAGATCG
1 AAACCCTAA-ATCG
*
22166925 AAAACCTAAAT-G
1 AAACCCTAAATCG
*
22166937 AAACCTTAAA
1 AAACCCTAAA
22166947 ATCAAAATCC
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
12 19 0.45
13 3 0.07
14 19 0.45
15 1 0.02
ACGTcount: A:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (13 bp):
AAACCCTAAATCG
Found at i:22166906 original size:26 final size:26
Alignment explanation
Indices: 22166856--22166935 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
22166846 TATAAATTCC
* *
22166856 TAAAACCCTAAATTGAAATCATAAATT
1 TAAAACCCTAAA-TGAAAACCTAAATT
* *
22166883 TAAAACCCTAAATGAAACCCTAAAGT
1 TAAAACCCTAAATGAAAACCTAAATT
*
22166909 CAAAACCCTAAGATCGAAAACCTAAAT
1 TAAAACCCTAA-AT-GAAAACCTAAAT
22166936 GAAACCTTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 21 0.47
27 14 0.31
28 10 0.22
ACGTcount: A:0.51, C:0.21, G:0.06, T:0.21
Consensus pattern (26 bp):
TAAAACCCTAAATGAAAACCTAAATT
Found at i:22166914 original size:14 final size:12
Alignment explanation
Indices: 22166883--22166966 Score: 53
Period size: 14 Copynumber: 6.5 Consensus size: 12
22166873 ATCATAAATT
22166883 TAAAACCCTAAA
1 TAAAACCCTAAA
*
22166895 TGAAACCCTAAA
1 TAAAACCCTAAA
22166907 GTCAAAACCCTAAGA
1 -T-AAAACCCTAA-A
22166922 TCGAAAA-CCTAAA
1 T--AAAACCCTAAA
* *
22166935 TGAAACCTTAAAA
1 TAAAACCCT-AAA
* *
22166948 TCAAAATCCTAAG
1 T-AAAACCCTAAA
22166961 TAAAAC
1 TAAAAC
22166967 TCGAAACTCT
Statistics
Matches: 55, Mismatches: 10, Indels: 14
0.70 0.13 0.18
Matches are distributed among these distances:
11 3 0.05
12 17 0.31
13 10 0.18
14 20 0.36
15 5 0.09
ACGTcount: A:0.52, C:0.23, G:0.07, T:0.18
Consensus pattern (12 bp):
TAAAACCCTAAA
Found at i:22166938 original size:40 final size:41
Alignment explanation
Indices: 22166884--22166960 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 41
22166874 TCATAAATTT
*
22166884 AAAACCCTAAATGAAACCCTAAAGTCAAAACCCTAAGATCG
1 AAAACCCTAAATGAAACCCTAAAATCAAAACCCTAAGATCG
* *
22166925 AAAA-CCTAAATGAAACCTTAAAATCAAAATCCTAAG
1 AAAACCCTAAATGAAACCCTAAAATCAAAACCCTAAG
22166961 TAAAACTCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 29 0.88
41 4 0.12
ACGTcount: A:0.52, C:0.23, G:0.08, T:0.17
Consensus pattern (41 bp):
AAAACCCTAAATGAAACCCTAAAATCAAAACCCTAAGATCG
Found at i:22166966 original size:26 final size:26
Alignment explanation
Indices: 22166883--22166984 Score: 75
Period size: 26 Copynumber: 3.9 Consensus size: 26
22166873 ATCATAAATT
*
22166883 TAAAACCCT-AAAT-GAAACCCTAAAG
1 TAAAACCCTAAAATCGAAAACCT-AAG
* *
22166908 TCAAAACCCTAAGATCGAAAACCTAAA
1 T-AAAACCCTAAAATCGAAAACCTAAG
* *
22166935 TGAAACCTTAAAATC-AAAATCCTAAG
1 TAAAACCCTAAAATCGAAAA-CCTAAG
* * * *
22166961 TAAAACTCGAAACTCTAAAACCTA
1 TAAAACCCTAAAATCGAAAACCTA
22166985 GGCAGAATCA
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
25 5 0.08
26 38 0.63
27 10 0.17
28 7 0.12
ACGTcount: A:0.51, C:0.24, G:0.07, T:0.19
Consensus pattern (26 bp):
TAAAACCCTAAAATCGAAAACCTAAG
Found at i:22172509 original size:126 final size:126
Alignment explanation
Indices: 22172284--22172538 Score: 501
Period size: 126 Copynumber: 2.0 Consensus size: 126
22172274 TTTGTAATAC
22172284 CTACAAGTGCATAAATTGTAATCAAATAATAGTAGTGAGTAAGTAGAGTATCATCCCATGAAGAT
1 CTACAAGTGCATAAATTGTAATCAAATAATAGTAGTGAGTAAGTAGAGTATCATCCCATGAAGAT
22172349 TATATAATTGAATTGTTAGATATAATCAAGTACCAAAGAAGATAAACTACTAGCCTTATAT
66 TATATAATTGAATTGTTAGATATAATCAAGTACCAAAGAAGATAAACTACTAGCCTTATAT
22172410 CTACAAGTGCATAAATTGTAATCAAATAATAGTAGTGAGTAAGTAGAGTATCATCCCATGAAGAT
1 CTACAAGTGCATAAATTGTAATCAAATAATAGTAGTGAGTAAGTAGAGTATCATCCCATGAAGAT
*
22172475 TATATAATTGAATTGTTAGATATAATCAAGTACCAAAGATGATAAACTACTAGCCTTATAT
66 TATATAATTGAATTGTTAGATATAATCAAGTACCAAAGAAGATAAACTACTAGCCTTATAT
22172536 CTA
1 CTA
22172539 AACTAGTGAA
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 128 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (126 bp):
CTACAAGTGCATAAATTGTAATCAAATAATAGTAGTGAGTAAGTAGAGTATCATCCCATGAAGAT
TATATAATTGAATTGTTAGATATAATCAAGTACCAAAGAAGATAAACTACTAGCCTTATAT
Found at i:22175787 original size:610 final size:609
Alignment explanation
Indices: 22174612--22175825 Score: 1930
Period size: 610 Copynumber: 2.0 Consensus size: 609
22174602 AATAAAATAC
* * ** * *
22174612 TAGAGTAGAGGATCAAACATAAAAATTTATAAAAGTTTGGTCCTTTTCTAAAGATACCTACATCT
1 TAGAGCAGAGGATCAAACACAAAAATTTATAAAAGTTCAGTCCTTTTCTAAAGACACCTACATCC
* *
22174677 TTTCTCTTAGCTTCCCAAGGTAAGAATCCAAATTCACAAATTCTTAAAATTTTTTAAAACTACTT
66 TCTCTCTTAGCTTCCCAAGGTAAGAATCCAAATTCACAAATTCTTAAAATTCTTTAAAACTACTT
* *
22174742 TTCAAGGCTAAAGTACAACCTTCTACTCCTTATCTTTCTAAACTAAGATAACAACCTCTAATTCC
131 TTCAAGGCTAAAGTACAACCTTCCACTCCATATCTTTCTAAACTAAGATAACAACCTCTAATTCC
*
22174807 CAACCTTTCTAAGCTAAGGTAATAACCTCTAACCACTCAAATGAGTTTCTATAAAAACTCTCAAA
196 CAACCTTTCTAAGCTAAGGTAACAACCTCTAACCACTCAAATGAGTTTCTATAAAAACTCTCAAA
* *
22174872 ATCATTCAAAAGAATACCTTATCTCTTGATCAGAATTAAGCTTTAATGTATTGAAAACTAAAAAA
261 ATCATTCAAAAGAATACCTTATCTCTTGATCAAAATTAAGCTCTAATGTATTGAAAACTAAAAAA
* *
22174937 ACCTTTCAAAGGTTTAGTTTTTACCTAATGAAGCATAAATAAGAGATTAAATGATTTGGATACAA
326 ACCTTTCAAAGGTTTAGTTTTTACCTAATGAAGCACAAATAAGAGACTAAATGATTTGGATACAA
* * *
22175002 CATATACAAAGATATGGAATTTAAGTTCTAAATTATTTTTTGCTCTTGATCTTCTTAGAGAATTT
391 CATATACAAAGATATGGAATTTAAGTTCTAAATTATTTGTTGCTCTTAATCTTCATAGAGAATTT
* * *
22175067 TGAAAATATGGCTTCATGAACTTTCTCCCATCTTTATCTTTTCTTTATAGGTGTTGAAAGACTTT
456 TGAAAATATGGCTTCATGAACTTTCTCCCATATTTATCTTTTCTTCACAGGTGTTGAAAGACTTT
*
22175132 CTTATATATGATAACTATACAAAATAAAGTTATTTTCAGTGTTTAAATGATTTATTTTTGCTTAG
521 CTTATATATGATAACTATACAAAATAAAGTTATTTTCAATGTTTAAATGATTTATTTTTGCTTAG
22175197 TTCTTACCTAAATAATGTTCTTCG
586 TTCTTACCTAAATAATGTTCTTCG
* * * * *
22175221 TAGAGCAGAGAGATCAAATACAAAGATTTATAAAGGTTCAGTCCCTTTTC-AAAGGCATCTACAT
1 TAGAGCAGAG-GATCAAACACAAAAATTTATAAAAGTTCAGT-CCTTTTCTAAAGACACCTACAT
* *
22175285 CCTCTCTCTTAGCTTTCCAAGTTAAGAATCCAAATTCACAAATTCTTAAAATTCTTTAAAACTAC
64 CCTCTCTCTTAGCTTCCCAAGGTAAGAATCCAAATTCACAAATTCTTAAAATTCTTTAAAACTAC
* * *
22175350 TTTTCAAGGCTAAAGTACAACCTTCCACTCCATATCTTTCTAGATTAAGATAGCAACCTCTAATT
129 TTTTCAAGGCTAAAGTACAACCTTCCACTCCATATCTTTCTAAACTAAGATAACAACCTCTAATT
* *
22175415 CCCAACCTTTCTAAGCTAAGGTAACAACCTCTAACCACTCGAATGAGTTTCTATAAAAACTTTCA
194 CCCAACCTTTCTAAGCTAAGGTAACAACCTCTAACCACTCAAATGAGTTTCTATAAAAACTCTCA
* * * *
22175480 AAATCATTCAAAAGAATACCTTATCTCTTTATTAAAATTAAGCTCTAATGTTTTGTAAACT-AAA
259 AAATCATTCAAAAGAATACCTTATCTCTTGATCAAAATTAAGCTCTAATGTATTGAAAACTAAAA
* * * *
22175544 ACACCTTTCAAAGGTTTAGTTTTTGCCTAATGAAGTACAAATGAGAGACTAAATGATTTGGATAC
324 AAACCTTTCAAAGGTTTAGTTTTTACCTAATGAAGCACAAATAAGAGACTAAATGATTTGGATAC
* *
22175609 AACATATACGAAGAATATGGAATTTAAGTTCTAAATTATTTGTTGCTCTTAATTTTCATAGAGAA
389 AACATATACAAAG-ATATGGAATTTAAGTTCTAAATTATTTGTTGCTCTTAATCTTCATAGAGAA
* * *
22175674 TTTTGAAAATATGGCTTTATGAACTTTC-CCTCATATTTCTCTTTTCTTCACGGGTGTTGAAAGA
453 TTTTGAAAATATGGCTTCATGAACTTTCTCC-CATATTTATCTTTTCTTCACAGGTGTTGAAAGA
* *
22175738 CTTTTTTATATATGATAACTATATAAAATAAAGTTATTTTCAATGTTTAAATGATTTATTTTTGC
517 CTTTCTTATATATGATAACTATACAAAATAAAGTTATTTTCAATGTTTAAATGATTTATTTTTGC
22175803 TTAGTTCTTACCTAAATAATGTT
582 TTAGTTCTTACCTAAATAATGTT
22175826 ATTTTTACTC
Statistics
Matches: 552, Mismatches: 49, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
609 85 0.15
610 460 0.83
611 7 0.01
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (609 bp):
TAGAGCAGAGGATCAAACACAAAAATTTATAAAAGTTCAGTCCTTTTCTAAAGACACCTACATCC
TCTCTCTTAGCTTCCCAAGGTAAGAATCCAAATTCACAAATTCTTAAAATTCTTTAAAACTACTT
TTCAAGGCTAAAGTACAACCTTCCACTCCATATCTTTCTAAACTAAGATAACAACCTCTAATTCC
CAACCTTTCTAAGCTAAGGTAACAACCTCTAACCACTCAAATGAGTTTCTATAAAAACTCTCAAA
ATCATTCAAAAGAATACCTTATCTCTTGATCAAAATTAAGCTCTAATGTATTGAAAACTAAAAAA
ACCTTTCAAAGGTTTAGTTTTTACCTAATGAAGCACAAATAAGAGACTAAATGATTTGGATACAA
CATATACAAAGATATGGAATTTAAGTTCTAAATTATTTGTTGCTCTTAATCTTCATAGAGAATTT
TGAAAATATGGCTTCATGAACTTTCTCCCATATTTATCTTTTCTTCACAGGTGTTGAAAGACTTT
CTTATATATGATAACTATACAAAATAAAGTTATTTTCAATGTTTAAATGATTTATTTTTGCTTAG
TTCTTACCTAAATAATGTTCTTCG
Found at i:22177933 original size:30 final size:26
Alignment explanation
Indices: 22177897--22177956 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
22177887 AATTGAACTA
22177897 GGTTAATTACATGTTGTCAAGTTTTAGTTT
1 GGTTAATTACATG-T-T-AAG-TTTAGTTT
*
22177927 GGTTAATTAGATGTTAAGTTTAGTTT
1 GGTTAATTACATGTTAAGTTTAGTTT
22177953 GGTT
1 GGTT
22177957 CAATCTTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 12 0.41
27 3 0.10
28 1 0.03
29 1 0.03
30 12 0.41
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.50
Consensus pattern (26 bp):
GGTTAATTACATGTTAAGTTTAGTTT
Found at i:22181355 original size:18 final size:20
Alignment explanation
Indices: 22181334--22181371 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
22181324 TGTATGTTGA
*
22181334 TAAT-ATTTT-GCTTGTTAC
1 TAATGATTTTAGCTTATTAC
22181352 TAATGATTTTAGCTTATTAC
1 TAATGATTTTAGCTTATTAC
22181372 ATAAGACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.53
Consensus pattern (20 bp):
TAATGATTTTAGCTTATTAC
Found at i:22189905 original size:21 final size:19
Alignment explanation
Indices: 22189879--22189917 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
22189869 TGACTTGACT
22189879 TAAAATATTATTATATTAATA
1 TAAAATATT-TTAT-TTAATA
22189900 TAAAATATTTTATTTAAT
1 TAAAATATTTTATTTAAT
22189918 TTTACTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 4 0.22
21 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TAAAATATTTTATTTAATA
Found at i:22190160 original size:31 final size:30
Alignment explanation
Indices: 22190057--22190169 Score: 81
Period size: 31 Copynumber: 3.7 Consensus size: 30
22190047 TTATTATATT
* * * *
22190057 AATAAAAATATTTTATTTAGTTTT-AATTAA
1 AATATAAATATTTTGTATA-TTTTAAATTTA
*
22190087 AATATTAAA-AGTTTTG-ATATTTTAATTTTA
1 AATA-TAAATA-TTTTGTATATTTTAAATTTA
***
22190117 AATATTTCTATTTTGTATATTATTAAATTTA
1 AATATAAATATTTTGTATATT-TTAAATTTA
22190148 AATATAAATATTTT-TAATATTT
1 AATATAAATATTTTGT-ATATTT
22190170 CAATATGGAA
Statistics
Matches: 64, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
29 10 0.16
30 23 0.36
31 31 0.48
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.54
Consensus pattern (30 bp):
AATATAAATATTTTGTATATTTTAAATTTA
Found at i:22190164 original size:22 final size:23
Alignment explanation
Indices: 22190133--22190175 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
22190123 TCTATTTTGT
22190133 ATATTATTAA-ATTTAAATATAA
1 ATATTATTAATATTTAAATATAA
* *
22190155 ATATTTTTAATATTTCAATAT
1 ATATTATTAATATTTAAATAT
22190176 GGAATAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
ATATTATTAATATTTAAATATAA
Found at i:22190276 original size:20 final size:20
Alignment explanation
Indices: 22190230--22190304 Score: 60
Period size: 20 Copynumber: 3.5 Consensus size: 20
22190220 AATATAGTAT
22190230 TAATATTCATAAAATATTAATATTA
1 TAATATT-A-AAAATA-TAA-A-TA
* * *
22190255 TAATTTTAATAATGTAAATA
1 TAATATTAAAAATATAAATA
22190275 TAATATTAAAAATATAAATAA
1 TAATATTAAAAATATAAAT-A
*
22190296 TAGTATTAA
1 TAATATTAA
22190305 TATTATATTA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 18 0.43
21 10 0.24
22 3 0.07
23 4 0.10
24 1 0.02
25 6 0.14
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (20 bp):
TAATATTAAAAATATAAATA
Found at i:22198359 original size:8 final size:9
Alignment explanation
Indices: 22198340--22198370 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22198330 CTAATTTTTC
*
22198340 AAATTTTAA
1 AAATTATAA
22198349 AAATTATAA
1 AAATTATAA
22198358 AAATTATAA
1 AAATTATAA
22198367 AAAT
1 AAAT
22198371 CTAATAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
AAATTATAA
Found at i:22198914 original size:18 final size:18
Alignment explanation
Indices: 22198855--22198929 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 18
22198845 TTTTCAATTA
* *
22198855 ATTATTGATTTATTATTACT
1 ATTATT-ATTT-TTAATAAT
*
22198875 ATTGTTATTTTTAATAA-
1 ATTATTATTTTTAATAAT
*
22198892 A-TATTATTTTTTATAAT
1 ATTATTATTTTTAATAAT
**
22198909 ATTATTAAATTTAATAAT
1 ATTATTATTTTTAATAAT
22198927 ATT
1 ATT
22198930 TTTTATAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
16 13 0.29
17 2 0.04
18 21 0.47
19 4 0.09
20 5 0.11
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (18 bp):
ATTATTATTTTTAATAAT
Found at i:22199109 original size:3 final size:3
Alignment explanation
Indices: 22199101--22199135 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
22199091 TTAAAATTTT
22199101 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
22199136 TATTATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:22199140 original size:3 final size:3
Alignment explanation
Indices: 22199134--22199177 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
22199124 AATAATAATA
22199134 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
22199178 AAAAGAGGAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:22201294 original size:40 final size:40
Alignment explanation
Indices: 22201250--22201331 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
22201240 AATTGGTGGA
* *
22201250 TAATAAATCAAATAATTGCTATTATCAGAAACATGGGCAG
1 TAATAAATCAAATAATTGCTATTATAAAAAACATGGGCAG
22201290 TAATAAATCAAATAATTGCTATTATAAAAAACATGGGCAG
1 TAATAAATCAAATAATTGCTATTATAAAAAACATGGGCAG
22201330 TA
1 TA
22201332 TAACATGTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.28
Consensus pattern (40 bp):
TAATAAATCAAATAATTGCTATTATAAAAAACATGGGCAG
Found at i:22206009 original size:18 final size:17
Alignment explanation
Indices: 22205986--22206023 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
22205976 AAAGCCAAAA
*
22205986 TTTTTTTCT-ATTATTT
1 TTTTTTTTTAATTATTT
22206002 CTTTTTTTTTAATTATTT
1 -TTTTTTTTTAATTATTT
22206020 TTTT
1 TTTT
22206024 CTAACATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTAATTATTT
Found at i:22206762 original size:54 final size:54
Alignment explanation
Indices: 22206687--22206901 Score: 156
Period size: 54 Copynumber: 4.0 Consensus size: 54
22206677 ACGAAAAAAA
* * * * *
22206687 TTTTACAAAAACTATATTTTTTAAAATGGAAATGTGGTTTTTAATTAAAAAATT
1 TTTTACAAAGACTATATTTTTTAAAATGAAAACGTGATCTTTAATTAAAAAATT
* * * * *
22206741 TTTTACAAAGACTACT-TTTTTT--ACTGTAGAAATGTAATCTTTGATGAAAAAA--
1 TTTTACAAAGACTA-TATTTTTTAAAATG-A-AAACGTGATCTTTAATTAAAAAATT
* * * * *
22206793 -ATTAGAAAGACTACATTTTTTAAAGTGAAAACGTGGTCTTTAATTGATAAAAATT
1 TTTTACAAAGACTATATTTTTTAAAATGAAAACGTGATCTTTAATT-A-AAAAATT
* * *
22206848 ATTGTACACAA-ACTATAGTTTTTAAAATGAAAACGTGATTTTTAATTAAAAAAT
1 -TTTTACA-AAGACTATATTTTTTAAAATGAAAACGTGATCTTTAATTAAAAAAT
22206902 AGCTTACCAA
Statistics
Matches: 123, Mismatches: 25, Indels: 25
0.71 0.14 0.14
Matches are distributed among these distances:
51 29 0.24
52 5 0.04
53 8 0.07
54 37 0.30
55 7 0.06
56 1 0.01
57 34 0.28
58 2 0.02
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (54 bp):
TTTTACAAAGACTATATTTTTTAAAATGAAAACGTGATCTTTAATTAAAAAATT
Found at i:22206790 original size:107 final size:106
Alignment explanation
Indices: 22206580--22206871 Score: 290
Period size: 107 Copynumber: 2.7 Consensus size: 106
22206570 GAAAACATTT
* * * *
22206580 TTACAAAAACTACATTTTTTAAAGT-AAAAGGAT-ATCATTTAATTGAAAAAAATAATTTACAAA
1 TTACAAAAACTACATTTTTTAAAATGAAAACG-TGGTC-TTTAATTG-AAAAAATTATTTACAAA
* *
22206643 GACTATGTCTTTTATTGTAGAAATGTAGTCTCTCACGAAAAAAA
63 GACTATGTCTTTTACTGTAGAAATGTAATCTCTCACGAAAAAAA
* * * * *
22206687 TTTTACAAAAACTATATTTTTTAAAATGGAAATGTGGTTTTTAATT-AAAAAATTTTTTACAAAG
1 --TTACAAAAACTACATTTTTTAAAATGAAAACGTGGTCTTTAATTGAAAAAATTATTTACAAAG
* * * *
22206751 ACTACT-TTTTTTACTGTAGAAATGTAATCTTTGATGAAAAAAA
64 ACTA-TGTCTTTTACTGTAGAAATGTAATCTCTCACGAAAAAAA
* * *
22206794 TTAGAAAGACTACATTTTTTAAAGTGAAAACGTGGTCTTTAATTGATAAAAATTATTGTACACAA
1 TTACAAAAACTACATTTTTTAAAATGAAAACGTGGTCTTTAATTGA-AAAAATTATT-TACA-AA
22206859 -ACTATAGT-TTTTA
63 GACTAT-GTCTTTTA
22206872 AAATGAAAAC
Statistics
Matches: 152, Mismatches: 22, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
105 37 0.24
106 1 0.01
107 61 0.40
108 14 0.09
109 34 0.22
110 5 0.03
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (106 bp):
TTACAAAAACTACATTTTTTAAAATGAAAACGTGGTCTTTAATTGAAAAAATTATTTACAAAGAC
TATGTCTTTTACTGTAGAAATGTAATCTCTCACGAAAAAAA
Found at i:22209220 original size:19 final size:19
Alignment explanation
Indices: 22209196--22209235 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
22209186 TAAGTTATGC
22209196 TTTCAAAATATGATATTGT
1 TTTCAAAATATGATATTGT
22209215 TTTCAAAATATGATATTGT
1 TTTCAAAATATGATATTGT
22209234 TT
1 TT
22209236 ATGTGACTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (19 bp):
TTTCAAAATATGATATTGT
Found at i:22212004 original size:49 final size:49
Alignment explanation
Indices: 22211951--22212050 Score: 132
Period size: 49 Copynumber: 2.0 Consensus size: 49
22211941 ATGCTTAAAA
*
22211951 GAGCTTTTTTCAA-AT-AAGATTTTTAAAGTTGTTGAACCTTTACTTAGAG
1 GAGC-TTTTTCAAGATGAA-ATTTTTAAAGTTGTTGAACCTCTACTTAGAG
* * *
22212000 GAGCTTTTTCAAGTTGAAATTTTTAAAGTTGTTGAGCCTCTATTTAGAG
1 GAGCTTTTTCAAGATGAAATTTTTAAAGTTGTTGAACCTCTACTTAGAG
22212049 GA
1 GA
22212051 AAGTAGATGA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
48 8 0.18
49 35 0.78
50 2 0.04
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (49 bp):
GAGCTTTTTCAAGATGAAATTTTTAAAGTTGTTGAACCTCTACTTAGAG
Found at i:22212067 original size:59 final size:59
Alignment explanation
Indices: 22211995--22212107 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 59
22211985 AACCTTTACT
* * *
22211995 TAGAGGAGCTTTTTCAAGTTGAA-ATTTTTAAAGTTGTTGAGCCTCTAT-TTAGAGGAAAG
1 TAGAGGAGCTTTTTCAAGAT-AAGATTTTTAAAGGTATTGAGCCTCT-TCTTAGAGGAAAG
* *
22212054 TAGATGAGCTTTTTTAAGATAAGATTTTTAAAGGTATTGAGCCTCTTCTTAGAG
1 TAGAGGAGCTTTTTCAAGATAAGATTTTTAAAGGTATTGAGCCTCTTCTTAGAG
22212108 AAGCTTTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 3 0.06
59 44 0.94
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (59 bp):
TAGAGGAGCTTTTTCAAGATAAGATTTTTAAAGGTATTGAGCCTCTTCTTAGAGGAAAG
Found at i:22212132 original size:49 final size:50
Alignment explanation
Indices: 22212060--22212166 Score: 164
Period size: 49 Copynumber: 2.2 Consensus size: 50
22212050 AAAGTAGATG
**
22212060 AGCTTTTTTAAGATAAGATTTTTAAAGGTATTGAGCCTCTTCTTAG-AGA
1 AGCTTTTTTAAGATAAGATTTTTAAAGGTATTGAGCCTCTGATTAGAAGA
* *
22212109 AGCTTTTTTAAGATGAGATTTTTAAAGTTATTGAGCCTCTGATTAGAAGA
1 AGCTTTTTTAAGATAAGATTTTTAAAGGTATTGAGCCTCTGATTAGAAGA
22212159 A-CTTTTTT
1 AGCTTTTTT
22212167 TTCAAATGAG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
49 49 0.92
50 4 0.08
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (50 bp):
AGCTTTTTTAAGATAAGATTTTTAAAGGTATTGAGCCTCTGATTAGAAGA
Found at i:22212155 original size:108 final size:108
Alignment explanation
Indices: 22211951--22212148 Score: 292
Period size: 108 Copynumber: 1.8 Consensus size: 108
22211941 ATGCTTAAAA
* * * *
22211951 GAGCTTTTTTCAAATAAGATTTTTAAAGTTGTTGAACCTTTACTTAGAGGAGCTTTTTCAAGTTG
1 GAGCTTTTTTCAAATAAGATTTTTAAAGGTATTGAACCTTTACTTAGAGAAGCTTTTTCAAGATG
*
22212016 AAATTTTTAAAGTTGTTGAGCCTCTATTTAGAGGAAAGTAGAT
66 AAATTTTTAAAGTTATTGAGCCTCTATTTAGAGGAAAGTAGAT
* *
22212059 GAGCTTTTTT-AAGATAAGATTTTTAAAGGTATTGAGCCTCTT-CTTAGAGAAGCTTTTTTAAGA
1 GAGCTTTTTTCAA-ATAAGATTTTTAAAGGTATTGAACCT-TTACTTAGAGAAGCTTTTTCAAGA
*
22212122 TGAGATTTTTAAAGTTATTGAGCCTCT
64 TGAAATTTTTAAAGTTATTGAGCCTCT
22212149 GATTAGAAGA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 2 0.03
108 76 0.95
109 2 0.03
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (108 bp):
GAGCTTTTTTCAAATAAGATTTTTAAAGGTATTGAACCTTTACTTAGAGAAGCTTTTTCAAGATG
AAATTTTTAAAGTTATTGAGCCTCTATTTAGAGGAAAGTAGAT
Found at i:22212417 original size:3 final size:3
Alignment explanation
Indices: 22212409--22212487 Score: 87
Period size: 3 Copynumber: 28.0 Consensus size: 3
22212399 GTGTCTGAAA
* *
22212409 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TTT TCT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
22212456 T-T TAT T-T T-T TAT TAT TAT T-T TTT TCT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
22212488 CTTTTTTTTT
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
2 10 0.15
3 58 0.85
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (3 bp):
TAT
Found at i:22212504 original size:20 final size:17
Alignment explanation
Indices: 22212411--22212499 Score: 63
Period size: 18 Copynumber: 5.1 Consensus size: 17
22212401 GTCTGAAATA
* *
22212411 TTATTATTATTATTATTA
1 TTATTATTATT-TTTTTC
*
22212429 TTATTATTATTATTATT-
1 TTATTATTATT-TTTTTC
* * * *
22212446 ATATTTTTCTTTTATTTT
1 TTATTATTATTTT-TTTC
22212464 TTATTATTATTTTTTTC
1 TTATTATTATTTTTTTC
*
22212481 TTATTATCTTTTTTTTTC
1 TTATTAT-TATTTTTTTC
22212499 T
1 T
22212500 GTTATGATCA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
16 2 0.03
17 20 0.34
18 37 0.63
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTATTATTTTTTTC
Found at i:22212701 original size:23 final size:23
Alignment explanation
Indices: 22212652--22212701 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
22212642 ACGCCTATTG
**
22212652 AAAA-TCTAAGATTTGAATCTTA
1 AAAAGTCTAAGATTTGAATCCCA
* *
22212674 GAAAGTCTGAGATTTGAATCCCA
1 AAAAGTCTAAGATTTGAATCCCA
22212697 AAAAG
1 AAAAG
22212702 CTTTATAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (23 bp):
AAAAGTCTAAGATTTGAATCCCA
Found at i:22213512 original size:21 final size:21
Alignment explanation
Indices: 22213483--22213532 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
22213473 GATTTTTTGA
22213483 ATTATT-TTTT-AATATTATT
1 ATTATTATTTTAAATATTATT
* *
22213502 TTTATTATTTTAAATTTTATT
1 ATTATTATTTTAAATATTATT
*
22213523 ATTAGTATTT
1 ATTATTATTT
22213533 ATATATGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 5 0.20
20 4 0.16
21 16 0.64
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (21 bp):
ATTATTATTTTAAATATTATT
Found at i:22213883 original size:195 final size:193
Alignment explanation
Indices: 22213682--22214038 Score: 441
Period size: 195 Copynumber: 1.8 Consensus size: 193
22213672 AAAAAATCAT
* * * * *
22213682 AAAAAATATAAGAAAAAAATATTTTATTCGACGATGAGATTCA-AAGGTACTCCGAGTAGTGATA
1 AAAAAAAATAAGAAAAAAAAATTTTATTCGACGATGAGATT-AGAAAGTACTCCAAATAGTGATA
* * ** **
22213746 C-CAACAAAATCTCTGGGTGAGAAGATTTTTTTTAAATACTACCAGCGTATTGGAATATTTATAA
65 CTCAACAAAATCTCTAGGTAAGAAGATTTTTTAAAAATACTACCAGCGTATTAAAATATTTAT-A
22213810 AAAATTTTCAATACAATAAAAAATTT-TCTTTTCTTTGTTATAAAATTGATTAAAAATAAAGTGA
129 AAAATTTTCAATACAAT-AAAAATTTCTCTTTTCTTTGTTATAAAATTGATTAAAAATAAAGTGA
22213874 C
193 C
* * * * *
22213875 AAAAAAAATGAGAAAAAAAAATTTTATTCGAGGATGAGATTATGAAAGTATTTCAAATAGTGATG
1 AAAAAAAATAAGAAAAAAAAATTTTATTCGACGATGAGATTA-GAAAGTACTCCAAATAGTGATA
** * * *
22213940 CTTTACAAAATCTCTAGGTAAGAAGATTTTTTAAAAATATTATCAGTGTATTAAAATATTTATAA
65 CTCAACAAAATCTCTAGGTAAGAAGATTTTTTAAAAATACTACCAGCGTATTAAAATATTTATAA
** *
22214005 AAATTTTCAATATGATAAAATTTTCTCTTTTCTT
130 AAATTTTCAATACAATAAAAATTTCTCTTTTCTT
22214039 CATTAAAACA
Statistics
Matches: 136, Mismatches: 24, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
192 1 0.01
193 44 0.32
194 41 0.30
195 50 0.37
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (193 bp):
AAAAAAAATAAGAAAAAAAAATTTTATTCGACGATGAGATTAGAAAGTACTCCAAATAGTGATAC
TCAACAAAATCTCTAGGTAAGAAGATTTTTTAAAAATACTACCAGCGTATTAAAATATTTATAAA
AATTTTCAATACAATAAAAATTTCTCTTTTCTTTGTTATAAAATTGATTAAAAATAAAGTGAC
Found at i:22214868 original size:84 final size:84
Alignment explanation
Indices: 22214760--22214988 Score: 264
Period size: 86 Copynumber: 2.7 Consensus size: 84
22214750 ATATTTTTAT
* * *
22214760 AAAAGGATTTTTTAA-G-ATTTTTTTTATAAAAATACCTTAAATAATCTTTTTATAAAATTAGTA
1 AAAAGGATTATTTAAGGCTTTTTTTTTATAGAAATACCTTAAATAATCTTTTTATAAAATTAGTA
22214823 ACCCTAAACTCTAAACTATA
66 ACCCTAAACTCTAAACTA-A
* * * * * *
22214843 AAAAAGATTATTTAAGGCTTTTTTTTTTATTGAAACACCTTAAATAATCATTTTATAAAAATATT
1 AAAAGGATTATTTAAGGC-TTTTTTTTTATAGAAATACCTTAAATAATCTTTTTATAAAATTAGT
* * *
22214908 AACCCTAAACTTTAAAGTAG
65 AACCCTAAACTCTAAACTAA
* * * * *
22214928 AAAAGGATTATTTAAGCCGTTTTCTGTACAGAAATACCTTAAATAATCTTTTTATATAAAT
1 AAAAGGATTATTTAAGGCTTTTTTTTTATAGAAATACCTTAAATAATCTTTTTATA-AAAT
22214989 ATAAATAGAT
Statistics
Matches: 120, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
83 13 0.11
84 32 0.27
85 19 0.16
86 56 0.47
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (84 bp):
AAAAGGATTATTTAAGGCTTTTTTTTTATAGAAATACCTTAAATAATCTTTTTATAAAATTAGTA
ACCCTAAACTCTAAACTAA
Found at i:22217327 original size:21 final size:21
Alignment explanation
Indices: 22217303--22217345 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
22217293 TCATTTTCAG
22217303 TTTTAATGGCGCCTATGCATT
1 TTTTAATGGCGCCTATGCATT
*
22217324 TTTTAATGGCGCTTATGCATT
1 TTTTAATGGCGCCTATGCATT
22217345 T
1 T
22217346 AGTTTTCCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.47
Consensus pattern (21 bp):
TTTTAATGGCGCCTATGCATT
Found at i:22217778 original size:2 final size:2
Alignment explanation
Indices: 22217771--22217799 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22217761 ACATGCACGC
22217771 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22217800 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22217804 original size:2 final size:2
Alignment explanation
Indices: 22217799--22217829 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22217789 ATATATATAT
22217799 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
22217830 TTTATATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22219230 original size:14 final size:14
Alignment explanation
Indices: 22219208--22219241 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
22219198 GCCCAACAAA
*
22219208 TGGTATCAGAGCTG
1 TGGTGTCAGAGCTG
22219222 TGGTGTCAGAGCTG
1 TGGTGTCAGAGCTG
22219236 TGGTGT
1 TGGTGT
22219242 TCCCCAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.15, C:0.12, G:0.41, T:0.32
Consensus pattern (14 bp):
TGGTGTCAGAGCTG
Found at i:22220323 original size:25 final size:25
Alignment explanation
Indices: 22220295--22220354 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
22220285 AAGGCTTGAA
22220295 ACGTGGGAAGAG-TCAAAAGTTCAAG
1 ACGTGGGAAGAGCT-AAAAGTTCAAG
* *
22220320 ACGT-GGAAGAGCTGAAGGTTCAAG
1 ACGTGGGAAGAGCTAAAAGTTCAAG
*
22220344 ATGTGGGAAGA
1 ACGTGGGAAGA
22220355 ATATGGTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 19 0.63
25 11 0.37
ACGTcount: A:0.37, C:0.10, G:0.37, T:0.17
Consensus pattern (25 bp):
ACGTGGGAAGAGCTAAAAGTTCAAG
Found at i:22220740 original size:52 final size:52
Alignment explanation
Indices: 22220683--22220802 Score: 134
Period size: 52 Copynumber: 2.3 Consensus size: 52
22220673 CTGAGAATTT
* * * *
22220683 TTAATAGGTAAGTTTGATTTGA-AAGAGAAGAATTCTAAAAGGAAAAAGATTC
1 TTAATAGGCAAGTTTGACTT-ACAAGAAAAAAATTCTAAAAGGAAAAAGATTC
* * * * *
22220735 TTAATAGACAAGTTTGACTTACAGGAAAAAAATTCTAAGAGGAGAATGATTC
1 TTAATAGGCAAGTTTGACTTACAAGAAAAAAATTCTAAAAGGAAAAAGATTC
*
22220787 TTAATGGGCAAGTTTG
1 TTAATAGGCAAGTTTG
22220803 TATGGTTATA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
51 1 0.02
52 55 0.98
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (52 bp):
TTAATAGGCAAGTTTGACTTACAAGAAAAAAATTCTAAAAGGAAAAAGATTC
Found at i:22222773 original size:21 final size:22
Alignment explanation
Indices: 22222730--22222775 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
22222720 AAATCTCATA
22222730 AGAGATTTGTTTGAAATTTGTT
1 AGAGATTTGTTTGAAATTTGTT
22222752 AGAGATTTG-TT-AAATATTGTT
1 AGAGATTTGTTTGAAAT-TTGTT
22222773 AGA
1 AGA
22222776 TGTATAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.17
21 10 0.43
22 9 0.39
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.46
Consensus pattern (22 bp):
AGAGATTTGTTTGAAATTTGTT
Found at i:22222927 original size:52 final size:51
Alignment explanation
Indices: 22222801--22222931 Score: 158
Period size: 52 Copynumber: 2.5 Consensus size: 51
22222791 GCAAAAGAAG
22222801 AATTCTAAGAGAATGAAGATTCTTAATAGATAAGTTTGACTTACAAGAAAAA
1 AATTCTAAGAGAA-GAAGATTCTTAATAGATAAGTTTGACTTACAAGAAAAA
* * * *
22222853 AATTTTAAAAGAAAAAAAATTCTTAATATG-TAAGTTTGACTTAC-AGAAAAAA
1 AATTCTAAGAG-AAGAAGATTCTTAATA-GATAAGTTTGACTTACAAG-AAAAA
*
22222905 AATTCTAAGAGGAGAGAGATTCTTAAT
1 AATTCTAAGAGAAGA-AGATTCTTAAT
22222932 GGGTAAATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
51 4 0.06
52 59 0.89
53 3 0.05
ACGTcount: A:0.49, C:0.07, G:0.15, T:0.30
Consensus pattern (51 bp):
AATTCTAAGAGAAGAAGATTCTTAATAGATAAGTTTGACTTACAAGAAAAA
Found at i:22223956 original size:52 final size:51
Alignment explanation
Indices: 22223869--22223995 Score: 168
Period size: 52 Copynumber: 2.5 Consensus size: 51
22223859 TGGATAAAAA
** *
22223869 GACTTACA-AAAAAAATTCTAAGAAAATGAAGATTCTTAATAAGTAAGTTT
1 GACTTACAGAAAAAAATTCTAAGAAAAAAAAGATTCTTAATAAGCAAGTTT
*
22223919 GACTTGCAAGAAAAAAATTCTAA-AAAAAAAAGTATTCTTAATAAGCAAGTTT
1 GACTTAC-AGAAAAAAATTCTAAGAAAAAAAAG-ATTCTTAATAAGCAAGTTT
*
22223971 GACTTACAGAAAAAAAATTTTAAGA
1 GACTTACAG-AAAAAAATTCTAAGA
22223996 GGAGAGAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
50 6 0.09
51 10 0.15
52 49 0.74
53 1 0.02
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.28
Consensus pattern (51 bp):
GACTTACAGAAAAAAATTCTAAGAAAAAAAAGATTCTTAATAAGCAAGTTT
Found at i:22224659 original size:23 final size:25
Alignment explanation
Indices: 22224571--22224647 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 25
22224561 GTAGTATCAA
* * *
22224571 AACTGAAAGTTCGAAACGTGAGAA-
1 AACTGAAAGTTTGAGATGTGAGAAG
* * *
22224595 AAGTCAAAGTTTCAAGATGTGAGAAG
1 AACTGAAAGTTT-GAGATGTGAGAAG
22224621 AACTGAAAGTTTGAGATGTGAGAAG
1 AACTGAAAGTTTGAGATGTGAGAAG
22224646 AA
1 AA
22224648 TATGGTTTGA
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
24 9 0.21
25 23 0.55
26 10 0.24
ACGTcount: A:0.44, C:0.08, G:0.27, T:0.21
Consensus pattern (25 bp):
AACTGAAAGTTTGAGATGTGAGAAG
Found at i:22225094 original size:52 final size:52
Alignment explanation
Indices: 22224981--22225107 Score: 159
Period size: 52 Copynumber: 2.4 Consensus size: 52
22224971 AAAGAGAATG
* *
22224981 AAGATTCTTAATAGGTAAGTTTGACTTGCAAGAAAAAAATTTTAAAAGAAAA
1 AAGATTCTTAATAGGCAAGTTTGACTTACAAGAAAAAAATTTTAAAAGAAAA
* * *
22225033 AAAACTCTTAATAGGCAAGTTTGACTTACAAGAAAAAAATTTTAAGAAG-AGA
1 AAGATTCTTAATAGGCAAGTTTGACTTACAAGAAAAAAATTTTAA-AAGAAAA
**
22225085 GGGATTCTTAAT-GGACAAGTTTG
1 AAGATTCTTAATAGG-CAAGTTTG
22225108 TATGATTATA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
51 2 0.03
52 59 0.92
53 3 0.05
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (52 bp):
AAGATTCTTAATAGGCAAGTTTGACTTACAAGAAAAAAATTTTAAAAGAAAA
Found at i:22225680 original size:25 final size:25
Alignment explanation
Indices: 22225629--22225681 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
22225619 AAGTGATATC
*
22225629 AGAGCTGAAGGTTCGAAACGTGGGA
1 AGAGCTGAAGGTTCGAAACGTGAGA
* *
22225654 AGAGCTGAAGGTTCGAGATGTGAGA
1 AGAGCTGAAGGTTCGAAACGTGAGA
22225679 AGA
1 AGA
22225682 ACATGGTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.34, C:0.09, G:0.40, T:0.17
Consensus pattern (25 bp):
AGAGCTGAAGGTTCGAAACGTGAGA
Found at i:22229556 original size:14 final size:15
Alignment explanation
Indices: 22229537--22229579 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
22229527 ATTTATGTAT
22229537 TTATATTATT-TAAA
1 TTATATTATTATAAA
*
22229551 TTATA-TATTATAAT
1 TTATATTATTATAAA
*
22229565 TTATATTAATATAAA
1 TTATATTATTATAAA
22229580 AATATAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 4 0.17
14 13 0.54
15 7 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATATTATTATAAA
Found at i:22231108 original size:17 final size:16
Alignment explanation
Indices: 22231086--22231117 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
22231076 TAATGAATTG
22231086 ATGAACTATAAGTAAAT
1 ATGAACTATAA-TAAAT
22231103 ATGAACTATAATAAA
1 ATGAACTATAATAAA
22231118 AAAAGAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.28
Consensus pattern (16 bp):
ATGAACTATAATAAAT
Found at i:22237953 original size:17 final size:16
Alignment explanation
Indices: 22237931--22237968 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
22237921 TAATGAATTG
22237931 ATAAACTATAAGCAAA
1 ATAAACTATAAGCAAA
*
22237947 TATAAACTATAATCAAA
1 -ATAAACTATAAGCAAA
22237964 ATAAA
1 ATAAA
22237969 GAGATAGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.63, C:0.11, G:0.03, T:0.24
Consensus pattern (16 bp):
ATAAACTATAAGCAAA
Found at i:22241068 original size:17 final size:18
Alignment explanation
Indices: 22241028--22241061 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22241018 TGAGTTACTA
*
22241028 ATAAAAATAATGTAAAAG
1 ATAAAAAAAATGTAAAAG
22241046 ATAAAAAAAAT-TAAAA
1 ATAAAAAAAATGTAAAA
22241062 ATTAAAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (18 bp):
ATAAAAAAAATGTAAAAG
Found at i:22243123 original size:29 final size:30
Alignment explanation
Indices: 22243090--22243154 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
22243080 ATTTTGTACT
22243090 TATATATT-ATATTAATAAAATTATTAT-TTA
1 TATATATTAAT-TTAATAAAA-TATTATATTA
*
22243120 -ATATTTTAATTTAATAAAATATTATATTA
1 TATATATTAATTTAATAAAATATTATATTA
22243149 TATATA
1 TATATA
22243155 ATCAAGATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
28 6 0.20
29 18 0.60
30 6 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
TATATATTAATTTAATAAAATATTATATTA
Found at i:22243249 original size:2 final size:2
Alignment explanation
Indices: 22243242--22243274 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
22243232 GGATACAGAT
*
22243242 TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22243275 GATCAAGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:22244222 original size:14 final size:15
Alignment explanation
Indices: 22244197--22244229 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
22244187 TTTTTTAAAA
22244197 TTTATTTATTATAT-
1 TTTATTTATTATATG
*
22244211 TTTATTTCTTATATG
1 TTTATTTATTATATG
22244226 TTTA
1 TTTA
22244230 ATATTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTATTTATTATATG
Found at i:22245549 original size:19 final size:19
Alignment explanation
Indices: 22245527--22245570 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
22245517 ATAATTTTAA
* * *
22245527 ATTTATTTTTTAATCATTT
1 ATTTATTATATAATCATAT
*
22245546 ATTTAATATATAATCATAT
1 ATTTATTATATAATCATAT
22245565 ATTTAT
1 ATTTAT
22245571 AAAATGTTAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTATTATATAATCATAT
Found at i:22245690 original size:19 final size:18
Alignment explanation
Indices: 22245668--22245704 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
22245658 ATTTTCAAGA
*
22245668 ATTATAAAAATCTTTTTTT
1 ATTA-AAAAATATTTTTTT
22245687 ATTAAAAAATATTTTTTT
1 ATTAAAAAATATTTTTTT
22245705 TAATTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTAAAAAATATTTTTTT
Found at i:22246670 original size:27 final size:28
Alignment explanation
Indices: 22246625--22246679 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
22246615 TTTTGATTTG
*
22246625 ATTTAAATAATTATCTAAA-AATATTAA
1 ATTTAAATAATTATCTAAATAAAATTAA
22246652 ATTTAAATAATTTAT-TAAATAAAATTAA
1 ATTTAAATAA-TTATCTAAATAAAATTAA
22246680 TTGACAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (28 bp):
ATTTAAATAATTATCTAAATAAAATTAA
Found at i:22251731 original size:21 final size:21
Alignment explanation
Indices: 22251705--22251745 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22251695 TTTAAAATAA
*
22251705 TATTTAATTATTAAAATTTAT
1 TATTTAATCATTAAAATTTAT
*
22251726 TATTTAATCATTAAATTTTA
1 TATTTAATCATTAAAATTTA
22251746 AAAAATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTTAATCATTAAAATTTAT
Found at i:22251739 original size:28 final size:28
Alignment explanation
Indices: 22251710--22251775 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
22251700 AATAATATTT
* *
22251710 AATTATTAAAATTTATTATTTAATCATTA
1 AATTATTAAAAATAATTATTT-ATCATTA
*
22251739 AATT-TTAAAAAATAATTATTTATCATTC
1 AATTATT-AAAAATAATTATTTATCATTA
22251767 AATTATTAA
1 AATTATTAA
22251776 TCTTTTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 14 0.44
29 18 0.56
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (28 bp):
AATTATTAAAAATAATTATTTATCATTA
Found at i:22255522 original size:17 final size:17
Alignment explanation
Indices: 22255489--22255522 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22255479 TTTTGTTTAT
*
22255489 TAAAAAATCAAACAAAA
1 TAAAAAATAAAACAAAA
*
22255506 TAAAAAATAAAATAAAA
1 TAAAAAATAAAACAAAA
22255523 AAGATAACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (17 bp):
TAAAAAATAAAACAAAA
Found at i:22256207 original size:66 final size:66
Alignment explanation
Indices: 22256137--22256378 Score: 172
Period size: 65 Copynumber: 3.7 Consensus size: 66
22256127 GATCGAACTA
** * * * *
22256137 CAAGTCAAAAAAATAAAATGATTTGGATTGAGCTGAA-ATAAAAAATGAGTGACCAAGACTGAAT
1 CAAGTCAAAAAAATAAAATGACCTAGATCGAGCT-AAGATAAAAAATAAGAGACCAAGACTGAAT
22256201 CG
65 CG
* * * * *
22256203 CAAGTC-AAAAAATTAAATGACCTAGATCGAGCTAAGGTAAAAAATAAGAGATCAGGATTGAATC
1 CAAGTCAAAAAAATAAAATGACCTAGATCGAGCTAAGATAAAAAATAAGAGACCAAGACTGAATC
22256267 G
66 G
* * * * ** * * * * *
22256268 TAAGTCAAAAAATTAAAAT-AGCCTAGATCGAGCCAAGGTCGAAAACAAGTGATCGAGATTGAA-
1 CAAGTCAAAAAAATAAAATGA-CCTAGATCGAGCTAAGATAAAAAATAAGAGACCAAGACTGAAT
22256331 CAG
65 C-G
* * * *
22256334 CAAGTCGAAAAACT-AAATGACCTAGATTGAGCCAATG-TAAAAAAT
1 CAAGTCAAAAAAATAAAATGACCTAGATCGAGCTAA-GATAAAAAAT
22256379 GAGTAATCGA
Statistics
Matches: 142, Mismatches: 28, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
64 2 0.01
65 75 0.53
66 65 0.46
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (66 bp):
CAAGTCAAAAAAATAAAATGACCTAGATCGAGCTAAGATAAAAAATAAGAGACCAAGACTGAATC
G
Found at i:22256244 original size:65 final size:65
Alignment explanation
Indices: 22256175--22256398 Score: 245
Period size: 65 Copynumber: 3.4 Consensus size: 65
22256165 TGAGCTGAAA
* * * *
22256175 TAAAAAATGAGTGACCAAGACTGAATCGCAAGTCAAAAAATTAAATGACCTAGATCGAGCTAAGG
1 TAAAAAATAAGTGATCAAGATTGAATCGCAAGTCAAAAAATTAAATGACCTAGATCGAGCCAAGG
* * *
22256240 TAAAAAATAAGAGATCAGGATTGAATCGTAAGTCAAAAAATTAAAAT-AGCCTAGATCGAGCCAA
1 TAAAAAATAAGTGATCAAGATTGAATCGCAAGTCAAAAAATT-AAATGA-CCTAGATCGAGCCAA
22256304 GG
64 GG
** * * * * * *
22256306 TCGAAAACAAGTGATCGAGATTGAA-CAGCAAGTCGAAAAACTAAATGACCTAGATTGAGCCAAT
1 TAAAAAATAAGTGATCAAGATTGAATC-GCAAGTCAAAAAATTAAATGACCTAGATCGAGCCAAG
22256370 G
65 G
* * *
22256371 TAAAAAATGAGTAATCGAGATTGAATCG
1 TAAAAAATAAGTGATCAAGATTGAATCG
22256399 TTAGTAAAAA
Statistics
Matches: 131, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
65 78 0.60
66 53 0.40
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.20
Consensus pattern (65 bp):
TAAAAAATAAGTGATCAAGATTGAATCGCAAGTCAAAAAATTAAATGACCTAGATCGAGCCAAGG
Found at i:22256437 original size:131 final size:131
Alignment explanation
Indices: 22256202--22256441 Score: 304
Period size: 131 Copynumber: 1.8 Consensus size: 131
22256192 AGACTGAATC
* *
22256202 GCAAGTCAAAAAATTAAATGACCTAGATCGAGCTAAGGTAAAAAATAAGAGATCAGGATTGAATC
1 GCAAGTCAAAAAACTAAATGACCTAGATCGAGCCAAGGTAAAAAATAAGAGATCAGGATTGAATC
* * * * *
22256267 GTAAGTCAAAAAATTAAAATAGCCTAGATCGAGCCAAGGTCGAAAACAAGTGATCGAGATTGAAC
66 GTAAGTAAAAAAAGTAAAATAACCTAGACCAAGCCAAGGTCGAAAACAAGTGATCGAGATTGAAC
22256332 A
131 A
* * * *
22256333 GCAAGTCGAAAAACTAAATGACCTAGATTGAGCCAATGTAAAAAATGAGTA-ATC-GAGATTGAA
1 GCAAGTCAAAAAACTAAATGACCTAGATCGAGCCAAGGTAAAAAATAAG-AGATCAG-GATTGAA
* * * * *
22256396 TCGTTAGTAAAAAAAGTAAAGTAACTTGGACCAAGCTAAGGTCGAA
64 TCGTAAGTAAAAAAAGTAAAATAACCTAGACCAAGCCAAGGTCGAA
22256442 GACGAAAACA
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
130 1 0.01
131 89 0.98
132 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.20
Consensus pattern (131 bp):
GCAAGTCAAAAAACTAAATGACCTAGATCGAGCCAAGGTAAAAAATAAGAGATCAGGATTGAATC
GTAAGTAAAAAAAGTAAAATAACCTAGACCAAGCCAAGGTCGAAAACAAGTGATCGAGATTGAAC
A
Found at i:22268133 original size:16 final size:15
Alignment explanation
Indices: 22268114--22268146 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
22268104 ATTTAAATAT
22268114 TATATTTTTTATAAAA
1 TATATTTTTTA-AAAA
22268130 TATATTTTTTAAAAA
1 TATATTTTTTAAAAA
22268145 TA
1 TA
22268147 ATGGATGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATTTTTTAAAAA
Found at i:22275784 original size:23 final size:22
Alignment explanation
Indices: 22275736--22275777 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
22275726 TAATAAACCC
22275736 AAGAAATTAAAGATAAAAAATA
1 AAGAAATTAAAGATAAAAAATA
*
22275758 AAGAAATTAAAGCTAAAAAA
1 AAGAAATTAAAGATAAAAAA
22275778 ATGAAGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (22 bp):
AAGAAATTAAAGATAAAAAATA
Found at i:22276237 original size:29 final size:29
Alignment explanation
Indices: 22276189--22276255 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
22276179 TTTAATTTTA
22276189 TATTTATATATAAATATTAATAAA-ATTAT
1 TATTTATATATAAATATTAA-AAATATTAT
*
22276218 TATTTAATATATTAAT-TTAAAAATATTA-
1 TATTT-ATATATAAATATTAAAAATATTAT
*
22276246 TAATTATATA
1 TATTTATATA
22276256 ATTAAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 5 0.15
28 7 0.21
29 13 0.38
30 9 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
TATTTATATATAAATATTAAAAATATTAT
Found at i:22276249 original size:24 final size:23
Alignment explanation
Indices: 22276197--22276264 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 23
22276187 TATATTTATA
*
22276197 TATAA-ATATTAA-TAAAATTAT
1 TATAATATATTAATTAAAAATAT
22276218 TATTTAATATATTAATTTAAAAATAT
1 TA--TAATATATTAA-TTAAAAATAT
22276244 TATAAT-TATATAATTAAAAAT
1 TATAATATAT-TAATTAAAAAT
22276265 TAATTTATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
21 2 0.05
23 14 0.35
24 14 0.35
26 10 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TATAATATATTAATTAAAAATAT
Found at i:22276303 original size:16 final size:14
Alignment explanation
Indices: 22276274--22276300 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22276264 TTAATTTATA
22276274 TTATAAATAATATT
1 TTATAAATAATATT
22276288 TTATAAATAATAT
1 TTATAAATAATAT
22276301 ATTAAATTTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTATAAATAATATT
Found at i:22280896 original size:84 final size:84
Alignment explanation
Indices: 22280784--22280942 Score: 223
Period size: 84 Copynumber: 1.9 Consensus size: 84
22280774 ATCATTCAGC
* *
22280784 ATATGATTCAGCCCCTCAATTTCATACAA-ATCCATTCAGCAAAACAATATCAGATAACAAGGTT
1 ATATGATTCAGCCCCTCAATATCATACAATA-CCATTCAGCAAAACAATATCAGACAACAAGGTT
22280848 AAGCAAACCATTCAACATAT
65 AAGCAAACCATTCAACATAT
* * **
22280868 ATATGATTTAGACCCC-CAATATCATACAATACCATTCGGCATTACAATATCAGACAACAAGGTT
1 ATATGATTCAG-CCCCTCAATATCATACAATACCATTCAGCAAAACAATATCAGACAACAAGGTT
*
22280932 CAGCAAACCAT
65 AAGCAAACCAT
22280943 AATGTTTAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
84 61 0.92
85 5 0.08
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.25
Consensus pattern (84 bp):
ATATGATTCAGCCCCTCAATATCATACAATACCATTCAGCAAAACAATATCAGACAACAAGGTTA
AGCAAACCATTCAACATAT
Found at i:22282446 original size:355 final size:354
Alignment explanation
Indices: 22281546--22282605 Score: 1386
Period size: 355 Copynumber: 3.0 Consensus size: 354
22281536 TAAAAGATGT
* * * *
22281546 CTTTAATAATCTC-AAATTTTTTTT-TTAAAATTATTGAAGGCGTTGTTATATGCAAACACCTTC
1 CTTTAATAATCCCAAAATTTTTTTTATGAAAATTATTGAAGGCGTTGTTATCTGCAAACGCCTTC
* * * *
22281609 ATTAATTATCTACAAAATCTAATATGAGTTATTAAAGGCATTTTTCTTGAATATATGGCTTTAAT
66 ACTAATTATCTACAAAATCTAATAGGAATTATTAAAGGCATTTTTCTTGAATATA-CGCTTTAAT
* * * * * *
22281674 AACCGTCTTAAAATTTATATGGCTA-TATATTAAAGGCATTTTATAATAGAAGACACTTTTAATA
130 AATCGTGTTAAAA-TT-TGTGGCGAGTATATTGAAGGCATTTTATAGTAGAAGACACTTTTAATA
** * * * * *
22281738 ATTCTCAAAATTTTTTGACGAAAAATATTGAAGGCGTTTGTTATTAACAAACGCCTTCAGTAATA
193 ATTCTCAAAATTTTTAAAGGGAAAATATTGAAGGCGTCTGTTATTAACAAATGCCTTCAGTAATG
* * * *
22281803 GATTACTAAGTTTAAAGGTATA-TGAAAGTGATTTTTCT-AATAAAAACCTTCTATAACTATCGT
258 GATTACTAAGTTTAAAGGTATATTGAAGGTGCTTTTT-TGAATAAAAGCCTTCTATAACCATCGT
*
22281866 GGTATATTGAAGGTATTTTATAATAAAAGACGC
322 GGTATATTGAAGGTATTTTATAATAAAAGACAC
* * * * * *
22281899 CTTTAATAATCCCAAATTTTTTTTTATGGAAATTATTAAAGGCGTTATTATCTGCAAATGCCTGC
1 CTTTAATAATCCCAAAATTTTTTTTATGAAAATTATTGAAGGCGTTGTTATCTGCAAACGCCTTC
*
22281964 ACTAATTATCTAC-AAATCTAATAGGAATTATTAAAGGTATTTTTCTTGAATAT-CTGCCTTTAA
66 ACTAATTATCTACAAAATCTAATAGGAATTATTAAAGGCATTTTTCTTGAATATAC-G-CTTTAA
* * *
22282027 TAATCGTGTTAAAATTTGTATGACG-GTATATTGAAGGTATTTTATAGTAGAAGACGCTTTTAAT
129 TAATCGTGTTAAAATTTG--TGGCGAGTATATTGAAGGCATTTTATAGTAGAAGACACTTTTAAT
*
22282091 AATTCTTAAAATTTTTAAAGGGAAAATATTGAAGGCGTCTGTTATTAACAAATGCCTTCAGTAAT
192 AATTCTCAAAATTTTTAAAGGGAAAATATTGAAGGCGTCTGTTATTAACAAATGCCTTCAGTAAT
* * *
22282156 GGATTACTAAGTTTAAAGCTATATTGAAGGTGCTTTTTTGAATAAATGCCTTCTATAACCACCGT
257 GGATTACTAAGTTTAAAGGTATATTGAAGGTGCTTTTTTGAATAAAAGCCTTCTATAACCATCGT
*
22282221 GGTATATTGAAGGTGTTTTATAATAAAAGACAC
322 GGTATATTGAAGGTATTTTATAATAAAAGACAC
* *
22282254 CTTTAATAA-CCCAAAAATTTTTTTTAAGAAAATTATTGAAGGCGTTGTTATCTACAAACGCCTT
1 CTTTAATAATCCC-AAAATTTTTTTTATGAAAATTATTGAAGGCGTTGTTATCTGCAAACGCCTT
22282318 CACTAATTATCTACAAAATCTAATAGGAATTATTAAAGGCATTTTTCTTGAATATACGCTTTCAA
65 CACTAATTATCTACAAAATCTAATAGGAATTATTAAAGGCATTTTTCTTGAATATACGCTTT-AA
* ** *
22282383 TAATTGTGTTAAAATTTGTGGCGCAGTATATTGAAGGCATTTTACCGT-GAAGACACCTTTAATA
129 TAATCGTGTTAAAATTTGTGGCG-AGTATATTGAAGGCATTTTATAGTAGAAGACACTTTTAATA
* * * * * * *
22282447 ATGCCCAAAGTTTTTATAGAGAAAATATTGAAGGTGTCTGTTATTAACAAATGCGTTTCA-TAAT
193 ATTCTCAAAATTTTTAAAGGGAAAATATTGAAGGCGTCTGTTATTAACAAATGC-CTTCAGTAAT
* * *
22282511 GGATTACTAAGTTTAAAGGTATATTGAAGATACTTTTTTGAATAAACGCCTTCTATAACCATCGT
257 GGATTACTAAGTTTAAAGGTATATTGAAGGTGCTTTTTTGAATAAAAGCCTTCTATAACCATCGT
* * * *
22282576 GGTGTATTGAAGGCATTTTATTATAGAAGA
322 GGTATATTGAAGGTATTTTATAATAAAAGA
22282606 TGCCATTAAT
Statistics
Matches: 616, Mismatches: 75, Indels: 30
0.85 0.10 0.04
Matches are distributed among these distances:
352 1 0.00
353 15 0.02
354 189 0.31
355 327 0.53
356 83 0.13
357 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (354 bp):
CTTTAATAATCCCAAAATTTTTTTTATGAAAATTATTGAAGGCGTTGTTATCTGCAAACGCCTTC
ACTAATTATCTACAAAATCTAATAGGAATTATTAAAGGCATTTTTCTTGAATATACGCTTTAATA
ATCGTGTTAAAATTTGTGGCGAGTATATTGAAGGCATTTTATAGTAGAAGACACTTTTAATAATT
CTCAAAATTTTTAAAGGGAAAATATTGAAGGCGTCTGTTATTAACAAATGCCTTCAGTAATGGAT
TACTAAGTTTAAAGGTATATTGAAGGTGCTTTTTTGAATAAAAGCCTTCTATAACCATCGTGGTA
TATTGAAGGTATTTTATAATAAAAGACAC
Found at i:22283967 original size:19 final size:20
Alignment explanation
Indices: 22283943--22283989 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
22283933 TTATTTTTTC
22283943 TTATTTTTTATTATT-AAGT
1 TTATTTTTTATTATTAAAGT
*
22283962 TTATTTTTTATTTTTAAAGT
1 TTATTTTTTATTATTAAAGT
*
22283982 TCATTTTT
1 TTATTTTT
22283990 AAATTAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.70
Consensus pattern (20 bp):
TTATTTTTTATTATTAAAGT
Found at i:22284089 original size:19 final size:18
Alignment explanation
Indices: 22284065--22284103 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
22284055 CATAAATATT
* *
22284065 AATTAAATAATATATAAAA
1 AATTAAAAAAAAT-TAAAA
22284084 AATTAAAAAAAATTAAAA
1 AATTAAAAAAAATTAAAA
22284102 AA
1 AA
22284104 ATTTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AATTAAAAAAAATTAAAA
Found at i:22284106 original size:9 final size:10
Alignment explanation
Indices: 22284080--22284104 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
22284070 AATAATATAT
22284080 AAAAAATTAA
1 AAAAAATTAA
22284090 AAAAAATTAA
1 AAAAAATTAA
22284100 AAAAA
1 AAAAA
22284105 TTTTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAATTAA
Found at i:22285536 original size:48 final size:47
Alignment explanation
Indices: 22285480--22285848 Score: 389
Period size: 48 Copynumber: 7.9 Consensus size: 47
22285470 AAATCTAAAA
* *
22285480 AAAAAGCTCTTTTCAGTAGAGGCTCAACAACTTTAAAAATCCATATTG
1 AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATCCAT-TTG
*
22285528 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATTTTG
1 AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATC-CA-TTTG
* * * * *
22285576 GAAAACCTCATCTCAGCAGAGGCTTAACAACTTTAAAAATCTCATCTTG
1 AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATC-CAT-TTG
* *
22285625 GAAAAGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAAATCCATCTTG
1 AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATCCAT-TTG
* *
22285673 AAAAAGCTCATCTCAGTAGAGACTCAACAACTTT-AAAAT-C--TTG
1 AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATCCATTTG
* * * *
22285716 AAAAAGCTCCTCTCAGCAGAGGGTCAATAACTTTAAAAATCTTATATTG
1 AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATC-CAT-TTG
* * *
22285765 GAAAAGCTTCTCTCAATA-AGGGCTCAACAACTTT-AAAAT-C-TTT-
1 AAAAAGCTCCTCTCAGTAGA-GGCTCAACAACTTTAAAAATCCATTTG
** *
22285808 AAAAAGCTTTTCTCAGTAGAGGCTCAGCAACTTTAAAAATC
1 AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATC
22285849 TCATCTTTTC
Statistics
Matches: 274, Mismatches: 33, Indels: 31
0.81 0.10 0.09
Matches are distributed among these distances:
43 60 0.22
44 13 0.05
45 1 0.00
46 1 0.00
47 11 0.04
48 110 0.40
49 78 0.28
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (47 bp):
AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATCCATTTG
Found at i:22285667 original size:145 final size:143
Alignment explanation
Indices: 22285481--22285852 Score: 465
Period size: 145 Copynumber: 2.6 Consensus size: 143
22285471 AATCTAAAAA
* * * *
22285481 AAAAGCTCTTTTCAGTAGAGGCTCAACAACTTTAAAAATCCATATTGAAAAAGCTCCTCTCAGCA
1 AAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATCCAT-TTGAAAAAGCTCATCTCAGTA
* *
22285546 GAGGCTCAACAACTTTAAAATCTCATTTTGGAAAACCTCATCTCAGCAGAGGCTTAACAACTTTA
65 GAGGCTCAACAACTTTAAAATCTCA-TTTGAAAAACCTCATCTCAGCAGAGGCTCAACAACTTTA
*
22285611 AAAATCTCATCTTGG
129 AAAATCTCATATTGG
*
22285626 AAAAGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAAATCCATCTTGAAAAAGCTCATCTCAGTA
1 AAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATCCAT-TTGAAAAAGCTCATCTCAGTA
* * * * *
22285691 GAGACTCAACAACTTTAAAA--TC--TTGAAAAAGCTCCTCTCAGCAGAGGGTCAATAACTTTAA
65 GAGGCTCAACAACTTTAAAATCTCATTTGAAAAACCTCATCTCAGCAGAGGCTCAACAACTTTAA
*
22285752 AAATCTTATATTGG
130 AAATCTCATATTGG
* * **
22285766 AAAAGCTTCTCTCAATA-AGGGCTCAACAACTTT-AAAAT-C-TTT-AAAAAGCTTTTCTCAGTA
1 AAAAGCTCCTCTCAGTAGA-GGCTCAACAACTTTAAAAATCCATTTGAAAAAGCTCATCTCAGTA
*
22285826 GAGGCTCAGCAACTTTAAAAATCTCAT
65 GAGGCTCAACAACTTT-AAAATCTCAT
22285853 CTTTTCTTAA
Statistics
Matches: 199, Mismatches: 22, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
135 30 0.15
136 6 0.03
137 1 0.01
138 3 0.02
139 6 0.03
140 73 0.37
143 2 0.01
145 78 0.39
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.28
Consensus pattern (143 bp):
AAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATCCATTTGAAAAAGCTCATCTCAGTAG
AGGCTCAACAACTTTAAAATCTCATTTGAAAAACCTCATCTCAGCAGAGGCTCAACAACTTTAAA
AATCTCATATTGG
Found at i:22298212 original size:18 final size:19
Alignment explanation
Indices: 22298178--22298217 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
22298168 CATAAATATT
*
22298178 AATAAAATAATATATAAAA
1 AATAAAATAATAAATAAAA
22298197 AATAAAA-AATAAATAAAA
1 AATAAAATAATAAATAAAA
22298215 AAT
1 AAT
22298218 TTTTTTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
AATAAAATAATAAATAAAA
Found at i:22299256 original size:18 final size:18
Alignment explanation
Indices: 22299225--22299279 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
22299215 CCATCCCTCA
*
22299225 TTTTTTTTGTTTGT-TTT
1 TTTTTTTTATTTGTATTT
22299242 TTTTTTTTATCTTGTATTT
1 TTTTTTTTAT-TTGTATTT
* *
22299261 TGGTATTTT-TTTGTATTT
1 T-TTTTTTTATTTGTATTT
22299279 T
1 T
22299280 GTATTTAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
17 9 0.28
18 13 0.41
19 5 0.16
20 5 0.16
ACGTcount: A:0.07, C:0.02, G:0.11, T:0.80
Consensus pattern (18 bp):
TTTTTTTTATTTGTATTT
Found at i:22307425 original size:57 final size:60
Alignment explanation
Indices: 22307226--22307442 Score: 212
Period size: 57 Copynumber: 3.6 Consensus size: 60
22307216 GAGGTTTTGA
* * * * ** *
22307226 TTTTAAGGAAAATTAATACTTTCAACTTTTCCTAAAAAAATATTTTTCT-TGATAATTTTTAT
1 TTTTAAGGAAAATTGATACTTTCAAATTTTTCT--CAAAATGCTTTTCTCGGA-AATTTTTAT
* * * * *
22307288 TTTTAAGGAAAATTGGTAC-TTCTAACTTTTCATCAAAATGCTTTTCTCTGAAA-TTTTAA
1 TTTTAAGGAAAATTGATACTTTCAAATTTTTC-TCAAAATGCTTTTCTCGGAAATTTTTAT
*
22307347 TTTCAAGGAAAATTGATACTTTCAAATTTTTCTCAAAATGC-TTT-T-GGAAATTTTTAT
1 TTTTAAGGAAAATTGATACTTTCAAATTTTTCTCAAAATGCTTTTCTCGGAAATTTTTAT
* * *
22307404 TTTTAAGAAAAATTTATACTTTCAACTTTTTCTCAAAAT
1 TTTTAAGGAAAATTGATACTTTCAAATTTTTCTCAAAAT
22307443 ATATTTTTTA
Statistics
Matches: 131, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
56 4 0.03
57 41 0.31
58 3 0.02
59 31 0.24
60 23 0.18
61 11 0.08
62 18 0.14
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (60 bp):
TTTTAAGGAAAATTGATACTTTCAAATTTTTCTCAAAATGCTTTTCTCGGAAATTTTTAT
Found at i:22307494 original size:17 final size:18
Alignment explanation
Indices: 22307455--22307494 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
22307445 ATTTTTTAAA
22307455 AAATTTTATTTTATATTT
1 AAATTTTATTTTATATTT
*
22307473 -TATTTTATTTTAT-TTT
1 AAATTTTATTTTATATTT
22307489 AAATTT
1 AAATTT
22307495 ATTCATACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
AAATTTTATTTTATATTT
Found at i:22308279 original size:19 final size:19
Alignment explanation
Indices: 22308252--22308288 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
22308242 AAACACCTTT
*
22308252 TTATGTTTTTTCATTTTTA
1 TTATGTTTTTTAATTTTTA
*
22308271 TTATTTTTTTTAATTTTT
1 TTATGTTTTTTAATTTTT
22308289 TAATTATTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (19 bp):
TTATGTTTTTTAATTTTTA
Found at i:22308515 original size:44 final size:44
Alignment explanation
Indices: 22308462--22308608 Score: 151
Period size: 42 Copynumber: 3.4 Consensus size: 44
22308452 AGGCTCAATG
* *
22308462 ACTTT-GAAAAAAATAAAATACTCCTCTAAACAGAGGCACCACA
1 ACTTTGGAAAAAAATAAAATGCTCCTTTAAACAGAGGCACCACA
* * *
22308505 ACTTTGG--AAAAGTAAAATGCTTCTTTAAACAAAGGCACCACA
1 ACTTTGGAAAAAAATAAAATGCTCCTTTAAACAGAGGCACCACA
* * * *
22308547 ACTTTGGAAATATAAAT-AAA-GCTCCTTTAAATAGAAGCTCAACA
1 ACTTTGGAAA-A-AAATAAAATGCTCCTTTAAACAGAGGCACCACA
*
22308591 ACTTTTGAAAAAAATAAA
1 ACTTTGGAAAAAAATAAA
22308609 CAAAGCTCCT
Statistics
Matches: 85, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
42 41 0.48
43 8 0.09
44 29 0.34
45 4 0.05
46 3 0.04
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.24
Consensus pattern (44 bp):
ACTTTGGAAAAAAATAAAATGCTCCTTTAAACAGAGGCACCACA
Found at i:22308772 original size:14 final size:14
Alignment explanation
Indices: 22308753--22308803 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
22308743 GGATTCACTG
22308753 AAATTTGATTCTCA
1 AAATTTGATTCTCA
*
22308767 AAATTTCAGTTTCTCAA
1 AAATTT--GATTCTC-A
22308784 AAATTTGATTCAT-A
1 AAATTTGATTC-TCA
22308798 AAATTT
1 AAATTT
22308804 CAGATGTGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 13 0.42
15 4 0.13
16 7 0.23
17 7 0.23
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (14 bp):
AAATTTGATTCTCA
Found at i:22309078 original size:114 final size:114
Alignment explanation
Indices: 22308917--22309186 Score: 405
Period size: 114 Copynumber: 2.4 Consensus size: 114
22308907 CACATCTAAA
* * ** * * *
22308917 AGTTTAAAGCTTTTCCTTTGAATTCAAAAGGTTCACATTCAAGAAATCTTAGAATTTAACATCTA
1 AGTTCAAAGCTTTTCGTTTGAATTTTAGAGATTCACATCCAAGAAATCTTAGAATTTAACATCTA
* * *
22308982 AGTTCAAAGGTTCTCACTAAAAAATTTAGAAATTCGCATCTAAAAGTTG
66 AGTTCAAAGGTTCTCACTAAAAAATTTAAAAATTCACATCCAAAAGTTG
* * * *
22309031 AGTTCAAAGCTTTTTGTTTGAATTTTGGAGATTCACATCCAAGAAATCTTAGAGTTTCACATCTA
1 AGTTCAAAGCTTTTCGTTTGAATTTTAGAGATTCACATCCAAGAAATCTTAGAATTTAACATCTA
22309096 AGTTCAAAGGTTCTCACTAAAAAATTTAAAAATTCACATCCAAAAGTTG
66 AGTTCAAAGGTTCTCACTAAAAAATTTAAAAATTCACATCCAAAAGTTG
*
22309145 AGTTCAAAGCTTTTCGTTTGAATTTTAGAGATTTACATCCAA
1 AGTTCAAAGCTTTTCGTTTGAATTTTAGAGATTCACATCCAA
22309187 AAGTTCAAAA
Statistics
Matches: 139, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 139 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (114 bp):
AGTTCAAAGCTTTTCGTTTGAATTTTAGAGATTCACATCCAAGAAATCTTAGAATTTAACATCTA
AGTTCAAAGGTTCTCACTAAAAAATTTAAAAATTCACATCCAAAAGTTG
Found at i:22309446 original size:46 final size:46
Alignment explanation
Indices: 22309382--22309671 Score: 448
Period size: 46 Copynumber: 6.4 Consensus size: 46
22309372 AAAATGTCTT
* *
22309382 AAAGATTCTCATTTGAAAATGTCGTAAAGATTTTCATTTGAA-ACTT
1 AAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTT-AAGACTC
* * *
22309428 AAAGATTCTCATTTGAAAATGTCTTAAATATTCTCATTTAAGACTA
1 AAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGACTC
*
22309474 AAAAATTCTCATTTG-AAA---CTTAAAGATTTTCATTTGAA-ACTC
1 AAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTT-AAGACTC
* *
22309516 AAATATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAGACTC
1 AAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGACTC
22309562 AAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGACTC
1 AAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGACTC
22309608 AAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGACTC
1 AAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGACTC
22309654 AAAGATTCTCATTTGAAA
1 AAAGATTCTCATTTGAAA
22309672 CTTAAAGATT
Statistics
Matches: 225, Mismatches: 12, Indels: 14
0.90 0.05 0.06
Matches are distributed among these distances:
42 32 0.14
43 5 0.02
45 7 0.03
46 181 0.80
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (46 bp):
AAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGACTC
Found at i:22309507 original size:67 final size:66
Alignment explanation
Indices: 22309377--22309826 Score: 334
Period size: 67 Copynumber: 6.6 Consensus size: 66
22309367 ACTAAAAAAT
* * * *
22309377 GTCTTAAAGATTCTCATTTGAAAATGTCGTAAAGATTTTCATTTGAAACTTAAAGATTCTCATTT
1 GTCTCAAAGATTCTCATTT--AAA-GACTTAAAGATTCTCATTTGAAACTTAAAGATTCTCATTT
22309442 GAAAA
63 G-AAA
* * * * *
22309447 TGTCTTAAATATTCTCATTT-AAGACTAAAAAATTCTCATTTGAAACTTAAAGATTTTCATTTGA
1 -GTCTCAAAGATTCTCATTTAAAGACTTAAAGATTCTCATTTGAAACTTAAAGATTCTCATTTGA
22309511 AA
65 AA
* * *
22309513 --CTCAAATATTCTCATTTGAAAATGTCTTAAAGATTCTCATTT-AAGACTCAAAGATTCTCATT
1 GTCTCAAAGATTCTCATTT--AAA-GACTTAAAGATTCTCATTTGAA-ACTTAAAGATTCTCATT
22309575 TGAAAA
62 TG-AAA
* * * *
22309581 TGTCTTAAAGATTTTCATTT-AAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCAT
1 -GTCTCAAAGATTCTCATTTAAAGACTTAAAGATTCTCATTTG-AAA---CTTAAAGATTCTCAT
22309645 TT--AA
61 TTGAAA
* * * *
22309649 GACTCAAAGATTCTCATTTGAA-ACTTAAAGATTCTCATTTGAAAATGTCCTAAAGATTCTTATT
1 GTCTCAAAGATTCTCATTTAAAGACTTAAAGATTCTCATTTG-AAA---CTTAAAGATTCTCATT
22309713 T--AA
62 TGAAA
* * * *
22309716 -TACTCAAAGATTCTCATTTAAAGATGTTTTAAAGATTCTTATTT-AAGATTTAAATATTCTCAT
1 GT-CTCAAAGATTCTCATTTAAAGA---CTTAAAGATTCTCATTTGAA-ACTTAAAGATTCTCAT
22309779 TTGAAA
61 TTGAAA
*
22309785 --CTCAAAGATTCTCATTTGAAGATTTCTTAAAGATTCTCATTT
1 GTCTCAAAGATTCTCATTTAAAGA---CTTAAAGATTCTCATTT
22309827 TAAAAAATCA
Statistics
Matches: 317, Mismatches: 39, Indels: 50
0.78 0.10 0.12
Matches are distributed among these distances:
63 16 0.05
66 7 0.02
67 212 0.67
68 13 0.04
69 6 0.02
70 1 0.00
71 62 0.20
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (66 bp):
GTCTCAAAGATTCTCATTTAAAGACTTAAAGATTCTCATTTGAAACTTAAAGATTCTCATTTGAA
A
Found at i:22309576 original size:180 final size:181
Alignment explanation
Indices: 22309382--22309826 Score: 568
Period size: 180 Copynumber: 2.5 Consensus size: 181
22309372 AAAATGTCTT
*
22309382 AAAGATTCTCATTTGAAAATGTCGTAAAGATTTTCATTTGAAACTTAAAGATTCTCATTTGAAAA
1 AAAGATTCTCATTTGAAAATGTC-TAAAGATTTTCATTTGAAACTCAAAGATTCTCATTTGAAAA
* *
22309447 TGTCTTAAATATTCTCATTTAAGACTAAAAAATTCTCATTTGAAACTTAAAGATTTTCATTTG-A
65 TGTCTTAAAGATTCTCATTTAAGACTAAAAAATTCTCATTTGAAACTTAAAGATTCTCATTTGAA
* * *
22309511 AA-CT-C-AAATATTCTCATTTGAAAATGTCTTAAAGATTCTCATTT-AAGA-CTC
130 AATCTCCTAAAGATTCTCATTT---AAT-ACTCAAAGATTCTCATTTAAAGATCTC
22309562 AAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTT-AAGACTCAAAGATTCTCATTTGAAA
1 AAAGATTCTCATTTGAAAATGTC-TAAAGATTTTCATTTGAA-ACTCAAAGATTCTCATTTGAAA
* * *
22309626 ATGTCTTAAAGATTTTCATTTAAGACTCAAAGATTCTCATTTGAAACTTAAAGATTCTCATTTGA
64 ATGTCTTAAAGATTCTCATTTAAGACTAAAAAATTCTCATTTGAAACTTAAAGATTCTCATTTGA
* * * *
22309691 AAATGTCCTAAAGATTCTTATTTAATACTCAAAGATTCTCATTTAAAGATGTTTT
129 AAATCTCCTAAAGATTCTCATTTAATACTCAAAGATTCTCATTTAAAGA--TCTC
* * * * *
22309746 AAAGATTCTTATTT-AAGAT-T-TAAATATTCTCATTTGAAACTCAAAGATTCTCATTTGAAGAT
1 AAAGATTCTCATTTGAAAATGTCTAAAGATTTTCATTTGAAACTCAAAGATTCTCATTTGAAAAT
*
22309808 TTCTTAAAGATTCTCATTT
66 GTCTTAAAGATTCTCATTT
22309827 TAAAAAATCA
Statistics
Matches: 234, Mismatches: 21, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
179 2 0.01
180 187 0.80
181 12 0.05
182 2 0.01
183 5 0.02
184 26 0.11
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (181 bp):
AAAGATTCTCATTTGAAAATGTCTAAAGATTTTCATTTGAAACTCAAAGATTCTCATTTGAAAAT
GTCTTAAAGATTCTCATTTAAGACTAAAAAATTCTCATTTGAAACTTAAAGATTCTCATTTGAAA
ATCTCCTAAAGATTCTCATTTAATACTCAAAGATTCTCATTTAAAGATCTC
Found at i:22309645 original size:159 final size:158
Alignment explanation
Indices: 22309326--22309826 Score: 497
Period size: 159 Copynumber: 3.1 Consensus size: 158
22309316 GGTTTCACAC
*
22309326 CTTAAAGATTCTCATTTGAAATTCAAATATTCTCATTTGAAACTAAAAAATGTCTTAAAGATTCT
1 CTTAAAGATTCTCATTTGAAACTCAAATATTCTCATTTG-------AAAATGTCTTAAAGATTCT
* * * *
22309391 CATTTGAAAATGTCGTAAAGATTTTCATTTG-AAA---CTTAAAGATTCTCATTTGAAAATGTCT
59 CATTT-AAAA-CTC--AAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTT---AA-GACT
22309452 TAAATATTCTCATTT---AAGACTAAAAAATTCTCATTTGAA-A
116 TAAATATTCTCATTTGAAAAGACTAAAAAATTCTCATTT-AAGA
*
22309492 CTTAAAGATTTTCATTTGAAACTCAAATATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAA
1 CTTAAAGATTCTCATTTGAAACTCAAATATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAA
* * *
22309557 GACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGACTCAAAGATTCTCATTT
66 AACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGACTTAAATATTCTCATTT
* * * *
22309622 GAAAATGTCTTAAAGATTTTCATTTAAGA
131 GAAAA-GACTAAAAAATTCTCATTTAAGA
* * * * *
22309651 CTCAAAGATTCTCATTTGAAACTTAAAGATTCTCATTTGAAAATGTCCTAAAGATTCTTATTTAA
1 CTTAAAGATTCTCATTTGAAACTCAAATATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAA
* * *
22309716 TACTCAAAGATTCTCATTT-AAAGATGTTTTAAAGATTCTT-ATTTAAGATTTAAATATTCTCAT
66 AACTCAAAGATTCTCATTTGAAA-ATGTCTTAAAGATT-TTCATTTAAGACTTAAATATTCTCAT
* *
22309779 TTG--AA-ACTCAAAGATTCTCATTTGAAGA
129 TTGAAAAGACTAAAAAATTCTCATTT-AAGA
22309807 TTTCTTAAAGATTCTCATTT
1 ---CTTAAAGATTCTCATTT
22309827 TAAAAAATCA
Statistics
Matches: 292, Mismatches: 28, Indels: 37
0.82 0.08 0.10
Matches are distributed among these distances:
155 45 0.15
156 9 0.03
157 4 0.01
158 10 0.03
159 185 0.63
160 2 0.01
166 37 0.13
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (158 bp):
CTTAAAGATTCTCATTTGAAACTCAAATATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAA
AACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGACTTAAATATTCTCATTT
GAAAAGACTAAAAAATTCTCATTTAAGA
Found at i:22309676 original size:134 final size:132
Alignment explanation
Indices: 22309382--22309826 Score: 458
Period size: 134 Copynumber: 3.3 Consensus size: 132
22309372 AAAATGTCTT
* * *
22309382 AAAGATTCTCATTTGAAAATGTCGTAAAGATTTTCATTTGAAACTTAAAGATTCTCATTTGAAAA
1 AAAGATTCTCATTTGAAAA--TCTTAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGAAAA
*
22309447 TGTCTTAAATATTCTCATTTAAGACTAAAAAATTCTCATTTGAAACTTAAAGATTTTCATTTGAA
64 TGTCTTAAAGATTCTCATTTAAGACTAAAAAATTCTCATTTGAAACTTAAAGATTTTCATTTGAA
22309512 ACTC
129 ACTC
*
22309516 AAATATTCTCATTTGAAAATGTCTTAAAGATTCTCATTT-AAGACTCAAAGATTCTCATTTGAAA
1 AAAGATTCTCATTTGAAAA--TCTTAAAGATTCTCATTTGAA-ACTCAAAGATTCTCATTTGAAA
* * *
22309580 ATGTCTTAAAGATTTTCATTTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCAT
63 ATGTCTTAAAGATTCTCATTTAAGACTAAAAAATTCTCATTTG-AAA---CTTAAAGATTTTCAT
22309645 TT-AAGACTC
124 TTGAA-ACTC
* *
22309654 AAAGATTCTCATTTG-AAA-CTTAAAGATTCTCATTTGAAAATGTCCTAAAGATTCTTATTT---
1 AAAGATTCTCATTTGAAAATCTTAAAGATTCTCATTTG-AAA-CT-C-AAAGATTCTCATTTGAA
* * * * * * * * *
22309714 AAT-ACTCAAAGATTCTCATTTAAAGATGTTTTAAAGATTCTTATTT-AAGATTTAAATATTCTC
62 AATGTCTTAAAGATTCTCATTT-AAGA---CTAAAAAATTCTCATTTGAA-ACTTAAAGATTTTC
22309777 ATTTGAAACTC
122 ATTTGAAACTC
*
22309788 AAAGATTCTCATTTGAAGATTTCTTAAAGATTCTCATTT
1 AAAGATTCTCATTTGAA-A-ATCTTAAAGATTCTCATTT
22309827 TAAAAAATCA
Statistics
Matches: 269, Mismatches: 21, Indels: 38
0.82 0.06 0.12
Matches are distributed among these distances:
133 2 0.01
134 161 0.60
135 14 0.05
136 6 0.02
137 7 0.03
138 79 0.29
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (132 bp):
AAAGATTCTCATTTGAAAATCTTAAAGATTCTCATTTGAAACTCAAAGATTCTCATTTGAAAATG
TCTTAAAGATTCTCATTTAAGACTAAAAAATTCTCATTTGAAACTTAAAGATTTTCATTTGAAAC
TC
Found at i:22309704 original size:46 final size:44
Alignment explanation
Indices: 22309382--22309831 Score: 412
Period size: 46 Copynumber: 9.9 Consensus size: 44
22309372 AAAATGTCTT
* * * *
22309382 AAAGATTCTCATTTGAAAATGTCGTAAAGATTTTCATTTGAAACTT
1 AAAGATTCTCATTTGAAAA--TCTTAAAGATTCTCATTTAAAACTC
* * *
22309428 AAAGATTCTCATTTGAAAATGTCTTAAATATTCTCATTTAAGACTA
1 AAAGATTCTCATTTGAAAA--TCTTAAAGATTCTCATTTAAAACTC
* * *
22309474 AAAAATTCTCATTTG-AAA-CTTAAAGATTTTCATTTGAAACTC
1 AAAGATTCTCATTTGAAAATCTTAAAGATTCTCATTTAAAACTC
* *
22309516 AAATATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAGACTC
1 AAAGATTCTCATTTGAAAA--TCTTAAAGATTCTCATTTAAAACTC
* *
22309562 AAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGACTC
1 AAAGATTCTCATTTGAAAA--TCTTAAAGATTCTCATTTAAAACTC
* *
22309608 AAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGACTC
1 AAAGATTCTCATTTGAAAA--TCTTAAAGATTCTCATTTAAAACTC
*
22309654 AAAGATTCTCATTTG-AAA-CTTAAAGATTCTCATTTGAAAATGTCC
1 AAAGATTCTCATTTGAAAATCTTAAAGATTCTCATTT-AAAA-CT-C
* * * * *
22309699 TAAAGATTCTTATTT-AATA-CTCAAAGATTCTCATTTAAAGATGTTTT
1 -AAAGATTCTCATTTGAAAATCTTAAAGATTCTCATTTAAA-A---CTC
* * * *
22309746 AAAGATTCTTATTT-AAGAT-TTAAATATTCTCATTTGAAACTC
1 AAAGATTCTCATTTGAAAATCTTAAAGATTCTCATTTAAAACTC
*
22309788 AAAGATTCTCATTTGAAGATTTCTTAAAGATTCTCATTTTAAAA
1 AAAGATTCTCATTTGAA-A-ATCTTAAAGATTCTCA-TTTAAAA
22309832 AATCAGGATT
Statistics
Matches: 349, Mismatches: 37, Indels: 35
0.83 0.09 0.08
Matches are distributed among these distances:
42 63 0.18
43 8 0.02
44 1 0.00
45 12 0.03
46 257 0.74
47 6 0.02
48 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.40
Consensus pattern (44 bp):
AAAGATTCTCATTTGAAAATCTTAAAGATTCTCATTTAAAACTC
Found at i:22309850 original size:113 final size:112
Alignment explanation
Indices: 22309382--22309831 Score: 461
Period size: 113 Copynumber: 4.0 Consensus size: 112
22309372 AAAATGTCTT
*
22309382 AAAGATTCTCATTTGAAAATGTCGTAAAGATTTTCATTTGAA-ACTTAAAGATTCTCATTTGAAA
1 AAAGATTCTCATTT-AAAATGTCTTAAAGATTTTCATTT-AAGACTTAAAGATTCTCATTTG-AA
* * * * * * *
22309446 ATGTCTTAAATATTCTCATTT---AA-GACTAAAAAATTCTCATTTGAAACTT
63 A---CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAAACTC
* * * * * *
22309495 AAAGATTTTCATTTGAAA---CTCAAATATTCTCATTTGAAAATGTCTTAAAGATTCTCATTT-A
1 AAAGATTCTCATTTAAAATGTCTTAAAGATTTTCATTT---AA-GACTTAAAGATTCTCATTTGA
* *
22309556 AGACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGACTC
62 A-ACTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAAACTC
*
22309608 AAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGACTCAAAGATTCTCATTTGAAAC
1 AAAGATTCTCATTT-AAAATGTCTTAAAGATTTTCATTTAAGACTTAAAGATTCTCATTTGAAAC
* * * *
22309673 TTAAAGATTCTCATTTGAAAATGTCCTAAAGATTCTTATTTAATACTC
65 TCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAAACTC
* * *
22309721 AAAGATTCTCATTTAAAGATGTTTTAAAGATTCTT-ATTTAAGATTTAAATATTCTCATTTGAAA
1 AAAGATTCTCATTTAAA-ATGTCTTAAAGATT-TTCATTTAAGACTTAAAGATTCTCATTTGAAA
* *
22309785 CTCAAAGATTCTCATTTGAAGATTTCTTAAAGATTCTCATTTTAAAA
64 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCA-TTTAAAA
22309832 AATCAGGATT
Statistics
Matches: 281, Mismatches: 39, Indels: 33
0.80 0.11 0.09
Matches are distributed among these distances:
109 28 0.10
111 4 0.01
112 9 0.03
113 211 0.75
114 15 0.05
117 14 0.05
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.40
Consensus pattern (112 bp):
AAAGATTCTCATTTAAAATGTCTTAAAGATTTTCATTTAAGACTTAAAGATTCTCATTTGAAACT
CAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAAACTC
Found at i:22311001 original size:41 final size:41
Alignment explanation
Indices: 22310952--22311030 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 41
22310942 AATTTGAGTA
*
22310952 TTTCTTTTTCTTCTTTCATTTTT-TTTCTCTTT-TTCTTTTC
1 TTTCTTTTTCATCTTTC-TTTTTCTTTCTCTTTCTTCTTTTC
*
22310992 TTTCATTTTTCATCTTTCTTTTTCTTTTTCTTTCTTCTT
1 TTTC-TTTTTCATCTTTCTTTTTCTTTCTCTTTCTTCTT
22311031 CTATTTTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 9 0.26
41 20 0.59
42 5 0.15
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (41 bp):
TTTCTTTTTCATCTTTCTTTTTCTTTCTCTTTCTTCTTTTC
Found at i:22311002 original size:7 final size:6
Alignment explanation
Indices: 22310952--22311030 Score: 67
Period size: 6 Copynumber: 13.0 Consensus size: 6
22310942 AATTTGAGTA
*
22310952 TTTCTT TTTCTT CTTTCATT TTT-TT TCTCTT TTTC-T TTTC-- TTTCATT
1 TTTCTT TTTCTT -TTTC-TT TTTCTT TTTCTT TTTCTT TTTCTT TTTC-TT
*
22310999 TTTCATC TTTCTT TTTCTT TTTCTT TCTTCTT
1 TTTC-TT TTTCTT TTTCTT TTTCTT T-TTCTT
22311031 CTATTTTTTC
Statistics
Matches: 62, Mismatches: 4, Indels: 13
0.78 0.05 0.16
Matches are distributed among these distances:
4 4 0.06
5 9 0.15
6 25 0.40
7 22 0.35
8 2 0.03
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:22311030 original size:23 final size:22
Alignment explanation
Indices: 22310952--22311049 Score: 65
Period size: 25 Copynumber: 4.1 Consensus size: 22
22310942 AATTTGAGTA
*
22310952 TTTCTT-TTTCTTCTTTCATTTT
1 TTTCTTCTTTCTT-TTTCTTTTT
*
22310974 TTT-TCTCTTTTTCTTTTCTTTCATT
1 TTTCT-TCTTTCT-TTTTCTTT--TT
*
22310999 TTTCATCTTTCTTTTTCTTTTT
1 TTTCTTCTTTCTTTTTCTTTTT
*
22311021 CTTTCTTCTTCTATTTTTTCTCTTTT
1 -TTTCTTCTT-T-CTTTTTCT-TTTT
22311047 TTT
1 TTT
22311050 ATCCCCATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 17
0.72 0.07 0.20
Matches are distributed among these distances:
21 1 0.02
22 6 0.10
23 18 0.30
24 10 0.17
25 21 0.35
26 4 0.07
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTCTTCTTTCTTTTTCTTTTT
Found at i:22311045 original size:37 final size:35
Alignment explanation
Indices: 22310965--22311049 Score: 97
Period size: 35 Copynumber: 2.4 Consensus size: 35
22310955 CTTTTTCTTC
22310965 TTTCAT-TTTTTTTCTCTTTTTCTTTTCTTTCATT
1 TTTCATCTTTTTTTCTCTTTTTCTTTTCTTTCATT
22310999 TTTCATCTTTCTTTT-TCTTTTTC-TTTCTTCTTCTATTT
1 TTTCATCTTT-TTTTCTCTTTTTCTTTTC-T-TTC-A-TT
22311037 TTTC-TCTTTTTTT
1 TTTCATCTTTTTTT
22311050 ATCCCCATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
34 10 0.22
35 12 0.27
36 11 0.24
37 6 0.13
38 6 0.13
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (35 bp):
TTTCATCTTTTTTTCTCTTTTTCTTTTCTTTCATT
Found at i:22315364 original size:21 final size:21
Alignment explanation
Indices: 22315318--22315370 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
22315308 AAATACTCTT
*
22315318 AAAAATAAAAAAACGCATAAA
1 AAAAATAAAAAAACGCAAAAA
*
22315339 TAAAATAAAAAATAC-CAAAAA
1 AAAAATAAAAAA-ACGCAAAAA
*
22315360 AAAAATCAAAA
1 AAAAATAAAAA
22315371 TGGCTCGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.77, C:0.09, G:0.02, T:0.11
Consensus pattern (21 bp):
AAAAATAAAAAAACGCAAAAA
Found at i:22316912 original size:15 final size:16
Alignment explanation
Indices: 22316882--22316914 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22316872 ATTTAAGCTC
22316882 TTTAATAAAAATAAAA
1 TTTAATAAAAATAAAA
*
22316898 TTTATTAAAAA-AAAA
1 TTTAATAAAAATAAAA
22316913 TT
1 TT
22316915 AAAAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TTTAATAAAAATAAAA
Found at i:22318597 original size:21 final size:20
Alignment explanation
Indices: 22318555--22318597 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
22318545 AAAGTCTACT
* *
22318555 CCCTCTGATAATGCAAGTAC
1 CCCTCTGACAATGCAAGAAC
*
22318575 CCCTCTGACATTGACAAGAAC
1 CCCTCTGACAATG-CAAGAAC
22318596 CC
1 CC
22318598 TAAAAAACGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.30, C:0.35, G:0.14, T:0.21
Consensus pattern (20 bp):
CCCTCTGACAATGCAAGAAC
Found at i:22319146 original size:21 final size:22
Alignment explanation
Indices: 22319117--22319163 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
22319107 AGTACCATTT
* *
22319117 ATATTTCAAATTTA-GGTAAAA
1 ATATGTCAAATTTATAGTAAAA
22319138 ATATGTCAAATTTATAGTAAAA
1 ATATGTCAAATTTATAGTAAAA
22319160 ATAT
1 ATAT
22319164 TTATCTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (22 bp):
ATATGTCAAATTTATAGTAAAA
Found at i:22322509 original size:26 final size:26
Alignment explanation
Indices: 22322473--22322553 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
22322463 GGGCATTGAC
*
22322473 GTCCAGGTCTAATTAAATCAATTAGT
1 GTCCAGGTCTAATTAGATCAATTAGT
22322499 GTCCAGGTCTAATTAGATCAATTAGT
1 GTCCAGGTCTAATTAGATCAATTAGT
** * *
22322525 GTCCAGACCCAATTAGATCCATTAGT
1 GTCCAGGTCTAATTAGATCAATTAGT
22322551 GTC
1 GTC
22322554 TGAGCTCAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (26 bp):
GTCCAGGTCTAATTAGATCAATTAGT
Found at i:22322624 original size:3 final size:3
Alignment explanation
Indices: 22322618--22322733 Score: 114
Period size: 3 Copynumber: 38.7 Consensus size: 3
22322608 TATTAATGTC
* * *
22322618 ATT ATT ATT -TG ATT ATT ATT ATT ATT ATT ATT TTT ATT ATT ATT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* **
22322665 CTT -TCT -TT GGT ATT -TCT ATGT ATAT ATT ATT ATT ATT ATT ATT ATT
1 ATT AT-T ATT ATT ATT AT-T AT-T AT-T ATT ATT ATT ATT ATT ATT ATT
22322711 ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
22322734 GTCCGTTTCT
Statistics
Matches: 97, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
2 4 0.04
3 86 0.89
4 7 0.07
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:22323556 original size:5 final size:5
Alignment explanation
Indices: 22323546--22323575 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
22323536 GATCGTAGGT
22323546 TTTTA TTTTA TTTTA TTTTA TTTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTT
22323576 CACCCATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:22327358 original size:18 final size:17
Alignment explanation
Indices: 22327337--22327372 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
22327327 ACGGTAAATA
22327337 TTTTCTTTTCTTTTCTCT
1 TTTTCTTTTCTTTT-TCT
*
22327355 TTTTTTTTTCTTTTTCT
1 TTTTCTTTTCTTTTTCT
22327372 T
1 T
22327373 GCATTTGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTCTTTTCTTTTTCT
Found at i:22335325 original size:25 final size:25
Alignment explanation
Indices: 22335275--22335325 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
22335265 ATCTCGGTTA
* * *
22335275 TTTATTTTTGACCTCGACTTGGTCT
1 TTTATTTTCGACCTCGACTCGATCT
*
22335300 TTTATTTTCGACCTTGACTCGATCT
1 TTTATTTTCGACCTCGACTCGATCT
22335325 T
1 T
22335326 GGTCGCTACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.14, C:0.22, G:0.14, T:0.51
Consensus pattern (25 bp):
TTTATTTTCGACCTCGACTCGATCT
Found at i:22335527 original size:56 final size:56
Alignment explanation
Indices: 22335466--22335649 Score: 165
Period size: 56 Copynumber: 3.2 Consensus size: 56
22335456 TTTTGACTCG
** *
22335466 TGGTTTCATCTTGGTCACTTGATCTTGGCACAGTCTAGATCATTTCTTATGATTCA
1 TGGTTTCATCCCGGTCACTTGATCTTGGCTCAGTCTAGATCATTTCTTATGATTCA
* * * * * * * * *
22335522 TGGTTTCATCCCGATCATTTAGTTTTTACCTTGACTCGGTCCT-GGTCACTTTATTTTGATT-G
1 TGGTTTCATCCCGGTCACTT-G-----ATCTTGGCTCAGT-CTAGATCA-TTTCTTATGATTCA
*
22335584 TGGTTTCATCCCGGTCACTTGATCTTAGCTCAGTCTAGATCATTTCTTATGATTCA
1 TGGTTTCATCCCGGTCACTTGATCTTGGCTCAGTCTAGATCATTTCTTATGATTCA
22335640 TGGTTTCATC
1 TGGTTTCATC
22335650 TTGATCATTT
Statistics
Matches: 96, Mismatches: 22, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
55 12 0.12
56 39 0.41
57 1 0.01
61 1 0.01
62 31 0.32
63 12 0.12
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.44
Consensus pattern (56 bp):
TGGTTTCATCCCGGTCACTTGATCTTGGCTCAGTCTAGATCATTTCTTATGATTCA
Found at i:22335790 original size:238 final size:238
Alignment explanation
Indices: 22335337--22335921 Score: 721
Period size: 238 Copynumber: 2.5 Consensus size: 238
22335327 GTCGCTACAT
* * * * * *
22335337 TTTTTACTAGTGGTTTCGTCTCGGTCACCTGATCTTGGCTTAGTCTAGATCATTTCTTATGATTC
1 TTTTGACTCGTGGTTTCATCCCGGTCACTTGATCTTGGCTCAGTCTAGATCATTTCTTATGATTC
* * * * * * *
22335402 GTGATTTCATCCTAATCATTTATTTTTTACCTCGA-TTCAGTCTTGGTCGTTCATTTTTGACTCG
66 ATGGTTTCATCTTGATCATTTATTTTTAACCTCGACTTGA-TCCTGGTCGTTCATTTTTGACTCG
**
22335466 TGGTTTCATCTTGGTCACTTGATCTTGGCACAGTCTAGATCATTTCTTATGATTCATGGTTTCAT
130 TGGTTTCATCTCAGTCACTTGATCTTGGCACAGTCTAGATCATTTCTTATGATTCATGGTTTCAT
* * *
22335531 CCCGATCATTTAGTTTTTACCTTGACTCGGTCCTGGTCACTTTA
195 CCCGATCATTTAGTTTTTACCTCGACTCGATCCTAGTCACTTTA
* *
22335575 TTTTGA-TTGTGGTTTCATCCCGGTCACTTGATCTTAGCTCAGTCTAGATCATTTCTTATGATTC
1 TTTTGACTCGTGGTTTCATCCCGGTCACTTGATCTTGGCTCAGTCTAGATCATTTCTTATGATTC
* * *
22335639 ATGGTTTCATCTTGATCATTTATTTTCAACCTCGACTTGATCCTGGTAACTTTTA-TTTTGACTC
66 ATGGTTTCATCTTGATCATTTATTTTTAACCTCGACTTGATCCTGGT--CGTTCATTTTTGACTC
* * * *
22335703 GTGGTTTCATCTCAGTCACTTGATCTTTGCTCAGT-TCAGATCATTTCTTATGATTCGTGGTTTT
129 GTGGTTTCATCTCAGTCACTTGATCTTGGCACAGTCT-AGATCATTTCTTATGATTCATGGTTTC
* * **
22335767 ATCTCGATCATTTATTTTTTACCTCGACTCGATCCTAGTCGTTTTA
193 ATCCCGATCATTTAGTTTTTACCTCGACTCGATCCTAGTCACTTTA
** * * * * * *
22335813 TTTTGACTCGTAATTTCATCCCGGTCATTTGATCTTGGTTCAGCCCAGATCATTTCTTATAATTT
1 TTTTGACTCGTGGTTTCATCCCGGTCACTTGATCTTGGCTCAGTCTAGATCATTTCTTATGATTC
* *
22335878 ATGGTTTCAT-TTCGATCATTTATTTTTAACCTCAACTCGATCCT
66 ATGGTTTCATCTT-GATCATTTATTTTTAACCTCGACTTGATCCT
22335922 AATCACTTCA
Statistics
Matches: 298, Mismatches: 43, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
237 88 0.30
238 120 0.40
239 90 0.30
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.46
Consensus pattern (238 bp):
TTTTGACTCGTGGTTTCATCCCGGTCACTTGATCTTGGCTCAGTCTAGATCATTTCTTATGATTC
ATGGTTTCATCTTGATCATTTATTTTTAACCTCGACTTGATCCTGGTCGTTCATTTTTGACTCGT
GGTTTCATCTCAGTCACTTGATCTTGGCACAGTCTAGATCATTTCTTATGATTCATGGTTTCATC
CCGATCATTTAGTTTTTACCTCGACTCGATCCTAGTCACTTTA
Found at i:22335942 original size:119 final size:119
Alignment explanation
Indices: 22335337--22335947 Score: 649
Period size: 119 Copynumber: 5.1 Consensus size: 119
22335327 GTCGCTACAT
* * * * * * *
22335337 TTTTTACTAGTGGTTTCGTCTCGGTCACCTGATCTTGGCTTAGTCTAGATCATTTCTTATGATTC
1 TTTTGACTCGTGGTTTCATCCCGGTCACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGATTC
* * * * * * * * *
22335402 GTGATTTCATC-CTAATCATTTATTTTTTACCTCGATTC-AGTCTTGGTC-GTTCA
66 ATGGTTTCATCTC-GATCATTTATTTTTAACCTCGACTCGA-TCCTAGTCACTTTA
** * *
22335455 TTTTTGACTCGTGGTTTCATCTTGGTCACTTGATCTTGGCACAGTCTAGATCATTTCTTATGATT
1 -TTTTGACTCGTGGTTTCATCCCGGTCACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGATT
* * * *
22335520 CATGGTTTCATCCCGATCATTTAGTTTTT-ACCTTGACTCGGTCCTGGTCACTTTA
65 CATGGTTTCATCTCGATCATTTA-TTTTTAACCTCGACTCGATCCTAGTCACTTTA
* * *
22335575 TTTTGA-TTGTGGTTTCATCCCGGTCACTTGATCTTAGCTCAGTCTAGATCATTTCTTATGATTC
1 TTTTGACTCGTGGTTTCATCCCGGTCACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGATTC
* * * * *
22335639 ATGGTTTCATCTTGATCATTTATTTTCAACCTCGACTTGATCCTGGTAACTTTTA
66 ATGGTTTCATCTCGATCATTTATTTTTAACCTCGACTCGATCCTAGTCAC-TTTA
* * * *
22335694 TTTTGACTCGTGGTTTCATCTCAGTCACTTGATCTTTGCTCAGTTCAGATCATTTCTTATGATTC
1 TTTTGACTCGTGGTTTCATCCCGGTCACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGATTC
* * * **
22335759 GTGGTTTTATCTCGATCATTTATTTTTTACCTCGACTCGATCCTAGTCGTTTTA
66 ATGGTTTCATCTCGATCATTTATTTTTAACCTCGACTCGATCCTAGTCACTTTA
** * * * * *
22335813 TTTTGACTCGTAATTTCATCCCGGTCATTTGATCTTGGTTCAGCCCAGATCATTTCTTATAATTT
1 TTTTGACTCGTGGTTTCATCCCGGTCACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGATTC
* * * *
22335878 ATGGTTTCATTTCGATCATTTATTTTTAACCTCAACTCGATCCTAATCACTTCA
66 ATGGTTTCATCTCGATCATTTATTTTTAACCTCGACTCGATCCTAGTCACTTTA
*
22335932 TCTT-AGCTCGTGGTTT
1 TTTTGA-CTCGTGGTTT
22335948 AGTCCTGATC
Statistics
Matches: 417, Mismatches: 67, Indels: 16
0.83 0.13 0.03
Matches are distributed among these distances:
117 4 0.01
118 92 0.22
119 220 0.53
120 101 0.24
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.45
Consensus pattern (119 bp):
TTTTGACTCGTGGTTTCATCCCGGTCACTTGATCTTGGCTCAGTCCAGATCATTTCTTATGATTC
ATGGTTTCATCTCGATCATTTATTTTTAACCTCGACTCGATCCTAGTCACTTTA
Found at i:22336140 original size:26 final size:26
Alignment explanation
Indices: 22336111--22336192 Score: 83
Period size: 26 Copynumber: 3.2 Consensus size: 26
22336101 GTTCGAACCC
*
22336111 AATTAGACCCATTGGTGTCTGAGCCT
1 AATTAGACCCATTGATGTCTGAGCCT
* * * * *
22336137 AATTAGGCCTATTGATGTCCGGGCCC
1 AATTAGACCCATTGATGTCTGAGCCT
* **
22336163 AATTAAACCCATTTTTGTCTGAGCCT
1 AATTAGACCCATTGATGTCTGAGCCT
22336189 AATT
1 AATT
22336193 GGGTCGACCT
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (26 bp):
AATTAGACCCATTGATGTCTGAGCCT
Found at i:22337140 original size:18 final size:18
Alignment explanation
Indices: 22337117--22337151 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22337107 TAGGTTTTCT
22337117 TTTTTTCATTTCATTTTA
1 TTTTTTCATTTCATTTTA
* *
22337135 TTTTTTGATTTTATTTT
1 TTTTTTCATTTCATTTT
22337152 TTTAACCCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTTTTCATTTCATTTTA
Done.